Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 70 of 117
Found at i:12886807 original size:24 final size:22
Alignment explanation
Indices: 12886780--12886846 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 22
12886770 TTTGAATATC
12886780 CTTTTTTTTTCTCATTTTTTCATT
1 CTTTTTTTTTCTCATTTTTT--TT
12886804 CTTTTTTTTTTTCATCATTTTTTTT
1 C--TTTTTTTTTC-TCATTTTTTTT
*
12886829 -TTCTTTTTTCTCATTTTT
1 CTTTTTTTTTCTCATTTTT
12886847 CATCCATTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 8 0.21
22 9 0.23
24 1 0.03
25 2 0.05
26 10 0.26
27 9 0.23
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (22 bp):
CTTTTTTTTTCTCATTTTTTTT
Found at i:12886815 original size:16 final size:15
Alignment explanation
Indices: 12886794--12886831 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
12886784 TTTTTTCTCA
*
12886794 TTTTTTCATTCTTTTT
1 TTTTTTCA-TCATTTT
12886810 TTTTTTCATCATTTT
1 TTTTTTCATCATTTT
12886825 TTTTTTC
1 TTTTTTC
12886832 TTTTTTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTCATCATTTT
Found at i:12886821 original size:27 final size:26
Alignment explanation
Indices: 12886781--12886837 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
12886771 TTGAATATCC
12886781 TTTTTTTTTCTCATTTTTTCATTCTT
1 TTTTTTTTTCTCATTTTTTCATTCTT
**
12886807 TTTTTTTTTCATCATTTTTTTTTTCTT
1 TTTTTTTTTC-TCATTTTTTCATTCTT
12886834 TTTT
1 TTTT
12886838 CTCATTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTTTTTCTCATTTTTTCATTCTT
Found at i:12886827 original size:14 final size:13
Alignment explanation
Indices: 12886781--12886837 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
12886771 TTGAATATCC
12886781 TTTTTTTTTCTCA
1 TTTTTTTTTCTCA
* *
12886794 TTTTTTCATTCT-T
1 TTTTTT-TTTCTCA
12886807 TTTTTTTTTCATCA
1 TTTTTTTTTC-TCA
12886821 TTTTTTTTT-TC-
1 TTTTTTTTTCTCA
12886832 TTTTTT
1 TTTTTT
12886838 CTCATTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 6 0.16
12 5 0.14
13 13 0.35
14 13 0.35
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTCTCA
Found at i:12886829 original size:21 final size:21
Alignment explanation
Indices: 12886805--12886846 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12886795 TTTTTCATTC
12886805 TTTTT-TTTTTTCATCATTTTT
1 TTTTTCTTTTTTC-TCATTTTT
12886826 TTTTTCTTTTTTCTCATTTTT
1 TTTTTCTTTTTTCTCATTTTT
12886847 CATCCATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTCTTTTTTCTCATTTTT
Found at i:12890868 original size:59 final size:58
Alignment explanation
Indices: 12890740--12890888 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
12890730 TTTTGTGCAG
* * * *
12890740 GGAAAATCGATTCTTTCAACTTTTCC-CAAAAATATTCTTTTAAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTTAAAACTTGAATTTCAA
* *
12890797 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGGAAACCTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTT--AAAACTTGAATTTCAA
12890856 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA
12890889 CCCTTTTTTG
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
57 28 0.34
58 10 0.12
59 45 0.54
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.39
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTTAAAACTTGAATTTCAA
Found at i:12890946 original size:134 final size:135
Alignment explanation
Indices: 12890796--12891047 Score: 443
Period size: 134 Copynumber: 1.9 Consensus size: 135
12890786 TTTAATTTCG
* *
12890796 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACCTTGATTTTCAAGGAAA
*
12890861 ATTGATACTTTCAACTTTTCCTCAAAAACC-CTTTTTTGAAAATTTGTTTTTACCTTAAATTGAT
66 ATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTACCTTAAATTGAT
12890925 ACTTA
131 ACTTA
*
12890930 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACCTTGATTTTCAAGGAAA
* *
12890995 ATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTTTGAAAATTTATTTTTA
66 ATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTA
12891048 AGGAAAATTG
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
134 91 0.82
135 20 0.18
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (135 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACCTTGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTACCTTAAATTGAT
ACTTA
Found at i:12891088 original size:59 final size:60
Alignment explanation
Indices: 12890927--12891091 Score: 235
Period size: 59 Copynumber: 2.8 Consensus size: 60
12890917 AAATTGATAC
* * *
12890927 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTCTTTGGAAACTTTGATTT
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTT
* * * **
12890986 TCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTTTGAAAATTT-ATTT
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTT
*
12891045 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAATTATTTTTTTT
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
12891092 TGTTTTTATT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 79 0.87
60 12 0.13
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (60 bp):
TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTT
Found at i:12891142 original size:25 final size:22
Alignment explanation
Indices: 12891108--12891272 Score: 90
Period size: 22 Copynumber: 7.3 Consensus size: 22
12891098 TATTTAAAGC
*
12891108 AAATAGAATAATAAAACAAAATA
1 AAATAAAATAATAAAA-AAAATA
12891131 AAAGTGAAAATAAATAAAAAAAATA
1 AAA-T-AAAAT-AATAAAAAAAATA
* *
12891156 AAATAAAATAA-AATAAAGA-A
1 AAATAAAATAATAAAAAAAATA
* *
12891176 AAGTAAAACAA-AAATAAAAATA
1 AAATAAAATAATAAA-AAAAATA
* * *
12891198 AAATAAAGATAA-AAAGAATATT
1 AAATAAA-ATAATAAAAAAAATA
* ** *
12891220 AAATAAACCTAATCTAATAAATA
1 AAATAAA-ATAATAAAAAAAATA
12891243 AAAT-AAATAAATAAAAAGCAAAT-
1 AAATAAAAT-AATAAAAA--AAATA
12891266 AAATAAA
1 AAATAAA
12891273 TAAATTCAAA
Statistics
Matches: 107, Mismatches: 24, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
20 12 0.11
21 11 0.10
22 30 0.28
23 26 0.24
24 8 0.07
25 13 0.12
26 7 0.07
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (22 bp):
AAATAAAATAATAAAAAAAATA
Found at i:12891160 original size:5 final size:5
Alignment explanation
Indices: 12891117--12891211 Score: 88
Period size: 5 Copynumber: 18.4 Consensus size: 5
12891107 CAAATAGAAT
*
12891117 AATAA AACAA AATAA AAGTGAA AAT-A AATAA AA-AA AATAA AATAA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA AATAA
* *
12891167 AATAA AGA-AA AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA A-ATAA AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
12891212 AGAATATTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
4 8 0.11
5 46 0.61
6 17 0.23
7 4 0.05
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:12891163 original size:11 final size:11
Alignment explanation
Indices: 12891125--12891211 Score: 72
Period size: 11 Copynumber: 7.8 Consensus size: 11
12891115 ATAATAAAAC
*
12891125 AAAATAAAAGTG
1 AAAATAAAA-TA
*
12891137 AAAATAAATAAAA
1 AAAAT-AA-AATA
12891150 AAAATAAAAT-
1 AAAATAAAATA
12891160 AAAATAAAATA
1 AAAATAAAATA
* *
12891171 AAGA-AAAGTA
1 AAAATAAAATA
12891181 AAACA-AAAATA
1 AAA-ATAAAATA
12891192 AAAATAAAATA
1 AAAATAAAATA
*
12891203 AAGATAAAA
1 AAAATAAAA
12891212 AGAATATTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
10 18 0.29
11 28 0.45
12 7 0.11
13 7 0.11
14 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:12891189 original size:6 final size:6
Alignment explanation
Indices: 12891125--12891212 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
12891115 ATAATAAAAC
* * *
12891125 AAAATA AAAGTG AAAATA AATAAAA AAAAT- AAAAT- AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA
* * *
12891171 AAGAAAA GTAAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AA-AATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
12891213 GAATATTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 20 0.31
6 32 0.49
7 8 0.12
8 3 0.05
9 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:12891242 original size:4 final size:4
Alignment explanation
Indices: 12891235--12891277 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
12891225 AACCTAATCT
**
12891235 AATA AATAA AATA AATA AATA AA-A AGCA AATA AATA AATA AAT
1 AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AATA AAT
12891278 TCAAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.82
5 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:12892217 original size:24 final size:23
Alignment explanation
Indices: 12892154--12892273 Score: 85
Period size: 24 Copynumber: 5.3 Consensus size: 23
12892144 AAAATTTAAT
*
12892154 AGATAATTAGAAAAATAATA-ATA
1 AGATAAATA-AAAAATAATATATA
* *
12892177 AGATAAAATCAACAATAATATTATA
1 AGAT-AAATAAAAAATAATA-TATA
12892202 AGATAAATAAAAAATAATA-ATAA
1 AGATAAATAAAAAATAATATAT-A
* *
12892225 CAGATAAAT-AAATAT-ATA-ATT
1 -AGATAAATAAAAAATAATATATA
12892246 AGATAAAT-AAAAATACATATA-A
1 AGATAAATAAAAAATA-ATATATA
12892268 A-ATAAA
1 AGATAAA
12892274 ATGAAAAAGA
Statistics
Matches: 80, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
20 13 0.16
21 5 0.06
22 11 0.14
23 20 0.25
24 24 0.30
25 7 0.09
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (23 bp):
AGATAAATAAAAAATAATATATA
Found at i:12892250 original size:44 final size:44
Alignment explanation
Indices: 12892127--12892258 Score: 121
Period size: 44 Copynumber: 3.0 Consensus size: 44
12892117 AGCCTTCCAA
* * *
12892127 AATAAAAATCAGATAAA-AAA-ATTTAA-TAGATAATTAGAAAAAT
1 AATAATAA-CAGATAAATAAATATATAATTAGATAAATA-AAAAAT
* *
12892170 AATAAT-A-AGATAAAATCAACAATAATATTATAAGATAAATAAAAAAT
1 AATAATAACAGAT-AAAT--A-AAT-ATATAATTAGATAAATAAAAAAT
12892217 AATAATAACAGATAAATAAATATATAATTAGATAAATAAAAA
1 AATAATAACAGATAAATAAATATATAATTAGATAAATAAAAA
12892259 TACATATAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 19
0.73 0.07 0.19
Matches are distributed among these distances:
40 4 0.06
41 3 0.04
42 1 0.01
43 5 0.07
44 20 0.28
45 5 0.07
46 1 0.01
47 16 0.22
48 13 0.18
49 4 0.06
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (44 bp):
AATAATAACAGATAAATAAATATATAATTAGATAAATAAAAAAT
Found at i:12892392 original size:25 final size:25
Alignment explanation
Indices: 12892341--12892408 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 25
12892331 ATAAACAAAT
* ** *
12892341 AATAAATACATAGGATATAAAGGAA
1 AATATATACATAAAATATAAAAGAA
*
12892366 AATATATACATAAAATATAAAATAA
1 AATATATACATAAAATATAAAAGAA
* *
12892391 AA-ATA-AAATAAAAAATAA
1 AATATATACATAAAATATAA
12892409 CAAAAATGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 11 0.31
24 3 0.08
25 22 0.61
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (25 bp):
AATATATACATAAAATATAAAAGAA
Found at i:12892396 original size:11 final size:11
Alignment explanation
Indices: 12892375--12892404 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
12892365 AAATATATAC
12892375 ATAAAATATAAA
1 ATAAAA-ATAAA
12892387 ATAAAAATAAA
1 ATAAAAATAAA
12892398 ATAAAAA
1 ATAAAAA
