Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000403.1 Hibiscus syriacus cultivar Beakdansim tig00000744_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: 136712
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:2756 original size:11 final size:12
Alignment explanation
Indices: 2732--2759 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2722 TGATTTCTGA
2732 TTTTTGTTATTT
1 TTTTTGTTATTT
2744 TTTTTGTTATTT
1 TTTTTGTTATTT
2756 TTTT
1 TTTT
2760 CATTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (12 bp):
TTTTTGTTATTT
Found at i:2757 original size:21 final size:21
Alignment explanation
Indices: 2731--2773 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2721 CTGATTTCTG
*
2731 ATTTTTGTT-ATTTTTTTTGTT
1 ATTTTT-TTCATTTTCTTTGTT
2752 ATTTTTTTCATTTTCTTTGTT
1 ATTTTTTTCATTTTCTTTGTT
2773 A
1 A
2774 CATTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (21 bp):
ATTTTTTTCATTTTCTTTGTT
Found at i:5968 original size:2 final size:2
Alignment explanation
Indices: 5956--6016 Score: 54
Period size: 2 Copynumber: 31.0 Consensus size: 2
5946 TGTCAGTACG
* * *
5956 TA TA GA TA TA TA TA TA TA TA TA TA TC GA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5996 CA TCA CA TA TA TA TA TA TA TA
1 TA T-A TA TA TA TA TA TA TA TA
6017 GGTAGAATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:7534 original size:55 final size:55
Alignment explanation
Indices: 7452--8097 Score: 751
Period size: 55 Copynumber: 11.7 Consensus size: 55
7442 TCTTCAAATG
* * * *
7452 ACGGGTCCGCTCCCTATTCCTTCAGGGAGTATA-AGACTCGGACAATCTTCATAAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATAAA
** * * * * *
7507 ACAAGTTCGCACCCTATTCGTTAAGGGAGTATAGAACTCGAACAATCTTCATAAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
* *
7562 ACAGGTTTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
7617 ACGGG-TCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAA
1 ACGGGTTC-GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
* * * * * * *
7672 ACGAGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCAAAAAATCTTCATAAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
7727 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
* *
7782 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTAGAACAATCTTCATAAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
* * * *
7837 ACGGATCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCAAACAATCTTCATGAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
* * *
7892 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATATAACTCGAATAATCTTCAATAAA
1 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTC-ATAAA
* * *
7948 A-GGGTCCGATCCCTATT-CTATCAGAGAGTATAGAACTCGAACAATCTTCA-ACAA
1 ACGGGTTCGCTCTCTATTCCT-TCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
* * *
8002 ACGGG-TCTGCTCCCTATT-CTATCAGAGAGTATATAACTCGAACAATTTTCA-ATAA
1 ACGGGTTC-GCTCTCTATTCCT-TCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
* *
8057 ACGGGTCCGCTCCCTATT-CTATCAGAGAGTATATG-ACTCGA
1 ACGGGTTCGCTCTCTATTCCT-TCAGAGAGTATA-GAACTCGA
8098 TCTTCATAAA
Statistics
Matches: 525, Mismatches: 52, Indels: 28
0.87 0.09 0.05
Matches are distributed among these distances:
53 1 0.00
54 10 0.02
55 504 0.96
56 10 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (55 bp):
ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
Found at i:7721 original size:165 final size:164
Alignment explanation
Indices: 7452--8097 Score: 849
Period size: 165 Copynumber: 3.9 Consensus size: 164
7442 TCTTCAAATG
* * * *
7452 ACGGGTCCGCTCCCTATTCCTTCAGGGAGTATA-AGACTCGGACAATCTTCATAAAACAAGTTCG
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATAAAACGAGTCCG
* * * * * **
7516 CACCCTATTCGTTAAGGGAGTATAGAACTCGAACAATCTTCATAAAACAGGTTTGCTCTCTATTC
65 CTCCCTATTC-TTCAGAGAGTATAGAACTCAAACAATCTTCATAAAACGGGTCCGCTCTCTATTC
7581 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
129 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* *
7617 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGAGTCCG
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGAGTCCG
* * *
7681 CTCCCTATTCATTCAGGGAGTATAGAACTCAAAAAATCTTCATAAAACGGGTTCGCTCTCTATTC
65 CTCCCTATTC-TTCAGAGAGTATAGAACTCAAACAATCTTCATAAAACGGGTCCGCTCTCTATTC
7746 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
129 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* *
7782 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTAGAACAATCTTCATAAAACG-GATCCG
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGAG-TCCG
* *
7846 CTCTCTATTCCTTCAGAGAGTATAGAACTCAAACAATCTTCATGAAACGGGTCCGCTCTCTATTC
65 CTCCCTATT-CTTCAGAGAGTATAGAACTCAAACAATCTTCATAAAACGGGTCCGCTCTCTATTC
* * *
7911 CTTCAGAGAGTATATAACTCGAATAATCTTCAATAA
129 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* * * *
7947 AAGGGTCCGATCCCTATT-CTATCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGGGTCT
1 ACGGGTCCGCTCCCTATTCCT-TCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGAGTCC
* * * *
8010 GCTCCCTATTCTATCAGAGAGTATATAACTCGAACAATTTTCA-ATAAACGGGTCCGCTCCCTAT
64 GCTCCCTATTCT-TCAGAGAGTATAGAACTCAAACAATCTTCATA-AAACGGGTCCGCTCTCTAT
8074 T-CTATCAGAGAGTATATG-ACTCGA
127 TCCT-TCAGAGAGTATA-GAACTCGA
8098 TCTTCATAAA
Statistics
Matches: 434, Mismatches: 35, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
164 9 0.02
165 421 0.97
166 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (164 bp):
ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGC
TCCCTATTCTTCAGAGAGTATAGAACTCAAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCT
TCAGAGAGTATAGAACTCGAACAATCTTCAACAA
Found at i:9376 original size:15 final size:15
Alignment explanation
Indices: 9352--9422 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 15
9342 TTGAACCCCC
*
9352 CTTTTATTTCTTTTT
1 CTTTTTTTTCTTTTT
9367 CTTTTTTTTCATTTTT
1 CTTTTTTTTC-TTTTT
9383 CATTTTTCATTTTCTCTTTT
1 C--TTTT--TTTTCT-TTTT
*
9403 CTCTTTTCTTCTTTTT
1 CT-TTTTTTTCTTTTT
9419 CTTT
1 CTTT
9423 CATTTTTTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
15 11 0.23
16 12 0.26
17 5 0.11
18 5 0.11
19 4 0.09
20 10 0.21
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:9381 original size:7 final size:7
Alignment explanation
Indices: 9371--9395 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9361 CTTTTTCTTT
9371 TTTTTCA
1 TTTTTCA
9378 TTTTTCA
1 TTTTTCA
9385 TTTTTCA
1 TTTTTCA
9392 TTTT
1 TTTT
9396 CTCTTTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:9421 original size:14 final size:14
Alignment explanation
Indices: 9358--9435 Score: 65
Period size: 14 Copynumber: 5.5 Consensus size: 14
9348 CCCCCTTTTA
*
9358 TTTCTTTTTCTTTTT
1 TTTC-TTTTCTTCTT
*
9373 TTTCATTT-TTCATT
1 TTTCTTTTCTTC-TT
9387 TTTCATTTTC-TCTT
1 TTTC-TTTTCTTCTT
9401 TTCTCTTTTCTTCTT
1 TT-TCTTTTCTTCTT
9416 TTTC-TTTCATT-TT
1 TTTCTTTTC-TTCTT
9429 TTTCTTT
1 TTTCTTT
9436 CACCATTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
13 12 0.23
14 24 0.45
15 17 0.32
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTTTTCTTCTT
Found at i:16070 original size:50 final size:48
Alignment explanation
Indices: 15995--16124 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 48
15985 TCCTACCCAA
* * *
15995 CATGATATCT-ATCCCCATGCTTTGTTATTCACAAAAAGAAATCCTAACCG
1 CATGATATCTAATTCGCATGC-TTGTTATTC-CAAAAA-AAAGCCTAACCG
* *
16045 CATGATATCTAATTCGCATGCTTG-T-TT-GAAAAATAAGCCTAACCG
1 CATGATATCTAATTCGCATGCTTGTTATTCCAAAAAAAAGCCTAACCG
* * *
16090 CATGATATCTAGTTCGCATGCAT-TTATTCGAAAAA
1 CATGATATCTAATTCGCATGCTTGTTATTCCAAAAA
16125 CGAAAATAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
45 32 0.46
46 7 0.10
47 6 0.09
48 2 0.03
49 1 0.01
50 13 0.19
51 8 0.12
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.32
Consensus pattern (48 bp):
CATGATATCTAATTCGCATGCTTGTTATTCCAAAAAAAAGCCTAACCG
Found at i:27048 original size:17 final size:16
Alignment explanation
Indices: 27023--27056 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
27013 TGAAAATTAG
27023 AAAAATATTTAAAAAT
1 AAAAATATTTAAAAAT
*
27039 AAAAACTATTTTAAAAT
1 AAAAA-TATTTAAAAAT
27056 A
1 A
27057 TTATAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATATTTAAAAAT
Found at i:31457 original size:23 final size:23
Alignment explanation
Indices: 31430--31474 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
31420 AATTTTCTCT
31430 TTATGAAATAATTTCTTCTATTA
1 TTATGAAATAATTTCTTCTATTA
* **
31453 TTATGATATGTTTTCTTCTATT
1 TTATGAAATAATTTCTTCTATT
31475 TTTTTGCACG
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:0.09, G:0.07, T:0.58
Consensus pattern (23 bp):
TTATGAAATAATTTCTTCTATTA
Found at i:31980 original size:25 final size:26
Alignment explanation
Indices: 31937--31985 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
31927 CGGCTTTTAT
* *
31937 AAAAAATAATATAATATTAAATTTCA
1 AAAAAATAATAAAAAATTAAATTTCA
*
31963 AAAAAAT-ATAAAAAATTACATTT
1 AAAAAATAATAAAAAATTAAATTT
31986 TAAATTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAAATAATAAAAAATTAAATTTCA
Found at i:33096 original size:69 final size:69
Alignment explanation
Indices: 33002--33133 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 69
32992 TTGTCTACGG
*
33002 TTGCGTTAGGAAACAATAAGTTTACAGGCACCATCCCGGATCTATCCAATTGCAAAAGCTTGCTA
1 TTGCGTTAGGAAACAATAAGTTTACAGGCACCATACCGGATCTATCCAATTGCAAAAGCTTGCTA
33067 ATAT
66 ATAT
* * * * * * * *
33071 TTGCTTTAGGATACAGTCAGTTTACAGGCACCATACCGGATTTATCTAATTGCAGAGGCTTGC
1 TTGCGTTAGGAAACAATAAGTTTACAGGCACCATACCGGATCTATCCAATTGCAAAAGCTTGC
33134 GATTATTAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (69 bp):
TTGCGTTAGGAAACAATAAGTTTACAGGCACCATACCGGATCTATCCAATTGCAAAAGCTTGCTA
ATAT
Found at i:40613 original size:3 final size:3
Alignment explanation
Indices: 40605--40707 Score: 145
Period size: 3 Copynumber: 34.7 Consensus size: 3
40595 TTTTTATCCA
* * *
