Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 65 of 163
Found at i:21461339 original size:42 final size:41
Alignment explanation
Indices: 21461064--21461347 Score: 214
Period size: 42 Copynumber: 7.0 Consensus size: 41
21461054 GGATCCCGGT
* * *
21461064 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATAAGG
1 GGAATCAGCACATACCAACCACCTTATAATCAATGATACGG
* * *
21461105 GGAATCAGCACATAGCAACC-CCTT-TCGCAATCAAGGATATGG
1 GGAATCAGCACATACCAACCACCTTAT---AATCAATGATACGG
* * ** *
21461147 TGGAATCAACACTTAGTAACCACCTTATAATCAATCATACGG
1 -GGAATCAGCACATACCAACCACCTTATAATCAATGATACGG
* * *
21461189 GGAATCAGCACATAACAACC-CCTTTCACAATCAAGGATAC--
1 GGAATCAGCACATACCAACCACC-TT-ATAATCAATGATACGG
*
21461229 -G-AT--G-AAAT-CACAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACATAC-CAACCACCTTATAATCAATGATACGG
** * *
21461265 GGAATCAGCACATGGCAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATACCAACCACC-TT-ATAATCAATGATACGG
*
21461307 TGGAATCAGCACTTACCAACCACCTTATAATCAATGATACG
1 -GGAATCAGCACATACCAACCACCTTATAATCAATGATACG
21461348 AGTTCACATA
Statistics
Matches: 192, Mismatches: 29, Indels: 43
0.73 0.11 0.16
Matches are distributed among these distances:
34 12 0.06
35 10 0.05
36 3 0.02
37 1 0.01
38 4 0.02
39 2 0.01
40 9 0.05
41 47 0.24
42 61 0.32
43 36 0.19
44 6 0.03
45 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (41 bp):
GGAATCAGCACATACCAACCACCTTATAATCAATGATACGG
Found at i:21461432 original size:51 final size:51
Alignment explanation
Indices: 21461352--21461542 Score: 222
Period size: 51 Copynumber: 3.8 Consensus size: 51
21461342 GATACGAGTT
* * *
21461352 CACATAGTAGCCTACACATAGTACTACACATGTGACCATAACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGGTA
** * ** *
21461403 CATGTAGTAGCCTGCACATAGTACTACACACGTGATCGGAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGGTA
* * * * * * * *
21461454 CGCATAGTAGCTTGCACATAATACTACACATGCGACC-TATCTTTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGGTA
21461504 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
21461543 CGCTCTCACT
Statistics
Matches: 113, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
50 41 0.36
51 72 0.64
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGGTA
Found at i:21461533 original size:101 final size:102
Alignment explanation
Indices: 21461354--21461538 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
21461344 TACGAGTTCA
* * **
21461354 CATAGTAGCCTACACATAGTACTACACATGTGACCATAACTATCCGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAATACTACACATGCGACCATAACTATCCGATACACATAGTAGCCTGCA
21461419 CATAGTACTACACACGTGATCGGAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGGAGCTATCCGGTACG
* * * * * *
21461456 CATAGTAGCTTGCACATAATACTACACATGCGACC-TATCTTTCTGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAATACTACACATGCGACCATAACTATCCGATACACATAGTAGCCTGCA
21461520 CATAGTACTACACACGTGA
66 CATAGTACTACACACGTGA
21461539 CCATCGCTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 42 0.58
102 31 0.42
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTACACATAATACTACACATGCGACCATAACTATCCGATACACATAGTAGCCTGCA
CATAGTACTACACACGTGATCGGAGCTATCCGGTACG
Found at i:21461561 original size:101 final size:102
Alignment explanation
Indices: 21461349--21461574 Score: 258
Period size: 101 Copynumber: 2.2 Consensus size: 102
21461339 AATGATACGA
* * **
21461349 GTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATAACTATCCGATACATGTAGTAGC
1 GTTCACATAGTAGCCTACACATAATACTACACATGCGACCATAACTATCCGATACACATAGTAGC
* *
21461414 CTGCACATAGTACTACACACGTGATCGGAGCTATCCG
66 CTGCACATAGTACTACACACGTGACCAGAGCTATCCG
* * * * * * * *
21461451 GTACGCATAGTAGCTTGCACATAATACTACACATGCGACC-TATCTTTCTGGTACACATAGTAGC
1 GTTCACATAGTAGCCTACACATAATACTACACATGCGACCATAACTATCCGATACACATAGTAGC
** *
21461515 CTGCACATAGTACTACACACGTGACCATCGCTCTCAC-
66 CTGCACATAGTACTACACACGTGACCAGAGCTATC-CG
* *
21461552 TTTCACATAGTGGCCTACACATA
1 GTTCACATAGTAGCCTACACATA
21461575 GTCCGTGCCA
Statistics
Matches: 100, Mismatches: 23, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
101 65 0.65
102 35 0.35
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAATACTACACATGCGACCATAACTATCCGATACACATAGTAGC
CTGCACATAGTACTACACACGTGACCAGAGCTATCCG
Found at i:21462873 original size:51 final size:49
Alignment explanation
Indices: 21462791--21462964 Score: 177
Period size: 51 Copynumber: 3.4 Consensus size: 49
21462781 NNNNNNCCTA
* * * *
21462791 CACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTG
1 CACATAGTACTACACACGTGA-CA-AACTATCCGGTACACATAGTAGCCTG
* *
21462842 CAAATAGTACTACACACGTGATCAAAGCTATCCGGTACGCATAGTAGCCTG
1 CACATAGTACTACACACGTGA-CAAA-CTATCCGGTACACATAGTAGCCTG
* * * * * * * *
21462893 CACATAATACTACACATGCGACCTATCTTTCTGGTACACATAGTAGGCTG
1 CACATAGTACTACACACGTGA-CAAACTATCCGGTACACATAGTAGCCTG
21462943 CACATAGTACTACACACGTGAC
1 CACATAGTACTACACACGTGAC
21462965 CATCAATTTC
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 39 0.39
51 61 0.60
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
CACATAGTACTACACACGTGACAAACTATCCGGTACACATAGTAGCCTG
Found at i:21468787 original size:42 final size:42
Alignment explanation
Indices: 21468707--21468977 Score: 211
Period size: 42 Copynumber: 6.5 Consensus size: 42
21468697 GGATCCCGGT
* *
21468707 GGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATACGA
1 GGAATCAGCACATAGCAA-CACCTTTCACAATCAATGATACGA
* * *
21468748 GGAATGAACACATAGCAACACCTTTCACAATCAATGATACGGT
1 GGAATCAGCACATAGCAACACCTTTCACAATCAATGATAC-GA
* * * *
21468791 GGAATCAGCACTTAACAACCACC-TT-ATAATCAATGATA-TA
1 GGAATCAGCACATAGCAA-CACCTTTCACAATCAATGATACGA
* *
21468831 GGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG-
1 -GGAATCAGCACATAGCAACACCTTTCACAATCAATGATACGA
* * *
21468873 GTAGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATA-TA
1 G--GAATCAGCACATAGCAA-CACCTTTCACAATCAATGATACGA
* * *
21468915 GGGAATCAGCACATAGCAAC-CCATTTCACAATCAAGGATATGGT
1 -GGAATCAGCACATAGCAACACC-TTTCACAATCAATGATA-CGA
* *
21468959 GGAATCAACACTTAGCAAC
1 GGAATCAGCACATAGCAAC
21468978 CATCTTATAA
Statistics
Matches: 182, Mismatches: 30, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 54 0.30
42 58 0.32
43 53 0.29
44 7 0.04
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACATAGCAACACCTTTCACAATCAATGATACGA
Found at i:21468823 original size:84 final size:83
Alignment explanation
Indices: 21468703--21468996 Score: 446
Period size: 84 Copynumber: 3.5 Consensus size: 83
21468693 CAAAGGATCC
* *
21468703 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGA-GGAATGAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATA-GAGGGAATCAGCACATAGCAAC
*
21468767 ACCTTTCACAATCAATGATA
65 -CCTTTCACAATCAAGGATA
* *
21468787 CGGTGGAATCAGCACTTAACAACCACCTTATAATCAATGATATAGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAGAGGGAATCAGCACATAGCAA-C
21468852 CCTTTCACAATCAAGGATA
65 CCTTTCACAATCAAGGATA
* *
21468871 CGGTAGAATCAGCACTTAGCAACCACCTTATAATCAATGATATAGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAGAGGGAATCAGCACATAGCAACC
21468936 CATTTCACAATCAAGGATA
66 C-TTTCACAATCAAGGATA
* * * *
21468955 TGGTGGAATCAACACTTAGCAACCATCTTATAATTAATGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATA
21468997 CGGGTTCACA
Statistics
Matches: 195, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
83 4 0.02
84 190 0.97
85 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (83 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAGAGGGAATCAGCACATAGCAACC
CTTTCACAATCAAGGATA
Found at i:21469063 original size:51 final size:51
Alignment explanation
Indices: 21469003--21469179 Score: 171
Period size: 51 Copynumber: 3.5 Consensus size: 51
21468993 GATACGGGTT
* * *
21469003 CACATAGTACTACACATGTGACCATCA-CTATCCGATACACGTAGTAGCCTG
1 CACATAGTACTACACACGTGACCAT-AGCTATCCGGTACACATAGTAGCCTG
* * * *
21469054 TACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCATAATAGCCTG
1 CACATAGTACTACACACGTGA-CCATAGCTATCCGGTACACATAGTAGCCTG
* * * * * ** *
21469105 CACATAATACTACACATGCGACC-TATCTTTTTGGTTCACATAGTAGCCTG
1 CACATAGTACTACACACGTGACCATAGCTATCCGGTACACATAGTAGCCTG
*
21469155 CATATAGTACTACACACGTGACCAT
1 CACATAGTACTACACACGTGACCAT
21469180 CACTTTCACT
Statistics
Matches: 99, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
50 40 0.40
51 57 0.58
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
CACATAGTACTACACACGTGACCATAGCTATCCGGTACACATAGTAGCCTG
Found at i:21484574 original size:35 final size:34
Alignment explanation
Indices: 21484507--21484658 Score: 144
Period size: 35 Copynumber: 4.3 Consensus size: 34
21484497 ACTTTTTGTT
* * *
21484507 TTGGTGTGTTTCGATTGGACTAGCT-TTCATGAGCA
1 TTGGTGTATTTCGA-GGGATTAGCTCTT-ATGAGCA
*
21484542 TTGTTGTATTTCAGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTATTTC-GAGGGATTAGCTCTTATGAGCA
* * *
21484577 TTGATGTGTTTCGAAGGGATTAGTTCTTATGAGCA
1 TTGGTGTATTTCG-AGGGATTAGCTCTTATGAGCA
* * * *
21484612 TTGGTGTATTTTGGATGGATTGGCTCTTGTGAGCA
1 TTGGTGTA-TTTCGAGGGATTAGCTCTTATGAGCA
21484647 TCTGGTGTATTT
1 T-TGGTGTATTT
21484659 TGGTTGGATT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
34 1 0.01
35 82 0.84
36 15 0.15
ACGTcount: A:0.18, C:0.11, G:0.29, T:0.42
Consensus pattern (34 bp):
TTGGTGTATTTCGAGGGATTAGCTCTTATGAGCA
Found at i:21494424 original size:11 final size:11
Alignment explanation
Indices: 21494408--21494436 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
21494398 TCCAAAATCA
21494408 ATACTTGTACC
1 ATACTTGTACC
21494419 ATACTTGTACC
1 ATACTTGTACC
21494430 ATACTTG
1 ATACTTG
21494437 CTCAAGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (11 bp):
ATACTTGTACC
Found at i:21496932 original size:28 final size:28
Alignment explanation
Indices: 21496900--21496956 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
21496890 TCAAAAGGAG
*
21496900 TATAGCTAGGTTTTGGTCAAGCCATTTT
1 TATAGCTAGGTTTCGGTCAAGCCATTTT
21496928 TATAGCTAGGTTTCGGTCAAGCCATTTT
1 TATAGCTAGGTTTCGGTCAAGCCATTTT
21496956 T
1 T
21496957 GCTTGCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (28 bp):
TATAGCTAGGTTTCGGTCAAGCCATTTT
Found at i:21497574 original size:17 final size:17
Alignment explanation
Indices: 21497552--21497587 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21497542 TAACGTTTTA
*
21497552 ATGTTATTTTGATATTT
1 ATGTTATTGTGATATTT
*
21497569 ATGTTATTGTGCTATTT
1 ATGTTATTGTGATATTT
21497586 AT
1 AT
21497588 CATGTAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.61
Consensus pattern (17 bp):
ATGTTATTGTGATATTT
Found at i:21499653 original size:12 final size:11
Alignment explanation
Indices: 21499617--21499658 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
21499607 GTTTTTGGAT
*
21499617 AAATGATAAGA
1 AAATAATAAGA
21499628 AAATAATAAGA
1 AAATAATAAGA
*
21499639 AAATAAATAACA
1 AAAT-AATAAGA
21499651 AAA-AATAA
1 AAATAATAA
21499659 ACAAAAAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 5 0.18
11 14 0.50
12 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (11 bp):
AAATAATAAGA
Found at i:21501753 original size:35 final size:35
Alignment explanation
Indices: 21501707--21501774 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
21501697 GAGACTACGT
*
21501707 ACTTGTAACATCCCGATTTTAGGCCTAGTCGGAAC
1 ACTTGTAACATCCCGATTTTAGGCCTAATCGGAAC
*
21501742 ACTTGTAACATCCCGATTTTGGGCCTAATCGGA
1 ACTTGTAACATCCCGATTTTAGGCCTAATCGGA
21501775 GCAGTGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (35 bp):
ACTTGTAACATCCCGATTTTAGGCCTAATCGGAAC
Found at i:21503079 original size:50 final size:50
Alignment explanation
Indices: 21502958--21503190 Score: 177
Period size: 50 Copynumber: 4.6 Consensus size: 50
21502948 GTAAAGAGAT
* * * *
