Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000369.1 Hibiscus syriacus cultivar Beakdansim tig00000670_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: 189133
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:31 original size:22 final size:20
Alignment explanation
Indices: 2--74 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 20
1 T
2 TTTCAAAGATGAGAGATTCTC
1 TTTCAAAGATGA-AGATTCTC
23 TCTTCAAAGAT----ATTCTC
1 T-TTCAAAGATGAAGATTCTC
*
40 TTTTTAAAGATGATAGATTCTC
1 -TTTCAAAGATGA-AGATTCTC
62 TTTCAAAGATGAA
1 TTTCAAAGATGAA
75 AGCTTTATGG
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
17 14 0.33
18 1 0.02
20 1 0.02
21 12 0.28
22 15 0.35
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (20 bp):
TTTCAAAGATGAAGATTCTC
Found at i:39 original size:17 final size:17
Alignment explanation
Indices: 17--50 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7 AAGATGAGAG
17 ATTCTCTCTTCAAAGAT
1 ATTCTCTCTTCAAAGAT
* *
34 ATTCTCTTTTTAAAGAT
1 ATTCTCTCTTCAAAGAT
51 GATAGATTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTCTCTCTTCAAAGAT
Found at i:1132 original size:74 final size:74
Alignment explanation
Indices: 741--1363 Score: 988
Period size: 74 Copynumber: 8.4 Consensus size: 74
731 CTATTTCCAA
*
741 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-CTTAAAC
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
805 CCTCAGGGT
66 CCTCAGGGT
*
814 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGCTTAAAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTT-AAA
879 CCCTCAGGGT
65 CCCTCAGGGT
889 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
954 CCTCAGGGT
66 CCTCAGGGT
963 CATCTGTAAGACCTACAGTGCATGATG-TTCCAAAAAGCCTTCGGGAGC-TTTTGATGCTTAAAC
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
1026 CCTCAGGGT
66 CCTCAGGGT
1035 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
1100 CCTCAGGGT
66 CCTCAGGGT
*
1109 CATTTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
* *
1174 CCTTAGAGT
66 CCTCAGGGT
* * *
1183 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-CTT-AA
* *
1247 AGCCTTAGGGT
64 ACCCTCAGGGT
* * * *
1258 CATCTTTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGATTTCAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-CTT--A
*
1323 AACCTTCA-GGT
63 AACCCTCAGGGT
**
1334 CATCTGTAA-ACCTTTTAGTGCATGATGTTT
1 CATCTGTAAGACC-TACAGTGCATGATGTTT
1364 TCAACATTTC
Statistics
Matches: 519, Mismatches: 22, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
72 51 0.10
73 105 0.20
74 186 0.36
75 134 0.26
76 37 0.07
77 6 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (74 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTAAAC
CCTCAGGGT
Found at i:1501 original size:3 final size:3
Alignment explanation
Indices: 1493--1547 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
1483 TCATTTCGTT
**
1493 TTA TTA TTA -TA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1540 TTA TTA TT
1 TTA TTA TT
1548 TAAAAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2060 original size:8 final size:10
Alignment explanation
Indices: 2030--2058 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
2020 AAGCAAGAAA
2030 AAAAAAGGAG
1 AAAAAAGGAG
2040 AAAAAAGGAG
1 AAAAAAGGAG
2050 AAAAAAGGA
1 AAAAAAGGA
2059 AATCGACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAAAAAGGAG
Found at i:4398 original size:30 final size:30
Alignment explanation
Indices: 4358--4423 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
4348 AGGTTTTGCA
*
4358 AAGAAGGACTGAAGAGGCTGCTATGGCTAC
1 AAGAAAGACTGAAGAGGCTGCTATGGCTAC
4388 AAGAAAGACTGAAGAGGCTGCTATGGCTAC
1 AAGAAAGACTGAAGAGGCTGCTATGGCTAC
4418 AA-AAAG
1 AAGAAAG
4424 GCTAAAGGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 4 0.11
30 31 0.89
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.15
Consensus pattern (30 bp):
AAGAAAGACTGAAGAGGCTGCTATGGCTAC
Found at i:12854 original size:36 final size:36
Alignment explanation
Indices: 12814--12882 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
12804 CAAATTAAGT
*
12814 TGGGGCAAGTCGAATATAAATAATATATTTTTAGGG
1 TGGGGCAAGTCGAATATAAACAATATATTTTTAGGG
** * *
12850 TGGGGCGGGTTGAATATAAACAATATGTTTTTA
1 TGGGGCAAGTCGAATATAAACAATATATTTTTA
12883 AAATATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (36 bp):
TGGGGCAAGTCGAATATAAACAATATATTTTTAGGG
Found at i:18553 original size:93 final size:93
Alignment explanation
Indices: 18394--18899 Score: 584
Period size: 93 Copynumber: 5.5 Consensus size: 93
18384 AGAAAACATT
* * * *
18394 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATCCCGAAAGGGGTCCGGAACCAGTGGGAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCAGAACCAGTGGCAGA
*
18459 AAACAAAACTGATAAGAAATC-TTTGTCC
66 AAACAAAGCTGATAAGAAA-CATTTGTCC
* *
18487 GTTGATTCTGATTCAACCTACAAGCTTGATGGTGATTCCGAAAAGGGTCTAGAACCAGTGGCAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCAGAACCAGTGGCAGA
* * *
18552 AAACAAAGCTGATAAGAAATATTCGTCT
66 AAACAAAGCTGATAAGAAACATTTGTCC
* * ** * *
18580 GTTGCTTCTGATTCAAGCTTCAAGCTTGATGGTGATTCCGAAAAGGGTCTGGAACCGGTGACAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCAGAACCAGTGGCAGA
18645 AAACAAAGCTGATAAGAAACATTTGTCC
66 AAACAAAGCTGATAAGAAACATTTGTCC
* * * *
18673 GTTGATTCTGATTCAAGCTATAAGCTTGATGTTCATTCCGAAAAGGGTCCAGAACCAGTGGGAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCAGAACCAGTGGCAGA
* * *
18738 AAACAAAGCTGATATGGAACATTTGTCT
66 AAACAAAGCTGATAAGAAACATTTGTCC
* * * * *
18766 GTTGCTTCTGATTCAAGCTAC-A-----A--G-GATTCTGAAAAGGTTCCGGAA-CAGGTGGGAG
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCAGAACCA-GTGGCAG
* * *
18821 AAAACAAGGCTTATAAGAAATATTTGTCC
65 AAAACAAAGCTGATAAGAAACATTTGTCC
* * * * * *
18850 GTTGCTTCTGATTCAAGCTACAAGCCTAACGGTGATACCGAAAAGAGTCC
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCC
18900 GAAACCGATG
Statistics
Matches: 353, Mismatches: 49, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
83 2 0.01
84 68 0.19
85 1 0.00
87 1 0.00
90 1 0.00
92 2 0.01
93 278 0.79
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (93 bp):
GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCAGAACCAGTGGCAGA
AAACAAAGCTGATAAGAAACATTTGTCC
Found at i:18854 original size:84 final size:84
Alignment explanation
Indices: 18707--18873 Score: 237
Period size: 84 Copynumber: 2.0 Consensus size: 84
18697 CTTGATGTTC
* * *
18707 ATTCCGAAAAGGGTCCAGAACCAGTGGGAGAAAACAAAGCTGATATGGAACATTTGTCTGTTGCT
1 ATTCCGAAAAGGGTCCAGAACCAGTGGGAGAAAACAAAGCTGATAAGAAACATTTGTCCGTTGCT
18772 TCTGATTCAAGCTACAAGG
66 TCTGATTCAAGCTACAAGG
* * * * * *
18791 ATTCTGAAAAGGTTCCGGAA-CAGGTGGGAGAAAACAAGGCTTATAAGAAATATTTGTCCGTTGC
1 ATTCCGAAAAGGGTCCAGAACCA-GTGGGAGAAAACAAAGCTGATAAGAAACATTTGTCCGTTGC
18855 TTCTGATTCAAGCTACAAG
65 TTCTGATTCAAGCTACAAG
18874 CCTAACGGTG
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 2 0.03
84 71 0.97
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (84 bp):
ATTCCGAAAAGGGTCCAGAACCAGTGGGAGAAAACAAAGCTGATAAGAAACATTTGTCCGTTGCT
TCTGATTCAAGCTACAAGG
Found at i:19024 original size:93 final size:93
Alignment explanation
Indices: 18921--19102 Score: 269
Period size: 93 Copynumber: 2.0 Consensus size: 93
18911 GAGAAATTCA
* *
18921 TTCTGATTCAAGCTACAAGCTTGACATTGATTC-TGAACAGGGTCCAGAAACGGTGGGAGAAAAC
1 TTCTGATTCAAGCCACAAGCTTGACATTGATTCAGGAA-AGGGTCCAGAAACGGTGGGAGAAAAC
*
18985 AAAGCTGATAAGAAA-CATTTGTCCGTTGC
65 AAAGATGATAAGAAATC-TTTGTCCGTTGC
** * *
19014 TTCTGATTCAAGCCACAAGCTTGATGTTGATTCAGGAAAGGGTCCGGAACCGGTGGGAGAAAACA
1 TTCTGATTCAAGCCACAAGCTTGACATTGATTCAGGAAAGGGTCCAGAAACGGTGGGAGAAAACA
19079 AAGATGATAAGAAATCTTTGTCCG
66 AAGATGATAAGAAATCTTTGTCCG
19103 AGACAGCAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
93 76 0.95
94 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (93 bp):
TTCTGATTCAAGCCACAAGCTTGACATTGATTCAGGAAAGGGTCCAGAAACGGTGGGAGAAAACA
AAGATGATAAGAAATCTTTGTCCGTTGC
Found at i:31794 original size:39 final size:39
Alignment explanation
Indices: 31750--31830 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
31740 TTAATAAAAA
31750 AATTAAAAATATAATACAAATATAACACCAATTATACCG
1 AATTAAAAATATAATACAAATATAACACCAATTATACCG
31789 AATTAAAAATATAATACAAATATAACACCAATTATACCG
1 AATTAAAAATATAATACAAATATAACACCAATTATACCG
31828 AAT
1 AAT
31831 CAAATAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (39 bp):
AATTAAAAATATAATACAAATATAACACCAATTATACCG
Found at i:35591 original size:21 final size:21
Alignment explanation
Indices: 35565--35604 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35555 GCATTTATTT
* *
35565 TTTTTATTTTTTAAAATAATA
1 TTTTTATTATTAAAAATAATA
35586 TTTTTATTATTAAAAATAA
1 TTTTTATTATTAAAAATAA
35605 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTATTATTAAAAATAATA
Found at i:39522 original size:38 final size:38
Alignment explanation
Indices: 39474--39550 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
39464 CACTGAATAT
* * *
39474 TTGTCCCGAAGGACCATTATGTCCCGAGGGACCACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
*
39512 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
39550 T
1 T
39551 AATCCCTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
Found at i:39546 original size:18 final size:18
Alignment explanation