12892405 ATAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:12901716 original size:9 final size:10
Alignment explanation
Indices: 12901693--12901718 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12901683 TTCTTAGAAA
12901693 AAAAATCTCC
1 AAAAATCTCC
12901703 AAAAATCTCC
1 AAAAATCTCC
12901713 AAAAAT
1 AAAAAT
12901719 TTTTTGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:12902047 original size:23 final size:23
Alignment explanation
Indices: 12902006--12902125 Score: 99
Period size: 23 Copynumber: 5.3 Consensus size: 23
12901996 TAAAAATCAG
*
12902006 ATAAAAAAA-ATTAAT-AGATAA
1 ATAAAAAAATAATAATAAGATAA
* *
12902027 TTAGAAAAATAATAATAAGATAA
1 ATAAAAAAATAATAATAAGATAA
* *
12902050 ATCAAAATAAT-ATTATAAGATAA
1 AT-AAAAAAATAATAATAAGATAA
12902073 ATAAAAAAAATAATAATAACAGATAA
1 AT-AAAAAAATAATAAT-A-AGATAA
* *
12902099 AT--AAATAT-ATAATTAGATAA
1 ATAAAAAAATAATAATAAGATAA
12902119 ATAAAAA
1 ATAAAAA
12902126 TACATATAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
20 8 0.10
21 7 0.09
22 13 0.16
23 32 0.41
24 10 0.13
25 1 0.01
26 8 0.10
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (23 bp):
ATAAAAAAATAATAATAAGATAA
Found at i:12902085 original size:18 final size:21
Alignment explanation
Indices: 12902032--12902139 Score: 80
Period size: 21 Copynumber: 4.9 Consensus size: 21
12902022 GATAATTAGA
12902032 AAAATAATAATAAGATAAATC
1 AAAATAATAATAAGATAAATC
*
12902053 AAAATAATATTATAAGATAAATAAAA
1 AAAATAATA--ATAAGATAAAT---C
12902079 AAAATAATAATAACAGATAAAT-
1 AAAATAATAAT-A-AGATAAATC
* *
12902101 -AAATATATAATTAGATAAATA
1 AAAATA-ATAATAAGATAAATC
12902122 AAAATACAT-ATAA-ATAAA
1 AAAATA-ATAATAAGATAAA
12902140 ATGAAAAAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 21
0.74 0.04 0.21
Matches are distributed among these distances:
20 13 0.18
21 17 0.23
22 12 0.16
23 11 0.15
24 2 0.03
25 1 0.01
26 17 0.23
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (21 bp):
AAAATAATAATAAGATAAATC
Found at i:12902117 original size:46 final size:46
Alignment explanation
Indices: 12901994--12902125 Score: 132
Period size: 46 Copynumber: 2.9 Consensus size: 46
12901984 AGCCTTCCAA
* * * *
12901994 AATAAAAATCAGATAAA-AAAAAT-TAA-TAGAT-AATTAGAAAAAT
1 AATAATAA-CAGATAAATAAATATATAATTAGATAAATAAAAAAAAT
* *
12902037 AATAAT-A-AGATAAATCAAAATAATATTATAAGATAAATAAAAAAAAT
1 AATAATAACAGATAAAT--AAAT-ATATAATTAGATAAATAAAAAAAAT
12902084 AATAATAACAGATAAATAAATATATAATTAGATAAATAAAAA
1 AATAATAACAGATAAATAAATATATAATTAGATAAATAAAAA
12902126 TACATATAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
40 7 0.10
42 1 0.01
43 8 0.11
44 2 0.03
45 2 0.03
46 23 0.32
47 20 0.28
48 1 0.01
49 8 0.11
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (46 bp):
AATAATAACAGATAAATAAATATATAATTAGATAAATAAAAAAAAT
Found at i:12902126 original size:26 final size:26
Alignment explanation
Indices: 12902033--12902190 Score: 99
Period size: 23 Copynumber: 6.4 Consensus size: 26
12902023 ATAATTAGAA
*
12902033 AAATA-ATAATAAGATAAATCAAAAT
1 AAATATATAATAAGATAAATAAAAAT
12902058 -AATAT-T-ATAAGATAAATAAAAA-
1 AAATATATAATAAGATAAATAAAAAT
* *
12902080 AAATA-ATAAT-A-ACAGAT--AAAT
1 AAATATATAATAAGATAAATAAAAAT
*
12902101 AAATATATAATTAGATAAATAAAAAT
1 AAATATATAATAAGATAAATAAAAAT
* * * *
12902127 ACATATA-AATAAAATGAAAAAGAAAAA
1 AAATATATAATAAGAT-AAATA-AAAAT
*
12902154 AAATATATTAATAA-ATATAATAATAAAC
1 AAATATA-TAATAAGATA-AATAA-AAAT
12902182 AAATA-ATAA
1 AAATATATAA
12902191 ATACACAGGA
Statistics
Matches: 104, Mismatches: 13, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
20 3 0.03
21 5 0.05
22 9 0.09
23 22 0.21
24 11 0.11
25 6 0.06
26 17 0.16
27 13 0.12
28 13 0.12
29 5 0.05
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATATATAATAAGATAAATAAAAAT
Found at i:12902138 original size:20 final size:19
Alignment explanation
Indices: 12902064--12902139 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 19
12902054 AAATAATATT
*
12902064 ATAAGATAAATAAA-AAAA
1 ATAATATAAATAAATAAAA
12902082 ATAATAATAACAGATAAATAAATA
1 ATAAT-AT-A-A-ATAAATAAA-A
*
12902106 TATAAT-TAGATAAATAAAA
1 -ATAATATAAATAAATAAAA
12902125 ATACATATAAATAAA
1 ATA-ATATAAATAAA
12902140 ATGAAAAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
18 7 0.15
19 5 0.11
20 17 0.37
21 1 0.02
22 6 0.13
23 4 0.09
24 1 0.02
25 5 0.11
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (19 bp):
ATAATATAAATAAATAAAA
Found at i:12902169 original size:12 final size:12
Alignment explanation
Indices: 12902154--12902193 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
12902144 AAAAGAAAAA
*
12902154 AAATATATTAAT
1 AAATATAATAAT
12902166 AAATATAATAAT
1 AAATATAATAAT
*
12902178 AAACA-AATAAT
1 AAATATAATAAT
12902189 AAATA
1 AAATA
12902194 CACAGGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATATAATAAT
Found at i:12902530 original size:41 final size:41
Alignment explanation
Indices: 12902437--12902724 Score: 428
Period size: 41 Copynumber: 7.1 Consensus size: 41
12902427 TTTAACCAAA
* * * * *
12902437 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAATATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
* * * *
12902480 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
12902521 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
12902562 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
12902603 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
12902643 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
12902684 GCTCCTCTAAAC-----CA-CACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
12902719 GCTCCT
1 GCTCCT
12902725 TGACAATCAT
Statistics
Matches: 238, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
35 27 0.11
36 2 0.01
40 40 0.17
41 136 0.57
42 3 0.01
43 30 0.13
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:12903969 original size:14 final size:14
Alignment explanation
Indices: 12903950--12904010 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 14
12903940 TTGAATATCC
12903950 TTTTTTTTTTCTCA
1 TTTTTTTTTTCTCA
**
12903964 -TTTTTTCAT-TC-
1 TTTTTTTTTTCTCA
12903975 TTTTTTTTTTCATCA
1 TTTTTTTTTTC-TCA
12903990 TCTTTTTTTTTTCTCA
1 --TTTTTTTTTTCTCA
12904006 TTTTT
1 TTTTT
12904011 CATCCATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
12 9 0.24
13 7 0.19
14 7 0.19
16 3 0.08
17 11 0.30
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTTCTCA
Found at i:12904006 original size:16 final size:16
Alignment explanation
Indices: 12903964--12904010 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
12903954 TTTTTTCTCA
12903964 TTTTT-TCATTCTTTTT
1 TTTTTCTCA-TCTTTTT
12903980 TTTTTCATCATCTTTTT
1 TTTTTC-TCATCTTTTT
12903997 TTTTTCTCAT-TTTT
1 TTTTTCTCATCTTTT
12904011 CATCCATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.14
16 9 0.31
17 13 0.45
18 3 0.10
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCTCATCTTTTT
Found at i:12908051 original size:59 final size:58
Alignment explanation
Indices: 12907896--12908057 Score: 211
Period size: 59 Copynumber: 2.8 Consensus size: 58
12907886 TTTTGTGCAG
* * * *
12907896 GGAAAATCGATTCTTTCAACTTTTCC-CAAAAATATTCTTTT-AAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGAAAACTTGAATTTCAA
* *
12907953 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACCTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAACTTGAATTTCAA
***
12908012 GGAAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAA
12908058 TTTGTTTTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
57 28 0.30
58 14 0.15
59 50 0.54
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTGAATTTCAA
Found at i:12908099 original size:133 final size:135
Alignment explanation
Indices: 12907952--12908202 Score: 434
Period size: 133 Copynumber: 1.9 Consensus size: 135
12907942 TTTAATTTCG
* *
12907952 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACCTTGATTTTCAAGGAAA
*
12908017 ATTGATACTTTCAACTTTTCCTC-AAAACC-CTTTTTTGAAAATTTGTTTTTACCTTAAATTGAT
66 ATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTACCTTAAATTGAT
12908080 ACTTA
131 ACTTA
*
12908085 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACCTTGATTTTCAAGGAAA
* *
12908150 ATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTTTGAAAATTTATTTTTA
66 ATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTA
12908203 AGAAAAATTG
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
133 84 0.76
134 6 0.05
135 20 0.18
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (135 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACCTTGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTACCTTAAATTGAT
ACTTA
Found at i:12908243 original size:59 final size:60
Alignment explanation
Indices: 12908082--12908246 Score: 235
Period size: 59 Copynumber: 2.8 Consensus size: 60
12908072 AAATTGATAC
* * *
12908082 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTCTTTGGAAACTTTGATTT
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTT
* * * **
12908141 TCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTTTGAAAATTT-ATTT
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTT
*
12908200 TTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
12908247 TGTTTTTATT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 79 0.87
60 12 0.13
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.44
Consensus pattern (60 bp):
TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTT
Found at i:12908308 original size:6 final size:6
Alignment explanation
Indices: 12908280--12908367 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
12908270 ATAATAAAAC
* * *
12908280 AAAATA AAAGTG AAAAT- -AAATA AAAATA AAAAAA TAAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA
* * *
12908326 AAGAAAA GTAAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AA-AATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
12908368 GAATATTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
4 4 0.06
5 10 0.16
6 38 0.59
7 7 0.11
8 3 0.05
9 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:12908314 original size:8 final size:8
Alignment explanation
Indices: 12908301--12908432 Score: 52
Period size: 8 Copynumber: 15.1 Consensus size: 8
12908291 GAAAATAAAT
12908301 AAAAATAA
1 AAAAATAA
12908309 AAAAATAAA
1 AAAAAT-AA
12908318 ATAAAATAA
1 A-AAAATAA
12908327 AGAAAAGTAA
1 A-AAAA-TAA
12908337 AACAAA-AA
1 AA-AAATAA
12908345 TAAAAATAAA
1 -AAAAAT-AA
12908355 ATAAAGATAA
1 A-AAA-ATAA
12908365 AAAGAAT-A
1 AAA-AATAA
**
12908373 TTAAATAA
1 AAAAATAA
** *
12908381 ACCTAATCTA
1 A-AAAAT-AA
*
12908391 ATAAATAAA
1 AAAAAT-AA
12908400 AAAAATAA
1 AAAAATAA
*
12908408 ATAAATAA
1 AAAAATAA
*
12908416 ACAAATAA
1 AAAAATAA
*
12908424 ATAAATAA
1 AAAAATAA
12908432 A
1 A
12908433 TTGAAAAAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
7 3 0.03
8 38 0.40
9 30 0.31
10 23 0.24
11 2 0.02
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (8 bp):
