Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006840.1 Hibiscus syriacus cultivar Beakdansim tig00017391_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 150161
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 2
Found at i:1224 original size:2 final size:2
Alignment explanation
Indices: 1217--1242 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1207 CTTGCTGGCA
1217 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1243 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3078 original size:20 final size:20
Alignment explanation
Indices: 3053--3100 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3043 TAATTCGGTT
*
3053 AATTAACTAATTTCAAACCA
1 AATTAACCAATTTCAAACCA
*
3073 AATTAACCGATTTCAAACCA
1 AATTAACCAATTTCAAACCA
3093 AATTAACC
1 AATTAACC
3101 GTTAACAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (20 bp):
AATTAACCAATTTCAAACCA
Found at i:3101 original size:20 final size:20
Alignment explanation
Indices: 3062--3101 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3052 TAATTAACTA
3062 ATTTCAAACCAAATTAACCG
1 ATTTCAAACCAAATTAACCG
3082 ATTTCAAACCAAATTAACCG
1 ATTTCAAACCAAATTAACCG
3102 TTAACAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (20 bp):
ATTTCAAACCAAATTAACCG
Found at i:4144 original size:14 final size:13
Alignment explanation
Indices: 4111--4136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4101 CTAATAATAT
4111 TAATTATATTAAA
1 TAATTATATTAAA
4124 TAATTATATTAAA
1 TAATTATATTAAA
4137 ATATTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTATATTAAA
Found at i:4233 original size:23 final size:24
Alignment explanation
Indices: 4189--4235 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
4179 ATACATTGAC
*
4189 AAATTATATAAATACAATAACATT
1 AAATTATATAAATACAAAAACATT
4213 AAATTAT-TAGAA-ACAAAAACATT
1 AAATTATATA-AATACAAAAACATT
4236 CATTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATTATATAAATACAAAAACATT
Found at i:7111 original size:8 final size:8
Alignment explanation
Indices: 7098--7138 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
7088 CTCATTTTCA
7098 GAGAATTT
1 GAGAATTT
7106 GAGAATTT
1 GAGAATTT
*
7114 -AGAGTTT
1 GAGAATTT
*
7121 GGGAATTT
1 GAGAATTT
7129 GAGAATTT
1 GAGAATTT
7137 GA
1 GA
7139 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:7483 original size:128 final size:128
Alignment explanation
Indices: 7255--8069 Score: 1369
Period size: 128 Copynumber: 6.4 Consensus size: 128
7245 TTCCATATTT
*
7255 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTTATATCAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
* *
7320 TTTCTCAGGGGACTTGAAGGCGCGTTGCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATA
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
* *
7383 TGTTATCATTGCCTTATTATGTCACTCATGTCTCTCGGGGACACTATTCATATCAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
* * * * *
7448 TTTCTCAGGGTACTTGAAGACGCGTTCCTGGGGGCGCGTCTTCCATTATTTTATCAGAGAATA
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
* * *
7511 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGTGAGACTATTCATATTAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
* * * *
7576 TTTCTCAGGGGACTTGAAGGCTCGTTCTCGGGGGGGCGCATTCCATTATTTTGTCAGAGAATA
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
* * *
7639 TGTTATCATTGCTCTATTATGCCACTCATGTCCCTCGTGGACACTATTCATATCAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
*
7704 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATA
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCC-GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
* *
7768 TGTTATCATCGCCCTATTATGTCACTCATGTCCCTCAGGGACACTATTCATATCAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
*
7833 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTTGTCAGAGAATA
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
*
7896 TGTTATCATTGCCCTATTATGTCACTCATATCCCTCGGGGACACTATTCATATCAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
** *
7961 TTTCTCAGGGGACTTGAAAACGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
8024 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
8070 GATAAATTGA
Statistics
Matches: 638, Mismatches: 48, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
128 516 0.81
129 122 0.19
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (128 bp):
TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
Found at i:7964 original size:385 final size:384
Alignment explanation
Indices: 7255--8069 Score: 1369
Period size: 385 Copynumber: 2.1 Consensus size: 384
7245 TTCCATATTT
*
7255 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTTATATCAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
*
7320 TTTCTCAGGGGACTTGAAGGCGCGTTGCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATATG
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATATG
* * * *
7385 TTATCATTGCCTTATTATGTCACTCATGTCTCTCGGGGACACTATTCATATCAGTACCTATTATT
131 TTATCATCGCCCTATTATGTCACTCATGTCCCTCAGGGACACTATTCATATCAGTACCTATTATT
* * *
7450 TCTCAGGGTACTTGAAGACGCGTTCCTGGGGGCGCGTCTTCCATTATTTTATCAGAGAATATGTT
196 TCTCAGGGGACTTGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTT
* * * *
7515 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGTGAGACTATTCATATTAGTACCTATTATTTC
261 ATCATTGCCCTATTATGTCACTCATATCCCTCGGGGACACTATTCATATCAGTACCTATTATTTC
** * * * *
7580 TCAGGGGACTTGAAGGCTCGTTCTCGGGGGGGCGCATTCCATTATTTTGTCAGAGAATA
326 TCAGGGGACTTGAAAACGCATTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATA
* * *
7639 TGTTATCATTGCTCTATTATGCCACTCATGTCCCTCGTGGACACTATTCATATCAGTACCTATTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
* *
7704 TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATAT
66 TTTCTCAGGGGACTTGAAGGCGCGTTCCC-GGGGGCGCGCATTCCATTATTTTGTCAGAGAATAT
7769 GTTATCATCGCCCTATTATGTCACTCATGTCCCTCAGGGACACTATTCATATCAGTACCTATTAT
130 GTTATCATCGCCCTATTATGTCACTCATGTCCCTCAGGGACACTATTCATATCAGTACCTATTAT
* * *
7834 TTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTTGTCAGAGAATATGT
195 TTCTCAGGGGACTTGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGT
7899 TATCATTGCCCTATTATGTCACTCATATCCCTCGGGGACACTATTCATATCAGTACCTATTATTT
260 TATCATTGCCCTATTATGTCACTCATATCCCTCGGGGACACTATTCATATCAGTACCTATTATTT
*
7964 CTCAGGGGACTTGAAAACGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
325 CTCAGGGGACTTGAAAACGCATTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATA
8024 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
1 TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
8070 GATAAATTGA
Statistics
Matches: 399, Mismatches: 31, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
384 89 0.22
385 310 0.78
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (384 bp):
TGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA
TTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATATG
TTATCATCGCCCTATTATGTCACTCATGTCCCTCAGGGACACTATTCATATCAGTACCTATTATT
TCTCAGGGGACTTGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTT
ATCATTGCCCTATTATGTCACTCATATCCCTCGGGGACACTATTCATATCAGTACCTATTATTTC
TCAGGGGACTTGAAAACGCATTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATA
Found at i:8468 original size:34 final size:34
Alignment explanation
Indices: 8363--8470 Score: 153
Period size: 34 Copynumber: 3.1 Consensus size: 34
8353 TAAGTTGAAA
*
8363 TTTAATGTTAAATTTCGAATACTATAATTTATATT
1 TTTAAT-TTAAATTTCGAATAATATAATTTATATT
* * *
8398 TTAAATTTAAATTTCGAATAATATTATTTTTATT
1 TTTAATTTAAATTTCGAATAATATAATTTATATT
* *
8432 TTTATTTTAAATTTCGAATAATATAATTTGTATT
1 TTTAATTTAAATTTCGAATAATATAATTTATATT
8466 TTTAA
1 TTTAA
8471 AACATTTATC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
34 59 0.92
35 5 0.08
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTAATTTAAATTTCGAATAATATAATTTATATT
Found at i:9037 original size:21 final size:21
Alignment explanation
Indices: 8987--9058 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
8977 TATGGTATAA
*
8987 AACCCTGCGGGCTAGGCATG-
1 AACCCTGCGGGCTAGGAATGT
*
9007 AA-CCTGGCGGGCTAGAAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
9028 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
9049 AACCCTGCGG
1 AACCCTGCGG
9059 AGATGGCATA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 3 0.07
20 14 0.31
21 25 0.56
22 3 0.07
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:10904 original size:32 final size:34
Alignment explanation
Indices: 10843--10921 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 34
10833 AATTCTAAAT
*
10843 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTACATAAATATTA-TTTAATAAAAA
* *
10878 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATAAAAA
*
10910 ATATAATAATTA
1 AAATAATAATTA
10922 TTTAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 19 0.49
34 2 0.05
35 18 0.46
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATAAAAA
Found at i:10918 original size:35 final size:35
Alignment explanation
Indices: 10839--10925 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
10829 TAATAATTCT
* *
10839 AAATAAATAATAATTATATAAATATTATTTTAATAA
1 AAATAAATAATATTTACATAAATATTA-TTTAATAA
10875 AAA-AAATAATATTTACATAAATA-TA-TTAATATA
1 AAATAAATAATATTTACATAAATATTATTTAATA-A
10908 AAATATAATAATTATTTA
1 AAATA-AATAA-TATTTA
10926 AAAAAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 6 0.13
33 4 0.09
34 3 0.07
35 23 0.51
36 9 0.20
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (35 bp):
AAATAAATAATATTTACATAAATATTATTTAATAA
Found at i:10944 original size:35 final size:34
Alignment explanation
Indices: 10871--10949 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
10861 TATTATTTTA
* * * * *
10871 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACAAAAAAATACTAAC
10905 ATAAAATATAATAATTATTTA-AAAAAAATACTAAC
1 ATAAAA-ATAATAA-TATTTACAAAAAAATACTAAC
10940 ATAAAAATAA
1 ATAAAAATAA
10950 ATTACTTACC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
34 10 0.26
