Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000196.1 Hibiscus syriacus cultivar Beakdansim tig00000349_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: 116223
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3043 original size:21 final size:22
Alignment explanation
Indices: 3003--3059 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
2993 ATTTAATTTG
* *
3003 AATGAATATTTATCATTAAAC-A
1 AATGAAT-TATATAATTAAACGA
3025 AATGAATTATATAATTAAACGA
1 AATGAATTATATAATTAAACGA
3047 AA-GAATTATATAA
1 AATGAATTATATAA
3060 AAGGAAGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.33
Consensus pattern (22 bp):
AATGAATTATATAATTAAACGA
Found at i:3200 original size:22 final size:22
Alignment explanation
Indices: 3175--3224 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
3165 ATTTTATTTA
**
3175 CAAACCAGACTTAAACCAAACC
1 CAAACCAGACCCAAACCAAACC
*
3197 CAAACCAGGCCCAAACCAAACC
1 CAAACCAGACCCAAACCAAACC
3219 CAAACC
1 CAAACC
3225 TGGGCCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.48, C:0.42, G:0.06, T:0.04
Consensus pattern (22 bp):
CAAACCAGACCCAAACCAAACC
Found at i:3201 original size:11 final size:11
Alignment explanation
Indices: 3187--3224 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
3177 AACCAGACTT
3187 AAACCAAACCC
1 AAACCAAACCC
**
3198 AAACCAGGCCC
1 AAACCAAACCC
3209 AAACCAAACCC
1 AAACCAAACCC
3220 AAACC
1 AAACC
3225 TGGGCCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.50, C:0.45, G:0.05, T:0.00
Consensus pattern (11 bp):
AAACCAAACCC
Found at i:5293 original size:131 final size:130
Alignment explanation
Indices: 5058--5451 Score: 565
Period size: 131 Copynumber: 3.0 Consensus size: 130
5048 ACAAATAACA
* * *
5058 CTCGAATTAATATTAAATTTTAGGATGAAATAGTAATATCTCTTCATTTTGATTGGAGTAATAAA
1 CTCGAATCAATATTGAATTTTAGGA-GAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
* * *
5123 TTATTGCTTTAAGGCATGAGAGGTCATTTATTCTTGATTGGAAATAATGAGATATTATCGTTTTC
65 TGAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATGAGATATTATCGTTTTC
5188 T
130 T
* * *
5189 CTCGAATCAATATTGAATTTTAGGACGAAATAGTAATATATTTTCAATTCGATTGGAGTAATAAA
1 CTCGAATCAATATTGAATTTTAGGA-GAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
* * * *
5254 TGGATGCTTTAAGGCATAAGAGGTCAATTATTCTCGATTGGAAATAATGAGATATTATCTTTTTC
65 TGAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATGAGATATTATCGTTTTC
*
5319 C
130 T
* * * * * *
5320 CTTGAATCAATATTGAACTTTAGGAAAAATAGTAGTATCTCTTCATTTCAATTGGAGCAATAAAT
1 CTCGAATCAATATTGAATTTTAGGAGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
* *
5385 GAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGA-TGGAAATAATTAGATATTATAGTTTTCT
66 GAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATGAGATATTATCGTTTTCT
5449 CTC
1 CTC
5452 TTAAAATTCA
Statistics
Matches: 231, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
129 26 0.11
130 66 0.29
131 139 0.60
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (130 bp):
CTCGAATCAATATTGAATTTTAGGAGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
GAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATGAGATATTATCGTTTTCT
Found at i:6630 original size:45 final size:45
Alignment explanation
Indices: 6532--6635 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
6522 GCACATTGAA
* *
6532 TGTGCATCGATGCA-CTCTTTAAAGAAGAAACATCGAATGCAAAT
1 TGTGCATCGATGCATCCCTTTAAAGAAGAAACATCGAAGGCAAAT
* * * *
6576 GGTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATT
1 TGTGCATCGATGCATCCCTTTAAAGAAG-AAACATCGAAGGCAAAT
*
6621 TGTGTATCGATGCAT
1 TGTGCATCGATGCAT
6636 GGGTAGTGCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 15 0.30
45 35 0.70
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (45 bp):
TGTGCATCGATGCATCCCTTTAAAGAAGAAACATCGAAGGCAAAT
Found at i:6690 original size:20 final size:22
Alignment explanation
Indices: 6642--6699 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
6632 GCATGGGTAG
6642 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
*
6666 TGCATCGATGCACTG-T-AGCA
1 TGCATCGATGCACTGTTAAGAA
6686 TGCATCGATGCACT
1 TGCATCGATGCACT
6700 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:7678 original size:31 final size:31
Alignment explanation
Indices: 7640--7747 Score: 139
Period size: 31 Copynumber: 3.5 Consensus size: 31
7630 AGAGTCGAGG
* * *
7640 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGGGACCTATGGACA
*
7671 GTTTACCTAGGTTCTTCGGGACCTATGGATA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
*
7702 GTTTACCTAGGTTCGTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
*
7733 GTTT-CCGAGGTTCTT
1 GTTTACCTAGGTTCTT
7748 TCTGACCTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 9 0.13
31 57 0.84
32 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGACCTATGGACA
Found at i:7777 original size:29 final size:30
Alignment explanation
Indices: 7721--7792 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
7711 GGTTCGTCGG
* * * *
7721 GACCTATGGACAGTTTCCGAGGTTCTTTCT
1 GACCTCTGGATAGTTACCGAGGGTCTTTCT
*
7751 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGGTCTTTCT
7780 GACCTCTGGATAG
1 GACCTCTGGATAG
7793 GTCATTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTTTCT
Found at i:10175 original size:13 final size:13
Alignment explanation
Indices: 10144--10168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10134 ATGGAATTAA
10144 CACATTTTGCATT
1 CACATTTTGCATT
10157 CACATTTTGCAT
1 CACATTTTGCAT
10169 ATACATTCGC
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:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (13 bp):
CACATTTTGCATT
Found at i:10945 original size:2 final size:2
Alignment explanation
Indices: 10938--10964 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10928 AGAAACACTT
10938 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 T
10965 TGAAGGGAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11931 original size:157 final size:158
Alignment explanation
Indices: 11603--12018 Score: 577
Period size: 157 Copynumber: 2.6 Consensus size: 158
11593 CTTGATTTCA
* * * * *
11603 TTATTTCTTCAATTCCTCATTCATTTTAAGTCTATTTTTTTACCAATTTTGAACCACATACTCCT
1 TTATTTCTTCAATTCATCATTTATTTTAAGTCCA-TTTTTTACCAAATTTGAACCACATGCTCCT
*
11668 AAACCATAGTAGAAAACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCA
65 AAACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCA
*
11733 ATTTAATCTTTCAATTTTTCATAATCTCC
130 ATTTAATCTTTCAAATTTTCATAATCTCC
*
11762 TTATTTCTTCAATTCATCATTTATTTTAAGTCCATTTTTTACCAAATTTGAGCCACATGCTCCTA
1 TTATTTCTTCAATTCATCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTA
11827 AACCATAGTAGAATACATGTGTACTTTCAATTCCTC-TTTTGATAACAAATTTTTTATTTTTCAA
66 AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCAA
*
11891 TTTAGTAC-TTCAAATTTTCATAATCTCC
131 TTTAAT-CTTTCAAATTTTCATAATCTCC
* ** * * *
11919 TTATTCCTTCAATTTGTGATTTATTTTAAGTCACTTTGTTTTTACAAAATTTGAACCACATGCTC
1 TTATTTCTTCAATTCATCATTTATTTTAAGTC-C-AT-TTTTTACCAAATTTGAACCACATGCTC
* * * * *
11984 ATATACCACAATAGAATACATATGTAACTTT-AATT
63 CTAAACCATAGTAGAATACATGTGT-ACTTTCAATT
12019 GTTATTTTTC
Statistics
Matches: 231, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
157 80 0.35
158 65 0.28
159 32 0.14
160 49 0.21
161 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (158 bp):
TTATTTCTTCAATTCATCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTA
AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCAA
TTTAATCTTTCAAATTTTCATAATCTCC
Found at i:12844 original size:28 final size:28
Alignment explanation
Indices: 12812--12868 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
12802 TTCGTGTTCA
*
12812 TTCGGTTCTAGAGAAAAATCCAGTTTCC
1 TTCGGTTATAGAGAAAAATCCAGTTTCC
12840 TTCGGTTATAGAGAAAAATCCAGTTTCC
1 TTCGGTTATAGAGAAAAATCCAGTTTCC
12868 T
1 T
12869 GTGAACAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (28 bp):
TTCGGTTATAGAGAAAAATCCAGTTTCC
Found at i:13747 original size:3 final size:3
Alignment explanation
Indices: 13736--13785 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
13726 TTAATAATGC
13736 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13782 TAA T
1 TAA T
13786 TAAAACCTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16376 original size:44 final size:44
Alignment explanation
Indices: 16311--16410 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 44
16301 ATGGATAAAC
**
16311 AAAATTGCATAACGGTGCATTATTGGCTGAAAGGTGCCATAAATG
1 AAAA-TGCATAACGGTGCATTATTGGAAGAAAGGTGCCATAAATG
* * *
16356 AAAATGCATAATGGTTCATTATTGGAAGAAATGTGCCATAAATG
1 AAAATGCATAACGGTGCATTATTGGAAGAAAGGTGCCATAAATG
16400 AAAATGCATAA
1 AAAATGCATAA
16411 ATTACCATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 46 0.92
45 4 0.08
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (44 bp):
AAAATGCATAACGGTGCATTATTGGAAGAAAGGTGCCATAAATG
Found at i:22096 original size:44 final size:44
Alignment explanation
Indices: 22007--22110 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 44
21997 ATGAATGGAC
** *
22007 AAATGAAAATACATAACGGTGCATTATTGCCTGAAAGGTGACAT
1 AAATGAAAATACATAACGGTGCATTATTGCAAGAAAGATGACAT
* * * *
22051 AAATGAAAATTCATAACGGTGCATTATTGGAAGAAATATGCCAT
1 AAATGAAAATACATAACGGTGCATTATTGCAAGAAAGATGACAT
*
22095 AAATGAAAATGCATAA
1 AAATGAAAATACATAA
22111 ATGACCATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (44 bp):
AAATGAAAATACATAACGGTGCATTATTGCAAGAAAGATGACAT
Found at i:23115 original size:18 final size:18
Alignment explanation
Indices: 23092--23128 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23082 CTAAATAAAG
23092 TCATAACATATATAGGAA
1 TCATAACATATATAGGAA
23110 TCATAACATATATAGGAA
1 TCATAACATATATAGGAA
23128 T
1 T
23129 GGGTGGATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
TCATAACATATATAGGAA
Found at i:26352 original size:20 final size:20
Alignment explanation
Indices: 26310--26352 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
26300 GATGGGTGGT
* *
26310 TAGTATCGATACTGCTTGTC
1 TAGTATCGATACTGCATGAC
26330 TAGTATCGATACT-CATGAAC
1 TAGTATCGATACTGCATG-AC
26350 TAG
1 TAG
26353 GGTACCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (20 bp):
TAGTATCGATACTGCATGAC
Found at i:28276 original size:711 final size:707
Alignment explanation
Indices: 26678--29459 Score: 3864
Period size: 711 Copynumber: 3.9 Consensus size: 707
26668 AAATGACTCT
* * * * * *
26678 CTAAACCAACCAAAAATACTCTACTGAGGTCCTCAACCATTAATAGAGTTTTATGTGATATAAAG
1 CTAAACCACCCAAAAATACCCTAATAAGGTCC-CAACCATTATTAGAGTTTTATGTGATATAAAA
* * * *
26743 GGGTCATAATTAAGGCTTAGAAACATGTTATAACGCTAAACATACAAGTTAACATGAAATTTACT
65 GGGTCATAATTAAGGCTTAGAAACATGTTATAACCCTAAACATAGAAGTTACCATGAAATTCACT
* * * * *
26808 CAACATGCTTCAAACTAATTCTTAAACTACATTACATTTCTAGTGACCCCAAATTGTATGAAGAA
130 CAACATGCTTCAAACTAAATCTTAAAATACATTGCATTTCTAATGACCCCAAATGGTATGAAGAA
26873 GTTATAAGTGTGTTACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCCAAAGGATAGA-T
195 GTTATAAGTGTGTTACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCCAAAGGATA-ACT
* * * * * *
26937 TCTATTTTCCTATTGCTCTTAAGTTTTCTCCAACTTCTTTCACTAATCAAAAGTAAGAAAAATGA
259 TCTTTTTTCCTTTTGCCCTTGAGCTTTCTCCCACTTCTTTCACTAATCAAAAGTAAGAAAAATGA
* *
27002 ATTACTAAATTAACTAGGTGGTTGGATTAGAGATAAAAACACTTCCTAGAACTTGAATCTAT-AA
324 ATTACTAACTTAACTAGGTGGTTGGATTAGAGATAAAGACACTTCCTAGAACTTGAATCTATAAA
*
27066 AAAAACTAGAATCCATAGATTCTCTTAACCTCCCCAAAACCCATTTTTGGAACCAAAGGGTAAAA
389 AAAAACTAGAATCCATAGATTCTCTTAACCTCCCAAAAACCCATTTTTGGAACCAAAGGGTAAAA
*
27131 CTTGAGAAATGAGAGTTAAATTGAAGCTTGAAGGATGGAGATTAATATTCTTACCTTGGTTAACC
454 CTTGAGAAATGAGACTTAAATTGAAGCTTGAAGGATGGAGATTAATATTCTTACCTTGGTTAACC
* * * * *
27196 AACTTGCACTTGAAATTC-TTAAAATCAT-TATTTTGGAAATGAGGAAGAAGAAAATAAAGGTGG
519 AACTTACACTT-AAAATCATTAAAAT-ATCTACTTTGGAAATGAGGAAGAAGAAGA-AAAGGTAG
* * * *
27259 AAGGAAGAAGAACACTATTTGCTGAGGGATAA-GGGGAGTGGTTCACGTAACATAACATAAAATA
581 AAGGAAGAAGAAGAGTGTTTGGTGAGGGATAAGGGGGAGTGGTTCACGTAACATAACATAAAATA
27323 GGGGTTTTTCAGCTCCTAATTTGAACAAGGGGAAATTTACACTTTTGGTACTAAATGTAACACC
646 -GGGTTTTT-AGCTCCTAATTTGAACAAGGGGAAATTTACACTTTTGGTACTAAATGTAACACC
*
27387 CTAAACCACCCAAAAATACCCTAATAAGGTCCCAACCATTATTAGAGTTTTATGTTATATAAAAG
1 CTAAACCACCCAAAAATACCCTAATAAGGTCCCAACCATTATTAGAGTTTTATGTGATATAAAAG
27452 GGTCATAATTAAGGCTTAGAAACATGTTATAACCCTAAACATAGAAGTTACCATGAAATTCACTC
66 GGTCATAATTAAGGCTTAGAAACATGTTATAACCCTAAACATAGAAGTTACCATGAAATTCACTC
* * ** * * * * * *
27517 AACATGCTTTAAACTAAAACTTAAGCTACATTGTATTTATAATGACCCCAAATGGTCTTAATAAA
131 AACATGCTTCAAACTAAATCTTAAAATACATTGCATTTCTAATGACCCCAAATGGTATGAAGAAG
* * *
27582 TTGTAAGTGTGTGACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCC-AAGGAATAGCTT
196 TTATAAGTGTGTTACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCCAAAGG-ATAACTT
* * * *
27646 CTTTTTTCCTTTTTCCCTTGAGCTTTCTCTCATTTCTTTCACTAATCAAAGGTAAGAAAAATGAA
260 CTTTTTTCCTTTTGCCCTTGAGCTTTCTCCCACTTCTTTCACTAATCAAAAGTAAGAAAAATGAA
27711 TTACTAACTTAACTAGGTGGTTGGATTAGAGATAAAGACACTTCCTAGAACTTGAATCTATCAAA
325 TTACTAACTTAACTAGGTGGTTGGATTAGAGATAAAGACACTTCCTAGAACTTGAATCTAT-AAA
* * * *
27776 AACAAACTAGAATCCATATATTCTTTTAGCCTCCCAAAAACCCATTTTTGGAACCAAATGGTAAA
389 AA-AAACTAGAATCCATAGATTCTCTTAACCTCCCAAAAACCCATTTTTGGAACCAAAGGGTAAA
* * * * *
27841 ACTTGATAAATGAGACTTAAATTGATGTTTGAAGGATGAAGATTAATATTATTACCTTGGTTAAC
453 ACTTGAGAAATGAGACTTAAATTGAAGCTTGAAGGATGGAGATTAATATTCTTACCTTGGTTAAC
* * * ** *
27906 CAAATTAAACTTAAAATCATTAAAATATCTACTTTGGAAATAAATAAGAAGAACAAAAGGTAGAA
518 CAACTTACACTTAAAATCATTAAAATATCTACTTTGGAAATGAGGAAGAAGAAGAAAAGGTAGAA
* ** * * * *
27971 -AAATGCGGAAGAGTGTTTGGTAACGGATAAGGGGGAGTGGTTTACGTAATATAACATAAAATAG
583 GGAA-GAAGAAGAGTGTTTGGTGAGGGATAAGGGGGAGTGGTTCACGTAACATAACATAAAATAG
*
28035 GGTTTTT-GACTCCTAATTTGAACAATGGGAAATTTACACTTTTGGTACTAAATGTAACACC
647 GGTTTTTAG-CTCCTAATTTGAACAAGGGGAAATTTACACTTTTGGTACTAAATGTAACACC
* * * * * * * * * *
28096 ATAAACCACCAAAAAATGCCCTACTGAGGTCTCTAACCATTATTCGAATTTTATATGATATAAAG
1 CTAAACCACCCAAAAATACCCTAATAAGGTC-CCAACCATTATTAGAGTTTTATGTGATATAAAA
* *
28161 GGGTCATAATTAAGGCTTAGAAACATGCTATAACACTAAACATAGAAGTTACCATG-AATTCCAC
65 GGGTCATAATTAAGGCTTAGAAACATGTTATAACCCTAAACATAGAAGTTACCATGAAATT-CAC
* * * *
28225 TAAACATGCTTCAAACTAAATCTTTAAAATATATTGCATTTCTAATGACCCCAAATGGCATGAAC
129 TCAACATGCTTCAAACTAAATC-TTAAAATACATTGCATTTCTAATGACCCCAAATGGTATGAAG
* * *
28290 AAGTTATAAGTGTGTTACCTTGAATTCATGGCTGCTAAAAGTCCTCAAATTACCCAAAGGGTAAC
193 AAGTTATAAGTGTGTTACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCCAAAGGATAAC
* * ** * * * *
28355 TTCTGTTTTCCTCTTATCCTTGAGCGTTCTCCCACTTCTTTCATTAATTAAAAGTAAG-AAAACG
258 TTCTTTTTTCCTTTTGCCCTTGAGCTTTCTCCCACTTCTTTCACTAATCAAAAGTAAGAAAAATG
* *
28419 AATTGAATAACTTAACTAGGTGGTTGGATTAGAGATAAAGACACTTCGTAGAACTTGAATCTATA
323 AATT-ACTAACTTAACTAGGTGGTTGGATTAGAGATAAAGACACTTCCTAGAACTTGAATCTATA
*
28484 AAGAACAAACTAGAATCCATTGATTCTCTTAACCTCCCAAAAAACCCATTTTTGGAACCAAAGGG
387 AA-AA-AAACTAGAATCCATAGATTCTCTTAACCTCCC-AAAAACCCATTTTTGGAACCAAAGGG
* * * * *
28549 TAAAACTTAAGAAATGAGACTTAAATTGAACCTTGAAGGACGGGGATTAATATTCTTACATTGGT
449 TAAAACTTGAGAAATGAGACTTAAATTGAAGCTTGAAGGATGGAGATTAATATTCTTACCTTGGT
** *
28614 TAACCAACTTACACTTAAAAT-ACTTAAAATCCCTACTTTGGAAATGAGGAAGAATAAAGAAAAG
514 TAACCAACTTACACTTAAAATCA-TTAAAATATCTACTTTGGAAATGAGGAAGAA-GAAGAAAAG
* * * * *
28678 GTATAAGGAAGAAGAAGAGTGTTTGGTCAGGGATAAAGGCGAGTGGTTCACGTAACACAACAT-A
577 GTAGAAGGAAGAAGAAGAGTGTTTGGTGAGGGATAAGGGGGAGTGGTTCACGTAACATAACATAA
* *
28742 AATCAAGGGATTTTTAGCTCTTAATTTGAACAAGGGGAAATTTAAACTTTTGGTACTAAATGTAA
642 AAT--AGGG-TTTTTAGCTCCTAATTTGAACAAGGGGAAATTTACACTTTTGGTACTAAATGTAA
28807 CACC
704 CACC
* * **
28811 CTAAACCACCCAAAAATTCCATAATAATATCCCAACCATTATTAGAGTTTTATGTGATATAAAAG
1 CTAAACCACCCAAAAATACCCTAATAAGGTCCCAACCATTATTAGAGTTTTATGTGATATAAAAG
* * *
28876 GGTCATAATTAAGGCTTAAAAACATGTTATAACCCTAAACATAGAAGTTACCATAAAATCCACTC
66 GGTCATAATTAAGGCTTAGAAACATGTTATAACCCTAAACATAGAAGTTACCATGAAATTCACTC
* * * * *
28941 AACATGCTTCAAACTAACTCTTAAGATAAATTGTATTTCTAATGACCCCAAATGGTATAAAGAAG
131 AACATGCTTCAAACTAAATCTTAAAATACATTGCATTTCTAATGACCCCAAATGGTATGAAGAAG
*
29006 TTATAAGTGTGTAACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCC-AAGGAATAACTT
196 TTATAAGTGTGTTACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCCAAAGG-ATAACTT
* ** *
29070 CTTTTTTCCTCTTGCTTTTGAGCTTTCTCCCACTTCTTTCACTAATCAAAGGTAAGAAAAATGAA
260 CTTTTTTCCTTTTGCCCTTGAGCTTTCTCCCACTTCTTTCACTAATCAAAAGTAAGAAAAATGAA
* * *
29135 TTACTAACTTAACTAGGTGGTTGGATTAGAGATAAAGATATTTCCTAGAACTTGAATTTATAAAA
325 TTACTAACTTAACTAGGTGGTTGGATTAGAGATAAAGACACTTCCTAGAACTTGAATCTATAAAA
* * *
29200 AAAACTAGAATCCATAGATTCTTTTAACCTCCCAAAACCCCATTTTTGGAATCAAAGGGTAAAAC
390 AAAACTAGAATCCATAGATTCTCTTAACCTCCCAAAAACCCATTTTTGGAACCAAAGGGTAAAAC
* *
29265 TTGAGAAATTG-GACTTAAATTGAAGCTTGAAGGATGGGGATTAATATTCTTACCTTGATTAACC
455 TTGAGAAA-TGAGACTTAAATTGAAGCTTGAAGGATGGAGATTAATATTCTTACCTTGGTTAACC
* * * *
29329 AACTTACACTTGAAATCTTTAAAATCTCTACTTTGGAAATGAGGAAGAAGAAAGAAAATGTAGAA
519 AACTTACACTTAAAATCATTAAAATATCTACTTTGGAAATGAGGAAGAAG-AAGAAAAGGTAGAA
* *
29394 GGAAGAAGAAGAGCGTTTGGTGAGGGATAAGGGGGAGTGGTTCACGTAACATAACTTAAAATAGG
583 GGAAGAAGAAGAGTGTTTGGTGAGGGATAAGGGGGAGTGGTTCACGTAACATAACATAAAATAGG
29459 G
648 G
29460 GGTTCTTAAT
Statistics
Matches: 1821, Mismatches: 221, Indels: 62
0.87 0.11 0.03
Matches are distributed among these distances:
707 4 0.00
708 313 0.17
709 115 0.06
710 355 0.19
711 442 0.24
712 139 0.08
713 254 0.14
714 118 0.06
715 80 0.04
716 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (707 bp):
CTAAACCACCCAAAAATACCCTAATAAGGTCCCAACCATTATTAGAGTTTTATGTGATATAAAAG
GGTCATAATTAAGGCTTAGAAACATGTTATAACCCTAAACATAGAAGTTACCATGAAATTCACTC
AACATGCTTCAAACTAAATCTTAAAATACATTGCATTTCTAATGACCCCAAATGGTATGAAGAAG
TTATAAGTGTGTTACCTTGAATTCTTGGCTGCTAAAAGTCCTCAAATCACCCAAAGGATAACTTC
TTTTTTCCTTTTGCCCTTGAGCTTTCTCCCACTTCTTTCACTAATCAAAAGTAAGAAAAATGAAT
TACTAACTTAACTAGGTGGTTGGATTAGAGATAAAGACACTTCCTAGAACTTGAATCTATAAAAA
AAACTAGAATCCATAGATTCTCTTAACCTCCCAAAAACCCATTTTTGGAACCAAAGGGTAAAACT
TGAGAAATGAGACTTAAATTGAAGCTTGAAGGATGGAGATTAATATTCTTACCTTGGTTAACCAA
CTTACACTTAAAATCATTAAAATATCTACTTTGGAAATGAGGAAGAAGAAGAAAAGGTAGAAGGA
AGAAGAAGAGTGTTTGGTGAGGGATAAGGGGGAGTGGTTCACGTAACATAACATAAAATAGGGTT
TTTAGCTCCTAATTTGAACAAGGGGAAATTTACACTTTTGGTACTAAATGTAACACC
Found at i:34135 original size:21 final size:21
Alignment explanation
Indices: 34109--34165 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
34099 ATTTACCGTG
* *
34109 ATTGCGGCCATCGCGGGCGCT
1 ATTGCGGCCGTCGCGGACGCT
*
34130 ATTGCGGCTGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
34151 ATTGCGGCCGTCGCG
1 ATTGCGGCCGTCGCG
34166 CGTAACTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.09, C:0.32, G:0.39, T:0.21
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:36499 original size:22 final size:22
Alignment explanation
Indices: 36473--36529 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
36463 TGACTTTGTG
*
