Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007719.1 Hibiscus syriacus cultivar Beakdansim tig00109951_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: 308719
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:86 original size:51 final size:50
Alignment explanation
Indices: 6--161 Score: 204
Period size: 51 Copynumber: 3.1 Consensus size: 50
1 AATGC
* * * *
6 AAGATAGAAGTCATCCATGTGGGGTATCTTGAAGGCTCACATCAGCATGCA
1 AAGATAGAAGT-ATCCATGTAGGGAATCTTGAAGGCTCATATCAGCATGAA
* *
57 AAGATAGAAGTATTCCATGTAGGGAATCTTGAAGGCTCATATCAACAGGAA
1 AAGATAGAAGTA-TCCATGTAGGGAATCTTGAAGGCTCATATCAGCATGAA
* * *
108 AAAATAGAAGTAATCCATGTAGGGCATCTTGAAGGCTCATACCAGCATGAA
1 AAGATAGAAGT-ATCCATGTAGGGAATCTTGAAGGCTCATATCAGCATGAA
159 AAG
1 AAG
162 GTTGAGATAT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 89 0.98
52 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (50 bp):
AAGATAGAAGTATCCATGTAGGGAATCTTGAAGGCTCATATCAGCATGAA
Found at i:1852 original size:117 final size:117
Alignment explanation
Indices: 1706--2000 Score: 452
Period size: 117 Copynumber: 2.5 Consensus size: 117
1696 AATTTCTAGA
*
1706 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAAAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
1771 CAACCTTGGTTCGATTCCATCACAAAATGAGATGGATCAATATTTTCAATGG
66 CAACCTTGGTTCGATTCCATCACAAAAGGAGATGGATCAACATTTCCAATGG
* * *
1823 AGAGTTCATAATGACAAGAACTCATCCAATGAGGAAGAATAAATTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
1888 CAACCTTGGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTCCAGTGG
66 CAACCTTGGTTCGATTCCATCACAAAAGGAGATGGATCAACATTTCCAATGG
* * *
1940 AGAGTTCATAATGAGAAGTACTCATCCAAT-AAG-AG-AGAAGTTCATAATGACAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
2001 CCAATCTAAC
Statistics
Matches: 162, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
114 23 0.14
115 2 0.01
116 2 0.01
117 135 0.83
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (117 bp):
AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTGGTTCGATTCCATCACAAAAGGAGATGGATCAACATTTCCAATGG
Found at i:2405 original size:128 final size:128
Alignment explanation
Indices: 2124--2427 Score: 317
Period size: 128 Copynumber: 2.4 Consensus size: 128
2114 CACAACAATT
** * ***
2124 TGTCATCCACTGACCAGATCTCCTCATCATGTAGGAGCCATGTCAACCTTTGATAACCAGCCATC
1 TGTCATCC-CTGACCAGATCTCCTCATCACATAGGAACCATGTCAACCCCAGATAACCAGCCATC
* * * *
2189 TTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCATCCTCATCAAGTAGGAACCG
65 CTCATCACGTAGGAACCGTGTTATCACCCTTAGATCGCCTGCCATCCTAATCAAGTAGGAACCA
* * * * *
2253 TGTCATCATCC-GACCTGATTTCCTCATCGCATAGGAATCATGTC-ACCCCAGATAACCAGCCGT
1 TGTCATC--CCTGACCAGATCTCCTCATCACATAGGAACCATGTCAACCCCAGATAACCAGCCAT
* * * * * *
2316 CCTCATCACGTAGGAATCGTGTTATCA-CCTATAGATCGCCTTCCATTCTAATCACGTATGAGCC
64 CCTCATCACGTAGGAACCGTGTTATCACCCT-TAGATCGCCTGCCATCCTAATCAAGTAGGAACC
2380 A
128 A
* * * *
2381 TGTCATCCCTTGACCAGATCTCCTCATTACGTAGGAGCCGTGTCAAC
1 TGTCATCCC-TGACCAGATCTCCTCATCACATAGGAACCATGTCAAC
2428 TCTTAGATGA
Statistics
Matches: 140, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
126 2 0.01
127 3 0.02
128 98 0.70
129 35 0.25
130 1 0.01
131 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (128 bp):
TGTCATCCCTGACCAGATCTCCTCATCACATAGGAACCATGTCAACCCCAGATAACCAGCCATCC
TCATCACGTAGGAACCGTGTTATCACCCTTAGATCGCCTGCCATCCTAATCAAGTAGGAACCA
Found at i:2626 original size:3 final size:3
Alignment explanation
Indices: 2620--2657 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
2610 TTTAAAAAAA
2620 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT T
2658 TATTGCCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3482 original size:2 final size:2
Alignment explanation
Indices: 3477--3506 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3467 ATACCGGTTG
3477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3507 AGTTATGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3719 original size:49 final size:49
Alignment explanation
Indices: 3609--3727 Score: 116
Period size: 47 Copynumber: 2.5 Consensus size: 49
3599 GTACTAAATA
* * * * *
3609 ATATATGTATATATATACTTAATATATTTGAGTCTTTACACTTTTTTTC
1 ATATATATATATATATAATTAATATATTTGAGACTCTACACTTTTTTAC
* * * ** **
3658 -T-TTTATACATATATATTTAATATATTTTTGACTCTACTGTTTTTTAC
1 ATATATATATATATATAATTAATATATTTGAGACTCTACACTTTTTTAC
3705 ATATATATATATATATAATTAAT
1 ATATATATATATATATAATTAAT
3728 CTAAATTTAC
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
47 35 0.65
48 2 0.04
49 17 0.31
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (49 bp):
ATATATATATATATATAATTAATATATTTGAGACTCTACACTTTTTTAC
Found at i:6343 original size:24 final size:22
Alignment explanation
Indices: 6316--6360 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
6306 TATCAAAATC
6316 ATGATCCA-GTAGTATATTGTAAAA
1 ATGAT-CATGTAGT-TATT-TAAAA
6340 ATGATCATGTAGTTATTTAAA
1 ATGATCATGTAGTTATTTAAA
6361 TCACATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATCATGTAGTTATTTAAAA
Found at i:7675 original size:27 final size:25
Alignment explanation
Indices: 7649--7710 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
7639 CAGTCGAGGT
*
7649 TACTTCAGTCATATTGGATTTCTAGG
1 TACTTCAGTCATATTGGAGTT-TAGG
* * *
7675 TATTTCAATCATTTTGGAGTTTAGGGG
1 TACTTCAGTCATATTGGAGTTTA--GG
7702 TACTTCAGT
1 TACTTCAGT
7711 ATTTGAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 2 0.07
26 17 0.61
27 9 0.32
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (25 bp):
TACTTCAGTCATATTGGAGTTTAGG
Found at i:11868 original size:26 final size:26
Alignment explanation
Indices: 11829--11893 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
11819 TCGAGGTTAC
* *
11829 TTCAGTCATCTTGGAGTTC-TAGGTAT
1 TTCAATCAT-TTGGAGTTCAGAGGTAT
11855 TTCAATCAATTTGGAGTTCAGAGGTAT
1 TTCAATC-ATTTGGAGTTCAGAGGTAT
*
11882 TTCAGTCATTTG
1 TTCAATCATTTG
11894 AATATCATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.42
Consensus pattern (26 bp):
TTCAATCATTTGGAGTTCAGAGGTAT
Found at i:16032 original size:21 final size:22
Alignment explanation
Indices: 16005--16061 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
15995 GAATAAAAGA
16005 GAAAAAATGAAAAATGG-GAAGT
1 GAAAAAATGAAAAATGGCG-AGT
16027 G-AAAAATGAAAAA-GGCGAGT
1 GAAAAAATGAAAAATGGCGAGT
*
16047 GAAAAAAAGAAAAAT
1 GAAAAAATGAAAAAT
16062 TTAAAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 6 0.19
21 24 0.77
22 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.25, T:0.11
Consensus pattern (22 bp):
GAAAAAATGAAAAATGGCGAGT
Found at i:16038 original size:20 final size:21
Alignment explanation
Indices: 16007--16052 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
15997 ATAAAAGAGA
*
16007 AAAAATGAAAAATGG-GAAGTG
1 AAAAATGAAAAAAGGCG-AGTG
16028 AAAAATG-AAAAAGGCGAGTG
1 AAAAATGAAAAAAGGCGAGTG
16048 AAAAA
1 AAAAA
16053 AAGAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.61, C:0.02, G:0.26, T:0.11
Consensus pattern (21 bp):
AAAAATGAAAAAAGGCGAGTG
Found at i:17215 original size:109 final size:110
Alignment explanation
Indices: 17066--17271 Score: 299
Period size: 109 Copynumber: 1.9 Consensus size: 110
17056 CAAGAATAAA
* * * *
17066 AAGTTCTTAATGAGAATAACTTATTCGATTTCTTTCAAATCAATCACAG-AAGAAGGTGGATCAA
1 AAGTTCATAATGAGAAAAACTCATTCAATTTCTTTCAAATCAATCACAGAAAG-AGGTGGATCAA
17130 CAT-TTCAAGAAAAGTTCATAATGAGAAGAACTAGCCCTAAAAAGG
65 CATGTTCAAGAAAAGTTCATAATGAGAAGAACTAGCCCTAAAAAGG
* * * *
17175 AAGTTCATATTGAGAAAAACTCATTCAATTTCTTTTAAATCTATCACAGAAAGATGTGGATCAAC
1 AAGTTCATAATGAGAAAAACTCATTCAATTTCTTTCAAATCAATCACAGAAAGAGGTGGATCAAC
* *
17240 ATGTTCAATAATAGTTCATAATGAGAAGAACT
66 ATGTTCAAGAAAAGTTCATAATGAGAAGAACT
17272 CGTCAAAGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
109 55 0.65
110 30 0.35
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (110 bp):
AAGTTCATAATGAGAAAAACTCATTCAATTTCTTTCAAATCAATCACAGAAAGAGGTGGATCAAC
ATGTTCAAGAAAAGTTCATAATGAGAAGAACTAGCCCTAAAAAGG
Found at i:17546 original size:3 final size:3
Alignment explanation
Indices: 17538--17648 Score: 107
Period size: 3 Copynumber: 36.7 Consensus size: 3
17528 TTACTCAACC
* *
17538 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TCA TTTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * ** * *
17583 CTA TTA TTA TTT TTA TTA ACA TTA TTA TTA TTA TTA TTA TGA ATA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
17632 TTA ATA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
17649 TAAATAAAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
2 2 0.02
3 82 0.93
4 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:26290 original size:23 final size:23
Alignment explanation
Indices: 26259--26311 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
26249 CCTTTTAAAA
*
26259 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
26282 ATATAATGTAATGGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
26305 ATATAAT
1 ATATAAT
26312 AAAAAAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:26404 original size:23 final size:23
Alignment explanation
Indices: 26355--26407 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
26345 ACAATAACAT
**
26355 AATAGGTAGCGCTTATAAAATGT
1 AATAGGTAGCGCTTATAAAATAA
*
26378 AATAGGTAGCGCTTATATAATAA
1 AATAGGTAGCGCTTATAAAATAA
26401 AATAGGT
1 AATAGGT
26408 TAATTACTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (23 bp):
AATAGGTAGCGCTTATAAAATAA
Found at i:26442 original size:87 final size:87
Alignment explanation
Indices: 26267--26426 Score: 293
Period size: 87 Copynumber: 1.8 Consensus size: 87
26257 AAATATGATG
* *
26267 TAATAGGTAGCGCTTATATAATGTAATGGGTAGCGCTTATATAATAAAAAAGGTTAATTACTGGA
1 TAATAGGTAGCGCTTATAAAATGTAATAGGTAGCGCTTATATAATAAAAAAGGTTAATTACTGGA
26332 AACATTATCAAGCACAATAACA
66 AACATTATCAAGCACAATAACA
*
26354 TAATAGGTAGCGCTTATAAAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGGA
1 TAATAGGTAGCGCTTATAAAATGTAATAGGTAGCGCTTATATAATAAAAAAGGTTAATTACTGGA
26419 AACATTAT
66 AACATTAT
26427 TATGCACTTC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (87 bp):
TAATAGGTAGCGCTTATAAAATGTAATAGGTAGCGCTTATATAATAAAAAAGGTTAATTACTGGA
AACATTATCAAGCACAATAACA
Found at i:26901 original size:63 final size:64
Alignment explanation
Indices: 26772--26913 Score: 225
Period size: 63 Copynumber: 2.2 Consensus size: 64
26762 ACCTATTACT
* * *
26772 TTATATAAGCGCTATCTAATATGTTTTTGTGCTTGATAATGTTTCTAGTAATTAACATATTCTA
1 TTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTTTCTAGTAATTAACATATTCTA
*
26836 TTATATAAGCGCTACCTAATATATTATTGTGCTT-ATAATGTTT-TCAGTAATTAACATATTTTA
1 TTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTTTCT-AGTAATTAACATATTCTA
26899 TTATATAAGCGCTAC
1 TTATATAAGCGCTAC
26914 ATATTACATT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