35 22 0.58
36 6 0.16
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACAAAAAAATACTAAC
Found at i:13014 original size:14 final size:14
Alignment explanation
Indices: 12995--13060 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
12985 TTTTATTATA
12995 TTTAAAAATATATT
1 TTTAAAAATATATT
13009 TTTAAAAATTATAATT
1 TTTAAAAA-TAT-ATT
* * *
13025 ATCAATAATATATT
1 TTTAAAAATATATT
* *
13039 TTTAATAATATAAT
1 TTTAAAAATATATT
13053 TTTAAAAA
1 TTTAAAAA
13061 AATCTAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 29 0.67
15 6 0.14
16 8 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:13086 original size:46 final size:44
Alignment explanation
Indices: 12995--13089 Score: 109
Period size: 48 Copynumber: 2.1 Consensus size: 44
12985 TTTTATTATA
* *
12995 TTTAAAAATATATTTTTAAAAATTATAATTATCAATAATATATT
1 TTTAAAAATATATTTTAAAAAATTAAAATTATCAATAATATATT
* * *
13039 TTTAATAATATAATTTTAAAAAAATCTAAAATTATAATATAATATTTT
1 TTTAAAAATAT-ATTTT-AAAAAAT-TAAAATTATCA-ATAATATATT
13087 TTT
1 TTT
13090 TCGAGTACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 10 0.24
45 5 0.12
46 6 0.14
47 9 0.21
48 12 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (44 bp):
TTTAAAAATATATTTTAAAAAATTAAAATTATCAATAATATATT
Found at i:17600 original size:31 final size:29
Alignment explanation
Indices: 17565--17623 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
17555 AAACTACACA
17565 TTTAGTACCTAAACTATCAATTTTGTTTCAT
1 TTTAGTACCTAAACTATC--TTTTGTTTCAT
*
17596 TTTAGTACCTAAACTTTCTTTTGTTTCA
1 TTTAGTACCTAAACTATCTTTTGTTTCA
17624 AAATCATACC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTAGTACCTAAACTATCTTTTGTTTCAT
Found at i:19778 original size:30 final size:30
Alignment explanation
Indices: 19738--19819 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 30
19728 TTGAAATTAC
* **
19738 AAGGACCAAAATAGAAAAAACATTAACTTA
1 AAGGATCAAAATAGAAAAAACAAGAACTTA
* *
19768 AAGGATCAAAACGAAAAAAAAACAAGAACTTA
1 AAGGATCAAAA--TAGAAAAAACAAGAACTTA
* *
19800 AAGGATAAAAATAGCAAAAA
1 AAGGATCAAAATAGAAAAAA
19820 TAGAAAGTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
30 16 0.39
32 25 0.61
ACGTcount: A:0.65, C:0.11, G:0.12, T:0.12
Consensus pattern (30 bp):
AAGGATCAAAATAGAAAAAACAAGAACTTA
Found at i:21898 original size:126 final size:125
Alignment explanation
Indices: 21594--22037 Score: 501
Period size: 126 Copynumber: 3.6 Consensus size: 125
21584 GGTGACAAGA
* * * * * * *
21594 CTCCTACAAAATGAGGAAATCTAGTCAAGTGATGACACTGCTAATCTGTTCATGAGTCTTAGCCA
1 CTCCTACATAATGAAGAGATCTAATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCA
* ** * * * * *
21659 TCTAAGGGTGATAACACTGCTTAAACTATGAT---AAGTCTTGGTTATCT-AGGATTGGCACAA
66 TCTAAGGGTGATAACAC-GGTTCCACTCTGATGGGACGGC-TGGTTATCTGA-G-TTGACACAT
* * * *
21719 CTACTACATAATGAGGAGATATGATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCA
1 CTCCTACATAATGAAGAGATCTAATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCA
21784 TCTAAGGGTGATAACACGGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGACACAT
66 TCTAAGGGTGATAACACGGTTCCACTCTGAT-GGGACGGCTGGTTATCTGAGTTGACACAT
** * *
21845 CTCCTTA-ATAATGAAGAGATCTGGTCAGGTGATGACACTGCTCATCTGTTCATGATTCTTGGCC
1 CTCC-TACATAATGAAGAGATCTAATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCC
* * * *
21909 ATCTAAGGGTGATAACA--GTTCCACTCTAATGTGGACAGTTGGTTATCTGAGCTGACACAT
65 ATCTAAGGGTGATAACACGGTTCCACTCTGATG-GGACGGCTGGTTATCTGAGTTGACACAT
*
21969 CTCC-ACATAAT-AAGGAGATCTAATCATGTGATGACACTGCTCATATGTTCATGAGTCTTGGCC
1 CTCCTACATAATGAA-GAGATCTAATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCC
22032 ATCTAA
65 ATCTAA
22038 AGGATTTTGG
Statistics
Matches: 278, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
122 3 0.01
123 56 0.20
124 51 0.18
125 73 0.26
126 79 0.28
127 12 0.04
128 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (125 bp):
CTCCTACATAATGAAGAGATCTAATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCA
TCTAAGGGTGATAACACGGTTCCACTCTGATGGGACGGCTGGTTATCTGAGTTGACACAT
Found at i:28066 original size:30 final size:32
Alignment explanation
Indices: 27996--28087 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 32
27986 AATAATTACT
* * *
27996 TGAAATTACAAGGACCAAAATAGAAAAAAAAACA
1 TGAACTTA-AAGGACAAAAATAG-CAAAAAAACA
* *
28030 TGAACTTAATGGATC-AAAATGGCAAAAAAA-A
1 TGAACTTAAAGGA-CAAAAATAGCAAAAAAACA
28061 T-AACTTAAAGGACAAAAATAGCAAAAA
1 TGAACTTAAAGGACAAAAATAGCAAAAA
28088 CTGAAAGTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
29 1 0.02
30 22 0.44
31 2 0.04
32 7 0.14
33 10 0.20
34 8 0.16
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.15
Consensus pattern (32 bp):
TGAACTTAAAGGACAAAAATAGCAAAAAAACA
Found at i:32121 original size:26 final size:27
Alignment explanation
Indices: 32085--32136 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
32075 TCATTACCTT
32085 TAATGCTATTTTAGAAT-AAATTTTTG
1 TAATGCTATTTTAGAATAAAATTTTTG
32111 TAATGCTATTTTAGAATAAAATTTTT
1 TAATGCTATTTTAGAATAAAATTTTT
32137 CTTTTATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (27 bp):
TAATGCTATTTTAGAATAAAATTTTTG
Found at i:32441 original size:18 final size:19
Alignment explanation
Indices: 32403--32441 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
32393 GGAGACATAC
32403 ATATTTTATTTTAAACTTAT
1 ATATTTTATTTTAAAC-TAT
*
32423 ATATTTTCTTTTAAA-TAT
1 ATATTTTATTTTAAACTAT
32441 A
1 A
32442 AATTACGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTTTATTTTAAACTAT
Found at i:32580 original size:51 final size:51
Alignment explanation
Indices: 32510--32610 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
32500 TAAGGAATGT
*
32510 TGTTAAGCAAAAGTCAATGTGATCACCAAAATCAAGTTATACTGTTAAGGC
1 TGTTAAGCAAAAGTCAATGTGATCACCAAAATCAAGTTATAATGTTAAGGC
*
32561 TGTTAAGTAAAAGTCAATGTGATCACCAAAATCAAGTTATAATGTTAAGG
1 TGTTAAGCAAAAGTCAATGTGATCACCAAAATCAAGTTATAATGTTAAGG
32611 TTGGTCCAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (51 bp):
TGTTAAGCAAAAGTCAATGTGATCACCAAAATCAAGTTATAATGTTAAGGC
Found at i:36578 original size:2 final size:2
Alignment explanation
Indices: 36571--36601 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36561 AAATAACATA
36571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36602 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43982 original size:19 final size:19
Alignment explanation
Indices: 43944--43991 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
43934 AAATATGTCA
** *
43944 AAAGATAAAAATTTATCAT
1 AAAGATAAAAACGTACCAT
43963 AAAGATAAAAACGTACCAT
1 AAAGATAAAAACGTACCAT
*
43982 AAAAATAAAA
1 AAAGATAAAA
43992 TTACTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.21
Consensus pattern (19 bp):
AAAGATAAAAACGTACCAT
Found at i:48388 original size:2 final size:2
Alignment explanation
Indices: 48381--48411 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48371 TGATTTTGCC
48381 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48412 TTTTCGTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48808 original size:2 final size:2
Alignment explanation
Indices: 48801--48878 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
48791 AACCAAAAGC
48801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48879 GTATCTGTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49435 original size:17 final size:17
Alignment explanation
Indices: 49401--49454 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
49391 ACCGGACAAA
* *
49401 TTTATTATTTTAGAGAG
1 TTTATTAATTTAAAGAG
**
49418 TTTATTAATTTATCGAG
1 TTTATTAATTTAAAGAG
49435 --TATTAATTTAAAGAG
1 TTTATTAATTTAAAGAG
49450 TTTAT
1 TTTAT
49455 ACTGCAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.43
17 17 0.57
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTAAAGAG
Found at i:50150 original size:16 final size:15
Alignment explanation
Indices: 50131--50195 Score: 57
Period size: 13 Copynumber: 4.3 Consensus size: 15
50121 AATATATCTT
50131 AAATTTAAAATATAAAA
1 AAATTT-AAATAT-AAA
50148 AATATTTAAATATTCAAA
1 AA-ATTTAAATA-T-AAA
50166 AAA-TTAAATAT-AA
1 AAATTTAAATATAAA
50179 AAA-TTAAAT-TAAA
1 AAATTTAAATATAAA
50192 AAAT
1 AAAT
50196 AAATACATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
12 1 0.02
13 16 0.37
15 1 0.02
16 7 0.16
17 8 0.19
18 10 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTTAAATATAAA
Found at i:50154 original size:18 final size:18
Alignment explanation
Indices: 50133--50213 Score: 53
Period size: 19 Copynumber: 4.6 Consensus size: 18
50123 TATATCTTAA
50133 ATTTAAAATATAAAAAAT
1 ATTTAAAATATAAAAAAT
*
50151 ATTT-AAATATTCAAAAA-
1 ATTTAAAATA-TAAAAAAT
*
50168 A-TT-AAATATAAAAATT
1 ATTTAAAATATAAAAAAT
* * *
50184 AAATTAAAAAATAAATACAT
1 -ATTTAAAATATAAA-AAAT
*
50204 ATTAAAAATA
1 ATTTAAAATA
50214 CTATTATTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
15 5 0.10
16 7 0.15
17 7 0.15
18 12 0.25
19 15 0.31
20 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTTAAAATATAAAAAAT
Found at i:50191 original size:12 final size:13
Alignment explanation
Indices: 50164--50200 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
50154 TAAATATTCA
50164 AAAAATTAAATAT
1 AAAAATTAAATAT
50177 AAAAATTAAAT-T
1 AAAAATTAAATAT
*
50189 AAAAAATAAATA
1 AAAAATTAAATA
50201 CATATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAATTAAATAT
Found at i:50194 original size:14 final size:13
Alignment explanation
Indices: 50163--50200 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
50153 TTAAATATTC
50163 AAAAAATTAAATA
1 AAAAAATTAAATA
* *
50176 TAAAAATTAAATT
1 AAAAAATTAAATA
50189 AAAAAA-TAAATA
1 AAAAAATTAAATA
50201 CATATTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAAATTAAATA
Found at i:50582 original size:26 final size:27
Alignment explanation
Indices: 50527--50586 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 27
50517 CATCAAATAC
50527 AATAATAATATTGTTTATTAAAAATAAT
1 AATAATAATATTGTTTA-TAAAAATAAT
50555 AATAATAATA-T-TTTA-AAAAAT-AT
1 AATAATAATATTGTTTATAAAAATAAT
*