36473 GGTTCACTTTGTCCCATCTGTA
1 GGTTCACTTTGTACCATCTGTA
*
36495 GGTTCACTTTGTATCATCTGTA
1 GGTTCACTTTGTACCATCTGTA
36517 GGTTCACTTTGTA
1 GGTTCACTTTGTA
36530 GCTTGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (22 bp):
GGTTCACTTTGTACCATCTGTA
Found at i:39722 original size:16 final size:16
Alignment explanation
Indices: 39696--39746 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
39686 AGATCCAATC
39696 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
39711 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
*
39728 AA-AA-AAACAAAGAAA
1 AAGAACAAA-AAAGCAA
39743 AAGA
1 AAGA
39747 GAAACAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.10
15 13 0.42
16 11 0.35
17 4 0.13
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:39743 original size:22 final size:21
Alignment explanation
Indices: 39702--39771 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 21
39692 AATCAAGAAC
39702 AAAAAAGAAAAGAAGCAAAAAAG
1 AAAAAAGAAAA-AAG-AAAAAAG
39725 CAAAAAA-AAACAAAGAAAAAGAG
1 -AAAAAAGAAA-AAAGAAAAA-AG
*
39748 AAACAAGAACAAAAGGAAAAAAG
1 AAAAAAGAA-AAAA-GAAAAAAG
39771 A
1 A
39772 GCAAAAATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
22 10 0.25
23 16 0.40
24 14 0.35
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAGAAAAAAG
Found at i:40475 original size:23 final size:22
Alignment explanation
Indices: 40433--40475 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
40423 CCATCAATCT
* *
40433 TTTGAGCATCCAATGCCAAACC
1 TTTGAGCATCAAATGACAAACC
40455 TTTGAGCATCAAATGAACAAA
1 TTTGAGCATCAAATG-ACAAA
40476 AATGCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (22 bp):
TTTGAGCATCAAATGACAAACC
Found at i:40907 original size:17 final size:19
Alignment explanation
Indices: 40885--40920 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
40875 TCAATATCAA
40885 ATATT-GGGCATT-TTTGG
1 ATATTGGGGCATTATTTGG
40902 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
40921 GGATTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.19, C:0.06, G:0.31, T:0.44
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:41561 original size:106 final size:106
Alignment explanation
Indices: 41432--42131 Score: 1193
Period size: 106 Copynumber: 6.5 Consensus size: 106
41422 ATATCGTGCC
* * *
41432 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTTC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
41497 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
41538 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAAAACAACT
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC----AACAAACAACT
41603 TCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
62 TCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
41648 ACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTTC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
41713 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
41754 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
41819 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
41860 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTTC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
41925 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
41966 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAAAACAACT
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC----AACAAACAACT
* * *
42031 TCCCAATTCCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
62 TCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
**
42076 ACTCCGGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
42132 ATTTCATTCA
Statistics
Matches: 564, Mismatches: 22, Indels: 16
0.94 0.04 0.03
Matches are distributed among these distances:
106 363 0.64
110 201 0.36
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (106 bp):
ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:43763 original size:22 final size:22
Alignment explanation
Indices: 43737--43793 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
43727 TGACTTTGTG
*
43737 GGTTCACTTTGTCCCATCTGTA
1 GGTTCACTTTGTACCATCTGTA
*
43759 GGTTCACTTTGTATCATCTGTA
1 GGTTCACTTTGTACCATCTGTA
43781 GGTTCACTTTGTA
1 GGTTCACTTTGTA
43794 GCTTGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (22 bp):
GGTTCACTTTGTACCATCTGTA
Found at i:50868 original size:20 final size:18
Alignment explanation
Indices: 50818--50860 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
50808 CGATTCTGCA
*
50818 CTGTTCTGAATAATTTTT
1 CTGTTTTGAATAATTTTT
50836 CTGTTTTGAATAATTTTT
1 CTGTTTTGAATAATTTTT
50854 CTGTTTT
1 CTGTTTT
50861 TTTAATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.60
Consensus pattern (18 bp):
CTGTTTTGAATAATTTTT
Found at i:51039 original size:20 final size:20
Alignment explanation
Indices: 51016--51056 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51006 CAACGCGAAC
* *
51016 TCCAATTTCGCAACACAGTT
1 TCCAAATTCACAACACAGTT
*
51036 TCCAAATTCACAACTCAGTT
1 TCCAAATTCACAACACAGTT
51056 T
1 T
51057 TGAAATTCGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (20 bp):
TCCAAATTCACAACACAGTT
Found at i:51178 original size:61 final size:61
Alignment explanation
Indices: 51102--51233 Score: 264
Period size: 61 Copynumber: 2.2 Consensus size: 61
51092 GAACACCAAT
51102 TTCGCAACGCAGTTTCCAAATTCGTGTTGCAAATTTGTTATTCGCAACATGGATTTTCAAA
1 TTCGCAACGCAGTTTCCAAATTCGTGTTGCAAATTTGTTATTCGCAACATGGATTTTCAAA
51163 TTCGCAACGCAGTTTCCAAATTCGTGTTGCAAATTTGTTATTCGCAACATGGATTTTCAAA
1 TTCGCAACGCAGTTTCCAAATTCGTGTTGCAAATTTGTTATTCGCAACATGGATTTTCAAA
51224 TTCGCAACGC
1 TTCGCAACGC
51234 GAATTTCTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (61 bp):
TTCGCAACGCAGTTTCCAAATTCGTGTTGCAAATTTGTTATTCGCAACATGGATTTTCAAA
Found at i:51338 original size:80 final size:80
Alignment explanation
Indices: 51214--51399 Score: 209
Period size: 80 Copynumber: 2.3 Consensus size: 80
51204 TCGCAACATG
* * * ** *
51214 GATTTTCAAATTCGCAACGCGAATTTCTTTTTTGCAACTCGATTT-CTGAATTCGCAA-TTCGAA
1 GATTTTCAAATTCGCAACACGAATTTCCTTTTCGCAACAAGATTTCCT-AATTCGCAACAT-GAA
51277 TTTAT-TTTTAGCAACGC
64 TTT-TGTTTTAGCAACGC
*
51294 GATTTTTAAATTCGCAACAC-AAGTTTCCTTTTCGCAACAAGATTTCCTAATTCGCAACATGAAT
1 GATTTTCAAATTCGCAACACGAA-TTTCCTTTTCGCAACAAGATTTCCTAATTCGCAACATGAAT
* *
51358 TTTGTTTTCGCAACTC
65 TTTGTTTTAGCAACGC