Indices: 39475--39547 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
39465 ACTGAATATT
*
39475 TGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
*
39493 TGTCCCGAGGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
39512 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
39531 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
39548 GATAATCCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 30 0.65
19 2 0.04
20 14 0.30
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:40193 original size:44 final size:45
Alignment explanation
Indices: 40143--40245 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
40133 GCACAATCTA
* * * *
40143 TGCATCGGTACA-TAAATCCCATTCGATGTTTGT-TTTTAAGGAGG
1 TGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAAAGAAG
* *
40187 TGCATCGATACACTAATGACATTCGATGTTTTTATTTTAAAGAAG
1 TGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAGAAG
40232 TGCATCGATACACT
1 TGCATCGATACACT
40246 TCATGTGCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 27 0.53
45 24 0.47
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (45 bp):
TGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAGAAG
Found at i:40255 original size:19 final size:19
Alignment explanation
Indices: 40231--40278 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
40221 TTTTAAAGAA
*
40231 GTGCATCGATACACTTCAT
1 GTGCATCGATACACTTCAC
*
40250 GTGCATCGATACACTTTAC
1 GTGCATCGATACACTTCAC
40269 GTGCATCGAT
1 GTGCATCGAT
40279 GCACATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (19 bp):
GTGCATCGATACACTTCAC
Found at i:41240 original size:13 final size:13
Alignment explanation
Indices: 41222--41246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41212 AAGGATTTAG
41222 AAATAATAATAAT
1 AAATAATAATAAT
41235 AAATAATAATAA
1 AAATAATAATAA
41247 AATGATGAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:47746 original size:81 final size:81
Alignment explanation
Indices: 47686--47984 Score: 420
Period size: 81 Copynumber: 3.7 Consensus size: 81
47676 CAGCTAATCC
* * * * *
47686 ATTATTCTTTTACTCAACAGTGTTTAACCATTCACCTAATTGGCGTAATTGACACCTTTCTGCCA
1 ATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* *
47751 ATTGCACATTTAGGCT
66 ATTACACAGTTAGGCT
*
47767 ATTATTCTTTTACTTAA-AGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
1 ATTATTCTTTTACTCAACA-GTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
*
47831 AATTGCACAGTTAGGCT
65 AATTACACAGTTAGGCT
* * * *
47848 ATTATTCTTTTACTCAACGGTATTTAAGCGTTCATCTAACTGGCATAATTGACACATTTCTTCCA
1 ATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
*
47913 ATTACACAATTAGGCT
66 ATTACACAGTTAGGCT
** *
47929 ATTATTCTTATTACTCAATGGTATTTAACCGTTCATCTAGCTGGCATAATTGACAC
1 ATTATTCTT-TTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACAC
47985 ATGTTGAAAC
Statistics
Matches: 198, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 154 0.78
82 43 0.22
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (81 bp):
ATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
ATTACACAGTTAGGCT
Found at i:47902 original size:162 final size:163
Alignment explanation
Indices: 47686--47984 Score: 465
Period size: 162 Copynumber: 1.8 Consensus size: 163
47676 CAGCTAATCC
* * * *
47686 ATTATTCTTTTACTCAACAGTGTTTAACCATTCACCTAATTGGCGTAATTGACACCTTTCTGCCA
1 ATTATTCTTTTACTCAACAGTATTTAACCATTCACCTAACTGGCATAATTGACACATTTCTGCCA
* * *
47751 ATTGCACATTTAGGCTATTATTCTT-TTACTTAAAGGTATTTAACCGTTCATCTAACTGGCATAA
66 ATTACACAATTAGGCTATTATTCTTATTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAA
47815 TTGACACCTTTCTGCCAATTGCACAGTTAGGCT
131 TTGACACCTTTCTGCCAATTGCACAGTTAGGCT
* * * * *
47848 ATTATTCTTTTACTCAACGGTATTTAAGCGTTCATCTAACTGGCATAATTGACACATTTCTTCCA
1 ATTATTCTTTTACTCAACAGTATTTAACCATTCACCTAACTGGCATAATTGACACATTTCTGCCA
* *
47913 ATTACACAATTAGGCTATTATTCTTATTACTCAATGGTATTTAACCGTTCATCTAGCTGGCATAA
66 ATTACACAATTAGGCTATTATTCTTATTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAA
47978 TTGACAC
131 TTGACAC
47985 ATGTTGAAAC
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
162 79 0.65
163 43 0.35
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (163 bp):
ATTATTCTTTTACTCAACAGTATTTAACCATTCACCTAACTGGCATAATTGACACATTTCTGCCA
ATTACACAATTAGGCTATTATTCTTATTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAA
TTGACACCTTTCTGCCAATTGCACAGTTAGGCT
Found at i:48399 original size:75 final size:75
Alignment explanation
Indices: 48214--48421 Score: 247
Period size: 74 Copynumber: 2.8 Consensus size: 75
48204 AAAGCCAAAA
* * * * **
48214 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATT-CCCCCTAAACAG
48279 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* * *
48291 ATTTCCAGAATGATCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
* *
48355 TTGTTCCGAG
66 TGGCTCCGAG
* ** * *
48365 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCT
48422 GTTCAACGGT
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 44 0.39
75 44 0.39
77 24 0.21
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:54246 original size:21 final size:21
Alignment explanation
Indices: 54220--54259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54210 CCCCCTTTGA
*
54220 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
54241 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
54260 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:57041 original size:75 final size:75
Alignment explanation
Indices: 56856--57062 Score: 236
Period size: 74 Copynumber: 2.7 Consensus size: 75
56846 CAAAGCCAAA
* * * * **
56856 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATT-CCCCCTAAACAG
56921 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* * *
56933 ATTTCCAGAATGATCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
* *
56997 TTGTTCCGAG
66 TGGCTCCGAG
* * ** * *
57007 AATTCCAGTATGCTCGGAGGGAACTGATTCCCCCCCCAGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
57063 CTGTTCAACG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
74 43 0.39
75 43 0.39
77 24 0.22
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:57875 original size:68 final size:68
Alignment explanation
Indices: 57782--58063 Score: 429
Period size: 68 Copynumber: 4.1 Consensus size: 68
57772 CCAATTGCAT
* * * *
57782 AGTTAGGCCTCAAAGACACTTAGCCTTTTATCTAGCTGACATAAATGACACCTTTCTGTCAAATA
1 AGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTCTGTCAAATA
57847 CAC
66 CAC
* * * *
57850 AGTTAGGACTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTCTTTTAAATG
1 AGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTCTGTCAAATA
57915 CAC
66 CAC
*
57918 AGTTAGGTCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTCTGTCAAATA
1 AGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTCTGTCAAATA
57983 CAC
66 CAC
* * * * * *
57986 AGTTAGGCCTTAAAGGCACTTAGCCTTTCATGTAACTGGCATAAATGACACCTTTTTGTCAAATG
1 AGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTCTGTCAAATA
58051 CAC
66 CAC
58054 AGTTAGGCCT
1 AGTTAGGCCT
58064 ATTAATCTTT
Statistics
Matches: 195, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 195 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (68 bp):
AGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTCTGTCAAATA
CAC
Found at i:58429 original size:58 final size:59
Alignment explanation
Indices: 58279--58493 Score: 286
Period size: 58 Copynumber: 3.8 Consensus size: 59
58269 TTTCCCATAA
* * *
58279 GGAAATTCATACAATT-GATATGAATTTCTT---A-TTTCGCACACATAGTGCTC--ATAC
1 GGAAATTCATACACTTAG-TATGAATTTCTTAACATTTTAGCACACAAAGTGC-CAAATAC
58333 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCAAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCAAATAC
* * *
58392 GGAAATTCATACACTTAGTATGAATTT-TTAACCTTTTAGCACACAAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCAAATAC
*
58450 GAAAATTCATACACTTAGTATGAATTTCTTAACATTTT-GCACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
58494 TTAGTGACAT
Statistics
Matches: 145, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
54 27 0.19
55 1 0.01
57 2 0.01
58 75 0.52
59 40 0.28
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCAAATAC
Found at i:60039 original size:55 final size:55
Alignment explanation
Indices: 59975--60098 Score: 230
Period size: 55 Copynumber: 2.3 Consensus size: 55
59965 ATACCCCTTT
59975 TGGTATCGATACTAGTTTTAGACTCGATGTTTTCATGGTATCGATACCCTTACCA
1 TGGTATCGATACTAGTTTTAGACTCGATGTTTTCATGGTATCGATACCCTTACCA
*
60030 TGGTATCGATACCAGTTTTAGACTCGATGTTTTCATGGTATCGATACCCTTACCA
1 TGGTATCGATACTAGTTTTAGACTCGATGTTTTCATGGTATCGATACCCTTACCA
*
60085 AGGTATCGATACTA
1 TGGTATCGATACTA
60099 TCTCGTTGGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (55 bp):
TGGTATCGATACTAGTTTTAGACTCGATGTTTTCATGGTATCGATACCCTTACCA
Found at i:60136 original size:21 final size:21
Alignment explanation
Indices: 60107--60159 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
60097 TATCTCGTTG
*
60107 GTATCGATACTGATTGAATCA
1 GTATAGATACTGATTGAATCA
60128 GTATAGATACTGATTGAATCA
1 GTATAGATACTGATTGAATCA
60149 GTATAGATACT
1 GTATAGATACT
60160 ACTCATCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (21 bp):
GTATAGATACTGATTGAATCA
Found at i:61196 original size:17 final size:17