50578 TATAATAAT
1 AATAATAAT
50587 TTATTTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 10 0.32
24 6 0.19
26 4 0.13
27 1 0.03
28 10 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
AATAATAATATTGTTTATAAAAATAAT
Found at i:50591 original size:25 final size:25
Alignment explanation
Indices: 50527--50593 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
50517 CATCAAATAC
* *
50527 AATAATAATATTGTTTATTAAAAAT
1 AATAATAATATTATTTATAAAAAAT
*
50552 AATAATAATAATATTT-TAAAAAAT
1 AATAATAATATTATTTATAAAAAAT
50576 ATTATAATAAT-TTATTTA
1 A--ATAATAATATTATTTA
50594 ATATGATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.23
25 19 0.54
26 8 0.23
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (25 bp):
AATAATAATATTATTTATAAAAAAT
Found at i:50745 original size:9 final size:10
Alignment explanation
Indices: 50723--50775 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
50713 CTAAAATAAA
50723 ATTAATATATT
1 ATTAAT-TATT
50734 ATTAATTA-T
1 ATTAATTATT
50743 ATTAATTACTT
1 ATTAATTA-TT
*
50754 ATTAA--AAT
1 ATTAATTATT
50762 ATTAA-TATT
1 ATTAATTATT
50771 ATTAA
1 ATTAA
50776 AATATTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 6 0.16
9 17 0.46
10 2 0.05
11 12 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTAATTATT
Found at i:50745 original size:42 final size:43
Alignment explanation
Indices: 50678--50762 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
50668 ATATTTTATT
*
50678 AAATTAAAATTATTATAAACTATATTAATTATTTACTAAAATA
1 AAATTAAAATTATTATAAACTATATTAATTACTTACTAAAATA
* * * *
50721 AAATTAATA-TATTATTAATTATATTAATTACTTATTAAAATA
1 AAATTAAAATTATTATAAACTATATTAATTACTTACTAAAATA
50763 TTAATATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 29 0.78
43 8 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (43 bp):
AAATTAAAATTATTATAAACTATATTAATTACTTACTAAAATA
Found at i:50766 original size:8 final size:8
Alignment explanation
Indices: 50753--50801 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
50743 ATTAATTACT
50753 TATTAAAA
1 TATTAAAA
*
50761 TATTAATAT
1 TATTAA-AA
50770 TATTAAAA
1 TATTAAAA
50778 TATT-AAA
1 TATTAAAA
*
50785 -ATTATAA
1 TATTAAAA
50792 TATTAAAA
1 TATTAAAA
50800 TA
1 TA
50802 AAAATACTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 3 0.09
7 5 0.15
8 19 0.56
9 7 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TATTAAAA
Found at i:50774 original size:17 final size:17
Alignment explanation
Indices: 50729--50789 Score: 77
Period size: 17 Copynumber: 3.4 Consensus size: 17
50719 TAAAATTAAT
*
50729 ATATTATTAATTATATTA
1 ATATTATTAA-AATATTA
50747 ATTACTTATTAAAATATTA
1 A-TA-TTATTAAAATATTA
50766 ATATTATTAAAATATTA
1 ATATTATTAAAATATTA
*
50783 AAATTAT
1 ATATTAT
50790 AATATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 20 0.51
18 3 0.08
19 9 0.23
20 7 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTATTAAAATATTA
Found at i:50788 original size:14 final size:14
Alignment explanation
Indices: 50754--50807 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
50744 TTAATTACTT
50754 ATTAAAATATTAATA
1 ATTAAAATATTAA-A
50769 TTATTAAAATATTAAA
1 --ATTAAAATATTAAA
*
50785 ATTATAATATTAAA
1 ATTAAAATATTAAA
*
50799 ATAAAAATA
1 ATTAAAATA
50808 CTATATTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 20 0.59
16 1 0.03
17 13 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAAAATATTAAA
Found at i:50948 original size:17 final size:17
Alignment explanation
Indices: 50906--50982 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
50896 AATAATTTAT
50906 TATATATTATAA-AATA
1 TATATATTATAATAATA
* *
50922 -A-A-AATATAATATTA
1 TATATATTATAATAATA
50936 TATATATTATAATAATA
1 TATATATTATAATAATA
*
50953 TAATTATATTAATAAAAATA
1 T-A-TATATT-ATAATAATA
50973 TA-ATATTATA
1 TATATATTATA
50983 TTTCAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
13 6 0.12
14 4 0.08
15 2 0.04
16 4 0.08
17 16 0.33
18 1 0.02
19 7 0.14
20 9 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATATTATAATAATA
Found at i:50952 original size:20 final size:21
Alignment explanation
Indices: 50927--50984 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
50917 AAATAAAAAT
*
50927 ATAATATTATATATATT-ATA
1 ATAATATAATATATATTAATA
50947 ATAATATAAT-TATATTAATA
1 ATAATATAATATATATTAATA
*
50967 AAAATATAATATTATATT
1 ATAATATAATA-TATATT
50985 TCAAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 21 0.64
22 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATATAATATATATTAATA
Found at i:50961 original size:8 final size:8
Alignment explanation
Indices: 50873--50982 Score: 52
Period size: 8 Copynumber: 13.9 Consensus size: 8
50863 TTTATGAAAT
50873 TAATA-AA
1 TAATATAA
50880 TAATATTAA
1 TAATA-TAA
50889 TTTAAT-TAA
1 --TAATATAA
* *
50898 TAATTTAT
1 TAATATAA
*
50906 TATATATTA
1 TA-ATATAA
*
50915 TAAAATAA
1 TAATATAA
*
50923 AAATATAA
1 TAATATAA
*
50931 TATTATATA
1 TAATATA-A
*
50940 TATTATAA
1 TAATATAA
50948 TAATATAA
1 TAATATAA
*
50956 T--TATAT
1 TAATATAA
50962 TAATA-AA
1 TAATATAA
50969 -AATATAA
1 TAATATAA
*
50976 TATTATA
1 TAATATA
50983 TTTCAAAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
6 9 0.12
7 12 0.15
8 35 0.45
9 18 0.23
11 4 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TAATATAA
Found at i:50990 original size:20 final size:21
Alignment explanation
Indices: 50909--50992 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 21
50899 AATTTATTAT
**
50909 ATATTATAAAATAAAAATATA
1 ATATTATATTATAAAAATATA
50930 ATATTATATATATTATAATAATAT-
1 ATATTATAT-TA-TA-AA-AATATA
50954 A-ATTATATTAATAAAAATATA
1 ATATTATATT-ATAAAAATATA
50975 ATATTATATT-TCAAAAAT
1 ATATTATATTAT-AAAAAT
50993 TATCAATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
20 6 0.11
21 17 0.32
22 12 0.23
23 10 0.19
24 3 0.06
25 5 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATTATATTATAAAAATATA
Found at i:51060 original size:30 final size:28
Alignment explanation
Indices: 51011--51081 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 28
51001 AATATAATTG
**
51011 AATAATTAATATTTTTATTAAAATGATAGTAA
1 AATAA-TAATATTAATATT-AAAT-ATA-TAA
51043 AATAAT-ATATTAATATTAAATATATAA
1 AATAATAATATTAATATTAAATATATAA
51070 AATAATAATATT
1 AATAATAATATT
51082 TTGAGTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 9 0.25
28 8 0.22
29 4 0.11
30 9 0.25
31 1 0.03
32 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
AATAATAATATTAATATTAAATATATAA
Found at i:56606 original size:32 final size:31
Alignment explanation
Indices: 56568--56644 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
56558 CGAGGCTGTG
* *
56568 GGGCCTACCTAAGAACACATCTTAGGGCCGTA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
56600 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
56631 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
56645 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:61564 original size:63 final size:63
Alignment explanation
Indices: 61458--61581 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
61448 ACCTAAGGGA
* * ** *
61458 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
61521 ACATCTTAGGGCCAT-AGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCC-TGAGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
61582 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:63748 original size:2 final size:2
Alignment explanation
Indices: 63741--63788 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
63731 GATGATATGA
*
63741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT -T AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63780 AT A- AT AT AT
1 AT AT AT AT AT
63789 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 36 0.90
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64096 original size:15 final size:16
Alignment explanation
Indices: 64070--64099 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64060 TTAATATTTT
64070 TATAATTATTTTTTAA
1 TATAATTATTTTTTAA
64086 TATAA-TATTTTTTA
1 TATAATTATTTTTTA
64100 TATTTTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTATTTTTTAA
Found at i:64102 original size:14 final size:14
Alignment explanation
Indices: 64061--64102 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
64051 TTTTTATTTT
64061 TAATA-TTTTTATA
1 TAATATTTTTTATA
*
64074 -ATTATTTTTTAATA
1 TAATATTTTTT-ATA
64088 TAATATTTTTTATA
1 TAATATTTTTTATA
64102 T
1 T
64103 TTTAACTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 3 0.12
13 5 0.21
14 7 0.29
15 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TAATATTTTTTATA
Found at i:65050 original size:54 final size:54
Alignment explanation
Indices: 64965--65340 Score: 590
Period size: 54 Copynumber: 6.9 Consensus size: 54
64955 TATTCATCAT
*
64965 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCATGTACGG
1 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACGG
* *
65019 TTATTCATCAACTCATGATGATTTCCATGAAATGCACACTTAGTGCCTGTACGG
1 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACGG
* ** * *
65073 TTATTCATCAACTCATGATGAATTCTGTGAAACACACACTTAGTGCATGTATGG
1 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACGG
* * *
65127 TTATTCATCAACTCATGATGAATTCCGTGAAACGCACACTTAGTGCTTGTACGA
1 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACGG
* * *
65181 TTATTCATCAACTCATGATGAATTCTGTGAAACGCACACTTAGTGCCTTTACGG
1 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACGG
65235 TTATTCATCAACTCATGATGAATTCCGGCCGTGAAATGCACACTTAGTGCCTGTACGG
1 TTATTCATCAACTCATGATGAATT----CCGTGAAATGCACACTTAGTGCCTGTACGG
65293 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCT
1 TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCT
65341 ATTTGGTAAT
Statistics
Matches: 296, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
54 245 0.83
58 51 0.17
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (54 bp):
TTATTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACGG
Found at i:68534 original size:105 final size:105
Alignment explanation