* *
51374 AATTTTCAAATTCGCAACACGGATTT
1 GATTTTCAAATTCGCAACACGAATTT
51400 TAATTTCGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
79 3 0.03
80 82 0.92
81 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (80 bp):
GATTTTCAAATTCGCAACACGAATTTCCTTTTCGCAACAAGATTTCCTAATTCGCAACATGAATT
TTGTTTTAGCAACGC
Found at i:51347 original size:20 final size:21
Alignment explanation
Indices: 51302--51352 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
51292 GCGATTTTTA
51302 AATTCGCAACACAAGTTTCCT
1 AATTCGCAACACAAGTTTCCT
*
51323 -TTTCGC-A-ACAAGATTTCCT
1 AATTCGCAACACAAG-TTTCCT
51342 AATTCGCAACA
1 AATTCGCAACA
51353 TGAATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 10 0.42
21 1 0.04
22 1 0.04
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTCGCAACACAAGTTTCCT
Found at i:51368 original size:60 final size:58
Alignment explanation
Indices: 51304--51433 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 58
51294 GATTTTTAAA
*** *
51304 TTCGCAACACAAGTTTCCTTTTCGCAACA-AGATTTCCTAA-TTCGCAACATGAATTTTGTT
1 TTCGCAACACAAGTTTCAAATTCGCAACACAGATTT--TAATTTCGCAACA-G-ATTTTATT
* * * *
51364 TTCGCAACTCAATTTTCAAATTCGCAACACGGATTTTAATTTCGCAACAGCTTTTATT
1 TTCGCAACACAAGTTTCAAATTCGCAACACAGATTTTAATTTCGCAACAGATTTTATT
51422 TTCGCAACACAA
1 TTCGCAACACAA
51434 ATGTTTTGGG
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
58 17 0.29
59 4 0.07
60 33 0.56
61 5 0.08
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (58 bp):
TTCGCAACACAAGTTTCAAATTCGCAACACAGATTTTAATTTCGCAACAGATTTTATT
Found at i:51400 original size:40 final size:39
Alignment explanation
Indices: 51194--51411 Score: 170
Period size: 40 Copynumber: 5.4 Consensus size: 39
51184 TCGTGTTGCA
* * *
51194 AATTTGTTATTCGCAACATGGATTTTCAAATTCGCAACGCG
1 AATTT-TTTTTCGCAAC-TCGATTTTCAAATTCGCAACACG
* * **
51235 AATTTCTTTTTTGCAACTCGA-TTTCTGAATTCGCAATTCG
1 AATTT-TTTTTCGCAACTCGATTTTC-AAATTCGCAACACG
* * *
51275 AATTTATTTTTAGCAACGCGATTTTTAAATTCGCAACAC-
1 AATTT-TTTTTCGCAACTCGATTTTCAAATTCGCAACACG
* ** * * *
51314 AAGTTTCCTTTTCGCAACAAGATTTCCTAATTCGCAACATG
1 AA-TTT-TTTTTCGCAACTCGATTTTCAAATTCGCAACACG
*
51355 AATTTTGTTTTCGCAACTCAATTTTCAAATTCGCAACACG
1 AATTTT-TTTTCGCAACTCGATTTTCAAATTCGCAACACG
* *
51395 GATTTTAATTTCGCAAC
1 AATTTT-TTTTCGCAAC
51412 AGCTTTTATT
Statistics
Matches: 139, Mismatches: 33, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
39 6 0.04
40 114 0.82
41 19 0.14
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (39 bp):
AATTTTTTTTCGCAACTCGATTTTCAAATTCGCAACACG
Found at i:51407 original size:20 final size:19
Alignment explanation
Indices: 51323--51431 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 19
51313 CAAGTTTCCT
*
51323 TTTCGCAACAAGATTTCCTAA
1 TTTCGCAACACGATTT--TAA
* **
51344 -TTCGCAACATGAATTTTGT
1 TTTCGCAACACG-ATTTTAA
* *
51363 TTTCGCAACTCAATTTTCAA
1 TTTCGCAACACGATTTT-AA
*
51383 ATTCGCAACACGGATTTTAA
1 TTTCGCAACAC-GATTTTAA
* *
51403 TTTCGCAACA-GCTTTTAT
1 TTTCGCAACACGATTTTAA
51421 TTTCGCAACAC
1 TTTCGCAACAC
51432 AAATGTTTTG
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
18 16 0.23
19 6 0.09
20 38 0.55
21 9 0.13
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (19 bp):
TTTCGCAACACGATTTTAA
Found at i:51407 original size:80 final size:79
Alignment explanation
Indices: 51196--51412 Score: 208
Period size: 80 Copynumber: 2.7 Consensus size: 79
51186 GTGTTGCAAA
* * * **
51196 TTTGTTATTCGCAACATGGATTTTCAAATTCGCAACGCGAATTTCTTTTTTGCAACTCGATTTCT
1 TTTGTT-TTCGCAAC-TCGATTTTCAAATTCGCAACACGAATTT-TTTTTCGCAACAAGATTTCT
*
51261 GAATTCGCAATTCGAAT
63 GAATTCGCAAATCGAAT
* * * *
51278 TTAT-TTTTAGCAACGCGATTTTTAAATTCGCAACAC-AAGTTTCCTTTTCGCAACAAGATTTCC
1 TT-TGTTTTCGCAACTCGATTTTCAAATTCGCAACACGAA-TTT-TTTTTCGCAACAAGATTT-C
51341 T-AATTCGCAACAT-GAAT
62 TGAATTCGCAA-ATCGAAT
* * *
51358 TTTGTTTTCGCAACTCAATTTTCAAATTCGCAACACGGATTTTAATTTCGCAACA
1 TTTGTTTTCGCAACTCGATTTTCAAATTCGCAACACGAATTTT-TTTTCGCAACA
51413 GCTTTTATTT
Statistics
Matches: 111, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
79 3 0.03
80 92 0.83
81 11 0.10
82 4 0.04
83 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (79 bp):
TTTGTTTTCGCAACTCGATTTTCAAATTCGCAACACGAATTTTTTTTCGCAACAAGATTTCTGAA
TTCGCAAATCGAAT
Found at i:52217 original size:12 final size:12
Alignment explanation
Indices: 52196--52229 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52186 ACCACATTTC
*
52196 CAATACCAAACA
1 CAATATCAAACA
52208 CAATATCAAACA
1 CAATATCAAACA
*
52220 CAATCTCAAA
1 CAATATCAAA
52230 ACCCACAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:52368 original size:24 final size:24
Alignment explanation
Indices: 52349--52397 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
52339 TAGTCAGTAT
*
52349 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATATTGGTCAATAC
* *
52373 TCGGACTTTGATATTGGTCAATAC
1 TCGAAATTTGATATTGGTCAATAC
52397 T
1 T
52398 TGGATTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (24 bp):
TCGAAATTTGATATTGGTCAATAC
Found at i:52406 original size:24 final size:24
Alignment explanation
Indices: 52355--52408 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
52345 GTATTCGAAA
*
52355 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATATTGGTCAATACTCGGAC
* *
52379 TTTGATATTGGTCAATACTTGGAT
1 TTTGATATTGGTCAATACTCGGAC
52403 TTTGAT
1 TTTGAT
52409 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:54700 original size:18 final size:18
Alignment explanation
Indices: 54677--54712 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54667 AAGCAAAAGG
*
54677 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
54695 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
54713 CAACCGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:56592 original size:21 final size:21
Alignment explanation
Indices: 56471--56603 Score: 121
Period size: 21 Copynumber: 6.3 Consensus size: 21
56461 AGTATGGCAT
**
56471 GTGGATCCTGAACGGTGAG-AG
1 GTGGATCCTGAACAATG-GTAG
* *
56492 GTGGATCCTGAACGATGGGAG
1 GTGGATCCTGAACAATGGTAG
* * *
56513 G-GGCCTCTTGAACGAT-GTCAG
1 GTGG-ATCCTGAACAATGGT-AG
*
56534 GTGAATCCTGAACAATAGG-AG
1 GTGGATCCTGAACAAT-GGTAG
56555 GTGGATCCTGAACAATGGTAG
1 GTGGATCCTGAACAATGGTAG
*
56576 GTGGATCCTGAATAATGGTAG
1 GTGGATCCTGAACAATGGTAG
56597 GTGGATC
1 GTGGATC
