Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 74 of 91
Found at i:16786403 original size:18 final size:18
Alignment explanation
Indices: 16786352--16786397 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
16786342 CCTCTATATA
16786352 AAGGGGTATCGATACCCT
1 AAGGGGTATCGATACCCT
16786370 AAGGGGTATCGATACCCT
1 AAGGGGTATCGATACCCT
*
16786388 ATGGGGTATC
1 AAGGGGTATC
16786398 TGTACCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (18 bp):
AAGGGGTATCGATACCCT
Found at i:16786786 original size:13 final size:14
Alignment explanation
Indices: 16786762--16786790 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16786752 AGATTTTTGT
16786762 CTTTTGAAAAATTA
1 CTTTTGAAAAATTA
16786776 CTTTT-AAAAATTA
1 CTTTTGAAAAATTA
16786789 CT
1 CT
16786791 CCCCCTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (14 bp):
CTTTTGAAAAATTA
Found at i:16788193 original size:13 final size:12
Alignment explanation
Indices: 16788151--16788195 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
16788141 TGGGCAAATA
16788151 TTTGAAAACTAT
1 TTTGAAAACTAT
16788163 TTTGAAAACTAT
1 TTTGAAAACTAT
*
16788175 TTTGAAAACTAAG
1 TTTGAAAACT-AT
16788188 TTTGAAAA
1 TTTGAAAA
16788196 AATTATTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 22 0.71
13 9 0.29
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (12 bp):
TTTGAAAACTAT
Found at i:16788290 original size:19 final size:19
Alignment explanation
Indices: 16788241--16788281 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
16788231 TAATTAAATC
16788241 AAAATCAAC-AATTTAAAAA
1 AAAAT-AACAAATTTAAAAA
16788260 AAAATAACAAATTTAAAAA
1 AAAATAACAAATTTAAAAA
16788279 AAA
1 AAA
16788282 TTGAAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAACAAATTTAAAAA
Found at i:16797179 original size:30 final size:31
Alignment explanation
Indices: 16797134--16797201 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
16797124 AAGCCTTATA
* * *
16797134 AAAAATTTTGGGACC-ATTATG-TAATTTTTG
1 AAAAGTTTGGGGACCAATT-TGATAATTTTAG
16797164 AAAAGTTTGGGGACCAATTTGATAATTTTAG
1 AAAAGTTTGGGGACCAATTTGATAATTTTAG
16797195 AAAAGTT
1 AAAAGTT
16797202 GTGAATGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (31 bp):
AAAAGTTTGGGGACCAATTTGATAATTTTAG
Found at i:16804667 original size:21 final size:21
Alignment explanation
Indices: 16804617--16804668 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
16804607 AATGAGGGGT
16804617 ATCGGTACCTTCTGGCTAGGA
1 ATCGGTACCTTCTGGCTAGGA
**
16804638 ATCAATACCTTCTGGCTAGGA
1 ATCGGTACCTTCTGGCTAGGA
16804659 ATCGGTACCT
1 ATCGGTACCT
16804669 CTATATAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (21 bp):
ATCGGTACCTTCTGGCTAGGA
Found at i:16820201 original size:5 final size:6
Alignment explanation
Indices: 16820184--16820208 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16820174 ATAGAGTCTG
16820184 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
16820209 CCCTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:16828474 original size:2 final size:2
Alignment explanation
Indices: 16828467--16828493 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16828457 TTGTATATGC
16828467 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16828494 ATTGTTATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16834635 original size:26 final size:27
Alignment explanation
Indices: 16834606--16834656 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
16834596 GGATTTATAG
16834606 AAATG-CCCTAAAGTCTAAAATGACAA
1 AAATGCCCCTAAAGTCTAAAATGACAA
*
16834632 AAATGCCCCTAAAGTGTAAAATGAC
1 AAATGCCCCTAAAGTCTAAAATGAC
16834657 CTACAGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.20
Consensus pattern (27 bp):
AAATGCCCCTAAAGTCTAAAATGACAA
Found at i:16837523 original size:14 final size:14
Alignment explanation
Indices: 16837504--16837546 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
16837494 ATTAACTAGA
16837504 TCTGAGTCAACCCG
1 TCTGAGTCAACCCG
* *
16837518 TCTGAGTCAACTCA
1 TCTGAGTCAACCCG
*
16837532 TCGGAGTCAACCCG