40605 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
40653 TAT TAT TAT TAT TTT TAT TTT TAT TTT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
40700 TAT TAT TA
1 TAT TAT TA
40708 AATATATTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 85 0.98
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:42155 original size:22 final size:22
Alignment explanation
Indices: 42114--42160 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
42104 GTTTTAATAG
* * *
42114 TATTTTTATTTTTATGAATAAA
1 TATTTTTATATTCATAAATAAA
*
42136 TATTTTTATATTCATAAATATA
1 TATTTTTATATTCATAAATAAA
42158 TAT
1 TAT
42161 AATAGTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTTATATTCATAAATAAA
Found at i:54723 original size:52 final size:52
Alignment explanation
Indices: 54645--55008 Score: 624
Period size: 52 Copynumber: 7.0 Consensus size: 52
54635 TGAATGTGCT
*
54645 CATAGCATCTTCTGGAATTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
54697 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA
* *
54749 CATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
54801 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA
* *
54853 CATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
54905 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
* *
54957 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
55009 TCAAGTATTG
Statistics
Matches: 297, Mismatches: 11, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
51 4 0.01
52 289 0.97
53 4 0.01
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (52 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
Found at i:56218 original size:118 final size:117
Alignment explanation
Indices: 55645--56278 Score: 1059
Period size: 119 Copynumber: 5.4 Consensus size: 117
55635 ATTTCGAATC
55645 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGG
1 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGG
*
55707 AAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
66 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
55759 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGG
1 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGG
*
55821 AAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
66 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
55873 CACTTGATGGATCATTCTTTTCCAGAGGAAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 CACTTGATGGATCATTCTTTTCCAGA-G-AAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
55938 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
55992 CACTTGATGGATCATTCTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 CACTTGATGGATCATTCTTTTCCAGA-GAA-AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
56057 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
*
56111 CACTTGATGGATCA-TCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 CACTTGATGGATCATTCTTTTCCAGAG-AA-AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
*
56175 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCAT
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
* * * ** *
56229 CATTTGATGGAACA-TCATCCCCAGCAGAAAGTTCGTAATGAGAAGAACTC
1 CACTTGATGGATCATTCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTC
56279 ATCTGGAGAA
Statistics
Matches: 504, Mismatches: 8, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
114 140 0.28
115 1 0.00
116 20 0.04
117 21 0.04
118 125 0.25
119 197 0.39
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (117 bp):
CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGG
AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
Found at i:56441 original size:3 final size:3
Alignment explanation
Indices: 56433--56535 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
56423 TTTTTATCCA
* * *
56433 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
56481 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56528 TAT TAT TA
1 TAT TAT TA
56536 AATATATTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
2 2 0.02
3 89 0.98
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:57977 original size:24 final size:23
Alignment explanation
Indices: 57933--57982 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
57923 GTTTTAATAG
* * *
57933 TATTTTTTATTTTTATGAATAAA
1 TATTTTTTATATTCATAAATAAA
*
57956 TATTTTTATATATTCATAAATATA
1 TATTTTT-TATATTCATAAATAAA
57980 TAT
1 TAT
57983 ATAATAGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTTTTATATTCATAAATAAA
Found at i:60102 original size:32 final size:33
Alignment explanation
Indices: 60060--60145 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 33
60050 TAAGGCGACC
*
60060 CTTGGATAGGCTCTGCGGCCCCCCAG-ATCTTT
1 CTTGGGTAGGCTCTGCGGCCCCCCAGAATCTTT
* * * * *
60092 CTTGGGTAGGCCCCGTGG-CCTCGAGAATCTTT
1 CTTGGGTAGGCTCTGCGGCCCCCCAGAATCTTT
*
60124 CTTGGGTATGCTCT-CAGGCCCC
1 CTTGGGTAGGCTCTGC-GGCCCC
60146 AAGGTGATTC
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