62 1 0.01
63 41 0.56
64 31 0.42
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (64 bp):
TTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTTTCTAGTAATTAACATATTCTA
Found at i:26926 original size:150 final size:150
Alignment explanation
Indices: 26735--27012 Score: 396
Period size: 150 Copynumber: 1.9 Consensus size: 150
26725 AAATTAAATT
* * * *
26735 ATTAACATATTTTATTATATAAGCACTACCTATTACTTTATATAAGCGCTA-TCTAATATGTTTT
1 ATTAACATATTTTATTATATAAGCACTACATATTACATTATATAAACGCTACT-TAATATGTTAT
* * * *
26799 TGTGCTTGATAATGTTTCTAGTAATTAACATATTCTATTATATAAGCGCTACCTAATATATTATT
65 CGTGCTTGATAATGTTTCCAGTAATTAACATATTCTACTATATAAGCGCTACCTAATACATTATT
26864 GTGCTTATAATGTTTTCAGTA
130 GTGCTTATAATGTTTTCAGTA
* *** *
26885 ATTAACATATTTTATTATATAAGCGCTACATATTACATTATATAAATTTTACTTATTATGTTATC
1 ATTAACATATTTTATTATATAAGCACTACATATTACATTATATAAACGCTACTTAATATGTTATC
* * *
26950 GTGCTTGATAATGTTTCCAGTAATTAACCTATTTTACTATATAAGCGCTACCTATTACATTAT
66 GTGCTTGATAATGTTTCCAGTAATTAACATATTCTACTATATAAGCGCTACCTAATACATTAT
27013 ATAAACAGTA
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
150 110 0.99
151 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (150 bp):
ATTAACATATTTTATTATATAAGCACTACATATTACATTATATAAACGCTACTTAATATGTTATC
GTGCTTGATAATGTTTCCAGTAATTAACATATTCTACTATATAAGCGCTACCTAATACATTATTG
TGCTTATAATGTTTTCAGTA
Found at i:26983 original size:87 final size:87
Alignment explanation
Indices: 26835--27135 Score: 417
Period size: 87 Copynumber: 3.5 Consensus size: 87
26825 AACATATTCT
* * * * *
26835 ATTATATAAGC-GCTACCTAATATATTATTGTGCTT-ATAATGTTTTCAGTAATTAACATATTTT
1 ATTATATAAACAG-TACCTAATATGTTATCGTGCTTGATAATGTTTCCAGTAATTAACCTATTTT
*
26898 ATTATATAAGCGCTACATATTAC
65 ATTATATAAGCGCTACCTATTAC
*** * *
26921 ATTATATAAATTTTACTTATTATGTTATCGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
1 ATTATATAAACAGTACCTAATATGTTATCGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
*
26986 CTATATAAGCGCTACCTATTAC
66 TTATATAAGCGCTACCTATTAC
*
27008 ATTATATAAACAGTACCTAATATGTTATCGTGTTTGATAATGTTTCCAGTAATTAACCTATTTTA
1 ATTATATAAACAGTACCTAATATGTTATCGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
27073 TTATATAAGCGCTACCTATTAC
66 TTATATAAGCGCTACCTATTAC
** * * *
27095 ATTATATAGGCGGTACCTAATATGTTATTGTGTTTGATAAT
1 ATTATATAAACAGTACCTAATATGTTATCGTGCTTGATAAT
27136 ATTTTCGGTT
Statistics
Matches: 191, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
86 27 0.14
87 164 0.86
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (87 bp):
ATTATATAAACAGTACCTAATATGTTATCGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
TTATATAAGCGCTACCTATTAC
Found at i:27098 original size:23 final size:23
Alignment explanation
Indices: 27063--27113 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
27053 CCAGTAATTA
**
27063 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
27086 ACCTATTACATTATATAGGCGGT
1 ACCTATTACATTATATAAGCGCT
27109 ACCTA
1 ACCTA
27114 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:30076 original size:16 final size:19
Alignment explanation
Indices: 30054--30099 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
30044 TTTTGTTTAA
30054 ATTTAATTA-T-AAATATT
1 ATTTAATTATTAAAATATT
30071 -TTTAA-TATTAAAATATT
1 ATTTAATTATTAAAATATT
30088 ATTTAATT-TTAA
1 ATTTAATTATTAA
30100 TTTAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.08
16 6 0.24
17 7 0.28
18 9 0.36
19 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATTATTAAAATATT
Found at i:30119 original size:24 final size:24
Alignment explanation
Indices: 30070--30114 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
30060 TTATAAATAT
30070 TTTTAATATTAAAATATTATTTAA
1 TTTTAATATTAAAATATTATTTAA
*
30094 TTTTAAT-TT-AAATATTTTTTA
1 TTTTAATATTAAAATATTATTTA
30115 TAATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 2 0.10
24 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTAATATTAAAATATTATTTAA
Found at i:30554 original size:32 final size:33
Alignment explanation
Indices: 30511--30580 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
30501 TTGGTTGAAG
30511 GTAACTTAAAATATTAATCTTTTAATATTTT-T
1 GTAACTTAAAATATTAATCTTTTAATATTTTCT
* * *
30543 GTAATTTAAAATATTATTTTTTTAATATTTTCT
1 GTAACTTAAAATATTAATCTTTTAATATTTTCT
30576 GTAAC
1 GTAAC
30581 AACAGGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 28 0.85
33 5 0.15
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (33 bp):
GTAACTTAAAATATTAATCTTTTAATATTTTCT
Found at i:31541 original size:37 final size:37
Alignment explanation
Indices: 31441--31543 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 37
31431 ACGTTCGTTA
* * *
31441 ATATAATTACATTTTATTGTATTCATAATATTGATTC
1 ATATAATTACATTTTATTATATTCATGATATAGATTC
* * *
31478 ATATAACTATATTTTATTATATTCATGATATAGATTG
1 ATATAATTACATTTTATTATATTCATGATATAGATTC
*
31515 ATATAATTAGATTTTATTATATTCATGAT
1 ATATAATTACATTTTATTATATTCATGAT
31544 GAGTGAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (37 bp):
ATATAATTACATTTTATTATATTCATGATATAGATTC
Found at i:37692 original size:16 final size:18
Alignment explanation
Indices: 37663--37696 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
37653 GTCCCTTCTC
37663 CCATGTTTTATTTAATTT
1 CCATGTTTTATTTAATTT
37681 CCAT-TTTT-TTTAATTT
1 CCATGTTTTATTTAATTT
37697 TTGCATGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (18 bp):
CCATGTTTTATTTAATTT
Found at i:40420 original size:54 final size:54
Alignment explanation
Indices: 40357--40798 Score: 547
Period size: 54 Copynumber: 8.2 Consensus size: 54
40347 GATGCGCACG
** * * * * *
40357 TAGTGCCTATACTGTCATTCATAAACATATTATAAATTTCGTGGCTTGCACACA
1 TAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
* * *
40411 TAGTACCTATACAGTTGTTCATCAACATATGATTAATTTCGTGGGTTGCACACT
1 TAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
* * *
40465 TAGTGCCTAAAC-GATTGTTCATCAACATATGATGAATTCCATGGGTTGCACACT
1 TAGTGCCTATACTG-TTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
* *
40519 TAGTGCCTATACGGTTGTTCATCAACATATGATGAA-ATCTGTGGGTTGCACACT
1 TAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTC-GTGGGTTGCACACT
* *
40573 TAGTGCCTATA-TGGGTT-TTTATCAACATATGATGAATTTTGTGGGTTGCACACT
1 TAGTGCCTATACT--GTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
* * * *
40627 TAGTGCCTATA-TGATTTTTCATCAACATATGATGAAATTCATGGATTGCACACT
1 TAGTGCCTATACTG-TTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
* * *
40681 TAGTGCCTATACAGTTGTTCATCAATATATGATGAATTACGTGGGTTGCACACT
1 TAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
*
40735 TAGTG-CTATAC-GATTGTTCATCAGCATATGATGAATTTCGTGGGTTGCACACT
1 TAGTGCCTATACTG-TTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
*
40788 GAGTGCCTATA
1 TAGTGCCTATA
40799 GTACACATAG
Statistics
Matches: 339, Mismatches: 38, Indels: 22
0.85 0.10 0.06
Matches are distributed among these distances:
52 2 0.01
53 51 0.15
54 280 0.83
55 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (54 bp):
TAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
Found at i:41731 original size:21 final size:21
Alignment explanation
Indices: 41693--41732 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41683 TCTCCTAGTT
**
41693 TTAATCTTATTTAACCCTTTC
1 TTAATCTTACATAACCCTTTC
*
41714 TTAATCTTACATATCCCTT
1 TTAATCTTACATAACCCTT
41733 AAGGTTGCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATCTTACATAACCCTTTC
Found at i:47745 original size:54 final size:54
Alignment explanation
Indices: 47310--47812 Score: 527
Period size: 54 Copynumber: 9.4 Consensus size: 54
47300 TTCGTTGAGA
* ** * * * *
47310 TGCACACGTAGTGCCTATACGGTAATTCATAAACATATTATGAATTTTGTGGTT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * ** * * * * *
47364 TGTAAAAATAGTGCCTAAATGGTTGTTCATCAACAAATGATGAATTTTGTGGAT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * * *
47418 TGCACGCTTAGTGCCTATACGGTTATTCATCAACTTATGATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * * * *
47472 TACACACTTAGTGCATATACGGTTGTTCATCAACATATGACGAATTCCGTTGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * ** **
47526 TGCACACTTAGTGCTTATACAGTTGTTCATCAACATATTTTGAATTCCATGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * * *
47580 TGCACACTTAGTGTCTATACAGTTGTTCATTAACATATGAAGAA-TCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
*
47633 TGCACACATAGTGCTAGTGCCTATACAGTTGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACAC----T--TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * *
47693 TTCACACTTAGTCCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
*
47747 TGTACACTTAGT-CC----C--TTGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
*
47794 TGCACATTTAGTGCCTATA
1 TGCACACTTAGTGCCTATA
47813 GTACACATAG
Statistics
Matches: 377, Mismatches: 60, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
47 41 0.11
48 2 0.01
49 1 0.00
53 16 0.04
54 267 0.71
56 1 0.00
57 1 0.00
59 33 0.09
60 15 0.04
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
Found at i:47784 original size:47 final size:47
Alignment explanation
Indices: 47715--47805 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
47705 CCCTATACGG
*
47715 TTGTTCATCAACATATGATGAATTATGTGGGTTGTACACTTAGTCCC
1 TTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAGTCCC
* *
47762 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACATTTAGT
1 TTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAGT
47806 GCCTATAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (47 bp):
TTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAGTCCC
Found at i:51360 original size:18 final size:19
Alignment explanation
Indices: 51337--51382 Score: 85
Period size: 18 Copynumber: 2.5 Consensus size: 19
51327 CAAACCATAT
51337 AAAAACAAAATTGAGT-AA
1 AAAAACAAAATTGAGTAAA
51355 AAAAACAAAATTGAGTAAA
1 AAAAACAAAATTGAGTAAA
51374 AAAAACAAA
1 AAAAACAAA
51383 TCAAAACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.72, C:0.07, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAAACAAAATTGAGTAAA
Found at i:51481 original size:16 final size:15
Alignment explanation
Indices: 51459--51495 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
51449 AACATTGAAC
*
51459 AAAGAAAAATATATG
1 AAAGAAAAATAAATG
51474 ACAAGAAAAATAAATG
1 A-AAGAAAAATAAATG
51490 AAAGAA
1 AAAGAA
51496 GCATCATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.70, C:0.03, G:0.14, T:0.14
Consensus pattern (15 bp):
AAAGAAAAATAAATG
Found at i:51793 original size:24 final size:24
Alignment explanation
Indices: 51766--51845 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
51756 CATTTAAATG
* * *
51766 ATAAATGAATACAAATAAACAAAC
1 ATAAACGAACACAAACAAACAAAC
*
51790 ATAAACGAACACAAACAAACGAAC
1 ATAAACGAACACAAACAAACAAAC
* * * **
51814 GTAAACTAACAC-AATAAATGAAC
