Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 48 of 276
Found at i:14909162 original size:11 final size:13
Alignment explanation
Indices: 14909131--14909162 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14909121 ACTGACTTAG
14909131 GCCACACAGCCAA
1 GCCACACAGCCAA
14909144 GCCACACAGCCAA
1 GCCACACAGCCAA
14909157 GCCACA
1 GCCACA
14909163 TGCTCTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.47, G:0.16, T:0.00
Consensus pattern (13 bp):
GCCACACAGCCAA
Found at i:14917110 original size:49 final size:50
Alignment explanation
Indices: 14916984--14917118 Score: 137
Period size: 49 Copynumber: 2.7 Consensus size: 50
14916974 ACACCATTTG
* * * *
14916984 TGGACAAGCCACCACTGATTTGTAGATAAACTGCCATTGAAAACACTTGG
1 TGGACAAGCCACCACTGATTTGAAAATAAACTGCCAGTGAAAACACTTGA
* ** * * * * * *
14917034 TGCACAAGCCACCGTTGATATGCAAATATATTTCCAGTG-AAACACTTTA
1 TGGACAAGCCACCACTGATTTGAAAATAAACTGCCAGTGAAAACACTTGA
*
14917083 TGGACAAGCCACCACTGATTTGAAAATAAATTGCCA
1 TGGACAAGCCACCACTGATTTGAAAATAAACTGCCA
14917119 CCTACTTCCA
Statistics
Matches: 66, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
49 37 0.56
50 29 0.44
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (50 bp):
TGGACAAGCCACCACTGATTTGAAAATAAACTGCCAGTGAAAACACTTGA
Found at i:14929023 original size:23 final size:24
Alignment explanation
Indices: 14928978--14929024 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14928968 AAAATGTCAA
*
14928978 AAATTTTACTTATACTAATATTTAT
1 AAATTTTA-TTATACTAAAATTTAT
*
14929003 AAATTTT-TTATAGTAAAATTTA
1 AAATTTTATTATACTAAAATTTA
14929025 AATTAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
25 7 0.35
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTTTATTATACTAAAATTTAT
Found at i:14935427 original size:18 final size:18
Alignment explanation
Indices: 14935404--14935439 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14935394 GAGCATATTC
14935404 ATAAGGAAAAACTATAGG
1 ATAAGGAAAAACTATAGG
14935422 ATAAGGAAAAACTATAGG
1 ATAAGGAAAAACTATAGG
14935440 TCTTCTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (18 bp):
ATAAGGAAAAACTATAGG
Found at i:14941037 original size:21 final size:22
Alignment explanation
Indices: 14941008--14941054 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
14940998 CAGAAGGAGT
*
14941008 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14941030 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14941051 GAGT
1 GAGT
14941055 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:14942797 original size:26 final size:24
Alignment explanation
Indices: 14942759--14942806 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
14942749 TCTTCAAATT
14942759 ACTTATTCAAAAAGTATCATACTTCA
1 ACTTATTCAAAAA--ATCATACTTCA
**
14942785 ACTTATTTGAAAAATCATACTT
1 ACTTATTCAAAAAATCATACTT
14942807 TCTTAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
26 11 0.55
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (24 bp):
ACTTATTCAAAAAATCATACTTCA
Found at i:14943928 original size:26 final size:26
Alignment explanation
Indices: 14943870--14943922 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14943860 TTTAAAATTT
* *
14943870 ATATATTTTCTTCTATTAA-AAATATA
1 ATATATTTTATTCTA-TAATAATTATA
14943896 ATATATTTTATTCTATAATAATTATA
1 ATATATTTTATTCTATAATAATTATA
14943922 A
1 A
14943923 ATTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (26 bp):
ATATATTTTATTCTATAATAATTATA
Found at i:14948599 original size:12 final size:12
Alignment explanation
Indices: 14948582--14948607 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14948572 GATAGGTAGA
14948582 GACATTAAGGTG
1 GACATTAAGGTG
14948594 GACATTAAGGTG
1 GACATTAAGGTG
14948606 GA
1 GA
14948608 AATTTTGTAA
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:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (12 bp):
GACATTAAGGTG
Found at i:14955824 original size:18 final size:18
Alignment explanation
Indices: 14955801--14955836 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14955791 AATAGCAAGG
14955801 CATATAGGTTCATAGTAA
1 CATATAGGTTCATAGTAA
*
14955819 CATATAGGTTCATGGTAA
1 CATATAGGTTCATAGTAA
14955837 TTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (18 bp):
CATATAGGTTCATAGTAA
Found at i:14958525 original size:28 final size:28
Alignment explanation
Indices: 14958485--14958540 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
14958475 TTCATTTGGA
14958485 AATCATACCATCAAATTCTAATATTCTT
1 AATCATACCATCAAATTCTAATATTCTT
14958513 AATCATACCATCAAATTCTAATATTCTT
1 AATCATACCATCAAATTCTAATATTCTT
14958541 TCTTTCCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (28 bp):
AATCATACCATCAAATTCTAATATTCTT
Found at i:14959667 original size:29 final size:30
Alignment explanation
Indices: 14959612--14959669 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 30
14959602 ATTTTTACGG
14959612 ATTTTGATTTAATGTATAATTTGATACATAA
1 ATTTTGATTT-ATGTATAATTTGATACATAA
14959643 ATTTTGATTT-TGTATAATTAT-ATACAT
1 ATTTTGATTTATGTATAATT-TGATACAT
14959670 TATACTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 15 0.58
30 1 0.04
31 10 0.38
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (30 bp):
ATTTTGATTTATGTATAATTTGATACATAA
Found at i:14961916 original size:16 final size:15
Alignment explanation
Indices: 14961895--14961942 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
14961885 GATGTGAATA
14961895 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
14961911 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
14961926 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
14961942 A
1 A
14961943 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:14961918 original size:24 final size:24
Alignment explanation
Indices: 14961891--14961946 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
14961881 TAATGATGTG
*
14961891 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
14961915 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
14961939 AATAATAA
1 AATAATAA
14961947 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:14961925 original size:8 final size:8
Alignment explanation
Indices: 14961891--14961942 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
14961881 TAATGATGTG
*
14961891 AATAATAA
1 AATATTAA
14961899 AATATATAA
1 AATAT-TAA
14961908 AATA-TAA
1 AATATTAA
14961915 AATATTAA
1 AATATTAA
*
14961923 AATATCAA
1 AATATTAA
*
14961931 AATATTAG
1 AATATTAA
14961939 AATA
1 AATA
14961943 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:14962110 original size:20 final size:20
Alignment explanation
Indices: 14962058--14962114 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
14962048 ATACTACATC
*
14962058 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
14962079 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
14962098 AATATGTACATAATATA
1 AATATGTACATAATATA
14962115 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:14962182 original size:30 final size:29
Alignment explanation
Indices: 14962146--14962207 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
14962136 TATAGTTAAG
14962146 ATATATACATAAGATAACATGTAAAAATAT
1 ATATATACATAAGATAACAT-TAAAAATAT
* * * *
14962176 ATATATATATAATATAATATTAAAGATAT
1 ATATATACATAAGATAACATTAAAAATAT
14962205 ATA
1 ATA
14962208 CATAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.35
Consensus pattern (29 bp):
ATATATACATAAGATAACATTAAAAATAT
Found at i:14962204 original size:25 final size:25
Alignment explanation
Indices: 14962176--14962309 Score: 95
Period size: 25 Copynumber: 5.6 Consensus size: 25
14962166 GTAAAAATAT
14962176 ATATATATATAATATAATATTAAAG
1 ATATATATATAATATAATATTAAAG
* * * * *
14962201 ATATATACATAAAATAGTATAAAAT
1 ATATATATATAATATAATATTAAAG
*
14962226 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATATA--TAATATA-ATATTAAAG
** *
14962252 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATATATAATATAATATTAAAG
14962274 A-ATATATATAATATAATATT-AAG
1 ATATATATATAATATAATATTAAAG
*
14962297 AAATATA-ATAATA
1 ATATATATATAATA
14962310 ACAAAAAAGG
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.21
24 6 0.07
25 33 0.39
26 1 0.01
27 10 0.12
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATATATATAATATAATATTAAAG
Found at i:14962231 original size:27 final size:27
Alignment explanation
Indices: 14962099--14962244 Score: 108
Period size: 25 Copynumber: 5.6 Consensus size: 27
14962089 AATATTAAAA
* * *
14962099 ATATGTACATAATATAGTGTTAAA-A-
1 ATATATACATAATATAGTATAAAATAT
* *
14962124 ATACATACATAATATAGT-TAAGATAT
1 ATATATACATAATATAGTATAAAATAT
* * *
14962150 ATACATAAGATAACAT-GTA-AAAATAT
1 ATATAT-ACATAATATAGTATAAAATAT
* * * *
14962176 ATATATATATAATATAATAT-TAA-AG
1 ATATATACATAATATAGTATAAAATAT
*
14962201 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAGTATAAAATAT
*
14962228 ATATATACGTAATATAG
1 ATATATACATAATATAG
14962245 AATTTAAAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
24 3 0.03
25 42 0.45
26 25 0.27
27 23 0.25
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (27 bp):
ATATATACATAATATAGTATAAAATAT
Found at i:14962832 original size:30 final size:30
Alignment explanation
Indices: 14962796--14962970 Score: 305
Period size: 30 Copynumber: 5.8 Consensus size: 30
14962786 TAGGTACAAG
* *
14962796 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
14962826 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
14962856 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
14962886 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
14962916 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
14962946 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
14962971 TGAGAAAAGT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 137 1.00
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:14963737 original size:14 final size:14
Alignment explanation
Indices: 14963718--14963767 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
14963708 GAGTTGATTT
14963718 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
14963732 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
14963747 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
14963761 TT-AAAAA
1 TTGAAAAA
14963768 GACCTCAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 4 0.12
14 15 0.45
15 14 0.42
ACGTcount: A:0.64, C:0.06, G:0.14, T:0.16
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:14963907 original size:162 final size:164
Alignment explanation
Indices: 14963735--14964241 Score: 628
Period size: 162 Copynumber: 3.0 Consensus size: 164