56604 GGGATTCTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
20 6 0.06
21 87 0.92
22 1 0.01
23 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (21 bp):
GTGGATCCTGAACAATGGTAG
Found at i:56936 original size:21 final size:21
Alignment explanation
Indices: 56912--56991 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
56902 GCAGAACAGC
*
56912 TACCTCATCACGTAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
* *
56933 TACCTCACCACGTAAAGCACA
1 TACCTCACCACGTAAAGTAGA
** * * *
56954 -ATTGTCATCACGTAAAATAGC
1 TA-CCTCACCACGTAAAGTAGA
56975 TACCTCACCACGTAAAG
1 TACCTCACCACGTAAAG
56992 ACCCTACCTC
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (21 bp):
TACCTCACCACGTAAAGTAGA
Found at i:57004 original size:42 final size:41
Alignment explanation
Indices: 56911--57007 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
56901 CGCAGAACAG
*
56911 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCA
1 CTACCTCATCACGTAAAATAGATACCTCACCACGTAAAGCA
* ** * *
56952 CAATTGTCATCACGTAAAATAGCTACCTCACCACGTAAAGACC
1 CTA-CCTCATCACGTAAAATAGATACCTCACCACGTAAAG-CA
56995 CTACCTCATCACG
1 CTACCTCATCACG
57008 CCATGCACCA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.04
42 40 0.89
43 3 0.07
ACGTcount: A:0.35, C:0.33, G:0.11, T:0.21
Consensus pattern (41 bp):
CTACCTCATCACGTAAAATAGATACCTCACCACGTAAAGCA
Found at i:57247 original size:42 final size:42
Alignment explanation
Indices: 57188--57298 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
57178 ATGATGGAAT
* **
57188 AGGTGATGGATCTCGGTGACG-AGATGTAGAATCGGCTCGATC
1 AGGTGATGGATCTCGGTGACGAAG-TGGAGAAGAGGCTCGATC
* *
57230 AGGTGATGGATCTCGGTGTCGAAGTGGAGAAGAGGCTCGATG
1 AGGTGATGGATCTCGGTGACGAAGTGGAGAAGAGGCTCGATC
* * *
57272 AGGTGATGGATCTTGGTGTCAAAGTGG
1 AGGTGATGGATCTCGGTGACGAAGTGG
57299 GGGGTGTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 59 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.40, T:0.24
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGACGAAGTGGAGAAGAGGCTCGATC
Found at i:58840 original size:34 final size:34
Alignment explanation
Indices: 58797--58882 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
58787 CTTGAAACTT
*
58797 AAATTCGCAACATG-AAAA-TCGCAACTCGAAAATG
1 AAATTCGCAAC--GCAAAATTCGCAACGCGAAAATG
* *
58831 AAATTCGCAACGCAAAATTTGTAACGCGAAAATG
1 AAATTCGCAACGCAAAATTCGCAACGCGAAAATG
*
58865 AAATTTGCAACGCGAAAA
1 AAATTCGCAACGC-AAAA
58883 CTAAAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
32 1 0.02
33 4 0.09
34 36 0.80
35 4 0.09
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (34 bp):
AAATTCGCAACGCAAAATTCGCAACGCGAAAATG
Found at i:58870 original size:20 final size:20
Alignment explanation
Indices: 58845--58882 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58835 TCGCAACGCA
*
58845 AAATTTGTAACGCGAAAATG
1 AAATTTGCAACGCGAAAATG
58865 AAATTTGCAACGCGAAAA
1 AAATTTGCAACGCGAAAA
58883 CTAAAATCGC
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:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (20 bp):
AAATTTGCAACGCGAAAATG
Found at i:58912 original size:20 final size:20
Alignment explanation
Indices: 58889--58957 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
58879 AAAACTAAAA
58889 TCGCGTTGCGAATTTCATTT
1 TCGCGTTGCGAATTTCATTT
58909 TCGCGTTGCG-A--T--TTT
1 TCGCGTTGCGAATTTCATTT
**
58924 T-GTATTGCGAATTTCATTT
1 TCGCGTTGCGAATTTCATTT
*
58943 TCGAGTTGCGAATTT
1 TCGCGTTGCGAATTT
58958 AAGTTTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.15
15 5 0.13
17 2 0.05
19 5 0.13
20 21 0.54
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (20 bp):
TCGCGTTGCGAATTTCATTT
Found at i:59455 original size:19 final size:20
Alignment explanation
Indices: 59416--59455 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
59406 GTGTTTCGAA
**
59416 TTCGAAAATAAAATTCACTT
1 TTCGAAAATAAAACGCACTT
59436 TTCGAAAAT-AAACGCACTT
1 TTCGAAAATAAAACGCACTT
59455 T
1 T
59456 GCAAATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (20 bp):
TTCGAAAATAAAACGCACTT
Found at i:67642 original size:24 final size:24
Alignment explanation
Indices: 67611--67663 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
67601 TAATTTTATA
67611 ATTATTTTTATA-TATATATACAT
1 ATTATTTTTATAGTATATATACAT
* *
67634 ATTATTTTTATAGTATTTATATAT
1 ATTATTTTTATAGTATATATACAT
67658 ATTATT
1 ATTATT
67664 AATATTTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTATTTTTATAGTATATATACAT
Found at i:69410 original size:36 final size:36
Alignment explanation
Indices: 69369--69442 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
69359 GATAATGCTG
69369 CTCGGATTATGGGGAGGAATTGGATATGCACCACTT
1 CTCGGATTATGGGGAGGAATTGGATATGCACCACTT
69405 CTCGGATTATGGGGAGGAATTGGATATGCACCACTT
1 CTCGGATTATGGGGAGGAATTGGATATGCACCACTT
69441 CT
1 CT
69443 GGTCATAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (36 bp):
CTCGGATTATGGGGAGGAATTGGATATGCACCACTT
Found at i:78357 original size:7 final size:7
Alignment explanation
Indices: 78342--78406 Score: 63
Period size: 7 Copynumber: 10.1 Consensus size: 7
78332 ATTATGCTTG
*
78342 AAGAGAA
1 AAGAAAA
78349 AAGAAAA
1 AAGAAAA
78356 AA-AAAGA
1 AAGAAA-A
78363 AA-AAAA
1 AAGAAAA
78369 AAG-AAA
1 AAGAAAA
78375 AAG-AAA
1 AAGAAAA
78381 AAG--AA
1 AAGAAAA
78386 AA-AAAA
1 AAGAAAA
78392 AAGAAAA
1 AAGAAAA
78399 AAGAAAA
1 AAGAAAA
78406 A
1 A
78407 GGGGGGTCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
5 4 0.08
6 22 0.42
7 26 0.50
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:78358 original size:1 final size:1
Alignment explanation
Indices: 78347--78406 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
78337 GCTTGAAGAG
* * * * * * *
78347 AAAAGAAAAAAAAAGAAAAAAAAAGAAAAAGAAAAAGAAAAAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
78407 GGGGGGTCAA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:78362 original size:10 final size:10
Alignment explanation
Indices: 78347--78400 Score: 81
Period size: 10 Copynumber: 5.1 Consensus size: 10
78337 GCTTGAAGAG
78347 AAAAGAAAAA
1 AAAAGAAAAA
78357 AAAAGAAAAA
1 AAAAGAAAAA
78367 AAAAGAAAAAGA
1 AAAAG-AAAA-A
78379 AAAAGAAAAAA
1 AAAAG-AAAAA
78390 AAAAGAAAAA
1 AAAAGAAAAA
78400 A
1 A
78401 GAAAAAGGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
10 21 0.50
11 10 0.24