1 ATAAACGAACACAAACAAACAAAC
51837 ATAAACGAA
1 ATAAACGAA
51846 GTAAACGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
23 16 0.35
24 30 0.65
ACGTcount: A:0.62, C:0.17, G:0.07, T:0.12
Consensus pattern (24 bp):
ATAAACGAACACAAACAAACAAAC
Found at i:52060 original size:14 final size:14
Alignment explanation
Indices: 52043--52132 Score: 56
Period size: 14 Copynumber: 7.1 Consensus size: 14
52033 TAATGAACAC
52043 ACATAAACGAACGA
1 ACATAAACGAACGA
*
52057 ACAT--A--AATGA
1 ACATAAACGAACGA
*
52067 ACATAAACGAACAA
1 ACATAAACGAACGA
52081 ACATAAAC--A--A
1 ACATAAACGAACGA
* *
52091 ACATAAATGAATGA
1 ACATAAACGAACGA
*
52105 ACAT--ACGACCGA
1 ACATAAACGAACGA
*
52117 ACATAAATGAACGA
1 ACATAAACGAACGA
52131 AC
1 AC
52133 GAACCATTTG
Statistics
Matches: 57, Mismatches: 9, Indels: 20
0.66 0.10 0.23
Matches are distributed among these distances:
10 16 0.28
12 13 0.23
14 28 0.49
ACGTcount: A:0.58, C:0.19, G:0.11, T:0.12
Consensus pattern (14 bp):
ACATAAACGAACGA
Found at i:52070 original size:24 final size:24
Alignment explanation
Indices: 52043--52132 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
52033 TAATGAACAC
*
52043 ACATAAACGAACGAACATAAATGA
1 ACATAAACGAACGAACATAAACGA
* *
52067 ACATAAACGAACAAACATAAACAA
1 ACATAAACGAACGAACATAAACGA
* * *
52091 ACATAAATGAATGAACATACGACCGA
1 ACATAAACGAACGAACATA--AACGA
*
52117 ACATAAATGAACGAAC
1 ACATAAACGAACGAAC
52133 GAACCATTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 37 0.67
26 18 0.33
ACGTcount: A:0.58, C:0.19, G:0.11, T:0.12
Consensus pattern (24 bp):
ACATAAACGAACGAACATAAACGA
Found at i:52089 original size:20 final size:20
Alignment explanation
Indices: 52052--52089 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52042 CACATAAACG
*
52052 AACGAACATAAATGAACATA
1 AACGAACATAAATAAACATA
52072 AACGAACA-AACATAAACA
1 AACGAACATAA-ATAAACA
52090 AACATAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.63, C:0.18, G:0.08, T:0.11
Consensus pattern (20 bp):
AACGAACATAAATAAACATA
Found at i:53017 original size:22 final size:22
Alignment explanation
Indices: 52982--53032 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
52972 AATTATAAGA
* *
52982 TAATATAT-ATTAT-AATTTTT
1 TAATATTTAATTATAAAATTTT
53002 TAATTATTTAATTATAAAATTTT
1 TAA-TATTTAATTATAAAATTTT
53025 TAATATTT
1 TAATATTT
53033 TATAGTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 4 0.15
22 10 0.38
23 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATATTTAATTATAAAATTTT
Found at i:53754 original size:35 final size:35
Alignment explanation
Indices: 53705--53771 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
53695 ATATTAAATG
*
53705 CATTTTATTAAAAATAAATATGAGA-AAAAATGAT
1 CATTTTATTAAAAATAAAAATGAGAGAAAAATGAT
*
53739 CATTTTAATTTAAAATAAAAATGAGAGAAAAAT
1 CATTTT-ATTAAAAATAAAAATGAGAGAAAAAT
53772 ATAAAAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 6 0.21
35 17 0.59
36 6 0.21
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (35 bp):
CATTTTATTAAAAATAAAAATGAGAGAAAAATGAT
Found at i:57032 original size:20 final size:20
Alignment explanation
Indices: 56990--57033 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56980 TATATTAATA
*
56990 ATAATAATAATAAATAAATT
1 ATAATAATAATAAATAAAAT
57010 ATAATAATAA-AAATAAAAAT
1 ATAATAATAATAAAT-AAAAT
57030 ATAA
1 ATAA
57034 AATCTGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAAATAAAAT
Found at i:63432 original size:43 final size:43
Alignment explanation
Indices: 63385--63471 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
63375 ACACATTTGT
*
63385 GGCATTT-TCAAAGACAAATGCCACTAAATACATAGTCAATAGC
1 GGCATTTGT-AAAGACAAATACCACTAAATACATAGTCAATAGC
*
63428 GGCATTTGTAAAGACAAATACTACTAAATACATAGTCAATAGC
1 GGCATTTGTAAAGACAAATACCACTAAATACATAGTCAATAGC
63471 G
1 G
63472 ACTTTTTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (43 bp):
GGCATTTGTAAAGACAAATACCACTAAATACATAGTCAATAGC
Found at i:64845 original size:19 final size:19
Alignment explanation
Indices: 64811--64855 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
64801 TTAGCATTCT
64811 GAAAAG-AAAATAATGAAA
1 GAAAAGTAAAATAATGAAA
64829 GAAAAGTAAAA-AGATGAAA
1 GAAAAGTAAAATA-ATGAAA
64848 GAAAAGTA
1 GAAAAGTA
64856 GAACTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (19 bp):
GAAAAGTAAAATAATGAAA
Found at i:67285 original size:19 final size:19
Alignment explanation
Indices: 67261--67303 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
67251 TTAGCATTTT
67261 GAAAAGGAAAAAA-ATGAAA
1 GAAAAGGAAAAAAGAT-AAA
*
67280 GAAAAGTAAAAAAGATAAA
1 GAAAAGGAAAAAAGATAAA
67299 GAAAA
1 GAAAA
67304 TTAGAACTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (19 bp):
GAAAAGGAAAAAAGATAAA
Found at i:69802 original size:37 final size:36
Alignment explanation
Indices: 69756--69828 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
69746 GATTAAATTA
*
69756 TAAAAGTAAAACA-TGTGATTGAAAAAATTAGGGACCT
1 TAAAAGTAAAA-AGTGAGATT-AAAAAATTAGGGACCT
* *
69793 TAAAGGTAAAAAGTGAGATTAAAAAATTATGGACCT
1 TAAAAGTAAAAAGTGAGATTAAAAAATTAGGGACCT
69829 CATGTCCCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (36 bp):
TAAAAGTAAAAAGTGAGATTAAAAAATTAGGGACCT
Found at i:70550 original size:59 final size:58
Alignment explanation
Indices: 70483--70782 Score: 399
Period size: 59 Copynumber: 5.2 Consensus size: 58
70473 AGATTGTTGA
70483 TAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGGTATTTTTG
1 TAAATAGTTTTAAAAG-GTGACTAATACGTAATTAATTTCGGTTATGGTGGTATTTTTG
* * *
70542 TAAATAGTTTTAAAAGAGTGACTAATATGTAATTAATTTTGGTTATGGTTGTATTTTTG
1 TAAATAGTTTTAAAAG-GTGACTAATACGTAATTAATTTCGGTTATGGTGGTATTTTTG
* * *
70601 TAAATAGTTTTAAAATGGTGACTAATACGTAATTAATTTCGGTTACGGTGTTATTGTTG
1 TAAATAGTTTTAAAA-GGTGACTAATACGTAATTAATTTCGGTTATGGTGGTATTTTTG
* * ** *
70660 TAAATATTTTTAAAAGGTGCCTAATACGTAATTAATTTCTATTA-GGTGCTATTTTTG
1 TAAATAGTTTTAAAAGGTGACTAATACGTAATTAATTTCGGTTATGGTGGTATTTTTG
* * * * *
70717 TAAATATTTTTAAAATGGTGCCTAATACGTAATTAATTTCTG-TAAGGTGTTATTTTTG
1 TAAATAGTTTTAAAA-GGTGACTAATACGTAATTAATTTCGGTTATGGTGGTATTTTTG
70775 TAAA-AGTT
1 TAAATAGTT
70783 GATTGTTGAC
Statistics
Matches: 220, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
57 31 0.14
58 67 0.30
59 121 0.55
60 1 0.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.45
Consensus pattern (58 bp):
TAAATAGTTTTAAAAGGTGACTAATACGTAATTAATTTCGGTTATGGTGGTATTTTTG
Found at i:70765 original size:29 final size:29
Alignment explanation
Indices: 70673--70765 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
70663 ATATTTTTAA
70673 AAGGTGCCTAATACGTAATTAATTTCTAT
1 AAGGTGCCTAATACGTAATTAATTTCTAT
* * ** * * *
70702 TAGGTG-CTATTTTTGTAAAT-ATTTTTAA
1 AAGGTGCCTA-ATACGTAATTAATTTCTAT
*
70730 AATGGTGCCTAATACGTAATTAATTTCTGT
1 AA-GGTGCCTAATACGTAATTAATTTCTAT
70760 AAGGTG
1 AAGGTG
70766 TTATTTTTGT
Statistics
Matches: 45, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
28 10 0.22
29 25 0.56
30 10 0.22
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (29 bp):
AAGGTGCCTAATACGTAATTAATTTCTAT
Found at i:74801 original size:52 final size:55
Alignment explanation
Indices: 74742--75006 Score: 211
Period size: 59 Copynumber: 4.7 Consensus size: 55
74732 ATTGTTGATA
*
74742 TATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCAGTTATGTTGGTA-TT-
1 TATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCAGTTATGGTGGTATTTG
* * *
74795 T-TAGTTTTAAAAAAGTGACTAATATGTAATTAATTTCGGTTATGGTGGTATTTTTG
1 TATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCAGTTATGGTGGTA--TTTG
* * ** *
74851 TAAATAATTTTAAAAGGGTGACTAATACGTAATTAATTTTGGTTATGGTGTTATTATTG
1 T--ATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCAGTTATGGTGGTA-T-TTG
* * * * *
74910 TAAATATTTTTAAAAG-GTGCCTAATACGTAGTTAATTTCTA-TT-TGGTGCAATTTTTG
1 T--ATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTC-AGTTATGGTG--GTATTTG
* *
74967 TAAATATTTTTAAAATG-GTGCCTAATACGTAATTAATTTC
1 T--ATAGTTTTAAAA-GAGTGACTAATACGTAATTAATTTC
75007 TGTAAGGTGC
Statistics
Matches: 182, Mismatches: 18, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
52 45 0.25
53 1 0.01
55 2 0.01
56 1 0.01
57 23 0.13
58 48 0.26
59 62 0.34
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.45
Consensus pattern (55 bp):
TATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCAGTTATGGTGGTATTTG
Found at i:74872 original size:59 final size:58
Alignment explanation
Indices: 74799--75028 Score: 284
Period size: 58 Copynumber: 4.0 Consensus size: 58
74789 GGTATTTTAG
* * * *
74799 TTTTAAAAAAGTGACTAATATGTAATTAATTTCGGTTATGGTGGTATTTTTGTAAATA
1 TTTTTAAAAGGTGACTAATACGTAATTAATTTCGGTTATGGTGCTATTTTTGTAAATA
* * * *
74857 ATTTTAAAAGGGTGACTAATACGTAATTAATTTTGGTTATGGTGTTATTATTGTAAATA
1 TTTTTAAAA-GGTGACTAATACGTAATTAATTTCGGTTATGGTGCTATTTTTGTAAATA
* * ** *
74916 TTTTTAAAAGGTGCCTAATACGTAGTTAATTTCTATT-TGGTGCAATTTTTGTAAATA
1 TTTTTAAAAGGTGACTAATACGTAATTAATTTCGGTTATGGTGCTATTTTTGTAAATA
* * *
74973 TTTTTAAAATGGTGCCTAATACGTAATTAATTTCTG-TAAGGTGCTATTTTTGTAAA
1 TTTTTAAAA-GGTGACTAATACGTAATTAATTTCGGTTATGGTGCTATTTTTGTAAA
75029 AGTTGATTGT
Statistics
Matches: 149, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
57 27 0.18
58 70 0.47
59 52 0.35
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (58 bp):
TTTTTAAAAGGTGACTAATACGTAATTAATTTCGGTTATGGTGCTATTTTTGTAAATA
Found at i:76683 original size:41 final size:41
Alignment explanation
Indices: 76565--76753 Score: 127
Period size: 43 Copynumber: 4.5 Consensus size: 41
76555 GGGGGTTACA
* * *
76565 CCTCAATTTTAAAGGTAAAAAATGAGATCAAAAAATTTAGGGG
1 CCTCAATTATAAAGGT-AAAAATGAGATCGAAAAA-TTAGGAG
* * *
76608 CCTTAATTATAAAGGTAAAAAGTGAGA-GGGAAAATTAGGAG
1 CCTCAATTATAAAGGTAAAAA-TGAGATCGAAAAATTAGGAG
* *
76649 -CTCAATTATAAATGTAAACAATAAGATCGAAAAATTAGG-G
1 CCTCAATTATAAAGGTAAA-AATGAGATCGAAAAATTAGGAG
** ** * *
76689 TTATCAATTATAAATATAAAAACGTGGGATTGAAAAAATTAAGG-G
1 -CCTCAATTATAAAGGTAAAAA--TGAGATCG-AAAAATT-AGGAG
*
76734 CC-CAATTATAAAGATAAAAA
1 CCTCAATTATAAAGGTAAAAA
76754 GTGTGATTAC
Statistics
Matches: 118, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
40 21 0.18
41 20 0.17
42 25 0.21
43 41 0.35
44 7 0.06
45 4 0.03
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (41 bp):
CCTCAATTATAAAGGTAAAAATGAGATCGAAAAATTAGGAG
Found at i:76785 original size:42 final size:43
Alignment explanation
Indices: 76693--76795 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
76683 TTAGGGTTAT
76693 CAATTATAAATATAAAAACGTGGGATTGAAAAAATTAAGGGCC
1 CAATTATAAATATAAAAACGTGGGATTGAAAAAATTAAGGGCC
* * * *
76736 CAATTATAAAGATAAAAA-GTGTGATT-ACAAAAATTAGGGGCT
1 CAATTATAAATATAAAAACGTGGGATTGA-AAAAATTAAGGGCC
** *
76778 CGTTTATACATATAAAAA
1 CAATTATAAATATAAAAA
76796 AAATTGAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.02
42 33 0.65