31 5 0.12
32 33 0.82
33 2 0.05
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (33 bp):
CTTGGGTAGGCTCTGCGGCCCCCCAGAATCTTT
Found at i:70470 original size:21 final size:21
Alignment explanation
Indices: 70426--70470 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
70416 ACAAGCGTCG
*
70426 TAATTATCAAATAACTAAACA
1 TAATTATCAAATAAATAAACA
*
70447 TAATTCTCAAATAAAATAAA-A
1 TAATTATCAAAT-AAATAAACA
70468 TAA
1 TAA
70471 ATAGAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (21 bp):
TAATTATCAAATAAATAAACA
Found at i:81007 original size:16 final size:17
Alignment explanation
Indices: 80986--81017 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
80976 TCGGTTTGCA
80986 AAAAACCGG-TTTTTTT
1 AAAAACCGGATTTTTTT
81002 AAAAACCGGATTTTTT
1 AAAAACCGGATTTTTT
81018 CGGATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
AAAAACCGGATTTTTTT
Found at i:81184 original size:28 final size:27
Alignment explanation
Indices: 81152--81204 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
81142 ATCGGTTTTT
81152 CCAAAATCCGAT-TTCGGATATTTTTTAC
1 CCAAAATCCGATATTC-GA-ATTTTTTAC
*
81180 CCAAAATCGGATATTCGAATTTTTT
1 CCAAAATCCGATATTCGAATTTTTT
81205 GTGCGCCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 7 0.30
28 13 0.57
29 3 0.13
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (27 bp):
CCAAAATCCGATATTCGAATTTTTTAC
Found at i:81595 original size:16 final size:17
Alignment explanation
Indices: 81570--81607 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
81560 AAATTCCACC
81570 TAAA-TCTTTTACT-AT
1 TAAATTCTTTTACTCAT
81585 TAAATTCTTTTACTCAT
1 TAAATTCTTTTACTCAT
81602 TAAATT
1 TAAATT
81608 AAAGAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 9 0.43
17 8 0.38
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTCTTTTACTCAT
Found at i:82470 original size:37 final size:38
Alignment explanation
Indices: 82390--82470 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
82380 AATCAGTTGG
* *
82390 AAAATATTTATATATTTTCTTTAAAAAATTTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAAATTGAAAATCAT
*
82429 -AAAATTTATATAATTTT-TTTATAAAATTGAAAAT-AT
1 AAAAATTTATAT-ATTTTCTTTAAAAAATTGAAAATCAT
82465 AAAAAT
1 AAAAAT
82471 GTTTAATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
36 2 0.05
37 27 0.73
38 8 0.22
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAAAATTGAAAATCAT
Found at i:91605 original size:96 final size:96
Alignment explanation
Indices: 91441--91633 Score: 386
Period size: 96 Copynumber: 2.0 Consensus size: 96
91431 TAGATACACT
91441 AATCAAATGATAGTTCAGTAAAATCCCATAAACCATACTGTAGTTGAGCTTTTTAAACTCGTATT
1 AATCAAATGATAGTTCAGTAAAATCCCATAAACCATACTGTAGTTGAGCTTTTTAAACTCGTATT
91506 TTAAAACCATCTTACAAAGAATTAACCTAAG
66 TTAAAACCATCTTACAAAGAATTAACCTAAG
91537 AATCAAATGATAGTTCAGTAAAATCCCATAAACCATACTGTAGTTGAGCTTTTTAAACTCGTATT
1 AATCAAATGATAGTTCAGTAAAATCCCATAAACCATACTGTAGTTGAGCTTTTTAAACTCGTATT
91602 TTAAAACCATCTTACAAAGAATTAACCTAAG
66 TTAAAACCATCTTACAAAGAATTAACCTAAG
91633 A
1 A
91634 GAACATCTTA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (96 bp):
AATCAAATGATAGTTCAGTAAAATCCCATAAACCATACTGTAGTTGAGCTTTTTAAACTCGTATT
TTAAAACCATCTTACAAAGAATTAACCTAAG
Found at i:91719 original size:31 final size:32
Alignment explanation
Indices: 91684--91765 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
91674 GGGGCCGTGT
*
91684 GGCCTACCTAAGAACACATCTTAGGG-CGCAG
1 GGCCTACCTAAGAACACATCTCAGGGCCGCAG
** **
91715 GGCCTACCCGAGAA-TGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAACACATCTCAGGGCCGCAG
*
91746 AGCCTACCTAAGAATCACAT
1 GGCCTACCTAAGAA-CACAT
91766 TAGGTCCATA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
30 8 0.21
31 28 0.74
33 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.16
Consensus pattern (32 bp):
GGCCTACCTAAGAACACATCTCAGGGCCGCAG
Found at i:96681 original size:19 final size:18
Alignment explanation
Indices: 96633--96687 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
96623 TCAGGTATTT
* *
96633 TTTAAGATTTTTTAGAAA
1 TTTAATATTTTTTAAAAA
96651 TTTAGAGT-TTTTTTAAATAA
1 TTTA-A-TATTTTTTAAA-AA
96671 TTTAATATTTTTTAAAA
1 TTTAATATTTTTTAAAA
96688 TATAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 6 0.19
19 19 0.61
20 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (18 bp):
TTTAATATTTTTTAAAAA
Found at i:98839 original size:272 final size:272
Alignment explanation
Indices: 98353--98885 Score: 1021
Period size: 272 Copynumber: 2.0 Consensus size: 272
98343 TGATCTGAAT
*
98353 ATGTGATACATGAACATAAAAGATTAAGTGACATGAGCTATGTGATCATATGAGAATATGACATT
1 ATGTGATACATGAACATAAAAGATTAAGTGACATGAGCTATGTGATCATATGAGAATATGACATG
*
98418 AGATATGTGATATGTGAATTATATGGAAATGTGTTATCTGTAAGTGAACTACGTGTCTATGTGAA
66 AGATATGTGATATGTGAATTATATGAAAATGTGTTATCTGTAAGTGAACTACGTGTCTATGTGAA
*
98483 TATGTGAAATGACATAAAAGATAATGCCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGC
131 TATGTGAAATGACATAAAAGATAATACCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGC
98548 ATGCCAAGAGTCGAGGGTTCTACGTGGTCATTCGGGACATATATGTAATCCTTTGGAACATATAT
196 ATGCCAAGAGTCGAGGGTTCTACGTGGTCATTCGGGACATATATGTAATCCTTTGGAACATATAT
98613 GAGAATATTCAC
261 GAGAATATTCAC
*
98625 ATGTGATACATGAACATAAGAGATTAAGTGACATGAGCTATGTGATCATATGAGAATATGACATG
1 ATGTGATACATGAACATAAAAGATTAAGTGACATGAGCTATGTGATCATATGAGAATATGACATG
*
98690 AGATATGTGATATGTGAATTATATGAAAATGTGTTATGTGTAAGTGAACTACGTGTCTATGTGAA
66 AGATATGTGATATGTGAATTATATGAAAATGTGTTATCTGTAAGTGAACTACGTGTCTATGTGAA
98755 TATGTGAAATGACATAAAAGATAATACCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGC
131 TATGTGAAATGACATAAAAGATAATACCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGC
98820 ATGCCAAGAGTCGAGGGTTCTACGTGGTCATTCGGGACATATATGTAATCCTTTGGAACATATAT
196 ATGCCAAGAGTCGAGGGTTCTACGTGGTCATTCGGGACATATATGTAATCCTTTGGAACATATAT
98885 G
261 G
98886 TTGTACTTCG
Statistics
Matches: 256, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
272 256 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (272 bp):
ATGTGATACATGAACATAAAAGATTAAGTGACATGAGCTATGTGATCATATGAGAATATGACATG
AGATATGTGATATGTGAATTATATGAAAATGTGTTATCTGTAAGTGAACTACGTGTCTATGTGAA
TATGTGAAATGACATAAAAGATAATACCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGC
ATGCCAAGAGTCGAGGGTTCTACGTGGTCATTCGGGACATATATGTAATCCTTTGGAACATATAT
GAGAATATTCAC
Found at i:100014 original size:29 final size:29
Alignment explanation
Indices: 99972--100039 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
99962 TTCGAACGTT
99972 GGTCGCCAAGTGGTCCGGACGACAAAGGA
1 GGTCGCCAAGTGGTCCGGACGACAAAGGA
100001 GGTCGCCAAGTGGTCCGGACGACAAAGGA
1 GGTCGCCAAGTGGTCCGGACGACAAAGGA
100030 GGTCGCCAAG
1 GGTCGCCAAG
100040 CCATCCCTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.38, T:0.10
Consensus pattern (29 bp):
GGTCGCCAAGTGGTCCGGACGACAAAGGA
Found at i:101492 original size:27 final size:28
Alignment explanation
Indices: 101426--101501 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
101416 TTGTAACCAC
101426 CATCATTATCTCAAGAATTTTTTTTCAA
1 CATCATTATCTCAAGAATTTTTTTTCAA
*
101454 CAAT-ATTGTCTCAAGAATTTTTTTTC-A
1 C-ATCATTATCTCAAGAATTTTTTTTCAA
101481 CATCATTATCTCAAGAATTTT
1 CATCATTATCTCAAGAATTTT
101502 GCCTCTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 18 0.41
28 22 0.50
29 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.46
Consensus pattern (28 bp):
CATCATTATCTCAAGAATTTTTTTTCAA
Found at i:105158 original size:60 final size:60
Alignment explanation
Indices: 105087--105254 Score: 205
Period size: 60 Copynumber: 2.8 Consensus size: 60
105077 TAAATTATAA
* * * *
105087 CTCATTTTAAATT-GATCTTTAACCTTTTGAATATTCTAATTTTATTCCC-AAACTATGACT
1 CTCATTCTAAATTAG-TCTTTAAACTTTTGAATATTCTAATTTCA-TCCCTAAACTATGACC
*
105147 CTCATTCTAAATTAGTCTTTAAACTTTTGAACATTCTAATTTCATCCCTAAACTATGACC
1 CTCATTCTAAATTAGTCTTTAAACTTTTGAATATTCTAATTTCATCCCTAAACTATGACC
* * ** * *
105207 CTCTTTCTAAAATAGTCCCTAATCTTTTGAATATTCCAATTTCATCCC
1 CTCATTCTAAATTAGTCTTTAAACTTTTGAATATTCTAATTTCATCCC
105255 CCTAATTCAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 4 0.04
60 89 0.95
61 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (60 bp):
CTCATTCTAAATTAGTCTTTAAACTTTTGAATATTCTAATTTCATCCCTAAACTATGACC
Found at i:110358 original size:2 final size:2
Alignment explanation
Indices: 110347--110384 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
110337 AAGGAAAAAA
*
110347 AT AT AA 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
110385 CAAGTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:110892 original size:18 final size:17
Alignment explanation
Indices: 110871--110913 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
110861 ATATATACAT
110871 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
* *
110889 ATAATAAAAATAAGTGA
1 ATAATAATAATAAATGA
110906 ATAA-AATA
1 ATAATAATA
110914 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:112249 original size:105 final size:105
Alignment explanation
Indices: 112062--112511 Score: 712
Period size: 105 Copynumber: 4.3 Consensus size: 105
112052 GCATTGTTCA
* * ** *
112062 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
112122 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
112162 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
112227 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
112267 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
112332 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
112372 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
112437 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
112477 GAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GAGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
112512 CGCGGATGGC
Statistics
Matches: 325, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
100 37 0.11
101 1 0.00
102 1 0.00
104 5 0.02
105 256 0.79