21502958 CCCATGTAAGACCATGTCT-GGACATGACATTGGCATCATTGAGATTATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGAG---ATGAGAGGC
* *
21503013 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGC
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGC
** * * *
21503063 CCCCCGTAAGACCATGTCTGGGATATGGCATGGGCACCGATATGAGA-AC
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGC
* * * * * * * ***
21503112 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAGAAACAT
1 -CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAGGC
21503162 CCCATGTAAGACCATGTCTGGGACATGGC
1 CCCATGTAAGACCATGTCTGGGACATGGC
21503191 TTTGGCATGT
Statistics
Matches: 151, Mismatches: 23, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 32 0.21
50 81 0.54
53 3 0.02
55 20 0.13
56 14 0.09
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGC
Found at i:21503196 original size:49 final size:48
Alignment explanation
Indices: 21503012--21503197 Score: 178
Period size: 50 Copynumber: 3.8 Consensus size: 48
21503002 TTATGAGAGG
* * *
21503012 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGA-A-AC
** * * *
21503063 -CCCCCGTAAGACCATGTCTGGGATATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGA-AAC
* * * *
21503112 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA-GTACAAGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACATGAAAC
*
21503160 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21503198 TGTTATTATC
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
48 4 0.04
49 38 0.33
50 72 0.63
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACATGAAAC
Found at i:21504458 original size:100 final size:101
Alignment explanation
Indices: 21504338--21504538 Score: 395
Period size: 100 Copynumber: 2.0 Consensus size: 101
21504328 TCTAAATTTT
21504338 TAGTTTCGTAACTCGAGTTATAGTTAAATTAGTGACTGCTGTGCAGGTGCACAACATTATGGTGA
1 TAGTTTCGTAACTCGAGTTATAGTTAAATTAGTGACTGCTGTGCAGGTGCACAACATTATGGTGA
21504403 ACAGTGAAATAAATTTTAAAAGCAAATTTTTATGCC
66 ACAGTGAAATAAATTTTAAAAGCAAATTTTTATGCC
21504439 TAGTTTCGT-ACTCGAGTTATAGTTAAATTAGTGACTGCTGTGCAGGTGCACAACATTATGGTGA
1 TAGTTTCGTAACTCGAGTTATAGTTAAATTAGTGACTGCTGTGCAGGTGCACAACATTATGGTGA
21504503 ACAGTGAAATAAATTTTAAAAGCAAATTTTTATGCC
66 ACAGTGAAATAAATTTTAAAAGCAAATTTTTATGCC
21504539 CCGAACTAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 91 0.91
101 9 0.09
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (101 bp):
TAGTTTCGTAACTCGAGTTATAGTTAAATTAGTGACTGCTGTGCAGGTGCACAACATTATGGTGA
ACAGTGAAATAAATTTTAAAAGCAAATTTTTATGCC
Found at i:21506700 original size:36 final size:36
Alignment explanation
Indices: 21506655--21506731 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
21506645 TTAAACATTT
21506655 CAACATCACAAATATTCATAGACATGTTCATAACAA
1 CAACATCACAAATATTCATAGACATGTTCATAACAA
21506691 CAACATCACAAATATTCATAGACATGTTCATAACAA
1 CAACATCACAAATATTCATAGACATGTTCATAACAA
21506727 CAACA
1 CAACA
21506732 ATAAAATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.23
Consensus pattern (36 bp):
CAACATCACAAATATTCATAGACATGTTCATAACAA
Found at i:21507527 original size:97 final size:97
Alignment explanation
Indices: 21507361--21507569 Score: 418
Period size: 97 Copynumber: 2.2 Consensus size: 97
21507351 TCTTTAAAAT
21507361 TTTTAAAATTTTAAATTAGGAAAGGTAAAATTGTACTTTAGCCCCCTAAAAATATAAAATTTTGA
1 TTTTAAAATTTTAAATTAGGAAAGGTAAAATTGTACTTTAGCCCCCTAAAAATATAAAATTTTGA
21507426 TTTAATCCTTTAAAAATTATATAGATATAAAC
66 TTTAATCCTTTAAAAATTATATAGATATAAAC
21507458 TTTTAAAATTTTAAATTAGGAAAGGTAAAATTGTACTTTAGCCCCCTAAAAATATAAAATTTTGA
1 TTTTAAAATTTTAAATTAGGAAAGGTAAAATTGTACTTTAGCCCCCTAAAAATATAAAATTTTGA
21507523 TTTAATCCTTTAAAAATTATATAGATATAAAC
66 TTTAATCCTTTAAAAATTATATAGATATAAAC
21507555 TTTTAAAATTTTAAA
1 TTTTAAAATTTTAAA
21507570 ATTACATTTT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 112 1.00
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (97 bp):
TTTTAAAATTTTAAATTAGGAAAGGTAAAATTGTACTTTAGCCCCCTAAAAATATAAAATTTTGA
TTTAATCCTTTAAAAATTATATAGATATAAAC
Found at i:21509991 original size:12 final size:13
Alignment explanation
Indices: 21509967--21509991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21509957 TGTTGTAGTT
21509967 AAAATTTTAAAAA
1 AAAATTTTAAAAA
21509980 AAAATTTTAAAA
1 AAAATTTTAAAA
21509992 TTTTGGGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTAAAAA
Found at i:21523035 original size:22 final size:22
Alignment explanation
Indices: 21523010--21523051 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
21523000 GTGGTCTAGT
21523010 TGAACTGAACCGAGTGAACCGA
1 TGAACTGAACCGAGTGAACCGA
21523032 TGAACTGAACCGAGTGAACC
1 TGAACTGAACCGAGTGAACC
21523052 AAACCGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.26, T:0.14
Consensus pattern (22 bp):
TGAACTGAACCGAGTGAACCGA
Found at i:21525126 original size:48 final size:49
Alignment explanation
Indices: 21525065--21525305 Score: 188
Period size: 48 Copynumber: 4.8 Consensus size: 49
21525055 CTGATAATAA
*
21525065 CATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TC-T-T
1 CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT
* * *
21525112 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT
1 CA-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT
* * * ** *
21525162 CGATGCCCATGCCATGTCCTAGACATGGTTTTACGGGGGA-TCTCTCATCT
1 C-ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGT-TCTCATAT
* * * **
21525212 CGGTGCCAACGCCATGT--CAGACATGGTCTTACATAGGACCTCTCATAATCT
1 C-ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--T
*
21525263 CAATGATACCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 C-ATG---CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
21525306 TCTCTTTACC
Statistics
Matches: 151, Mismatches: 28, Indels: 21
0.75 0.14 0.10
Matches are distributed among these distances:
47 4 0.03
48 58 0.38
49 2 0.01
50 52 0.34
51 5 0.03
54 10 0.07
56 20 0.13
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT
Found at i:21531545 original size:41 final size:41
Alignment explanation
Indices: 21531410--21531650 Score: 238
Period size: 41 Copynumber: 5.8 Consensus size: 41
21531400 TGGGATTCAT
* *
21531410 TTGATGAA-AAAGGGGTTGCTAAGTGCAGATTCCCCGAATTA
1 TTGAT-AATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
** * *
21531451 CCGATAAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCA
1 TTGATAATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
* * *
21531492 CTGATGAA-AAAGGGGTTGCTAAGTGCTGATTCCCTGAATTA
1 TTGAT-AATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
** * * *
21531533 TTGATTCTAAAGGTGGTTGCTAGGTGCTGATTCCACCGTATCC
1 TTGATAATAAAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCA
* * *
21531576 TTGATAGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCA
1 TTGATAAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
21531618 TTG--AATATAAGGTGGTTGCTAAGTGCTGATTCC
1 TTGATAATA-AAGG-GGTTGCTAAGTGCTGATTCC
21531651 AACGAGTGAT
Statistics
Matches: 171, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 8 0.05
41 97 0.57
42 31 0.18
43 29 0.17
44 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (41 bp):
TTGATAATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCA
Found at i:21539609 original size:13 final size:13
Alignment explanation
Indices: 21539591--21539620 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21539581 AAACTAGATT
*
21539591 TTAACTAAGTAAA
1 TTAACTAAGAAAA
21539604 TTAACTAAGAAAA
1 TTAACTAAGAAAA
21539617 TTAA
1 TTAA
21539621 AAGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:21552104 original size:21 final size:21
Alignment explanation
Indices: 21552078--21552140 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
21552068 CGAACACGCC
21552078 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* * *
21552099 AACAGAAGCACAAAAGAGCTA
1 AACAGAAGCTCATAAGAGCTG
*
21552120 AACAAAAGCTC-TAAAGAGCTG
1 AACAGAAGCTCAT-AAGAGCTG
21552141 TCCACCCGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.11
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:21566899 original size:42 final size:42
Alignment explanation
Indices: 21566819--21566900 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
21566809 CATTTTCTCT
* **
21566819 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
21566861 ATGCCATAGCCCAGA-TATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCA-ACTATGGTCTTACACA-TATGCACATAT
21566901 CACACCAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:21569494 original size:42 final size:43
Alignment explanation
Indices: 21569447--21569604 Score: 196
Period size: 43 Copynumber: 3.7 Consensus size: 43
21569437 TAAATTTAGT
* *
21569447 GATACGG-GGAATTAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGTGGAATCAACACATAGCAACCCCTTTCACAATCAAA
* * * * **
21569489 GATACGGTGGAATCAGCACTTAGCAACCACCTTT-ATATTCAGT
1 GATACGGTGGAATCAACACATAGCAACC-CCTTTCACAATCAAA
21569532 GATACGG-GGAATCAACACATAGCAACCCCTTTCACAATCAAA
1 GATACGGTGGAATCAACACATAGCAACCCCTTTCACAATCAAA
* *
21569574 TATACGGTGGAATCAACACTTAGCAACCCCT
1 GATACGGTGGAATCAACACATAGCAACCCCT
21569605 CGGGGAATCT
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 5 0.05
42 36 0.37
43 52 0.53
44 5 0.05
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
GATACGGTGGAATCAACACATAGCAACCCCTTTCACAATCAAA
Found at i:21569558 original size:85 final size:84
Alignment explanation
Indices: 21569409--21569601 Score: 305
Period size: 85 Copynumber: 2.3 Consensus size: 84
21569399 ATCCATTACT
* * * * *
21569409 CGGTGGATTCAGCACTTAGTAACCACCTTAAATTTAGTGATACGGGGAATTAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAACACATAGCAACC
21569474 CCTTTCACAATCAAAGATA
66 CCTTTCACAATCAAAGATA
*
21569493 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAAC
*
21569558 CCCTTTCACAATCAAATATA
65 CCCTTTCACAATCAAAGATA
*
21569578 CGGTGGAATCAACACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
21569602 CCTCGGGGAA
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 25 0.25
85 75 0.75
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAACACATAGCAACC
CCTTTCACAATCAAAGATA
Found at i:21570222 original size:12 final size:12
Alignment explanation
Indices: 21570205--21570237 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
21570195 TCTTTTTTCC
21570205 AAATAAACATCA
1 AAATAAACATCA
21570217 AAATAAACATCA
1 AAATAAACATCA
21570229 AAATAAACA
1 AAATAAACA
21570238 CATTTCACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAACATCA
Found at i:21577972 original size:22 final size:22
Alignment explanation
Indices: 21577937--21577985 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
21577927 TAATCGTAGA
21577937 TTTATTATTCTATTTTAATTAT
1 TTTATTATTCTATTTTAATTAT
21577959 TTTAGTTATT-TATTTTAATTAT
1 TTTA-TTATTCTATTTTAATTAT
21577981 TTTAT
1 TTTAT
21577986 ATAACTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.77
23 5 0.19
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATTATTCTATTTTAATTAT
Found at i:21582297 original size:73 final size:73
Alignment explanation
Indices: 21582203--21582351 Score: 291
Period size: 72 Copynumber: 2.1 Consensus size: 73
21582193 ATTTAATACA
21582203 AAAAGTTTGATTTTCATAAAAAATATTTTAAATTAAATTAAATTAATTAATATAATTGATTATAA
1 AAAAGTTTGATTTTCATAAAAAATATTTTAAATTAAATTAAATTAATTAATATAATTGATTATAA
21582268 ATTTACCG
66 ATTTACCG
21582276 AAAAGTTTGA-TTTCATAAAAAATATTTTAAATTAAATTAAATTAATTAATATAATTGATTATAA
1 AAAAGTTTGATTTTCATAAAAAATATTTTAAATTAAATTAAATTAATTAATATAATTGATTATAA
21582340 ATTTACCG
66 ATTTACCG
21582348 AAAA
1 AAAA
21582352 CGAATCAAGA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 66 0.87
73 10 0.13
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (73 bp):
AAAAGTTTGATTTTCATAAAAAATATTTTAAATTAAATTAAATTAATTAATATAATTGATTATAA