Alignment explanation
Indices: 61174--61216 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
61164 ACTAAAGTGT
61174 TGAGACATGACACATTG
1 TGAGACATGACACATTG
61191 TGAGACATGACACATTG
1 TGAGACATGACACATTG
*
61208 TGATACATG
1 TGAGACATG
61217 GAAGATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (17 bp):
TGAGACATGACACATTG
Found at i:65329 original size:24 final size:24
Alignment explanation
Indices: 65278--65326 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
65268 AGATTGATTA
*
65278 TAAAATTATGGATTATAATATTTT
1 TAAAATTATGAATTATAATATTTT
65302 TAAAATTATGCAATTAATAA-ATTTT
1 TAAAATTATG-AATT-ATAATATTTT
65327 AAAGTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 8 0.36
26 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (24 bp):
TAAAATTATGAATTATAATATTTT
Found at i:66884 original size:21 final size:22
Alignment explanation
Indices: 66858--66898 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
66848 CCAGGACATA
66858 GAGTATCGATACT-CCTTTAAT
1 GAGTATCGATACTACCTTTAAT
*
66879 GAGTATCGGTACTACCTTTA
1 GAGTATCGATACTACCTTTA
66899 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGTATCGATACTACCTTTAAT
Found at i:73518 original size:170 final size:168
Alignment explanation
Indices: 73220--73593 Score: 437
Period size: 170 Copynumber: 2.2 Consensus size: 168
73210 TTAAAATCTT
* ** * **
73220 TGTCATGTCATAGTGTATCATCCCATCAAACATAAATGGGGTTGATGTGAACAGTTTTCGATTGG
1 TGTCATGTCATAGTGTCTCAT-CCATCAAACATAAATGGGGTTGATGTGAACAGTTCCCGACTAA
* * * * *
73285 GAACATCAAATATGCATATAATTGACTGAAATATGAAGATAAAATTTGACAAATAGGGAAGGCTC
65 GAACATCAAATATACAAATAATTGACTGAAATATGAAGATAAAATCTAACAAAAAGGGAAGGCTC
* * *
73350 GTTCCACAAGAAGCACTTT-TCACTTTTTTAGAGAATATC
130 ATTCCACAAGAAG-ACTTTGCCACCTTTTTAGAGAATATC
* *
73389 TGTCATATCATAGTGTCTCATCTCATCAAACATAAATGGGGTTGATGTGAATAGTTCCCCGACTA
1 TGTCATGTCATAGTGTCTCATC-CATCAAACATAAATGGGGTTGATGTGAACAGTT-CCCGACTA
* * * * * **
73454 AGAACATCATATCTACAAATAATTGTCTGAAATGTGAAGATAAAATCTAATAAAAATTGAAGGCT
64 AGAACATCAAATATACAAATAATTGACTGAAATATGAAGATAAAATCTAACAAAAAGGGAAGGCT
** * *
73519 CATTCCACAAGAAGTGTTTGCCCCCTTTTTAGAGAATCTC
129 CATTCCACAAGAAGACTTTGCCACCTTTTTAGAGAATATC
73559 T-TCCATGTCATAGTGTCTCATACCATCAAACATAA
1 TGT-CATGTCATAGTGTCTCAT-CCATCAAACATAA
73594 TTAAATAGGG
Statistics
Matches: 172, Mismatches: 28, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
168 1 0.01
169 55 0.32
170 115 0.67
171 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (168 bp):
TGTCATGTCATAGTGTCTCATCCATCAAACATAAATGGGGTTGATGTGAACAGTTCCCGACTAAG
AACATCAAATATACAAATAATTGACTGAAATATGAAGATAAAATCTAACAAAAAGGGAAGGCTCA
TTCCACAAGAAGACTTTGCCACCTTTTTAGAGAATATC
Found at i:75168 original size:21 final size:22
Alignment explanation
Indices: 75139--75188 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
75129 ATATTTTAAT
75139 TTTAATCT-AACCCTAAACCAC
1 TTTAATCTAAACCCTAAACCAC
* *
75160 TTTACTCTAAAAACCCTAAACCAT
1 TTTAATCT--AAACCCTAAACCAC
75184 TTTAA
1 TTTAA
75189 CATAAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 7 0.30
24 16 0.70
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAATCTAAACCCTAAACCAC
Found at i:75194 original size:24 final size:24
Alignment explanation
Indices: 75147--75196 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
75137 ATTTTAATCT
*
75147 AACCCTAAACCACTTTACTCTAAA
1 AACCCTAAACCACTTTACTATAAA
*
75171 AACCCTAAACCATTTTAAC-ATAAA
1 AACCCTAAACCACTTT-ACTATAAA
75195 AA
1 AA
75197 TCATAGCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (24 bp):
AACCCTAAACCACTTTACTATAAA
Found at i:76606 original size:17 final size:17
Alignment explanation
Indices: 76586--76626 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
76576 AGTTTTGAAA
76586 TTGACCATGCTTTGAGC
1 TTGACCATGCTTTGAGC
76603 TTGACCATGCTTTGAGC
1 TTGACCATGCTTTGAGC
76620 TTGACCA
1 TTGACCA
76627 AATAGGCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (17 bp):
TTGACCATGCTTTGAGC
Found at i:80284 original size:23 final size:23
Alignment explanation
Indices: 80258--80302 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
80248 CACCACAGCT
*
80258 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
80281 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
80303 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:82150 original size:21 final size:21
Alignment explanation
Indices: 82126--82170 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
82116 TTTTGTTCGT
*
82126 TTGAAGGGGTATC-GGTTCCCC
1 TTGAAGGGGTA-CAGATTCCCC
*
82147 TTGAATGGGTACAGATTCCCC
1 TTGAAGGGGTACAGATTCCCC
82168 TTG
1 TTG
82171 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACAGATTCCCC
Found at i:85465 original size:23 final size:23
Alignment explanation
Indices: 85439--85483 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
85429 CACCACAGCT
*
85439 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
85462 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
85484 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:87326 original size:21 final size:21
Alignment explanation
Indices: 87302--87346 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
87292 TTTTGTTCGT
*
87302 TTGAAGGGGTATC-GGTTCCCC
1 TTGAAGGGGTA-CAGATTCCCC
*
87323 TTGAATGGGTACAGATTCCCC
1 TTGAAGGGGTACAGATTCCCC
87344 TTG
1 TTG
87347 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACAGATTCCCC
Found at i:88719 original size:2 final size:2
Alignment explanation
Indices: 88642--88703 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
88632 ATGTAAAATG
*
88642 AT AT AT GT 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
88684 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
88704 GACTCTGAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92712 original size:24 final size:23
Alignment explanation
Indices: 92667--92728 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 23
92657 TTATAAGGAT
* ** *
92667 CGTGTCATAAGAGTAAAGAAAACA
1 CGTGTCACAAGAACAAA-AAAAAA
92691 CGTGTCACAAGAAC-AAAAAAAA
1 CGTGTCACAAGAACAAAAAAAAA
*
92713 -GTATCACAAGAACAAA
1 CGTGTCACAAGAACAAA
92729 GACTTTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 12 0.38
22 7 0.22
23 2 0.06
24 11 0.34
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (23 bp):
CGTGTCACAAGAACAAAAAAAAA
Found at i:93245 original size:20 final size:20
Alignment explanation
Indices: 93201--93501 Score: 205
Period size: 20 Copynumber: 14.9 Consensus size: 20
93191 AATGACCAAC
93201 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
93220 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
93240 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
93260 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
93280 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * **
93302 AGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTCAG
*
93321 AAGAATCGCAATGCGATTCCA-
1 AA-AATCGCAACGCGATT-CAG
* *
93342 AGAATCGCAATGCGATCTTC-G
1 AAAATCGCAACGCGA--TTCAG
*
93363 AAGAATCGCAATGCGATTCA-
1 AA-AATCGCAACGCGATTCAG
* *
93383 AAGAATCGCAATGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
93404 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
93424 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
93444 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
93464 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
93484 AAAATCGCAACGCGATTC
1 AAAATCGCAACGCGATTC
93502 CAAGAATCGC
Statistics
Matches: 232, Mismatches: 26, Indels: 47
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.01
19 21 0.09
20 166 0.72
21 12 0.05
22 28 0.12
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:93331 original size:62 final size:61
Alignment explanation
Indices: 93282--93479 Score: 188
Period size: 62 Copynumber: 3.2 Consensus size: 61
93272 GTCAAAAGAA
* *
93282 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAGAATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAGAATCGCAA-GCGAGTCAAAG
* * ** * *
93344 AATCGCAATGCGATCTTCGAAGAATCGCAATGCGATTCAAAGAATCGCAATGCGATTGAGAA-
1 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAGAATCGCAA-GCGAGTCA-AAG
* * *** * *
93406 AATCGCAACGCGA--TTCCAATAATCGCAACGCGATTGAGAA-AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCA-AAGAATCGCAA-GCGAGTCAAAG
93466 AATCGCAACGCGAT
1 AATCGCAACGCGAT
93480 TGAGAAAATC
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.02
60 47 0.40
61 2 0.02
62 65 0.55
63 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (61 bp):
AATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAGAATCGCAAGCGAGTCAAAG
Found at i:93352 original size:40 final size:40
Alignment explanation
Indices: 93278--93513 Score: 321
Period size: 40 Copynumber: 5.8 Consensus size: 40
93268 AACGGTCAAA
***
93278 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCC
1 AGAAAATCGCAACGCGA--TTCCAAGAATCGCAATGCGATTG
* *
93320 A-AAGAATCGCAATGCGATTCCAAGAATCGCAATGCGATCTT
1 AGAA-AATCGCAACGCGATTCCAAGAATCGCAATGCGAT-TG
* * *
93361 CGAAGAATCGCAATGCGATTCAAAGAATCGCAATGCGATTG
1 AGAA-AATCGCAACGCGATTCCAAGAATCGCAATGCGATTG
* *
93402 AGAAAATCGCAACGCGATTCCAATAATCGCAACGCGATTG
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAATGCGATTG
*
93442 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTG
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAATGCGATTG
93482 AGAAAATCGCAACGCGATTCCAAGAATCGCAA
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAA
93514 AACGGCAAAA
Statistics
Matches: 178, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 123 0.69
41 6 0.03
42 49 0.28
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (40 bp):
AGAAAATCGCAACGCGATTCCAAGAATCGCAATGCGATTG
Found at i:93509 original size:20 final size:20
Alignment explanation
Indices: 93282--93513 Score: 229
Period size: 20 Copynumber: 11.4 Consensus size: 20
93272 GTCAAAAGAA
93282 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA--TTCCAAG
* *
93304 AATCGCAATGCGA-GCCAAAG
1 AATCGCAACGCGATTCC-AAG
*
93324 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
93344 AATCGCAATGCGATCTTCGAAG
1 AATCGCAACGCGA--TTCCAAG
* *
93366 AATCGCAATGCGATTCAAAG
1 AATCGCAACGCGATTCCAAG
* * *
93386 AATCGCAATGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
*
93406 AATCGCAACGCGATTCCAAT
1 AATCGCAACGCGATTCCAAG
* *
93426 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
93446 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
93466 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
93486 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
93506 AATCGCAA
1 AATCGCAA
93514 AACGGCAAAA
Statistics
Matches: 182, Mismatches: 18, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
19 5 0.03
20 141 0.77
21 5 0.03
22 31 0.17
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Found at i:93586 original size:6 final size:6
Alignment explanation
Indices: 93575--93649 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
93565 GACACGTATT
93575 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
93623 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
93650 CGAGACGAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:94415 original size:6 final size:6
Alignment explanation
Indices: 94404--94502 Score: 198
Period size: 6 Copynumber: 16.5 Consensus size: 6
94394 TCTCGTCTCG
94404 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
94452 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
94500 GGT
1 GGT
94503 AATACGTGTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 93 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:94638 original size:20 final size:20
Alignment explanation
Indices: 94613--94722 Score: 116
Period size: 20 Copynumber: 5.4 Consensus size: 20
94603 TTTTGCCGTT
94613 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
94633 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
94653 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
94673 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
94693 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
94715 TTGCGATT
1 TTGCGATT
94723 TTCTTTTGAC
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
19 3 0.04
20 51 0.71
21 4 0.06
22 14 0.19
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:94742 original size:42 final size:40
Alignment explanation
Indices: 94613--94726 Score: 192
Period size: 40 Copynumber: 2.8 Consensus size: 40
94603 TTTTGCCGTT
*
94613 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCG
*
94653 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCG
94693 TTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 TTGCGATTCTTGG-A-ATCGCGTTGCGATTTTCT
94727 TTTGACCGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 50 0.72
41 1 0.01
42 18 0.26
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCG
Found at i:94778 original size:20 final size:19
Alignment explanation
Indices: 94626--94784 Score: 115
Period size: 20 Copynumber: 7.9 Consensus size: 19
94616 CGATTCTTGG
94626 AATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATTTTCT
* *
94645 CAATCGCATTGCGA-TTCCT
1 -AATCGCGTTGCGATTTTCT
94664 GGAATCGCGTTGCGATTTTCT
1 --AATCGCGTTGCGATTTTCT
**
94685 CAATCGCGTTGCGATTCTTGGA
1 -AATCGCGTTGCGATT-TT-CT
94707 AGATCGCGTTGCGATTTTCT
1 A-ATCGCGTTGCGATTTTCT
* *
94727 -TTTGACCGTTGCGATTTTCT
1 AATCG--CGTTGCGATTTTCT
** * *
94747 TTTCAACATTGCGATTTTCT
1 AATC-GCGTTGCGATTTTCT
94767 AAATCGCGTTGCGATTTT
1 -AATCGCGTTGCGATTTT
94785 TGTTTCGCAT
Statistics
Matches: 110, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.02
19 4 0.04
20 77 0.70
21 13 0.12
22 14 0.13
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (19 bp):
AATCGCGTTGCGATTTTCT
Found at i:102113 original size:17 final size:19
Alignment explanation
Indices: 102074--102113 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
102064 TAAGATTACA
*
102074 TAAAACAAAACACCACCAG
1 TAAAACAAAACACCACAAG
102093 -AAAA-AAAACACCA-AAG
1 TAAAACAAAACACCACAAG
102109 TAAAA
1 TAAAA
102114 GACTACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.11
17 13 0.68
18 4 0.21
ACGTcount: A:0.68, C:0.23, G:0.05, T:0.05
Consensus pattern (19 bp):
TAAAACAAAACACCACAAG
Found at i:112998 original size:20 final size:22
Alignment explanation
Indices: 112957--113000 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
112947 CATTCAAAAC
*
112957 ATTAATATTTTATATATTTAAT
1 ATTAATATATTATATATTTAAT
112979 ATTAATATATTAT-T-TTTAAT
1 ATTAATATATTATATATTTAAT
112999 AT
1 AT
113001 CATTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTAATATATTATATATTTAAT
Found at i:113009 original size:20 final size:20
Alignment explanation
Indices: 112963--113009 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
112953 AAACATTAAT
*
112963 ATTTTA-TATATTTAATATT
1 ATTTTATTATATTTAATATC
* * *
112982 AATATATTATTTTTAATATC
1 ATTTTATTATATTTAATATC
113002 ATTTTATT
1 ATTTTATT
113010 TTTATTTTAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTATATTTAATATC
Found at i:113203 original size:38 final size:35
Alignment explanation
Indices: 113149--113234 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 35
113139 TAATAAGTAA
113149 TTAATATAATTAATAATATATTTTTATTTTAATAAACAT
1 TTAATAT-ATTAAT-A-ATATTTTTATTTTAATAAA-AT
* *
113188 TTAATATATTTATAATGTTTTTATTTTAATAAAAT
1 TTAATATATTAATAATATTTTTATTTTAATAAAAT
*
113223 ATAATAATATTA
1 TTAAT-ATATTA
113235 GTCTTATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 6 0.14
36 23 0.55
37 1 0.02
38 5 0.12
39 7 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAATATATTAATAATATTTTTATTTTAATAAAAT
Found at i:113381 original size:20 final size:17
Alignment explanation
Indices: 113342--113377 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
113332 ATATTATTGT
113342 TTTGTTAATAAATAATA
1 TTTGTTAATAAATAATA
113359 TTTGTTAATAAATAATA
1 TTTGTTAATAAATAATA
113376 TT
1 TT
113378 ATTTATTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTGTTAATAAATAATA
Found at i:116806 original size:12 final size:12
Alignment explanation
Indices: 116791--116836 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
116781 CGGTTTTTTT
*
116791 ACCGGATAAAAA
1 ACCGGTTAAAAA
116803 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
116818 ACCGGTTAAAAA
1 ACCGGTTAAAAA
116830 ACCGGTT
1 ACCGGTT
116837 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:116818 original size:15 final size:13
Alignment explanation
Indices: 116797--116837 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
116787 TTTTACCGGA
116797 TAAAAAACCGGTT
1 TAAAAAACCGGTT
116810 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
116824 TAAAAAACCGGTT
1 TAAAAAACCGGTT
116837 T
1 T
116838 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:119153 original size:21 final size:21
Alignment explanation
Indices: 119129--119168 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
119119 TTTATTTTAT
119129 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
119150 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
119169 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:119216 original size:33 final size:33
Alignment explanation
Indices: 119163--119261 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
119153 TTTGTTTCAA
119163 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
119195 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
119228 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
119261 T
1 T
119262 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:119290 original size:13 final size:13
Alignment explanation
Indices: 119247--119301 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
119237 TTGGAAGTAT
119247 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
119260 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
119274 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
119287 TTAAGTATTTGAA
1 TTAAGTATTTCAA
119300 TT
1 TT
119302 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:119722 original size:15 final size:15
Alignment explanation
Indices: 119697--119752 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
119687 ATCTGGAATA
*
119697 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
119712 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
119727 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
119744 TTAAAACCG
1 TTAAAACCG
119753 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:119761 original size:21 final size:18
Alignment explanation