106 3 0.01
108 22 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:113206 original size:68 final size:65
Alignment explanation
Indices: 113115--113272 Score: 199
Period size: 68 Copynumber: 2.4 Consensus size: 65
113105 AAGATATATG
* * ** *
113115 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAG-G
113180 TT
64 TT
* * * *
113182 TGTGTTTCAAGAGTAACTGTCTCAAAGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGGT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGGT
113247 T
65 T
*
113248 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
113273 ATAGACGAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 21 0.27
66 3 0.04
67 23 0.29
68 31 0.40
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGGTT
Found at i:113284 original size:65 final size:66
Alignment explanation
Indices: 113115--113298 Score: 201
Period size: 65 Copynumber: 2.8 Consensus size: 66
113105 AAGATATATG
* * * * ** *
113115 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGAG
113180 TT
65 TT
* *
113182 TGTGTTTCAAGAGTAACTGTCTCAA-AGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAG-
1 T-TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGA
113245 GTT
64 GTT
* * * * *
113248 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAA
113299 CTGTCTCAAG
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
65 41 0.42
66 4 0.04
67 23 0.23
68 30 0.31
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGT
T
Found at i:113299 original size:36 final size:36
Alignment explanation
Indices: 113247--113473 Score: 161
Period size: 36 Copynumber: 6.5 Consensus size: 36
113237 ATTCAAAGGT
* *
113247 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
*
113283 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * * *
113319 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGGAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * *
113356 TTTGTTTCAA-AGAAAACATAT-TC---A-A-A--TAT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACGAAA
* * *
113385 TTTATTTTAAGGGAAACTGTCTCAAGAGAGAC-ACAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGA-AA
* * *
113421 TTTATTTCAAGGGAAACTGTCTCAAGCGAGAC-AAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* *
113456 TCTTGTTTTAAGAAAAAC
1 T-TTGTTTCAAGAGAAAC
113474 AATCATGAGT
Statistics
Matches: 151, Mismatches: 27, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
28 2 0.01
29 15 0.10
30 1 0.01
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 5 0.03
36 91 0.60
37 32 0.21
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
Found at i:113344 original size:37 final size:36
Alignment explanation
Indices: 113259--113351 Score: 123
Period size: 37 Copynumber: 2.6 Consensus size: 36
113249 TGTTTCAAGG
* * * * *
113259 GAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
113295 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
*
113332 GAAACTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
113352 GGAATTTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 22 0.44
37 28 0.56
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:113362 original size:138 final size:138
Alignment explanation
Indices: 113196--113455 Score: 351
Period size: 138 Copynumber: 1.9 Consensus size: 138
113186 TTTCAAGAGT
* ** * * * *
113196 AACTGTCTCAAAGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGGTTTTGTTTCAAGGGA
1 AACTGTCTCAAAGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTATTTCAAGGGA
* *
113261 AACTGTCTCAAGATAGACGA-AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGT
66 AACTGTCTCAAGAGAGAC-ACAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGT
113325 TCCAAAAGA
130 TCCAAAAGA
* ** * * *
113334 AACTGTCTCAAGGGAGACGGAATTTGTTTCAAAGAAAACATATTCAAATATTTTATTTTAAGGGA
1 AACTGTCTCAAAGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTATTTCAAGGGA
* *
113399 AACTGTCTCAAGAGAGACACAATTTATTTCAAGGGAAACTGTCTCAAGCGAGACAAA
66 AACTGTCTCAAGAGAGACACAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAA
113456 TCTTGTTTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
137 1 0.01
138 103 0.99
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (138 bp):
AACTGTCTCAAAGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTATTTCAAGGGA
AACTGTCTCAAGAGAGACACAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
CCAAAAGA
Found at i:114400 original size:22 final size:22
Alignment explanation
Indices: 114375--114418 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
114365 CATTTTTGTT
114375 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
114397 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
114419 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:115037 original size:11 final size:11
Alignment explanation
Indices: 115023--115069 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
115013 TCCCTTTTTC
115023 TTTTTGTTCTT
1 TTTTTGTTCTT