AAAAATAA
Found at i:12908318 original size:5 final size:5
Alignment explanation
Indices: 12908272--12908366 Score: 72
Period size: 5 Copynumber: 18.4 Consensus size: 5
12908262 CAAATAGAAT
*
12908272 AATAA AACAA AATAA AAGTGAA AAT-A AATAA AA-ATA AA-AA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATA-A AATAA AATAA
* *
12908317 AATAA AATAA AGA-AA AGTAA AACAAA AATAAA AATAA AATAA AGATAA
1 AATAA AATAA A-ATAA AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA
12908365 AA
1 AA
12908367 AGAATATTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
4 8 0.11
5 45 0.61
6 17 0.23
7 4 0.05
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:12908360 original size:32 final size:31
Alignment explanation
Indices: 12908267--12908361 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 31
12908257 TAAAGCAAAT
*
12908267 AGAATAATAAAAC-AAAATAAAAGTGAAAATAA
1 AGAA-AATAAAACAAAAATAAAAAT-AAAATAA
* *
12908299 ATAAAA-ATAA-AAAAAT-AAAATAAAATAA
1 AGAAAATAAAACAAAAATAAAAATAAAATAA
12908327 AGAAAAGTAAAACAAAAATAAAAATAAAATAA
1 AGAAAA-TAAAACAAAAATAAAAATAAAATAA
12908359 AGA
1 AGA
12908362 TAAAAAGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
28 12 0.23
29 4 0.08
30 11 0.21
31 8 0.15
32 18 0.34
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (31 bp):
AGAAAATAAAACAAAAATAAAAATAAAATAA
Found at i:12908397 original size:4 final size:4
Alignment explanation
Indices: 12908390--12908433 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
12908380 AACCTAATCT
* *
12908390 AATA AATAA AAAA AATA AATA AATA AACA AATA AATA AATA AAT
1 AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AATA AAT
12908434 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 32 0.91
5 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:12908423 original size:16 final size:16
Alignment explanation
Indices: 12908292--12908432 Score: 79
Period size: 18 Copynumber: 8.0 Consensus size: 16
12908282 AATAAAAGTG
12908292 AAAATAAATAAAAATAAA
1 AAAATAAAT--AAATAAA
12908310 AAAATAAAATAAAATAAA
1 AAAAT-AAAT-AAATAAA
*
12908328 GAAAAGTAAA-ACAAAAATA
1 -AAAA-TAAATA-AATAA-A
12908347 AAAATAAAATAAAGATAAA
1 AAAAT-AAAT-AA-ATAAA
*
12908366 AAGAAT-ATTAAATAAA
1 AA-AATAAATAAATAAA
** *
12908382 CCTAATCTAATAAATAAAA
1 -AAAAT-AAATAAAT-AAA
12908401 AAAATAAATAAATAAA
1 AAAATAAATAAATAAA
*
12908417 CAAATAAATAAATAAA
1 AAAATAAATAAATAAA
12908433 TTGAAAAAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
16 26 0.26
17 11 0.11
18 35 0.35
19 19 0.19
20 8 0.08
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAAATAAATAAA
Found at i:12909402 original size:44 final size:46
Alignment explanation
Indices: 12909305--12909427 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 46
12909295 AAAAATTTAA
* *
12909305 TAGATAATTAGAAAAATAATAATAAGATAAAATCAACAATAATATTAT
1 TAGATAAATA-AAAAATAATAATAAGATAAAAT-AACAATAATATAAT
*
12909353 AAGATAAATAAAAAATAATAATAACAGAT-AAAT-A-AAT-ATATAAT
1 TAGATAAATAAAAAATAATAAT-A-AGATAAAATAACAATAATATAAT
*
12909397 TAGATAAAT-AAAAATACAT-ATAAAATAAAAT
1 TAGATAAATAAAAAATA-ATAATAAGATAAAAT
12909428 GAAAAAGAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
41 3 0.05
42 5 0.08
43 9 0.14
44 16 0.24
45 3 0.05
46 1 0.02
47 12 0.18
48 13 0.20
49 4 0.06
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (46 bp):
TAGATAAATAAAAAATAATAATAAGATAAAATAACAATAATATAAT
Found at i:12909417 original size:24 final size:24
Alignment explanation
Indices: 12909287--12909419 Score: 95
Period size: 24 Copynumber: 5.8 Consensus size: 24
12909277 AATAAAAATC
* *
12909287 AAATAAAAAAAAATTTAAT-AGAT
1 AAATAAAAAATAATATAATAAGAT
*
12909310 AATTAGAAAAAT-A-ATAATAAGAT
1 AAATA-AAAAATAATATAATAAGAT
* * *
12909333 AAAATCAACAATAATATTATAAGAT
1 -AAATAAAAAATAATATAATAAGAT
*
12909358 AAATAAAAAATAATAATAA-CAGAT
1 AAATAAAAAATAAT-ATAATAAGAT
*
12909382 AAAT---AAAT-ATATAATTAGAT
1 AAATAAAAAATAATATAATAAGAT
12909402 AAAT-AAAAATACATATAA
1 AAATAAAAAATA-ATATAA
12909420 AATAAAATGA
Statistics
Matches: 87, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
19 4 0.05
20 10 0.11
21 4 0.05
22 8 0.09
23 14 0.16
24 35 0.40
25 12 0.14
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (24 bp):
AAATAAAAAATAATATAATAAGAT
Found at i:12909438 original size:17 final size:16
Alignment explanation
Indices: 12909418--12909459 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
12909408 AAATACATAT
*
12909418 AAAATAAAATGAAAAA
1 AAAATAAAAGGAAAAA
*
12909434 GAAAAAAAAAGGAAAAA
1 -AAAATAAAAGGAAAAA
12909451 AAAATAAAA
1 AAAATAAAA
12909460 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (16 bp):
AAAATAAAAGGAAAAA
Found at i:12909546 original size:25 final size:24
Alignment explanation
Indices: 12909485--12909572 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 24
12909475 AATAGTAATA
* **
12909485 ATAAACAAATAATAAATACATAGGAT
1 ATAAA-AAA-AATATATACATAAAAT
*
12909511 ATAAAGGAAAATATATACATAAAAT
1 ATAAA-AAAAATATATACATAAAAT
* *
12909536 ATAAAATAAAA-ATA-AAATAAAAA
1 ATAAAA-AAAATATATACATAAAAT
*
12909559 ATAACAAAAATATA
1 ATAAAAAAAATATA
12909573 AAACAAAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
22 4 0.08
23 15 0.29
24 3 0.06
25 22 0.43
26 7 0.14
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (24 bp):
ATAAAAAAAATATATACATAAAAT
Found at i:12909550 original size:11 final size:11
Alignment explanation
Indices: 12909529--12909580 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
12909519 AAATATATAC
12909529 ATAAAATATAAA
1 ATAAAA-ATAAA
12909541 ATAAAAATAAA
1 ATAAAAATAAA
12909552 ATAAAAAATAACA
1 AT-AAAAATAA-A
*
12909565 A-AAATATAAA
1 ATAAAAATAAA
*
12909575 ACAAAA
1 ATAAAA
12909581 TTGGGCTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 2 0.06
11 17 0.49
12 14 0.40
13 2 0.06
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:12909550 original size:18 final size:18
Alignment explanation
Indices: 12909529--12909580 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
12909519 AAATATATAC
12909529 ATAAAATATAAAATAAAA
1 ATAAAATATAAAATAAAA
* *
12909547 ATAAAATAAAAAAT-AAC
1 ATAAAATATAAAATAAAA
*
12909564 A-AAAATATAAAACAAAA
1 ATAAAATATAAAATAAAA
12909581 TTGGGCTTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 10 0.36
17 5 0.18
18 13 0.46
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAATATAAAATAAAA
Found at i:12909562 original size:23 final size:23
Alignment explanation
Indices: 12909529--12909580 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
12909519 AAATATATAC
*
12909529 ATAAAATATAA-AATAAAAATAAA
1 ATAAAAAATAACAA-AAAAATAAA
*
12909552 ATAAAAAATAACAAAAATATAAA
1 ATAAAAAATAACAAAAAAATAAA
*
12909575 ACAAAA
1 ATAAAA
12909581 TTGGGCTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (23 bp):
ATAAAAAATAACAAAAAAATAAA
Found at i:12923054 original size:14 final size:14
Alignment explanation
Indices: 12923031--12923060 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12923021 TATTCCTATT
12923031 ATTTTACAAATTAA
1 ATTTTACAAATTAA
*
12923045 ATTTTGCAAATTAA
1 ATTTTACAAATTAA
12923059 AT
1 AT
12923061 AAACAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTTTACAAATTAA
Found at i:12924111 original size:177 final size:179
Alignment explanation
Indices: 12923763--12924121 Score: 573
Period size: 177 Copynumber: 2.0 Consensus size: 179
12923753 TTACCATAAT
12923763 TTGGTTTTAAAAGTTTTACTTCAACCCCTATTCAAGTTTTTCTCCAAAATATGCCAAAAAAATTA
1 TTGGTTTTAAAAGTTTTACTTCAACCCCTATTCAAGTTTTTCTCCAAAATATGCCAAAAAAATTA
*
12923828 TTTTAATTCTCTTAAAATTGTGATTGGAACATGGGGTTTTCTTAATCCCCAAGACAATTCCAACT
66 TTTTAATTCTC-TAAAA-TCTGATTGGAACATGGGGTTTTCTTAATCCCCAAGACAATTCCAACT
* *
12923893 TCAATTTTGTCGAAACCTAGCCTCTTCCCTTTTGTAGCTTCGATCAAACTC
129 TCAATTTTGTCGAAACCTACCCTCTTCCCTTTTGCAGCTTCGATCAAACTC
*
12923944 TTGGTTTTAAGAGTTTTACTTCAACCCCTATTCAAGTTTTTCTCCAAAATATGCCAAAAAATATT
1 TTGGTTTTAAAAGTTTTACTTCAACCCCTATTCAAGTTTTTCTCCAAAATATGCCAAAAAA-ATT
* * *
12924009 ATTTTAATTCTC-CAAA-CT-CTTGGAACATGGGGTTTTCTTAATCCCCAAGATAATTCCAACTT
65 ATTTTAATTCTCTAAAATCTGATTGGAACATGGGGTTTTCTTAATCCCCAAGACAATTCCAACTT
* *
12924071 TAATTTTGTCGAAACCTACCCTTCTT-CTTTTTGCAGCTTCGATCAAACTC
130 CAATTTTGTCGAAACCTACCC-TCTTCCCTTTTGCAGCTTCGATCAAACTC
12924121 T
1 T
12924122 CTCTCATTTT
Statistics
Matches: 167, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
177 84 0.50
178 5 0.03
180 3 0.02
181 60 0.36
182 15 0.09
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.39
Consensus pattern (179 bp):
TTGGTTTTAAAAGTTTTACTTCAACCCCTATTCAAGTTTTTCTCCAAAATATGCCAAAAAAATTA
TTTTAATTCTCTAAAATCTGATTGGAACATGGGGTTTTCTTAATCCCCAAGACAATTCCAACTTC
AATTTTGTCGAAACCTACCCTCTTCCCTTTTGCAGCTTCGATCAAACTC
Found at i:12926491 original size:25 final size:24
Alignment explanation
Indices: 12926457--12926545 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
12926447 ATGAGCAAAA
*
12926457 AATAATTAAAGATGAAAATAATAAT
1 AATAAATAAA-ATGAAAATAATAAT
* *
12926482 AATAAGTAAAAT-AAAA-AAT-CT
1 AATAAATAAAATGAAAATAATAAT
12926503 AA-AAATAAAATGAAAATAA-AAT
1 AATAAATAAAATGAAAATAATAAT
*
12926525 AGAAAAAGTAAAAT-AAAATAA
1 A-ATAAA-TAAAATGAAAATAA
12926546 AACAAAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.15
21 7 0.13
22 7 0.13
23 5 0.09
24 12 0.22
25 15 0.28
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (24 bp):
AATAAATAAAATGAAAATAATAAT
Found at i:12926512 original size:5 final size:5
Alignment explanation
Indices: 12926471--12926572 Score: 82
Period size: 5 Copynumber: 19.8 Consensus size: 5
12926461 ATTAAAGATG
**
12926471 AAAAT AATAAT AATAAGT AAAAT AAAA- AATCT AAAAAT AAAAT GAAAAT
1 AAAAT AA-AAT AA-AA-T AAAAT AAAAT AAAAT -AAAAT AAAAT -AAAAT
* * * * *
12926520 AAAAT AGAA- AAAGT AAAAT AAAAT AAAAC AAAAC AAAAC AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
12926569 AAAA
1 AAAA
12926573 GGAAAACCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
4 4 0.05
5 56 0.69
6 18 0.22
7 3 0.04
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:12926538 original size:30 final size:31
Alignment explanation
Indices: 12926504--12926579 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
12926494 AAAAAATCTA
* * * *
12926504 AAAATAAAATGAAAATAAAATAGAA-AAAGT
1 AAAATAAAATGAAAACAAAACAAAACAAAAT
12926534 AAAATAAAAT-AAAACAAAACAAAACAAAAT
1 AAAATAAAATGAAAACAAAACAAAACAAAAT
*
12926564 AAAATAAAAGGAAAAC
1 AAAATAAAATGAAAAC
12926580 CTACGATCGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.28
30 23 0.59
31 5 0.13
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (31 bp):
AAAATAAAATGAAAACAAAACAAAACAAAAT
Found at i:12927010 original size:11 final size:11
Alignment explanation
Indices: 12926994--12927019 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12926984 AAATAAATCA
12926994 ATTTGATTATG
1 ATTTGATTATG
12927005 ATTTGATTATG
1 ATTTGATTATG
12927016 ATTT
1 ATTT
12927020 TGTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (11 bp):
ATTTGATTATG