14963725 ACAGAAATTG
14963735 AAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCAC
1 AAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCAC
* * * *
14963800 CTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTGAATTTACCTTGGCGTCTTGAGGCTCA
66 CTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTAGGCGTCTAGAGGCTCA
14963865 ACTCACTTCTCGCAATATGAGTTGATTTTTT-TT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTATT
** *
14963898 -ACGAACAGAAATTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCA
1 AAAAAACAGAAATTGAA-AAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCA
* * **
14963961 CCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGC
65 CCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCT-AG-GCGTCTAGAGGC
14964026 TCAACTCACCTT-TCGCAATATGAGTTGATTTTTGAAAAATATAAATT
128 TCAACTCA-CTTCTCGCAATATGAGTTGA-TTTT------T-T--ATT
*
14964073 GAAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCA
1 -AAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCA
* * *
14964138 CCTCTCACAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCTCA-GCGTGTAAGC
65 CCTCTCGCAATATGAGTTGA--TTTTTGACAAACAGAAATTG-AAATTACCT-AGGCGTCT-AG-
*
14964202 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
124 --AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
14964242 GAAAAATAGA
Statistics
Matches: 296, Mismatches: 22, Indels: 41
0.82 0.06 0.11
Matches are distributed among these distances:
162 103 0.35
163 3 0.01
164 33 0.11
165 7 0.02
171 1 0.00
172 1 0.00
174 1 0.00
175 3 0.01
176 2 0.01
177 74 0.25
178 3 0.01
179 21 0.07
180 10 0.03
181 6 0.02
182 28 0.09
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (164 bp):
AAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTAGGCGTCTAGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTATT
Found at i:14963919 original size:14 final size:14
Alignment explanation
Indices: 14963900--14963927 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14963890 TTTTTTTTAC
14963900 GAACAGAAATTGAA
1 GAACAGAAATTGAA
14963914 GAACAGAAATTGAA
1 GAACAGAAATTGAA
14963928 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:14964042 original size:73 final size:74
Alignment explanation
Indices: 14963909--14964077 Score: 232
Period size: 73 Copynumber: 2.3 Consensus size: 74
14963899 CGAACAGAAA
* *
14963909 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
14963974 GAGTTAATTT
65 GAGTTAATTT
* ** * *
14963984 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTTTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
14964048 AGTTGATTT
66 AGTTAATTT
* *
14964057 TTGAAAAATATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
14964078 AACAGAAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
73 56 0.68
75 26 0.32
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTT
Found at i:14964076 original size:14 final size:14
Alignment explanation
Indices: 14964057--14964106 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
14964047 GAGTTGATTT
* *
14964057 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
14964071 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
14964086 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
14964100 TT-AAAAA
1 TTGAAAAA
14964107 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:14964216 original size:78 final size:75
Alignment explanation
Indices: 14964086--14964327 Score: 316
Period size: 78 Copynumber: 3.2 Consensus size: 75
14964076 AAAACAGAAA
* * * *
14964086 TTGAAAAGCAGAAATT-AAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
14964150 TGAGTTGATTTTT
64 TGAGTTGA-TTTT
* * *
14964163 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
14964228 TGAGTTGATTTT
64 TGAGTTGATTTT
*
14964240 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
14964301 AGTTGA-TTT
66 AGTTGATTTT
*
14964310 TTGAAAAACATAAATTGA
1 TTGAAAAACAGAAATTGA
14964328 GCAGAAATTG
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
70 18 0.12
71 32 0.21
74 1 0.01
76 15 0.10
77 33 0.22
78 50 0.34
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:14964294 original size:71 final size:71
Alignment explanation
Indices: 14964086--14964470 Score: 303
Period size: 71 Copynumber: 5.1 Consensus size: 71
14964076 AAAACAGAAA
** * * *
14964086 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATAT
1 TTGAAAAATAGAAATTGAAAATACCTCAGCATGTGA---G-G-CTCAACTCACCTCTCGCAATAT
14964151 GAGTTGATTTTT
61 GAGTTGA-TTTT
* * *
14964163 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAATAGAAATTG-AAAATACCTCAGCATGT--G---AGGCTCAACTCACCTCTCGCAATA
14964228 TGAGTTGATTTT
60 TGAGTTGATTTT
*
14964240 TTGAAAAATAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
14964305 GA-TTT
66 GATTTT
** * *
14964310 TTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTC
1 TTG----A-A-AAA-T----AGAAATTGAAAATACCTC-A-GCAT-GTGAGGCTCAACTCACCTC
14964375 TCGCAATATGAGTTGATTTT
52 TCGCAATATGAGTTGATTTT
** * * *
14964395 TTG-ATGAT--AAATTGAAAATACCTCAATGTGACT-TGAGGTTCAACTCACCTCTCACAATATG
1 TTGAAAAATAGAAATTGAAAATACCTC-A-G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATG
14964456 AGTTGATTTT
62 AGTTGATTTT
14964466 TTGAA
1 TTGAA
14964471 TTAAAACAAA
Statistics
Matches: 264, Mismatches: 20, Indels: 53
0.78 0.06 0.16
Matches are distributed among these distances:
70 6 0.02
71 91 0.34
72 2 0.01
73 1 0.00
74 2 0.01
75 1 0.00
76 18 0.07
77 35 0.13
78 44 0.17
79 2 0.01
80 2 0.01
81 17 0.06
82 1 0.00
83 3 0.01
84 33 0.12
85 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (71 bp):
TTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTT
Found at i:14964432 original size:155 final size:156
Alignment explanation
Indices: 14964208--14964560 Score: 450
Period size: 155 Copynumber: 2.2 Consensus size: 156
14964198 AAGCCAAGGC
14964208 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATA-AAATTGAAAACACCTCAGCATG
* * *
14964273 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A-AAAACATAAATTG-AGCAGAA
65 TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAAAAATTGAAACAGAA
* * *
14964334 ATTGAAAATACCTCAACGGGTCTTGAGGT
130 ATGGAAAACACCTC-A-GCGTCTTGAGGT
** * *
14964363 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGAT-AAATTGAAAATACCTCAATGTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTC-A-G-CA
*
14964426 CT-TGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAAAAATTGAAAA
63 -TGTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA-TAAAACAAAAATTG-AAA
*
14964490 TAGAAATGGAAAACACCTCAGCGTCTTGAGGT
125 CAGAAATGGAAAACACCTCAGCGTCTTGAGGT
*
14964522 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
14964561 CACATAAATT
Statistics
Matches: 172, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
152 15 0.09
153 1 0.01
154 4 0.02
155 68 0.40
156 7 0.04
157 1 0.01
159 50 0.29
160 8 0.05
161 18 0.10
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (156 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTCAGCATGT
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAAAAATTGAAACAGAAA
TGGAAAACACCTCAGCGTCTTGAGGT
Found at i:14964769 original size:77 final size:77
Alignment explanation
Indices: 14964585--14964885 Score: 377
Period size: 77 Copynumber: 4.0 Consensus size: 77
14964575 AAAAAGAAAT
** *
14964585 TAAAAATAGAATTTGAAAGGACCTC-GACGTGTGGCCCGAGACTCAACTCACCTC-CGCAATATG
1 TAAAAATAGAATTTGAAAATACCTCAG-CGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATG
*
14964648 AGTTGATTCTTTT-A
63 AGTTGATTTTTTTGA
* * * *
14964662 -AAAAGTAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGT
1 TAAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
14964726 TGATTTTTTTGA
66 TGATTTTTTTGA
* *
14964738 TAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TAAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
14964803 TGA--TTTTTGA
66 TGATTTTTTTGA
* * * *
14964813 CAAACAA-A-AA-TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAAGAG
1 TAAA-AATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
14964875 TTGATTTTTTT
65 TTGATTTTTTT
14964886 TTGAAAGACA
Statistics
Matches: 199, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
73 53 0.27
74 21 0.11
75 36 0.18
76 27 0.14
77 62 0.31
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (77 bp):
TAAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGA
Found at i:14964859 original size:150 final size:152
Alignment explanation
Indices: 14964585--14964885 Score: 439
Period size: 150 Copynumber: 2.0 Consensus size: 152
14964575 AAAAAGAAAT
*
14964585 TAAAAATAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCCGCAATATGAG
1 TAAAAATAGAATTTGAAAAGACCTCGACGTGT-GCCCGAGACTCAACTCACCTCCGCAATATGAG
* *
14964650 TTGATTCTTTTAAAAAGTAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTC
65 TTGATTCTTTGAAAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTC
*
14964715 ACAATATGAGTTGATTTTTTTGA
130 ACAATAAGAGTTGATTTTTTTGA
* * * *
14964738 TAAAAATAGAATTTGAAAATATCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TAAAAATAGAATTTGAAAAGACCTCGA-CGTGTGCCCGAGACTCAACTCACCTC-CGCAATATGA
* * *
14964801 GTTGATT-TTTGACAAA-CAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
64 GTTGATTCTTTGAAAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCT
*
14964864 CGCAATAAGAGTTGATTTTTTT
129 CACAATAAGAGTTGATTTTTTT
14964886 TTGAAAGACA
Statistics
Matches: 134, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
150 64 0.48
151 25 0.19
152 18 0.13
153 27 0.20
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (152 bp):
TAAAAATAGAATTTGAAAAGACCTCGACGTGTGCCCGAGACTCAACTCACCTCCGCAATATGAGT
TGATTCTTTGAAAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCA
CAATAAGAGTTGATTTTTTTGA
Found at i:14964905 original size:14 final size:14
Alignment explanation
Indices: 14964886--14964920 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
14964876 TGATTTTTTT
*
14964886 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
14964900 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
14964914 TTGAAAA
1 TTGAAAA
14964921 TACCTCGGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:14965081 original size:87 final size:87
Alignment explanation
Indices: 14964814--14965147 Score: 429
Period size: 87 Copynumber: 3.8 Consensus size: 87
14964804 GATTTTTGAC
* * * * *
14964814 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAAGAGTTGA
1 AAACAAAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
* * * * *
14964879 TTTTTTTTTGAAAGACAGAAATTGAA
66 ---TTCTTTCAAAAACATAAAATG-A
* * * *
14964905 AAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTT
1 AAACAAAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
14964970 GATTCTTTCAAAAACATAATAATGA
64 GATTCTTTCAAAAACATAA-AATGA
14964995 AAACAAAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTC-CAATATGAGCTGA
1 AAACAAAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
14965059 TTCTTTCAAAAACATAACAATGA
66 TTCTTTCAAAAACATAA-AATGA
* * *
14965082 AGACAGAAATTGAAAATACCTTGGCGTGACCTGAGGCTCAACTCACCTCTC-CAATATGAGCTGA
1 AAACAAAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
14965146 TT
66 TT
14965148 TTGAAAAAGT
Statistics
Matches: 221, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
87 96 0.43
88 25 0.11
90 38 0.17
91 25 0.11
93 37 0.17
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (87 bp):
AAACAAAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
TTCTTTCAAAAACATAAAATGA
Found at i:14965322 original size:72 final size:72
Alignment explanation
Indices: 14965172--14965366 Score: 250
Period size: 72 Copynumber: 2.7 Consensus size: 72
14965162 ATTAAAAGGT
* * * * * * * *
14965172 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
14965237 CCTGAGGC
65 CCCGAGGC
*
14965245 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGC
14965309 CCCGAGGC
65 CCCGAGGC
* *
14965317 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAA
14965367 GGCTTAACTC
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 7 0.07
72 69 0.64
73 31 0.29
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:14982364 original size:40 final size:40
Alignment explanation
Indices: 14982320--14982404 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
14982310 ATAGCTGAGT
* *
14982320 TAAAAATCT-ATATTTCAATAATTTATATGAAATAAATTAA
1 TAAAAAT-TAATAATTCAATAAGTTATATGAAATAAATTAA
*
14982360 TAAAAATTAATAATTCAATAAGTTATATGATATAAATTAA
1 TAAAAATTAATAATTCAATAAGTTATATGAAATAAATTAA
14982400 TAAAA
1 TAAAA
14982405 GGCAGTTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TAAAAATTAATAATTCAATAAGTTATATGAAATAAATTAA
Found at i:14986880 original size:43 final size:43
Alignment explanation
Indices: 14986832--14986918 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
14986822 CCTCACTTCA
14986832 TCCGTTTTGCTTCTATTGAAGCTAAAGTTCTAGTATGTGGTGG
1 TCCGTTTTGCTTCTATTGAAGCTAAAGTTCTAGTATGTGGTGG
14986875 TCCGTTTTGCTTCTATTGAAGCTAAAGTTCTAGTATGTGGTGG
1 TCCGTTTTGCTTCTATTGAAGCTAAAGTTCTAGTATGTGGTGG
14986918 T
1 T
14986919 GCTCCTAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (43 bp):
TCCGTTTTGCTTCTATTGAAGCTAAAGTTCTAGTATGTGGTGG
Found at i:14990359 original size:7 final size:7
Alignment explanation
Indices: 14990347--14990380 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
14990337 TATTAGAATG
14990347 ATAAATA
1 ATAAATA
14990354 ATAAATA
1 ATAAATA
14990361 ATAAATA
1 ATAAATA
14990368 ATAAATAA
1 ATAAAT-A
14990376 ATAAA
1 ATAAA
14990381 GGAATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAAATA
Found at i:14990578 original size:17 final size:17
Alignment explanation
Indices: 14990530--14990585 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
14990520 GCCAAAAATG
14990530 ATAA-AAGAACTAATAAA
1 ATAACAAGAA-TAATAAA
*
14990547 ATAACAAGAAAAATAAA
1 ATAACAAGAATAATAAA
*
14990564 ATAATAATG-ATAATAATA
1 ATAACAA-GAATAATAA-A
14990582 ATAA
1 ATAA
14990586 ATGAGCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (17 bp):
ATAACAAGAATAATAAA
Found at i:14993070 original size:14 final size:14
Alignment explanation
Indices: 14993048--14993081 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14993038 AATTAAACCT
14993048 AATTAATTTAATTAA
1 AATT-ATTTAATTAA
*
14993063 CATTATTTAATTAA
1 AATTATTTAATTAA
14993077 AATTA
1 AATTA
14993082 AAATTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTATTTAATTAA
Found at i:14994670 original size:14 final size:15
Alignment explanation
Indices: 14994651--14994679 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14994641 ACCTAAAAAA
14994651 TATTTTTA-TTATTT
1 TATTTTTATTTATTT
14994665 TATTTTTATTTATTT
1 TATTTTTATTTATTT
14994680 ATAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:14997611 original size:19 final size:19
Alignment explanation
Indices: 14997584--14997622 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
14997574 TTTAAGAAAT
*
14997584 TCTGGAAAGAGATTTTAAC
1 TCTGAAAAGAGATTTTAAC
14997603 TCTGAAAAGAGATTTTAAC
1 TCTGAAAAGAGATTTTAAC
14997622 T
1 T
14997623 AACTCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (19 bp):
TCTGAAAAGAGATTTTAAC
Found at i:15006583 original size:23 final size:22
Alignment explanation
Indices: 15006542--15006590 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
15006532 TTTGTTCAAC
*
15006542 TTTAATTTTTATTCAAAAATAT
1 TTTAATTTTTATTCAAAAACAT
15006564 TTTAATTTGTTATATC-AAAACAT
1 TTTAATTT-TTAT-TCAAAAACAT
15006587 TTTA
1 TTTA
15006591 TCAAATAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 14 0.58
24 2 0.08
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAATTTTTATTCAAAAACAT
Found at i:15007195 original size:7 final size:7
Alignment explanation
Indices: 15007181--15007214 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
15007171 ATAGATAAAG
15007181 AGAGAAA
1 AGAGAAA
*
15007188 ATAGAAA
1 AGAGAAA
*
15007195 AGCGAAA
1 AGAGAAA
15007202 AGAGAAA
1 AGAGAAA
15007209 AGAGAA
1 AGAGAA
15007215 TAAATTGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.68, C:0.03, G:0.26, T:0.03
Consensus pattern (7 bp):
AGAGAAA
Found at i:15012319 original size:58 final size:58
Alignment explanation
Indices: 15012254--15012370 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
15012244 TTCGAGAATA
15012254 TCATTATATGTCATTATTTGACCACTAATGGCATTGTTGCATTCTGATCTCTTCGATG
1 TCATTATATGTCATTATTTGACCACTAATGGCATTGTTGCATTCTGATCTCTTCGATG
15012312 TCATTATATGTCATTATTTGACCACTAATGGCATTGTTGCATTCTGATCTCTTCGATG
1 TCATTATATGTCATTATTTGACCACTAATGGCATTGTTGCATTCTGATCTCTTCGATG
15012370 T
1 T
15012371 TTCAAATACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (58 bp):
TCATTATATGTCATTATTTGACCACTAATGGCATTGTTGCATTCTGATCTCTTCGATG
Found at i:15025907 original size:26 final size:25
Alignment explanation
Indices: 15025856--15025913 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
15025846 TTACCCTGTG
* * *
15025856 TTTAAATTTTTTAAAAAAGTTATTT
1 TTTAAATATTATAAAAAACTTATTT
15025881 TTTAAATATTATAAAAATACTT-TTT
1 TTTAAATATTATAAAAA-ACTTATTT
15025906 TTTGAAAT
1 TTT-AAAT
15025914 TTTACAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTAAATATTATAAAAAACTTATTT
Found at i:15026440 original size:49 final size:52
Alignment explanation
Indices: 15026348--15026446 Score: 141
Period size: 49 Copynumber: 1.9 Consensus size: 52
15026338 TTGTACATGC
* *
15026348 AATAATTTTCTATTCAACTTTAAATGTTCGAAGTTGTACTTTTAATTTTTCAA
1 AATAATTTTCCATT-AACTTTAAATGTTAGAAGTTGTACTTTTAATTTTTCAA
*
15026401 AATAATTTTCCATT-A-TTTAAAT-TTAGAAGTTGTATTTTTAATTTTT
1 AATAATTTTCCATTAACTTTAAATGTTAGAAGTTGTACTTTTAATTTTT
15026447 TAATTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 22 0.51
50 7 0.16
51 1 0.02
53 13 0.30
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (52 bp):
AATAATTTTCCATTAACTTTAAATGTTAGAAGTTGTACTTTTAATTTTTCAA
Found at i:15026870 original size:15 final size:15
Alignment explanation
Indices: 15026840--15026868 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15026830 ACTATTAGTA
15026840 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
15026855 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
15026869 TACCATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:15030780 original size:228 final size:228
Alignment explanation
Indices: 15030380--15031519 Score: 1384
Period size: 228 Copynumber: 5.0 Consensus size: 228
15030370 CACTTAAAAG
* * * * ** *
15030380 CCACCGCGGAGGCGAAGGACCAGGTGCAAAGTGGATTCCTTCTGGATGTTGTAATCTGCAAGGGT
1 CCACCACGGAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGT
* * *
15030445 CCTCCCATCTTCAAGTTGCTTCCCAGCAAAAATCAGCCTCTGCTGGTCTGGTGGGATTCCTTCCT
66 CCTCCCATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCT
*
15030510 TATCCTGGATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTC
131 TATCCTGAATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTC
15030575 TTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
196 TTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
* * * *
15030608 CCGCCGCGGAGGCGAAGGACCAGGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGT
1 CCACCACGGAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGT
* * *
15030673 CCTCCCATCTTCAAGTTGCTTCCCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGAATTCCTTCCT
66 CCTCCCATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCT
*
15030738 TATCCTGGATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTC
131 TATCCTGAATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTC
15030803 TTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
196 TTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
* * *
15030836 CCACCACGGAGACGGAGAACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGT
1 CCACCACGGAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGT
* * * * *
15030901 CCTCCCATCCTCTAGCTGCTTTCCAGCAAATATCAGCCTCTGCTGGTCTGGAGGGATACCTTCCT
66 CCTCCCATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCT
* * * * *
15030966 TATCTTGAATTTTGGCCTTAACATTATCGATTGTGTCAGAGCTCTCAACTTCCAGGGTGATGGTC
131 TATCCTGAATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTC
* * * * * *
15031031 TTCCCAGTAAGTGTCTTCACAAAAATCTGCATA
196 TTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
* * * * * * *
15031064 CCACCACGAAGACGGAGCACCAAGTGGAGGGTGGACTCCTTCTGGATGTTATAGTCAGCCAGGGT
1 CCACCACGGAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGT
* ** * * *
15031129 ACGGCCATCCTCCAGTTGCTTACCAGCAAAAATCAGCCTCTGTTGGTCTGG-GGGAATTCCCTCC
66 CCTCCCATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGG-ATTCCTTCC
* * * * * * * * ** *
15031193 TTGTCCTGAATTTTTGCCTTAACATTATCAATGGTATCTGAACTCTCTACCTCCAATGTAATGGT
130 TTATCCTGAATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGT
* ** * * *
15031258 CTTCCCAGTCAAAGTCTTAACAAAAATTTGCATT
195 CTTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
* * * * *
15031292 CCTCCACGGAGGCGAAGCACTAAGTGGAGTGTGGACTCCTTCTGGATGTTGTAATCAGCCAA-CG
1 CCACCACGGAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTG-CAAGGG
* ** * * * * * *
15031356 TGCGGCCATCCTCAAGTTGCTTACCAGCGAAGATCAACCTTTGCTGGTCTGGGGGGATGCCTTCC
65 TCCTCCCATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCC
* * * * * * * * * **
15031421 TTGTCCTGAATCTTGGCCTTTACATTGTCAATAGTATCAGAACTCTCCACCTCCAATGTGATGGT