Indices: 119716--119749 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
119706 GTTTTTTTAT
119716 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
119733 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
119750 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:119869 original size:15 final size:17
Alignment explanation
Indices: 119843--119874 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
119833 TTCTATGGGA
119843 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
119859 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
119875 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:120193 original size:17 final size:17
Alignment explanation
Indices: 120171--120203 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
120161 TTACTGGATT
120171 AAAAATCGGTTTTTTTA
1 AAAAATCGGTTTTTTTA
120188 AAAAATCGGTTTTTTT
1 AAAAATCGGTTTTTTT
120204 CAAACCGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
AAAAATCGGTTTTTTTA
Found at i:120337 original size:22 final size:21
Alignment explanation
Indices: 120298--120338 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
120288 AATGAAAAAA
**
120298 CCGGATCGATTTTTATCCGAT
1 CCGGATCGATTTAAATCCGAT
120319 CCGGATCGAATTTAAATCCG
1 CCGGATCG-ATTTAAATCCG
120339 GATATGTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (21 bp):
CCGGATCGATTTAAATCCGAT
Found at i:120657 original size:2 final size:2
Alignment explanation
Indices: 120650--120676 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
120640 GCTGTAAAGA
120650 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 A
120677 AAGATTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:125887 original size:21 final size:22
Alignment explanation
Indices: 125862--125903 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
125852 TTATTTTAGA
125862 AATTTAAATTTAG-ATAAAATG
1 AATTTAAATTTAGAATAAAATG
*
125883 AATTTAGATTTAGAATAAAAT
1 AATTTAAATTTAGAATAAAAT
125904 TTTTAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (22 bp):
AATTTAAATTTAGAATAAAATG
Found at i:129744 original size:14 final size:14
Alignment explanation
Indices: 129725--129752 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
129715 GCATTGAATA
129725 CTCTCTCTCTCTAT
1 CTCTCTCTCTCTAT
129739 CTCTCTCTCTCTAT
1 CTCTCTCTCTCTAT
129753 ATATATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (14 bp):
CTCTCTCTCTCTAT
Found at i:142213 original size:36 final size:36
Alignment explanation
Indices: 142173--142275 Score: 161
Period size: 36 Copynumber: 2.9 Consensus size: 36
142163 ACGGTGCTGG
142173 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* * *
142209 ACATTGATGCATGAATGTACCAAAGATGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
142245 ACATTGATACACTAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
142276 ATACTCAACT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:150786 original size:36 final size:36
Alignment explanation
Indices: 150746--150844 Score: 162
Period size: 36 Copynumber: 2.8 Consensus size: 36
150736 ACGGTGCTGG
*
150746 ACATTGATACACGAAAGTACCAAAGCTGATATGATA
1 ACATTAATACACGAAAGTACCAAAGCTGATATGATA
*
150782 ACATTAATACACGAACGTACCAAAGCTGATATGATA
1 ACATTAATACACGAAAGTACCAAAGCTGATATGATA
* *
150818 ACATTAATACACGAATGTATCAAAGCT
1 ACATTAATACACGAAAGTACCAAAGCT
150845 TATAAAACTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.23
Consensus pattern (36 bp):
ACATTAATACACGAAAGTACCAAAGCTGATATGATA
Found at i:155117 original size:36 final size:36
Alignment explanation
Indices: 155070--155208 Score: 242
Period size: 36 Copynumber: 3.9 Consensus size: 36
155060 ACGGTGCTGG
*
155070 ACATTGATACACGAATGTAACAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
155106 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
155142 ACATTGATACACGAATGTACCAAAGATGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
155178 ACATTGATACACGAATGTATCAAAGTTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
155209 ATACTCAACT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 99 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:157644 original size:33 final size:31
Alignment explanation
Indices: 157603--157730 Score: 132
Period size: 31 Copynumber: 4.1 Consensus size: 31
157593 AAATATATAA
*
157603 TTTTTAAAAATTATAAATTCTGGTCC-CTAAACT
1 TTTTTAAAAATTAT-AATT-TAG-CCTCTAAACT
* *
157636 TTTTTAAAATTTATACTTTAGCCTCTAAACT
1 TTTTTAAAAATTATAATTTAGCCTCTAAACT
** *
157667 TTTTTAAAGTTTATACTTTAGCCTCTAAACT
1 TTTTTAAAAATTATAATTTAGCCTCTAAACT
** * *
157698 TTTTTAAAGTTTATACTTTAGCCACTAAACT
1 TTTTTAAAAATTATAATTTAGCCTCTAAACT
157729 TT
1 TT
157731 CAAAACTTAC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 2 0.02
31 71 0.80
32 3 0.03
33 13 0.15
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (31 bp):
TTTTTAAAAATTATAATTTAGCCTCTAAACT
Found at i:157667 original size:31 final size:31
Alignment explanation
Indices: 157629--157730 Score: 186
Period size: 31 Copynumber: 3.3 Consensus size: 31
157619 ATTCTGGTCC
*
157629 CTAAACTTTTTTAAAATTTATACTTTAGCCT
1 CTAAACTTTTTTAAAGTTTATACTTTAGCCT
157660 CTAAACTTTTTTAAAGTTTATACTTTAGCCT
1 CTAAACTTTTTTAAAGTTTATACTTTAGCCT
*
157691 CTAAACTTTTTTAAAGTTTATACTTTAGCCA
1 CTAAACTTTTTTAAAGTTTATACTTTAGCCT
157722 CTAAACTTT
1 CTAAACTTT
157731 CAAAACTTAC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (31 bp):
CTAAACTTTTTTAAAGTTTATACTTTAGCCT
Found at i:161080 original size:21 final size:21
Alignment explanation
Indices: 161056--161102 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
161046 TATTCGCATT
*
161056 GCGATTTTCTAAAATCGCAAC
1 GCGATTTTCGAAAATCGCAAC
* * *
161077 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCGAAAATCGCAAC
161098 GCGAT
1 GCGAT
161103 AGTCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GCGATTTTCGAAAATCGCAAC
Found at i:161171 original size:19 final size:19
Alignment explanation
Indices: 161147--161183 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
161137 TGCGATACTT
*
161147 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
161166 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
161184 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:164301 original size:36 final size:36
Alignment explanation
Indices: 164247--164581 Score: 187
Period size: 36 Copynumber: 9.5 Consensus size: 36
164237 TGAAATTACG
*
164247 TATATAATATATGGTTTTTAAAACACTTTT-AAAA-A
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAATA
* *
164282 CTGTATAATATATATTTTTTTAAAACATTTTGAAAATA
1 -TATATAATATATA-GTTTTTAAAACATTTTGAAAATA
164320 TATATAATATATAGTTTTTAAAACA--TT-----TA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
164349 TATAT--TATATAGTTTTTAAAA-AGTTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACA--TTTTGAAAATA
* ** *
164384 AATATAATATATAGTTTTATAAAATTTTTTTTAAAAAATA
1 TATATAATATATAGTTTT-TAAAA--CATTTT-GAAAATA
* *
164424 TATATATTATATAGTTTTTAAAAAAAACTTTTGAAAA-A
1 TATATAATATATAGTTTTT--AAAACA-TTTTGAAAATA
* *
164462 CATATAATATATA-TTTTTAAAAATATTTTTG--AA-A
1 TATATAATATATAGTTTTT-AAAACA-TTTTGAAAATA
* * * *
164496 -A-CT-ATATA-A-TTTTGAAAACATTTTTAAAAAAA
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAATA
* * *
164528 TATATAATATATA-ATTTTAAAATATTTTTAAAAATA
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAATA
*
164564 TATATTATATATA-TTTTT
1 TATATAATATATAGTTTTT
164582 GGAAAATATC
Statistics
Matches: 242, Mismatches: 28, Indels: 58
0.74 0.09 0.18
Matches are distributed among these distances:
26 1 0.00
27 16 0.07
29 17 0.07
30 7 0.03
31 7 0.03
32 2 0.01
33 2 0.01
34 6 0.02
35 11 0.05
36 73 0.30
37 43 0.18
38 18 0.07
39 9 0.04
40 26 0.11
41 4 0.02
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAATA
Found at i:164359 original size:64 final size:65
Alignment explanation
Indices: 164285--164407 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 65
164275 TTAAAAACTG
* * *
164285 TATAATATATATTTTTTTAAAACATTTTGAAAATATATATAATATATAGTTTT-TAAAACATTTA
1 TATAATATATAGTTTTTAAAAACATTTTGAAAATAAATATAATATATAGTTTTATAAAACATTTA
* **
164349 TATATTATATAGTTTTTAAAAAGTTTTTGAAAATAAATATAATATATAGTTTTATAAAA
1 TATAATATATAGTTTTTAAAAACATTTTGAAAATAAATATAATATATAGTTTTATAAAA
164408 TTTTTTTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
64 47 0.90
65 5 0.10
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (65 bp):
TATAATATATAGTTTTTAAAAACATTTTGAAAATAAATATAATATATAGTTTTATAAAACATTTA
Found at i:164436 original size:77 final size:76
Alignment explanation
Indices: 164334--164496 Score: 220
Period size: 77 Copynumber: 2.1 Consensus size: 76
164324 TAATATATAG
* * **
164334 TTTTTAAAACATTTATATATTATATAGTTTTT-AAAAAGTTTTTGAAAATAAATATAATATATAG
1 TTTTTAAAAAATATATATATTATATAGTTTTTAAAAAAACTTTTGAAAA-AAATATAATATATAG
*
164398 TTTTATAAAATTT
65 TTTTA-AAAATAT
* *
164411 TTTTTAAAAAATATATATATTATATAGTTTTTAAAAAAAACTTTTGAAAAACATATAATATATAT
1 TTTTTAAAAAATATATATATTATATAGTTTTT-AAAAAAACTTTTGAAAAAAATATAATATATAG
164476 TTTTAAAAATAT
65 TTTTAAAAATAT
*
164488 TTTTGAAAA
1 TTTTTAAAA
164497 CTATATAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
77 44 0.58
78 18 0.24
79 14 0.18
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (76 bp):
TTTTTAAAAAATATATATATTATATAGTTTTTAAAAAAACTTTTGAAAAAAATATAATATATAGT
TTTAAAAATAT