Found at i:12927507 original size:43 final size:42
Alignment explanation
Indices: 12927457--12927688 Score: 218
Period size: 43 Copynumber: 5.4 Consensus size: 42
12927447 TCTAAAATTA
*
12927457 AGGCTAAACAACTTTAAAATAAGAAATGGCCTTCTCTATTCAG
1 AGGCTAAACAACTTTAAAATAAGAAATGGCCTTCTCTAAT-AG
* *
12927500 AGGCTAAACAACTTTAAAATAAGAAATGGACTTCTCTATATTG
1 AGGCTAAACAACTTTAAAATAAGAAATGGCCTTCTCTA-ATAG
* * * *
12927543 AGGCTAAACAATTTTAAAATAGGAAATGGGCTCCTCTAAATAG
1 AGGCTAAACAACTTTAAAATAAGAAATGGCCTTCTCT-AATAG
* *
12927586 A-GCTAAA-ATGACTTTAAAATAAGAAATGGGCTCTTCT-AAATGG
1 AGGCTAAACA--ACTTTAAAATAAGAAAT-GGC-CTTCTCTAATAG
* ** * * *
12927629 AGGCAAAAGGACTTTAAAATAAGAAATGGGCTCCTCTAAACAG
1 AGGCTAAACAACTTTAAAATAAGAAATGGCCTTCTCT-AATAG
* *
12927672 AGGCAAAATAACTTTAA
1 AGGCTAAACAACTTTAA
12927689 TCAAAATGAC
Statistics
Matches: 156, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
41 5 0.03
42 8 0.05
43 130 0.83
44 9 0.06
45 4 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (42 bp):
AGGCTAAACAACTTTAAAATAAGAAATGGCCTTCTCTAATAG
Found at i:12927553 original size:86 final size:85
Alignment explanation
Indices: 12927457--12927688 Score: 272
Period size: 86 Copynumber: 2.7 Consensus size: 85
12927447 TCTAAAATTA
* * *
12927457 AGGCTAAACAACTTTAAAATAAGAAATGGCCTTCTCTATTCAGAGGCTAAACAACTTTAAAATAA
1 AGGCTAAACAACTTTAAAATAAGAAATGGGCTCCTCTAATCAGAGGCTAAA-AACTTTAAAATAA
* *
12927522 GAAATGGACT-TCTCTATATTG
65 GAAATGGACTCT-TCTAAATGG
* *
12927543 AGGCTAAACAATTTTAAAATAGGAAATGGGCTCCTCTAAAT-AGA-GCTAAAATGACTTTAAAAT
1 AGGCTAAACAACTTTAAAATAAGAAATGGGCTCCTCT-AATCAGAGGCTAAAA--ACTTTAAAAT
*
12927606 AAGAAATGGGCTCTTCTAAATGG
63 AAGAAATGGACTCTTCTAAATGG
* ** * *
12927629 AGGCAAAAGGACTTTAAAATAAGAAATGGGCTCCTCTAAACAGAGGCAAAATAACTTTAA
1 AGGCTAAACAACTTTAAAATAAGAAATGGGCTCCTCTAATCAGAGGCTAAA-AACTTTAA
12927689 TCAAAATGAC
Statistics
Matches: 124, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
84 1 0.01
85 8 0.06
86 106 0.85
87 8 0.06
88 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (85 bp):
AGGCTAAACAACTTTAAAATAAGAAATGGGCTCCTCTAATCAGAGGCTAAAAACTTTAAAATAAG
AAATGGACTCTTCTAAATGG
Found at i:12928189 original size:34 final size:36
Alignment explanation
Indices: 12928120--12928201 Score: 109
Period size: 34 Copynumber: 2.4 Consensus size: 36
12928110 AGATTTAAGC
12928120 TTTGCAAAG-TTTTCATATTCAGAAGAATTCCAAGT
1 TTTGCAAAGATTTTCATATTCAGAAGAATTCCAAGT
12928155 TTTGCAAAGATTTT-ATATTC-GTAAG-ATTCCAAGT
1 TTTGCAAAGATTTTCATATTCAG-AAGAATTCCAAGT
* *
12928189 TTCGCAAGGATTT
1 TTTGCAAAGATTT
12928202 CAATGCACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
34 21 0.49
35 18 0.42
36 4 0.09
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (36 bp):
TTTGCAAAGATTTTCATATTCAGAAGAATTCCAAGT
Found at i:12928601 original size:44 final size:45
Alignment explanation
Indices: 12928530--12928617 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 45
12928520 GATTCACATC
* *
12928530 AAAGATTTCAAGGTTCATAGCTAAAA-TTCAAAGATTGTCATTCG
1 AAAGATTTCAAGGTTCACAGCTAAAATTTCAAAGATTCTCATTCG
** *
12928574 AAAGATTTCAAGGTTTCACATTTAAATTTTCAAAGATTCTCATT
1 AAAGATTTCAAGG-TTCACAGCTAAAATTTCAAAGATTCTCATT
12928618 TAAGAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 13 0.35
45 9 0.24
46 15 0.41
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (45 bp):
AAAGATTTCAAGGTTCACAGCTAAAATTTCAAAGATTCTCATTCG
Found at i:12928617 original size:22 final size:23
Alignment explanation
Indices: 12928556--12928620 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
12928546 ATAGCTAAAA
* *
12928556 TTCAAAGATTGTCATTCGAAAGAT
1 TTCAAAGATTCTCATT-TAAAGAT
* * * *
12928580 TTCAAGGTTTCACATTTAAA-TT
1 TTCAAAGATTCTCATTTAAAGAT
12928602 TTCAAAGATTCTCATTTAA
1 TTCAAAGATTCTCATTTAA
12928621 GAAATTTTAG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 17 0.53
23 3 0.09
24 12 0.38
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (23 bp):
TTCAAAGATTCTCATTTAAAGAT
Found at i:12928963 original size:24 final size:24
Alignment explanation
Indices: 12928931--12928991 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
12928921 ATGTTCTCTA
* *
12928931 CATGATGCAGATGCATGCCATAAC
1 CATGATGCAAATGCATGCCACAAC
*
12928955 CATGATGCAAATGCATGCCCCAAC
1 CATGATGCAAATGCATGCCACAAC
*
12928979 CCTGATGCAAATG
1 CATGATGCAAATG
12928992 TGATACAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (24 bp):
CATGATGCAAATGCATGCCACAAC
Found at i:12933942 original size:46 final size:45
Alignment explanation
Indices: 12933891--12933999 Score: 105
Period size: 46 Copynumber: 2.4 Consensus size: 45
12933881 AAGCAATGAG
* * *
12933891 TAAAATAATAATTAAAGATGAAAATAA-TAATAATAAGTAAAATAAAA
1 TAAAATAA-AAATAAA-ATGAAAAAAATTAA-AAAAAGTAAAATAAAA
*
12933938 -AAAATCTAAAAATGAAATGAAAAAAATTAAAAAAAGTAAAATAAAA
1 TAAAA--TAAAAATAAAATGAAAAAAATTAAAAAAAGTAAAATAAAA
* *
12933984 TAAAATCAAAACAAAA
1 TAAAATAAAAATAAAA
12934000 AACAAGATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
45 8 0.16
46 28 0.55
47 12 0.24
48 3 0.06
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.20
Consensus pattern (45 bp):
TAAAATAAAAATAAAATGAAAAAAATTAAAAAAAGTAAAATAAAA
Found at i:12933971 original size:22 final size:22
Alignment explanation
Indices: 12933930--12933970 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12933920 ATAATAAGTA
12933930 AAATAAAAAAAATCTAAAAATG
1 AAATAAAAAAAATCTAAAAATG
*
12933952 AAATGAAAAAAAT-TAAAAA
1 AAATAAAAAAAATCTAAAAA
12933971 AAGTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (22 bp):
AAATAAAAAAAATCTAAAAATG
Found at i:12933984 original size:5 final size:5
Alignment explanation
Indices: 12933891--12933999 Score: 53
Period size: 5 Copynumber: 20.0 Consensus size: 5
12933881 AAGCAATGAG
12933891 TAAAA TAATAA TTAAAGA TGAAAA TAATAA TAATAA GTAAAA TAAAA -AAAA
1 TAAAA TAA-AA -TAAA-A T-AAAA TAA-AA TAA-AA -TAAAA TAAAA TAAAA
* * *
12933942 TCTAAAAA TGAAA TGAAAA -AAAT TAAAA -AAAG TAAAA TAAAA TAAAA
1 --T-AAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
*
12933989 TCAAAA CAAAA
1 T-AAAA TAAAA
12934000 AACAAGATGA
Statistics
Matches: 83, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
4 10 0.12
5 35 0.42
6 24 0.29
7 10 0.12
8 4 0.05
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:12933994 original size:23 final size:22
Alignment explanation
Indices: 12933925--12933994 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 22
12933915 TAATAATAAT
12933925 AAGTAAAATAAAAAAAATCTAAA
1 AAGTAAAATAAAAAAAATC-AAA
* * *
12933948 AA-TGAAATGAAAAAAATTAAAAA
1 AAGTAAAAT-AAAAAAAAT-CAAA
12933971 AAGTAAAATAAAATAAAATCAAA
1 AAGTAAAATAAAA-AAAATCAAA
12933994 A
1 A
12933995 CAAAAAACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
22 5 0.14
23 23 0.62
24 9 0.24
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (22 bp):
AAGTAAAATAAAAAAAATCAAA
Found at i:12942038 original size:19 final size:20
Alignment explanation
Indices: 12942004--12942042 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
12941994 ATTTCCTATT
*
12942004 ATTGTATGTTTTTAAGTTTA
1 ATTGTATGTATTTAAGTTTA
12942024 ATTGTAT-TATTTAAGTTTA
1 ATTGTATGTATTTAAGTTTA
12942043 GTTTTGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (20 bp):
ATTGTATGTATTTAAGTTTA
Found at i:12947789 original size:33 final size:33
Alignment explanation
Indices: 12947729--12947791 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
12947719 AAATTAGATG
* *
12947729 TGTTTGTATTAGAAAATGTCACTAAATTAGGGC
1 TGTTTGTATTAGAAAACGTCACCAAATTAGGGC
*
12947762 TGTTTGTA-TAGAAAAACGTCGCCAAATTAG
1 TGTTTGTATTAG-AAAACGTCACCAAATTAG
12947792 TGGCATTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (33 bp):
TGTTTGTATTAGAAAACGTCACCAAATTAGGGC
Found at i:12947890 original size:34 final size:33
Alignment explanation
Indices: 12947807--12947891 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 33
12947797 TTTGTAAAGG
* *
12947807 AAAATGCCATTAAATTTAGTGGCGTTTTATGCT
1 AAAATGCCACTAAATTTAATGGCGTTTTATGCT
* *
12947840 ACAAGTTCC-CTAAAATTTAATGGCGTTTGTA-GCGT
1 A-AAATGCCACT-AAATTTAATGGCGTTT-TATGC-T
12947875 AAAATGCCACTAAATTT
1 AAAATGCCACTAAATTT
12947892 CGAATTTAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
33 2 0.05
34 33 0.80
35 6 0.15
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
AAAATGCCACTAAATTTAATGGCGTTTTATGCT
Found at i:12947965 original size:16 final size:17
Alignment explanation
Indices: 12947930--12947964 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12947920 TGCAGCAAAA
*
12947930 TTAAGAAATTTACTTTT
1 TTAAAAAATTTACTTTT
12947947 TTAAAAAATTTACTTTT
1 TTAAAAAATTTACTTTT
12947964 T
1 T
12947965 ATATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAAAAATTTACTTTT
Found at i:12949935 original size:322 final size:318
Alignment explanation
Indices: 12949160--12949953 Score: 834
Period size: 322 Copynumber: 2.5 Consensus size: 318
12949150 GATTTGGGCC
* * * * *
12949160 TTTCACACATATC-AGTCAAGGAAACCAATTTCAATCATTC-GAAAAAGTTTAATATCATGTATT
1 TTTCACACATATCAACT-ATGGAAACCAAGTTCAATAATTCTG-ACAAGTTTAATATCATGTATT
* * ** *
12949223 G-AAGTCATCTAAATTGTTAAAATAGT-TTAATAA-TAGCAAATTTGTATTTTTACCTTTTAACA
64 GAAACT-ATC-AAATTATTAAAATA-TAACAATAACT-GCAAATTTGCA-TTTTACCTTTTAACA
*
12949285 GTA-AAAATAGTCCTAAATAGACATAAACAACAACTTTGTCACACATATCAACGTAGAAACCAAG
124 GTACAAAA-AGTCCTAAACAGACATAAACAACAACTTTGTCACACATATCAACGTAGAAACCAAG
* * * *
12949349 TTCAATCATTCATATAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAACAGAACAAT
188 CTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAAACAGAACAAT
* * * * * *
12949414 AACATCAAATTTGCATTTTGCCTTTTAATGGCATAAAATGTCCTAAACAGATGTAAACATTAGCT
253 AACATCAAAATTGCATTTTACCTATTAATGGCACAAAATGTCCTAAACAGATGTAAACAATAACT
12949479 T
318 T
* * * *
12949480 TTTCACATATATCAACTATGGAAACCAATTTCAATTATTCTGACAAGTTTAATGTCATGTATTGA
1 TTTCACACATATCAACTATGGAAACCAAGTTCAATAATTCTGACAAGTTTAATATCATGTATTGA
* * * * ** * *
12949545 AGCTATGCAGACTATTAAAATAGAACAATAACAACAAATTTGCATGTTTGCCTTTTAACAGCACA
66 AACTAT-CAAATTATTAAAATATAACAATAACTGCAAATTTGCAT-TTTACCTTTTAACAGTACA
* * * * * *
12949610 AAAAGTCTTAAACAGACGTAAACGATAACTTTTTCACATATATCAACTGT-GAAAACCAAGCTCA
129 AAAAGTCCTAAACAGACATAAACAACAACTTTGTCACACATATCAAC-GTAG-AAACCAAGCTCA
* **
12949674 ATCATTCAGACAAGTTTAATATCATGTATT-AGAGCTATCAAAACTGTTAAAATAGAACAAT-TT
192 ATCATTCAGACAAGTTTAATATCATGTATTGA-AGCTATCAAAACTGTTAAAACAGAACAATAAC
* * * *
12949737 GTCCAAAATTGTATATTTACCTATTAATGGCACAAAGTGTCCTAAATAGATGTAAACAATAACTT
256 AT-CAAAATTGCAT-TTTACCTATTAATGGCACAAAATGTCCTAAACAGATGTAAACAATAACTT
* * ** *
12949802 TTTCATACATATCAACTTTGGAAAGTAAGTTCAATAATT-TGGATAAGTTTAATATCATGTATTG
1 TTTCACACATATCAACTATGGAAACCAAGTTCAATAATTCT-GACAAGTTTAATATCATGTATTG
* * * *
12949866 AAACTATCAAAATTATTAAAACATAACAATAACTGTAAATTTGCATTATTACCTTGTAACGGTAC
65 AAACTATC-AAATTATTAAAATATAACAATAACTGCAAATTTGCATT-TTACCTTTTAACAGTAC
** *
12949931 AAAAAGTTGTAAATAGACATAAA
128 AAAAAGTCCTAAACAGACATAAA
12949954 TTGTAAATTA
Statistics