115034 TTTTTGCTT-TT
1 TTTTTG-TTCTT
115045 TTTTT-TTGCTT
1 TTTTTGTT-CTT
*
115056 TTTTTTTTCTT
1 TTTTTGTTCTT
115067 TTT
1 TTT
115070 GCCCTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.06
11 26 0.81
12 4 0.12
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (11 bp):
TTTTTGTTCTT
Found at i:115043 original size:24 final size:24
Alignment explanation
Indices: 115016--115069 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
115006 TTTTTTGTCC
115016 CTTTTTCTTTTTG-TTCTTTTTTTG
1 CTTTTTCTTTTTGCTT-TTTTTTTG
* *
115040 CTTTTTTTTTTTGCTTTTTTTTTT
1 CTTTTTCTTTTTGCTTTTTTTTTG
115064 CTTTTT
1 CTTTTT
115070 GCCCTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (24 bp):
CTTTTTCTTTTTGCTTTTTTTTTG
Found at i:115050 original size:13 final size:13
Alignment explanation
Indices: 115032--115063 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
115022 CTTTTTGTTC
115032 TTTTTTTGCTTTT
1 TTTTTTTGCTTTT
115045 TTTTTTTGCTTTT
1 TTTTTTTGCTTTT
115058 TTTTTT
1 TTTTTT
115064 CTTTTTGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (13 bp):
TTTTTTTGCTTTT
Found at i:115077 original size:18 final size:18
Alignment explanation
Indices: 115041--115083 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
115031 CTTTTTTTGC
**
115041 TTTTTT-TTTTTGCTTTT
1 TTTTTTCTTTTTGCCCTT
115058 TTTTTTCTTTTTGCCCTT
1 TTTTTTCTTTTTGCCCTT
*
115076 TTTATTCT
1 TTTTTTCT
115084 GATTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTTTGCCCTT
Found at i:116263 original size:8 final size:8
Alignment explanation
Indices: 116247--116285 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
116237 ATTGTAGATG
116247 AAAATGCA
1 AAAATGCA
*
116255 AAAAGGCA
1 AAAATGCA
116263 AAAATGC-
1 AAAATGCA
116270 AAAATGCA
1 AAAATGCA
*
116278 AGAATGCA
1 AAAATGCA
116286 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:116273 original size:15 final size:15
Alignment explanation
Indices: 116247--116285 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
116237 ATTGTAGATG
116247 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
116263 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
116278 AGAATGCA
1 AAAATGCA
116286 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:116829 original size:18 final size:18
Alignment explanation
Indices: 116806--116845 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
116796 ATTAGTCATT
116806 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
116824 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
116842 CAGA
1 CAGA
116846 CTTGAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (18 bp):
CAGAAGTGGATGTGAATC
Found at i:118795 original size:27 final size:27
Alignment explanation
Indices: 118764--118815 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
118754 TGTTAGATAA
*
118764 ACAATGTAAAAAAAAAACAAATAAGAT
1 ACAATGGAAAAAAAAAACAAATAAGAT
* *
118791 ACAATGGAAAAATAAAATAAATAAG
1 ACAATGGAAAAAAAAAACAAATAAG
118816 TAAGATAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (27 bp):
ACAATGGAAAAAAAAAACAAATAAGAT
Found at i:118887 original size:2 final size:2
Alignment explanation
Indices: 118876--118923 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
118866 AAGGAAAAAA
*
118876 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118918 AT AT AT
1 AT AT AT
118924 CAAAGTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119423 original size:18 final size:17
Alignment explanation
Indices: 119402--119444 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
119392 ATATATACAT
119402 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
* *
119420 ATAATAAAAATAAGTGA
1 ATAATAATAATAAATGA
119437 ATAA-AATA
1 ATAATAATA
119445 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:120826 original size:20 final size:20
Alignment explanation
Indices: 120791--120831 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
120781 TCTTTAGGAA
*
120791 TTTAAACTATAATGTTTATTG
1 TTTAAAATATAATGTTT-TTG
120812 TTTAAAATA-AATGTTTTTG
1 TTTAAAATATAATGTTTTTG
120831 T
1 T
120832 AACGATTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTAAAATATAATGTTTTTG
Found at i:121161 original size:12 final size:12
Alignment explanation
Indices: 121129--121168 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
121119 TACGGGAAAA
121129 TTAAAATC-A-T
1 TTAAAATCTATT
121139 TT-AAATCTATT
1 TTAAAATCTATT
*
121150 TTAAAATTTATT
1 TTAAAATCTATT
121162 TTAAAAT
1 TTAAAAT
121169 ATAGATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 5 0.19
10 3 0.12
11 3 0.12
12 15 0.58
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAAATCTATT
Found at i:121180 original size:22 final size:22
Alignment explanation
Indices: 121155--121412 Score: 306
Period size: 22 Copynumber: 11.7 Consensus size: 22
121145 CTATTTTAAA
*
121155 ATTTATTTTAAAATATAGATTT
1 ATTTATTTTAAAATATAGATTG
***
121177 ATTTATTTTAAAATAT-GAAACA
1 ATTTATTTTAAAATATAG-ATTG