Indices: 68352--68558 Score: 360
Period size: 105 Copynumber: 2.0 Consensus size: 105
68342 CTTAACTCGC
* * *
68352 TGAAAATTTTGTTGAAAAATATTATATTATAAATCTAACGTTGTTGTTTTCTACCGGTCGATTTA
1 TGAAAAATTCGTTGAAAAATATTATATTACAAATCTAACGTTGTTGTTTTCTACCGGTCGATTTA
*
68417 CCATCGTCTAATAATCACCCAACAATCGTTTAACAGTGGG
66 CCATCGTCTAATAATCACCCAACAATCGTTCAACAGTGGG
* *
68457 TGAAAAATTCGTTGAAAAATATTATATTACAAATCTAACGTTGTTGTTTTCTATCGGTCGGTTTA
1 TGAAAAATTCGTTGAAAAATATTATATTACAAATCTAACGTTGTTGTTTTCTACCGGTCGATTTA
68522 CCATCGTCTAATAATCACCCAACAATCGTTCAACAGT
66 CCATCGTCTAATAATCACCCAACAATCGTTCAACAGT
68559 CGAACGTCCA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (105 bp):
TGAAAAATTCGTTGAAAAATATTATATTACAAATCTAACGTTGTTGTTTTCTACCGGTCGATTTA
CCATCGTCTAATAATCACCCAACAATCGTTCAACAGTGGG
Found at i:84343 original size:68 final size:68
Alignment explanation
Indices: 84222--84368 Score: 163
Period size: 68 Copynumber: 2.2 Consensus size: 68
84212 GGTAAGGACC
* * *
84222 CCATCTTGTTTACTATTTTGAGTTCATCTATGGAGGTTAACTCGAACTCCTCTTC-GGAGGGTTA
1 CCATCATGTTTACTATTTTGAGTTCATCTATCGAGGTTAACTCGAACTCCTCTTCAGGA-GATTA
84286 GTCT
65 GTCT
* * * ** *
84290 CCATCATGTTTACTGTTTTGAGTTCCTCTA-CGATGGTTAATTCGGGCTTCTCTTCAGGAGATTA
1 CCATCATGTTTACTATTTTGAGTTCATCTATCGA-GGTTAACTCGAACTCCTCTTCAGGAGATTA
*
84354 GTTT
65 GTCT
*
84358 TCATCATGTTT
1 CCATCATGTTT
84369 TTTTTCTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
67 2 0.03
68 61 0.92
69 3 0.05
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (68 bp):
CCATCATGTTTACTATTTTGAGTTCATCTATCGAGGTTAACTCGAACTCCTCTTCAGGAGATTAG
TCT
Found at i:88900 original size:60 final size:60
Alignment explanation
Indices: 88816--89004 Score: 193
Period size: 60 Copynumber: 3.1 Consensus size: 60
88806 CACATTTTCT
* * * * * **
88816 CAAAAGTATGACTTTTATTTTAAATTGGTCATTAAATTTTTAAATATTTTAATTTTATCC
1 CAAAACTATGACTATTATTCTAAATTGGTCATTAAATTTTTGAATATTTCAATTCCATCC
** * *
88876 CTAAAA-TATGACTATTATTCTAAATTAATCTTTAAACTTTTGAATATTTCAATTCCATCC
1 C-AAAACTATGACTATTATTCTAAATTGGTCATTAAATTTTTGAATATTTCAATTCCATCC
* * ** * *
88936 CAAAACTATGACCATCATTCTAAATTGGTCCCTAAACTTTTTGAATATTCCAATTTCATCC
1 CAAAACTATGACTATTATTCTAAATTGGTCATTAAA-TTTTTGAATATTTCAATTCCATCC
88997 C-AAACTAT
1 CAAAACTAT
89005 ACATATATAC
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
59 4 0.04
60 77 0.72
61 26 0.24
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.42
Consensus pattern (60 bp):
CAAAACTATGACTATTATTCTAAATTGGTCATTAAATTTTTGAATATTTCAATTCCATCC
Found at i:89232 original size:58 final size:60
Alignment explanation
Indices: 89136--89283 Score: 174
Period size: 59 Copynumber: 2.5 Consensus size: 60
89126 AAATTTGGGG
* ** * *
89136 ATGAAATTGGAACATTCAAAAGTTTTGGGAATAATTTAGAA-AGAGGGCATAGTTTAGGA
1 ATGAAATTGGAATATTCAAAAGTTTAAGGAATAATTTAGAATAAAAGGCATAGTTTAGGA
* * * *
89195 ATGAAATTAGAATATTC-AAAGTTTAAGGATTAATTTAGAATAAAAGTCATATTTTAGGA
1 ATGAAATTGGAATATTCAAAAGTTTAAGGAATAATTTAGAATAAAAGGCATAGTTTAGGA
* * *
89254 ATGAAATTGGAATGTTTAAAAATTTAAGGA
1 ATGAAATTGGAATATTCAAAAGTTTAAGGA
89284 CCAATTTGAA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
58 20 0.27
59 43 0.58
60 11 0.15
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.32
Consensus pattern (60 bp):
ATGAAATTGGAATATTCAAAAGTTTAAGGAATAATTTAGAATAAAAGGCATAGTTTAGGA
Found at i:89880 original size:23 final size:23
Alignment explanation
Indices: 89853--89921 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
89843 GTATTTAATT
89853 GTGTTCGTGAACATATTCATTTA
1 GTGTTCGTGAACATATTCATTTA
* *
89876 GTGTTCGTGAACATGTTAATTTA
1 GTGTTCGTGAACATATTCATTTA
* * *
89899 ATGTTCGTGAATATATTCGTTTA
1 GTGTTCGTGAACATATTCATTTA
89922 TATGTTTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (23 bp):
GTGTTCGTGAACATATTCATTTA
Found at i:89948 original size:47 final size:46
Alignment explanation
Indices: 89854--89962 Score: 128
Period size: 47 Copynumber: 2.3 Consensus size: 46
89844 TATTTAATTG
* *
89854 TGTTCGTGAACATATTCATTTAGTGTTCGTGAACATGTTAATTTAA
1 TGTTCGTGAACATATTCATTTAATGTTCGTCAACATGTTAATTTAA
* * ** *
89900 TGTTCGTGAATATATTCGTTTATATGTTTTTCAACATGTTTATTTAA
1 TGTTCGTGAACATATTCATTTA-ATGTTCGTCAACATGTTAATTTAA
**
89947 TGTTCACGAACATATT
1 TGTTCGTGAACATATT
89963 TATAAAAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
46 20 0.38
47 32 0.62
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.47
Consensus pattern (46 bp):
TGTTCGTGAACATATTCATTTAATGTTCGTCAACATGTTAATTTAA
Found at i:93049 original size:21 final size:22
Alignment explanation
Indices: 93025--93068 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
93015 AAACATTTTC
93025 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
93046 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
93068 T
1 T
93069 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:93295 original size:2 final size:2
Alignment explanation
Indices: 93288--93327 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
93278 ATTATTTAAA
93288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93328 TTATGTGACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93357 original size:17 final size:17
Alignment explanation
Indices: 93337--93370 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
93327 TTTATGTGAC
93337 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
93354 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
93371 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:93395 original size:16 final size:16
Alignment explanation
Indices: 93376--93408 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93366 AATAACAAAT
93376 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
93392 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
93408 T
1 T
93409 TTAAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:94653 original size:3 final size:3
Alignment explanation
Indices: 94645--94696 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
94635 TAAAATTATT
* * * * *
94645 TAA TAA TAA TAA TAA -AA TAA TTA TAA TAA TTA TTA TTA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94692 TAA TA
1 TAA TA
94697 GAACCGGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:95313 original size:113 final size:113
Alignment explanation
Indices: 95001--95442 Score: 587
Period size: 113 Copynumber: 4.0 Consensus size: 113
94991 AAATTAAGGC
*
95001 AAGGTTGAACAAATTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * ** * *
95062 TGAACTTTCTATGGGAATGTTAATCCACCGGGTGAT-GAATTAAAGCAA
66 TGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGGATTTGAA-CAA
* * * *
95110 ACGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
95174 TGAACTTCCTCTGGAAAAGTTAATCCATCAAGTGATGGATTTGAACAA
66 TGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGGATTTGAACAA
* *
95222 AAGGTTGAACAAGCTCTTATCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
95287 TGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGA-AA
66 TGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGGATTTGA-ACAA
* *
95335 AAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
95400 TGAACTTTCTCTGGAAATGTTGATCCAT--TGTGATGGATTTGAA
66 TGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGGATTTGAA
95443 TCTTTGCTAA
Statistics
Matches: 299, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
109 28 0.09
110 1 0.00
111 13 0.04
112 96 0.32
113 160 0.54
114 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (113 bp):
AAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGGATTTGAACAA
Found at i:95343 original size:225 final size:220
Alignment explanation
Indices: 95001--95442 Score: 591
Period size: 225 Copynumber: 2.0 Consensus size: 220
94991 AAATTAAGGC
* *
95001 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 AAGGTTGAACAAACTCTTATCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * ** * * *
95066 CTTTCTATGGGAATGTTAATCCACCGGGTGATGAATTAAAGCAAACGGTTGAACAAATTCTTCTC
66 CTTTATATGGAAAAGCTAATCCACCAAGTGATGAATTAAAGAAAAAGGTTGAACAAACTCTTCTC
95131 ATTATGAA-TTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGT
131 ATTATGAACTTT-TTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGT
95194 TAATCCATCAAGTGATGGATTTGAACAA
195 TAATCCAT--AGTGATGGATTTGAACAA
*
95222 AAGGTTGAACAAGCTCTTATCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAACTCTTATCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTA
* * * * ** *
95287 TGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGAAAAAGGTTGAACAAGCTCT
62 TGAACTTTATATGGAAAAGCTAATCCACCAAGTGATGAATTAAAGAAAAAGGTTGAACAAACTCT
* *
95352 TCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
127 TCTCATTATGAACTTTTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTCCTCTGGAAA
* * *
95417 TGTTGATCCATTGTGATGGATTTGAA
192 AGTTAATCCATAGTGATGGATTTGAA
95443 TCTTTGCTAA
Statistics
Matches: 191, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
221 26 0.14
224 20 0.10
225 94 0.49
226 51 0.27
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (220 bp):
AAGGTTGAACAAACTCTTATCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTATATGGAAAAGCTAATCCACCAAGTGATGAATTAAAGAAAAAGGTTGAACAAACTCTTCTC
ATTATGAACTTTTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGTT
AATCCATAGTGATGGATTTGAACAA
Found at i:95862 original size:22 final size:22
Alignment explanation
Indices: 95837--95889 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
95827 TAAAGCTTTT
*
95837 ATCTTTGAAAAGAGAATCTGTC
1 ATCTTTGAAAAGAGAATCTATC
* *
95859 ATCTTTAAAAAGGGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
95881 ATCTTTGAA
1 ATCTTTGAA
95890 GAGTGTAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:96340 original size:54 final size:54
Alignment explanation
Indices: 96258--96413 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 54
96248 AGAATTGCAG
* * * *
96258 GTTCGTAAAACATTTGGCAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
* *
96312 GTTCGTAAAACACTTGACAACACATTCATCCTTTCCTGTAGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