Found at i:164461 original size:40 final size:39
Alignment explanation
Indices: 164334--164503 Score: 163
Period size: 40 Copynumber: 4.4 Consensus size: 39
164324 TAATATATAG
* *
164334 TTTTT-AAAACATTTATATATTATATAGTTTTT-AAAAAG
1 TTTTTGAAAA-ATATATATATTATATAGTTTTTAAAAAAA
* * ***
164372 TTTTTG-AAAATAAATATAATATATAGTTTTATAAAATTT
1 TTTTTGAAAAATATATATATTATATAGTTTT-TAAAAAAA
*
164411 TTTTTAAAAAATATATATATTATATAGTTTTTAAAAAAAA
1 TTTTTGAAAAATATATATATTATATAGTTTTT-AAAAAAA
* * *
164451 CTTTTGAAAAACATATA-A-TATATA-TTTTTAAAAATA
1 TTTTTGAAAAATATATATATTATATAGTTTTTAAAAAAA
*
164487 TTTTTGAAAACTATATA
1 TTTTTGAAAAATATATA
164504 ATTTTGAAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
36 20 0.19
37 23 0.21
38 15 0.14
39 10 0.09
40 40 0.37
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (39 bp):
TTTTTGAAAAATATATATATTATATAGTTTTTAAAAAAA
Found at i:164489 original size:12 final size:12
Alignment explanation
Indices: 164472--164564 Score: 62
Period size: 12 Copynumber: 7.3 Consensus size: 12
164462 CATATAATAT
164472 ATATTTTTAAAA
1 ATATTTTTAAAA
164484 ATATTTTTGAAAA
1 ATATTTTT-AAAA
*
164497 CTATATAATTTTGAAA
1 --ATAT--TTTTAAAA
*
164513 ACATTTTTAAAA
1 ATATTTTTAAAA
* * * *
164525 AAATATATAATAT
1 ATATTTTTAA-AA
*
164538 ATAATTTT-AAA
1 ATATTTTTAAAA
164549 ATATTTTTAAAA
1 ATATTTTTAAAA
164561 ATAT
1 ATAT
164565 ATATTATATA
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
11 8 0.13
12 30 0.49
13 9 0.15
14 3 0.05
15 4 0.07
16 3 0.05
17 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:164513 original size:29 final size:30
Alignment explanation
Indices: 164467--164535 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
164457 AAAAACATAT
* * *
164467 AATATATATTTTTAAAAATATTTTT-GAAA
1 AATATATAATTTTAAAAACATTTTTAAAAA
* *
164496 ACTATATAATTTTGAAAACATTTTTAAAAA
1 AATATATAATTTTAAAAACATTTTTAAAAA
164526 AATATATAAT
1 AATATATAAT
164536 ATATAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (30 bp):
AATATATAATTTTAAAAACATTTTTAAAAA
Found at i:164520 original size:78 final size:79
Alignment explanation
Indices: 164334--164527 Score: 186
Period size: 77 Copynumber: 2.5 Consensus size: 79
164324 TAATATATAG
* * * * **
164334 TTTTT-AAAACATTTATATATTATATAGTTTTT--AAAAAGTTTTTGAAAATAAATATAATATAT
1 TTTTTGAAAAAATATATATATTATAAAATTTTTAAAAAAAACTTTTGAAAATAAATATAATATAT
*
164396 AGTTTTATAAAATT
66 AGTTTTATAAAATA
* * * *
164410 TTTTTTAAAAAATATATATATTATATAGTTTTTAAAAAAAACTTTTGAAAA-ACATATAATATAT
1 TTTTTGAAAAAATATATATATTATAAAATTTTTAAAAAAAACTTTTGAAAATAAATATAATATAT
*
164474 ATTTTTA-AAAATA
66 AGTTTTATAAAATA
* *
164487 TTTTTG-AAAACTATATA-ATTTTGAAAACATTTTTAAAAAAA
1 TTTTTGAAAAAATATATATATTAT--AAA-ATTTTTAAAAAAA
164528 TATATAATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
75 4 0.04
76 15 0.15
77 37 0.37
78 30 0.30
79 14 0.14
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (79 bp):
TTTTTGAAAAAATATATATATTATAAAATTTTTAAAAAAAACTTTTGAAAATAAATATAATATAT
AGTTTTATAAAATA
Found at i:164531 original size:64 final size:63
Alignment explanation
Indices: 164447--164567 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 63
164437 GTTTTTAAAA
* * *
164447 AAAACTTTTG--AAAAACATATAATATATATTTTTAAAAATATTTTTGAAAACTATATAATTTTG
1 AAAACTTTTGAAAAAAATATATAATATATAATTTT-AAAATATTTTT-AAAAATATATAATTTTG
*
164510 AAAACATTTTTAAAAAAATATATAATATATAATTTTAAAATATTTTTAAAAATATATA
1 AAAAC-TTTTGAAAAAAATATATAATATATAATTTTAAAATATTTTTAAAAATATATA
164568 TTATATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
63 5 0.10
64 14 0.27
65 11 0.22
66 21 0.41
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (63 bp):
AAAACTTTTGAAAAAAATATATAATATATAATTTTAAAATATTTTTAAAAATATATAATTTTG
Found at i:165909 original size:4 final size:4
Alignment explanation
Indices: 165900--166011 Score: 66
Period size: 4 Copynumber: 27.0 Consensus size: 4
165890 AATTCTTTTC
* * * *
165900 TTAT TTAT TTAT TTAT TTA- TAAT TTAAT TTAAT TTAAT TTTT TTCT TTTT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TT-AT TT-AT TTAT TTAT TTAT
* * * *
165950 TTCT TTAT TTCT TTGAT TTAT TTTT TTA- TTACT ATTAT TTTT TTAT TTAT
1 TTAT TTAT TTAT TT-AT TTAT TTAT TTAT TTA-T -TTAT TTAT TTAT TTAT
* *
166000 ATAT TTTT TTAT
1 TTAT TTAT TTAT
166012 ATTTTTTGTC
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
3 5 0.06
4 59 0.69
5 18 0.21
6 3 0.04
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:165919 original size:16 final size:16
Alignment explanation
Indices: 165900--166011 Score: 82
Period size: 16 Copynumber: 6.8 Consensus size: 16
165890 AATTCTTTTC
*
165900 TTATTTATTTATTTAT
1 TTATTTTTTTATTTAT
** *
165916 TTATAATTTAATTTAAT
1 TTATTTTTTTATTT-AT
* *
165933 TTAATTTTTTTCTTTTT
1 TT-ATTTTTTTATTTAT
* * *
165950 TTCTTTATTTCTTTGAT
1 TTATTTTTTTATTT-AT
165967 TTATTTTTTTA-TTACT
1 TTATTTTTTTATTTA-T
165983 ATTATTTTTTTATTTAT
1 -TTATTTTTTTATTTAT
*
166000 ATATTTTTTTAT
1 TTATTTTTTTAT
166012 ATTTTTTGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
15 1 0.01
16 34 0.46
17 28 0.38
18 11 0.15
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (16 bp):
TTATTTTTTTATTTAT
Found at i:165989 original size:21 final size:21
Alignment explanation
Indices: 165945--165999 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
165935 AATTTTTTTC
* *
165945 TTTTTTTCTTTATTTCTTTGA
1 TTTTTTTATTTATTACTTTGA
165966 TTTATTTT-TTTATTACTATT-A
1 TTT-TTTTATTTATTACT-TTGA
165987 TTTTTTTATTTAT
1 TTTTTTTATTTAT
166000 ATATTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.13
21 20 0.67
22 6 0.20
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTTATTTATTACTTTGA
Found at i:165993 original size:18 final size:16
Alignment explanation
Indices: 165968--166011 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
165958 TTCTTTGATT
165968 TATTTTTTTA-TTACTA
1 TATTTTTTTATTTA-TA
165984 TTATTTTTTTATTTATA
1 -TATTTTTTTATTTATA
166001 TATTTTTTTAT
1 TATTTTTTTAT
166012 ATTTTTTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.42
17 12 0.46
18 3 0.12
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTTTTATTTATA
Found at i:169900 original size:110 final size:109
Alignment explanation
Indices: 169703--170029 Score: 444
Period size: 110 Copynumber: 3.0 Consensus size: 109
169693 TGATGGTGGT
** * * * * *
169703 AGCTCAACTTCACAGAAAAGGGGCAACTGAATGTCAACAAACAACTTTTCAATTTCATTCAAAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTCCAGTTTCATTC-GAGT
* *
169768 CAATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAATACA
65 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
* *
169813 AGCTCAACTTGACAGCGAAGGGGCGACTGACTGTTAACAAACAACTTTCCAGTTTCATTTCGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTCCAGTTTCA-TTCGAGT
* * *
169878 CAATTTCAACTTCACAACGAAGGATATTAGACTCTAGACAACACA
65 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
* *
169923 AGCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAACTTTCCAGTTTCA---GAGTC
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTCCAGTTTCATTCGAGTC
* * *
169985 AATTTCAACTTCACGGCGAAGGATATTGGCCTCGAAACAACACA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
170029 A
1 A
170030 ATATTTGGAT
Statistics
Matches: 192, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
106 44 0.23
110 145 0.76
111 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (109 bp):
AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTCCAGTTTCATTCGAGTC
AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
Found at i:170259 original size:84 final size:83
Alignment explanation
Indices: 170127--170511 Score: 533
Period size: 84 Copynumber: 4.6 Consensus size: 83
170117 GGGATCGTGC
* * *
170127 CCACCAAAGGCCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAA
1 CCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
*
170192 GTAGAGAAGGGTTATCTG
66 GTCGAGAAGGGTTATCTG
170210 CCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTA
1 CC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTA
170275 AGTCGAGAAGGGTTATCT-
65 AGTCGAGAAGGGTTATCTG
* * * * * * *
170293 --ACCAAAGACCCTCGAGTTCAATTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCA
1 CCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTA
* *
170356 AGGCTAGAAGGGTTATCTG
65 AGTCGAGAAGGGTTATCTG
* * * *
170375 TCACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAACATAACTTA
1 CCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTA
*
170440 AGTCGAGAAGGGTTATATG
65 AGTCGAGAAGGGTTATCTG
* *
170459 CCAACCAAATAGCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
1 CC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
170512 TAACATCCTC
Statistics
Matches: 264, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
80 32 0.12
81 39 0.15
83 2 0.01
84 160 0.61
85 31 0.12
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (83 bp):
CCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
GTCGAGAAGGGTTATCTG
Found at i:170400 original size:165 final size:164
Alignment explanation
Indices: 170155--170510 Score: 489
Period size: 165 Copynumber: 2.1 Consensus size: 164
170145 TTTGACTACG
* * * *
170155 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACCAAAG
1 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGAGAGAAGGGTTATCTGCCAACCAAAG
* *