Matches: 390, Mismatches: 68, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
319 1 0.00
320 135 0.35
321 90 0.23
322 164 0.42
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (318 bp):
TTTCACACATATCAACTATGGAAACCAAGTTCAATAATTCTGACAAGTTTAATATCATGTATTGA
AACTATCAAATTATTAAAATATAACAATAACTGCAAATTTGCATTTTACCTTTTAACAGTACAAA
AAGTCCTAAACAGACATAAACAACAACTTTGTCACACATATCAACGTAGAAACCAAGCTCAATCA
TTCAGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAAACAGAACAATAACATCAA
AATTGCATTTTACCTATTAATGGCACAAAATGTCCTAAACAGATGTAAACAATAACTT
Found at i:12949946 original size:161 final size:160
Alignment explanation
Indices: 12949179--12949953 Score: 729
Period size: 161 Copynumber: 4.8 Consensus size: 160
12949169 TATCAGTCAA
* * * *
12949179 GGAAACCAATTTCAATCATTC-GAAAAAGTTTAATATCATGTATTGAAG-TCATCTAAATTGTTA
1 GGAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTGAAGCT-ATCAAAACTGTTA
*** * * *
12949242 AAATAGTTTAATAA-TAGCAAATTTGTATTTTTACCTTTTAACAGTA-AAAATAGTCCTAAATAG
64 AAATAGAACAATAACT-GCAAATTTGCA-TTTTACCTTTTAACGGCACAAAA-AGTCCTAAATAG
* * *
12949305 ACATAAACAACAACTTTGTCACACATATCAAC-GT
126 ACGTAAACAATAACTTTTTCACACATATCAACTGT
* * * *
12949339 AGAAACCAAGTTCAATCATTCATATAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAA
1 GGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAA
* * * * * * *
12949404 ACAGAACAATAACAT-CAAATTTGCATTTTGCCTTTTAATGGCATAAAATGTCCTAAACAGATGT
66 ATAGAACAATAAC-TGCAAATTTGCATTTTACCTTTTAACGGCACAAAAAGTCCTAAATAGACGT
* * * *
12949468 AAACATTAGCTTTTTCACATATATCAACTAT
130 AAACAATAACTTTTTCACACATATCAACTGT
* * * * * *
12949499 GGAAACCAATTTCAATTATTCTGACAAGTTTAATGTCATGTATTGAAGCTATGC-AGACTATTAA
1 GGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTAT-CAAAACTGTTAA
** * * * *
12949563 AATAGAACAATAACAACAAATTTGCATGTTTGCCTTTTAACAGCACAAAAAGTCTTAAACAGACG
65 AATAGAACAATAACTGCAAATTTGCAT-TTTACCTTTTAACGGCACAAAAAGTCCTAAATAGACG
* *
12949628 TAAACGATAACTTTTTCACATATATCAACTGT
129 TAAACAATAACTTTTTCACACATATCAACTGT
* *
12949660 GAAAACCAAGCTCAATCATTCAGACAAGTTTAATATCATGTATT-AGAGCTATCAAAACTGTTAA
1 GGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGA-AGCTATCAAAACTGTTAA
*** * * * * * ** *
12949724 AATAGAACAATTTGTCCAAAATTGTATATTTACCTATTAATGGCACAAAGTGTCCTAAATAGATG
65 AATAGAACAATAACTGCAAATTTGCAT-TTTACCTTTTAACGGCACAAAAAGTCCTAAATAGACG
* *
12949789 TAAACAATAACTTTTTCATACATATCAACTTT
129 TAAACAATAACTTTTTCACACATATCAACTGT
** * ** * * * *
12949821 GGAAAGTAAGTTCAATAATTTGGATAAGTTTAATATCATGTATTGAAACTATCAAAATTATTAAA
1 GGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAA
* * * * * ** *
12949886 ACATAACAATAACTGTAAATTTGCATTATTACCTTGTAACGGTACAAAAAGTTGTAAATAGACAT
66 ATAGAACAATAACTGCAAATTTGCATT-TTACCTTTTAACGGCACAAAAAGTCCTAAATAGACGT
12949951 AAA
130 AAA
12949954 TTGTAAATTA
Statistics
Matches: 497, Mismatches: 105, Indels: 25
0.79 0.17 0.04
Matches are distributed among these distances:
159 49 0.10
160 158 0.32
161 288 0.58
162 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (160 bp):
GGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATCAAAACTGTTAAA
ATAGAACAATAACTGCAAATTTGCATTTTACCTTTTAACGGCACAAAAAGTCCTAAATAGACGTA
AACAATAACTTTTTCACACATATCAACTGT
Found at i:12956372 original size:62 final size:62
Alignment explanation
Indices: 12956303--12956717 Score: 301
Period size: 62 Copynumber: 6.7 Consensus size: 62
12956293 TTATCAGGGG
* *
12956303 ATTATTGAAGGTATTTTTTACAAAAAACACCTTCAATAATCCCCTAAAATTTTTTATAAAAA
1 ATTATTGAAGGTATTTTTTACAAAAAATACCTTCAATAATCCCCTTAAATTTTTTATAAAAA
* * ** * * * ***
12956365 ATTATTGAAGTTGTA-TTTTGA-AGAAAACGCCTTTAATAATCCCCTTTAATATTTTATAAGGGG
1 ATTATTGAAG--GTATTTTTTACAAAAAATACCTTCAATAATCCCCTTAAATTTTTTATAA-AAA
* * * **
12956428 ATTATTGAAGGCATTTTTTGCAAAAAAATACCTTCAATAA-ACCCTTGAAATTTTTTATAGGAA
1 ATTATTGAAGGTATTTTTTAC-AAAAAATACCTTCAATAATCCCCTT-AAATTTTTTATAAAAA
* * * *
12956491 ATTATTGAAGGCGTA-TTTTGA-AAAAAATGCCTTTAATAATCCCTTTAAATTTTTT-TAAAAA
1 ATTATTGAA-G-GTATTTTTTACAAAAAATACCTTCAATAATCCCCTTAAATTTTTTATAAAAA
* * * * ** * * * * * *
12956552 ATTATTCAAGGTA-ATTTTGCATAAAATGTCTTCAATAATCCTCTTATA-TTTTGACGAGAAG
1 ATTATTGAAGGTATTTTTTACAAAAAATACCTTCAATAATCCCCTTAAATTTTTTA-TAAAAA
* * * *
12956613 ATTATTGAAGGTGTTTTTTACTAAAAATACCTTTAATAATCCCCTTAAATTTTTTA-AATGAA
1 ATTATTGAAGGTATTTTTTACAAAAAATACCTTCAATAATCCCCTTAAATTTTTTATAA-AAA
* * *
12956675 TTTATTGAAGGTGTTCTTTTACAAAAAACT-CTTTCAATAATCC
1 ATTATTGAAGGTATT-TTTTACAAAAAA-TACCTTCAATAATCC
12956718 TCTCCAAATT
Statistics
Matches: 270, Mismatches: 65, Indels: 35
0.73 0.18 0.09
Matches are distributed among these distances:
59 10 0.04
60 23 0.09
61 29 0.11
62 112 0.41
63 61 0.23
64 33 0.12
65 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (62 bp):
ATTATTGAAGGTATTTTTTACAAAAAATACCTTCAATAATCCCCTTAAATTTTTTATAAAAA
Found at i:12956511 original size:126 final size:124
Alignment explanation
Indices: 12956287--12956543 Score: 372
Period size: 126 Copynumber: 2.1 Consensus size: 124
12956277 AATCGCCTGC
* * *
12956287 AATATTTTATCAGGGGATTATTGAAGGTATTTTTTACAAAAAACACCTTCAATAATCCCCTAAAA
1 AATATTTTATAAGGGGATTATTGAAGGCATTTTTTACAAAAAACACCTTCAATAAACCCCTAAAA
** *
12956352 TTTTTTATAAAAAATTATTGAAGTTGTATTTTGAAGAAAACGCCTTTAATAATCCCCTTT
66 TTTTTTATAAAAAATTATTGAAGGCGTATTTTGAAAAAAACGCCTTTAATAAT-CCCTTT
* * * *
12956412 AATATTTTATAAGGGGATTATTGAAGGCATTTTTTGCAAAAAAATACCTTCAATAAACCCTTGAA
1 AATATTTTATAAGGGGATTATTGAAGGCATTTTTTAC-AAAAAACACCTTCAATAAACCCCTAAA
** *
12956477 ATTTTTTATAGGAAATTATTGAAGGCGTATTTTGAAAAAAATGCCTTTAATAATCCCTTT
65 ATTTTTTATAAAAAATTATTGAAGGCGTATTTTGAAAAAAACGCCTTTAATAATCCCTTT
12956537 AA-ATTTT
1 AATATTTT
12956544 TTTAAAAAAT
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
124 5 0.04
125 42 0.36
126 71 0.60
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (124 bp):
AATATTTTATAAGGGGATTATTGAAGGCATTTTTTACAAAAAACACCTTCAATAAACCCCTAAAA
TTTTTTATAAAAAATTATTGAAGGCGTATTTTGAAAAAAACGCCTTTAATAATCCCTTT
Found at i:12956969 original size:64 final size:64
Alignment explanation
Indices: 12956880--12957199 Score: 211
Period size: 63 Copynumber: 5.1 Consensus size: 64
12956870 TATTAAGATG
* * * * *
12956880 TTTTTTATAGAGAACGCCTTGAATAATCCCTTCCAATTTTTATCAAGGGATTATTGAAGACATT
1 TTTTTTGTAGAAAATGCCTTCAATAATCCCTTCCAATTTTTATCAAGGGATTATTGAAGGCATT
*
12956944 TTTTTTGTAGAAAATGCCTTCAATAAT--TTATCCAATTTTTTATC-AGAGGATTATTGAAGGCA
1 TTTTTTGTAGAAAATGCCTTCAATAATCCCT-TCCAA-TTTTTATCAAG-GGATTATTGAAGGCA
12957006 --
63 TT
* * * * *
12957006 TATTTTGCAAAAAATGCCTTCAATAATCGCC-TGCAATATTTTATCAGGGGATTATTGAAGGCA-
1 TTTTTTGTAGAAAATGCCTTCAATAATC-CCTTCCAAT-TTTTATCAAGGGATTATTGAAGGCAT
12957069 -
64 T
** ** ** * **
12957069 TTTTTTACAGAAAACACCTTCAATAATCTCC-TAAAATTTTTTAT-GAGAAATTATTGAAGTTGC
1 TTTTTTGTAGAAAATGCCTTCAATAATC-CCTTCCAA-TTTTTATCAAGGGATTATTGAAG--GC
12957132 A--
62 ATT
* * * * *
12957133 --TTTTGAAGAAAACGCCTTTAATAATCCCCTCTAATATTTTAT-AAGAGGATTATTGAAGGCAT
1 TTTTTTGTAGAAAATGCCTTCAATAATCCCTTCCAAT-TTTTATCAAG-GGATTATTGAAGGCAT
12957195 T
64 T
12957196 TTTT
1 TTTT
12957200 GCAAAAAAAA
Statistics
Matches: 205, Mismatches: 33, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
61 6 0.03
62 70 0.34
63 77 0.38
64 50 0.24
65 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (64 bp):
TTTTTTGTAGAAAATGCCTTCAATAATCCCTTCCAATTTTTATCAAGGGATTATTGAAGGCATT
Found at i:12957066 original size:63 final size:63
Alignment explanation
Indices: 12956892--12957285 Score: 291
Period size: 62 Copynumber: 6.3 Consensus size: 63
12956882 TTTTATAGAG
* * * * * *
12956892 AACGCCTTGAATAATC-CCTTCCAA-TTTTTATCAAGGGATTATTGAAGACATTTTTTTTGTAGA
1 AACGCCTTCAATAATCTCC-TCCAATTTTTTATCAGGGGATTATTGAAGGCA--TATTTTGCAAA
12956955 A
63 A
* ** *
12956956 AATGCCTTCAATAAT-TTATCCAATTTTTTATCAGAGGATTATTGAAGGCATATTTTGCAAAA
1 AACGCCTTCAATAATCTCCTCCAATTTTTTATCAGGGGATTATTGAAGGCATATTTTGCAAAA
* * * * * * *
12957018 AATGCCTTCAATAATCGCCTGCAATATTTTATCAGGGGATTATTGAAGGCATTTTTTACAGAA
1 AACGCCTTCAATAATCTCCTCCAATTTTTTATCAGGGGATTATTGAAGGCATATTTTGCAAAA
* ** * **
12957081 AACACCTTCAATAATCTCCTAAAATTTTTTATGA-GAAATTATTGAAGTTGC--ATTTTG-AAGA
1 AACGCCTTCAATAATCTCCTCCAATTTTTTATCAGGGGATTATTGAAG--GCATATTTTGCAA-A
12957142 A
63 A
* * * * * * *
12957143 AACGCCTTTAATAATCCCCTCTAATATTTTATAAGAGGATTATTGAAGGCATTTTTTGCAAAAAA
1 AACGCCTTCAATAATCTCCTCCAATTTTTTATCAGGGGATTATTGAAGGCATATTTTGC--AAAA
* * ** ** * *
12957208 AACACCTTCAATAATCTCTTGAAATTTTTTAT-AGGAAATTATTGAAGGCGTATTTTGAAAAA
1 AACGCCTTCAATAATCTCCTCCAATTTTTTATCAGGGGATTATTGAAGGCATATTTTGCAAAA
** *
12957270 AATACCTTTAATAATC
1 AACGCCTTCAATAATC
12957286 CCTTTAAATT
Statistics
Matches: 261, Mismatches: 57, Indels: 26
0.76 0.17 0.08
Matches are distributed among these distances:
61 3 0.01
62 86 0.33
63 85 0.33
64 58 0.22
65 27 0.10
66 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (63 bp):
AACGCCTTCAATAATCTCCTCCAATTTTTTATCAGGGGATTATTGAAGGCATATTTTGCAAAA
Found at i:12957110 original size:127 final size:121
Alignment explanation
Indices: 12956895--12957288 Score: 384
Period size: 127 Copynumber: 3.1 Consensus size: 121
12956885 TATAGAGAAC
* * * ** *
12956895 GCCTTGAATAATCCCTTCCAAT-TTTTATCAAGGGATTATTGAAGACATTTTTTTTGTAGAAAAT
1 GCCTTTAATAATCCC-T-CAATATTTTATCAGGGGATTATTGAAGGCA--TTTTTTAAAGAAAAC
* * ** *
12956959 GCCTTCAATAAT-TTATCCAATTTTTTATCAGAGGATTATTGAAGGCATATTTTGCAAAAAAT
62 ACCTTCAATAATCTCATAAAATTTTTTAT-AGAGAATTATTGAAGGC-TATTTTG-AAAAAAT
* *
12957021 GCCTTCAATAATCGCCTGCAATATTTTATCAGGGGATTATTGAAGGCATTTTTTACAGAAAACAC
1 GCCTTTAATAATC-CCT-CAATATTTTATCAGGGGATTATTGAAGGCATTTTTTAAAGAAAACAC
* *
12957086 CTTCAATAATCTCCTAAAATTTTTTAT-GAGAAATTATTGAAGTTGC-ATTTTGAAGAAAAC
64 CTTCAATAATCTCATAAAATTTTTTATAGAG-AATTATTGAAG--GCTATTTTGAA-AAAAT
* * *
12957146 GCCTTTAATAATCCCCTCTAATATTTTATAAGAGGATTATTGAAGGCATTTTTTGCAAAAAAAAC
1 GCCTTTAATAAT-CCCTC-AATATTTTATCAGGGGATTATTGAAGGCATTTTTT--AAAGAAAAC
* *
12957211 ACCTTCAATAATCTCTTGAAATTTTTTATAG-GAAATTATTGAAGGCGTATTTTGAAAAAAAT
62 ACCTTCAATAATCTCATAAAATTTTTTATAGAG-AATTATTGAAGGC-TATTTTG-AAAAAAT
*
12957273 ACCTTTAATAATCCCT
1 GCCTTTAATAATCCCT
12957289 TTAAATTTTT
Statistics
Matches: 230, Mismatches: 23, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
124 6 0.03
125 92 0.40
126 34 0.15
127 95 0.41
128 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (121 bp):
GCCTTTAATAATCCCTCAATATTTTATCAGGGGATTATTGAAGGCATTTTTTAAAGAAAACACCT
TCAATAATCTCATAAAATTTTTTATAGAGAATTATTGAAGGCTATTTTGAAAAAAT
Found at i:12957406 original size:63 final size:62
Alignment explanation
Indices: 12957217--12957484 Score: 217
Period size: 63 Copynumber: 4.3 Consensus size: 62
12957207 AAACACCTTC
* * * * * * *
12957217 AATAAT-CTCTTGAAATTTTTTATAGGAAATTATTGAAGGCGTATTTTGA-AAAAAATACCTTT
1 AATAATCCTCTT-AAATTTTTGAAAGAAAATTATTGAAGGTGTTTTTTTACAAAAAAT-GCTTT
** * ** * *
12957279 AATAATCC-CTTTAAATTTTTTTAA-AAAATTATTCAA-G-GTAATTTTGCATAAAATGTCTTT
1 AATAATCCTC-TTAAATTTTTGAAAGAAAATTATTGAAGGTGTTTTTTTACAAAAAATG-CTTT
* * *