43 17 0.33
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (43 bp):
CAATTATAAATATAAAAACGTGGGATTGAAAAAATTAAGGGCC
Found at i:77379 original size:108 final size:108
Alignment explanation
Indices: 77190--77404 Score: 403
Period size: 108 Copynumber: 2.0 Consensus size: 108
77180 ACGCCCCACA
*
77190 GTACGGAGCAATTTAATATGTTTGAAATTTTAATTTTGTCACCTTTATGTTTATCAAGAAAGGAA
1 GTACGAAGCAATTTAATATGTTTGAAATTTTAATTTTGTCACCTTTATGTTTATCAAGAAAGGAA
*
77255 ATTCAGTTAGAGTAGGATTCTTCCTATGCAAATTTCTTTGTTG
66 ATTCAGTTAGAGTAGGATTCTTCCTATGCAAATTTCATTGTTG
77298 GTACGAAGCAATTTAATATGTTTGAAATTTTAATTTTGTCACCTTTATGTTTATCAAGAAAGGAA
1 GTACGAAGCAATTTAATATGTTTGAAATTTTAATTTTGTCACCTTTATGTTTATCAAGAAAGGAA
*
77363 ATTCAGTTAGAGTAGGATTCTTCCTATGCAAGTTTCATTGTT
66 ATTCAGTTAGAGTAGGATTCTTCCTATGCAAATTTCATTGTT
77405 TACTTTGTTT
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 104 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (108 bp):
GTACGAAGCAATTTAATATGTTTGAAATTTTAATTTTGTCACCTTTATGTTTATCAAGAAAGGAA
ATTCAGTTAGAGTAGGATTCTTCCTATGCAAATTTCATTGTTG
Found at i:81836 original size:15 final size:16
Alignment explanation
Indices: 81816--81845 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
81806 GGAGGAGTCA
81816 AAATGTTGT-CAATCC
1 AAATGTTGTACAATCC
81831 AAATGTTGTACAATC
1 AAATGTTGTACAATC
81846 TAATTTCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (16 bp):
AAATGTTGTACAATCC
Found at i:88927 original size:95 final size:95
Alignment explanation
Indices: 88801--88990 Score: 249
Period size: 95 Copynumber: 2.0 Consensus size: 95
88791 ATACCGACAA
* * * *
88801 GGTAGTATTGATACCATGGTAAGGGTATCGATACCAAACATCATCGAAGCTAAAATTGGTATCGG
1 GGTAGTATCGATACCATGGTAAGGATATCGATACCAAACAACATCGAACCTAAAATTGGTATC-G
*
88866 TAT-C-GGAAGGGGGTATCGGTACCATAGTAT
65 -ATGCTGGAAGGGGGTATCGATACCATAGTAT
* ***
88896 GGTAGTATCGATACCATGGTGAGGATATCGATACCAGGTAACATCGAACCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGATATCGATACCAAACAACATCGAACCTAAAATTGGTATCGA
**
88961 TGCTGTCAGGGGGTATCGATACCATAGTAT
66 TGCTGGAAGGGGGTATCGATACCATAGTAT
88991 AGAAGTACTT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 2 0.02
94 2 0.02
95 78 0.95
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGATATCGATACCAAACAACATCGAACCTAAAATTGGTATCGA
TGCTGGAAGGGGGTATCGATACCATAGTAT
Found at i:89006 original size:95 final size:94
Alignment explanation
Indices: 88804--89024 Score: 241
Period size: 95 Copynumber: 2.3 Consensus size: 94
88794 CCGACAAGGT
* * *
88804 AGTATTGATACCATGGTAAGGGTATCGATACCAAACATCATCGAAGCTAAAATTGGTATCGGTAT
1 AGTATTGATACCATGGT-AGGATATCGATACCAAACAACATCGAACCTAAAATTGGTATCGGTAT
* * *
88869 CGGAAGGGGGTATCGGTACCATAGTATGGT
65 CGGAAGGGGGTATCGATACCATAGTATAGA
* ***
88899 AGTATCGATACCATGGTGAGGATATCGATACCAGGTAACATCGAACCTAAAATTGGTATC-G-AT
1 AGTATTGATACCATGGT-AGGATATCGATACCAAACAACATCGAACCTAAAATTGGTATCGGTAT
**
88962 GCTGTCAGGGGGTATCGATACCATAGTATAGA
65 -C-GGAAGGGGGTATCGATACCATAGTATAGA
* *
88994 AGTACTTG-TACCAGGGTAGTAATATCGATAC
1 AGTA-TTGATACCATGGTAG-GATATCGATAC
89025 TATAGAGCCA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
93 2 0.02
94 4 0.04
95 98 0.92
96 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (94 bp):
AGTATTGATACCATGGTAGGATATCGATACCAAACAACATCGAACCTAAAATTGGTATCGGTATC
GGAAGGGGGTATCGATACCATAGTATAGA
Found at i:89505 original size:45 final size:44
Alignment explanation
Indices: 89440--89741 Score: 198
Period size: 45 Copynumber: 7.5 Consensus size: 44
89430 ATAAAATAAT
*
89440 AATGCATATGGGT-AATTTATTGGCATGAGAGGATGCCATAACTGA
1 AATGCATATGGGTGCA-TTATTGGCATGA-AGGATGCCATAACTGA
* * *
89485 AATGCATAAGGGTGTATTATTGGCAT-AA--A----AGAA-T--
1 AATGCATATGGGTGCATTATTGGCATGAAGGATGCCATAACTGA
*
89519 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATG-AAGGATGCCATAACTGA
* * *
89564 AATGCATATGGGTGCAGTATGGGCAT-AA--A----AGAA-T--
1 AATGCATATGGGTGCATTATTGGCATGAAGGATGCCATAACTGA
*
89598 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATG-AAGGATGCCATAACTGA
* * *
89643 AATGCATATGGGTGCACTATCGGCAT-AA--A----AGAA-T--
1 AATGCATATGGGTGCATTATTGGCATGAAGGATGCCATAACTGA
* * * *
89677 AATTCATATGGGTGCATTATTGGCATGAAAAGATGTCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATG-AAGGATGCCATAACTGA
89722 AATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
89742 CGACATAAAA
Statistics
Matches: 198, Mismatches: 25, Indels: 68
0.68 0.09 0.23
Matches are distributed among these distances:
34 71 0.36
36 9 0.05
37 7 0.04
38 3 0.02
41 3 0.02
42 6 0.03
43 8 0.04
44 1 0.01
45 89 0.45
46 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATTGGCATGAAGGATGCCATAACTGA
Found at i:89523 original size:34 final size:35
Alignment explanation
Indices: 89485--89785 Score: 214
Period size: 34 Copynumber: 7.9 Consensus size: 35
89475 CCATAACTGA
* *
89485 AATGCATAAGGGTGTATTATTGGCAT-AAAAGAAT
1 AATGCATATGGGTGCATTATTGGCATGAAAAGAAT
89519 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTGCATTATTGGCATGAAA--A-G--A-A--T
* *
89562 GAAATGCATATGGGTGCAGTATGGGCAT-AAAAGAAT
1 --AATGCATATGGGTGCATTATTGGCATGAAAAGAAT
89598 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTGCATTATTGGCATGAAA--A-G--A-A--T
* *
89641 GAAATGCATATGGGTGCACTATCGGCAT-AAAAGAAT
1 --AATGCATATGGGTGCATTATTGGCATGAAAAGAAT
*
89677 AATTCATATGGGTGCATTATTGGCATGAAAAGATGTCATAGCT
1 AATGCATATGGGTGCATTATTGGCATG-AAA-A-G--A-A--T
* *
89720 GAAATGCATATGGGTGCATTATCGACAT-AAAAGAAT
1 --AATGCATATGGGTGCATTATTGGCATGAAAAGAAT
*
89756 AATGCATATGGGTACATTATTGGCATGAAA
1 AATGCATATGGGTGCATTATTGGCATGAAA
89786 TAATGCATTA
Statistics
Matches: 216, Mismatches: 17, Indels: 67
0.72 0.06 0.22
Matches are distributed among these distances:
34 94 0.44
35 9 0.04
36 6 0.03
37 3 0.01
38 6 0.03
39 3 0.01
40 3 0.01
41 6 0.03
42 3 0.01
43 6 0.03
44 6 0.03
45 71 0.33
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (35 bp):
AATGCATATGGGTGCATTATTGGCATGAAAAGAAT
Found at i:89564 original size:79 final size:79
Alignment explanation
Indices: 89430--89785 Score: 561
Period size: 79 Copynumber: 4.5 Consensus size: 79
89420 GAACAAATGA
* * * * *
89430 ATAAAATAATAATGCATATGGGT-AATTTATTGGCATGAGAGGATGCCATAACTGAAATGCATAA
1 ATAAAAGAATAATGCATATGGGTGCA-TTATTGGCATGAAAGGATGCCATAGCTGAAATGCATAT
* *
89494 GGGTGTATTATTGGC
65 GGGTGCATTATCGGC
89509 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
* *
89574 GGTGCAGTATGGGC
66 GGTGCATTATCGGC
89588 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
89653 GGTGCACTATCGGC
66 GGTGCATTATCGGC
* * *
89667 ATAAAAGAATAATTCATATGGGTGCATTATTGGCATGAAAAGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
89732 GGTGCATTATCGAC
66 GGTGCATTATCGGC
*
89746 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAA
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
89786 TAATGCATTA
Statistics
Matches: 259, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
79 258 1.00
80 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCGGC
Found at i:90250 original size:2 final size:2
Alignment explanation
Indices: 90243--90301 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
90233 TAAAAGGATG
90243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
90285 AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT A
90302 CAAAAAATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94381 original size:34 final size:34
Alignment explanation
Indices: 94343--94454 Score: 101
Period size: 34 Copynumber: 3.4 Consensus size: 34
94333 CCATGGTAAG
94343 GGTATCGATACCAATAATCATCGAACCTAAAATT
1 GGTATCGATACCAATAATCATCGAACCTAAAATT
* *
94377 GGTATCGAT----ATAGT-ATCGATACCATGAAAA-G
1 GGTATCGATACCAATAATCATCGA-ACC-T-AAAATT
* ** *
94408 GGTATTGATACCAGGAAACATCGAACCTAAAATT
1 GGTATCGATACCAATAATCATCGAACCTAAAATT
94442 GGTATCGATACCA
1 GGTATCGATACCA
94455 TAAGGGGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
29 5 0.08
30 7 0.12
31 9 0.15
32 4 0.07
33 4 0.07
34 22 0.37
35 4 0.07
36 5 0.08
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (34 bp):
GGTATCGATACCAATAATCATCGAACCTAAAATT
Found at i:94401 original size:65 final size:65
Alignment explanation
Indices: 94325--94451 Score: 200
Period size: 65 Copynumber: 2.0 Consensus size: 65
94315 GATTAGGCAA
** * *
94325 TATCGATACCATGGTAAGGGTATCGATACCAATAATCATCGAACCTAAAATTGGTATCGATATAG
1 TATCGATACCATGAAAAGGGTATCGATACCAAGAAACATCGAACCTAAAATTGGTATCGATATAG
* *
94390 TATCGATACCATGAAAAGGGTATTGATACCAGGAAACATCGAACCTAAAATTGGTATCGATA
1 TATCGATACCATGAAAAGGGTATCGATACCAAGAAACATCGAACCTAAAATTGGTATCGATA
94452 CCATAAGGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (65 bp):
TATCGATACCATGAAAAGGGTATCGATACCAAGAAACATCGAACCTAAAATTGGTATCGATATAG
Found at i:95062 original size:79 final size:79
Alignment explanation
Indices: 94927--95288 Score: 562
Period size: 79 Copynumber: 4.6 Consensus size: 79
94917 GAACGAATGA
* * * * * *
94927 ATAAAAGAATAATGCATATGAGTGCTTTATTGGCATGAAAGGATGCCATAGTTGAAATGCATAAG
1 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
*
94992 GGTGCATTATCGTC
66 GGTGCATTATCGGC
*
95006 ATAAAAGAATAATGTATATGGGTACATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
*
95071 GGTGCATTATAGGC
66 GGTGCATTATCGGC
** *
95085 ATAAAAGAATAATGCATATGGGTTTATTACTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
95150 GGTGCATTATCGGC
66 GGTGCATTATCGGC
*
95164 ATAAAAGAATAATTCATATGGGTACATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
*
95229 GGGGCATTATCGGC
66 GGTGCATTATCGGC
* * * *
95243 ATAATAGAATAATACATATGGGTGCATTATTGGCATGAAATGATGT
1 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGT
95289 ATTAAGTCAT
Statistics
Matches: 260, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 260 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
GGTGCATTATCGGC
Found at i:96924 original size:31 final size:31
Alignment explanation
Indices: 96886--96969 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
96876 TAAGACGACC
*
96886 CTTGGGTAGGCTCTGCGGCCCCGAG-ATTTCT
1 CTTGGGTAGGCTCTGCGGCCCCGAGAACTT-T
* * *
96917 CTTGGGTAGGCCCCGTGGCCCCGAGAACTTT
1 CTTGGGTAGGCTCTGCGGCCCCGAGAACTTT
96948 CTTGGGTAGGCTCT-CAGGCCCC
1 CTTGGGTAGGCTCTGC-GGCCCC
96970 AAGGTGCTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 41 0.93
32 3 0.07
ACGTcount: A:0.11, C:0.32, G:0.32, T:0.25
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCCCGAGAACTTT
Found at i:105015 original size:35 final size:34
Alignment explanation
Indices: 104976--105088 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
104966 AAAACAATCC
*
104976 TCAATTTTATTCTAAACCACAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
105011 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
105046 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
105081 TCAATTTC
1 TCAATTTC