130 TTATCCTGAATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGT
* * *
15031486 CTTTCCGGTGAGGGTCTTGACGAAAATTTGCATC
195 CTTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
15031520 TATTTTGAAT
Statistics
Matches: 807, Mismatches: 102, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
227 3 0.00
228 799 0.99
229 5 0.01
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (228 bp):
CCACCACGGAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGT
CCTCCCATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGGATTCCTTCCT
TATCCTGAATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTC
TTTCCAGTCAGGGTCTTCACGAAAATTTGCATC
Found at i:15040677 original size:30 final size:30
Alignment explanation
Indices: 15040636--15040695 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
15040626 CTTGGTTGAG
*
15040636 AGTATCCAAGAAGATTTAGATTAATTTTAT
1 AGTATCAAAGAAGATTTAGATTAATTTTAT
15040666 AGTATCAAAGAAGATTTAGATTAATTTTAT
1 AGTATCAAAGAAGATTTAGATTAATTTTAT
15040696 CGTTTACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (30 bp):
AGTATCAAAGAAGATTTAGATTAATTTTAT
Found at i:15041069 original size:19 final size:19
Alignment explanation
Indices: 15041047--15041084 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15041037 GGAGAAGAAG
*
15041047 AAAAGGAAAATAAA-TAAAT
1 AAAAAGAAAA-AAATTAAAT
15041066 AAAAAGAAAAAAATTAAAT
1 AAAAAGAAAAAAATTAAAT
15041085 TATTCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (19 bp):
AAAAAGAAAAAAATTAAAT
Found at i:15043795 original size:21 final size:21
Alignment explanation
Indices: 15043764--15043868 Score: 90
Period size: 21 Copynumber: 5.0 Consensus size: 21
15043754 AGTTGACTCA
15043764 TATGAGTTTCAGATTAACCCT
1 TATGAGTTTCAGATTAACCCT
* * * *
15043785 TTTGGGTTTCA-ATTTAGCTCT
1 TATGAGTTTCAGA-TTAACCCT
* * *
15043806 TTTGAGCTTCAGTTTAA-CCT
1 TATGAGTTTCAGATTAACCCT
*
15043826 TAATGAGTTTCAG-TTCAACTCT
1 T-ATGAGTTTCAGATT-AACCCT
15043848 TATGAGTTTCAGATTAACCCT
1 TATGAGTTTCAGATTAACCCT
15043869 ACTGGGTTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
20 6 0.09
21 54 0.83
22 5 0.08
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (21 bp):
TATGAGTTTCAGATTAACCCT
Found at i:15043823 original size:42 final size:42
Alignment explanation
Indices: 15043766--15043928 Score: 138
Period size: 42 Copynumber: 3.9 Consensus size: 42
15043756 TTGACTCATA
* * *
15043766 TGAGTTTCAGATTAACCCTTTTGGGTTTCAATTTAGCTCTTT
1 TGAGCTTCAGATTAACCCTTATGGGTTTCAGTTTAGCTCTTT
* * * * *
15043808 TGAGCTTCAGTTTAA-CCTTAATGAGTTTCAGTTCAACTCTTA
1 TGAGCTTCAGATTAACCCTT-ATGGGTTTCAGTTTAGCTCTTT
* **
15043850 TGAGTTTCAGATTAACCC-TACTGGGTTTTTGTTTAGCTCTTAT
1 TGAGCTTCAGATTAACCCTTA-TGGGTTTCAGTTTAGCTCTT-T
*
15043893 T-AGCTTC-TATTCAACCCTTATGGGTTTTC-GTTTAGC
1 TGAGCTTCAGATT-AACCCTTATGGG-TTTCAGTTTAGC
15043929 ACTTATGTGC
Statistics
Matches: 95, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 8 0.08
42 79 0.83
43 8 0.08
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (42 bp):
TGAGCTTCAGATTAACCCTTATGGGTTTCAGTTTAGCTCTTT
Found at i:15043856 original size:84 final size:83
Alignment explanation
Indices: 15043746--15043899 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 83
15043736 TAGCTCGAAT
* * **
15043746 TGAGTTTTAGTTGACTCATATGAGTTTCAGATTAACCCTTTTGGGTTTCAATTTAGCTCTT-TTG
1 TGAGTTTCAGTTAACTCATATGAGTTTCAGATTAACCCTACTGGGTTTCAATTTAGCTCTTATT-
15043810 AGCTTCAGTTTAACCTTAA
65 AGCTTCAGTTTAACCTTAA
* ***
15043829 TGAGTTTCAGTTCAACTCTTATGAGTTTCAGATTAACCCTACTGGGTTTTTGTTTAGCTCTTATT
1 TGAGTTTCAGTT-AACTCATATGAGTTTCAGATTAACCCTACTGGGTTTCAATTTAGCTCTTATT
15043894 AGCTTC
65 AGCTTC
15043900 TATTCAACCC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 11 0.18
84 48 0.79
85 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (83 bp):
TGAGTTTCAGTTAACTCATATGAGTTTCAGATTAACCCTACTGGGTTTCAATTTAGCTCTTATTA
GCTTCAGTTTAACCTTAA
Found at i:15045374 original size:7 final size:7
Alignment explanation
Indices: 15045362--15045393 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
15045352 AAAAAGCACA
15045362 AAAAAAG
1 AAAAAAG
15045369 AAAAAAG
1 AAAAAAG
15045376 AAAAAAG
1 AAAAAAG
15045383 AAAAAAG
1 AAAAAAG
15045390 AAAA
1 AAAA
15045394 GCAATGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:15046686 original size:17 final size:17
Alignment explanation
Indices: 15046654--15046688 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15046644 ATTATTATAT
* *
15046654 TAATTATATTTGTTAAA
1 TAATTATATATATTAAA
15046671 TAATTATATATATTAAA
1 TAATTATATATATTAAA
15046688 T
1 T
15046689 CACTAACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATTATATATATTAAA
Found at i:15046928 original size:16 final size:16
Alignment explanation
Indices: 15046897--15046930 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
15046887 TGTATTATAG
15046897 ATATATTTTAAAAAAA
1 ATATATTTTAAAAAAA
15046913 ATAT-TTTTAAATAAAA
1 ATATATTTTAAA-AAAA
15046929 AT
1 AT
15046931 TAATATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATTTTAAAAAAA
Found at i:15052285 original size:18 final size:18
Alignment explanation
Indices: 15052264--15052308 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
15052254 GAGAGACGAG
15052264 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATCAAAAA
**
15052282 AGAAAAAGAAATTGAAAA
1 AGAAAAAGAAATCAAAAA
15052300 AGAAAAAGA
1 AGAAAAAGA
15052309 GAGTAAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATCAAAAA
Found at i:15054623 original size:33 final size:32
Alignment explanation
Indices: 15054553--15054658 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 32
15054543 GGGGTACATT
**
15054553 CTTTTCCAAGTGGTACACACAAAGTATACCTTTC
1 CTTTT-CAA-TGGTACACACAAAGTATACCTAAC
*
15054587 CTTTTCATATGGTATACACAAAGTATACCTAAC
1 CTTTTCA-ATGGTACACACAAAGTATACCTAAC
* * *
15054620 C-TTTCAA-GTGTACACACAAGGTGTACATAAC
1 CTTTTCAATG-GTACACACAAAGTATACCTAAC
15054651 CTTTTCAA
1 CTTTTCAA
15054659 ATTGTACCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
30 1 0.02
31 20 0.32
32 11 0.18
33 24 0.39
34 6 0.10
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (32 bp):
CTTTTCAATGGTACACACAAAGTATACCTAAC
Found at i:15054837 original size:158 final size:158
Alignment explanation
Indices: 15054640--15054955 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
15054630 TACACACAAG
15054640 GTGTACATAACCTTTTCAAATTGTACCATTTGGGTACACCAATCCTTTTCAAGTAGTACCCTTTC
1 GTGTACATAACCTTTTCAAATTGTACCATTTGGGTACACCAATCCTTTTCAAGTAGTACCCTTTC
15054705 GGGTTACATTCCTTTCCATAATGTCAGAACAACTTTTACTGCAACATATGCAGGATCTCATATAC
66 GGGTTACATTCCTTTCCATAATGTCAGAACAACTTTTACTGCAACATATGCAGGATCTCATATAC
15054770 ACGGTAATCACCTGTCCAATCGTAAACT
131 ACGGTAATCACCTGTCCAATCGTAAACT
15054798 GTGTACATAACCTTTTCAAATTGTACCATTTGGGTACACCAATCCTTTTCAAGTAGTACCCTTTC
1 GTGTACATAACCTTTTCAAATTGTACCATTTGGGTACACCAATCCTTTTCAAGTAGTACCCTTTC
15054863 GGGTTACATTCCTTTCCATAATGTCAGAACAACTTTTACTGCAACATATGCAGGATCTCATATAC
66 GGGTTACATTCCTTTCCATAATGTCAGAACAACTTTTACTGCAACATATGCAGGATCTCATATAC
15054928 ACGGTAATCACCTGTCCAATCGTAAACT
131 ACGGTAATCACCTGTCCAATCGTAAACT
15054956 AATATTCAAA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (158 bp):
GTGTACATAACCTTTTCAAATTGTACCATTTGGGTACACCAATCCTTTTCAAGTAGTACCCTTTC
GGGTTACATTCCTTTCCATAATGTCAGAACAACTTTTACTGCAACATATGCAGGATCTCATATAC
ACGGTAATCACCTGTCCAATCGTAAACT
Found at i:15060302 original size:49 final size:50
Alignment explanation
Indices: 15060222--15060465 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
15060212 ATCTATTGTG
* *
15060222 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
15060272 -GGTCTCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * **
15060322 CGATCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
15060372 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACCA--TGTACAAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
15060420 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTCTGTGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
15060466 GCTTAGGCTA
Statistics
Matches: 161, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
47 28 0.17
48 10 0.06
49 53 0.33
50 33 0.20
51 37 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:15065703 original size:150 final size:150
Alignment explanation
Indices: 15065432--15065821 Score: 674
Period size: 150 Copynumber: 2.6 Consensus size: 150
15065422 ATCTATTGTG
** * * *
15065432 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACT-ATGTGTACCGAATAATTGGTCGCATTTGTAG
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTA-TGACGTGTACCGGATAATTGGTCGCATGTGTAG
15065496 TACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGC
65 TACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGC
*
15065561 TGCTATGTGTATCAAATGGTT
130 TGCTACGTGTATCAAATGGTT
*
15065582 AGGTCACGTGCGTAGTACTAAGTACAGGCTATGACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTATGACGTGTACCGGATAATTGGTCGCATGTGTAGT
15065647 ACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
*
15065712 GCTACGTGTATCAGATGGTT
131 GCTACGTGTATCAAATGGTT
* *
15065732 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTATGACGTGTACCGGATAATTGGTCGCATGTGTAGT
15065797 ACTAAGTGCAGGCTACTATGCGTAC
66 ACTAAGTGCAGGCTACTATGCGTAC
15065822 CAGATAGCTT
Statistics
Matches: 228, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
149 1 0.00
150 227 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTACAGGCTATGACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTATTAAGTGCAGGCT
GCTACGTGTATCAAATGGTT
Found at i:15065823 original size:49 final size:50
Alignment explanation
Indices: 15065432--15065827 Score: 383
Period size: 49 Copynumber: 7.9 Consensus size: 50
15065422 ATCTATTGTG
*
15065432 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACC-GAATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATAATT
* * * *
15065482 -GGTCGCATTTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATAA-TT
* * * * * * **
15065532 CGATCACGTGTGTAGTATTAAGTGCAGGCTGCTATGTGTATCAAATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
15065582 AGGTCACGTGCGTAGTACTAAGTACAGGCTA-TGACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACT-ATGTGTACCAGATAATT
* * *
15065632 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATAA-TT
* * * * * * **
15065682 CGATCACGTGTGTAGTATTAAGTGCAGGCTGCTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
15065732 AGGTCACGTGTGTAGTACTAAGTACAGGCTACGACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
15065782 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
15065828 GCTTTGGCTA
Statistics