170220 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAG
66 ACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAG
170285 GGTTATCTACCAAAGACCCTCGAGTTCAATTACA
131 GGTTATCTACCAAAGACCCTCGAGTTCAATTACA
* ** *
170319 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAA
1 CTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGAGAGAAGGGTTATCTGCCAACC-AA
*
170383 AGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGA
64 AGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGA
* * * * * * *
170448 AGGGTTATATGCCAACCAAATAGCTTCGAGTTCGACTACG
129 AGGG-T-TAT--CTACCAAAGACCCTCGAGTTCAATTACA
170488 CTCAGCTCCAAGGCACATCATTT
1 CTCAGCTCCAAGGCACATCATTT
170511 GTAACATCCT
Statistics
Matches: 167, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
164 13 0.08
165 107 0.64
166 1 0.01
167 3 0.02
168 12 0.07
169 31 0.19
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (164 bp):
CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGAGAGAAGGGTTATCTGCCAACCAAAG
ACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAG
GGTTATCTACCAAAGACCCTCGAGTTCAATTACA
Found at i:172372 original size:24 final size:24
Alignment explanation
Indices: 172309--172374 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
172299 CAATCTTATA
*
172309 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTACGGTGCAAATTCTACG
* ** *
172332 CGGCACTTTGGTACAAATTCTACG
1 TGGCACTACGGTGCAAATTCTACG
172356 TGGCACTACGGTGCAAATT
1 TGGCACTACGGTGCAAATT
172375 TATACGAGAT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (24 bp):
TGGCACTACGGTGCAAATTCTACG
Found at i:173588 original size:84 final size:82
Alignment explanation
Indices: 173406--174222 Score: 750
Period size: 84 Copynumber: 9.9 Consensus size: 82
173396 CTGGGGTATT
* * * ** *
173406 ACATCATTTGCAGCATAGCTTAAGTCGAGAATGACTATCTG-C-CAAAGACCCTT-GAGTTCGAT
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACAAAGA-CCTTCGAGTTCGAC
* * *
173468 TACACTCATCTTCGAGGGC
65 TACGCTCAGC-TCGAAGGC
* * *
173487 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACTAAAAGACCTTCGAGTTCGA
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAC--AAAGACCTTCGAGTTCGA
* * *
173552 CTACGCTCAACTCCATGGC
64 CTACGCTCAGCTCGAAGGC
* * * * * *
173571 ATATCATTTCCAGCATAACTTAAGTCAATAAGGGTTATATGCCAATCAAAGACCTTCGAGTTCGA
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-A-CAAAGACCTTCGAGTTCGA
*
173636 CTACGCTCAGCTCTAAGGC
64 CTACGCTCAGCTCGAAGGC
* * * * * *
173655 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATG-C-CAAAGACCCTCGAATT--AC-
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACT
*
173715 A--CTCAGCTTCGAGGGC
66 ACGCTCAGC-TCGAAGGC
* * * *
173731 ATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGA
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-A-CAAAGACCTTCGAGTTCGA
* *
173796 CTACGCTCAGCTCCAAGGA
64 CTACGCTCAGCTCGAAGGC
* * * * * * *
173815 ACATCATTTGCAGTATAGCTTAAGTCTAGAAGGGTTATCTG-C-CAAAGACCGTCGAGTTAGATT
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACT
* *
173878 ACACTCAGCTTCGAGGGC
66 ACGCTCAGC-TCGAAGGC
* * * *
173896 ACATCATTTACAGCATAACTCAA-TGCTAGAAGGGTTATCTGTCACCAAAAAACCATCGAGTTCG
1 ACATCATTTACAGCATAACTTAAGT-CGAGAAGGGTTATCTGTCA-C-AAAGACCTTCGAGTTCG
*
173960 ACTACGCTCAGCTCTAAGGC
63 ACTACGCTCAGCTCGAAGGC
* * *
173980 ACATCATTTACAGCATAACCTAAGTCGAGAAGGGTTATC--T-ACTAAAGACCCTCGAGTTCGAT
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAC-AAAGACCTTCGAGTTCGAC
* *
174042 TACACTCAGCATCGAGGGC
65 TACGCTCAGC-TCGAAGGC
* * *
174061 ACATCATTTACAGCATAACTCAAGGT-TAGAATGGTTATCTGTCACCAAAAGACCTTCGAGTTCG
1 ACATCATTTACAGCATAACTTAA-GTCGAGAAGGGTTATCTGTCA-C-AAAGACCTTCGAGTTCG
* *
174125 ACTACGCTCAACTCCAAGGC
63 ACTACGCTCAGCTCGAAGGC
* * * *
174145 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCTTCGAGTTCGA
1 ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-A-CAAAGACCTTCGAGTTCGA
* *
174210 TTACACTCAGCTC
64 CTACGCTCAGCTC
174223 AGAGGCAAAC
Statistics
Matches: 606, Mismatches: 98, Indels: 61
0.79 0.13 0.08
Matches are distributed among these distances:
75 6 0.01
76 43 0.07
77 2 0.00
78 2 0.00
80 79 0.13
81 112 0.18
82 7 0.01
83 7 0.01
84 265 0.44
85 82 0.14
86 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (82 bp):
ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCGAAGGC
Found at i:173963 original size:165 final size:165
Alignment explanation
Indices: 173447--174221 Score: 897
Period size: 165 Copynumber: 4.7 Consensus size: 165
173437 TGACTATCTG
* * * * * * * *
173447 CCAAAGACCCTT-GAGTTCGATTACACTCATCTTCGAGGGCACATCATTTACAGCATAACTCAAG
1 CCAAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAG
* * * * * * * * *
173511 GCTAGAAGGGTTATCTGTCACTAAAAGACCTTCGAGTTCGACTACGCTCAAC-TCCATGGCATAT
64 TCGAGAAGGGTTATCTG-C-C--AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * * *
173575 CATTTCCAGCATAACTTAAGTCAATAAGGGTTATATGCCAA
125 CATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAA
* *
173616 TCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
* * * *
173681 GAGAAGGGCTATATGCCAAAGACCCTCGA-----ATTACACTCAGCTTCGAGGGCATATCATTTG
66 GAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
* *
173741 CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
131 CAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAA
* * *
173776 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGTATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
* * *
173841 TAGAAGGGTTATCTGCCAAAGACCGTCGAGTTAGATTACACTCAGCTTCGAGGGCACATCATTTA
66 GAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
*
173906 CAGCATAACTCAA-TGCTAGAAGGGTTATCTGTC-A
131 CAGCATAACTCAAGT-CTAGAAGGGTTATCTGCCAA
* * * * * *
173940 CCAAAAAACCATCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAACCTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * *
174005 CGAGAAGGGTTATCTACTAAAGACCCTCGAGTTCGATTACACTCAGCATCGAGGGCACATCATTT
65 CGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* *
174070 ACAGCATAACTCAAGGT-TAGAATGGTTATCTGTC-A
130 ACAGCATAACTCAA-GTCTAGAAGGGTTATCTGCCAA
*
174105 CCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
*
174170 CGAGAAGGGTTATCTGCCAACCGAAGACCTTCGAGTTCGATTACACTCAGCT
65 CGAGAAGGGTTATCTGCC-A---AAGACCCTCGAGTTCGATTACACTCAGCT
174222 CAGAGGCAAA
Statistics
Matches: 527, Mismatches: 64, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
159 9 0.02
160 132 0.25
164 15 0.03
165 274 0.52
166 2 0.00
167 2 0.00
168 44 0.08
169 49 0.09
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (165 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
GAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
CAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAA
Found at i:174943 original size:70 final size:70
Alignment explanation
Indices: 174869--175126 Score: 226
Period size: 70 Copynumber: 3.6 Consensus size: 70
174859 GAAAATATGT
* *
174869 ATATAATATATGGTTTTTAAAACACTTTTGAAAACTGTATAATATATAGTTTTTTTTAAAACATT
1 ATATAATATATAGTTTTTAAAACA-TTTTGAAAACTATATAATATATAGTTTTTTTTAAAACATT
174934 TTG-AA
65 TTGAAA
* **
174939 ATAT-ATAATATAGTTTTTAAAACATTTTGAAAAC-AT-TTATATATTATGTAGTTTTTAAAACG
1 ATATAAT-ATATAGTTTTTAAAACATTTTGAAAACTATATAATATA-TA-GTTTTTTTTAAAAC-
*
175001 TTTTTGAAATAA
62 ATTTTG--A-AA
* * * ** *
175013 ATATAATATATAGTTTTTCAAA-ATTTCTGAAAA-AATATATTATATAG-TTTTTAAAAAACCTT
1 ATATAATATATAGTTTTTAAAACATTT-TGAAAACTATATAATATATAGTTTTTTTTAAAACATT
175075 TTGAAAAA
65 TTG--AAA
175083 CATATAATATATA-TTTTTAAAAACATTTTTGAAAACTATATAAT
1 -ATATAATATATAGTTTTT-AAAACA-TTTTGAAAACTATATAAT
175127 TTTGAAAACA
Statistics
Matches: 154, Mismatches: 17, Indels: 31
0.76 0.08 0.15
Matches are distributed among these distances:
67 6 0.04
68 3 0.02
69 24 0.16
70 32 0.21
71 23 0.15
72 15 0.10
73 14 0.09
74 30 0.19
75 7 0.05
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (70 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAACTATATAATATATAGTTTTTTTTAAAACATTT
TGAAA
Found at i:175006 original size:108 final size:105
Alignment explanation
Indices: 174850--175126 Score: 280
Period size: 108 Copynumber: 2.6 Consensus size: 105
174840 CATAGTTTGC
* * * * *
174850 AAACAGTTTGAAAATATGTATATAATATATGGTTTTTAAAACACTTTTGAAAACTGTATAATATA
1 AAACATTTTGAAAACAT-TATAT-ATATATAGTTTTTAAAACATTTTTGAAAACTATATAATATA
174915 TAGTTTTTTTTAAAACATTT-TG-AAATATATAATATAGTTTTT-A
64 TAG---TTTTTAAAA-ATTTCTGAAAATATATAATATAGTTTTTAA
* * *
174958 AAACATTTTGAAAACATTTATATATTATGTAGTTTTTAAAACGTTTTTGAAATA-AATATAATAT
1 AAACATTTTGAAAACA-TTATATA-TATATAGTTTTTAAAACATTTTTGAAA-ACTATATAATAT
* *
175022 ATAGTTTTTCAAAATTTCTGAAAAAATATATTATATAGTTTTTAAA
63 ATAGTTTTTAAAAATTTCTG--AAAATATATAATATAGTTTTT-AA
*
175068 AAACCTTTTGAAAAACA-TATA-ATATATA-TTTTTAAAAACATTTTTGAAAACTATATAAT
1 AAACATTTTG-AAAACATTATATATATATAGTTTTT-AAAACATTTTTGAAAACTATATAAT
175127 TTTGAAAACA
Statistics
Matches: 143, Mismatches: 14, Indels: 25
0.79 0.08 0.14
Matches are distributed among these distances:
104 4 0.03
105 10 0.07
106 6 0.04
107 27 0.19
108 74 0.52
109 6 0.04
110 10 0.07
111 6 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (105 bp):
AAACATTTTGAAAACATTATATATATATAGTTTTTAAAACATTTTTGAAAACTATATAATATATA
GTTTTTAAAAATTTCTGAAAATATATAATATAGTTTTTAA
Found at i:175134 original size:29 final size:29
Alignment explanation