12957339 AATAATCCTCTTATA-TTTTGACGAGAAAATTATTGAAGGTGTTTTTTTACTAAAAATGCCTTT
1 AATAATCCTCTTAAATTTTTGA-AAGAAAATTATTGAAGGTGTTTTTTTACAAAAAATG-CTTT
* * * *
12957402 AATAATCCCCTTAAATTTTTTAAAGGAATTTATTGAAGGTGTTTTTTTACAAAAAATGCTTT
1 AATAATCCTCTTAAATTTTTGAAAGAAAATTATTGAAGGTGTTTTTTTACAAAAAATGCTTT
*
12957464 CAATAATCCTCTCCAAATTTT
1 -AATAATCCTCT-TAAATTTT
12957485 AATAATCCCT
Statistics
Matches: 165, Mismatches: 29, Indels: 22
0.76 0.13 0.10
Matches are distributed among these distances:
59 10 0.06
60 24 0.15
61 22 0.13
62 22 0.13
63 75 0.45
64 12 0.07
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (62 bp):
AATAATCCTCTTAAATTTTTGAAAGAAAATTATTGAAGGTGTTTTTTTACAAAAAATGCTTT
Found at i:12957636 original size:755 final size:750
Alignment explanation
Indices: 12956277--12957756 Score: 2561
Period size: 755 Copynumber: 2.0 Consensus size: 750
12956267 TATTGAAGGC
*
12956277 AATCGCCTGCAATATTTTATCAGGGGATTATTGAAGGTATTTTTTACAAAAAACACCTTCAATAA
1 AATCGCCTGCAATATTTTATCAGGGGATTATTGAAGGCATTTTTTACAAAAAACACCTTCAATAA
*
12956342 TCCCCTAAAATTTTTTATAAAAAATTATTGAAGTTGTATTTTGAAGAAAACGCCTTTAATAATCC
66 TCCCCTAAAATTTTTTATAAAAAATTATTGAAGTTGCATTTTGAAGAAAACGCCTTTAATAATCC
* * *
12956407 CCTTTAATATTTTATAAGGGGATTATTGAAGGCATTTTTTGCAAAAAAATACCTTCAATAAACCC
131 CCTCTAATATTTTATAAGAGGATTATTGAAGGCATTTTTTGCAAAAAAACACCTTCAATAAACCC
*
12956472 TTGAAATTTTTTATAGGAAATTATTGAAGGCGTATTTTGAAAAAAATGCCTTTAATAATCCCTTT
196 TTGAAATTTTTTATAGGAAATTATTGAAGGCGTATTTTGAAAAAAATACCTTTAATAATCCCTTT
12956537 AAATTTTTTTAAAAAATTATTCAAGGTAATTTTGCATAAAATGTCTTCAATAATCCTCTTATATT
261 AAATTTTTTTAAAAAATTATTCAAGGTAATTTTGCATAAAATGTCTTCAATAATCCTCTTATATT
*
12956602 TTGACGAGAAGATTATTGAAGGTGTTTTTTACTAAAAATACCTTTAATAATCCCCTTAAATTTTT
326 TTGACGAGAAAATTATTGAAGGTGTTTTTTACTAAAAATACCTTTAATAATCCCCTTAAATTTTT
*
12956667 TAAATGAATTTATTGAAGGTGTTCTTTTACAAAAAACTCTTTCAATAATCCTCTCCAAATTTTAA
391 TAAAGGAATTTATTGAAGGTGTTCTTTTACAAAAAACTCTTTCAATAATCCTCTCCAAATTTTAA
* *
12956732 TAATCCCTTAAAAAAAATTTTAAAAAATTATTAAAGGCATTTTTTGTAGATAATGCCTTTAATAA
456 TAATCCCTTAAAAAAAATTTTAAAAAATTATTAAAGGCATTTTTTATAGATAACGCCTTTAATAA
** * * *
12956797 TCTTTTTAAATTTTTTATCAGAGGATTATTAATTGCATTTTTAGTTACAAATGCCTTTAAAAATC
521 TCTCCTTAAATTTTTTATCAAAGGATTATTAATGGCATTTTTAGTCACAAATGCCTTTAAAAATC
* *
12956862 AAGAAAATTATTAAGATGTTTTTTATAGAGAACGCCTTGAATAATCCCTTCCAATTTTTATCAAG
586 AAGAAAATTATTAAGATGTTTTTTATAGAGAACGCATTCAATAATCCCTTCCAATTTTTATCAAG
**
12956927 GGATTATTGAAGACATTTTTTTTGTAGAAAATGCCTTCAATAAT-TTATCCAATTTTTTATCAGA
651 GGATTATTG-AGACA-TTTTTTTGTAGAAAACACCTTCAATAATCTTA--CAATTTTTTATCAGA
12956991 GGATTATTGAAGGCATATTTTGCAAAAAATGCCTTCAAT
712 GGATTATTGAAGGCATATTTTGCAAAAAATGCCTTCAAT
*
12957030 AATCGCCTGCAATATTTTATCAGGGGATTATTGAAGGCATTTTTTACAGAAAACACCTTCAATAA
1 AATCGCCTGCAATATTTTATCAGGGGATTATTGAAGGCATTTTTTACAAAAAACACCTTCAATAA
* * *
12957095 TCTCCTAAAATTTTTTATGAGAAATTATTGAAGTTGCATTTTGAAGAAAACGCCTTTAATAATCC
66 TCCCCTAAAATTTTTTATAAAAAATTATTGAAGTTGCATTTTGAAGAAAACGCCTTTAATAATCC
* *
12957160 CCTCTAATATTTTATAAGAGGATTATTGAAGGCATTTTTTGCAAAAAAAACACCTTCAATAATCT
131 CCTCTAATATTTTATAAGAGGATTATTGAAGGCATTTTTTGC-AAAAAAACACCTTCAATAAACC
12957225 CTTGAAATTTTTTATAGGAAATTATTGAAGGCGTATTTTGAAAAAAATACCTTTAATAATCCCTT
195 CTTGAAATTTTTTATAGGAAATTATTGAAGGCGTATTTTGAAAAAAATACCTTTAATAATCCCTT
*
12957290 TAAATTTTTTTAAAAAATTATTCAAGGTAATTTTGCATAAAATGTCTTTAATAATCCTCTTATAT
260 TAAATTTTTTTAAAAAATTATTCAAGGTAATTTTGCATAAAATGTCTTCAATAATCCTCTTATAT
*
12957355 TTTGACGAGAAAATTATTGAAGGTGTTTTTTTACTAAAAATGCCTTTAATAATCCCCTTAAATTT
325 TTTGACGAGAAAATTATTGAAGGTG-TTTTTTACTAAAAATACCTTTAATAATCCCCTTAAATTT
*
12957420 TTTAAAGGAATTTATTGAAGGTGTTTTTTTACAAAAAA-TGCTTTCAATAATCCTCTCCAAATTT
389 TTTAAAGGAATTTATTGAAGGTGTTCTTTTACAAAAAACT-CTTTCAATAATCCTCTCCAAATTT
*
12957484 TAATAATCCCTTAAAAAAAATTTTAAAAAATTATTAAAGGTATTTTTTATAGATAACGCCTTTAA
453 TAATAATCCCTTAAAAAAAATTTTAAAAAATTATTAAAGGCATTTTTTATAGATAACGCCTTTAA
12957549 TAATCTCCTTAAATTTTTTATCAAAGGATTATTGAA-GGCATTTTTAGTCACAAATGCCTTTAAA
518 TAATCTCCTTAAATTTTTTATCAAAGGATTATT-AATGGCATTTTTAGTCACAAATGCCTTTAAA
12957613 AATCAAGAAAATTATTAAGATGTTTTTTATAGAGAACGCATTCAATAATCCCTTCCAATTTTTAT
582 AATCAAGAAAATTATTAAGATGTTTTTTATAGAGAACGCATTCAATAATCCCTTCCAATTTTTAT
* *
12957678 CAAGGGATTATTGAGGCATTTTTTTGTAGAAAACACCTTCAATAATCCCTTACAATTTTTTATTA
647 CAAGGGATTATTGAGACATTTTTTTGTAGAAAACACCTTCAATAAT--CTTACAATTTTTTATCA
*
12957743 GGGGATTATTGAAG
710 GAGGATTATTGAAG
12957757 ATGTTTGTAG
Statistics
Matches: 688, Mismatches: 32, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
753 190 0.28
754 201 0.29
755 292 0.42
756 5 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (750 bp):
AATCGCCTGCAATATTTTATCAGGGGATTATTGAAGGCATTTTTTACAAAAAACACCTTCAATAA
TCCCCTAAAATTTTTTATAAAAAATTATTGAAGTTGCATTTTGAAGAAAACGCCTTTAATAATCC
CCTCTAATATTTTATAAGAGGATTATTGAAGGCATTTTTTGCAAAAAAACACCTTCAATAAACCC
TTGAAATTTTTTATAGGAAATTATTGAAGGCGTATTTTGAAAAAAATACCTTTAATAATCCCTTT
AAATTTTTTTAAAAAATTATTCAAGGTAATTTTGCATAAAATGTCTTCAATAATCCTCTTATATT
TTGACGAGAAAATTATTGAAGGTGTTTTTTACTAAAAATACCTTTAATAATCCCCTTAAATTTTT
TAAAGGAATTTATTGAAGGTGTTCTTTTACAAAAAACTCTTTCAATAATCCTCTCCAAATTTTAA
TAATCCCTTAAAAAAAATTTTAAAAAATTATTAAAGGCATTTTTTATAGATAACGCCTTTAATAA
TCTCCTTAAATTTTTTATCAAAGGATTATTAATGGCATTTTTAGTCACAAATGCCTTTAAAAATC
AAGAAAATTATTAAGATGTTTTTTATAGAGAACGCATTCAATAATCCCTTCCAATTTTTATCAAG
GGATTATTGAGACATTTTTTTGTAGAAAACACCTTCAATAATCTTACAATTTTTTATCAGAGGAT
TATTGAAGGCATATTTTGCAAAAAATGCCTTCAAT
Found at i:12957752 original size:63 final size:61
Alignment explanation
Indices: 12957635--12957812 Score: 216
Period size: 60 Copynumber: 2.9 Consensus size: 61
12957625 TATTAAGATG
* * * * * * *
12957635 TTTTTTATAGAGAACGCATTCAATAATCCCTTCCAA-TTTTTATCAAGGGATTATTGAGGCA
1 TTTTTTGTAGAAAACACCTTCAATAATCCCTTCCAATTTTTTATTAGGGGATTATTGAAG-A
*
12957696 TTTTTTTGTAGAAAACACCTTCAATAATCCCTTACAATTTTTTATTAGGGGATTATTGAAGA
1 -TTTTTTGTAGAAAACACCTTCAATAATCCCTTCCAATTTTTTATTAGGGGATTATTGAAGA
* * * *
12957758 -TGTTTGTAGAAAGCACCTCCAATAATCCCCTCCAATTTTTTATTAGGGGATTATT
1 TTTTTTGTAGAAAACACCTTCAATAATCCCTTCCAATTTTTTATTAGGGGATTATT
12957813 TAAGGTATTT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
60 50 0.49
62 32 0.31
63 20 0.20
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (61 bp):
TTTTTTGTAGAAAACACCTTCAATAATCCCTTCCAATTTTTTATTAGGGGATTATTGAAGA
Found at i:12959997 original size:21 final size:21
Alignment explanation
Indices: 12959953--12959997 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12959943 AGTCACTTAA
* *
12959953 TATTTATTTGTTTATTATATT
1 TATTGATTTGTTTATTATACT
12959974 TATTGATTTGTTT-TTATTACT
1 TATTGATTTGTTTATTA-TACT
12959995 TAT
1 TAT
12959998 ATTTCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TATTGATTTGTTTATTATACT
Found at i:12961311 original size:24 final size:25
Alignment explanation
Indices: 12961283--12961330 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
12961273 TAGATTATAA
*
12961283 ATATTGGTTTAATAT-TATTGGTAT
1 ATATTGGTTTAATATCAATTGGTAT
* *
12961307 ATATTTGTTTTATATCAATTGGTA
1 ATATTGGTTTAATATCAATTGGTA
12961331 GCTTATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.54
Consensus pattern (25 bp):
ATATTGGTTTAATATCAATTGGTAT
Found at i:12961550 original size:35 final size:35
Alignment explanation
Indices: 12961498--12961569 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
12961488 ATATATAAAC
*
12961498 CAAATGTTTTATAGGCATAAACCAACAACTGACTT
1 CAAATGTTTTATAGGCATAAACCAACAACTAACTT
* * * *
12961533 CAAATGTTTTTTGGGCATGAACCAACAAGTAACTT
1 CAAATGTTTTATAGGCATAAACCAACAACTAACTT
12961568 CA
1 CA
12961570 CATATATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (35 bp):
CAAATGTTTTATAGGCATAAACCAACAACTAACTT
Found at i:12961818 original size:64 final size:65
Alignment explanation
Indices: 12961750--12961875 Score: 164
Period size: 65 Copynumber: 2.0 Consensus size: 65
12961740 ATGTTTTCGG
* * *
12961750 CCAAAAATGCCTTTAATAATC-CTTTCAAAAAAATTTTCTATGGATTATTAAAGGCCTTTTTTTC
1 CCAAAAATGCCTTCAATAATCTCTTTCAAAAAAATTTTCAATGGATTATTAAAGGCATTTTTTTC
* * * ** *
12961814 CCAAAAATGCCTTCAATATTCTTTTTCCAAAATTTTTTGAATGGATTATTAAAGGCATTTTT
1 CCAAAAATGCCTTCAATAATCTCTTTCAAAAAAATTTTCAATGGATTATTAAAGGCATTTTT
12961876 GGCTAGAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
64 19 0.37
65 33 0.63
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (65 bp):
CCAAAAATGCCTTCAATAATCTCTTTCAAAAAAATTTTCAATGGATTATTAAAGGCATTTTTTTC
Found at i:12962126 original size:61 final size:62
Alignment explanation
Indices: 12962061--12962288 Score: 197
Period size: 61 Copynumber: 3.7 Consensus size: 62
12962051 TTTTTCACAG
*
12962061 AAAATGCCTTCAATAATCACTTTCATTTTTTATGAGGGGA-TATTGAAAGCGTTGTCTGCCA
1 AAAATGCCTTCAATAATCACTTTCATTTTTTATGAGGGGATTATTGAAGGCGTTGTCTGCCA
* * * * *
12962122 AAAATG-TTGTCAATATTCA-TTGACAATTTTTTA-G-GAGAATTATTGAAGGCGTT-TCTAG-C
1 AAAATGCCT-TCAATAATCACTT-TC-ATTTTTTATGAGGGGATTATTGAAGGCGTTGTCT-GCC
12962181 A
62 A
* * * * * *
12962182 GAAAATACCTTCAATAATCGCCTTCATTTTTT-T-AGGGGATTATTCAAGGCATTGTCTACCA
1 -AAAATGCCTTCAATAATCACTTTCATTTTTTATGAGGGGATTATTGAAGGCGTTGTCTGCCA
* *
12962243 AAAATGCCTTCAATAATCCCCTATCCA-TTTTTATGAGGGGATTATT
1 AAAATGCCTTCAATAAT-CACT-TTCATTTTTTATGAGGGGATTATT
12962289 CAAGAAAATG
Statistics
Matches: 130, Mismatches: 21, Indels: 30
0.72 0.12 0.17
Matches are distributed among these distances:
60 49 0.38
61 56 0.43
62 14 0.11
63 11 0.08
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (62 bp):
AAAATGCCTTCAATAATCACTTTCATTTTTTATGAGGGGATTATTGAAGGCGTTGTCTGCCA
Found at i:12962247 original size:60 final size:62
Alignment explanation
Indices: 12962148--12962292 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 62
12962138 TCATTGACAA
* * * * *
12962148 TTTTTTAGGAGAATTATTGAAGGCGTTTCTAGCAGAAAATACCTTCAATAATCGCCT-T-CAT
1 TTTTTTAGG-GGATTATTCAAGGCATTTCTACCAGAAAATACCTTCAATAATCCCCTATCCAT
*
12962209 TTTTTTAGGGGATTATTCAAGGCATTGTCTACCA-AAAATGCCTTCAATAATCCCCTATCCAT
1 TTTTTTAGGGGATTATTCAAGGCATT-TCTACCAGAAAATACCTTCAATAATCCCCTATCCAT
*
12962271 TTTTATGAGGGGATTATTCAAG
1 TTTT-TTAGGGGATTATTCAAG
12962293 AAAATGCCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
60 34 0.47
61 16 0.22
62 7 0.10
63 16 0.22
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (62 bp):
TTTTTTAGGGGATTATTCAAGGCATTTCTACCAGAAAATACCTTCAATAATCCCCTATCCAT
Found at i:12962274 original size:122 final size:122
Alignment explanation
Indices: 12962039--12962257 Score: 275
Period size: 122 Copynumber: 1.8 Consensus size: 122
12962029 ACAAGGATAT
* * * *
12962039 TTATTGAAGGTGTTTTTCACAGAAAATGCCTTCAATAATCACTTTCATTTTTTATGAGGGGATAT
1 TTATTGAAGGCGTTTCTCACAGAAAATACCTTCAATAATCACCTTCATTTTTTATGAGGGGATAT
* * * * * *
12962104 TGAAAGCGTTGTCTGCCAAAAATGTTGTCAATATTCATTGACAATTTTTTAGGAGAA
66 TCAAAGCATTGTCTACCAAAAATGCTGTCAATATCCACTGACAATTTTTTAGGAGAA
*
12962161 TTATTGAAGGCGTTTCT-AGCAGAAAATACCTTCAATAATCGCCTTCATTTTTT-T-AGGGGATT
1 TTATTGAAGGCGTTTCTCA-CAGAAAATACCTTCAATAATCACCTTCATTTTTTATGAGGGGA-T