* *
96366 GTTCGTAAAATATTTGACAACACATTCATCCTTTCCTATGGTTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGC
96414 CAAGATTTCT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
Found at i:98731 original size:114 final size:114
Alignment explanation
Indices: 98531--98750 Score: 359
Period size: 114 Copynumber: 1.9 Consensus size: 114
98521 GATCATGCAG
* * *
98531 TTCATCTTTCAATTCCAATGATTGGTTTTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
98596 ACACTTCCAGAAGATGCTATTGGGTTTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATGAGCAAA
* * *
98645 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCATATAAGTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
98710 ACACTTCTAGAAGATGCTATTGGATCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTA
98751 CGAGAATGTG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATGAGCAAA
Found at i:103039 original size:14 final size:14
Alignment explanation
Indices: 103022--103068 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
103012 GTAATTATGG
103022 AAATATGCAAATGT
1 AAATATGCAAATGT
**
103036 AAATA--CAAACAT
1 AAATATGCAAATGT
*
103048 AAAAATGCAAATGT
1 AAATATGCAAATGT
103062 AAATATG
1 AAATATG
103069 TGAATGCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
12 9 0.36
14 16 0.64
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (14 bp):
AAATATGCAAATGT
Found at i:103152 original size:7 final size:7
Alignment explanation
Indices: 103118--103159 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
103108 ATAAGAGTAT
103118 AAATGCA
1 AAATGCA
* *
103125 CAATGAA
1 AAATGCA
103132 AAATGCA
1 AAATGCA
103139 AAGATGCA
1 AA-ATGCA
103147 AAATGC-
1 AAATGCA
103153 AAATGCA
1 AAATGCA
103160 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:105289 original size:21 final size:22
Alignment explanation
Indices: 105265--105308 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
105255 AAACATTTTC
105265 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
105286 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
105308 T
1 T
105309 ATTTAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:105447 original size:41 final size:41
Alignment explanation
Indices: 105371--105456 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
105361 TTGATATTAA
105371 TAAATAAAAATAAATATTAAAATTTTAATAATTTAATAATT
1 TAAATAAAAATAAATATTAAAATTTTAATAATTTAATAATT
* * * *
105412 TAAATAAAACT-AA-ATTATAATTTTTATAATGTTTAATTATT
1 TAAATAAAAATAAATATTAAAATTTTAATAA--TTTAATAATT
105453 TAAA
1 TAAA
105457 ATACCAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 14 0.36
40 2 0.05
41 23 0.59
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (41 bp):
TAAATAAAAATAAATATTAAAATTTTAATAATTTAATAATT
Found at i:105541 original size:2 final size:2
Alignment explanation
Indices: 105534--105559 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105524 TTATTATTTA
105534 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
105560 TTATGTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105589 original size:17 final size:17
Alignment explanation
Indices: 105569--105602 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
105559 TTTATGTGAC
105569 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
105586 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
105603 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:105627 original size:16 final size:16
Alignment explanation
Indices: 105608--105640 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
105598 AATAACAAAT
105608 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
105624 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
105640 T
1 T
105641 TTAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:108203 original size:23 final size:23
Alignment explanation
Indices: 108180--108236 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
108170 CTGTAAAATA
*
108180 AATAAAATTATT-TAATAATAAT
1 AATAAAATAATTATAATAATAAT
* *
108202 AATAAAATAATTATAATTATTAT
1 AATAAAATAATTATAATAATAAT
108225 AATAAAAATAAT
1 AAT-AAAATAAT
108237 AGAACCGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 11 0.37
23 11 0.37
24 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AATAAAATAATTATAATAATAAT
Found at i:108540 original size:2 final size:2
Alignment explanation
Indices: 108533--108567 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
108523 TAATGCATAC
108533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108568 CACGTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112300 original size:9 final size:9
Alignment explanation
Indices: 112288--112346 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
112278 CCTCCACCAG
*
112288 CACCGCCTC
1 CACCACCTC
*
112297 CACCACCTA
1 CACCACCTC
112306 CACCACCTC
1 CACCACCTC
*
112315 CAAAGCCACCAC
1 C--A-CCACCTC
*
112327 CACCACCTG
1 CACCACCTC
112336 CACCACCTC
1 CACCACCTC
112345 CA
1 CA
112347 TGTCCTCCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 31 0.77
10 1 0.03
11 1 0.03
12 7 0.17
ACGTcount: A:0.27, C:0.59, G:0.05, T:0.08
Consensus pattern (9 bp):
CACCACCTC
Found at i:112425 original size:36 final size:36
Alignment explanation
Indices: 112325--112429 Score: 111
Period size: 36 Copynumber: 2.9 Consensus size: 36
112315 CAAAGCCACC
* * *
112325 ACCACCACCTGCACCACCTCCATGTCCTCCACCTAC
1 ACCACCACCAGCACCACCTCCATGTCCTCCACCAAA
** * * * * *
112361 ACCACCACCAATACCTCCACCTTTTCCTCCTCCAAA
1 ACCACCACCAGCACCACCTCCATGTCCTCCACCAAA
*
112397 ACCACCGCCAGCACCACCTCCATGTCCTCCACC
1 ACCACCACCAGCACCACCTCCATGTCCTCCACC
112430 TATGCCGCCT
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.24, C:0.54, G:0.05, T:0.17
Consensus pattern (36 bp):
ACCACCACCAGCACCACCTCCATGTCCTCCACCAAA
Found at i:112461 original size:54 final size:54
Alignment explanation
Indices: 112398--112539 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
112388 TCCTCCAAAA
* *
112398 CCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCGCTG
1 CCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCG
112452 CCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCG
1 CCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCG
* *
112506 CCACCACCTGCACCACCTCCATGTCCTCCACCTA
1 CCACCGCCAGCACCACCTCCATGTCCTCCACCTA
112540 CACCACCACC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.20, C:0.54, G:0.12, T:0.15
Consensus pattern (54 bp):
CCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCG
Found at i:112591 original size:48 final size:48
Alignment explanation
Indices: 112539--112659 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
112529 TCCTCCACCT
* * *
112539 ACACCACCACCAATG-CCTCCACC-ATTTCCTCCTCCAAAACCACCGCCA
1 ACACCACCTCC-ATGTCCTCCACCTA-TGCCGCCTCCAAAACCACCGCCA
* *
112587 ACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCT
1 ACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAACCACCGCCA
*
112635 GCACCACCTCCATGTCCTCCACCTA
1 ACACCACCTCCATGTCCTCCACCTA
112660 CACCACCACC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 3 0.05
48 61 0.94
49 1 0.02
ACGTcount: A:0.24, C:0.52, G:0.07, T:0.17
Consensus pattern (48 bp):
ACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAACCACCGCCA
Found at i:112598 original size:180 final size:174
Alignment explanation
Indices: 112311--112659 Score: 599
Period size: 180 Copynumber: 2.0 Consensus size: 174
112301 ACCTACACCA
112311 CCTCCAAAGCCACCACCACCACCTGCACCACCTCCATGTCCTCCACCTACACCACCACCAATACC
1 CCTCCAAAGCCACCACCACCACCTGCACCACCTCCATGTCCTCCACCTACACCACCACCAATACC
* *
112376 TCCACCTTTTCCTCCTCCAAAACCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCGCCTC
66 TCCACCATTTCCTCCTCCAAAACCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTC
112441 CAAAGCCGCTGCCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCG
131 CAAA------GCCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCG
* *
112491 CCTCCAAAGCCACCGCCACCACCTGCACCACCTCCATGTCCTCCACCTACACCACCACCAATGCC
1 CCTCCAAAGCCACCACCACCACCTGCACCACCTCCATGTCCTCCACCTACACCACCACCAATACC
112556 TCCACCATTTCCTCCTCCAAAACCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTC
66 TCCACCATTTCCTCCTCCAAAACCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTC
*
112621 CAAAGCCACCGCCTGCACCACCTCCATGTCCTCCACCTA
131 CAAAGCCACCGCCAGCACCACCTCCATGTCCTCCACCTA
112660 CACCACCACC
Statistics
Matches: 164, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
174 34 0.21
180 130 0.79
ACGTcount: A:0.23, C:0.53, G:0.08, T:0.16
Consensus pattern (174 bp):
CCTCCAAAGCCACCACCACCACCTGCACCACCTCCATGTCCTCCACCTACACCACCACCAATACC
TCCACCATTTCCTCCTCCAAAACCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTC
CAAAGCCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCG
Found at i:112645 original size:72 final size:71
Alignment explanation
Indices: 112506--112718 Score: 167
Period size: 72 Copynumber: 3.0 Consensus size: 71
112496 AAAGCCACCG
** * * * * * ** *
112506 CCACCACCTGCACCACCTCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCATTTCCTCC
1 CCACCACCAACACCACCTCCATGTCCTCCACCTATACCACCTCCAAAGCCACCGCC-TCACCACC
112571 TCCAAAA
65 TCCAAAA
* * *
112578 CCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACC
1 CCACCACCAACACCACCTCCATGTCCTCCACCTATACCACCTCCAAAGCCACCGCCT-CACCACC
***
112643 TCCATGT
65 TCCAAAA
* * * * * * * *
112650 CCTCCACCTACACCACCACCAATG-CCTCCACCTTTTCCTCCTCCAAAACCACCGCCAACACCAC
1 CCACCACCAACACCACCTCC-ATGTCCTCCACCTATACCACCTCCAAAGCCACCGCC-TCACCAC
112714 CTCCA
64 CTCCA
112719 TGTCCTCCAC
Statistics
Matches: 113, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
71 1 0.01
72 109 0.96
73 3 0.03
ACGTcount: A:0.24, C:0.54, G:0.06, T:0.16
Consensus pattern (71 bp):
CCACCACCAACACCACCTCCATGTCCTCCACCTATACCACCTCCAAAGCCACCGCCTCACCACCT
CCAAAA
Found at i:112664 original size:120 final size:120
Alignment explanation
Indices: 112452--112851 Score: 719
Period size: 120 Copynumber: 3.3 Consensus size: 120
112442 AAAGCCGCTG