Matches: 277, Mismatches: 59, Indels: 21
0.78 0.17 0.06
Matches are distributed among these distances:
49 117 0.42
50 91 0.33
51 69 0.25
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:15069190 original size:33 final size:32
Alignment explanation
Indices: 15069132--15069225 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 32
15069122 TTTCCAAGTT
* **
15069132 GTACATACAAAGTATACATTTCCTTTTCATATG-
1 GTACACACAAAGTATACATAACCTTTTCA-A-GA
* *
15069165 GTATACACAAAGTATACCTAACC-TTTCAAGA
1 GTACACACAAAGTATACATAACCTTTTCAAGA
*
15069196 GTACACACAAGGTATACATAACCTTTTCAA
1 GTACACACAAAGTATACATAACCTTTTCAA
15069226 ATTGTACCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.02
31 21 0.41
32 11 0.22
33 18 0.35
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (32 bp):
GTACACACAAAGTATACATAACCTTTTCAAGA
Found at i:15074210 original size:22 final size:22
Alignment explanation
Indices: 15074154--15074212 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
15074144 TTCTCTACCT
*
15074154 TAAACCCTAAACCCT-AAAACTA
1 TAAACCCTAAACTCTAAAAAC-A
* *
15074176 TAAACTCTAAACTTTAAAAACA
1 TAAACCCTAAACTCTAAAAACA
15074198 TAAACCCTAAACTCT
1 TAAACCCTAAACTCT
15074213 TCAAGTCTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAACCCTAAACTCTAAAAACA
Found at i:15078924 original size:24 final size:28
Alignment explanation
Indices: 15078873--15078926 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
15078863 TAATTATGAA
15078873 AATTAAATTTATGATAATAATTTATTTTT
1 AATTAAATTTAT-ATAATAATTTATTTTT
15078902 AATTAAATTTAT-TAA-AATTT-TTTTT
1 AATTAAATTTATATAATAATTTATTTTT
15078927 GATGGGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 5 0.20
26 5 0.20
27 3 0.12
29 12 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTAAATTTATATAATAATTTATTTTT
Found at i:15080040 original size:27 final size:25
Alignment explanation
Indices: 15079990--15080048 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
15079980 GTTCTTGAAA
*
15079990 TTAAAAGTAAGTAAAAAGATTAAAATT
1 TTAAAAGTAAGTAAAAAGACT-AAA-T
* * *
15080017 TTAAAATTAAGTCAATAGACTAAAT
1 TTAAAAGTAAGTAAAAAGACTAAAT
15080042 TTAAAAG
1 TTAAAAG
15080049 ATTGAAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 7 0.26
26 3 0.11
27 17 0.63
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (25 bp):
TTAAAAGTAAGTAAAAAGACTAAAT
Found at i:15081103 original size:27 final size:25
Alignment explanation
Indices: 15081053--15081111 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
15081043 GTTCTTGAAA
*
15081053 TTAAAAGTAAGTAAAAAGATTAAAATT
1 TTAAAAGTAAGTAAAAAGACT-AAA-T
* * *
15081080 TTAAAATTAAGTCAATAGACTAAAT
1 TTAAAAGTAAGTAAAAAGACTAAAT
15081105 TTAAAAG
1 TTAAAAG
15081112 ATTGAAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 7 0.26
26 3 0.11
27 17 0.63
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (25 bp):
TTAAAAGTAAGTAAAAAGACTAAAT
Found at i:15084205 original size:23 final size:23
Alignment explanation
Indices: 15084170--15084223 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
15084160 TATCTAATAA
* *
15084170 ATATATATTTTTTATTTTTAATT
1 ATATATATATTTTACTTTTAATT
*
15084193 ATATTTATATTTTACTTTTAATT
1 ATATATATATTTTACTTTTAATT
*
15084216 TTA-ATATA
1 ATATATATA
15084224 ATCAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATATATATATTTTACTTTTAATT
Found at i:15084865 original size:18 final size:19
Alignment explanation
Indices: 15084823--15084865 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15084813 CAAACACCAG
* *
15084823 AAAAGTAAATCATTTCTAG
1 AAAAATAAATCATTTCTAC
*
15084842 AAAAATAAATCATTT-TTC
1 AAAAATAAATCATTTCTAC
15084860 AAAAAT
1 AAAAAT
15084866 TATTTTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATAAATCATTTCTAC
Found at i:15085378 original size:30 final size:31
Alignment explanation
Indices: 15085333--15085401 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
15085323 AAATTGTTAG
15085333 TTTTAAAATGATAAAATT-ACATATTAATTTT
1 TTTTAAAATGATAAAATTCA-ATATTAATTTT
* *
15085364 TTTTAAAAT-TTAAAATTCAATTTTAATTTT
1 TTTTAAAATGATAAAATTCAATATTAATTTT
*
15085394 TTTAAAAA
1 TTTTAAAA
15085402 AGTTTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (31 bp):
TTTTAAAATGATAAAATTCAATATTAATTTT
Found at i:15089208 original size:89 final size:90
Alignment explanation
Indices: 15089097--15089690 Score: 863
Period size: 89 Copynumber: 6.6 Consensus size: 90
15089087 TTTGTATCTG
15089097 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
15089162 AT-TGTTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * *
15089186 TAAATTCAATTTAGTCTGTATTATATATAGTTTGAATTTAAAATTTTCATGCATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
*
15089251 ATCTATTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * *
15089276 TAATTTTAATTTAGTCCATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* *
15089341 ATCTGTTTGTAGTTTATTGAGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * * *
15089366 TAAATTTAATTTAGTCCGTATTAT-TTTTGTTTGAATTTAAAATTTTCGTGCATTAATTTCACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* *
15089430 ATCTATTTGTAGTTTGTTAGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * *
15089455 TAAATTTAATTTACTCCGTATTAT-TTTTGTTTGAATTTAAAATTTGCGTGCATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
*
15089519 ATTTGTTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * *
15089544 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGGATTTAAAATTTTCGTGTATTAATTTTACTC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* *
15089609 ATCTCTTTGTAGTTTGTTGAGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * *
15089634 TAAATTTAATTTAGTCCGTATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
15089691 ATTCTAAAAT
Statistics
Matches: 452, Mismatches: 51, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
89 250 0.55
90 202 0.45
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (90 bp):
TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
ATCTGTTTGTAGTTTGTTGGGTGTT
Found at i:15089401 original size:179 final size:178
Alignment explanation
Indices: 15089097--15089690 Score: 893
Period size: 179 Copynumber: 3.3 Consensus size: 178
15089087 TTTGTATCTG
15089097 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTAT-TGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
*
15089162 ATTGTTTGTAGTTTGTTGGGTGTTTAAATTCAATTTAGTCTGTATTATATATAGTTTGAATTTAA
65 ATTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAA
*
15089227 AATTTTCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTT
130 AATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTT
* * *
15089276 TAATTTTAATTTAGTCCATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTAT-TGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* * * * *
15089341 ATCTGTTTGTAGTTTATTGAGTGTTTAAATTTAATTTAGTCCGTATTAT-TTTTGTTTGAATTTA
65 AT-TGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATATATAGTTTGAATTTA
* *
15089405 AAATTTTCGTGCATTAATTTCACCCATCTATTTGTAGTTTGTTAGGTGTT
129 AAATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTT
* * * * *
15089455 TAAATTTAATTTACTCCGTATTATTTTTGTTTGAATTTAAAATTTGCGTGCATTAATTTTACCCA
1 TAAATTTAATTTAGTCCGTATTATTGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
* *
15089520 TTTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATATGTAGTTTGGATTTAA
66 -TTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAA
* * * *
15089585 AATTTTCGTGTATTAATTTTACTCATCTCTTTGTAGTTTGTTGAGTGTT
130 AATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTT
* * * * *
15089634 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATTGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
15089691 ATTCTAAAAT
Statistics
Matches: 374, Mismatches: 38, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
178 79 0.21
179 253 0.68
180 42 0.11
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (178 bp):
TAAATTTAATTTAGTCCGTATTATTGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
TTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAAA
ATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTT
Found at i:15089534 original size:268 final size:268
Alignment explanation
Indices: 15089097--15089690 Score: 929
Period size: 268 Copynumber: 2.2 Consensus size: 268
15089087 TTTGTATCTG
* * *
15089097 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTAT-TTTTGTTTGAATTTAAAATTTTCGTGTATTAATTTCACCC
* * * *
15089162 ATTGTTTGTAGTTTGTTGGGTGTTTAAATTCAATTTAGTCTGTATTATATATAGTTTGAATTTAA
65 ATTATTTGTAGTTTGTTAGGTGTTTAAATTCAATTTACTCCGTATTATATATAGTTTGAATTTAA
* *
15089227 AATTTTCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAATTTTAATTTAGTC
130 AATTTGCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTC
*
15089292 CATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTGTTTGTAGTTTA
195 CATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTCTTTGTAGTTTA
15089357 TTGAGTGTT
260 TTGAGTGTT
*
15089366 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGCATTAATTTCACCCA
1 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGTATTAATTTCACCCA
* * *
15089431 TCTATTTGTAGTTTGTTAGGTGTTTAAATTTAATTTACTCCGTATTAT-TTTTGTTTGAATTTAA
66 T-TATTTGTAGTTTGTTAGGTGTTTAAATTCAATTTACTCCGTATTATATATAGTTTGAATTTAA
* * *
15089495 AATTTGCGTGCATTAATTTTACCCATTTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTC
130 AATTTGCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTC
** * * * *
15089560 TGTATTATATGTAGTTTGGATTTAAAATTTTCGTGTATTAATTTTACTCATCTCTTTGTAGTTTG
195 CATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTCTTTGTAGTTTA
15089625 TTGAGTGTT
260 TTGAGTGTT
* * *
15089634 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGTATTAAT
15089691 ATTCTAAAAT
Statistics
Matches: 297, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
268 232 0.78
269 65 0.22
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (268 bp):
TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGTATTAATTTCACCCA
TTATTTGTAGTTTGTTAGGTGTTTAAATTCAATTTACTCCGTATTATATATAGTTTGAATTTAAA
ATTTGCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCC
ATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTCTTTGTAGTTTAT
TGAGTGTT
Found at i:15092933 original size:25 final size:24
Alignment explanation
Indices: 15092905--15092972 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
15092895 TTACCGATAC
15092905 TTAGCTC-ATAAGAGCTTACTGTTAT
1 TTAGCTCGA-AAGAGCTTAC-GTTAT
* *
15092930 TTAGCTCGAAGGAGCTTACGTTTT
1 TTAGCTCGAAAGAGCTTACGTTAT
* *
15092954 TTAGCTCGGAGGAGCTTAC
1 TTAGCTCGAAAGAGCTTAC
15092973 TATTTACAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.56