105089 TGTCTTTTTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:106165 original size:21 final size:21
Alignment explanation
Indices: 106140--106179 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
106130 TTCCTCCTTA
106140 AATTGAAATATTTTAGAATGT
1 AATTGAAATATTTTAGAATGT
* *
106161 AATTGAATTATTTTGGAAT
1 AATTGAAATATTTTAGAAT
106180 TTAGGGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (21 bp):
AATTGAAATATTTTAGAATGT
Found at i:106200 original size:35 final size:35
Alignment explanation
Indices: 106151--106236 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 35
106141 ATTGAAATAT
* *
106151 TTTAGAATGTAATTGAATTATTTTGGAATTT-AGGG
1 TTTAGAATGAAATTGAATTACTTTGGAATTTGA-GG
106186 TTTAGAATGAAATTGAATTACTTTGGAATTTGAGG
1 TTTAGAATGAAATTGAATTACTTTGGAATTTGAGG
*
106221 TTTAAAATGAAATTGA
1 TTTAGAATGAAATTGA
106237 GGAATGTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 46 0.98
36 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (35 bp):
TTTAGAATGAAATTGAATTACTTTGGAATTTGAGG
Found at i:111239 original size:75 final size:75
Alignment explanation
Indices: 111116--111265 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
111106 GAGCCGTATA
111116 CCGGTGCTAATTTATTTACACTTTTAAAAAGGGTAATTTGTCTTTATAAATTAGAAAATAAAGTT
1 CCGGTGCTAATTTATTTACACTTTTAAAAAGGGTAATTTGTCTTTATAAATTAGAAAATAAAGTT
111181 CTTTGATAAT
66 CTTTGATAAT
111191 CCGGTGCTAATTTATTTACACTTTTAAAAAGGGTAATTTGTCTTTATAAATTAGAAAATAAAGTT
1 CCGGTGCTAATTTATTTACACTTTTAAAAAGGGTAATTTGTCTTTATAAATTAGAAAATAAAGTT
111256 CTTTGATAAT
66 CTTTGATAAT
111266 GCATCGAATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (75 bp):
CCGGTGCTAATTTATTTACACTTTTAAAAAGGGTAATTTGTCTTTATAAATTAGAAAATAAAGTT
CTTTGATAAT
Found at i:112697 original size:32 final size:32
Alignment explanation
Indices: 112620--112697 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 32
112610 TTTTAAACTT
112620 TATTTCAATTATCGAACTTGGAAGTTTTTAAG
1 TATTTCAATTATCGAACTTGGAAGTTTTTAAG
* *
112652 TATTTGAATTTATCGAACTTGGAATTTTTTAAG
1 TATTTCAA-TTATCGAACTTGGAAGTTTTTAAG
112685 TATTTCAATTATC
1 TATTTCAATTATC
112698 ATAAACTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
32 12 0.29
33 30 0.71
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (32 bp):
TATTTCAATTATCGAACTTGGAAGTTTTTAAG
Found at i:114412 original size:3 final size:3
Alignment explanation
Indices: 114404--114438 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
114394 AACTTTTCTT
*
114404 TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
114439 TTCATTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:114865 original size:3 final size:3
Alignment explanation
Indices: 114857--114906 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
114847 CTCTCTCTTT
114857 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
114905 TT
1 TT
114907 TTTTCTTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:115661 original size:3 final size:3
Alignment explanation
Indices: 115653--115699 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
115643 CTACAAACAA
* *
115653 AAT AAT AAT AAT AAT AAAT AAT AAT GAT AAT AAT AA- AAT AAA AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
115698 AA
1 AA
115700 AACAGATCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:115677 original size:19 final size:20
Alignment explanation
Indices: 115653--115699 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
115643 CTACAAACAA
115653 AATAATAATAATAAT-AAAT
1 AATAATAATAATAATAAAAT
*
115672 AATAATGATAATAATAAAAT
1 AATAATAATAATAATAAAAT
*
115692 AAAAATAA
1 AATAATAA
115700 AACAGATCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AATAATAATAATAATAAAAT
Found at i:116206 original size:134 final size:134
Alignment explanation
Indices: 115966--116303 Score: 446
Period size: 134 Copynumber: 2.5 Consensus size: 134
115956 GGAGAAGCAT
* *
115966 TACTCTTTAGGGAAGATCAAACTCGAGAAAATTTTGATTCACTTCACTACTCTTCAGGGAATATT
1 TACTCTTTAGGGAAGATCAAACTCGAGAAAATTTTGATCCACTTCACTACTCTTCAGGGAAGATT
* * ** *
116031 GAATCAGAATCGATTTACTTCACTACTCTTTAGGAATACCAAATCTGAAAGAAAAAGCGTCTGCT
66 GAATCAGAATCGATTTACTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATCTACT
116096 ACAC
131 ACAC
* * *
116100 TACTCTTTAGGGAATG-TTAGACTCGAGAAAATTTTGATCCACTTCACTACTCTTCCA-GGAAGG
1 TACTCTTTAGGGAA-GATCAAACTCGAGAAAATTTTGATCCACTTCACTACTCTT-CAGGGAAGA
* * * *
116163 TTGAATTAGAATCGATTTGCTTCACTTCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTA
64 TTGAATCAGAATCGATTTACTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATCTA
*
116228 CTCCAC
129 CTACAC
* * * * * * *
116234 TACTCTTTAAGGAAGATCATATTCGAGAAAACTTTGATCTACTTCACTGCTCTTTAGGGAAGATT
1 TACTCTTTAGGGAAGATCAAACTCGAGAAAATTTTGATCCACTTCACTACTCTTCAGGGAAGATT
116299 GAATC
66 GAATC
116304 TGAAAGAAGA
Statistics
Matches: 175, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
133 2 0.01
134 170 0.97
135 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (134 bp):
TACTCTTTAGGGAAGATCAAACTCGAGAAAATTTTGATCCACTTCACTACTCTTCAGGGAAGATT
GAATCAGAATCGATTTACTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATCTACT
ACAC
Found at i:116248 original size:47 final size:47
Alignment explanation
Indices: 116196--116351 Score: 120
Period size: 47 Copynumber: 3.3 Consensus size: 47
116186 ACTTCTCTTC
*
116196 AGGAAGACCAAATCTGAAAGAAGAAGAATCTACTCCACTACTCTTTA
1 AGGAAGATCAAATCTGAAAGAAGAAGAATCTACTCCACTACTCTTTA
* *** * *
116243 AGGAAGATCATAT-TCGAGAA-AACTTTG-ATCTACTTCACTGCTCTTTA
1 AGGAAGATCAAATCT-GA-AAGAA-GAAGAATCTACTCCACTACTCTTTA
* ** * * *
116290 GGGAAGATTGAATCTGAAAGAAGAAGAATATGCTCCACTACTATTTA
1 AGGAAGATCAAATCTGAAAGAAGAAGAATCTACTCCACTACTCTTTA
* * *
116337 GGGGAGATCATATCT
1 AGGAAGATCAAATCT
116352 TTCAAAGGAA
Statistics
Matches: 80, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
46 4 0.05
47 72 0.90
48 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (47 bp):
AGGAAGATCAAATCTGAAAGAAGAAGAATCTACTCCACTACTCTTTA
Found at i:117479 original size:228 final size:224
Alignment explanation
Indices: 117037--117565 Score: 573
Period size: 228 Copynumber: 2.3 Consensus size: 224
117027 GTAAAAAAGT
* * * * * *
117037 ACAACACTAAAATATCGACTTC-TCTTCGCGAGAAATTCAATAAAGACAACACTAAAAGATTGAC
1 ACAACACCAAAAAATTGAC-TCATCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGAC
* * *
117101 TCCTCTTCGCGAGAAAGTCAATGAATGAATCATTAAAAATTGACTCCTCTTCACGAGAAAGTCAA
65 TCCTCTTCACGAGAAAGTCAATGAATGAATCATGAAAAATTGACTCCACTTCACGAGAAAGTCAA
* * * * * * *
117166 TGAAGACAACACCGAAAGATTGACTCCTCTTCGCGTGGAAGTCAAGAAATGAATCATTAAAAGAT
130 TGAAGACAACACCGAAAGATTAACTCCTCTTCACGAGAAAGTCAAGAAAGGAAACACTAAAAGAT
* * * * *
117231 TGAATTCTTTTCATGAGAAAGTTAATGAAG
195 TGAATCCTCTTCACGAGAAAGTCAAGGAAG
* ** * * * *
117261 ACAGCACTGAAAGATTGACTCTTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAATATTGACC
1 ACAACACCAAAAAATTGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACT
* * *
117326 CCTCTTCATGAGAAAGTCGTCAA-GAATGGCAAT-ACTGAGAGATTGACTCCACTTCACGAGAAA
66 CCTCTTCACGAGAAA---GTCAATGAAT-G-AATCA-TGAAAAATTGACTCCACTTCACGAGAAA
* * * *
117389 GTCAA-GAATGACAATACTGAACGATTAACTCCTCTTCATGAGAAAGTCAAG-AAGGACAACACT
125 GTCAATGAA-GACAACACCGAAAGATTAACTCCTCTTCACGAGAAAGTCAAGAAAGGA-AACACT
* *
117452 AAAATATTGACTCCTCTTCACGAGAAAGTCAAGGAAG
188 AAAAGATTGAATCCTCTTCACGAGAAAGTCAAGGAAG
* **
117489 ATAACACCAAAAAATTGACTCATCTTCATGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACT
1 ACAACACCAAAAAATTGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACT
*
117554 CCTCTTCGCGAG
66 CCTCTTCACGAG
117566 GGAGTCAAGA
Statistics
Matches: 251, Mismatches: 45, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
223 2 0.01
224 66 0.26
226 4 0.02
227 14 0.06
228 165 0.66
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (224 bp):
ACAACACCAAAAAATTGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACT
CCTCTTCACGAGAAAGTCAATGAATGAATCATGAAAAATTGACTCCACTTCACGAGAAAGTCAAT
GAAGACAACACCGAAAGATTAACTCCTCTTCACGAGAAAGTCAAGAAAGGAAACACTAAAAGATT
GAATCCTCTTCACGAGAAAGTCAAGGAAG
Found at i:117572 original size:45 final size:45
Alignment explanation
Indices: 116997--117582 Score: 511
Period size: 45 Copynumber: 13.0 Consensus size: 45
116987 GAAAGATGCT
* * ** * * * *
116997 ACTAAAAGGTTGACTCTTCTTCGTGATAAAGTAAAAAAGTACAAC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAAC
* * * * * * *
117042 ACTAAAATATCGACTTCTCTTCGCGAGAAATTCAATAAAGACAAC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAAC
* * *
117087 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAATGAATGA-ATC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAA-GAAGGACAAC
*
117132 ATTAAAA-ATTGACTCCTCTTCACGAGAAAGTCAATGAA-GACAAC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAA-GAAGGACAAC
** * * * * *
117176 ACCGAAAGATTGACTCCTCTTCGCGTGGAAGTCAAGAAATGA-ATC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAG-AAGGACAAC
* * * * * * *
117221 ATTAAAAGATTGAATTCTTTTCATGAGAAAGTTAATGAA-GACAGC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAA-GAAGGACAAC
* * *
117266 ACTGAAAGATTGACTCTTCTTCGCGAGAAAGTCAAGAAGGACAAC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAAC
* * * *
117311 ACTAAAATATTGACCCCTCTTCATGAGAAAGTCGTCAAGAATGG-CAAT
1 ACTAAAAGATTGACTCCTCTTCACGAGAAA---GTCAAGAA-GGACAAC
* * * * *
117359 ACTGAGAGATTGACTCCACTTCACGAGAAAGTCAAGAATGACAAT
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAAC
* * * *
117404 ACTGAACGATTAACTCCTCTTCATGAGAAAGTCAAGAAGGACAAC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAAC
* *
117449 ACTAAAATATTGACTCCTCTTCACGAGAAAGTCAAGGAA-GATAAC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAA-GAAGGACAAC
* * * *
117494 ACCAAAAAATTGACTCATCTTCATGAGAAAGTCAAGAAGGACAAC
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAAC
* ** *
117539 ACTAAAAGATTGACTCCTCTTCGCGAGGGAGTCAAGAAGAACAA
1 ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAA
117583 AGATCGACTT
Statistics
Matches: 435, Mismatches: 91, Indels: 30
0.78 0.16 0.05
Matches are distributed among these distances:
43 2 0.00
44 46 0.11
45 340 0.78
46 10 0.02
48 35 0.08
49 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (45 bp):
ACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAAC
Found at i:117597 original size:38 final size:38
Alignment explanation
Indices: 117543--117997 Score: 597
Period size: 38 Copynumber: 11.8 Consensus size: 38
117533 GACAACACTA
* * * *
117543 AAAGATTGACTCCTCTTCGCGAGGGAGTCAAGAAGAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * *
117581 AAAGATCGACTTCTCTTCATGTGGTAGTCAAGAGA-AAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGA-ATAAC
* *
117619 AAATATTGACTTCTCTTCACGAGGAAGTCAAGATTAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
117657 AAAGATTGACTTCTCTTCAAGAGAAAGTCAATAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