Indices: 175088--175155 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
175078 AAAAACATAT
* *
175088 AATATATATTTTTAAAAACATTTTTGAAA
1 AATATATAATTTTAAAAACATTTTTAAAA
* *
175117 ACTATATAATTTTGAAAACATTTTTAAAA
1 AATATATAATTTTAAAAACATTTTTAAAA
175146 AATATATAAT
1 AATATATAAT
175156 ATATAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (29 bp):
AATATATAATTTTAAAAACATTTTTAAAA
Found at i:175181 original size:34 final size:35
Alignment explanation
Indices: 174868--175201 Score: 232
Period size: 36 Copynumber: 9.5 Consensus size: 35
174858 TGAAAATATG
* * *
174868 TATATAATATATGGTTTTTAAAACACTTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACA-TTTTTAAAAA
* *
174904 TGTATAATATATAGTTTTTTTTAAAACA-TTTT-GAAA
1 TATATAATATATAG---TTTTTAAAACATTTTTAAAAA
*
174940 TATAT-A-ATATAGTTTTTAAAACATTTTGAAAACA
1 TATATAATATATAGTTTTTAAAACATTTTTAAAA-A
* * *
174974 TTTATATATTATGTAGTTTTTAAAACGTTTTTGAAATAA
1 --TATATAATATATAGTTTTTAAAACATTTTT-AAA-AA
* *
175013 -ATATAATATATAGTTTTTCAAA-ATTTCTGAAAAA
1 TATATAATATATAGTTTTTAAAACATTT-TTAAAAA
* * *
175047 -ATATATTATATAGTTTTTAAAAAACCTTTTGAAAAA
1 TATATAATATATAGTTTTT--AAAACATTTTTAAAAA
* *
175083 CATATAATATATA-TTTTTAAAAACATTTTT-GAAA
1 TATATAATATATAGTTTTT-AAAACATTTTTAAAAA
* *
175117 -A-CT-ATATA-A-TTTTGAAAACATTTTTAAAAAA
1 TATATAATATATAGTTTTTAAAACATTTTT-AAAAA
* *
175148 TATATAATATATA-ATTTTAAAATATTTTTAAAAA
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAA
175182 TATAT-ATAATATAGATTTTT
1 TATATAAT-ATATAG-TTTTT
175202 GGAAAATATT
Statistics
Matches: 240, Mismatches: 32, Indels: 52
0.74 0.10 0.16
Matches are distributed among these distances:
29 11 0.05
30 5 0.02
31 19 0.08
32 5 0.02
33 6 0.03
34 49 0.20
35 31 0.13
36 62 0.26
37 17 0.07
38 19 0.08
39 15 0.06
40 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAACATTTTTAAAAA
Found at i:175240 original size:21 final size:20
Alignment explanation
Indices: 175216--175301 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
175206 AATATTATTT
175216 TTTAGTTTATTTTTATTTTAA
1 TTTA-TTTATTTTTATTTTAA
175237 TTTATTTACCTTATTTA-TTT-A
1 TTTATTTA--TT-TTTATTTTAA
*
175258 TTTA-TTATTATTATTATTAA
1 TTTATTTATTTTTATT-TTAA
*
175278 -TTATTTTAATTTTAATTTTAA
1 TTTA-TTT-ATTTTTATTTTAA
175299 TTT
1 TTT
175302 TGTTGCAGGG
Statistics
Matches: 52, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
17 3 0.06
18 3 0.06
19 5 0.10
20 8 0.15
21 15 0.29
22 14 0.27
23 4 0.08
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (20 bp):
TTTATTTATTTTTATTTTAA
Found at i:176524 original size:15 final size:14
Alignment explanation
Indices: 176504--176660 Score: 81
Period size: 15 Copynumber: 10.6 Consensus size: 14
176494 AATATTTTCT
176504 TTTATTTTTTTCTTA
1 TTTATTTTTTT-TTA
*
176519 TTTA-TTTTTTTAA
1 TTTATTTTTTTTTA
** *
176532 TTTAATTTAATTTAA
1 TTT-ATTTTTTTTTA
* *
176547 TTTA-ATTTATTTA
1 TTTATTTTTTTTTA
176560 TTTTATTTTTTCTTTA
1 -TTTATTTTTT-TTTA
*
176576 TTTCTTTTTTCCTTTGA
1 TTTATTTTTT--TTT-A
176593 TTTATTTTTTTATTA
1 TTTATTTTTTT-TTA
176608 CTATTATTTTTTTTTA
1 -T-TTATTTTTTTTTA
176624 --TATTTTTTTGTCT-
1 TTTATTTTTTT-T-TA
**
176637 TTTCATTTTTAATTA
1 TTT-ATTTTTTTTTA
176652 TTTATTTTT
1 TTTATTTTT
176661 CTATCTAACA
Statistics
Matches: 112, Mismatches: 14, Indels: 33
0.70 0.09 0.21
Matches are distributed among these distances:
12 9 0.08
13 10 0.09
14 20 0.18
15 33 0.29
16 20 0.18
17 20 0.18
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTATTTTTTTTTA
Found at i:176525 original size:4 final size:4
Alignment explanation
Indices: 176504--176606 Score: 52
Period size: 4 Copynumber: 24.5 Consensus size: 4
176494 AATATTTTCT
*
176504 TTTA TTT- TTT- TCTTA TTTA TTTT TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTT-A TTT-A TTT-A TTT-A TTT-A
* * * *
176552 TTTA TTTA TTTTA TTT- TTTC TTTA TTTC TTT- TTTCC TTTGA TTTA TTTT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTT-A TTTA TTTA
176601 TTTA TT
1 TTTA TT
176607 ACTATTATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
3 10 0.12
4 40 0.48
5 34 0.40
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:176542 original size:10 final size:10
Alignment explanation
Indices: 176527--176564 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
176517 TATTTATTTT
176527 TTTAATTTAA
1 TTTAATTTAA
176537 TTTAATTTAA
1 TTTAATTTAA
176547 TTTAATTT-A
1 TTTAATTTAA
*
176556 TTTATTTTA
1 TTTAATTTA
176565 TTTTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTAATTTAA
Found at i:176577 original size:16 final size:16
Alignment explanation
Indices: 176556--176638 Score: 59
Period size: 16 Copynumber: 5.2 Consensus size: 16
176546 ATTTAATTTA
176556 TTTATTTTATTTTTTC
1 TTTATTTTATTTTTTC
*
176572 TTTATTTCT-TTTTTCC
1 TTTATTT-TATTTTTTC
176588 TTTGA-TTTATTTTTT-
1 TTT-ATTTTATTTTTTC
*
176603 TATTACTATTATTTTTT-
1 T-TTA-TTTTATTTTTTC
*
176620 TTTATATTT-TTTTGTC
1 TTTAT-TTTATTTTTTC
176636 TTT
1 TTT
176639 TCATTTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
15 9 0.17
16 33 0.61
17 12 0.22
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTATTTTATTTTTTC
Found at i:176595 original size:17 final size:15
Alignment explanation
Indices: 176556--176638 Score: 64
Period size: 17 Copynumber: 5.2 Consensus size: 15
176546 ATTTAATTTA
176556 TTTATTTTATTTTTTC
1 TTTA-TTTATTTTTTC
*
176572 TTTATTTCTTTTTTCC
1 TTTATTTATTTTTT-C
176588 TTTGATTTATTTTTT-
1 TTT-ATTTATTTTTTC
176603 TATTACTATTATTTTTT-
1 T-TTA-T-TTATTTTTTC
176620 TTTATATT-TTTTTGTC
1 TTTAT-TTATTTTT-TC
176636 TTT
1 TTT
176639 TCATTTTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.09
15 16 0.28
16 17 0.29
17 20 0.34
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTTTTC
Found at i:176616 original size:21 final size:20
Alignment explanation
Indices: 176551--176616 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
176541 ATTTAATTTA
*
176551 ATTTATTTATTTTATTTTTT
1 ATTTATTTATTTTATTCTTT
* *
176571 CTTTATTTCTTTT-TTCCTTT
1 ATTTATTTATTTTATT-CTTT
176591 GATTTATTT-TTTTATTACTATT
1 -ATTTATTTATTTTATT-CT-TT
176613 ATTT
1 ATTT
176617 TTTTTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.05
20 18 0.49
21 15 0.41
22 2 0.05
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTATTTATTTTATTCTTT
Found at i:177222 original size:16 final size:18
Alignment explanation
Indices: 177194--177228 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
177184 TAATATATAT
177194 TTTTTATTGTTTT-AAAA
1 TTTTTATTGTTTTGAAAA
177211 TTTTTATT-TTTTGAAAA
1 TTTTTATTGTTTTGAAAA
177228 T
1 T
177229 ATAAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTTATTGTTTTGAAAA
Found at i:177382 original size:48 final size:48
Alignment explanation
Indices: 177299--177476 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 48
177289 AGATGTACAT
* * *
177299 ACTTACACCGGTGTAAGTATGTATTAAGTGTTACACTTTTTTTTATTC
1 ACTTACACCGGTATAAGTATGTGTTAAGTGATACACTTTTTTTTATTC
* * *
177347 ACTTACACCGGTGTAAGTATGTGTTAACTAATACACTTTTTTATTTTATTC
1 ACTTACACCGGTATAAGTATGTGTTAAGTGATACAC--TTTT-TTTTATTC
* * * *
177398 ACTTACACCGGTATAAGTATATGTTGAGTGCTACATTTTTTTTATATTATGC
1 ACTTACACCGGTATAAGTATGTGTTAAGTGATACACTTTTTTT-TA-T-T-C
*
177450 ACTTACACCGGTATAAGTTTGTGTTAA
1 ACTTACACCGGTATAAGTATGTGTTAA
177477 ATTCTTCATT
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
48 35 0.32
49 6 0.06
50 5 0.05
51 38 0.35
52 25 0.23
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (48 bp):
ACTTACACCGGTATAAGTATGTGTTAAGTGATACACTTTTTTTTATTC
Found at i:177460 original size:52 final size:50
Alignment explanation
Indices: 177299--177476 Score: 191
Period size: 52 Copynumber: 3.5 Consensus size: 50
177289 AGATGTACAT
* * *
177299 ACTTACACCGGTGTAAGTATGTATTAAGTGTTACACTTTTTTT-TA-T-TC
1 ACTTACACCGGTATAAGTATGTGTTAAGTGATACA-TTTTTTTATATTATC
* * * * *
177347 ACTTACACCGGTGTAAGTATGTGTTAACTAATACACTTTTTTATTTTATTC
1 ACTTACACCGGTATAAGTATGTGTTAAGTGATACATTTTTTTATATTA-TC
* * *
177398 ACTTACACCGGTATAAGTATATGTTGAGTGCTACATTTTTTTTATATTATGC
1 ACTTACACCGGTATAAGTATGTGTTAAGTGATACA-TTTTTTTATATTAT-C
*
177450 ACTTACACCGGTATAAGTTTGTGTTAA
1 ACTTACACCGGTATAAGTATGTGTTAA
177477 ATTCTTCATT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
47 6 0.06
48 32 0.30
49 1 0.01
51 32 0.30
52 36 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (50 bp):
ACTTACACCGGTATAAGTATGTGTTAAGTGATACATTTTTTTATATTATC
Found at i:181326 original size:12 final size:12
Alignment explanation
Indices: 181283--181332 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
181273 CAAAGCATTT
181283 TTATTTTACTTG
1 TTATTTTACTTG
181295 TTTATTTT--TTG
1 -TTATTTTACTTG
181306 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
181320 TTATTTTCCTTG
1 TTATTTTACTTG
181332 T
1 T
181333 CTTTTTTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 1 0.03
11 5 0.16
12 13 0.41
13 9 0.28
14 4 0.12
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.68
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:187770 original size:12 final size:12
Alignment explanation
Indices: 187753--187777 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
187743 AAATATGCAT
187753 GTTGATCTACAA
1 GTTGATCTACAA
187765 GTTGATCTACAA
1 GTTGATCTACAA
187777 G
1 G
187778 AAGTAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GTTGATCTACAA
Done.