25 16 0.41
26 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (24 bp):
TTAGCTCGAAAGAGCTTACGTTAT
Found at i:15092961 original size:24 final size:25
Alignment explanation
Indices: 15092916--15092973 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 25
15092906 TAGCTCATAA
15092916 GAGCTTACTGTTATTTAGCTCGAAG
1 GAGCTTACTGTTATTTAGCTCGAAG
* *
15092941 GAGCTTAC-GTTTTTTAGCTCGGAG
1 GAGCTTACTGTTATTTAGCTCGAAG
15092965 GAGCTTACT
1 GAGCTTACT
15092974 ATTTACAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (25 bp):
GAGCTTACTGTTATTTAGCTCGAAG
Found at i:15092983 original size:24 final size:24
Alignment explanation
Indices: 15092932--15092985 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
15092922 ACTGTTATTT
**
15092932 AGCTCGAAGGAGCTTACGTTTTTT
1 AGCTCGAAGGAGCTTACGTTTTAC
*
15092956 AGCTCGGAGGAGCTTAC-TATTTAC
1 AGCTCGAAGGAGCTTACGT-TTTAC
15092980 AGCTCG
1 AGCTCG
15092986 TATGAACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (24 bp):
AGCTCGAAGGAGCTTACGTTTTAC
Found at i:15099620 original size:23 final size:23
Alignment explanation
Indices: 15099594--15099657 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
15099584 TAAGTGCGCA
*
15099594 AGTGATAGTGGCACTACAATACT
1 AGTGAAAGTGGCACTACAATACT
** *
15099617 AGTGAAAGCAGCACTACGATACT
1 AGTGAAAGTGGCACTACAATACT
15099640 AGTGAAAGTGGCACTACA
1 AGTGAAAGTGGCACTACA
15099658 TTGCAAGTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (23 bp):
AGTGAAAGTGGCACTACAATACT
Found at i:15101965 original size:105 final size:105
Alignment explanation
Indices: 15101766--15101974 Score: 330
Period size: 105 Copynumber: 2.0 Consensus size: 105
15101756 TACAATAAAA
* *
15101766 TTTTGTTTAAGAGGATTATTAAACCCTCTATCATTCCAAAAAACAAGAATCATGTAGGAATGGAT
1 TTTTGTTTAAGAGGATTATTAAACCCTCTAACATTCCAAAAAACAAGAATAATGTAGGAATGGAT
* * *
15101831 GAAAAAGTACCTCCATTGGCAATCGACCCTGCCAGATTCC
66 GAAAAAGTACCTCCATTAGCAATCAACCCTACCAGATTCC
*
15101871 TTTTGTTTAATAGGATTATTAAACCCTCTAACATTCCAAAAAACAAGAATAATGTAGGAATGGAT
1 TTTTGTTTAAGAGGATTATTAAACCCTCTAACATTCCAAAAAACAAGAATAATGTAGGAATGGAT
* *
15101936 GAAAAAGTACCTCCATTAGCAGGT-AACCCTACTAGATTC
66 GAAAAAGTACCTCCATTAGCA-ATCAACCCTACCAGATTC
15101975 TTTCTTTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 94 0.99
106 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (105 bp):
TTTTGTTTAAGAGGATTATTAAACCCTCTAACATTCCAAAAAACAAGAATAATGTAGGAATGGAT
GAAAAAGTACCTCCATTAGCAATCAACCCTACCAGATTCC
Found at i:15116907 original size:21 final size:21
Alignment explanation
Indices: 15116873--15116976 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
15116863 AGAAACCCAT
* *
15116873 AAAG-GTTGATCAAAAGCTCA
1 AAAGAGTTGAACAAAAACTCA
*
15116893 AAAGAGCTGAACAAAAACTCA
1 AAAGAGTTGAACAAAAACTCA
* * * * *
15116914 TAAGGGTTAAACAGAATCTCA
1 AAAGAGTTGAACAAAAACTCA
*
15116935 AAAGAGTTGAACAAAAACCCA
1 AAAGAGTTGAACAAAAACTCA
** * *
15116956 TTAGGGTTGAACGAAAACTCA
1 AAAGAGTTGAACAAAAACTCA
15116977 TATGAGTTAG
Statistics
Matches: 63, Mismatches: 20, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
20 4 0.06
21 59 0.94
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.17
Consensus pattern (21 bp):
AAAGAGTTGAACAAAAACTCA
Found at i:15116916 original size:42 final size:42
Alignment explanation
Indices: 15116832--15116956 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
15116822 TAGAAGTGCG
* * * * * *
15116832 AAGGCTAAACAAAAGCACATAAGTGCTAAACAGAAACCCATA
1 AAGGTTAAACAAAAGCTCAAAAGAGCTGAACAAAAACCCATA
* * *
15116874 AAGGTTGATCAAAAGCTCAAAAGAGCTGAACAAAAACTCATA
1 AAGGTTAAACAAAAGCTCAAAAGAGCTGAACAAAAACCCATA
* * * *
15116916 AGGGTTAAACAGAATCTCAAAAGAGTTGAACAAAAACCCAT
1 AAGGTTAAACAAAAGCTCAAAAGAGCTGAACAAAAACCCAT
15116957 TAGGGTTGAA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.15
Consensus pattern (42 bp):
AAGGTTAAACAAAAGCTCAAAAGAGCTGAACAAAAACCCATA
Found at i:15116984 original size:42 final size:41
Alignment explanation
Indices: 15116860--15116976 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 41
15116850 ATAAGTGCTA
* * * *
15116860 AACAGAAACCCATAAAGGTTGATCAAAAGCTCAAAAGAGCTG
1 AACAAAAACCCATAAGGGTTGAACAAAA-CTCAAAAGAGTTG
* * *
15116902 AACAAAAACTCATAAGGGTTAAACAGAATCTCAAAAGAGTTG
1 AACAAAAACCCATAAGGGTTGAACA-AAACTCAAAAGAGTTG
*
15116944 AACAAAAACCCATTAGGGTTGAACGAAAACTCA
1 AACAAAAACCCATAAGGGTTGAAC-AAAACTCA
15116977 TATGAGTTAG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 59 0.95
43 3 0.05
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.16
Consensus pattern (41 bp):
AACAAAAACCCATAAGGGTTGAACAAAACTCAAAAGAGTTG
Found at i:15117372 original size:42 final size:42
Alignment explanation
Indices: 15117310--15117392 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
15117300 ATTAGTACAT
* * *
15117310 TTTATTAGTTAAAGTCTCCCCTATTTTAGAGTTTGACTGCTG
1 TTTATTAGTTAAAATATCCCCTATTTCAGAGTTTGACTGCTG
*
15117352 TTTATTAGTTAAAATATCCCCTGTTTCAGAGTTTGACTGCT
1 TTTATTAGTTAAAATATCCCCTATTTCAGAGTTTGACTGCT
15117393 CTGACCTCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTATTAGTTAAAATATCCCCTATTTCAGAGTTTGACTGCTG
Found at i:15120321 original size:30 final size:30
Alignment explanation
Indices: 15120286--15120365 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
15120276 CAAGGAAATC
15120286 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAGAGAAACCCA
* *
15120316 GAATAAAGAAATCC-AGAATAGAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAGAAACCCA
* *
15120346 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
15120366 CGGTACTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.05
30 40 0.91
31 2 0.05
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAGAAACCCA
Found at i:15120325 original size:15 final size:15
Alignment explanation
Indices: 15120286--15120356 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
15120276 CAAGGAAATC
15120286 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
15120301 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
15120316 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
15120331 GAATAGAGAGATCCA
1 GAATAAAGAAATCCA
*
15120346 GGATAAAGAAA
1 GAATAAAGAAA
15120357 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
14 1 0.02
15 43 0.96
16 1 0.02
ACGTcount: A:0.56, C:0.13, G:0.20, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:15120365 original size:15 final size:15
Alignment explanation
Indices: 15120288--15120365 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
15120278 AGGAAATCGA
15120288 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
15120303 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
15120317 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
15120332 AATAGAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
15120348 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
15120363 ATA
1 ATA
15120366 CGGTACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:15126932 original size:50 final size:48
Alignment explanation
Indices: 15126805--15126981 Score: 196
Period size: 50 Copynumber: 3.6 Consensus size: 48
15126795 GTATGATGCT
* * * *
15126805 GATACCATGTCCCAGACATGGTCTTACATTGGCTATCGAA-ATCGAGGCC
1 GATACCATGTCCCAGACATGGTCTTACACTAGCTCTC-AATATCG-TGCC
* *
15126854 GACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCA
1 GATACCATGTCCCAGACATGGTCTTACACTAGCTCTCA-ATAT-CGTGCC
* * * *
15126904 GATACCATATCCCAGACATGGTCTTACACTAACACCTCTATAT-GTGCC
1 GATACCATGTCCCAGACATGGTCTTACACTAGC-TCTCAATATCGTGCC
*
15126952 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATACCATGTCCCAGACATGGTCTTACACT
15126982 GACACATCTC
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
48 33 0.30
49 34 0.31
50 38 0.35
51 5 0.05
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (48 bp):
GATACCATGTCCCAGACATGGTCTTACACTAGCTCTCAATATCGTGCC
Found at i:15127035 original size:46 final size:44
Alignment explanation
Indices: 15126913--15127071 Score: 160
Period size: 46 Copynumber: 3.5 Consensus size: 44
15126903 AGATACCATA
* *
15126913 TCCCAGACATGGTCTTACACTAACACCTCT-ATATGTGCCGATGCCATG
1 TCCCAGACAT-GTCTTACACTGACACATCTCA-A-G-GCCGATG-CATG
*
15126961 TCCCAGACATGGTCTTACACTGACACATCTCGTA-GCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGACACATCTC-AAGGCCGATGCATG
* * *
15127006 TCCCAGACATGCCTTACACTGGCTTACATCTCAAGGCCAATGCATG
1 TCCCAGACATGTCTTACACTGAC--ACATCTCAAGGCCGATGCATG
*
15127052 TTCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
15127072 AGCTCTCGTC
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 42 0.43
48 28 0.29
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (44 bp):
TCCCAGACATGTCTTACACTGACACATCTCAAGGCCGATGCATG
Found at i:15142878 original size:42 final size:42
Alignment explanation
Indices: 15142827--15142910 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
15142817 CCACAAATTA
*
15142827 TATATCTCTTCTTTTCAAATTTGCATATGATTTCTGACGGTC
1 TATATCTCTTCTTTTCAAATTTGCATATGATTTCTAACGGTC
15142869 TATATCTCTTCTTTTCAAATTTGCATATGATTTCTAACGGTC
1 TATATCTCTTCTTTTCAAATTTGCATATGATTTCTAACGGTC
15142911 AGAGGTAGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.48
Consensus pattern (42 bp):
TATATCTCTTCTTTTCAAATTTGCATATGATTTCTAACGGTC
Found at i:15146978 original size:102 final size:102
Alignment explanation
Indices: 15146797--15146991 Score: 336
Period size: 102 Copynumber: 1.9 Consensus size: 102
15146787 TTGGAGTACA
* *
15146797 TTTTCTAGATTTAGTCACTGCAGTAGGTGGAGGTGCAATTGACGGCTCGATAGGTGGTATAATAG
1 TTTTCTAGATTTAGTCACTACAGTAGGTGGAGGTGCAATCGACGGCTCGATAGGTGGTATAATAG
*
15146862 GAGGAAGAGGTTGTTGAGCCATATTTCTCTCAGTATG
66 GAGGAAGAGATTGTTGAGCCATATTTCTCTCAGTATG
* *
15146899 TTTTCTAGATTTAGTCACTACAGTAGGTGGAGGTGCAATCGGCGGCTCTATAGGTGGTATAATAG
1 TTTTCTAGATTTAGTCACTACAGTAGGTGGAGGTGCAATCGACGGCTCGATAGGTGGTATAATAG
*
15146964 GAGGATGAGATTGTTGAGCCATATTTCT
66 GAGGAAGAGATTGTTGAGCCATATTTCT
15146992 GTCTTACATG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.33
Consensus pattern (102 bp):
TTTTCTAGATTTAGTCACTACAGTAGGTGGAGGTGCAATCGACGGCTCGATAGGTGGTATAATAG
GAGGAAGAGATTGTTGAGCCATATTTCTCTCAGTATG
Found at i:15150044 original size:25 final size:25
Alignment explanation
Indices: 15150010--15150090 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
15150000 CATACGAGCG
15150010 ATAATCGGTAAGCTTCTTCGAGCTGA
1 ATAA-CGGTAAGCTTCTTCGAGCTGA
* *
15150036 ATAACGGTAAGCTTATGT-GAGCTAA
1 ATAACGGTAAGCTTCT-TCGAGCTGA
* * * *
15150061 ATATCGGTAAGCTTCTCCGAGTTGG
1 ATAACGGTAAGCTTCTTCGAGCTGA
15150086 ATAAC
1 ATAAC
15150091 AATAAGCTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
25 39 0.89
26 5 0.11