117695 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AAC
* * *
117734 AAAGATTGACTTCTCTTCATGAGGGAGTCAAGAATGAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
117772 AAAGATTGACTTCTCTTCACAAGAAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
117810 AAAGATCGACTTCTCTTCACGAGGAAGTCAATAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
117848 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
117886 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAATAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
117924 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
117962 AAAAAAAGATTGACTCCTCTTCATGAGGGAGTCAAG
1 ----AAAGATTGACTTCTCTTCACGAGGAAGTCAAG
117998 TTGAAGCTTC
Statistics
Matches: 367, Mismatches: 43, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
38 303 0.83
39 36 0.10
42 28 0.08
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:117866 original size:191 final size:190
Alignment explanation
Indices: 117542--117964 Score: 616
Period size: 191 Copynumber: 2.2 Consensus size: 190
117532 GGACAACACT
* * *** **
117542 AAAAGATTGACTCCTCTTCGCGAGGGAGTCAAGAA-GAACAAAGATCGACTTCTCTTCATGTGGT
1 AAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATG-ACAAAGATCGACTTCTCTTCACAAGAA
* * *
117606 AGTCAAGAGAAACAAATATTGACTTCTCTTCACGAGGAAGTCAAGATTAACAAAGATTGACTTCT
65 AGTCAAGAGAAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCT
* *
117671 CTTCAAGAGAAAGTCAATAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAA
130 CTTCAAGAGAAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AA
* *
117733 AAAAGATTGACTTCTCTTCATGAGGGAGTCAAGAATGACAAAGATTGACTTCTCTTCACAAGAAA
1 AAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATGACAAAGATCGACTTCTCTTCACAAGAAA
*
117798 GTCAAGA-ATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAATAATAACAAAGATTGACTTCT
66 GTCAAGAGA-AACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCT
* * *
117862 CTTCACGAGGAAGTCAAGAATAAAAAATATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
130 CTTCAAGAGAAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
* * *
117923 AAAATATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA
1 AAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATGACAAA
117965 AAAAGATTGA
Statistics
Matches: 208, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
190 41 0.20
191 166 0.80
192 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (190 bp):
AAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATGACAAAGATCGACTTCTCTTCACAAGAAA
GTCAAGAGAAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
TTCAAGAGAAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
Found at i:118510 original size:185 final size:187
Alignment explanation
Indices: 118198--118570 Score: 732
Period size: 185 Copynumber: 2.0 Consensus size: 187
118188 CAGCGTGCGC
118198 TCTTGTAATTATTGAGTTATTTCAATTTCTTCTTTCTCCATTTGTGTATGTGTTGTTGCCCTATA
1 TCTTGTAATTATTGAGTTATTTCAATTTCTTCTTTCTCCATTTGTGTATGTGTTGTTGCCCTATA
118263 GCGGGAAATCAAAGGCCATTTCCTGGAGCTGACTTCAGAGTCTCAAATAAATGTAGTGTCAAAAT
66 GCGGGAAATCAAAGGCCATTTCCTGGAGCTGACTTCAGAGTCTCAAATAAATGTAGTGTCAAAAT
118328 TTGGTTTTGGTAATGACAATG-A-TATTTAAGGTAAAAAAGATCAAGTAATTGTGTT
131 TTGGTTTTGGTAATGACAATGAATTATTTAAGGTAAAAAAGATCAAGTAATTGTGTT
118383 TCTTGTAATTATTGAGTTATTTCAATTTCTTCTTTCTCCATTTGTGTATGTGTTGTTGCCCTATA
1 TCTTGTAATTATTGAGTTATTTCAATTTCTTCTTTCTCCATTTGTGTATGTGTTGTTGCCCTATA
118448 GCGGGAAATCAAAGGCCATTTCCTGGAGCTGACTTCAGAGTCTCAAATAAATGTAGTGTCAAAAT
66 GCGGGAAATCAAAGGCCATTTCCTGGAGCTGACTTCAGAGTCTCAAATAAATGTAGTGTCAAAAT
118513 TTGGTTTTGGTAATGACAATGAATTATTTAAGGTAAAAAAGATCAAGTAATTGTGTT
131 TTGGTTTTGGTAATGACAATGAATTATTTAAGGTAAAAAAGATCAAGTAATTGTGTT
118570 T
1 T
118571 TTAGCTTTGG
Statistics
Matches: 186, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
185 151 0.81
186 1 0.01
187 34 0.18
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (187 bp):
TCTTGTAATTATTGAGTTATTTCAATTTCTTCTTTCTCCATTTGTGTATGTGTTGTTGCCCTATA
GCGGGAAATCAAAGGCCATTTCCTGGAGCTGACTTCAGAGTCTCAAATAAATGTAGTGTCAAAAT
TTGGTTTTGGTAATGACAATGAATTATTTAAGGTAAAAAAGATCAAGTAATTGTGTT
Found at i:122479 original size:3 final size:3
Alignment explanation
Indices: 122471--122517 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
122461 TATCATGTGA
* *
122471 AAT AAT AAT AAT AAT AAAT AAT AAT GAT AAT AAT AA- AAT AAA AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
122516 AA
1 AA
122518 AAACAGGCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:122495 original size:19 final size:20
Alignment explanation
Indices: 122471--122517 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
122461 TATCATGTGA
122471 AATAATAATAATAAT-AAAT
1 AATAATAATAATAATAAAAT
*
122490 AATAATGATAATAATAAAAT
1 AATAATAATAATAATAAAAT
*
122510 AAAAATAA
1 AATAATAA
122518 AAACAGGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AATAATAATAATAATAAAAT
Found at i:124295 original size:29 final size:28
Alignment explanation
Indices: 124214--124317 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 28
124204 AAGTCTAAAC
* * * **
124214 TTTTATATAGTACAATAAATACC-ATTT
1 TTTTATAAATTACAATAAATGCCAAAAT
* *
124241 TTTTA-AATATTACAACACATGCCAAAACT
1 TTTTATAA-ATTACAATAAATGCCAAAA-T
*
124270 TTTTATAAATTACAATAAATGTCAAAAT
1 TTTTATAAATTACAATAAATGCCAAAAT
*
124298 ATTTTATAAATTATAATAAA
1 -TTTTATAAATTACAATAAA
124318 ATAAATTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.02
27 16 0.26
28 2 0.03
29 40 0.66
30 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (28 bp):
TTTTATAAATTACAATAAATGCCAAAAT
Found at i:125116 original size:37 final size:37
Alignment explanation
Indices: 125026--125130 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
125016 CTTTTTCGTC
*
125026 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
125063 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
* *
125100 CTACTATTAATT-AAACTCCTAAAGATAGGAT
1 CTACTA-GAATTCAAACTCCTAAAAATAGGAT
125131 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
37 56 0.95
38 3 0.05
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:125679 original size:2 final size:2
Alignment explanation
Indices: 125674--125710 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
125664 TATTTTTTCC
125674 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125711 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:125915 original size:22 final size:22
Alignment explanation
Indices: 125890--125937 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
125880 TTTTATTATA
125890 TTATACATACATTTTTATATTT
1 TTATACATACATTTTTATATTT
* ** *
125912 TTATATATATTTTTTTATTTTT
1 TTATACATACATTTTTATATTT
125934 TTAT
1 TTAT
125938 TTATACTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATACATACATTTTTATATTT
Found at i:125942 original size:22 final size:22
Alignment explanation
Indices: 125901--125969 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
125891 TATACATACA
* *
125901 TTTTTATATTTTTATATATATT
1 TTTTTATTTTTTTATTTATATT
*
125923 TTTTTATTTTTTTATTTATA-C
1 TTTTTATTTTTTTATTTATATT
*
125944 TATTTATTTATTTTCA-TTATATT
1 TTTTTATTT-TTTT-ATTTATATT
125967 TTT
1 TTT
125970 AGTTTCTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 8 0.21
22 27 0.71
23 3 0.08
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTATTTTTTTATTTATATT
Found at i:128784 original size:103 final size:103
Alignment explanation
Indices: 128600--128817 Score: 346
Period size: 103 Copynumber: 2.1 Consensus size: 103
128590 GTCGAGGGTC
* * *
128600 TATGTGGTCCTTGGGGACATATATGTATTCCTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCCTTGGAACATGTGTAAAGCCTGGTGAGACACATAC
* *
128665 TTGATCCTTGGCATATGTATATGATTCTTAAAGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
* * *
128703 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAATATGTGTAAAGCCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCCTTGGAACATGTGTAAAGCCTGGTGAGACACATAC
* *
128768 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
128806 TATGTGGTCCTT
1 TATGTGGTCCTT
128818 ATGGACATTA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCCTTGGAACATGTGTAAAGCCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
Found at i:128868 original size:23 final size:23
Alignment explanation
Indices: 128842--128899 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
128832 ATGGCACTAC
*
128842 GGTGCAATTCTACGCAGCACTCT
1 GGTGCAATTATACGCAGCACTCT
** *
128865 GGTGCAATTATACGTGGCACTTT
1 GGTGCAATTATACGCAGCACTCT
*
128888 GGTACAATTATA
1 GGTGCAATTATA
128900 TGAGCTGTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (23 bp):
GGTGCAATTATACGCAGCACTCT
Found at i:132837 original size:16 final size:13
Alignment explanation
Indices: 132815--132850 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
132805 TTTCCAGAGT
132815 TTTCTTCTTCTCC
1 TTTCTTCTTCTCC
132828 TTTCTTCTTCTCC
1 TTTCTTCTTCTCC
132841 TTTCTTCTTC
1 TTTCTTCTTC
132851 ACGCGTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTCTTCTTCTCC
Found at i:134489 original size:103 final size:103
Alignment explanation
Indices: 134305--134522 Score: 355
Period size: 103 Copynumber: 2.1 Consensus size: 103
134295 GTCGAGGGTC
* *
134305 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGCCTGGTGAGACACATAC
* *
134370 TTGATCCTTGGCATATGTATATGATTCTTAAAGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
* *
134408 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAATATGTGTAAAGCCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGCCTGGTGAGACACATAC
* *
134473 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
*
134511 TATATGGTCCTT
1 TATGTGGTCCTT
134523 ATAGACATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGCCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
Found at i:134588 original size:23 final size:23
Alignment explanation
Indices: 134537--134604 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
134527 ACATTATTAT
*
134537 ATGGCACTAC-GGTGCAATTCTAC
1 ATGGCAC-ACTGGTGCAATTATAC
*
134560 ACGGCACACTGGTGCAATTATAC
1 ATGGCACACTGGTGCAATTATAC
* *
134583 GTGGCAC-TTCGGTGCAATTATA
1 ATGGCACACT-GGTGCAATTATA
134605 TGAGCTGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 3 0.08
23 35 0.92
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (23 bp):
ATGGCACACTGGTGCAATTATAC
Found at i:139731 original size:22 final size:22
Alignment explanation
Indices: 139698--139753 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
139688 AGCTACCCCA
*
139698 TCAAACCCTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
139720 -CTAAACCTTTGAGCATCAAATG
1 TC-AAACCTTTGAGCATCAAATG
139742 TCAAACCTTTGA
1 TCAAACCTTTGA
139754 CCAAACACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:140170 original size:18 final size:19