1 TCTGAGTCAACCCG
16837546 T
1 T
16837547 TGACTTTTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (14 bp):
TCTGAGTCAACCCG
Found at i:16842585 original size:30 final size:30
Alignment explanation
Indices: 16842551--16842615 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
16842541 AATCGGAAAT
16842551 AATAATAATAAGCTCGGTGATTCAATAATG
1 AATAATAATAAGCTCGGTGATTCAATAATG
16842581 AATAATAATAAGCTCGGTGATTCAATAATG
1 AATAATAATAAGCTCGGTGATTCAATAATG
16842611 AATAA
1 AATAA
16842616 ATTGACTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.29
Consensus pattern (30 bp):
AATAATAATAAGCTCGGTGATTCAATAATG
Found at i:16843048 original size:27 final size:27
Alignment explanation
Indices: 16843009--16843066 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
16842999 TGGATTTATG
16843009 AAATGCCCTAAAG-AGTAAAATGACC-A
1 AAATGCCCTAAAGTA-TAAAATGACCTA
16843035 AAATGCCCCTAAAGTATAAAATGACCTA
1 AAATG-CCCTAAAGTATAAAATGACCTA
16843063 AAAT
1 AAAT
16843067 AATTCCAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 5 0.17
27 18 0.62
28 6 0.21
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (27 bp):
AAATGCCCTAAAGTATAAAATGACCTA
Found at i:16846809 original size:58 final size:58
Alignment explanation
Indices: 16846737--16846955 Score: 332
Period size: 58 Copynumber: 3.8 Consensus size: 58
16846727 CATATTTCCC
* * * * *
16846737 ATACGGAAACTCATACACTTAGTATGAATCTCTTAACATTTTGCACACAAGGTGCCCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
16846795 ATAC-GAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACACAAAGTACCCA
1 ATACAG-AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
16846853 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * *
16846911 ATACATAAATTCATACACTTAGTATGAATTTCTTAGCTCTTTGCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCA
16846956 TACTTGGTAC
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
57 1 0.01
58 146 0.99
59 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (58 bp):
ATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:16847327 original size:22 final size:21
Alignment explanation
Indices: 16847286--16847342 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
16847276 TGGTTCGTTA
*
16847286 GTATCGATACCCT-TACTATG
1 GTATCGATACTCTATACTATG
16847306 GTATCGATACTACTATACTATG
1 GTATCGATACT-CTATACTATG
16847328 GTA-CTGATACTCTAT
1 GTATC-GATACTCTAT
16847343 TACGGTATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 10 0.30
21 7 0.21
22 16 0.48
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (21 bp):
GTATCGATACTCTATACTATG
Found at i:16847405 original size:20 final size:20
Alignment explanation
Indices: 16847380--16847430 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
16847370 TGTTTTTAAT
*
16847380 GGTATCGATACCGAGAGGGA
1 GGTATCGATACCGAGAGGAA
16847400 GGTATCGATACCGAGAGGAA
1 GGTATCGATACCGAGAGGAA
16847420 GGTATCGATAC
1 GGTATCGATAC
16847431 TGATTACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.35, T:0.18
Consensus pattern (20 bp):
GGTATCGATACCGAGAGGAA
Found at i:16853725 original size:57 final size:58
Alignment explanation
Indices: 16853554--16853753 Score: 285
Period size: 58 Copynumber: 3.5 Consensus size: 58
16853544 TACTGAAACC
* * * * * *
16853554 CATACACTTAGTATGAATCTCTTAACATTTTGCACACAAGGTGCCCAATACGAAAATT
1 CATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTTCCAAATACGGAAATT
* ** * *
16853612 CATACACTTAGTATGAATTTCTTAACTTTTTGCAGACAAACATCCTAATACAGAAATT
1 CATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTTCCAAATACGGAAATT
*
16853670 CATACACTTAGTATAAATTT-TTAACTTTTTGCACACAAAGTTCCAAATACGGAAATT
1 CATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTTCCAAATACGGAAATT
16853727 CATACACTTAGTATGAATTTCTTAACT
1 CATACACTTAGTATGAATTTCTTAACT
16853754 CTTTATACAC
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
57 51 0.41
58 73 0.59
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (58 bp):
CATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTTCCAAATACGGAAATT
Found at i:16853790 original size:115 final size:115
Alignment explanation
Indices: 16853543--16853757 Score: 315
Period size: 115 Copynumber: 1.9 Consensus size: 115
16853533 CATATTTCCC
* * * * *
16853543 ATACTGAAACCCATACACTTAGTATGAATCTCTTAACATTTTGCACACAAGGTGCCCAATACGAA
1 ATACAGAAATCCATACACTTAGTATAAATCTCTTAACATTTTGCACACAAAGTGCCAAATACGAA
*
16853608 AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCAGACAAACATCCTA
66 AATTCATACACTTAGTATGAATTTCTTAACTCTTT-CAGACAAACATCCTA
* * * * *
16853659 ATACAGAAATTCATACACTTAGTATAAAT-TTTTAACTTTTTGCACACAAAGTTCCAAATACGGA
1 ATACAGAAATCCATACACTTAGTATAAATCTCTTAACATTTTGCACACAAAGTGCCAAATACGAA
16853723 AATTCATACACTTAGTATGAATTTCTTAACTCTTT
66 AATTCATACACTTAGTATGAATTTCTTAACTCTTT
16853758 ATACACTTAG
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
115 63 0.72
116 25 0.28
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (115 bp):
ATACAGAAATCCATACACTTAGTATAAATCTCTTAACATTTTGCACACAAAGTGCCAAATACGAA
AATTCATACACTTAGTATGAATTTCTTAACTCTTTCAGACAAACATCCTA
Found at i:16854211 original size:20 final size:20
Alignment explanation
Indices: 16854186--16854235 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
16854176 TGTTTTTAAT
*
16854186 GGTATCAATACCTTCCTCTC
1 GGTATCAATACCTCCCTCTC
*
16854206 GGTATCGATACCTCCCTCTC
1 GGTATCAATACCTCCCTCTC
16854226 GGTATCAATA
1 GGTATCAATA
16854236 TTTGATAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (20 bp):
GGTATCAATACCTCCCTCTC
Found at i:16856113 original size:69 final size:68
Alignment explanation
Indices: 16855927--16856127 Score: 210
Period size: 69 Copynumber: 2.9 Consensus size: 68
16855917 GGCCCGAAGA
* * * * * *
16855927 ATTAAAGTGACTTGTACGGGAGCA-CATAATCATATTTATTCAGGGTCACTCACACGTGAGCCCT
1 ATTATAGTGACTTGCACGGTAGCACCA-AATCATATTTATTCA-GGTGACTCGCACATGAGCCCT
16855991 AAAGG
64 AAAGG
* * * * *
16855996 ATTATAGTAATTTGCACGATAGCACCTAATCATATTTATTCATGGTGACTCGCACATGATCCCTA
1 ATTATAGTGACTTGCACGGTAGCACCAAATCATATTTATTCA-GGTGACTCGCACATGAGCCCTA
16856061 AAGG
65 AAGG
* *
16856065 ATT-TGAGTGACTTGCACGGTAGCACCAAATCATAATTATTCCGAGTGACTCGCACGA-GAGCCC
1 ATTAT-AGTGACTTGCACGGTAGCACCAAATCATATTTATTCAG-GTGACTCGCAC-ATGAGCCC
16856128 CGACGAAATT
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
68 2 0.02
69 105 0.96
70 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (68 bp):
ATTATAGTGACTTGCACGGTAGCACCAAATCATATTTATTCAGGTGACTCGCACATGAGCCCTAA
AGG
Found at i:16857932 original size:18 final size:17
Alignment explanation
Indices: 16857899--16857942 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
16857889 AATAATAGGA
16857899 AAAATAAAAAGAAAAATAT
1 AAAA-AAAAAGAAAAAT-T
16857918 GAAAAAAAAAG-AAAATT
1 -AAAAAAAAAGAAAAATT
16857935 AAAAAAAA
1 AAAAAAAA
16857943 CACCTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 5 0.21
19 6 0.25
20 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (17 bp):
AAAAAAAAAGAAAAATT
Found at i:16857941 original size:19 final size:19
Alignment explanation
Indices: 16857898--16857942 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
16857888 AAATAATAGG
*
16857898 AAAAATAAAAAGAAAAATA
1 AAAAAAAAAAAGAAAAATA
** *
16857917 TGAAAAAAAAAGAAAATTA
1 AAAAAAAAAAAGAAAAATA
16857936 AAAAAAA
1 AAAAAAA
16857943 CACCTTTAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAAAAAGAAAAATA
Found at i:16859637 original size:3 final size:3
Alignment explanation
Indices: 16859598--16859628 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
16859588 TTTTCATTTC
16859598 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16859629 AAATTATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:16861977 original size:26 final size:27
Alignment explanation
Indices: 16861925--16861982 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
16861915 TAAACCTTTC
*
16861925 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
*
16861953 TTTTCATAATATTTATATATA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
16861979 TTTT
1 TTTT
16861983 TTATATCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 9 0.32