ATTTACCG
Found at i:21584221 original size:107 final size:107
Alignment explanation
Indices: 21584035--21584256 Score: 419
Period size: 107 Copynumber: 2.1 Consensus size: 107
21584025 TGAAGTTTTA
21584035 AAAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTC
1 AAAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTC
21584100 AAATTTTCGAACGCAAAACATTGCCTCGTTTTGAAATTATTG
66 AAATTTTCGAACGCAAAACATTGCCTCGTTTTGAAATTATTG
*
21584142 AAAGGATATTTGG-TCATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCT
1 AAAGGATATTTGGCT-ATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCT
21584206 CAAATTTTCGAACGCAAAACATTGCCTCGTTTTGAAATTATTG
65 CAAATTTTCGAACGCAAAACATTGCCTCGTTTTGAAATTATTG
21584249 AAAGGATA
1 AAAGGATA
21584257 AAATACAATG
Statistics
Matches: 113, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 1 0.01
107 112 0.99
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (107 bp):
AAAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTC
AAATTTTCGAACGCAAAACATTGCCTCGTTTTGAAATTATTG
Found at i:21586220 original size:132 final size:132
Alignment explanation
Indices: 21585974--21586233 Score: 387
Period size: 132 Copynumber: 2.0 Consensus size: 132
21585964 TTTCGTCTGC
* * * *
21585974 TCTTCAATCTATTTCACTGTTGTCCAGGGAAGTAGAACTACTGGCTTCAATGTACTCTACTGTAA
1 TCTTCAATCTATTCCACAGTTGTCCAGGGAAGTAGAACTACTGGCTTCAATGTACTCCACTATAA
* * * * *
21586039 TCTCAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCTACTATTGCTTAGGGAGATAAGATCTAT
66 CCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAT
21586104 AA
131 AA
* *
21586106 TCTTCAATCTATTCCACAGTTG-CTCAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTATA
1 TCTTCAATCTATTCCACAGTTGTC-CAGGGAAGTAGAACTACTGGCTTCAATGTACTCCACTATA
* *
21586170 ACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCT
65 ACCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCT
21586234 GTGGTTTTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 1 0.01
132 113 0.99
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
TCTTCAATCTATTCCACAGTTGTCCAGGGAAGTAGAACTACTGGCTTCAATGTACTCCACTATAA
CCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAT
AA
Found at i:21586265 original size:132 final size:132
Alignment explanation
Indices: 21585998--21586395 Score: 339
Period size: 132 Copynumber: 3.0 Consensus size: 132
21585988 CACTGTTGTC
* * * * * * * *
21585998 CAGGGAAGTAGAACTACTGGCTTCAATGTACTCTACTGTAATCTCAGAGAGGTAAAATCCGCCAT
1 CAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCAT
* * * * ** * * * * ***
21586063 CTTCGATCTGCTCTACTATTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACAGTTG
66 CTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGT-TTTAATCCACTCCACTGCAA
21586128 C-T
130 CTT
21586130 CAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCAT
1 CAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCAT
21586195 CTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAAC
66 CTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAAC
21586260 TT
131 TT
* * *** * * * * * * * *
21586262 CAGGG-AGATAGGATTGGTTTTTTTTC-GTCTGCTCCACTACT-GCTTA-A-GGAGATAAGACT-
1 CAGGGAAG-TAGAATT--TCTGGCTTCAATGTACTCCACTA-TAAC-CACAGGGAGGTAAAATTC
* * *
21586321 G-GA--TGCGATATGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACT
61 GCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACT
21586383 GCAACTT
126 GCAACTT
21586390 CAGGGA
1 CAGGGA
21586396 GATAGGGTTG
Statistics
Matches: 222, Mismatches: 37, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
128 69 0.31
130 1 0.00
131 17 0.08
132 116 0.52
133 12 0.05
134 7 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (132 bp):
CAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCAT
CTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAAC
TT
Found at i:21586355 original size:128 final size:127
Alignment explanation
Indices: 21586198--21586490 Score: 523
Period size: 127 Copynumber: 2.3 Consensus size: 127
21586188 TCGCCATCTT
21586198 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTC
1 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTC
* *
21586263 AGGGAGATAGGATTGGTTTTTTTTCGTCTGCTCCACTACTGCTTAAGGAGATAAGACTGGATG
66 AGGGAGATAGGATTGG-TTTTTTTCGTCTGCTCAACTACTGCTTAAGGAGATAAGACTAGATG
*
21586326 CGATATGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTC
1 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTC
* *
21586391 AGGGAGATAGGGTTGGTTTTTTTCGTCTGCTCAACTACTGCTTAGGGAGATAAGACTAGATG
66 AGGGAGATAGGATTGGTTTTTTTCGTCTGCTCAACTACTGCTTAAGGAGATAAGACTAGATG
*
21586453 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGT
21586491 NNNNNNNNNN
Statistics
Matches: 158, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
127 79 0.50
128 79 0.50
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (127 bp):
CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTC
AGGGAGATAGGATTGGTTTTTTTCGTCTGCTCAACTACTGCTTAAGGAGATAAGACTAGATG
Found at i:21586380 original size:43 final size:42
Alignment explanation
Indices: 21586205--21586399 Score: 146
Period size: 44 Copynumber: 4.5 Consensus size: 42
21586195 CTTCGATCTG
21586205 CTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCA
1 CTCCACTACTACTTAGGGAGATAAGATCTG-GGTTTTAATCCA
* * * * ** *
21586248 CTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTTTTTTCGTCTG
1 CTCCACTACTACTT-AGGGAGATAAGATCTGGGTTTTAATC--C-A
* * * *** *
21586293 CTCCACTACTGCTTAAGGAGATAAGA-CTGGATGCGATAT--G
1 CTCCACTACTACTTAGGGAGATAAGATCTGGGTTTTA-ATCCA
21586333 CTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAATCCA
1 CTCCACTACTACTTAGGGAGATAAGATCTG-GGTTTTAATCCA
* *
21586376 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTACTACTT-AGGGAGATA
21586400 GGGTTGGTTT
Statistics
Matches: 114, Mismatches: 27, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
40 25 0.22
41 5 0.04
42 10 0.09
43 26 0.23
44 36 0.32
45 12 0.11
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
CTCCACTACTACTTAGGGAGATAAGATCTGGGTTTTAATCCA
Found at i:21587206 original size:43 final size:43
Alignment explanation
Indices: 21587157--21587293 Score: 100
Period size: 43 Copynumber: 3.2 Consensus size: 43
21587147 CAACCGATGG
21587157 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
* * ** * * * * * * *
21587200 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAA-CCGATGA
1 AGGCAAGGTTTTG-T-T-TTCGATCTGCTTCGCTGTTAATGC-AGGA
* *
21587244 AGGCAAGGTTTTATTTTCGATTTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
21587287 AGGCAAG
1 AGGCAAG
21587294 ATCTGCTATC
Statistics
Matches: 63, Mismatches: 24, Indels: 14
0.62 0.24 0.14
Matches are distributed among these distances:
42 14 0.22
43 21 0.33
44 14 0.22
45 14 0.22
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
Found at i:21587334 original size:43 final size:43
Alignment explanation
Indices: 21587287--21587422 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 43
21587277 TAATGCAGGA
21587287 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATG
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATG
* * * * * * * ** * *
21587330 AGGCAAGGTTTTG-T-T-TTTTATCTGCTTCGCTGTTAA-TGCAGG
1 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACT-ACAACCG-ATG
21587372 AAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATG
1 -AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATG
21587416 AGGCAAG
1 AGGCAAG
21587423 GTTTTGTTTT
Statistics
Matches: 63, Mismatches: 22, Indels: 16
0.62 0.22 0.16
Matches are distributed among these distances:
41 12 0.19
42 9 0.14
43 21 0.33
44 9 0.14
45 12 0.19
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
AGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATG
Found at i:21587382 original size:173 final size:172
Alignment explanation
Indices: 21587088--21587559 Score: 755
Period size: 174 Copynumber: 2.7 Consensus size: 172
21587078 TGGCTTCTTT
* * * * *
21587088 GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAACCG
21587153 ATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCT
66 AT-GAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCT
*
21587218 TTAACCAGCTCCACTGCAACCGATGAAGGCAAGGTTTTATTTTC
130 TTAACCAGCTCCACTACAACCGATG-AGGCAAGGTTTTATTTTC
* *
21587262 GATTTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAACCG
**
21587327 ATGAGGCAAGGTTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
66 ATGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
* *
21587392 TAACCAGCTCCACTACAACCGATGAGGCAAGGTTTTGTTTTT
131 TAACCAGCTCCACTACAACCGATGAGGCAAGGTTTTATTTTC
* * *
21587434 TATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCTACTACAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAACCG
* *
21587499 AGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
66 A-TGAGGCAAGGTTT-TGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
21587560 AACTTCATCG
Statistics
Matches: 275, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
172 77 0.28
173 96 0.35
174 102 0.37
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (172 bp):
GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAACCG
ATGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
TAACCAGCTCCACTACAACCGATGAGGCAAGGTTTTATTTTC
Found at i:21587389 original size:86 final size:86
Alignment explanation
Indices: 21587088--21587559 Score: 746
Period size: 86 Copynumber: 5.4 Consensus size: 86
21587078 TGGCTTCTTT
* * * * * *
21587088 GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
21587153 ATGGAGGCAAGGTTTTGTTTTC
66 AT-GAGGCAAGGTTTTGTTTTC
*
21587175 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
*
21587240 ATGAAGGCAAGGTTTTATTTTC
66 ATG-AGGCAAGGTTTTGTTTTC
*
21587262 GATTTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
*
21587327 ATGAGGCAAGGTTTTGTTTTT
66 ATGAGGCAAGGTTTTGTTTTC
*
21587348 TATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
*
21587413 ATGAGGCAAGGTTTTGTTTTT
66 ATGAGGCAAGGTTTTGTTTTC
* * * *
21587434 TATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCTACTACAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
* *
21587499 AGAGAGGCAAGGTTTGTGTCTTC
66 A-TGAGGCAAGGTTT-TGTTTTC
21587522 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
21587560 AACTTCATCG
Statistics
Matches: 363, Mismatches: 19, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
86 164 0.45
87 157 0.43
88 42 0.12
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (86 bp):
GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
ATGAGGCAAGGTTTTGTTTTC
Found at i:21587463 original size:43 final size:43
Alignment explanation
Indices: 21587330--21587465 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 43
21587320 ACAACCGATG
21587330 AGGCAAGGTTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGA
* * * * * * * ** * *
21587373 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACT-ACAA-CCGATG-
1 AGGCAAGGTTTTG-T-T-TTTTATCTGCTTCGCTGTTAATGC-AGGA
21587416 AGGCAAGGTTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGA
21587459 AGGCAAG
1 AGGCAAG
21587466 ATCTGCTGTC
Statistics
Matches: 63, Mismatches: 22, Indels: 16
0.62 0.22 0.16
Matches are distributed among these distances:
41 11 0.17
42 9 0.14
43 23 0.37
44 9 0.14
45 11 0.17
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (43 bp):
AGGCAAGGTTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGA
Found at i:21587552 original size:260 final size:260
Alignment explanation
Indices: 21587089--21587559 Score: 775
Period size: 260 Copynumber: 1.8 Consensus size: 260
21587079 GGCTTCTTTG
* * *
21587089 ATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCGA
1 ATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA
21587154 TGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
66 TGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
* * * *
21587219 TAACCAGCTCCACTGCAACCGATGAAGGCAAGGTTTTATTTTCGATTTGCTTCGCTGTTAATGCA
131 CAACCAGCTCCACTACAACCGATGAAGGCAAGGTTTTATCTTCGATCTGCTTCGCTGTTAATGCA
21587284 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAGGCAAGGTTTTGTTTTTT
196 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAGGCAAGGTTTTGTTTTTT
* * *
21587349 ATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA
1 ATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA
** *
21587414 T-GAGGCAAGGTTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTGTCTT
66 TGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
* *
21587478 CAACCAGCTCTACTACAACCGA-GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATG
131 CAACCAGCTCCACTACAACCGATGA-AGGCAAGGTTT-TATCTTCGATCTGCTTCGCTGTTAATG
21587542 CAGGAAGGCAAGATCTGC
194 CAGGAAGGCAAGATCTGC
21587560 AACTTCATCG
Statistics
Matches: 194, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
258 2 0.01
259 90 0.46
260 102 0.53
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (260 bp):
ATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA
TGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
CAACCAGCTCCACTACAACCGATGAAGGCAAGGTTTTATCTTCGATCTGCTTCGCTGTTAATGCA
GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAGGCAAGGTTTTGTTTTTT
Found at i:21588178 original size:108 final size:107
Alignment explanation
Indices: 21587989--21588184 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 107
21587979 TGAAAATGCT
*
21587989 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAA-TTTGTTGAGAGCAAAACTCTAAACAAACAAAT
21588054 CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
65 CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
* * **
21588097 TGAAAAAGATTATCACAATGGATAAAGATGGAAA-TTGTTGAGAGCAAAACTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAA-AT-GAAATTTGTTGAGAGCAAAACTCTAAACAAACAAA
* *
21588161 TTAATCAAGATAGCAAATTTTGCT
64 TCAATCAAGACAGCAAATTTTGCT
21588185 AGAATACAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
108 73 0.92
109 2 0.03
110 4 0.05
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.24
Consensus pattern (107 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATC
AATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
Found at i:21588226 original size:45 final size:47
Alignment explanation
Indices: 21588158--21588245 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 47
21588148 CTAAATGAAC
* *
21588158 AAATTAATCAAGATAGCAAATTTTG-CTAGAATACAAA-ATGAGAAT
1 AAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAGATGAGAAT
* **
21588203 AAATTAATCAAGATGGCGTATTTTGTCAAAAATACAAAGATGA
1 AAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAGATGA
21588246 ATAAAATGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 22 0.61
46 10 0.28
47 4 0.11
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (47 bp):
AAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAGATGAGAAT
Found at i:21588248 original size:45 final size:43
Alignment explanation
Indices: 21588150--21588250 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 43
21588140 GCAAAACTCT
* * *
21588150 AAATGAACAAATTAATCAAGATAGCAAATTTTGCTAGAATACA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
* **
21588193 AAATGAGAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACA
1 AAAT--GAATAAATTAATCAAGATAGCAAATTTTG-CAAAAATACA
21588239 AAGATGAATAAA
1 AA-ATGAATAAA
21588251 ATGGAAATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.08
45 32 0.67
46 10 0.21
47 2 0.04
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (43 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
Found at i:21588549 original size:18 final size:18
Alignment explanation
Indices: 21588521--21588574 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
21588511 GGCCTCTCCT
*
21588521 TTTTATCTTTTCTTTTTCG
1 TTTT-TCTTTTCTTTTTCC
21588540 TTTTTCTTTTCCTTTTTTCC
1 TTTTTCTTTT-C-TTTTTCC
*
21588560 TTTTT-GTTTCTTTTT
1 TTTTTCTTTTCTTTTT
21588575 TTTTCAAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 5 0.16
18 7 0.23
19 8 0.26
20 11 0.35
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTTCC
Found at i:21588563 original size:32 final size:29
Alignment explanation
Indices: 21588517--21588579 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 29
21588507 CCTTGGCCTC
*
21588517 TCCTTTTTATCTTTTCTTTTTCGTTTTTCTTT
1 TCCTTTTTATCTTTT-TGTTTC-TTTTT-TTT
21588549 TCCTTTTT-TCCTTTTTGTTTCTTTTTTTT
1 TCCTTTTTAT-CTTTTTGTTTCTTTTTTTT
21588578 TC
1 TC
21588580 AAGTGAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 5 0.17
30 5 0.17
31 6 0.21
32 13 0.45
ACGTcount: A:0.02, C:0.19, G:0.03, T:0.76
Consensus pattern (29 bp):
TCCTTTTTATCTTTTTGTTTCTTTTTTTT
Found at i:21589030 original size:1 final size:1
Alignment explanation
Indices: 21589014--21589088 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
21589004 CCAGTAGAGG
* * * * * * * * * *
21589014 TTTTTTCTTTTGTTTTTATTTTTGTTTTTTTGTTGTTTTTTTGTTTTTGTTGTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
21589079 TGTTTTTTTT
1 TTTTTTTTTT
21589089 GCCTCCACTG
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:21589030 original size:12 final size:11
Alignment explanation
Indices: 21589013--21589088 Score: 77
Period size: 11 Copynumber: 6.8 Consensus size: 11
21589003 CCCAGTAGAG
21589013 GTTTTTTCTTTT
1 GTTTTTT-TTTT
21589025 GTTTTTATTTTT
1 GTTTTT-TTTTT
*
21589037 GTTTTTTTGTT
1 GTTTTTTTTTT
21589048 GTTTTTTTGTTT
1 GTTTTTTT-TTT
*
21589060 -TTGTTGTTTTT
1 GTT-TTTTTTTT
21589071 G--TTTTTTTT
1 GTTTTTTTTTT
21589080 GTTTTTTTT
1 GTTTTTTTT
21589089 GCCTCCACTG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
9 8 0.15
11 23 0.43
12 22 0.41
13 1 0.02
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:21589041 original size:17 final size:17
Alignment explanation
Indices: 21589014--21589089 Score: 68
Period size: 17 Copynumber: 4.4 Consensus size: 17
21589004 CCAGTAGAGG
*
21589014 TTTTTTCTTTTGTT-TT
1 TTTTTTGTTTTGTTGTT
*
21589030 TATTTTTGTTTTTTTGTTGT
1 T-TTTTTGTTTTGTTG-T-T
21589050 TTTTTTGTTTTTGTTGTT
1 TTTTTTG-TTTTGTTGTT
*
21589068 TTTGTT-TTTT-TTGTT
1 TTTTTTGTTTTGTTGTT
21589083 TTTTTTG
1 TTTTTTG
21589090 CCTCCACTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 10 0.20
16 5 0.10
17 11 0.22
18 6 0.12
19 8 0.16
20 9 0.18
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (17 bp):
TTTTTTGTTTTGTTGTT
Found at i:21589052 original size:9 final size:9
Alignment explanation
Indices: 21589032--21589089 Score: 84
Period size: 9 Copynumber: 6.7 Consensus size: 9
21589022 TTTGTTTTTA
21589032 TTTTTGTT-
1 TTTTTGTTG
21589040 TTTTTGTTG
1 TTTTTGTTG
21589049 TTTTT-TTG
1 TTTTTGTTG
21589057 TTTTTGTTG
1 TTTTTGTTG
*
21589066 TTTTTGTTT
1 TTTTTGTTG
*
21589075 TTTTTGTTT
1 TTTTTGTTG
21589084 TTTTTG
1 TTTTTG
21589090 CCTCCACTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
8 16 0.34
9 31 0.66
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTGTTG
Found at i:21589053 original size:24 final size:24
Alignment explanation
Indices: 21589013--21589085 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
21589003 CCCAGTAGAG
* *
21589013 GTTTTTTCTTTTG-TTTTTATTTTT
1 GTTTTTT-TGTTGTTTTTTGTTTTT
21589037 GTTTTTTTGTTGTTTTTTTGTTTTT
1 GTTTTTTTGTTG-TTTTTTGTTTTT
21589062 GTTGTTTTTGTT-TTTTTTGTTTTT
1 GTT-TTTTTGTTGTTTTTTGTTTTT
21589086 TTTGCCTCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.09
24 19 0.43
25 13 0.30
26 8 0.18
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.84
Consensus pattern (24 bp):
GTTTTTTTGTTGTTTTTTGTTTTT
Found at i:21589071 original size:15 final size:15
Alignment explanation
Indices: 21589023--21589085 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
21589013 GTTTTTTCTT
*
21589023 TTGTTTTTATTTTTG
1 TTGTTTTTGTTTTTG
21589038 TT-TTTTTG---TTG
1 TTGTTTTTGTTTTTG
21589049 TT-TTTTTGTTTTTG
1 TTGTTTTTGTTTTTG
*
21589063 TTGTTTTTGTTTTTT
1 TTGTTTTTGTTTTTG
21589078 TTGTTTTT
1 TTGTTTTT
21589086 TTTGCCTCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 11 0.26
14 10 0.24
15 21 0.50
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (15 bp):
TTGTTTTTGTTTTTG
Found at i:21594505 original size:16 final size:17
Alignment explanation
Indices: 21594468--21594505 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
21594458 CCATCGAGCG
*
21594468 AGAAAAAGAAAAAGAGA
1 AGAAAAACAAAAAGAGA
21594485 A-AAAAACAAAAAGA-A
1 AGAAAAACAAAAAGAGA
21594500 AGAAAA
1 AGAAAA
21594506 GAATGACGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 16 0.84
17 1 0.05
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (17 bp):
AGAAAAACAAAAAGAGA
Found at i:21600148 original size:74 final size:75
Alignment explanation
Indices: 21600027--21600175 Score: 266
Period size: 74 Copynumber: 2.0 Consensus size: 75
21600017 AAGGAAAACC
21600027 AGGATTATTCCCTTATTAATAGAGAATGCAAATGGAAAGTTAGAAAAATGAATTAT-TTCTTTCC
1 AGGATTATTCCCTTATTAATAGAGAATGCAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
21600091 AAAAGAATAT
66 AAAAGAATAT
*
21600101 AGGATTATTCTCTTATTAATAGAGAA-GACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTC
1 AGGATTATTCCCTTATTAATAGAGAATG-CAAATGGAAAGTTAGAAAAATGAATTATATTCTTTC
21600165 CAAAAGAATAT
65 CAAAAGAATAT
21600176 TAATTTTCAT
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
73 1 0.01
74 53 0.74
75 18 0.25
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (75 bp):
AGGATTATTCCCTTATTAATAGAGAATGCAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
AAAAGAATAT
Found at i:21600286 original size:67 final size:67
Alignment explanation
Indices: 21600210--21600416 Score: 176
Period size: 67 Copynumber: 3.0 Consensus size: 67
21600200 GACTGAAATT
21600210 AATTAATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTACGAAT
1 AATTAATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTACGAAT
21600275 CA
66 CA
* ** * * * * *
21600277 AATTCATAT-ATTAATTATATTCTTATCAAA---AG-AATATTAATTTCCATGTATTTAACATTT
1 AATTAATATAATTGTTTATA-T-TAAT-AAATTTAGCAA-AAT-ATATACA---A-TTAATATTT
*
21600337 TG-ATCGAAAT-T
57 TGTA-CG-AATCA
*
21600348 AATTAATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTATGAAT
1 AATTAATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTACGAAT
21600413 CA
66 CA
21600415 AA
1 AA
21600417 ATCATATATT
Statistics
Matches: 103, Mismatches: 19, Indels: 36
0.65 0.12 0.23
Matches are distributed among these distances:
65 2 0.02
66 15 0.15
67 27 0.26
68 5 0.05
69 6 0.06
70 5 0.05
71 26 0.25
72 15 0.15
73 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (67 bp):
AATTAATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTACGAAT
CA
Found at i:21600399 original size:138 final size:138
Alignment explanation
Indices: 21600151--21600707 Score: 833
Period size: 138 Copynumber: 4.1 Consensus size: 138
21600141 TAGAAAAATG
* *
21600151 AATTATATTCTT-TCCAAAAGAATATTAATTTTCATGTCATTTATATTTTGA-CTGAAATTAATT
1 AATTATATTCTTAT-CAAAAGAATATTAATTTCCATGTCATTTACATTTTGATC-GAAATTAATT
*
21600214 AATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTACGAATCAAA
64 AATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTATGAATCAAA
21600279 TTCATATATT
129 TTCATATATT
21600289 AATTATATTCTTATCAAAAGAATATTAATTTCCATGT-ATTTAACATTTTGATCGAAATTAATTA
1 AATTATATTCTTATCAAAAGAATATTAATTTCCATGTCATTT-ACATTTTGATCGAAATTAATTA
*
21600353 ATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTATGAATCAAAA
65 ATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTATGAATCAAAT
21600418 TCATATATT
130 TCATATATT