Alignment explanation
Indices: 140147--140183 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
140137 TCAACATCAA
140147 ATATTGGGGCATT-TTTGG
1 ATATTGGGGCATTATTTGG
140165 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
140184 GGATTCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:140823 original size:106 final size:106
Alignment explanation
Indices: 140695--141970 Score: 2027
Period size: 106 Copynumber: 12.0 Consensus size: 106
140685 ATATCGTGCC
* * * * *
140695 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
140760 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
140801 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
140866 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
140907 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-AATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-CTTCC
*
140971 CAATTTCAGAGCAAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
141013 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGAGACCGCTAGTCGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
141078 AATTTCAGAGCCAGTTTCAGCTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
141119 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
141184 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
141225 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
141290 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
141331 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
141396 AATTTCGGCGCCAATTTCAACTTCACAGTGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
141437 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
141502 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
141543 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
141608 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
141649 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
141714 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
141755 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
141820 AATTTC-GTAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAG-AGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
141861 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
141926 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
141967 ACTC
1 ACTC
141971 GAAACAATGC
Statistics
Matches: 1087, Mismatches: 78, Indels: 10
0.93 0.07 0.01
Matches are distributed among these distances:
105 3 0.00
106 1081 0.99
107 3 0.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:142773 original size:37 final size:37
Alignment explanation
Indices: 142720--142824 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
142710 CCTTTTCGTC
142720 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
142757 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
142794 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
142825 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:143594 original size:22 final size:25
Alignment explanation
Indices: 143517--143633 Score: 84
Period size: 22 Copynumber: 4.7 Consensus size: 25
143507 TTTATTTTTC
* *
143517 ATTTATTTATTATTATTATTACTATTT
1 ATTTTTTTATTATTTTTA-TACTA-TT
* * *
143544 AGTATTTTATTA-TATTATAC-A-T
1 ATTTTTTTATTATTTTTATACTATT
**
143566 ACATTTTTA-TATTTTTATA-TATT
1 ATTTTTTTATTATTTTTATACTATT
143589 -TTTTTTTATTATTTTTTATACTATT
1 ATTTTTTTATTA-TTTTTATACTATT
143614 ATTTATTTTCATTATTTTTA
1 ATTT-TTTT-ATTATTTTTA
143634 GTTTCTTTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
21 2 0.03
22 20 0.28
23 3 0.04
24 9 0.12
25 7 0.10
26 8 0.11
27 19 0.26
28 4 0.06
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (25 bp):
ATTTTTTTATTATTTTTATACTATT
Found at i:143627 original size:28 final size:24
Alignment explanation
Indices: 143569--143632 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 24
143559 TATACATACA
143569 TTTTTA-TA-TTTTTATATATTTT
1 TTTTTATTATTTTTTATATATTTT
143591 TTTTTATTATTTTTTATACTATTATT
1 TTTTTATTATTTTTTATA-TATT-TT
143617 TATTTTCATTATTTTT
1 T-TTTT-ATTATTTTT
143633 AGTTTCTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.17
23 2 0.06
24 8 0.22
25 4 0.11
26 3 0.08
27 4 0.11
28 9 0.25
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTATTATTTTTTATATATTTT
Found at i:143744 original size:20 final size:19
Alignment explanation
Indices: 143717--143772 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
143707 TTTTATCTTC
143717 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
143736 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
143756 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
143773 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:144986 original size:19 final size:18
Alignment explanation
Indices: 144968--145017 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
144958 ATAATTTTTA
144968 AATAATTATTTAATATTT
1 AATAATTATTTAATATTT
*
144986 AAT-ATT-TTAAATATTT
1 AATAATTATTTAATATTT
*
145002 TATAATTATTATAATA
1 AATAATTATT-TAATA
145018 ATTATGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 11 0.42
17 6 0.23
18 5 0.19
19 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATAATTATTTAATATTT
Found at i:145028 original size:46 final size:45
Alignment explanation
Indices: 144951--145082 Score: 151
Period size: 46 Copynumber: 2.9 Consensus size: 45
144941 TTTTCTATAT
*
144951 ATATTTTATAATTTT-TAAATAATTATTTAATA-TTTAATATTTTAA
1 ATATTTTATAATTTTAT-AATAATTATGTAATATTTTAA-ATTTTAA
144996 ATATTTTATAATTATTATAATAATTATGTAATATTTTAAATTTTAA
1 ATATTTTATAATT-TTATAATAATTATGTAATATTTTAAATTTTAA
* * * * *
145042 ATTTTTTTATAATTTAATAATATTTCATTTATTATTTTAAA
1 A-TATTTTATAATTTTATAATAATT-ATGTAATATTTTAAA
145083 ATAAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
45 13 0.17
46 33 0.43
47 30 0.39
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (45 bp):
ATATTTTATAATTTTATAATAATTATGTAATATTTTAAATTTTAA
Found at i:145169 original size:18 final size:17
Alignment explanation
Indices: 145110--145171 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
145100 CCAAAAAGTA
* *
145110 AATAATTTAACATTTTT
1 AATAATTTAAAATATTT
*
145127 CATAATTATAAAATGATTT
1 AATAATT-TAAAAT-ATTT
*
145146 TA-AATTTAATAATATTT
1 AATAATTTAA-AATATTT
145163 AATAATTTA
1 AATAATTTA
145172 CATAATGCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 14 0.39
18 18 0.50
19 4 0.11
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (17 bp):
AATAATTTAAAATATTT
Found at i:147198 original size:13 final size:13
Alignment explanation
Indices: 147180--147205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
147170 GAGTCAACTT
147180 GTTGACTTTGACC
1 GTTGACTTTGACC
147193 GTTGACTTTGACC
1 GTTGACTTTGACC
147206 AAAAAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
GTTGACTTTGACC
Found at i:163885 original size:22 final size:22
Alignment explanation
Indices: 163857--163968 Score: 146
Period size: 22 Copynumber: 5.4 Consensus size: 22
163847 GTAAAATAAA
163857 TAAATTATCATTAAAATAATTT
1 TAAATTATCATTAAAATAATTT
* *
163879 TAAATTATTA-TAAAATAA--A
1 TAAATTATCATTAAAATAATTT
163898 TAAATTATCATTAAAATAATTT
1 TAAATTATCATTAAAATAATTT
* *
163920 TAAATTATTA-TAAAATAA--A
1 TAAATTATCATTAAAATAATTT
163939 TAAATTATCATTAAAATAATTT
1 TAAATTATCATTAAAATAATTT
163961 TAAATTAT
1 TAAATTAT
163969 TATCTAAAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
19 18 0.24
20 16 0.21
21 16 0.21
22 26 0.34
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATTATCATTAAAATAATTT
Found at i:163893 original size:41 final size:41
Alignment explanation
Indices: 163848--163971 Score: 248
Period size: 41 Copynumber: 3.0 Consensus size: 41
163838 AAGAGCTGAG
163848 TAAAATAAATAAATTATCATTAAAATAATTTTAAATTATTA
1 TAAAATAAATAAATTATCATTAAAATAATTTTAAATTATTA
163889 TAAAATAAATAAATTATCATTAAAATAATTTTAAATTATTA
1 TAAAATAAATAAATTATCATTAAAATAATTTTAAATTATTA
163930 TAAAATAAATAAATTATCATTAAAATAATTTTAAATTATTA
1 TAAAATAAATAAATTATCATTAAAATAATTTTAAATTATTA
163971 T
1 T
163972 CTAAAGCTGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (41 bp):
TAAAATAAATAAATTATCATTAAAATAATTTTAAATTATTA
Found at i:163929 original size:25 final size:24
Alignment explanation
Indices: 163901--163971 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 24
163891 AAATAAATAA
163901 ATTATCATTAAAATAATTTTAAATT
1 ATTAT-ATTAAAATAATTTTAAATT
*
163926 A-T-TA-TAAAATAA--ATAAATT
1 ATTATATTAAAATAATTTTAAATT
*
163945 A-T-CATTAAAATAATTTTAAATT
1 ATTATATTAAAATAATTTTAAATT
163967 ATTAT
1 ATTAT
163972 CTAAAGCTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 8 0.22
22 8 0.22
23 2 0.05
24 1 0.03
25 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTATATTAAAATAATTTTAAATT
Found at i:164329 original size:41 final size:41
Alignment explanation
Indices: 164272--164363 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
164262 CCAAATCATA
*
164272 ATAGAAAATGAACCGTGTAGCTCATCAACATTTAAGATCCT
1 ATAGAAAATGAACCGTGTAGCTCATCAACACTTAAGATCCT
164313 ATAGAAAATGAACCGTGTAGCTCATCAACACTTAAGATCCT
1 ATAGAAAATGAACCGTGTAGCTCATCAACACTTAAGATCCT
*
164354 ATAGATAATG
1 ATAGAAAATG
164364 TTGGATTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (41 bp):
ATAGAAAATGAACCGTGTAGCTCATCAACACTTAAGATCCT
Found at i:168169 original size:12 final size:12
Alignment explanation
Indices: 168154--168236 Score: 80
Period size: 12 Copynumber: 6.9 Consensus size: 12
168144 CAGAAATTAA
168154 AACAGAATTCAG
1 AACAGAATTCAG
168166 AACAG-ATATCAG
1 AACAGAAT-TCAG
*
168178 AACAGAATCCAG
1 AACAGAATTCAG
* *
168190 ATCAGAAATCAG
1 AACAGAATTCAG
168202 AACAGAATTCAG
1 AACAGAATTCAG
** *
168214 GTCATGTA-TCAG
1 AACA-GAATTCAG
168226 AACAGAATTCA
1 AACAGAATTCA
168237 AGTCGGAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
11 4 0.07
12 47 0.85
13 4 0.07
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.18
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:168171 original size:24 final size:24
Alignment explanation
Indices: 168144--168236 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 24
168134 ACGGAGATAT
* *
168144 CAGAAATTAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * *
168168 CAGATATCAGAACAGAATCCAGAT
1 CAGAAATCAGAACAGAATTCAGAA
**
168192 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAGAACAGAATTCAGAA
*
168216 CATG-TATCAGAACAGAATTCA
1 CA-GAAATCAGAACAGAATTCA
168237 AGTCGGAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 58 0.98
25 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.18
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:168213 original size:48 final size:48
Alignment explanation
Indices: 168142--168233 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
168132 AAACGGAGAT
*
168142 ATCAGAAATTAAAACAGAATTCAGAACA-GATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACATG-TATCAGAACAGAATCCAG