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (25 bp):
ATAACGGTAAGCTTCTTCGAGCTGA
Found at i:15150090 original size:50 final size:50
Alignment explanation
Indices: 15150013--15150108 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
15150003 ACGAGCGATA
* ** * *
15150013 ATCGGTAAGCTTCTTCGAGCTGAATAACGGTAAGCTTATGTGAGCTAAAT
1 ATCGGTAAGCTTCTCCGAGCTGAATAACAATAAGCTCATGCGAGCTAAAT
* *
15150063 ATCGGTAAGCTTCTCCGAGTTGGATAACAATAAGCTCATGCGAGCT
1 ATCGGTAAGCTTCTCCGAGCTGAATAACAATAAGCTCATGCGAGCT
15150109 GTGGTGAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (50 bp):
ATCGGTAAGCTTCTCCGAGCTGAATAACAATAAGCTCATGCGAGCTAAAT
Found at i:15152079 original size:42 final size:42
Alignment explanation
Indices: 15152016--15152127 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
15152006 AAGTCCGAAG
* * *
15152016 GCTAAACAGAAACCC-TAAAGGGTTGATCGGAAGCTCATAAGA
1 GCTAAACAGAAACCCAT-AAGGGTTGAACAGAAGCTCAAAAGA
* **
15152058 GCTAAACGGAAACCCATAAGGGTCAAACAGAAGCTCAAAAGA
1 GCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTCAAAAGA
* * *
15152100 GCTGAATAGAAACCCATTAGGGTTGAAC
1 GCTAAACAGAAACCCATAAGGGTTGAAC
15152128 GAAAACTCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (42 bp):
GCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTCAAAAGA
Found at i:15160924 original size:17 final size:18
Alignment explanation
Indices: 15160902--15160938 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15160892 TTAGTGATCG
*
15160902 AAATATAATTTAAA-CTA
1 AAATATAACTTAAACCTA
15160919 AAATATAACTTAAACCTA
1 AAATATAACTTAAACCTA
15160937 AA
1 AA
15160939 TGTAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATAACTTAAACCTA
Found at i:15160939 original size:17 final size:17
Alignment explanation
Indices: 15160902--15160949 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
15160892 TTAGTGATCG
*
15160902 AAATATAATTTAAACTA
1 AAATATAAATTAAACTA
*
15160919 AAATATAACTTAAACCT-
1 AAATATAAATTAAA-CTA
*
15160936 AAATGTAAATTAAA
1 AAATATAAATTAAA
15160950 AAGTGAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (17 bp):
AAATATAAATTAAACTA
Found at i:15164422 original size:2 final size:2
Alignment explanation
Indices: 15164409--15164447 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
15164399 TAGTTCAACT
*
15164409 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15164448 TGGAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:15167471 original size:14 final size:13
Alignment explanation
Indices: 15167442--15167481 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
15167432 AATTTAACTC
*
15167442 AATTTTTAAAAAT
1 AATTTATAAAAAT
15167455 AATTTATAAATAAT
1 AATTTATAAA-AAT
*
15167469 AATTTATTAAAAT
1 AATTTATAAAAAT
15167482 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTTATAAAAAT
Found at i:15177006 original size:13 final size:14
Alignment explanation
Indices: 15176988--15177016 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15176978 ATTGTAAAAT
15176988 ATTTATA-ATTTTA
1 ATTTATATATTTTA
15177001 ATTTATATATTTTA
1 ATTTATATATTTTA
15177015 AT
1 AT
15177017 AGATTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTATATATTTTA
Found at i:15181460 original size:20 final size:20
Alignment explanation
Indices: 15181435--15181475 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15181425 CTAATTTCAA
15181435 CACTACCCTGGTTAATATTC
1 CACTACCCTGGTTAATATTC
15181455 CACTACCCTGGTTAATATTC
1 CACTACCCTGGTTAATATTC
15181475 C
1 C
15181476 TTCAAAATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (20 bp):
CACTACCCTGGTTAATATTC
Found at i:15184658 original size:30 final size:30
Alignment explanation
Indices: 15184553--15184648 Score: 138
Period size: 30 Copynumber: 3.2 Consensus size: 30
15184543 CTAGGACCAC
*
15184553 CACCAGCTTTTGGAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
* * * *
15184583 CGCCAGCTTTAGAAGGAGGTGGCGGAGGGG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
*
15184613 CACCAGCTTTCGGAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
15184643 CACCAG
1 CACCAG
15184649 GAGGTGGAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.21, C:0.18, G:0.46, T:0.16
Consensus pattern (30 bp):
CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
Found at i:15206635 original size:16 final size:16
Alignment explanation
Indices: 15206614--15206673 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
15206604 TTATAAATGT
15206614 TTATTCCATTCCTACC
1 TTATTCCATTCCTACC
* * **
15206630 TTATTCCAATCAATAAT
1 TTATTCCATTC-CTACC
*
15206647 TTGTTCCATTCCTACC
1 TTATTCCATTCCTACC
*
15206663 CTATTCCATTC
1 TTATTCCATTC
15206674 AATGAACCAA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
16 21 0.66
17 11 0.34
ACGTcount: A:0.23, C:0.32, G:0.02, T:0.43
Consensus pattern (16 bp):
TTATTCCATTCCTACC
Found at i:15217842 original size:41 final size:41
Alignment explanation
Indices: 15217780--15217862 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
15217770 TAATGGTGGA
*
15217780 TTGATTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
1 TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
15217821 TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
1 TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
15217862 T
1 T
15217863 GGTTCTTATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (41 bp):
TTGACTTAAATTTTGTTAAGTTACTTATTATTGAAATTTAT
Found at i:15219051 original size:31 final size:29
Alignment explanation
Indices: 15218978--15219051 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
15218968 GGTCAAATAT
*
15218978 AAATTTATGTATAAAATTATACAAAATCA
1 AAATTAATGTATAAAATTATACAAAATCA
* * * *
15219007 AAATTCATATATAAAATTATATATTAGATCA
1 AAATTAATGTATAAAATTATACA--AAATCA
*
15219038 AAGTTAATGTATAA
1 AAATTAATGTATAA
15219052 TTTTGAGATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 20 0.56
31 16 0.44
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTAATGTATAAAATTATACAAAATCA
Found at i:15227119 original size:20 final size:20
Alignment explanation
Indices: 15227090--15227135 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15227080 CTTTCAATAT
15227090 TCTCTCAAATTCCTCACAAA
1 TCTCTCAAATTCCTCACAAA
* *
15227110 TCTCTTAAATTCCTCTCAAA
1 TCTCTCAAATTCCTCACAAA
*
15227130 ACTCTC
1 TCTCTC
15227136 GTTAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (20 bp):
TCTCTCAAATTCCTCACAAA
Found at i:15228303 original size:7 final size:7
Alignment explanation
Indices: 15228291--15228324 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
15228281 TAGTGGATTC
15228291 GTATTTA
1 GTATTTA
15228298 GTATTTA
1 GTATTTA
15228305 GTATTTA
1 GTATTTA
15228312 GTATTTA
1 GTATTTA
15228319 GTATTT
1 GTATTT
15228325 TTTATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:15228964 original size:18 final size:18
Alignment explanation
Indices: 15228941--15228983 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15228931 TGCCAGGTAC
15228941 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTTTAT
15228959 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTTTAT
*
15228977 GTTTCCT
1 GTATCCT
15228984 TTTTCTAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.12, T:0.47
Consensus pattern (18 bp):
GTATCCTAGCCCTTTTAT
Found at i:15229572 original size:116 final size:116
Alignment explanation
Indices: 15229368--15229634 Score: 464
Period size: 116 Copynumber: 2.3 Consensus size: 116
15229358 TATTTGTACA
15229368 AACATTTTGAATC-TTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAA
1 AACATTTTGAA-CATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAA
* * *
15229432 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
65 TTATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
* *
15229484 AACATTTTGAACATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAACATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAAT
15229549 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
*
15229600 AACATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAACATTTTTATATTATTTCATGTAAT
15229635 AAAATATAAA
Statistics
Matches: 144, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
115 1 0.01
116 143 0.99
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAACATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:15229594 original size:54 final size:54
Alignment explanation
Indices: 15229417--15229598 Score: 156
Period size: 54 Copynumber: 3.2 Consensus size: 54
15229407 TAAAAGGTTG
* * *
15229417 TTTTAAATAAAATAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
* * * *
15229471 TTTTAAATAAGGCAA-CAT--TTTGAACATTTTTATATTATTTCATGTAATTAGAT-AAAATGTT
1 TTTTAAATAAAGTAATTATAATTT--AC--TTTTATATT-TTT-A-ATAA--A-ATGAAAA--TT
*
15229532 G
54 A
15229533 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
15229587 TTTTAAATAAAG
1 TTTTAAATAAAG
15229599 CAACATTTTG
Statistics
Matches: 99, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
51 3 0.03
53 3 0.03
54 26 0.26
55 11 0.11
56 8 0.08
57 1 0.01
58 6 0.06
59 1 0.01
60 7 0.07
61 11 0.11
62 15 0.15
63 4 0.04
65 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (54 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
Found at i:15231645 original size:35 final size:35
Alignment explanation
Indices: 15231606--15231673 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
15231596 AAAACTATCC
15231606 TTATTGGAAAAATCCTTACCAACTTCAAATTCATT
1 TTATTGGAAAAATCCTTACCAACTTCAAATTCATT
*
15231641 TTATTGGAAAACTCCTTACCAACTTCAAATTCA
1 TTATTGGAAAAATCCTTACCAACTTCAAATTCA
15231674 CTCGAATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (35 bp):
TTATTGGAAAAATCCTTACCAACTTCAAATTCATT
Found at i:15233231 original size:126 final size:126
Alignment explanation
Indices: 15232685--15233231 Score: 792
Period size: 126 Copynumber: 4.3 Consensus size: 126
15232675 GCCCAAGTTA
* * * * *
15232685 TTTCAGAAACCACTGTAGCAAAAGAGCTTCCACGTGGGAGATTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTCTTTCAGTACTTTTGCTGAAAA
**
15232750 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * * * *
15232811 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTCTTTCAGTACTTTTGCTGAAAA
*
15232876 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTTAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
15232937 TTTCAGAGACTACTGTAGCAAAAGAGCGCCCACGTAGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
15233002 TTCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
15233063 TTTCAGATACTACTGTAGCAAAATAGCGTGCACGT-GAGAGCTTCTTTCAGTACTTTTGCTGACA
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTAGA-AGCTTCTTTCAGTACTTTTGCTGAAA