12 11 0.26
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:78365 original size:6 final size:6
Alignment explanation
Indices: 78342--78407 Score: 79
Period size: 6 Copynumber: 11.5 Consensus size: 6
78332 ATTATGCTTG
78342 AAGAGAA AAG-AA AA-AAA AAG-AA AA-AAA AAGAAA AAGAAA AAGAAA
1 AAGA-AA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
78387 AA-AAA AAGAAAA AAGAAA AAG
1 AAGAAA AAG-AAA AAGAAA AAG
78408 GGGGGTCAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
5 21 0.40
6 23 0.43
7 9 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:79685 original size:83 final size:83
Alignment explanation
Indices: 79546--80062 Score: 962
Period size: 83 Copynumber: 6.2 Consensus size: 83
79536 CATTAACTGA
79546 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
79611 ACAAATCATTGAATTTAG
66 ACAAATCATTGAATTTAG
79629 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
79694 ACAAATCATTGAATTTAG
66 ACAAATCATTGAATTTAG
79712 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
79777 ACAAACCATTGAATTTAG
66 ACAAATCATTGAATTTAG
79795 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
79860 ACAAATCATTGAATTTAG
66 ACAAATCATTGAATTTAG
79878 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
**
79943 ACAAGCCATTGAATTTAG
66 ACAAATCATTGAATTTAG
*
79961 AAGATGAATGTGTTCATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
* *
80026 ACCAATCATTGAATTTGG
66 ACAAATCATTGAATTTAG
* *
80044 AAGATGAATTTGCTCATAG
1 AAGATGAATGTGTTCATAG
80063 TAAAAATAAG
Statistics
Matches: 423, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 423 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (83 bp):
AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACAAATCATTGAATTTAG
Found at i:81061 original size:114 final size:113
Alignment explanation
Indices: 80856--81415 Score: 809
Period size: 114 Copynumber: 4.9 Consensus size: 113
80846 TTCAAATCTA
* *
80856 TCATTAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 TCATCAATTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
80921 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTAAAT
66 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAAT
* *
80969 TCATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAATAAG
1 TCATC-AATTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
81034 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAAT
65 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAAT
* *
81083 TCATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TCATC-AATTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
81148 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAAT
65 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAAT
* * * * *
81197 TCATCATTTGATGGATCAAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAA
1 TCATCAATTGATGGAT-TAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAA
* * *
81261 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAAT
61 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAAT
* * * * *
81314 TCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG
1 TCATCAATTGATGGATTAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAG
* *
81378 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
81416 TAATTCTATT
Statistics
Matches: 423, Mismatches: 18, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
113 15 0.04
114 248 0.59
116 85 0.20
117 75 0.18
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
TCATCAATTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAAT
Found at i:81749 original size:3 final size:3
Alignment explanation
Indices: 81741--81801 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
81731 ATATTAATTA
* *
81741 ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
81789 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
81802 AATATATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:81809 original size:12 final size:11
Alignment explanation
Indices: 81731--81810 Score: 57
Period size: 9 Copynumber: 7.5 Consensus size: 11
81721 TTTTTTACCC
81731 ATATTAATTAAT
1 ATATT-ATTAAT
81743 -TATTATT-AT
1 ATATTATTAAT
81752 -TATTA-TAAT
1 ATATTATTAAT
81761 -TATTATT-AT
1 ATATTATTAAT
*
81770 -TATTATTATT
1 ATATTATTAAT
*
81780 ATCATTATTATT
1 AT-ATTATTAAT
81792 ATTATTATTAAAT
1 A-TATTATT-AAT
81805 ATATTA
1 ATATTA
81811 AATACATATA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
8 1 0.02
9 23 0.39
10 5 0.08
11 5 0.08
12 21 0.36
13 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:92482 original size:15 final size:15
Alignment explanation
Indices: 92462--92498 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
92452 TGAGACATTA
*
92462 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
92477 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
92492 CCCGCCC
1 CCCGCCC
92499 AGCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.70, G:0.16, T:0.05
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:95920 original size:22 final size:23
Alignment explanation
Indices: 95895--95943 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
95885 TGAAATAAAT
*
95895 AAAAAA-ATGATTAAATTAAAAG
1 AAAAAAGATGATGAAATTAAAAG
* *
95917 AAAAAAGGTGATGAATTTAAAAG
1 AAAAAAGATGATGAAATTAAAAG
95940 AAAA
1 AAAA
95944 TCAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.20
Consensus pattern (23 bp):
AAAAAAGATGATGAAATTAAAAG
Found at i:98027 original size:85 final size:85
Alignment explanation
Indices: 97913--98624 Score: 813
Period size: 85 Copynumber: 8.4 Consensus size: 85
97903 TGTGTCTTCA
* * * * * ** * * ** *
97913 AGCTGAATGGAATCGAACTCGACA-ATTTTTGTTGATAGATAGCTTTTCTCGACTTAAGAAATGA
1 AGCTGAATGTAATCGAACTCGA-AGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
* *
97977 TGTAAATGTGATATGTCATTG
65 TGTAAATTTGATATGTCCTTG
* * *
97998 AG-TGGAATGTAATCAAACTCGAAGGTTTTT-CTTTACAGATAACCCTTCTCGACTTGAGTTATG
1 AGCT-GAATGTAATCGAACTCGAAGGTTTTTGC-TGACAGATAACCCTTCTCGCCTTGAGTTATG
*
98061 TTGTAAATTTGATATGT-CTTA
64 TTGTAAATTTGATATGTCCTTG
* * * * * * *
98082 AGCGGAATATAATCGAACTCGAAGGTTTTGGTTGACAAATATA-CCTTCTCTCCTTGAGCTATGT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGCTGACAGATA-ACCCTTCTCGCCTTGAGTTATGT
*
98146 TGTAAATTTGATATGTCCTTA
65 TGTAAATTTGATATGTCCTTG
* *