* **
168190 ATCAGAAATCAGAACAGAATTCAGGTCATGTATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGAACATGTATCAGAACAGAAT
168234 TCAAGTCGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACATGTATCAGAACAGAATCCAG
Found at i:168246 original size:48 final size:48
Alignment explanation
Indices: 168142--168248 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
168132 AAACGGAGAT
* * *
168142 ATCAGAAATTAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
**
168190 ATCAGAAATCAGAACAGAATTCAGGTCATG-TATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAGAACA-GATATCAGAACAGAA-TCAAG
*
168239 -TCGGAAATCA
1 ATCAGAAATCA
168249 TATAAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
48 46 0.90
49 5 0.10
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
Found at i:168248 original size:24 final size:24
Alignment explanation
Indices: 168143--168248 Score: 92
Period size: 24 Copynumber: 4.4 Consensus size: 24
168133 AACGGAGATA
* *
168143 TCAGAAATTAAAACAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
168166 AACAGATATCAGAACAGAA-TCCAG
1 -TCAGAAATCAGAACAGAATTCAAG
*
168190 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
*
168215 TCATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
168239 TCGGAAATCA
1 TCAGAAATCA
168249 TATAAAATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.05
24 59 0.89
25 4 0.06
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:172849 original size:12 final size:12
Alignment explanation
Indices: 172824--172916 Score: 73
Period size: 12 Copynumber: 7.8 Consensus size: 12
172814 ACGGAGATAT
* *
172824 CAGAAATCAAAA
1 CAGAATTCAGAA
172836 CAGAATTCAGAA
1 CAGAATTCAGAA
172848 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* * *
172860 CAGAATCCATAT
1 CAGAATTCAGAA
*
172872 CAGAAATCAGAA
1 CAGAATTCAGAA
**
172884 CAGAATTCAGGT
1 CAGAATTCAGAA
*
172896 CATGTA-TCAGAA
1 CA-GAATTCAGAA
172908 CAGAATTCA
1 CAGAATTCA
172917 AGTCGGAAAT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
11 4 0.07
12 53 0.87
13 4 0.07
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:172891 original size:48 final size:48
Alignment explanation
Indices: 172820--172930 Score: 145
Period size: 48 Copynumber: 2.3 Consensus size: 48
172810 TTAAACGGAG
*
172820 ATATCAGAAATCAAAACAGAATTCAGAACA-GATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTCAGAACATG-TATCAGAACAGAATCC
** *
172868 ATATCAGAAATCAGAACAGAATTCAGGTCATGTATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTCAGAACATGTATCAGAACAGAATCC
*
172916 A-AGTCGGAAATCAGA
1 ATA-TCAGAAATCAGA
172931 TAAAATAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 1 0.02
48 54 0.96
49 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (48 bp):
ATATCAGAAATCAGAACAGAATTCAGAACATGTATCAGAACAGAATCC
Found at i:172928 original size:24 final size:24
Alignment explanation
Indices: 172823--172930 Score: 105
Period size: 24 Copynumber: 4.5 Consensus size: 24
172813 AACGGAGATA
*
172823 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
172846 AACAGATATCAGAACAGAATCCATA-
1 -TCAGAAATCAGAACAGAATTCA-AG
*
172871 TCAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCAGAACAGAATTCAAG
*
172895 TCATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
172919 TCGGAAATCAGA
1 TCAGAAATCAGA
172931 TAAAATAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
23 1 0.01
24 64 0.96
25 1 0.01
26 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:177526 original size:12 final size:12
Alignment explanation
Indices: 177501--177593 Score: 73
Period size: 12 Copynumber: 7.8 Consensus size: 12
177491 ACGGAGATAT
* *
177501 CAGAAATCAAAA
1 CAGAATTCAGAA
177513 CAGAATTCAGAA
1 CAGAATTCAGAA
177525 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* * *
177537 CAGAATCCATAT
1 CAGAATTCAGAA
*
177549 CAGAAATCAGAA
1 CAGAATTCAGAA
**
177561 CAGAATTCAGGT
1 CAGAATTCAGAA
*
177573 CATGTA-TCAGAA
1 CA-GAATTCAGAA
177585 CAGAATTCA
1 CAGAATTCA
177594 AGTCGGAAAT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
11 4 0.07
12 53 0.87
13 4 0.07
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:177568 original size:48 final size:48
Alignment explanation
Indices: 177497--177607 Score: 145
Period size: 48 Copynumber: 2.3 Consensus size: 48
177487 TTAAACGGAG
*
177497 ATATCAGAAATCAAAACAGAATTCAGAACA-GATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTCAGAACATG-TATCAGAACAGAATCC
** *
177545 ATATCAGAAATCAGAACAGAATTCAGGTCATGTATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTCAGAACATGTATCAGAACAGAATCC
*
177593 A-AGTCGGAAATCAGA
1 ATA-TCAGAAATCAGA
177608 TAAAATAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 1 0.02
48 54 0.96
49 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (48 bp):
ATATCAGAAATCAGAACAGAATTCAGAACATGTATCAGAACAGAATCC
Found at i:177605 original size:24 final size:24
Alignment explanation
Indices: 177500--177607 Score: 105
Period size: 24 Copynumber: 4.5 Consensus size: 24
177490 AACGGAGATA
*
177500 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
177523 AACAGATATCAGAACAGAATCCATA-
1 -TCAGAAATCAGAACAGAATTCA-AG
*
177548 TCAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCAGAACAGAATTCAAG
*
177572 TCATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
177596 TCGGAAATCAGA
1 TCAGAAATCAGA
177608 TAAAATAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
23 1 0.01
24 64 0.96
25 1 0.01
26 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:184014 original size:3 final size:3
Alignment explanation
Indices: 184006--184035 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
183996 GCATGTAAAT
184006 TAA TAA TAA TTAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA
184036 TTTATAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:184018 original size:10 final size:10
Alignment explanation
Indices: 184003--184034 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
183993 CCTGCATGTA
184003 AATTAATAAT
1 AATTAATAAT
184013 AATTAATAAT
1 AATTAATAAT
184023 AA-TAATAAT
1 AATTAATAAT
184032 AAT
1 AAT
184035 ATTTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AATTAATAAT
Found at i:184349 original size:22 final size:22
Alignment explanation
Indices: 184322--184369 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
184312 TATGAATTTT
*
184322 TTCTTCCTCGTTAGATGAGTTC
1 TTCTTCCTCGTTAAATGAGTTC
184344 TTCTTCCTCGTTAAATGAGTTC
1 TTCTTCCTCGTTAAATGAGTTC
184366 TTCT
1 TTCT
184370 CATTATGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.48
Consensus pattern (22 bp):
TTCTTCCTCGTTAAATGAGTTC
Found at i:184594 original size:108 final size:111
Alignment explanation
Indices: 184358--184620 Score: 302
Period size: 117 Copynumber: 2.3 Consensus size: 111
184348 TCCTCGTTAA
* * * *
184358 ATGAGTTCTTCTCATTATGAACT-TTCCATTGGAAATATTGATTCACATCCTTCTGTGATGGAAT
1 ATGAGTTCTTCTCATTATGAACTCTT-CATTGAAAATGTAGATTCACATCCTTCTGTGATAGAAT
* *
184422 CAAACCAATGTTGAATAAGTTCTTTTCATTATGAATTTCTTCCTCCTCATTGG
65 CAAACCAAGGTTGAATAAG----TTT-ATTATGAACTTCTTCCT-CTCATTGG
* * *
184475 ATGAGTTCTTCTCATTATGAACTCTTCATTGAAAATGTAGATTCACCTCCTTCTGTGGTAGACTA
1 ATGAGTTCTTCTCATTATGAACTCTTCATTGAAAATGTAGATTCACATCCTTCTGTGATAGAAT-
*
184540 GAAACCAAGGTTGAATAAG-TT-TTATGAACTTCTT-CT-TCATTGG
65 CAAACCAAGGTTGAATAAGTTTATTATGAACTTCTTCCTCTCATTGG
* * *
184583 ATGAGTTCTTCTCATTATGAATTCTCCACTGAAAATGT
1 ATGAGTTCTTCTCATTATGAACTCTTCATTGAAAATGT
184621 TAATTCCTCA
Statistics
Matches: 131, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
108 42 0.32
110 2 0.02
111 12 0.09
113 2 0.02
117 54 0.41
118 19 0.15
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (111 bp):
ATGAGTTCTTCTCATTATGAACTCTTCATTGAAAATGTAGATTCACATCCTTCTGTGATAGAATC
AAACCAAGGTTGAATAAGTTTATTATGAACTTCTTCCTCTCATTGG
Found at i:184832 original size:136 final size:136
Alignment explanation
Indices: 184581--184892 Score: 417
Period size: 136 Copynumber: 2.3 Consensus size: 136
184571 CTTCTTCATT
* * * * * * * *
184581 GGATGAGTTCTTCTCATTATGAATTCTCCACTGAAAATGTTAATTCCTCAAGCGATGCGTCACTG
1 GGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTG
* * * * * *
184646 ATTCGAAATCTCGTGAATCAAGTGATAGGTCGAACAAGTTTTTCTCATTATGAACTTCTTTTCTC
66 ATTCGAAATCTCGTGAATCAAGTGATAAGTCGAACAAGCTCTTCTCATTATGAACTTATTATCCC
184711 TCTGTC
131 TCTGTC
* *
184717 GGATGAGTTCTTCTCATTATGAACTGTCAATTGGAAATGTCAATCCCTCCAGCGAGGCATCACTG
1 GGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTG
* * * *
184782 ATTCGAAATGTTGTGAATCGAGTGATAAGTCGAACAAGCTCTTCTTATTATGAACTTATTATCCC
66 ATTCGAAATCTCGTGAATCAAGTGATAAGTCGAACAAGCTCTTCTCATTATGAACTTATTATCCC
184847 TCTGTC
131 TCTGTC
* * *
184853 AGATGAGTTTTTCTCATTATGAACTCTCAATTAGAAATGT
1 GGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAATGT
184893 TGAAAACATT
Statistics
Matches: 152, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
136 152 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (136 bp):
GGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTG
ATTCGAAATCTCGTGAATCAAGTGATAAGTCGAACAAGCTCTTCTCATTATGAACTTATTATCCC
TCTGTC
Found at i:185311 original size:175 final size:176
Alignment explanation
Indices: 184984--185384 Score: 558
Period size: 175 Copynumber: 2.3 Consensus size: 176
184974 AAGACTTAGT
* * * * * *
184984 GATGACCTGAAGGATTTAAAAATCAAGAAGCCCTCGAAGGCTTATTTTCTTAGTTATGAAGAAAT
1 GATGGCCTGAAGGACTTACAAATCAAGAAACCC-CGAAGGCTTAGTTTCTTAGTTATAAAGAAAT
* *
185049 CCCTTAAAAAGGTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAAGAAACCCCTAAAAAGCTT
65 CCCTTAAAAAGGTTAGCTTCATTTAACAACTCTTTTGAGATAATTAAGAAACCCCCAAAAAGCTT
* * *
185114 AGTTTCTAAAATCTCATTTGAAAACATCATGTACTGAAGGCCTTTTG
130 AGTTTCTAAAATCTCATTTGAAAACATCATGCACCGAAGGCCTTATG
* *
185161 GATGGCCTGAATGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTGTAAATG-AA-
1 GATGGCCTGAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTATAAA-GAAAT
* * * * *
185224 CCCTTTAAAAGGCTTAGCTTCATTTAATAACTCTTTT-AGATAATTAGGAAACCCCCGAAAGGCT
65 CCCTTAAAAAGG-TTAGCTTCATTTAACAACTCTTTTGAGATAATTAAGAAACCCCCAAAAAGCT
*
185288 TAGTTTCTAAAATCTCATTTGAAAACATCATGCACCGAAGGTCTTATG
129 TAGTTTCTAAAATCTCATTTGAAAACATCATGCACCGAAGGCCTTATG
*
185336 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCGAA-GCTTTAGTTTCT
1 GATGGCCTGAAGGACTTACAAATCAAGAAACCCCGAAGGC-TTAGTTTCT
185385 AAAAACACAT
Statistics
Matches: 200, Mismatches: 21, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
174 2 0.01
175 122 0.61
176 47 0.23
177 29 0.14
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (176 bp):
GATGGCCTGAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTATAAAGAAATC
CCTTAAAAAGGTTAGCTTCATTTAACAACTCTTTTGAGATAATTAAGAAACCCCCAAAAAGCTTA
GTTTCTAAAATCTCATTTGAAAACATCATGCACCGAAGGCCTTATG
Done.