*
12962223 ATTCAAGGCATTGTCTACCAAAAATGCCT-TCAATA
64 ATTCAAAGCATTGTCTACCAAAAATG-CTGTCAATA
12962258 ATCCCCTATC
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
120 6 0.07
121 31 0.37
122 47 0.56
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (122 bp):
TTATTGAAGGCGTTTCTCACAGAAAATACCTTCAATAATCACCTTCATTTTTTATGAGGGGATAT
TCAAAGCATTGTCTACCAAAAATGCTGTCAATATCCACTGACAATTTTTTAGGAGAA
Found at i:12964552 original size:21 final size:21
Alignment explanation
Indices: 12964510--12964552 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12964500 AGGGTTAGTA
** * *
12964510 AACATGATATGTACAAAGAAT
1 AACATGATATACAAAAAAAAT
12964531 AACATGATATACAAAAAAAAT
1 AACATGATATACAAAAAAAAT
12964552 A
1 A
12964553 GCGTAAAAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (21 bp):
AACATGATATACAAAAAAAAT
Found at i:12965853 original size:19 final size:19
Alignment explanation
Indices: 12965829--12965883 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
12965819 TTTTAATTTA
12965829 AAGTAATGAGTAAAATAAT
1 AAGTAATGAGTAAAATAAT
*
12965848 AAGTAAAGA-TGAAAATAAT
1 AAGTAATGAGT-AAAATAAT
*
12965867 AA-TAATAAGTAAAATAA
1 AAGTAATGAGTAAAATAA
12965884 AAAAAATCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.24
Consensus pattern (19 bp):
AAGTAATGAGTAAAATAAT
Found at i:12965908 original size:11 final size:10
Alignment explanation
Indices: 12965894--12965942 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
12965884 AAAAAATCTA
12965894 AAAATCAAAT
1 AAAATCAAAT
12965904 GAAAATCAAAT
1 -AAAATCAAAT
12965915 AAAA--AAAGT
1 AAAATCAAA-T
12965924 AAAATCAAAT
1 AAAATCAAAT
*
12965934 CAAATCAAA
1 AAAATCAAA
12965943 ACAAAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 13 0.38
11 13 0.38
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.16
Consensus pattern (10 bp):
AAAATCAAAT
Found at i:12965920 original size:24 final size:24
Alignment explanation
Indices: 12965848--12965943 Score: 65
Period size: 24 Copynumber: 4.0 Consensus size: 24
12965838 GTAAAATAAT
*
12965848 AAGTAAAGATGAAAAT--AATAATAAT
1 AAGTAAA-AT-AAAATCAAATAA-AAA
* **
12965873 AAGTAAAATAAAA-AAAATCTAAA
1 AAGTAAAATAAAATCAAATAAAAA
*
12965896 AA-TCAAATGAAAATCAAATAAAAA
1 AAGTAAAAT-AAAATCAAATAAAAA
* *
12965920 AAGTAAAATCAAATCAAATCAAAA
1 AAGTAAAATAAAATCAAATAAAAA
12965944 CAAAAAATAG
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
22 5 0.09
23 12 0.21
24 27 0.48
25 12 0.21
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (24 bp):
AAGTAAAATAAAATCAAATAAAAA
Found at i:12965928 original size:30 final size:29
Alignment explanation
Indices: 12965894--12965950 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
12965884 AAAAAATCTA
12965894 AAAATCAAATGAAAATCAAATA-AAAAAAGT
1 AAAATCAAAT-AAAATCAAA-ACAAAAAAGT
*
12965924 AAAATCAAATCAAATCAAAACAAAAAA
1 AAAATCAAATAAAATCAAAACAAAAAA
12965951 TAGGATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 14 0.56
30 10 0.40
ACGTcount: A:0.72, C:0.11, G:0.04, T:0.14
Consensus pattern (29 bp):
AAAATCAAATAAAATCAAAACAAAAAAGT
Found at i:12966466 original size:38 final size:38
Alignment explanation
Indices: 12966392--12966467 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
12966382 CAAATTGATT
* ** *
12966392 ATGATTTTATTGTGATTTTGTAATATTTGATTAATTAA
1 ATGATTTTATTGTGATTTTGCAATATTACATGAATTAA
12966430 ATGATTTTATT-TGATTTTGCAATGATTACATGAATTAA
1 ATGATTTTATTGTGATTTTGCAAT-ATTACATGAATTAA
12966468 GCCCAAAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 11 0.33
38 22 0.67
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (38 bp):
ATGATTTTATTGTGATTTTGCAATATTACATGAATTAA
Found at i:12968015 original size:33 final size:36
Alignment explanation
Indices: 12967955--12968020 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 36
12967945 ATATTTTCAT
*
12967955 AATTATGATAAGATGAATATTATAATAAATTTAACC
1 AATTAAGATAAGATGAATATTATAATAAATTTAACC
*
12967991 AATTAAGATAAGA-G-A-ATTATAATAATTTTA
1 AATTAAGATAAGATGAATATTATAATAAATTTA
12968021 GTCAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 1 0.04
35 1 0.04
36 12 0.43
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (36 bp):
AATTAAGATAAGATGAATATTATAATAAATTTAACC
Found at i:12968027 original size:33 final size:33
Alignment explanation
Indices: 12967909--12968028 Score: 85
Period size: 33 Copynumber: 3.7 Consensus size: 33
12967899 TAGGTGAACT
*
12967909 ATTATAATAAATTTTGGTCAATTATA-ATAA-A-A
1 ATTATAAT-AATTTTAGTCAATTA-AGATAAGAGA
*
12967941 A-TAT-AT-ATTTTCA-T-AATTATGATAAGATGAA
1 ATTATAATAATTTT-AGTCAATTAAGATAAGA-G-A
* **
12967972 TATTATAATAAATTTAACCAATTAAGATAAGAGA
1 -ATTATAATAATTTTAGTCAATTAAGATAAGAGA
12968006 ATTATAATAATTTTAGTCAATTA
1 ATTATAATAATTTTAGTCAATTA
12968029 TAAGAATATG
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
27 9 0.13
28 7 0.10
30 2 0.03
31 4 0.06
32 2 0.03
33 23 0.34
34 4 0.06
35 5 0.07
36 12 0.18
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.40
Consensus pattern (33 bp):
ATTATAATAATTTTAGTCAATTAAGATAAGAGA
Found at i:12968197 original size:12 final size:12
Alignment explanation
Indices: 12968180--12968205 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12968170 GAAGGGTATT
12968180 TTAATAATTTTA
1 TTAATAATTTTA
12968192 TTAATAATTTTA
1 TTAATAATTTTA
12968204 TT
1 TT
12968206 GATTATGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAATAATTTTA
Found at i:12968661 original size:17 final size:16
Alignment explanation
Indices: 12968635--12968675 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
12968625 TTTCATATTT
12968635 AAAAATAAAAATTAAA
1 AAAAATAAAAATTAAA
*
12968651 AAAAATCAAAACTTAAA
1 AAAAAT-AAAAATTAAA
12968668 AAATAATA
1 AAA-AATA
12968676 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATAAAAATTAAA
Found at i:12968735 original size:25 final size:23
Alignment explanation
Indices: 12968681--12968736 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
12968671 TAATATTTTA
12968681 AAAATTTTTTAAAAAATAAAAAT
1 AAAATTTTTTAAAAAATAAAAAT
** * *
12968704 ATGATTTTTTATAAAATTTAAAAT
1 AAAATTTTTTA-AAAAATAAAAAT
12968728 GAAAATTTT
1 -AAAATTTT
12968737 AAAAGTCTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 9 0.36
24 10 0.40
25 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAATTTTTTAAAAAATAAAAAT
Found at i:12969063 original size:12 final size:13
Alignment explanation
Indices: 12969046--12969074 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12969036 TGTTTGTATA
12969046 TTTTC-AATTTTT
1 TTTTCAAATTTTT
12969058 TTTTCAAATTTTT
1 TTTTCAAATTTTT
12969071 TTTT
1 TTTT
12969075 TTTTGCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCAAATTTTT
Found at i:12971952 original size:20 final size:20
Alignment explanation
Indices: 12971900--12971952 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
12971890 ATATAAATAT
*
12971900 TTTTATATACTTAATAAATTAA
1 TTTTATAT--TTAATAAATAAA
*
12971922 TTTTTTATTTAATAATATAAA
1 TTTTATATTTAATAA-ATAAA
12971943 TTTTAT-TTTA
1 TTTTATATTTA
12971953 GATTTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.41
21 9 0.33
22 7 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTATATTTAATAAATAAA
Found at i:12973461 original size:18 final size:19
Alignment explanation
Indices: 12973438--12973473 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12973428 GTGAGTGTTA
*
12973438 AATTATTTGCTT-ACCTTC
1 AATTATGTGCTTAACCTTC
12973456 AATTATGTGCTTAACCTT
1 AATTATGTGCTTAACCTT
12973474 GATTGAAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.47
Consensus pattern (19 bp):
AATTATGTGCTTAACCTTC
Found at i:12984620 original size:5 final size:5
Alignment explanation
Indices: 12984610--12984637 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12984600 GCAGGGATAC
12984610 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
12984638 GAATTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:12986158 original size:20 final size:19
Alignment explanation
Indices: 12986133--12986177 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
12986123 ATGTACTTGA
*
12986133 TTTCACATAATTAACAAGAC
1 TTTCACAT-AGTAACAAGAC
* *
12986153 TTTCACCTAGTAGCAAGAC
1 TTTCACATAGTAACAAGAC
12986172 TTTCAC
1 TTTCAC
12986178 CTGGCATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (19 bp):
TTTCACATAGTAACAAGAC
Found at i:12987865 original size:26 final size:27
Alignment explanation
Indices: 12987829--12987882 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12987819 TGTTTAATCT
*
12987829 TAGACTTCATA-TTCTTCTTCCATTGC
1 TAGACTCCATATTTCTTCTTCCATTGC
* *
12987855 TAGACTCCATATTTCTTTTTTCATTGC
1 TAGACTCCATATTTCTTCTTCCATTGC
12987882 T
1 T
12987883 TTCATCCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.19, C:0.24, G:0.07, T:0.50
Consensus pattern (27 bp):
TAGACTCCATATTTCTTCTTCCATTGC
Found at i:12993441 original size:108 final size:110
Alignment explanation
Indices: 12993276--12993493 Score: 323
Period size: 108 Copynumber: 2.0 Consensus size: 110
12993266 GCAACGTGAG
* *
12993276 ATAGATAAATGATGCAAATACAAACAATCAATCAAATTGACCTATCTTATATACATTTAGTCCC-
1 ATAGATAAATGATGCAAATACAAACAATCAATCAAATTGACCTATCTTACATACATTTAATCCCT
* *
12993340 C-TTTTTATCACGATTTTTTAGAAAGAAAGTCAAGGGAGAAATAA
66 CTTTTTTATCACGATCTTTTAGAAAGAAAATCAAGGGAGAAATAA
* * * *
12993384 ATAGATAAATTATGTAAATACAAACAATCAATCAAATTTACCTATCTTACATGCATTTAATCCCT
1 ATAGATAAATGATGCAAATACAAACAATCAATCAAATTGACCTATCTTACATACATTTAATCCCT
* * *
12993449 CTTTTTTATCATGATCTTTTAGAGAGAAAATCAAGGGTGAAATAA
66 CTTTTTTATCACGATCTTTTAGAAAGAAAATCAAGGGAGAAATAA
12993494 GTTTTATTAT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 58 0.60
109 1 0.01
110 38 0.39
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (110 bp):
ATAGATAAATGATGCAAATACAAACAATCAATCAAATTGACCTATCTTACATACATTTAATCCCT
CTTTTTTATCACGATCTTTTAGAAAGAAAATCAAGGGAGAAATAA
Found at i:12994111 original size:20 final size:19
Alignment explanation
Indices: 12994086--12994141 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
12994076 CTCTCCTTTT
12994086 TTTTTTTTTGTTTTTCTCTC
1 TTTTTTTTT-TTTTTCTCTC
*
12994106 TTTTTTTTTTTATTTCTTTCC
1 TTTTTTTTTTT-TTTCTCT-C
* *
12994127 TTCTTTTTCTTTTTC
1 TTTTTTTTTTTTTTC
12994142 CCTTCACCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 10 0.32
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTTTTTCTCTC
Found at i:12994125 original size:24 final size:24
Alignment explanation
Indices: 12994075--12994140 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
12994065 CTTTTGAAAC
*
12994075 TCTCTCCTTTTTTTTTTTTTGTTTT
1 TCTCT-CTTTTTTTTTTTTTGTCTT
12994100 TCTCTCTTTTTTTTTTTATT-TCTT
1 TCTCTCTTTTTTTTTTT-TTGTCTT
*
12994124 TC-CTTCTTTTTCTTTTT
1 TCTC-TCTTTTTTTTTTT
12994141 CCCTTCACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 1 0.03
24 29 0.78
25 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (24 bp):
TCTCTCTTTTTTTTTTTTTGTCTT
Found at i:12994356 original size:14 final size:14
Alignment explanation