* **
21600427 AAGTATATTCTTCCCAAAAGAATATTAATTTCCATGT-ATTTAACATTTTGATCGAAATTAATTA
1 AATTATATTCTTATCAAAAGAATATTAATTTCCATGTCATTT-ACATTTTGATCGAAATTAATTA
** * **
21600491 ATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTAAATGAATCAAAT
65 ATATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTATGAATCAAAT
21600556 TCATATATT
130 TCATATATT
* *
21600565 AATTATATTCTTATCAAAAGAATATTAATTTCCATGTCATTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTATCAAAAGAATATTAATTTCCATGTCATTTACATTTTGATCGAAATTAATTAA
* * * * *
21600630 TATAACTGTTTCTATTCATAAATTT-G-ATAAA-ATATATAATTAATA-TTTGTAAGAATCAAAT
66 TATAATTGTTTATATTAATAAATTTAGCA-AAATATATACAATTAATATTTTGTATGAATCAAAT
21600691 TCATATATT
130 TCATATATT
*
21600700 CATTATAT
1 AATTATAT
21600708 CTATGTTCTC
Statistics
Matches: 387, Mismatches: 27, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
135 29 0.07
136 14 0.04
137 8 0.02
138 330 0.85
139 6 0.02
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTATCAAAAGAATATTAATTTCCATGTCATTTACATTTTGATCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTTAGCAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:21607863 original size:23 final size:22
Alignment explanation
Indices: 21607837--21607884 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
21607827 GTTAAAAATT
21607837 TAAACAAC-TAGGTTTAATTTTCG
1 TAAA-AACATAGGTTTAATTTT-G
* *
21607860 TAAAAACATATGTTTGATTTTG
1 TAAAAACATAGGTTTAATTTTG
21607882 TAA
1 TAA
21607885 TACAGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (22 bp):
TAAAAACATAGGTTTAATTTTG
Found at i:21612578 original size:25 final size:25
Alignment explanation
Indices: 21612550--21612608 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
21612540 TCACTGATAG
21612550 TGTGAGCATTCTAATTCACAGCTCC
1 TGTGAGCATTCTAATTCACAGCTCC
* * * *
21612575 TGTGAGCATTTTGATTTACAGCTCG
1 TGTGAGCATTCTAATTCACAGCTCC
21612600 TGTGAGCAT
1 TGTGAGCAT
21612609 ACATGTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (25 bp):
TGTGAGCATTCTAATTCACAGCTCC
Found at i:21613298 original size:20 final size:20
Alignment explanation
Indices: 21613251--21613298 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
21613241 AAGTTAAAGA
*
21613251 AAGAAAATGCAATAGAAAGT
1 AAGAAAATGCAATAGAAAAT
21613271 AATG-AAATGCAAATA-AAAAT
1 AA-GAAAATGC-AATAGAAAAT
21613291 AAGAAAAT
1 AAGAAAAT
21613299 TTGAAAGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.65, C:0.04, G:0.15, T:0.17
Consensus pattern (20 bp):
AAGAAAATGCAATAGAAAAT
Found at i:21618465 original size:25 final size:26
Alignment explanation
Indices: 21618437--21618509 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 26
21618427 TATCAATTGT
*
21618437 AGCTCATGAGAGCTTACCGATTCT-C
1 AGCTCGTGAGAGCTTACCGATTCTAC
*
21618462 AGCTCGT-ATGAGCTTACTGATT-TAC
1 AGCTCGTGA-GAGCTTACCGATTCTAC
* *
21618487 AGCTCGTGAAAGCATACCGATTC
1 AGCTCGTGAGAGCTTACCGATTC
21618510 AAAGCTTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCTCGTGAGAGCTTACCGATTCTAC
Found at i:21622738 original size:49 final size:50
Alignment explanation
Indices: 21622641--21622749 Score: 168
Period size: 50 Copynumber: 2.2 Consensus size: 50
21622631 NNNNNNNNNN
* *
21622641 GCTACTACGT-AACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAG
1 GCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACCATATGAAG
* *
21622690 GCTACTACGTGAACTGTAAAACTTGATCATGTGTGTAGTACCA-ATGAAG
1 GCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACCATATGAAG
21622739 GCTACTACGTG
1 GCTACTACGTG
21622750 TATCGAATGA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 26 0.47
50 29 0.53
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (50 bp):
GCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACCATATGAAG
Found at i:21638706 original size:52 final size:52
Alignment explanation
Indices: 21638555--21638707 Score: 270
Period size: 52 Copynumber: 2.9 Consensus size: 52
21638545 TGAATAATTA
* * *
21638555 TCTTTCACTTTATAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTGTATG
1 TCTTTCAATTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
21638607 TCTTTCAATTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
1 TCTTTCAATTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
*
21638659 TCTTTCATTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTT
1 TCTTTCAATTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTT
21638708 TATCCCCTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 97 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (52 bp):
TCTTTCAATTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
Found at i:21650591 original size:50 final size:50
Alignment explanation
Indices: 21650467--21650709 Score: 222
Period size: 50 Copynumber: 4.8 Consensus size: 50
21650457 GATAATAACA
* * * ** * * *
21650467 TGCCAAAGCCTTGTCCCAGACATGGTATTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * ** *
21650516 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** *
21650566 TACCTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
21650616 TGCCAACGCCATGTCCTAGACATGGTCTTACATATGAGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC--ATGGGACCTCTCATCTCGG
*
21650668 TGCCAACT-CCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21650710 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 77 0.49
52 43 0.27
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21659207 original size:75 final size:75
Alignment explanation
Indices: 21659127--21659268 Score: 225
Period size: 75 Copynumber: 1.9 Consensus size: 75
21659117 GGAAAATCAT
* * *
21659127 GATTATTCCCTTATTAATAGAGAA-GGCAAATGGAAAGTTA-GAAAAGTGAATTATATTCTTTCC
1 GATTATTCCCTTATTAATAGAAAATAG-AAATGAAAAGTTAGGAAAAG-GAATTATATTCTTTCC
21659190 AAAAGAATATAG
64 AAAAGAATATAG
21659202 GATTATTCCCTTATTAATAGAAAATAGAAATGAAAAGTTAGGAAAAGGAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAAAATAGAAATGAAAAGTTAGGAAAAGGAATTATATTCTTTCCAA
21659267 AA
66 AA
21659269 AAATTAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
75 55 0.89
76 7 0.11
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.31
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAAAATAGAAATGAAAAGTTAGGAAAAGGAATTATATTCTTTCCAA
AAGAATATAG
Found at i:21659708 original size:69 final size:69
Alignment explanation
Indices: 21659633--21659844 Score: 197
Period size: 69 Copynumber: 3.1 Consensus size: 69
21659623 TATACAATTA
21659633 ATATTTTGTATGAATGAAATTCATATATTAATTATATTCATTCCAAAAAAAAAAAATTTCATGTC
1 ATATTTTGTATGAATGAAATTCATATATTAATTATATTCATTCCAAAAAAAAAAAATTTCATGTC
21659698 TTTT
66 TTTT
* * * * * * ** ** *
21659702 ATATTTTG-ATCAAAAT-TAATTAATATAACT-GTTATATT-AAT--AAATCTAATGAAATAT-A
1 ATATTTTGTAT--GAATGAAATTCATAT-ATTAATTATATTCATTCCAAA-AAAAAAAAATTTCA
* * *
21659760 T-ACAATTA
62 TGTC-TTTT
21659768 ATATTTTGTATGAATGAAATTCATATATTAATTATATTCATTCCAAAAAAAAAAAATTTCATGTC
1 ATATTTTGTATGAATGAAATTCATATATTAATTATATTCATTCCAAAAAAAAAAAATTTCATGTC
21659833 TTTT
66 TTTT
21659837 ATATTTTG
1 ATATTTTG
21659845 ATCAAAATTA
Statistics
Matches: 102, Mismatches: 28, Indels: 26
0.65 0.18 0.17
Matches are distributed among these distances:
65 6 0.06
66 30 0.29
67 11 0.11
68 11 0.11
69 38 0.37
70 6 0.06
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (69 bp):
ATATTTTGTATGAATGAAATTCATATATTAATTATATTCATTCCAAAAAAAAAAAATTTCATGTC
TTTT
Found at i:21659778 original size:135 final size:137
Alignment explanation
Indices: 21659250--21659935 Score: 1028
Period size: 138 Copynumber: 5.0 Consensus size: 137
21659240 TAGGAAAAGG
* ** *
21659250 AATTATATTCTTTCC-AAAAAAATTAATTTCCATATCTTTTATATTTTGGCCGAAATTAATTAAT
1 AATTATATTCTTTCCAAAAAAAATTAATTTCCATGTCTTTTATATTTTGATCAAAATTAATTAAT
* *
21659314 ATAACTGTTTATAATAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
66 ATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
21659379 ATATATT
131 ATATATT
* *
21659386 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGAGCAAAATTAATTAA
1 AATTATATTCTTTCCAAAA-AAAATTAATTTCCATGTCTTTTATATTTTGATCAAAATTAATTAA
* * * * *
21659451 TATAATTGCTTATATTAATAAATTCGATCAAATATATACAATTAATATTTTTTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
21659516 CTTATATT
130 CATATATT
* *
21659524 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTGAAATTAATTA
1 AATTATATTCTTTCCAAAA-AAAATTAATTTCCATGTCTTTTATATTTTGATC-AAAATTAATTA
* *
21659588 ATATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATGAAAT
64 ATATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAAT
21659653 TCATATATT
129 TCATATATT
* **
21659662 AATTATATTCATTCCAAAAAAAAAAAATTT-CATGTCTTTTATATTTTGATCAAAATTAATTAAT
1 AATTATATTCTTTCCAAAAAAAATTAATTTCCATGTCTTTTATATTTTGATCAAAATTAATTAAT
* *
21659726 ATAACTG-TTATATTAATAAA-TCTAATGAAATATATACAATTAATATTTTGTATGAATGAAATT
66 ATAACTGTTTATATTAATAAATTC-AATAAAATATATACAATTAATATTTTGTATGAATCAAATT
21659789 CATATATT
130 CATATATT
* **
21659797 AATTATATTCATTCCAAAAAAAAAAAATTT-CATGTCTTTTATATTTTGATCAAAATTAATTAAT
1 AATTATATTCTTTCCAAAAAAAATTAATTTCCATGTCTTTTATATTTTGATCAAAATTAATTAAT
*
21659861 ATAACTG-TTATATTAATAAA-TCTAATGAAATATATACAATTAATATTTTGTATGAATCAAATT
66 ATAACTGTTTATATTAATAAATTC-AATAAAATATATACAATTAATATTTTGTATGAATCAAATT
21659924 CATATATT
130 CATATATT
21659932 AATT
1 AATT
21659936 TTATCTATGT
Statistics
Matches: 515, Mismatches: 30, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
134 2 0.00
135 197 0.38
136 53 0.10
137 13 0.03
138 250 0.49
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAAAAATTAATTTCCATGTCTTTTATATTTTGATCAAAATTAATTAAT
ATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:21659794 original size:66 final size:65
Alignment explanation
Indices: 21659719--21659929 Score: 169
Period size: 66 Copynumber: 3.2 Consensus size: 65
21659709 GATCAAAATT
21659719 AATTAATATAACTGTTATATTAATAAATCTAATGAAATATATACAATTAATATTTTGTATGAATG
1 AATTAATATAACTGTTATATTAATAAATCTAATGAAATATATACAATTAATATTTTGTATGAAT-
21659784 A
65 A
* * * * ** ** * * * *
21659785 AATTCATAT-ATTAATTATATTCATTCCAAA-AAAAAAAAATTTCATGTC-TTTTATATTTTG-A
1 AATTAATATAACT-GTTATATT-AAT--AAATCTAATGAAATAT-AT-ACAATTAATATTTTGTA
* *
21659846 TCAAAATT
60 T--GAATA
21659854 AATTAATATAACTGTTATATTAATAAATCTAATGAAATATATACAATTAATATTTTGTATGAATC
1 AATTAATATAACTGTTATATTAATAAATCTAATGAAATATATACAATTAATATTTTGTATGAAT-
21659919 A
65 A
*
21659920 AATTCATATA
1 AATTAATATA
21659930 TTAATTTTAT
Statistics
Matches: 103, Mismatches: 29, Indels: 26
0.65 0.18 0.16
Matches are distributed among these distances:
65 6 0.06
66 39 0.38
67 11 0.11
68 11 0.11
69 30 0.29
70 6 0.06
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (65 bp):
AATTAATATAACTGTTATATTAATAAATCTAATGAAATATATACAATTAATATTTTGTATGAATA
Found at i:21659872 original size:69 final size:69
Alignment explanation
Indices: 21659664--21659874 Score: 195
Period size: 69 Copynumber: 3.1 Consensus size: 69
21659654 CATATATTAA
21659664 TTATATTCATTCCAAAAAAAAAAAATTTCATGTCTTTTATATTTTGATCAAAATTAATTAATATA
1 TTATATTCATTCCAAAAAAAAAAAATTTCATGTCTTTTATATTTTGATCAAAATTAATTAATATA
21659729 ACTG
66 ACTG
* ** ** * * * * * * *
21659733 TTATATT-AAT--AAATCTAATGAAATAT-AT-ACAATTAATATTTTG-T-ATGAATGAAATTCA
1 TTATATTCATTCCAAA-AAAAAAAAATTTCATGTC-TTTTATATTTTGATCA-AAAT-TAATTAA
* *
21659791 TAT-ATTAA
62 TATAACT-G
21659799 TTATATTCATTCCAAAAAAAAAAAATTTCATGTCTTTTATATTTTGATCAAAATTAATTAATATA
1 TTATATTCATTCCAAAAAAAAAAAATTTCATGTCTTTTATATTTTGATCAAAATTAATTAATATA
21659864 ACTG
66 ACTG
21659868 TTATATT
1 TTATATT
21659875 AATAAATCTA
Statistics
Matches: 101, Mismatches: 28, Indels: 26
0.65 0.18 0.17
Matches are distributed among these distances:
64 1 0.01
65 7 0.07
66 30 0.30
67 9 0.09
68 9 0.09
69 37 0.37
70 7 0.07
71 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (69 bp):