* * * *
15233127 ATGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTGCAGACACGTCTTCTCAAATTTATTT
65 ATGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
15233189 TTTCAGAAACTACTGTAGCAAAAGAGCGTCTACGTAGAAGCTT
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTT
15233232 TTTTAGATTA
Statistics
Matches: 383, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
125 3 0.01
126 377 0.98
127 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:15233327 original size:15 final size:15
Alignment explanation
Indices: 15233307--15233335 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15233297 TTCTTAAATG
15233307 CCCTAAAATCCTAAA
1 CCCTAAAATCCTAAA
15233322 CCCTAAAATCCTAA
1 CCCTAAAATCCTAA
15233336 TCTATTTTTT
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:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAAATCCTAAA
Found at i:15233516 original size:104 final size:104
Alignment explanation
Indices: 15233276--15233825 Score: 319
Period size: 104 Copynumber: 5.4 Consensus size: 104
15233266 TAAACCCCAG
*
15233276 ACCCTAATTTATTTAATTTTTTT-CTTAAATGCCCTAAAATCCTAAACCCTAAAATCCTAATCTA
1 ACCCTAATTTATTTAATTTTTTTCCTTAAA-ACCCTAAAA-CCTAAACCCTAAAATCCTAATCTA
* ** *
15233340 TTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAA
64 TTTTTTTAAAATTTATAATTAATTTAATCAACAAACACTAA
* * * *
15233381 ACCCTAATTTATTTGA-TTTTTTCCTTAAAAACC-ATAAACACTAGA-CC-ATAATCCATAATCT
1 ACCCTAATTTATTTAATTTTTTTCCTTAAAACCCTA-AAAC-CTAAACCCTAAAATCC-TAATCT
* * *
15233442 AATTTTTTTTAAA-TTAGTAATTAATTTAATTAACAAACATTAA
63 -ATTTTTTTAAAATTTA-TAATTAATTTAATCAACAAACACTAA
* ** * *
15233485 ACCTTAATTTATTTAATTTTTTTCCTTAAAACCCTAAAATTTAAAAACCC-AAAATTCTCAAAAC
1 ACCCTAATTTATTTAATTTTTTTCCTTAAAACCCTAAAACCT--AAACCCTAAAA-TC-CTAATC
** ***** * * **
15233549 CCTAACCCT--AATTGCAGAA--AACCCTAAT-AA-AAACAC---
62 TATTTTTTTAAAATT-TATAATTAA-TTTAATCAACAAACACTAA
*** *** *
15233585 A-GGGAAAACATTTAATTTTTTT-CTTAAATGCCCTAAAATCCTAAACCCTAAAATCCTAATCTA
1 ACCCTAATTTATTTAATTTTTTTCCTTAAA-ACCCTAAAA-CCTAAACCCTAAAATCCTAATCTA
* ** *
15233648 TTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAA
64 TTTTTTTAAAATTTATAATTAATTTAATCAACAAACACTAA
* * * * *
15233689 ACCCTAATTTATTTGA-TTTTTTCCTTAAAAACC-ATAAACACTAGA-CC-ATAAT--T--T-AA
1 ACCCTAATTTATTTAATTTTTTTCCTTAAAACCCTA-AAAC-CTAAACCCTAAAATCCTAATCTA
*
15233745 TTTTTTTAAAA-TTAGTAATTAATTTAATTAACAAACACTAA
64 TTTTTTTAAAATTTA-TAATTAATTTAATCAACAAACACTAA
*
15233786 ACCTTAATTTATTTAATTTTTTTCCCTTAAAACCCTAAAA
1 ACCCTAATTTATTTAATTTTTTT-CCTTAAAACCCTAAAA
15233826 TTTAAAAACC
Statistics
Matches: 331, Mismatches: 78, Indels: 78
0.68 0.16 0.16
Matches are distributed among these distances:
96 3 0.01
97 53 0.16
98 24 0.07
99 47 0.14
100 8 0.02
101 4 0.01
102 10 0.03
103 22 0.07
104 81 0.24
105 59 0.18
106 6 0.02
107 8 0.02
108 5 0.02
109 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.39
Consensus pattern (104 bp):
ACCCTAATTTATTTAATTTTTTTCCTTAAAACCCTAAAACCTAAACCCTAAAATCCTAATCTATT
TTTTTAAAATTTATAATTAATTTAATCAACAAACACTAA
Found at i:15233533 original size:16 final size:17
Alignment explanation
Indices: 15233512--15233553 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
15233502 TTTTTTCCTT
15233512 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCTA
*
15233528 AAAACCC-AAAATTCTC
1 AAAACCCTAAAATTCTA
15233544 AAAACCCTAA
1 AAAACCCTAA
15233554 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAACCCTAAAATTCTA
Found at i:15233635 original size:15 final size:15
Alignment explanation
Indices: 15233615--15233643 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15233605 TTCTTAAATG
15233615 CCCTAAAATCCTAAA
1 CCCTAAAATCCTAAA
15233630 CCCTAAAATCCTAA
1 CCCTAAAATCCTAA
15233644 TCTATTTTTT
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:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAAATCCTAAA
Found at i:15233835 original size:16 final size:17
Alignment explanation
Indices: 15233814--15233855 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
15233804 TTTTTCCCTT
15233814 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCTA
*
15233830 AAAACCC-AAAATTCTC
1 AAAACCCTAAAATTCTA
15233846 AAAACCCTAA
1 AAAACCCTAA
15233856 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAACCCTAAAATTCTA
Found at i:15233860 original size:308 final size:305
Alignment explanation
Indices: 15233286--15233899 Score: 1146
Period size: 308 Copynumber: 2.0 Consensus size: 305
15233276 ACCCTAATTT
15233286 ATTTAATTTTTTTCTTAAATGCCCTAAAATCCTAAACCCTAAAATCCTAATCTATTTTTTTAAAA
1 ATTTAATTTTTTTCTTAAATGCCCTAAAATCCTAAACCCTAAAATCCTAATCTATTTTTTTAAAA
15233351 TTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCAT
66 TTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCAT
*
15233416 AAACACTAGACCATAATCCATAATCTAATTTTTTTTAAATTAGTAATTAATTTAATTAACAAACA
131 AAACACTAGACCATAA--CAT-ATCTAATTTTTTTAAAATTAGTAATTAATTTAATTAACAAACA
*
15233481 TTAAACCTTAATTTATTTAATTTTTTTCCTTAAAACCCTAAAATTTAAAAACCCAAAATTCTCAA
193 CTAAACCTTAATTTATTTAATTTTTTTCCTTAAAACCCTAAAATTTAAAAACCCAAAATTCTCAA
15233546 AACCCTAACCCTAATTGCAGAAAACCCTAATAAAAACACAGGGAAAAC
258 AACCCTAACCCTAATTGCAGAAAACCCTAATAAAAACACAGGGAAAAC
15233594 ATTTAATTTTTTTCTTAAATGCCCTAAAATCCTAAACCCTAAAATCCTAATCTATTTTTTTAAAA
1 ATTTAATTTTTTTCTTAAATGCCCTAAAATCCTAAACCCTAAAATCCTAATCTATTTTTTTAAAA
15233659 TTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCAT
66 TTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCAT
15233724 AAACACTAGACCAT-A-AT-T-TAATTTTTTTAAAATTAGTAATTAATTTAATTAACAAACACTA
131 AAACACTAGACCATAACATATCTAATTTTTTTAAAATTAGTAATTAATTTAATTAACAAACACTA
15233785 AACCTTAATTTATTTAATTTTTTTCCCTTAAAACCCTAAAATTTAAAAACCCAAAATTCTCAAAA
196 AACCTTAATTTATTTAATTTTTTT-CCTTAAAACCCTAAAATTTAAAAACCCAAAATTCTCAAAA
15233850 CCCTAACCCTAATTGCAGAAAACCCTAATAAAAACACAGGGAAAAC
260 CCCTAACCCTAATTGCAGAAAACCCTAATAAAAACACAGGGAAAAC
15233896 ATTT
1 ATTT
15233900 CCTCAAGGAA
Statistics
Matches: 303, Mismatches: 2, Indels: 8
0.97 0.01 0.03
Matches are distributed among these distances:
301 65 0.21
302 91 0.30
304 2 0.01
307 1 0.00
308 144 0.48
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (305 bp):
ATTTAATTTTTTTCTTAAATGCCCTAAAATCCTAAACCCTAAAATCCTAATCTATTTTTTTAAAA
TTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCAT
AAACACTAGACCATAACATATCTAATTTTTTTAAAATTAGTAATTAATTTAATTAACAAACACTA
AACCTTAATTTATTTAATTTTTTTCCTTAAAACCCTAAAATTTAAAAACCCAAAATTCTCAAAAC
CCTAACCCTAATTGCAGAAAACCCTAATAAAAACACAGGGAAAAC
Found at i:15234207 original size:16 final size:15
Alignment explanation
Indices: 15234184--15234213 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15234174 GAATATAGTA
15234184 AAATTTTAAAAAAAT
1 AAATTTTAAAAAAAT
15234199 AAATATTTAAAAAAA
1 AAAT-TTTAAAAAAA
15234214 AAGAAACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTTTAAAAAAAT
Found at i:15234693 original size:13 final size:13
Alignment explanation
Indices: 15234673--15234714 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
15234663 AGTCTGATTC
15234673 AAAACAAAACAAA
1 AAAACAAAACAAA
*
15234686 ACAACAAAACCAAA
1 AAAACAAAA-CAAA
15234700 AAAAGCAAAACAAA
1 AAAA-CAAAACAAA
15234714 A
1 A
15234715 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 12 0.48
15 5 0.20
ACGTcount: A:0.79, C:0.19, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAACAAAACAAA
Found at i:15237262 original size:49 final size:48
Alignment explanation
Indices: 15237190--15237282 Score: 159
Period size: 49 Copynumber: 1.9 Consensus size: 48
15237180 TGCTATACAA
*
15237190 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATATAT
1 TGCTAAACTTAGTCTTCCACTGTC-ACACTCTTATCACTATTTATATAT
*
15237239 TGCTAAACTTAGTCTTCCACTGTCACATTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCACACTCTTATCACTATTTAT
15237283 CCCTTATTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 19 0.45
49 23 0.55
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.43
Consensus pattern (48 bp):
TGCTAAACTTAGTCTTCCACTGTCACACTCTTATCACTATTTATATAT
Found at i:15238617 original size:43 final size:43
Alignment explanation
Indices: 15238567--15238652 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
15238557 TCATATCTCA
15238567 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
* * *
15238610 TTTCTCATCTCATATTCATTTCTCATCTTTGCCGTTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
15238653 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.03, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
Found at i:15242433 original size:52 final size:52
Alignment explanation
Indices: 15242335--15242433 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
15242325 ACATGTGAAG
* *
15242335 CATCCGAGCTCGTTGAGTTGGTTCGAGTTCATAATGGATACGATACAAGTGA
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACAATACAAGTGA
* * *
15242387 CATCCGAGCTCGTTGAGTTGGTCCGATTTCATTATGGATGCAATACA
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACAATACA
15242434 TGTAATTAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (52 bp):
CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACAATACAAGTGA
Found at i:15246514 original size:22 final size:22
Alignment explanation
Indices: 15246471--15246514 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15246461 TTAGGTATTT
**
15246471 AAACTTTTAAAATGTATTAAAA
1 AAACTTTTAAAATGTAAAAAAA
* *
15246493 AAACTTTTAAACTTTAAAAAAA
1 AAACTTTTAAAATGTAAAAAAA
15246515 TAATTAAGCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (22 bp):
AAACTTTTAAAATGTAAAAAAA
Found at i:15246560 original size:9 final size:9
Alignment explanation
Indices: 15246548--15246718 Score: 73
Period size: 9 Copynumber: 18.1 Consensus size: 9
15246538 AAAATTAGAA
15246548 AAAAATTAT
1 AAAAATTAT
15246557 AAAAA--AT
1 AAAAATTAT
* *
15246564 TAAAATCAAT
1 AAAAAT-TAT
*
15246574 AAAAACTAT
1 AAAAATTAT
*
15246583 AAATATTATT
1 AAAAATTA-T
**
15246593 AAATTTTAAT
1 AAAAATT-AT
15246603 AAAAAAATTATT
1 --AAAAATTA-T
15246615 AAAAA-TAT
1 AAAAATTAT
*
15246623 AAAAATTGT
1 AAAAATTAT
*
15246632 AAAAAATAT
1 AAAAATTAT
*
15246641 AAAAAATTGT
1 -AAAAATTAT
*
15246651 AAAATTTTAT
1 AAAA-ATTAT
*
15246661 AAAAATCAT
1 AAAAATTAT
15246670 AAAAA-TATT
1 AAAAATTA-T
15246679 ATAAAATATAT
1 A-AAAAT-TAT
* *
15246690 AGAAATATAAA
1 A-AAA-ATTAT
15246701 AAAAATTAT
1 AAAAATTAT
15246710 -AAAATTAT
1 AAAAATTAT
15246718 A
1 A
15246719 TTAAGTCTTA
Statistics
Matches: 121, Mismatches: 24, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
7 6 0.05
8 15 0.12
9 41 0.34
10 40 0.33
11 9 0.07
12 10 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Done.