98167 AGCTGAATGTAATCGAACTCGAAGGTTTTTACTGACAGATAACCCTTCTCGCCTTGAGTTATGCT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGTT
* * **
98232 ATAAATTTAATGCGTCCTTG
66 GTAAATTTGATATGTCCTTG
* ** * *
98252 AGCTGAATGTAATAGAACTCGAAGGTTTTTATTGGCAGATAACCCTTCTCGCCTTGATTTATGTT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGTT
**
98317 GTAAATTTGATGCGTCCTTG
66 GTAAATTTGATATGTCCTTG
* * *
98337 AGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATAACCCTTCTTGACTTGAGCTATGT
1 AGCTGAATGTAATCGAACTCGAAGG-TTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
*
98402 TGTAAATTTGATGTGTCCTTG
65 TGTAAATTTGATATGTCCTTG
* * * * * * *
98423 AGCTGAATGTATTCGAACTCGAAGGTTTTTTGCTAACAAATAGCTCTTCTCGCCTTGAGCTATGC
1 AGCTGAATGTAATCGAACTCGAAGG-TTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
*
98488 TATAAATTTGATATGTCCTTG
65 TGTAAATTTGATATGTCCTTG
* * *
98509 AGCTGAATGTAATCGAAATCGAAGGTTTTTTGCTGACAGATAACCCTTATCGCCTTGAGTTATAT
1 AGCTGAATGTAATCGAACTCGAAGG-TTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
* *
98574 TGTAAATTTGATATGTCATTT
65 TGTAAATTTGATATGTCCTTG
*
98595 AGCTGAATGTAATCGAACTCAAAGGTTTTT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTT
98625 TGCCGATGGA
Statistics
Matches: 537, Mismatches: 81, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
84 71 0.13
85 242 0.45
86 224 0.42
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (85 bp):
AGCTGAATGTAATCGAACTCGAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGTT
GTAAATTTGATATGTCCTTG
Found at i:98653 original size:86 final size:86
Alignment explanation
Indices: 97977--98627 Score: 816
Period size: 86 Copynumber: 7.6 Consensus size: 86
97967 TAAGAAATGA
* * * *
97977 TGTAAATGTGATATGTCATTGAG-TGGAATGTAATCAAACTCGAAGG-TTTTT-CTTTACAGATA
1 TGTAAATTTGATATGTCCTTGAGCT-GAATGTAATCGAACTCGAAGGTTTTTTGC-TGACAGATA
*
98039 ACCCTTCTCGACTTGAGTTATGT
64 ACCCTTCTCGCCTTGAGTTATGT
* * * * * *
98062 TGTAAATTTGATATGT-CTTAAGCGGAATATAATCGAACTCGAAGG-TTTTGGTTGACAAATATA
1 TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATA-A
* *
98125 -CCTTCTCTCCTTGAGCTATGT
65 CCCTTCTCGCCTTGAGTTATGT
* *
98146 TGTAAATTTGATATGTCCTTAAGCTGAATGTAATCGAACTCGAAGG-TTTTTACTGACAGATAAC
1 TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATAAC
*
98210 CCTTCTCGCCTTGAGTTATGC
66 CCTTCTCGCCTTGAGTTATGT
* * ** * *
98231 TATAAATTTAATGCGTCCTTGAGCTGAATGTAATAGAACTCGAAGGTTTTTAT--TGGCAGATAA
1 TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTT-TGCTGACAGATAA
*
98294 CCCTTCTCGCCTTGATTTATGT
65 CCCTTCTCGCCTTGAGTTATGT
**
98316 TGTAAATTTGATGCGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATAAC
1 TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATAAC
* * *
98381 CCTTCTTGACTTGAGCTATGT
66 CCTTCTCGCCTTGAGTTATGT
* * * * *
98402 TGTAAATTTGATGTGTCCTTGAGCTGAATGTATTCGAACTCGAAGGTTTTTTGCTAACAAATAGC
1 TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATAAC
* * *
98467 TCTTCTCGCCTTGAGCTATGC
66 CCTTCTCGCCTTGAGTTATGT
* *
98488 TATAAATTTGATATGTCCTTGAGCTGAATGTAATCGAAATCGAAGGTTTTTTGCTGACAGATAAC
1 TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATAAC
* *
98553 CCTTATCGCCTTGAGTTATAT
66 CCTTCTCGCCTTGAGTTATGT
* * *
98574 TGTAAATTTGATATGTCATTTAGCTGAATGTAATCGAACTCAAAGGTTTTTTGC
1 TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGC
98628 CGATGGATAG
Statistics
Matches: 492, Mismatches: 65, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
84 70 0.14
85 190 0.39
86 231 0.47
87 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (86 bp):
TGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGCTGACAGATAAC
CCTTCTCGCCTTGAGTTATGT
Found at i:100259 original size:99 final size:99
Alignment explanation
Indices: 100087--100288 Score: 334
Period size: 99 Copynumber: 2.0 Consensus size: 99
100077 GGACAACTAA
* *
100087 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGCTTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGGGGCTTTTAACCAATT
*
100152 GCTTTAGAGGGAAAACTCAAGCTTTATTGTATAG
66 GCTCTAGAGGGAAAACTCAAGCTTTATTGTATAG
100186 ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGGGG-TGTTTAACCAAT
1 ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGGGGCT-TTTAACCAAT
* * *
100250 TGCTCTAGAGGGACATCTCAAGCTTTATTGTATAT
65 TGCTCTAGAGGGAAAACTCAAGCTTTATTGTATAG
100285 ATAT
1 ATAT
100289 AATATTATAA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 1 0.01
99 95 0.99
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (99 bp):
ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGGGGCTTTTAACCAATT
GCTCTAGAGGGAAAACTCAAGCTTTATTGTATAG
Found at i:101324 original size:20 final size:20
Alignment explanation
Indices: 101299--101343 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
101289 TTGAAGGTAT
101299 CATCCTGGCTGCATCTGCCC
1 CATCCTGGCTGCATCTGCCC
101319 CATCCTGGCTGCATCTGCCC
1 CATCCTGGCTGCATCTGCCC
101339 CATCC
1 CATCC
101344 ATTCCCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.47, G:0.18, T:0.24
Consensus pattern (20 bp):
CATCCTGGCTGCATCTGCCC
Found at i:104485 original size:17 final size:17
Alignment explanation
Indices: 104465--104510 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
104455 ATAAAAAAAC
**
104465 AATTAAATTAAAACGTG
1 AATTAAATTAAAAAATG
104482 AATTAAA-TAAAGAAATG
1 AATTAAATTAAA-AAATG
104499 -ATTAAATTAAAA
1 AATTAAATTAAAA
104511 GAAAAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (17 bp):
AATTAAATTAAAAAATG
Found at i:107120 original size:3 final size:3
Alignment explanation
Indices: 107112--107195 Score: 159
Period size: 3 Copynumber: 28.0 Consensus size: 3
107102 TTATTTATGT
107112 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
107160 TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
107196 ACACACTCTC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:116216 original size:26 final size:27
Alignment explanation
Indices: 116155--116220 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
116145 TATATGAGAA
*
116155 TTTGAAAATTTTAAGAAAATATCATAAT
1 TTTG-AAATTTTTAGAAAATATCATAAT
*
116183 TTTGAAATTTTTA-AAATTATCATATAT
1 TTTGAAATTTTTAGAAAATATCATA-AT
116210 TTT-AAATTTTT
1 TTTGAAATTTTT
116221 TCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 18 0.51
27 13 0.37
28 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (27 bp):
TTTGAAATTTTTAGAAAATATCATAAT
Done.