*
112452 CCACCGCCAGCACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCACCACCTGC
1 CCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCG------CCTGC
*
112517 ACCACCTCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCATTTCCTCCTCCAAAA
60 ACCACCTCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCTTTTCCTCCTCCAAAA
112578 CCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACC
1 CCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACC
112643 TCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCTTTTCCTCCTCCAAAA
66 TCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCTTTTCCTCCTCCAAAA
112698 CCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACC
1 CCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACC
112763 TCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCTTTTCCTCCTCCAAAA
66 TCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCTTTTCCTCCTCCAAAA
*
112818 CCACCGCCAGCACCACCTCCATGTCCTCCACCTA
1 CCACCGCCAACACCACCTCCATGTCCTCCACCTA
112852 CACCACCACC
Statistics
Matches: 271, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
120 218 0.80
126 53 0.20
ACGTcount: A:0.23, C:0.53, G:0.08, T:0.17
Consensus pattern (120 bp):
CCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACC
TCCATGTCCTCCACCTACACCACCACCAATGCCTCCACCTTTTCCTCCTCCAAAA
Found at i:112693 original size:48 final size:48
Alignment explanation
Indices: 112637--112984 Score: 193
Period size: 48 Copynumber: 7.1 Consensus size: 48
112627 CACCGCCTGC
* *
112637 ACCACCTCC-ATGTCCTCCACCTACACCACCACCAATG-CCTCCACCTTT
1 ACCACCTCCAATG-CCTCCACCTACACCACCTCC-ATGTCCTCCACCTAT
* * ** * * *
112685 TCCTCCTCCAAAACCACCGCCAACACCACCTCCATGTCCTCCACCTAT
1 ACCACCTCCAATGCCTCCACCTACACCACCTCCATGTCCTCCACCTAT
* * * * * * *
112733 GCCGCCTCCAAAGCCACCGCCTGCACCACCTCCATGTCCTCCACCTAC
1 ACCACCTCCAATGCCTCCACCTACACCACCTCCATGTCCTCCACCTAT
* *** * *** * * *
112781 ACCACCACCAATGCCTCCACCTTTTCCTCCTCCAAAACCACCGCC-AGC
1 ACCACCTCCAATGCCTCCACCTACACCACCTCCATGTCCTCCACCTA-T
* * *
112829 ACCACCTCC-ATGTCCTCCACCTACACCACCACCAAT-ACCTCCACCTTT
1 ACCACCTCCAATG-CCTCCACCTACACCACCTCC-ATGTCCTCCACCTAT
* * * * * *
112877 TCCTCCTCCAATACCTCCACCAACTCCACCTCCATGTCCTCCACCTAC
1 ACCACCTCCAATGCCTCCACCTACACCACCTCCATGTCCTCCACCTAT
* * * * *
112925 ACCACCACCAATACCTCCTCCACCACCTGCACCACCTCCGTGTCCTCCACCTAC
1 ACCACCTCCAAT---GCCT---CCACCTACACCACCTCCATGTCCTCCACCTAT
112979 ACCACC
1 ACCACC
112985 GCCAGCTCCG
Statistics
Matches: 228, Mismatches: 58, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
47 9 0.04
48 178 0.78
49 4 0.02
51 3 0.01
54 34 0.15
ACGTcount: A:0.23, C:0.53, G:0.05, T:0.18
Consensus pattern (48 bp):
ACCACCTCCAATGCCTCCACCTACACCACCTCCATGTCCTCCACCTAT
Found at i:112719 original size:72 final size:72
Alignment explanation
Indices: 112587--112731 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 72
112577 ACCACCGCCA
* * **
112587 ACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACCTCCATGTCC
1 ACACCACCACCATGTCCTCCACCTATGCCGCCTCCAAAACCACCGCCAACACCACCTCCATGTCC
112652 TCCACCT
66 TCCACCT
* * *
112659 ACACCACCACCAATG-CCTCCACCTTTTCCTCCTCCAAAACCACCGCCAACACCACCTCCATGTC
1 ACACCACCACC-ATGTCCTCCACCTATGCCGCCTCCAAAACCACCGCCAACACCACCTCCATGTC
112723 CTCCACCT
65 CTCCACCT
112731 A
1 A
112732 TGCCGCCTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 62 0.95
73 3 0.05
ACGTcount: A:0.23, C:0.52, G:0.07, T:0.18
Consensus pattern (72 bp):
ACACCACCACCATGTCCTCCACCTATGCCGCCTCCAAAACCACCGCCAACACCACCTCCATGTCC
TCCACCT
Found at i:112765 original size:72 final size:72
Alignment explanation
Indices: 112617--112838 Score: 203
Period size: 72 Copynumber: 3.1 Consensus size: 72
112607 ACCTATGCCG
* * * * * * *
112617 CCTCCAAAGCCACCGCCTGCACCACCTCCATGTCCTCCACCTACACCACCACCAATGCCTCCACC
1 CCTCCAAAACCACCGCCTACACCACCTCCATGTCCTCCACCTATACCACCTCCAAAGCCACCGCC
*** *
112682 TTTTCCT
66 TGCACCA
* * *
112689 CCTCCAAAACCACCGCCAACACCACCTCCATGTCCTCCACCTATGCCGCCTCCAAAGCCACCGCC
1 CCTCCAAAACCACCGCCTACACCACCTCCATGTCCTCCACCTATACCACCTCCAAAGCCACCGCC
112754 TGCACCA
66 TGCACCA
*** * * * * * * *
112761 CCTCCATGTCCTCCACCTACACCACCACCAATG-CCTCCACCTTTTCCTCCTCCAAAACCACCGC
1 CCTCCAAAACCACCGCCTACACCACCTCC-ATGTCCTCCACCTATACCACCTCCAAAGCCACCGC
*
112825 CAGCACCA
65 CTGCACCA
112833 CCTCCA
1 CCTCCA
112839 TGTCCTCCAC
Statistics
Matches: 123, Mismatches: 26, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
72 120 0.98
73 3 0.02
ACGTcount: A:0.23, C:0.53, G:0.07, T:0.17
Consensus pattern (72 bp):
CCTCCAAAACCACCGCCTACACCACCTCCATGTCCTCCACCTATACCACCTCCAAAGCCACCGCC
TGCACCA
Found at i:112839 original size:72 final size:72
Alignment explanation
Indices: 112722--112942 Score: 343
Period size: 72 Copynumber: 3.1 Consensus size: 72
112712 ACCTCCATGT
* * * * *
112722 CCTCCACCTATGCCGCCTCCAAAGCCACCGCCTGCACCACCTCCATGTCCTCCACCTACACCACC
1 CCTCCACCTTTTCCTCCTCCAAAACCACCGCCAGCACCACCTCCATGTCCTCCACCTACACCACC
*
112787 ACCAATG
66 ACCAATA
112794 CCTCCACCTTTTCCTCCTCCAAAACCACCGCCAGCACCACCTCCATGTCCTCCACCTACACCACC
1 CCTCCACCTTTTCCTCCTCCAAAACCACCGCCAGCACCACCTCCATGTCCTCCACCTACACCACC
112859 ACCAATA
66 ACCAATA
* * * * *
112866 CCTCCACCTTTTCCTCCTCCAATACCTCCACCAACTCCACCTCCATGTCCTCCACCTACACCACC
1 CCTCCACCTTTTCCTCCTCCAAAACCACCGCCAGCACCACCTCCATGTCCTCCACCTACACCACC
112931 ACCAATA
66 ACCAATA
112938 CCTCC
1 CCTCC
112943 TCCACCACCT
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.23, C:0.53, G:0.05, T:0.19
Consensus pattern (72 bp):
CCTCCACCTTTTCCTCCTCCAAAACCACCGCCAGCACCACCTCCATGTCCTCCACCTACACCACC
ACCAATA
Found at i:112872 original size:12 final size:12
Alignment explanation
Indices: 112842--112899 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
112832 ACCTCCATGT
* *
112842 CCTCCACCTACA
1 CCTCCACCAATA
*
112854 CCACCACCAATA
1 CCTCCACCAATA
** *
112866 CCTCCACCTTTT
1 CCTCCACCAATA
*
112878 CCTCCTCCAATA
1 CCTCCACCAATA
112890 CCTCCACCAA
1 CCTCCACCAA
112900 CTCCACCTCC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.26, C:0.53, G:0.00, T:0.21
Consensus pattern (12 bp):
CCTCCACCAATA
Found at i:113073 original size:18 final size:18
Alignment explanation
Indices: 113052--113086 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
113042 ACCACCGATT
113052 CCACCTCCAAAACCACCA
1 CCACCTCCAAAACCACCA
*
113070 CCACCTCCAACACCACC
1 CCACCTCCAAAACCACC
113087 GCCAGCCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.60, G:0.00, T:0.06
Consensus pattern (18 bp):
CCACCTCCAAAACCACCA
Found at i:113078 original size:24 final size:24
Alignment explanation
Indices: 113025--113071 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
113015 ACCTTTTCCA
*
113025 ACTCCACCTCCAACACCACCACCG
1 ACTCCACCTCCAAAACCACCACCG
*
113049 ATTCCACCTCCAAAACCACCACC
1 ACTCCACCTCCAAAACCACCACC
113072 ACCTCCAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.55, G:0.02, T:0.11
Consensus pattern (24 bp):
ACTCCACCTCCAAAACCACCACCG
Found at i:113081 original size:42 final size:42
Alignment explanation
Indices: 113028--113113 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
113018 TTTTCCAACT
**
113028 CCACCTCCAACACCACCACC-GATTCCACCTCCAAAACCACCA
1 CCACCTCCAACACCACCACCAG-CCCCACCTCCAAAACCACCA
* *
113070 CCACCTCCAACACCACCGCCAGCCCCACCTCCAAAACCTCCA
1 CCACCTCCAACACCACCACCAGCCCCACCTCCAAAACCACCA
113112 CC
1 CC
113114 TAAACCACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.30, C:0.58, G:0.03, T:0.08
Consensus pattern (42 bp):
CCACCTCCAACACCACCACCAGCCCCACCTCCAAAACCACCA
Found at i:114466 original size:2 final size:2
Alignment explanation
Indices: 114459--114486 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
114449 GGTAGTTTTA
114459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114487 GTTTAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115448 original size:29 final size:29
Alignment explanation
Indices: 115416--115482 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
115406 TAAATATATA
115416 ATTTTATAATATAAATCAAAATTTATTTG
1 ATTTTATAATATAAATCAAAATTTATTTG
115445 ATTTTATAATATAAATCAAAATTTATTTG
1 ATTTTATAATATAAATCAAAATTTATTTG
115474 ATTTATATA
1 ATTT-TATA
115483 TCAAATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 33 0.89
30 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (29 bp):
ATTTTATAATATAAATCAAAATTTATTTG
Found at i:115480 original size:23 final size:26
Alignment explanation
Indices: 115419--115494 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 26
115409 ATATATAATT
115419 TTATAATATAAATCAAAATTTATTTGA
1 TTAT-ATATAAATCAAAATTTATTTGA
115446 TTTTATAATATAAATCAAAATTTATTTGA
1 --TTAT-ATATAAATCAAAATTTATTTGA
115475 TT-TATAT--ATCAAATATTTAT
1 TTATATATAAATCAAA-ATTTAT
115495 ATAAAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.13
24 6 0.13
25 4 0.09
26 1 0.02
27 2 0.04
29 27 0.59
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (26 bp):
TTATATATAAATCAAAATTTATTTGA
Found at i:120864 original size:7 final size:8
Alignment explanation
Indices: 120849--120873 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
120839 TGTCACAATA
120849 TTAATTTT
1 TTAATTTT
120857 TTAATTTT
1 TTAATTTT
120865 TTAATTTT
1 TTAATTTT
120873 T
1 T
120874 CTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTAATTTT
Found at i:120951 original size:5 final size:5
Alignment explanation
Indices: 120929--120982 Score: 81
Period size: 5 Copynumber: 10.4 Consensus size: 5
120919 AACTCAAACT
*
120929 CCCTC TCCTC TCCCTC CCCTC CCCTTC CCCTC CCCTC CCCTC CCCTC CCCTC
1 CCCTC CCCTC -CCCTC CCCTC CCC-TC CCCTC CCCTC CCCTC CCCTC CCCTC
120981 CC
1 CC
120983 TTATTTCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 36 0.80
6 9 0.20
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (5 bp):
CCCTC
Found at i:122400 original size:22 final size:20
Alignment explanation
Indices: 122371--122411 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
122361 TACATATATG
*
122371 CATCATTTTTGTGTTGGTAAT
1 CATCATTTTGGTG-TGGTAAT
122392 CATCTATTTTGGTGTGGTAA