28 19 0.68
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:16861994 original size:26 final size:30
Alignment explanation
Indices: 16861925--16861984 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
16861915 TAAACCTTTC
*
16861925 TTTTCA-AA-ATTTTTATATATACTTATTA
1 TTTTCATAATATTTATATATATACTTATTA
16861953 TTTTCATAATATTTATATATATA-TTATT-
1 TTTTCATAATATTTATATATATACTTATTA
16861981 TTTT
1 TTTT
16861985 ATATCTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 10 0.34
29 7 0.24
30 12 0.41
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTCATAATATTTATATATATACTTATTA
Found at i:16862466 original size:4 final size:4
Alignment explanation
Indices: 16862457--16862487 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
16862447 CTTTTTCCTT
16862457 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
16862488 TTCTGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:16868936 original size:13 final size:13
Alignment explanation
Indices: 16868918--16868954 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16868908 CAGGTCGAGT
16868918 ATCGGGCCGGGTA
1 ATCGGGCCGGGTA
*
16868931 ATCGGGTCGGGTA
1 ATCGGGCCGGGTA
*
16868944 ATCGGGGCGGG
1 ATCGGGCCGGG
16868955 GATTACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.51, T:0.16
Consensus pattern (13 bp):
ATCGGGCCGGGTA
Found at i:16871139 original size:18 final size:18
Alignment explanation
Indices: 16871116--16871157 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
16871106 CAGATGTTAT
16871116 TATATGAGTTTGATATTA
1 TATATGAGTTTGATATTA
16871134 TATATGAGTTTGATATTA
1 TATATGAGTTTGATATTA
16871152 TATATG
1 TATATG
16871158 TCAACCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (18 bp):
TATATGAGTTTGATATTA
Found at i:16874817 original size:113 final size:113
Alignment explanation
Indices: 16874619--16875134 Score: 739
Period size: 113 Copynumber: 4.6 Consensus size: 113
16874609 TTTCCGGAAT
* *
16874619 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
16874684 AACCTTTTGCTCGAATTCATCACTTGATGGATC-AGTATTGCCAG-GTA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCAACT-TTGCCAGAGGA
* *
16874731 GAGTTCATAATAAGAATAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * * * *
16874796 CAACATTTTGCTTTAATTCATCACTCGATGCATTAGCATTGCCAG-GTA
65 CAACCTTTTGCTTGAATTCATCACTTGATGGATCAACTTTGCCAGAGGA
* *
16874844 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
16874909 CAACCTTTTGCTTGAATTCATCACTTGATGGATCAACTTTTCCAGAGGA
65 CAACCTTTTGCTTGAATTCATCACTTGATGGATCAACTTTGCCAGAGGA
*
16874958 AGTTCATAATGAGAAGAACTCATC-------TGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
16875016 AACCTTTTGCTTGAATTCATCACTTGATGGATCAACTTTTCCAGAGGA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCAACTTTGCCAGAGGA
*
16875064 AGTTCATAATGAGAAGAACTCATCTGAAG-ATGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
16875128 AACCTTT
66 AACCTTT
16875135 GCATGACTCT
Statistics
Matches: 364, Mismatches: 31, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
106 103 0.28
112 39 0.11
113 220 0.60
114 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGAATTCATCACTTGATGGATCAACTTTGCCAGAGGA
Found at i:16875005 original size:17 final size:17
Alignment explanation
Indices: 16874956--16875008 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
16874946 TTTTCCAGAG
16874956 GAAGTTCATAATGAGAA
1 GAAGTTCATAATGAGAA
* *
16874973 GAA-CTCAT-CTGAAGAA
1 GAAGTTCATAATG-AGAA
16874989 GAAGTTCATAATGAGAA
1 GAAGTTCATAATGAGAA
16875006 GAA
1 GAA
16875009 CTTGTTTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 2 0.07
16 11 0.38
17 14 0.48
18 2 0.07
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (17 bp):
GAAGTTCATAATGAGAA
Found at i:16875335 original size:121 final size:119
Alignment explanation
Indices: 16875063--16875337 Score: 283
Period size: 121 Copynumber: 2.3 Consensus size: 119
16875053 TTTCCAGAGG
* * *
16875063 AAGTTCATAATGAGAAGAACTCATCTGAAGATGAA-GAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATC-CAAGAAGAAGGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