TTATATTCATTCCAAAAAAAAAAAATTTCATGTCTTTTATATTTTGATCAAAATTAATTAATATA
ACTG
Found at i:21665848 original size:25 final size:25
Alignment explanation
Indices: 21665811--21665864 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
21665801 TTTTCTCAAA
* * *
21665811 AATTTAATTAATATAAAATATTA-AT
1 AATTCAATAAATAGAAAA-ATTAGAT
21665836 AATTCAATAAATAGAAAAATTAGAT
1 AATTCAATAAATAGAAAAATTAGAT
21665861 AATT
1 AATT
21665865 AAATTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
AATTCAATAAATAGAAAAATTAGAT
Found at i:21673431 original size:18 final size:19
Alignment explanation
Indices: 21673405--21673441 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21673395 AATTTTGGAA
21673405 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
21673423 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
21673442 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:21674303 original size:12 final size:12
Alignment explanation
Indices: 21674262--21674304 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
21674252 AGTTAATTGC
21674262 TATATTAGTATG
1 TATATTAGTATG
* *
21674274 TCTGTTATGTATG
1 TATATTA-GTATG
21674287 TATATTAGTATG
1 TATATTAGTATG
*
21674299 GATATT
1 TATATT
21674305 TTGTATGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (12 bp):
TATATTAGTATG
Found at i:21674309 original size:25 final size:25
Alignment explanation
Indices: 21674262--21674312 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21674252 AGTTAATTGC
** *
21674262 TATATTAGTATGTCTGTTATGTATG
1 TATATTAGTATGGATATTATGTATG
*
21674287 TATATTAGTATGGATATTTTGTATG
1 TATATTAGTATGGATATTATGTATG
21674312 T
1 T
21674313 TATGTATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.53
Consensus pattern (25 bp):
TATATTAGTATGGATATTATGTATG
Found at i:21674333 original size:16 final size:16
Alignment explanation
Indices: 21674312--21674361 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
21674302 ATTTTGTATG
21674312 TTATGTATATTACTAT
1 TTATGTATATTACTAT
*
21674328 TTATGTAT-GT--TAT
1 TTATGTATATTACTAT
*
21674341 GTA-GTATATTACTAT
1 TTATGTATATTACTAT
21674356 TTATGT
1 TTATGT
21674362 CATGTATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
15 6 0.23
16 10 0.38
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (16 bp):
TTATGTATATTACTAT
Found at i:21674342 original size:9 final size:9
Alignment explanation
Indices: 21674270--21674343 Score: 50
Period size: 9 Copynumber: 8.7 Consensus size: 9
21674260 GCTATATTAG
*
21674270 TATGTCTGT
1 TATGTATGT
21674279 TATGTATGT
1 TATGTATGT
21674288 ATAT-TA-G-
1 -TATGTATGT
* *
21674295 TATGGATAT
1 TATGTATGT
*
21674304 TTTGTATGT
1 TATGTATGT
*
21674313 TATGTATAT
1 TATGTATGT
*
21674322 TA-CTAT-T
1 TATGTATGT
21674329 TATGTATGT
1 TATGTATGT
21674338 TATGTA
1 TATGTA
21674344 GTATATTACT
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
6 3 0.06
7 4 0.08
8 7 0.14
9 32 0.65
10 3 0.06
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (9 bp):
TATGTATGT
Found at i:21674356 original size:28 final size:27
Alignment explanation
Indices: 21674301--21674376 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
21674291 TTAGTATGGA
21674301 TATTT-TGTATGTTA--TGTATATTAC
1 TATTTATGTATGTTATGTGTATATTAC
21674325 TATTTATGTATGTTATGTAGTATATTAC
1 TATTTATGTATGTTATGT-GTATATTAC
21674353 TATTTATGTCATG-TATGT-TATATT
1 TATTTATGT-ATGTTATGTGTATATT
21674377 TATTACTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.11
25 9 0.19
26 6 0.13
27 1 0.02
28 23 0.49
29 3 0.06
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (27 bp):
TATTTATGTATGTTATGTGTATATTAC
Found at i:21674369 original size:58 final size:59
Alignment explanation
Indices: 21674270--21674411 Score: 146
Period size: 58 Copynumber: 2.4 Consensus size: 59
21674260 GCTATATTAG
* * ** *
21674270 TATGTCTGTTATGTATGTATATTAGTATGGATATTTTGTATGTTATGTATATTACTATT
1 TATGTATGTTATGTATGTATATTACTATGGATATCATGTATGTTATATATATTACTATT
** * * *
21674329 TATGTATGTTATGTA-GTATATTACTATTTATGTCATGTATGTTATATTTATTACTGTT
1 TATGTATGTTATGTATGTATATTACTATGGATATCATGTATGTTATATATATTACTATT
21674387 TCCAT-TATG-TATGTTATGTATATTA
1 T--ATGTATGTTATG-TATGTATATTA
21674412 TTGTTTATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 39 0.57
59 20 0.29
60 10 0.14
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (59 bp):
TATGTATGTTATGTATGTATATTACTATGGATATCATGTATGTTATATATATTACTATT
Found at i:21674380 original size:24 final size:24
Alignment explanation
Indices: 21674283--21674379 Score: 87
Period size: 24 Copynumber: 4.1 Consensus size: 24
21674273 GTCTGTTATG
* *
21674283 TATGTATATTA-GTATG-GATATT
1 TATGTATGTTATGTATGTTATATT
*
21674305 T-TGTATGTTATGTATATTACTATT
1 TATGTATGTTATGTATGTTA-TATT
21674329 TATGTATGTTATGTA-G-TATATT
1 TATGTATGTTATGTATGTTATATT
* *
21674351 ACTATTTATGTCATGTATGTTATATT
1 --TATGTATGTTATGTATGTTATATT
21674377 TAT
1 TAT
21674380 TACTGTTTCC
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
21 8 0.13
22 9 0.15
23 3 0.05
24 21 0.34
25 14 0.23
26 6 0.10
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.55
Consensus pattern (24 bp):
TATGTATGTTATGTATGTTATATT
Found at i:21674424 original size:30 final size:30
Alignment explanation
Indices: 21674279--21674427 Score: 135
Period size: 30 Copynumber: 5.1 Consensus size: 30
21674269 GTATGTCTGT
* ** *
21674279 TATG-TATGTATATTAGTATGGATATTTTG
1 TATGTTATGTATATTACTATTTATATTATG
*
21674308 TATGTTATGTATATTACTATTTAT-GTATG
1 TATGTTATGTATATTACTATTTATATTATG
* *
21674337 TTATG-TA-GTATATTACTATTTATGTCATG
1 -TATGTTATGTATATTACTATTTATATTATG
* * * **
21674366 TATGTTATATTTATTACTGTTTCCATTATG
1 TATGTTATGTATATTACTATTTATATTATG
* *
21674396 TATGTTATGTATATTATTGTTTATATTATG
1 TATGTTATGTATATTACTATTTATATTATG
21674426 TA
1 TA
21674428 ACTAACTTTA
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
28 20 0.21
29 14 0.15
30 62 0.65
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (30 bp):
TATGTTATGTATATTACTATTTATATTATG
Found at i:21675870 original size:38 final size:38
Alignment explanation
Indices: 21675827--21675925 Score: 164
Period size: 38 Copynumber: 2.6 Consensus size: 38
21675817 ATATTCACTT
* *
21675827 TTAAGCATATGTCACATTA-TACATATAATCACATAACA
1 TTAAGCATATATCACAATACT-CATATAATCACATAACA
21675865 TTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTAAGCATATATCACAATACTCATATAATCACATAACA
21675903 TTAAGCATATATCACAATACTCA
1 TTAAGCATATATCACAATACTCA
21675926 AAAACATGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 57 0.98
39 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.30
Consensus pattern (38 bp):
TTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:21675873 original size:22 final size:20
Alignment explanation
Indices: 21675840--21675918 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 20
21675830 AGCATATGTC
21675840 ACATTATACATATAATCACATA
1 ACATTA-ACATAT-ATCACATA
21675862 ACATTAAGCATATATCACA-A
1 ACATTAA-CATATATCACATA
21675882 TAC--T--CATATAATCACATA
1 -ACATTAACATAT-ATCACATA
21675900 ACATTAAGCATATATCACA
1 ACATTAA-CATATATCACA
21675919 ATACTCAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
16 5 0.10
17 8 0.17
18 1 0.02
19 2 0.04
20 1 0.02
21 15 0.31
22 16 0.33
ACGTcount: A:0.48, C:0.20, G:0.03, T:0.29
Consensus pattern (20 bp):
ACATTAACATATATCACATA
Found at i:21681169 original size:26 final size:27
Alignment explanation
Indices: 21681132--21681295 Score: 95
Period size: 29 Copynumber: 5.9 Consensus size: 27
21681122 AATTTACATC
21681132 AAAGG-ATGCCTTTGTGGCTATCTCTG-
1 AAAGGAAT-CCTTTGTGGCTATCTCTGT
*
21681158 AAAGGAATCCTTTGTGGCGATCTCTGTT
1 AAAGGAATCCTTTGTGGCTATCTCTG-T
*
21681186 AAAAGGAAGCCTTTGTGG-TAATCTCTGTT
1 -AAAGGAATCCTTTGTGGCT-ATCTCTG-T
* ** * *
21681215 AAAAAGAAGACTTTATGGCGATCTCTGCT
1 -AAAGGAATCCTTTGTGGCTATCTCTG-T
* *
21681244 AAATGG-ATGCCTTTGTGGCGAGACTCTG-
1 AAA-GGAAT-CCTTTGTGGCTA-TCTCTGT
* *
21681272 AAAGGAAAGCCTCTGTGGCTATCT
1 AAAGG-AATCCTTTGTGGCTATCT
21681296 TTGGAAAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
26 22 0.20
27 6 0.05
28 17 0.15
29 60 0.55
30 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (27 bp):
AAAGGAATCCTTTGTGGCTATCTCTGT
Found at i:21681200 original size:29 final size:29
Alignment explanation
Indices: 21681132--21681264 Score: 146
Period size: 29 Copynumber: 4.7 Consensus size: 29
21681122 AATTTACATC
* *
21681132 AAAGGATGCCTTTGTGGCTATCTCTG---
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
*
21681158 AAAGGAATCCTTTGTGGCGATCTCTGTTA
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
**
21681187 AAAGGAAGCCTTTGTGGTAATCTCTGTTA
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
* * * *
21681216 AAAAGAAGACTTTATGGCGATCTCTGCTA
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
* *
21681245 AATGGATGCCTTTGTGGCGA
1 AAAGGAAGCCTTTGTGGCGA
21681265 GACTCTGAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 23 0.26
29 64 0.74
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (29 bp):
AAAGGAAGCCTTTGTGGCGATCTCTGTTA
Found at i:21684439 original size:40 final size:40
Alignment explanation
Indices: 21684395--21684471 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
21684385 CTACCTCTAA
21684395 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAAAGG
1 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAAAGG
21684435 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAA
1 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAA
21684472 GGGTATGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.26, T:0.23
Consensus pattern (40 bp):
TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAAAGG
Found at i:21689456 original size:68 final size:67
Alignment explanation
Indices: 21689347--21689687 Score: 405
Period size: 68 Copynumber: 5.0 Consensus size: 67
21689337 CTTAAAATCG
* * * *
21689347 GGAGTCTGCCAGGACATCAAACATGAGGTTAAATTGTGTAAGACCATAACTCGGCTATGGCAACA
1 GGAGTCTGCCAGGACATTAAACATG-GGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACA
21689412 TAT
65 TAT
* * *
21689415 GGAGTCTGCCAAGACATTAAACATAGGGTTATATTGTGTAAGACCATAGCTCGACTATGGAAACA
1 GGAGTCTGCCAGGACATTAAACAT-GGGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACA
21689480 TAT
65 TAT
* * *
21689483 GGAGTCCGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAAATATGGCAACA
1 GGAGTCTGCCAGGACATTAAACATG-GGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACA
21689548 TAT
65 TAT
** * * * * * * * *
21689551 GGAGTCCACTAAGACATTAAACATGGGGTTACATTATGTCATACCAAAGCTCGACTATTGCAACG
1 GGAGTCTGCCAGGACATTAAACAT-GGGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACA
21689616 TAT
65 TAT
* * * *
21689619 GGAGTCTTCTAGGACATTAAACATGGGGTTACGTTGTGTAAGACCATAGCTC-AGCTATGGTAAC
1 GGAGTCTGCCAGGACATTAAACAT-GGGTTACATTGTGTAAGACCATAGCTCGA-CTATGGCAAC
21689683 ATAT
64 ATAT
21689687 G
1 G
21689688 AAGTTTGCGA
Statistics
Matches: 235, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
67 2 0.01
68 231 0.98
69 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (67 bp):
GGAGTCTGCCAGGACATTAAACATGGGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACAT
AT
Found at i:21689602 original size:136 final size:136
Alignment explanation
Indices: 21689347--21689687 Score: 466
Period size: 136 Copynumber: 2.5 Consensus size: 136
21689337 CTTAAAATCG
* * * *
21689347 GGAGTCTGCCAGGACATCAAACATGAGGTTAAATTGTGTAAGACCATAACTCGGCTATGGCAACA
1 GGAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACA
** * * *
21689412 TATGGAGTCTGCCAAGACATTAAACATAGGGTTATATTGTGTAAGACCATAGCTCGACTATGGAA
66 TATGGAGTCCACCAAGACATTAAACATAGGGTTACATTATGTAAGACCAAAGCTCGACTATGGAA
21689477 ACATAT
131 ACATAT
* **
21689483 GGAGTCCGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAAATATGGCAACA
1 GGAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACA
* * * * * *
21689548 TATGGAGTCCACTAAGACATTAAACATGGGGTTACATTATGTCATACCAAAGCTCGACTATTGCA
66 TATGGAGTCCACCAAGACATTAAACATAGGGTTACATTATGTAAGACCAAAGCTCGACTATGGAA
*
21689613 ACGTAT
131 ACATAT
* * * * *
21689619 GGAGTCTTCTAGGACATTAAACATGGGGTTACGTTGTGTAAGACCATAGCTCAGCTATGGTAACA
1 GGAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACA
21689684 TATG
66 TATG
21689688 AAGTTTGCGA
Statistics
Matches: 178, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
136 178 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (136 bp):
GGAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACA
TATGGAGTCCACCAAGACATTAAACATAGGGTTACATTATGTAAGACCAAAGCTCGACTATGGAA
ACATAT
Found at i:21692905 original size:30 final size:30
Alignment explanation
Indices: 21692871--21692958 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
21692861 GGTGTCCTCG
* *
21692871 CATCATAAGATAGCCACAGAGGCATCCATA
1 CATCATTAGATAGCCACAAAGGCATCCATA
* **
21692901 CATCATTAGATAGCCAGAAAGGTGTCCATA
1 CATCATTAGATAGCCACAAAGGCATCCATA
* *
21692931 CATCATTAGATAGCCATAAAGGCGTCCA
1 CATCATTAGATAGCCACAAAGGCATCCA
21692959 AACAAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (30 bp):
CATCATTAGATAGCCACAAAGGCATCCATA
Found at i:21695022 original size:29 final size:30
Alignment explanation
Indices: 21694953--21695032 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
21694943 CATAATTTGA
*
21694953 TCGTCGCCATCCCTTTTCATAGTTCAATGG
1 TCGTCACCATCCCTTTTCATAGTTCAATGG
* *
21694983 TCGTCAACATCCCTTTTCATTG-T-AGATGG
1 TCGTCACCATCCCTTTTCATAGTTCA-ATGG
*
21695012 TCGTCACCATCCATTTTCATA
1 TCGTCACCATCCCTTTTCATA
21695033 ATCAATAGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 1 0.02
29 23 0.53
30 19 0.44
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.38
Consensus pattern (30 bp):
TCGTCACCATCCCTTTTCATAGTTCAATGG
Found at i:21695052 original size:29 final size:28
Alignment explanation
Indices: 21695020--21695089 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
21695010 GGTCGTCACC
21695020 ATCCATTTTCATAATCAATAGCCGAAGCT
1 ATCC-TTTTCATAATCAATAGCCGAAGCT
* * * **
21695049 ATCCCTTTCTGTATTTGATAGCCGAAGCT
1 ATCCTTTTC-ATAATCAATAGCCGAAGCT
21695078 ATCCCTTTTCAT
1 AT-CCTTTTCAT
21695090 TTGTTGATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
28 4 0.12
29 22 0.69
30 6 0.19
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (28 bp):
ATCCTTTTCATAATCAATAGCCGAAGCT
Found at i:21695210 original size:41 final size:41
Alignment explanation
Indices: 21695153--21695236 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 41
21695143 TTTTACACAA
21695153 TAGTAGCATTCAAATCATGAAATAAAAA-AGAAACTTAAATG
1 TAGTAGCATTCAAATCATGAAATAAAAACA-AAACTTAAATG
21695194 TAGTAGCATTCAAATCATGAAATAAAAACAAAACTTAAATG
1 TAGTAGCATTCAAATCATGAAATAAAAACAAAACTTAAATG
21695235 TA
1 TA
21695237 CAAACTTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 41 0.98
42 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (41 bp):
TAGTAGCATTCAAATCATGAAATAAAAACAAAACTTAAATG
Found at i:21700594 original size:28 final size:28
Alignment explanation
Indices: 21700562--21700620 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
21700552 TTATAAGAAC
**
21700562 TTAATGTCTTTTTCAACATAATATCATT
1 TTAATGTCACTTTCAACATAATATCATT
21700590 TTAATGTCACTTTCAACATAATATCATT
1 TTAATGTCACTTTCAACATAATATCATT
21700618 TTA
1 TTA
21700621 GTTCCAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.47
Consensus pattern (28 bp):
TTAATGTCACTTTCAACATAATATCATT
Found at i:21700633 original size:28 final size:28
Alignment explanation
Indices: 21700574--21700633 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
21700564 AATGTCTTTT
***
21700574 TCAACATAATATCATTTTAATGTCACTT
1 TCAACATAATATCATTTTAATGTCAAAC
*
21700602 TCAACATAATATCATTTTAGT-TCCAAAC
1 TCAACATAATATCATTTTAATGT-CAAAC
21700630 TCAA
1 TCAA
21700634 AACTAACTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.38
Consensus pattern (28 bp):
TCAACATAATATCATTTTAATGTCAAAC
Found at i:21702004 original size:22 final size:22
Alignment explanation
Indices: 21701979--21702022 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21701969 TGAAAGAGTA
21701979 GGCTTTGAAGAGGGCAAGTCCT
1 GGCTTTGAAGAGGGCAAGTCCT
21702001 GGCTTTGAAGAGGGCAAGTCCT
1 GGCTTTGAAGAGGGCAAGTCCT
21702023 TTGTATTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (22 bp):
GGCTTTGAAGAGGGCAAGTCCT
Found at i:21740162 original size:39 final size:39
Alignment explanation
Indices: 21740119--21740197 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
21740109 CCATAGAATA
21740119 AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
1 AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
21740158 AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
1 AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
21740197 A
1 A
21740198 ATCTCTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.38
Consensus pattern (39 bp):
AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
Found at i:21740228 original size:17 final size:17
Alignment explanation
Indices: 21740206--21740238 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21740196 CAATCTCTTT
21740206 TTACATATAATATCATG
1 TTACATATAATATCATG
*
21740223 TTACATATGATATCAT
1 TTACATATAATATCAT
21740239 CCATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
TTACATATAATATCATG
Found at i:21748767 original size:141 final size:141
Alignment explanation
Indices: 21748519--21748821 Score: 398
Period size: 141 Copynumber: 2.1 Consensus size: 141
21748509 AACACCCAAT
* * *
21748519 AGTTTATTGATTTACGATCT-TGAACGATTCATTCATAGCTTGTCGATTACAATCGTAGCTTCAT
1 AGTTCATTGATTTACGAT-TATAAACAATTCATTCATAGCTTGTCGATTACAATCGTAGCTTCAT
* ** *
21748583 TTAAACAGTCTATTGATTTATGATCACAATGGATATTTCTAGAGTTTGTTGATTTAAGATCATAG
65 TTAAACAGTCTATTGATTTACGATCACAATGGATATTTCTAGAGCCTGTTGATGTAAGATCATAG
21748648 CTCCACTCAACA
130 CTCCACTCAACA
* * *
21748660 A-TTCATTGATTTATGATTATAAACAATTCATTTATAGCTTGTCGATTTACGATCGTAGCTTCAT
1 AGTTCATTGATTTACGATTATAAACAATTCATTCATAGCTTGTCGA-TTACAATCGTAGCTTCAT
* * * *
21748724 TTAAATAGTC-AGTTTATTTACGATCACAACT-GATATTTTTAGAGCCTGTTGATGTAAGATCGT
65 TTAAACAGTCTA-TTGATTTACGATCACAA-TGGATATTTCTAGAGCCTGTTGATGTAAGATCAT
**
21748787 AGCTCCACTCAGTA
128 AGCTCCACTCAACA
21748801 AGTTCATTGATTTACGATTAT
1 AGTTCATTGATTTACGATTAT
21748822 GAATGACTAT
Statistics
Matches: 140, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
139 1 0.01
140 38 0.27
141 82 0.59
142 19 0.14
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (141 bp):
AGTTCATTGATTTACGATTATAAACAATTCATTCATAGCTTGTCGATTACAATCGTAGCTTCATT
TAAACAGTCTATTGATTTACGATCACAATGGATATTTCTAGAGCCTGTTGATGTAAGATCATAGC
TCCACTCAACA
Found at i:21749165 original size:68 final size:69
Alignment explanation
Indices: 21749055--21749304 Score: 450
Period size: 68 Copynumber: 3.7 Consensus size: 69
21749045 TGATAATACA
21749055 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGTTTAT
1 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGTTTAT
21749120 GCCT
66 GCCT
*
21749124 TAAGTA-TTGTTAACTGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGTTTAT
1 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGTTTAT
21749188 GCCT
66 GCCT
* *
21749192 TAAGTA-TTGTTAACTGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGGTTAT
1 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGTTTAT
21749256 GCCT
66 GCCT
*
21749260 TAAGTATTTGTTAACCGATGATAACTTTCGTTTATTTTATGGTGA
1 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGA
21749305 TAAATTATTA
Statistics
Matches: 176, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
68 134 0.76
69 42 0.24
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.46
Consensus pattern (69 bp):
TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGTTTAT
GCCT
Found at i:21751139 original size:51 final size:51
Alignment explanation
Indices: 21751067--21751303 Score: 248
Period size: 51 Copynumber: 4.7 Consensus size: 51
21751057 TATCGATGAA
** *
21751067 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAA-ATGTTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGAGAAGAT-TTGGT
* * * * * * *
21751118 CACATGTGTAGTTCTAAGTGAACGCTACAATGTGTATCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGAGAAGATTTGGT
** *
21751169 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAA-A--TGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGAGAAGATTTGGT
* * * * * *
21751217 CACTTGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGAGAAGATTTGGT
**
21751268 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAA
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAA
21751304 CCGTAAAACT
Statistics
Matches: 147, Mismatches: 35, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
48 39 0.27
51 107 0.73
52 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGAGAAGATTTGGT
Found at i:21751262 original size:99 final size:100
Alignment explanation
Indices: 21751067--21751303 Score: 413
Period size: 99 Copynumber: 2.4 Consensus size: 100
21751057 TATCGATGAA
*
21751067 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGTTGGTCACATGTGTAGTTC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA--TTGGTCACATGTGTAGTAC
*
21751132 TAAGTGAACGCTACAATGTGTATCGAGAAGCTTTGGT
64 TAAGTGAACGCTACAATGTGTACCGAGAAGCTTTGGT
*
21751169 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA-TGGTCACTTGTGTAGTACTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTGGTCACATGTGTAGTACTA
*
21751233 AGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 AGTGAACGCTACAATGTGTACCGAGAAGCTTTGGT
21751268 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAA
21751304 CCGTAAAACT
Statistics
Matches: 131, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
99 87 0.66
102 44 0.34
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTGGTCACATGTGTAGTACTA
AGTGAACGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:21757097 original size:51 final size:51
Alignment explanation
Indices: 21757042--21757440 Score: 290
Period size: 51 Copynumber: 7.9 Consensus size: 51
21757032 CGATAAATGA
* *
21757042 TGGTCACATGTGTAGTTCTAAGTGAAGGCTACAATGTGTATCGAGAAGCTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGCTT
* * ** * * * * *
21757093 TGGTCCCGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAA-ATGA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGCT-T
*
21757144 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTATCGAGAAGCTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGCTT
* * ** * ** * *
21757195 TGGTCCCGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGTTAA-ATGA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGCT-T
* * * * *
21757246 TGGTCAAATTTGTAGTACTAAATGAAGGCTACTATGTGTACCGAAAAGCTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGCTT
* * ** * * * *
21757297 TGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAACCGTA-AAACTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCG-AGAAGCTT
* * * * * * *
21757348 T-ATCACGTGTGTAGTACTACA-TGAAGGCTATTACGTGAACCGTA-AAACTT
1 TGGTCACATGTGTAGTACTA-AGTGAAGGCTACTATGTGTATCG-AGAAGCTT
* * * * *
21757398 T-ATCACGTGTGTAGTACTATGTGAAGGCTACAACGTGTATCGA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA
21757441 ATGATAAAAG
Statistics
Matches: 277, Mismatches: 64, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.00
50 81 0.29
51 192 0.69
52 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGCTT
Found at i:21757180 original size:102 final size:102
Alignment explanation
Indices: 21756994--21757440 Score: 569
Period size: 102 Copynumber: 4.4 Consensus size: 102
21756984 TATCGATGAA
* *