1 CATC-ATTTTGGTGTGGTAA
122412 CGAGTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.49
Consensus pattern (20 bp):
CATCATTTTGGTGTGGTAAT
Found at i:126357 original size:52 final size:52
Alignment explanation
Indices: 126279--126387 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
126269 TCTTCAAAAA
*
126279 ATTAATATTAGATTTAAAATCTATCAAAAATAATTTTAATATTAAACATGAT
1 ATTAATATTAGATCTAAAATCTATCAAAAATAATTTTAATATTAAACATGAT
* * *
126331 ATTAATATTAGCTCTAAAATGTATCAAAAATAATTTTAATATTAAATATGAT
1 ATTAATATTAGATCTAAAATCTATCAAAAATAATTTTAATATTAAACATGAT
126383 ATTAA
1 ATTAA
126388 AAGGTTATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.40
Consensus pattern (52 bp):
ATTAATATTAGATCTAAAATCTATCAAAAATAATTTTAATATTAAACATGAT
Found at i:130439 original size:23 final size:23
Alignment explanation
Indices: 130413--130460 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
130403 ATAAAGTATA
* *
130413 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCACTTAT
**
130436 ATAATGTAATAGGTAGCACTTAT
1 ATAACATAATAGGTAGCACTTAT
130459 AT
1 AT
130461 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:130971 original size:23 final size:23
Alignment explanation
Indices: 130936--131008 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
130926 ATACTTTACA
*
130936 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
130959 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
130982 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
131005 ATAT
1 ATAT
131009 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:131403 original size:23 final size:23
Alignment explanation
Indices: 131377--131439 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
131367 ATATAACCAC
131377 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
131400 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
131423 TACCTATTACATCATAT
1 TACCTATTACATTATAT
131440 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:131811 original size:426 final size:428
Alignment explanation
Indices: 130775--132071 Score: 2339
Period size: 431 Copynumber: 3.0 Consensus size: 428
130765 TATTGTTTTT
* *
130775 AATTTAATATTAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
1 AATTTAACAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
* *
130840 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGG
66 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATAG
* * * *
130905 ACATTTTTATAAAAATGATATATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCT
131 ACACTTTTATAAAAAAGATAGATACTTTACAATATAA-CACTACCTATTACATTATATAAACGAT
130970 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCC
195 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCC
131035 ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
260 ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTT
131100 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
324 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
*
131165 TGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTT
389 TGATTGTTTTGATATTTTATAAAATATTATTTAGAA-TTTA
* * *
131206 TATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCATATAATTACTAAATT
1 AATTTAACAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
131271 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATAG
66 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATAG
131336 ACACTTTTATAAAAAAGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGAT
131 ACACTTTTATAAAAAAGATAGATACTTTACAATATAA-CACTACCTATTACATTATATAAACGAT
131401 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCC
195 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCC
131466 ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTA
260 ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTA
131531 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTT
325 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTT
*
131595 AATTGTTTTGATATTTTATAAAATATTATTTAGAATTTA
390 GATTGTTTTGATATTTTATAAAATATTATTTAGAATTTA
131634 AATTTAACAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
1 AATTTAACAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
*
131697 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAG
66 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATAG
*
131762 ACACTTTTATAAAAAGGATAGATACTTTACAATATAACTACTACCTATTACATTATATAAACGAT
131 ACACTTTTATAAAAAAGATAGATACTTTACAATATAAC-ACTACCTATTACATTATATAAACGAT
*
131827 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACATATTATATTGAAAGTGTCC
195 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCC
*
131892 ATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTT
260 ATACTTTTTATAAAAAGGATCGATACTTCTTTT-AAAGTTATGTAATTTATGTTTCAATTTTTTT
* *
131957 AACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATT
324 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
*
132022 TGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTA
389 TGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTA
132062 AATTTAACAA
1 AATTTAACAA
132072 CATTAACCAA
Statistics
Matches: 840, Mismatches: 23, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
425 1 0.00
426 272 0.32
427 84 0.10
428 70 0.08
429 45 0.05
430 61 0.07
431 307 0.37
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (428 bp):
AATTTAACAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATAG
ACACTTTTATAAAAAAGATAGATACTTTACAATATAACACTACCTATTACATTATATAAACGATA
CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
TACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAA
TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTG
ATTGTTTTGATATTTTATAAAATATTATTTAGAATTTA
Found at i:131829 original size:23 final size:23
Alignment explanation
Indices: 131803--131865 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
131793 ATATAACTAC
131803 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
131826 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
131849 TACCTATTACATCATAT
1 TACCTATTACATTATAT
131866 TTTTACATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:132240 original size:25 final size:25
Alignment explanation
Indices: 132212--132276 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
132202 ACTCAAAAGA
* *
132212 TGTATATACCTAATTATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
132237 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
132262 TGTACATACCTAAAT
1 TGTACATACCTAAAT
132277 TTAATGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:135265 original size:183 final size:183
Alignment explanation
Indices: 134740--135232 Score: 898
Period size: 183 Copynumber: 2.7 Consensus size: 183
134730 TTAAAATTAC
134740 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
134805 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
* * *
134870 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTTCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
134923 CGACACTTTTTTAAATGGTATCAACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
134988 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
135053 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
135106 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * *
135170 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACCG
65 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
135233 ATAGCATTAC
Statistics
Matches: 300, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 297 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:135684 original size:23 final size:23
Alignment explanation
Indices: 135612--135676 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
135602 ATACTTTACA
* *
135612 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
135635 ATATAAACGATACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
135658 ATATAAGCGCTACCTATTA
1 ATATAAACGCTACCTATTA
135677 TATCATATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:137287 original size:9 final size:9
Alignment explanation
Indices: 137273--137352 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
137263 CTTGTTTGGA
137273 TCATCATCT
1 TCATCATCT
137282 TCATCATCAT
1 TCATCATC-T
*
137292 CATCATCATCG
1 --TCATCATCT
137303 TCATCATCT
1 TCATCATCT
* *
137312 TCATCGTCA
1 TCATCATCT
* * *
137321 GCTTCATCG
1 TCATCATCT
*
137330 TCATCATCA
1 TCATCATCT
*
137339 TCGTCATCT
1 TCATCATCT
137348 TCATC
1 TCATC
137353 GTTAGCTTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
9 45 0.83
10 1 0.02
12 8 0.15
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (9 bp):
TCATCATCT
Found at i:137289 original size:12 final size:12
Alignment explanation
Indices: 137272--137354 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
137262 ACTTGTTTGG
*
137272 ATCATCATCTTC
1 ATCATCATCGTC
*
137284 ATCATCATCATC
1 ATCATCATCGTC
* *
137296 ATCATCGTCATC
1 ATCATCATCGTC
*
137308 ATCTTCATCGTC
1 ATCATCATCGTC
* *
137320 AGCTTCATCGTC
1 ATCATCATCGTC
137332 ATCATCATCGTC
1 ATCATCATCGTC
*
137344 ATCTTCATCGT
1 ATCATCATCGT
137355 TAGCTTCATC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:137291 original size:6 final size:6
Alignment explanation
Indices: 137272--137352 Score: 81
Period size: 6 Copynumber: 13.5 Consensus size: 6
137262 ACTTGTTTGG
* * * *
137272 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
137320 AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
137353 GTTAGCTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:137328 original size:36 final size:36
Alignment explanation
Indices: 137288--137369 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
137278 ATCTTCATCA
*
137288 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* * *
137324 TCATCGTCATCATCATCGTCATCTTCATCGTTAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
137360 TCATCTTCAT
1 TCATCATCAT
137370 TGACCGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.39
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:137367 original size:6 final size:6