Indices: 12994339--12994370 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12994329 CCCTTTTTTT
*
12994339 TTTCTTTTTTTTCC
1 TTTCTTTTTTTCCC
12994353 TTTCTTTTTTTCCC
1 TTTCTTTTTTTCCC
12994367 TTTC
1 TTTC
12994371 ACTTTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTCTTTTTTTCCC
Found at i:12995598 original size:20 final size:20
Alignment explanation
Indices: 12995556--12995601 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12995546 TTCAAAGTTC
**
12995556 TTTTTTTGGATTTGTTTCCT
1 TTTTTTTGGATTTGTTTAAT
12995576 TTTTTTTAGGATTT-TTTAAT
1 TTTTTTT-GGATTTGTTTAAT
12995596 TTTTTT
1 TTTTTT
12995602 AAACTCCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.74
Consensus pattern (20 bp):
TTTTTTTGGATTTGTTTAAT
Found at i:12995663 original size:46 final size:45
Alignment explanation
Indices: 12995604--12995725 Score: 147
Period size: 48 Copynumber: 2.6 Consensus size: 45
12995594 ATTTTTTTAA
* * *
12995604 ACTCCACAGCTTTGAGAATAAATTTAGAAAAC-TCTCTCATTAGAG
1 ACTCCATAACTTTGAGAATAAATCTA-AAAACTTCTCTCATTAGAG
12995649 ACTCCATAAACTTTGAGAAAATAAATCTAAAAACTTCTCTCATTAGAG
1 ACTCCAT-AACTTTGAG--AATAAATCTAAAAACTTCTCTCATTAGAG
* * *
12995697 ATTCCATAACTTTTAAAATAAATCTAAAA
1 ACTCCATAACTTTGAGAATAAATCTAAAA
12995726 GCTCATTTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
45 19 0.28
46 8 0.12
47 12 0.18
48 28 0.42
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (45 bp):
ACTCCATAACTTTGAGAATAAATCTAAAAACTTCTCTCATTAGAG
Found at i:12996012 original size:152 final size:147
Alignment explanation
Indices: 12995738--12996063 Score: 426
Period size: 152 Copynumber: 2.2 Consensus size: 147
12995728 TCATTTTGAA
* *
12995738 AAAAGGCTCAACAATTTTAAAAATCTCATCTTGGAAAAAGCTTCTTTAAACAAAGGCTCAATAAT
1 AAAA-GCTCAACAACTTTAAAAATTTCATCTTGGAAAAAGCTTCTTTAAACAAAGGCTCAATAAT
12995803 TTTAAAAATCTCATATGAAAAAAGCTTTTTTTAACAAAGGCTCAACAACTTTAAAAATCTCATCT
65 TTTAAAAATCTCATATGAAAAAAGC-TTTTTTAACAAAGGCTCAACAACTTTAAAAATCTCATCT
12995868 AGAAAAAAAAGACTT-TTTTAAAT
129 AG---AAAAA-A-TTCTTTTAAAT
* * * *
12995891 ATAAGCTCATCAACTTTAAAAATTTCAT-TTAGGGAAAAGGC-TCTTTTAAATAAAGGCTCAATA
1 AAAAGCTCAACAACTTTAAAAATTTCATCTT--GGAAAAAGCTTC-TTTAAACAAAGGCTCAATA
** * *
12995954 ATTTTAAAAATCTCATATGGGAAAAGC-TTTTTAAGCAAAGGCTCAATAATTTTAAAAATCTCAT
63 ATTTTAAAAATCTCATATGAAAAAAGCTTTTTTAA-CAAAGGCTCAACAACTTTAAAAATCTCAT
*
12996018 CTAGGAAAAATTCTTTTAAAT
127 CTAGAAAAAATTCTTTTAAAT
12996039 AAAAGCTCAACAACTTTAAAAATTT
1 AAAAGCTCAACAACTTTAAAAATTT
12996064 TAGATAAAAG
Statistics
Matches: 155, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
147 2 0.01
148 32 0.21
149 4 0.03
151 9 0.06
152 54 0.35
153 54 0.35
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (147 bp):
AAAAGCTCAACAACTTTAAAAATTTCATCTTGGAAAAAGCTTCTTTAAACAAAGGCTCAATAATT
TTAAAAATCTCATATGAAAAAAGCTTTTTTAACAAAGGCTCAACAACTTTAAAAATCTCATCTAG
AAAAAATTCTTTTAAAT
Found at i:12996057 original size:49 final size:49
Alignment explanation
Indices: 12995731--12996061 Score: 303
Period size: 49 Copynumber: 6.7 Consensus size: 49
12995721 TAAAAGCTCA
* *
12995731 TTTTGAAA-AAAGGCTCAACAATTTTAAAAATCTCATCTTGGAAAAAGCT
1 TTTTTAAACAAAGGCTCAACAATTTTAAAAATCTCATCTAGGAAAAA-CT
* * * *
12995780 TCTTTAAACAAAGGCTCAATAATTTTAAAAATCTCATAT-GAAAAAAGCT
1 TTTTTAAACAAAGGCTCAACAATTTTAAAAATCTCATCTAGGAAAAA-CT
* * *
12995829 TTTTTTAACAAAGGCTCAACAACTTTAAAAATCTCATCTAGAAAAAAAAGACT
1 TTTTTAAACAAAGGCTCAACAATTTTAAAAATCTCATCTAG---GAAAA-ACT
* * * * * *
12995882 TTTTTAAATATAA-GCTCATCAACTTTAAAAATTTCATTTAGGGAAAAGGCT
1 TTTTTAAACA-AAGGCTCAACAATTTTAAAAATCTCATCTA-GGAAAA-ACT
* * * * * *
12995933 CTTTTAAATAAAGGCTCAATAATTTTAAAAATCTCATATGGGAAAAGC-
1 TTTTTAAACAAAGGCTCAACAATTTTAAAAATCTCATCTAGGAAAAACT
* *
12995981 TTTTTAAGCAAAGGCTCAATAATTTTAAAAATCTCATCTAGGAAAAA-T
1 TTTTTAAACAAAGGCTCAACAATTTTAAAAATCTCATCTAGGAAAAACT
* * *
12996029 TCTTTTAAATAAAAGCTCAACAACTTTAAAAAT
1 T-TTTTAAACAAAGGCTCAACAATTTTAAAAAT
12996062 TTTAGATAAA
Statistics
Matches: 236, Mismatches: 35, Indels: 22
0.81 0.12 0.08
Matches are distributed among these distances:
48 42 0.18
49 77 0.33
50 37 0.16
51 37 0.16
53 39 0.17
54 4 0.02
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (49 bp):
TTTTTAAACAAAGGCTCAACAATTTTAAAAATCTCATCTAGGAAAAACT
Found at i:12996445 original size:21 final size:22
Alignment explanation
Indices: 12996402--12996447 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
12996392 CTAAAAAATT
*
12996402 TTTATTTTTTTTCTTTTTCCAC
1 TTTATTTTTTTTCTATTTCCAC
12996424 TTTA-TTTTTTTCTCATTT-CAC
1 TTTATTTTTTTTCT-ATTTCCAC
12996445 TTT
1 TTT
12996448 TTCCAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATTTTTTTTCTATTTCCAC
Found at i:12997168 original size:22 final size:23
Alignment explanation
Indices: 12997143--12997192 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
12997133 TCTTTTCAGG
12997143 TTTTCAATCTTT-TTTTTTT-TAT
1 TTTTC-ATCTTTATTTTTTTATAT
*
12997165 TTTTCATTTTTCATTTTTTTATAT
1 TTTTCATCTTT-ATTTTTTTATAT
12997189 TTTT
1 TTTT
12997193 TGTTTTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 7 0.29
24 7 0.29
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCATCTTTATTTTTTTATAT
Found at i:12997181 original size:24 final size:24
Alignment explanation
Indices: 12997154--12997217 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
12997144 TTTCAATCTT
12997154 TTTTTTTTTATTTTTCATTTTTCA
1 TTTTTTTTTATTTTTCATTTTTCA
* ** *
12997178 TTTTTTTATATTTTTTGTTTTTCC
1 TTTTTTTTTATTTTTCATTTTTCA
*
12997202 TTTTCTTTT-TTTTTCA
1 TTTTTTTTTATTTTTCA
12997218 AATATAATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 5 0.16
24 27 0.84
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTTTTTTATTTTTCATTTTTCA
Found at i:12997199 original size:31 final size:30
Alignment explanation
Indices: 12997157--12997214 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12997147 CAATCTTTTT
*
12997157 TTTTTTATTTTTCATTTTTCATTTTTTTATA
1 TTTTTTATTTTTC-CTTTTCATTTTTTTATA
* *
12997188 TTTTTTGTTTTTCCTTTTCTTTTTTTT
1 TTTTTTATTTTTCCTTTTCATTTTTTT
12997215 TCAAATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (30 bp):
TTTTTTATTTTTCCTTTTCATTTTTTTATA
Found at i:13006950 original size:14 final size:15
Alignment explanation
Indices: 13006915--13006951 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13006905 TTAACTCAAT
13006915 TAAATTGTTTTATTG
1 TAAATTGTTTTATTG
*
13006930 TAAATTGTTTTGTTG
1 TAAATTGTTTTATTG
13006945 -AAATTGT
1 TAAATTGT
13006952 CTAAAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (15 bp):
TAAATTGTTTTATTG
Found at i:13009645 original size:19 final size:19
Alignment explanation
Indices: 13009621--13009659 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13009611 TTTCAAACTC
* *
13009621 TCTTTTTTCTTTTTTTCTT
1 TCTTTTTCCTTTCTTTCTT
13009640 TCTTTTTCCTTTCTTTCTT
1 TCTTTTTCCTTTCTTTCTT
13009659 T
1 T
13009660 TTCTATCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TCTTTTTCCTTTCTTTCTT
Found at i:13009652 original size:15 final size:15
Alignment explanation
Indices: 13009634--13009662 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13009624 TTTTTCTTTT
13009634 TTTCTTTCTTTTTCC
1 TTTCTTTCTTTTTCC
13009649 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
13009663 TATCTTCTTC
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTTCTTTTTCC
Found at i:13012549 original size:33 final size:33
Alignment explanation
Indices: 13012506--13012573 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
13012496 GTGTATGTGA
* *
13012506 ATGATGATGACGATGATGAGATTATTATGATTG
1 ATGATAATGACAATGATGAGATTATTATGATTG
* *
13012539 ATGATAATGACAATTATGAGATTATTGTGATTG
1 ATGATAATGACAATGATGAGATTATTATGATTG
13012572 AT
1 AT
13012574 ATGCCTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (33 bp):
ATGATAATGACAATGATGAGATTATTATGATTG
Found at i:13016153 original size:15 final size:15
Alignment explanation
Indices: 13016119--13016149 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13016109 TTTAAAAAGA
13016119 TGTTTTTTTTTATTT
1 TGTTTTTTTTTATTT
13016134 TGTTTTTTTTT-TTT
1 TGTTTTTTTTTATTT
13016148 TG
1 TG
13016150 GTTTCCAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (15 bp):
TGTTTTTTTTTATTT
Found at i:13021273 original size:15 final size:15
Alignment explanation
Indices: 13021253--13021284 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13021243 ATTTACTAAC
*
13021253 TGCTATAGGTGTATT
1 TGCTATAAGTGTATT
13021268 TGCTATAAGTGTATT
1 TGCTATAAGTGTATT
13021283 TG
1 TG
13021285 TTCCTGTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.47
Consensus pattern (15 bp):
TGCTATAAGTGTATT
Found at i:13021878 original size:12 final size:12
Alignment explanation
Indices: 13021861--13021889 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
13021851 TCTTATCCTT
13021861 CCCTTTCCTTTC
1 CCCTTTCCTTTC
13021873 CCCTTTCCTTTC
1 CCCTTTCCTTTC
13021885 CCCTT
1 CCCTT
13021890 CCCCTTCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CCCTTTCCTTTC
Found at i:13022671 original size:17 final size:16
Alignment explanation
Indices: 13022642--13022684 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
13022632 TTTATTTAAG
* *
13022642 ATTTAATAATAAATTT
1 ATTTAAAAATAAAATT
*
13022658 TTTTAAGAAATAAAATT
1 ATTTAA-AAATAAAATT
13022675 ATTTAAAAAT
1 ATTTAAAAAT
13022685 CTTTATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTAAAAATAAAATT
Found at i:13025788 original size:10 final size:9
Alignment explanation
Indices: 13025765--13025828 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
13025755 ACTATTATAT
*
13025765 ATATTTTTC
1 ATATTTTTA
13025774 ATATTTTTA
1 ATATTTTTA
*
13025783 AT-TATTTA
1 ATATTTTTA
*
13025791 AAATTTTT-
1 ATATTTTTA
13025799 ATATATTTTA
1 ATAT-TTTTA
13025809 ATTAATTTTTA
1 A-T-ATTTTTA
*
13025820 ATATATTTA
1 ATATTTTTA
13025829 TTTTATGGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 9 0.20
9 24 0.55
10 2 0.05
11 7 0.16
12 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
ATATTTTTA
Found at i:13025823 original size:21 final size:19
Alignment explanation
Indices: 13025776--13025827 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 19
13025766 TATTTTTCAT
13025776 ATTTTTAAT-TA-TTTAAA
1 ATTTTTAATATATTTTAAA
13025793 ATTTTT-ATATATTTTAATTA
1 ATTTTTAATATATTTTAA--A
13025813 ATTTTTAATATATTT
1 ATTTTTAATATATTT
13025828 ATTTTATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.07
17 8 0.27
18 5 0.17
20 7 0.23
21 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTAATATATTTTAAA
Found at i:13026185 original size:15 final size:15
Alignment explanation
Indices: 13026161--13026190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13026151 CTAAGGTGAA
*
13026161 ATTTTTTTTGGTTTT
1 ATTTTCTTTGGTTTT
13026176 ATTTTCTTTGGTTTT
1 ATTTTCTTTGGTTTT
13026191 TTAGTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.03, G:0.13, T:0.77
Consensus pattern (15 bp):
ATTTTCTTTGGTTTT
Done.