21756994 CACGTGTGTAAGTACTGTGTGAAGGCTACTACGTGACTCGATAAATGATGGTCACATGTGTAGTT
1 CACGTGTGT-AGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
*
21757059 CTAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
65 CTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
21757097 CCCGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
21757162 TAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* * * * *
21757199 CCCGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGTTAAATGATGGTCAAATTTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
21757264 TAAATGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* * *** ** *
21757301 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAACCG-TAAAACTTTATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
** * * * *
21757365 TACA-TGAAGGCTATTACGTGAACCGTA-AAACTTT-AT
66 TA-AGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
* * *
21757401 CACGTGTGTAGTACTATGTGAAGGCTACAACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
21757441 ATGATAAAAG
Statistics
Matches: 308, Mismatches: 33, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
100 35 0.11
101 43 0.14
102 222 0.72
103 8 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:21759343 original size:15 final size:15
Alignment explanation
Indices: 21759323--21759351 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21759313 CCTCAAGGTT
21759323 TGGGGCTGAAGAATA
1 TGGGGCTGAAGAATA
21759338 TGGGGCTGAAGAAT
1 TGGGGCTGAAGAAT
21759352 TTAGAGCTAT
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:0.31, C:0.07, G:0.41, T:0.21
Consensus pattern (15 bp):
TGGGGCTGAAGAATA
Found at i:21768598 original size:50 final size:50
Alignment explanation
Indices: 21768518--21768650 Score: 122
Period size: 50 Copynumber: 2.7 Consensus size: 50
21768508 CAATGCCACA
** * * *
21768518 TCCCAGATATGGTCTTACAAGGGAGTTCTCATATCGATGCCCATGCAATG
1 TCCCAGATATGGTCTTACAAGGGACCTCTCATATAGATGCCAACGCAATG
*** * *
21768568 TCCCAGATATGGTCTTATGGGGGACCTCTCATCTAGATGCCAACGCCATG
1 TCCCAGATATGGTCTTACAAGGGACCTCTCATATAGATGCCAACGCAATG
* * * * * *
21768618 TCCCAAACAAGATCCTACATGGGACCTCTCATA
1 TCCCAGATATGGTCTTACAAGGGACCTCTCATA
21768651 ACCTCAATAA
Statistics
Matches: 64, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (50 bp):
TCCCAGATATGGTCTTACAAGGGACCTCTCATATAGATGCCAACGCAATG
Found at i:21770652 original size:20 final size:20
Alignment explanation
Indices: 21770618--21770661 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
21770608 GTCTTAACCG
21770618 AATTAATTAGTTCTTAG-TTT
1 AATTAATTAGTTCTT-GTTTT
21770638 AATTAATT-GTATCTTGTTTT
1 AATTAATTAGT-TCTTGTTTT
21770658 AATT
1 AATT
21770662 TAAGACGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (20 bp):
AATTAATTAGTTCTTGTTTT
Found at i:21771979 original size:18 final size:18
Alignment explanation
Indices: 21771956--21771997 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
21771946 GAAATTTTTT
21771956 AAAAAA-GTGAATTGAAAA
1 AAAAAACGTGAATT-AAAA
21771974 AAAAAATCGTGAATTAAAA
1 AAAAAA-CGTGAATTAAAA
21771993 AAAAA
1 AAAAA
21771998 GGTGTTGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (18 bp):
AAAAAACGTGAATTAAAA
Found at i:21772352 original size:14 final size:14
Alignment explanation
Indices: 21772333--21772362 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21772323 TTCGAAAGAT
*
21772333 TTGTGAGGTTTTTG
1 TTGTGAGGTCTTTG
21772347 TTGTGAGGTCTTTG
1 TTGTGAGGTCTTTG
21772361 TT
1 TT
21772363 TTCATGTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.03, G:0.33, T:0.57
Consensus pattern (14 bp):
TTGTGAGGTCTTTG
Found at i:21784726 original size:50 final size:50
Alignment explanation
Indices: 21784591--21784728 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 50
21784581 TACCGACAAT
* * ** * *
21784591 GCCATATCCCAAATATGGTCTTACATGGGAATTCTCATATCGGTGCCCAT
1 GCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
* ** * *
21784641 GCCATGTCCCAG-CATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
*
21784690 GCCATATCCCAGAGATGGTCTTACATGGGACCTCTCATA
1 GCCATATCCCAGACATGGTCTTACATGGGACCTCTCATA
21784729 ACCTTAATAA
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 39 0.55
50 32 0.45
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
Found at i:21794786 original size:48 final size:48
Alignment explanation
Indices: 21794734--21794844 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
21794724 AAGGTCATAG
* * * **
21794734 ATAAACTACCATATAATTAGAATCGTGAACAACATCACATTAATGCAC
1 ATAAACTGCCATATAATCAGAATCATGAACAACATCACATTAACACAC
* *** *
21794782 ATAAACTGCCATATAATCAGATTCATGAACAGTGTCACATTAACACAG
1 ATAAACTGCCATATAATCAGAATCATGAACAACATCACATTAACACAC
21794830 ATAAACTGCCATATA
1 ATAAACTGCCATATA
21794845 CTTCCACCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (48 bp):
ATAAACTGCCATATAATCAGAATCATGAACAACATCACATTAACACAC
Found at i:21798717 original size:55 final size:56
Alignment explanation
Indices: 21798610--21798718 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
21798600 ATTTATAGCT
*
21798610 GACACCCTTGTACCAAATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGGTC
1 GACACCCTCGTACCAAATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGGTC
* ** * *
21798666 GACACCCTCGTACCAGATTTTTTAAAAAAA-ATTGGGTGTTGGGACATTGATGG
1 GACACCCTCGTACCAAATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGG
21798719 CCATCACCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 21 0.45
56 26 0.55
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (56 bp):
GACACCCTCGTACCAAATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGGTC
Found at i:21798734 original size:55 final size:56
Alignment explanation
Indices: 21798611--21798743 Score: 155
Period size: 55 Copynumber: 2.4 Consensus size: 56
21798601 TTTATAGCTG
* * *
21798611 ACACCCTTGTACCAAATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGGTCG
1 ACACCCTCGTACCAGATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGGTCC
** * *
21798667 ACACCCTCGTACCAGATTTTTTAAAAAAA-ATTGGGTGTTGGGACATTGATGG-CC
1 ACACCCTCGTACCAGATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGGTCC
*
21798721 ATCA-CCTCAGTACCAGAATTTAA
1 A-CACCCTC-GTACCAGATTTTAA
21798744 TTAAAAAGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
54 6 0.09
55 34 0.52
56 25 0.38
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (56 bp):
ACACCCTCGTACCAGATTTTAAAAAAAAATATTGGGTGTTAGGACAATGATGGTCC
Found at i:21798888 original size:69 final size:70
Alignment explanation
Indices: 21798735--21799060 Score: 482
Period size: 70 Copynumber: 4.6 Consensus size: 70
21798725 CCTCAGTACC
*
21798735 AGAATTTAATTAAAAAGTAAAT-ATTGAAGGATAAATTAATTTAAAGGAATAAATTTAAATTTTA
1 AGAATTTAATTAAAAAG-AAATAATTAAAGGATAAATTAATTTAAAGGAATAAATTTAAATTTTA
21798799 AAAAAT
65 AAAAAT
* *
21798805 AGAATTTAATTAAAAATAAATAATTAATGGATAAA-TATATTTAAAGGAATAAATTTAAATTTT-
1 AGAATTTAATTAAAAAGAAATAATTAAAGGATAAATTA-ATTTAAAGGAATAAATTTAAATTTTA
21798868 AAAAAT
65 AAAAAT
* * *
21798874 AGAATTTAACTAAAAACAAATAATTAAAGGATAAATCT-ATTTAAAGGAATAAATTCAAATTTTA
1 AGAATTTAATTAAAAAGAAATAATTAAAGGATAAAT-TAATTTAAAGGAATAAATTTAAATTTTA
21798938 AAAAAT
65 AAAAAT
* *
21798944 AGAATTTAATTAAAGAAAGAAATAATTAAAGGGTAAATTAATTTAAAGGGATAAATTTAAA-TTT
1 AGAATTTAATT-AA-AAAGAAATAATTAAAGGATAAATTAATTTAAAGGAATAAATTTAAATTTT
21799008 AAAAAAT
64 AAAAAAT
*
21799015 AGAATTTAAATAAAAAAGAAATAATTAAAGGATAAATTAATTTAAA
1 AGAATTT-AATTAAAAAGAAATAATTAAAGGATAAATTAATTTAAA
21799061 TAAATAGAAA
Statistics
Matches: 233, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
69 68 0.29
70 99 0.42
71 23 0.10
72 43 0.18
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.32
Consensus pattern (70 bp):
AGAATTTAATTAAAAAGAAATAATTAAAGGATAAATTAATTTAAAGGAATAAATTTAAATTTTAA
AAAAT
Found at i:21798985 original size:16 final size:18
Alignment explanation
Indices: 21798969--21799010 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
21798959 AAAGAAATAA
21798969 TTAAAGGG-TAAATTAAT
1 TTAAAGGGATAAATTAAT
21798986 TTAAAGGGATAAATTTAAAT
1 TTAAAGGGATAAA-TT-AAT
21799006 TTAAA
1 TTAAA
21799011 AAATAGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 2 0.09
20 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (18 bp):
TTAAAGGGATAAATTAAT
Found at i:21799087 original size:16 final size:16
Alignment explanation
Indices: 21799068--21799100 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21799058 AAATAAATAG
21799068 AAATTAAAAAAAGAAA
1 AAATTAAAAAAAGAAA
*
21799084 AAATTAGAAAAAGAAA
1 AAATTAAAAAAAGAAA
21799100 A
1 A
21799101 GAGGATGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATTAAAAAAAGAAA
Found at i:21799088 original size:36 final size:36
Alignment explanation
Indices: 21799008--21799089 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
21798998 ATTTAAATTT
* **
21799008 AAAAAATAGAATTTAAATAAAAAAGAAATAATTAAAG
1 AAAAAAT-TAATTTAAATAAAAAAGAAATAAAAAAAG
* * *
21799045 GATAAATTAATTTAAAT-AAATAGAAATTAAAAAAAG
1 AAAAAATTAATTTAAATAAAAAAGAAA-TAAAAAAAG
21799081 AAAAAATTA
1 AAAAAATTA
21799090 GAAAAAGAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
35 8 0.22
36 23 0.64
37 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (36 bp):
AAAAAATTAATTTAAATAAAAAAGAAATAAAAAAAG
Found at i:21799966 original size:6 final size:6
Alignment explanation
Indices: 21799957--21799988 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
21799947 ATATTTTCCC
21799957 TTTCTT TTTCTT TTTCTT TTTCTT TTTACTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT-CTT T
21799989 GTCGTGTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:21805401 original size:3 final size:3
Alignment explanation
Indices: 21805387--21805445 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
21805377 TCTTGTTATC
*
21805387 TTA TTGA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21805433 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
21805446 ATTTCTATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:21806088 original size:72 final size:71
Alignment explanation
Indices: 21805971--21806113 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 71
21805961 TCTTTTCAAA
** *
21805971 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGGGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
21806036 ATTTTTT
66 -TTTTTT
21806043 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
21806108 TTTTTT
66 TTTTTT
21806114 AAATCCGAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 6 0.09
72 62 0.91
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
TTTTTT
Found at i:21810294 original size:2 final size:2
Alignment explanation
Indices: 21810287--21810313 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21810277 TAGAAGGGAA
21810287 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
21810314 ATATTTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21817168 original size:20 final size:21
Alignment explanation
Indices: 21817127--21817170 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
21817117 AAATCAAGTT
*
21817127 TTATACTTAACATTTCATAAC
1 TTATACTTAAAATTTCATAAC
21817148 TTATA-TTAAAATTTCCA-AAC
1 TTATACTTAAAATTT-CATAAC
21817168 TTA
1 TTA
21817171 CAAAATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATACTTAAAATTTCATAAC
Found at i:21818016 original size:25 final size:25
Alignment explanation
Indices: 21817973--21818026 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
21817963 GCTCTCTCTC
*
21817973 GAGCCATATAACGGAAAGCTCATGT
1 GAGCCATATAACGGAAAGCTCATGA
* * *
21817998 GAGCCATGTAATGGGAAGCTCATGA
1 GAGCCATATAACGGAAAGCTCATGA
21818023 GAGC
1 GAGC
21818027 TGTAATCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGAAAGCTCATGA
Done.