Alignment explanation
Indices: 137276--137369 Score: 73
Period size: 6 Copynumber: 15.7 Consensus size: 6
137266 GTTTGGATCA
* * * * * * *
137276 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
137324 TCATCG TCATCA TCATCG TCATCT TCATCGT T-AGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATC-T TCATCT TCATCT TCAT
137370 TGACCGCTTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
5 2 0.03
6 68 0.94
7 2 0.03
ACGTcount: A:0.21, C:0.32, G:0.07, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:139295 original size:200 final size:200
Alignment explanation
Indices: 138952--139779 Score: 1505
Period size: 200 Copynumber: 4.1 Consensus size: 200
138942 GATGTTTTTG
*
138952 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
*
139017 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAAAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
139082 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
139147 TATAT
196 TATAT
*
139152 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAGTCTGGAACAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
*
139217 TAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
*
139282 GATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
139346 TATAT
196 TATAT
*
139351 GGATCGACACTTTATGGTTGCACCTTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
*
139416 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
**
139481 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATACTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
139546 TATAT
196 TATAT
*
139551 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
139616 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* * * *
139681 GATTGAAAAATTATATATTATATTATACTTTTGGGTTTCGATGTTTTTGGGATCTACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
139746 TATAT
196 TATAT
* *
139751 GGTTCGACACTTTATGGTTGCACCATGTT
1 GGATCGACACTTTATGGTTGCACCCTGTT
139780 GGCCATATTG
Statistics
Matches: 604, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
199 194 0.32
200 410 0.68
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
TATAT
Found at i:139690 original size:399 final size:400
Alignment explanation
Indices: 138952--139779 Score: 1523
Period size: 399 Copynumber: 2.1 Consensus size: 400
138942 GATGTTTTTG
* *
138952 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
139017 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAAAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAAAAAACCGGTATACTTGTACCGGTTA
**
139082 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATACTTTTGGGATCGACACTTTTTA
139147 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAGTCTGGAACAAAAATATCGACA
196 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAGTCTGGAACAAAAATATCGACA
*
139212 CAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
139277 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGATCGACACT
326 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACT
139341 TTTTATATAT
391 TTTTATATAT
*
139351 GGATCGACACTTTATGGTTGCACCTTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
* *
139416 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAAAAAACCGGTATACTTGTACCGGTTA
139481 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATACTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATACTTTTGGGATCGACACTTTTTA
* *
139546 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
196 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAGTCTGGAACAAAAATATCGACA
139611 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
* * *
139676 GGTTAGATTGAAAAATTATATATTATATTATACTTTTGGGTTTCGATGTTTTTGGGATCTACACT
326 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACT
139741 TTTTATATAT
391 TTTTATATAT
*
139751 GGTTCGACACTTTATGGTTGCACCATGTT
1 GGATCGACACTTTATGGTTGCACCATGTT
139780 GGCCATATTG
Statistics
Matches: 414, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
399 354 0.86
400 60 0.14
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (400 bp):
GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAAAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATACTTTTGGGATCGACACTTTTTA
TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAGTCTGGAACAAAAATATCGACA
CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACT
TTTTATATAT
Found at i:139929 original size:19 final size:19
Alignment explanation
Indices: 139901--139946 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
139891 TATTCACATG
*
139901 CAAAAATATAAATCGTATA
1 CAAAATTATAAATCGTATA
*
139920 CAAAATTATAAATCTTATA
1 CAAAATTATAAATCGTATA
139939 CAAAATTA
1 CAAAATTA
139947 ACCCTACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
CAAAATTATAAATCGTATA
Found at i:141770 original size:33 final size:33
Alignment explanation
Indices: 141733--141798 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
141723 CATCTTAATA
*
141733 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
* *
141766 TCACCCCTCAACGCCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
141799 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:141857 original size:21 final size:21
Alignment explanation
Indices: 141832--141875 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
141822 CCCCTTATGC
*
141832 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAATGTATCTTCGACT
* *
141853 CTCTCAAATTTCTCTTCGACT
1 CTCTCAAATGTATCTTCGACT
141874 CT
1 CT
141876 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (21 bp):
CTCTCAAATGTATCTTCGACT
Found at i:144075 original size:17 final size:18
Alignment explanation
Indices: 144053--144095 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
144043 ATATATCCGG
144053 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
144070 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
144090 TATCAT
1 TATCAT
144096 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:144113 original size:20 final size:19
Alignment explanation
Indices: 144058--144104 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
144048 TCCGGTATCA
144058 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
144077 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
144098 TTTTACC
1 TTTTACC
144105 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:144386 original size:178 final size:179
Alignment explanation
Indices: 144029--144492 Score: 607
Period size: 178 Copynumber: 2.6 Consensus size: 179
144019 CTTACGAAAA
* * *
144029 TATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
1 TATCGACACTTTAAATATATCCGGTAACACTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
* * * * * *
144094 ATATTTTTACCTGTTATATCGTTGTGGGTCGATA-TTTTTTTAAAGTATCGACCATTATAGGCGC
66 ATAGTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACCATTATAGGAGC
*
144158 TAAAACTATTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAG
131 TAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAG
* * **
144207 TATCGACACTTTTAATATA-CCGGTAAC-CTTTACCGGTTTTATCGTTTTGATACCAATTTTATC
1 TATCGACACTTTAAATATATCCGGTAACACTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
* *
144270 ATA-TTTTACCTGGTATATCGTTTTTGGATCGATACATTTTTAAAAGTATCGACACTTTATAGGA
66 ATAGTTTTACCTGTTATATCG-TTTTGGATCGATACATTTTTAAAAGTATCGAC-CATTATAGGA
** * *
144334 TTTAAAACTGCTTCTCTTTTAAATTC-CGAAGTGTCGATCCTTATATTAAAG
129 GCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAG
* * * * * *
144385 TACCGACACTTTAAATGTATCCGGTAGCGCTATACCGGTTTTATCATTTCT-ATACCGGTTTTGT
1 TATCGACACTTTAAATATATCCGGTAACACTTTACCGGTTTTATCATTT-TGATACCGGTTTTAT
*
144449 CATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAA
65 CATAGTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAA
144493 TTGGATCGAA
Statistics
Matches: 249, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
175 16 0.06
176 46 0.18
177 41 0.16
178 69 0.28
179 7 0.03
180 53 0.21
181 17 0.07
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (179 bp):
TATCGACACTTTAAATATATCCGGTAACACTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
ATAGTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACCATTATAGGAGC
TAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAG
Found at i:144439 original size:20 final size:20
Alignment explanation
Indices: 144414--144451 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
144404 TCCGGTAGCG
144414 CTATACCGGTTTTATCATTT
1 CTATACCGGTTTTATCATTT
*
144434 CTATACCGGTTTTGTCAT
1 CTATACCGGTTTTATCAT
144452 AGTTTTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.47
Consensus pattern (20 bp):
CTATACCGGTTTTATCATTT
Found at i:144507 original size:19 final size:21
Alignment explanation
Indices: 144472--144524 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 21
144462 GTTATATCGT
144472 TTTGGATCGACACATTTTTAA
1 TTTGGATCGACACATTTTTAA
144493 -TTGGATCGA-ACATTTTTAA
1 TTTGGATCGACACATTTTTAA
144512 TTTGGATCGACAC
1 TTTGGATCGACAC
144525 GAACCGTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.33
20 18 0.60
21 2 0.07
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTGGATCGACACATTTTTAA
Found at i:146277 original size:78 final size:75
Alignment explanation
Indices: 146121--146278 Score: 167
Period size: 78 Copynumber: 2.0 Consensus size: 75
146111 TCGAAACCGA
* * *
146121 TAATTACAATGTAATAGGTAAATACAATGTACCCGATAGAAATATCGGTTTTATGAGAAAATAGG
1 TAATTAAAATGTAATAGGTAAATACAATGTAACCGATAGAAATATCAGTTTTATGAG-AAATAGG
146186 TAACATCAAAACG
65 TAACAT--AAACG
* * *
146199 TAATTAAAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATGAG-AAT
1 TAATTAAAATGTAATAGGTAAA--TACAATGTAACCGATAGAAATAT--CAGTTTTATGAGAAAT
*
146263 ATGTCAACAT-AACG
62 AGGT-AACATAAACG
146277 TA
1 TA
146279 TTGACACAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
78 27 0.40
80 25 0.37
81 5 0.07
82 11 0.16
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.30
Consensus pattern (75 bp):
TAATTAAAATGTAATAGGTAAATACAATGTAACCGATAGAAATATCAGTTTTATGAGAAATAGGT
AACATAAACG
Done.