***
121199 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATAGATTG
***
121220 ATTTTATTTTAAAATATA-AAAA
1 A-TTTATTTTAAAATATAGATTG
121242 ATTTTATTTTAAAATATAGATTG
1 A-TTTATTTTAAAATATAGATTG
*
121265 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
* *
121287 ATTTATTTTTAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
* *
121309 ATTTCTTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
* *
121331 ATTTATTTTAAAATATAAATTT
1 ATTTATTTTAAAATATAGATTG
*
121353 ATTTATTTTAAAATATATATTG
1 ATTTATTTTAAAATATAGATTG
121375 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
121397 ATTTATTTTAAAATAT
1 ATTTATTTTAAAATAT
121413 TTATTATTGT
Statistics
Matches: 214, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
21 5 0.02
22 207 0.97
23 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATAGATTG
Found at i:121490 original size:31 final size:31
Alignment explanation
Indices: 121433--121491 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
121423 ACTTGTATGG
* *
121433 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAATATTACAAAACTAAA
*
121464 ATTATTTAAATTTCAATATTGCAAAACT
1 ATTATTTAAATTTCAATATTACAAAACT
121492 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAATATTACAAAACTAAA
Found at i:130154 original size:24 final size:24
Alignment explanation
Indices: 130127--130182 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
130117 CCATTTAAAA
130127 TATCAATTCACTAGAATCACTAAT
1 TATCAATTCACTAGAATCACTAAT
*
130151 TATCAATTCACTAGAATGACTAAT
1 TATCAATTCACTAGAATCACTAAT
130175 TATCAATT
1 TATCAATT
130183 AGTTGGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (24 bp):
TATCAATTCACTAGAATCACTAAT
Found at i:133361 original size:27 final size:27
Alignment explanation
Indices: 133319--133392 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
133309 GAGCAAAAAT
* *
133319 CGACTCGACTCGAAAAATTGATCTTTC
1 CGACTCGACTCAAAAAACTGATCTTTC
* *
133346 CGACTCGACTCAAAAAACTGATTTTTT
1 CGACTCGACTCAAAAAACTGATCTTTC
* *
133373 CAACTCAACTCGAAAAAACT
1 CGACTCGACTC-AAAAAACT
133393 TTAAGTTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 32 0.80
28 8 0.20
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (27 bp):
CGACTCGACTCAAAAAACTGATCTTTC
Found at i:133416 original size:28 final size:28
Alignment explanation
Indices: 133385--133472 Score: 158
Period size: 28 Copynumber: 3.1 Consensus size: 28
133375 ACTCAACTCG
* *
133385 AAAAAACTTTAAGTTCAAATTGAGTTGT
1 AAAAAACTTCAAGTTCAAATCGAGTTGT
133413 AAAAAACTTCAAGTTCAAATCGAGTTGT
1 AAAAAACTTCAAGTTCAAATCGAGTTGT
133441 AAAAAACTTCAAGTTCAAATCGAGTTGT
1 AAAAAACTTCAAGTTCAAATCGAGTTGT
133469 AAAA
1 AAAA
133473 TACAACTTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (28 bp):
AAAAAACTTCAAGTTCAAATCGAGTTGT
Found at i:135725 original size:183 final size:183
Alignment explanation
Indices: 135403--135777 Score: 585
Period size: 183 Copynumber: 2.0 Consensus size: 183
135393 ATTAAATTTT
* *
135403 AAATTTTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTAAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAA
* * **
135468 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAATTTTTT
66 TTTAAAATCCAATAACTTTTAAAACTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
135533 TATTTTATAATTATATATTATTTAAATTAATCGTAAACTTTTTTT-AATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATCATAAACTTTTTTTGAATTAAA
* *
135585 AAATATTAAATATATTATATATAACATATGGGCT-AAGCCCCAAACCATTTAAAACCTAATTAAT
1 AAATATTAAATATATTATATATAACATATGGGCTCAA--CCCAAACCATTAAAAACCCAATTAAT
* *
135649 AATTTAAAATCCAATAACTTTTAAAATTAAATCAATATTAATTAATTAAAAAATTTATCTAAAAT
64 AATTTAAAATCCAATAACTTTTAAAACTAAATCAATATTAATTAATTAAAAAA-TTATATAAAAT
* *
135714 TTTTA-TTTATAATTATTTATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
128 TTTTATTTTATAATTATATATTATTTAAATTAATCATAAACTTTTTTTGAATTAAA
135769 AAATATTAA
1 AAATATTAA
135778 TTTTATATAA
Statistics
Matches: 176, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
181 2 0.01
182 33 0.19
183 112 0.64
184 29 0.16
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAA
TTTAAAATCCAATAACTTTTAAAACTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATCATAAACTTTTTTTGAATTAAA
Found at i:135743 original size:16 final size:17
Alignment explanation
Indices: 135712--135749 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
135702 TTTATCTAAA
135712 ATTT-TTATTTATAATT
1 ATTTATTATTTATAATT
135728 ATTTATTATTTA-AATT
1 ATTTATTATTTATAATT
*
135744 AATTAT
1 ATTTAT
135750 AAACTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTATTATTTATAATT
Found at i:135933 original size:15 final size:15
Alignment explanation
Indices: 135913--135941 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
135903 AAAAAAAGTT
135913 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
135928 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
135942 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Done.