16875127 CAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAT
65 CAACCTTTGCATGACTATATCACAGAAGGAGATAAATCAGCATCAACATTTACAA
* * *
16875182 AAGTATTCATAATAAGAAGAATTCAT-C-TGAAGAAGGAAAAGAAGTTCATAATGAGAAGAACTT
1 AAG--TTCATAATGAGAAGAACTCATCCAAGAAGAAGG--AAGAAGTTCATAATGAGAAGAACTT
* * * ** *
16875245 GTTCAA-CTTTGCATGATTATATCACAGAAGTAGATAAAT-TGTCATCCCCA-TTAGAA
62 GTTCAACCTTTGCATGACTATATCACAGAAGGAGATAAATCAG-CATCAACATTTACAA
*
16875301 AAGTTCATAATGAGAAGAACTAATCCCAAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCAT-CC-AAGAAGAAG
16875338 AACGTGTTCA
Statistics
Matches: 126, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
117 18 0.14
118 5 0.04
119 12 0.10
120 35 0.28
121 56 0.44
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (119 bp):
AAGTTCATAATGAGAAGAACTCATCCAAGAAGAAGGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTGCATGACTATATCACAGAAGGAGATAAATCAGCATCAACATTTACAA
Found at i:16877995 original size:7 final size:7
Alignment explanation
Indices: 16877983--16878023 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
16877973 AATACTAAAC
16877983 AAAAATT
1 AAAAATT
16877990 AAAAATT
1 AAAAATT
16877997 AAAAATT
1 AAAAATT
16878004 AAAAATT
1 AAAAATT
16878011 AAAAATT
1 AAAAATT
16878018 AAAAAT
1 AAAAAT
16878024 CGAAAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:16878029 original size:21 final size:21
Alignment explanation
Indices: 16877982--16878030 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
16877972 AAATACTAAA
16877982 CAAAAATTAAAAATTAAAAAT
1 CAAAAATTAAAAATTAAAAAT
*
16878003 TAAAAATTAAAAATTAAAAAT
1 CAAAAATTAAAAATTAAAAAT
*
16878024 CGAAAAT
1 CAAAAAT
16878031 AAATTAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (21 bp):
CAAAAATTAAAAATTAAAAAT
Found at i:16880795 original size:19 final size:20
Alignment explanation
Indices: 16880754--16880795 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
16880744 TCACAATATA
*
16880754 CAAACATATCACATATTTAAT
1 CAAACATA-CACATATATAAT
*
16880775 CAAACATA-ACATATATCAT
1 CAAACATACACATATATAAT
16880794 CA
1 CA
16880796 TGCATTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (20 bp):
CAAACATACACATATATAAT
Found at i:16881258 original size:21 final size:22
Alignment explanation
Indices: 16881223--16881268 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
16881213 CCCTGAAGTT
16881223 CCACATAGAATGTCCC-AAAAGA
1 CCACATAGAATGTCCCGAAAA-A
16881245 CCACATAG-ATGTCCCGAAAAA
1 CCACATAGAATGTCCCGAAAAA
16881266 CCA
1 CCA
16881269 TGTAGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.30, G:0.13, T:0.13
Consensus pattern (22 bp):
CCACATAGAATGTCCCGAAAAA
Found at i:16883409 original size:19 final size:19
Alignment explanation
Indices: 16883385--16883430 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
16883375 ACCTAATATG
16883385 TGCAAGTATACACAATCGA
1 TGCAAGTATACACAATCGA
16883404 TGCAAGTATACACAATCGA
1 TGCAAGTATACACAATCGA
16883423 TGCAAGTA
1 TGCAAGTA
16883431 ATATAGTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (19 bp):
TGCAAGTATACACAATCGA
Found at i:16892371 original size:21 final size:21
Alignment explanation
Indices: 16892338--16892380 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16892328 CATCAAGGTC
*
16892338 TTTGTAGATGCCATGAAATCT
1 TTTGTAGAGGCCATGAAATCT
* *
16892359 TTTGTCGAGGCCATGAATTCT
1 TTTGTAGAGGCCATGAAATCT
16892380 T
1 T
16892381 GCAAGGATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (21 bp):
TTTGTAGAGGCCATGAAATCT
Found at i:16893922 original size:21 final size:19
Alignment explanation
Indices: 16893884--16893930 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
16893874 AATTAATCCT
16893884 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
16893904 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
16893925 A-TAATA
1 ACTAATA
16893931 ATTCGATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:16907674 original size:75 final size:75
Alignment explanation
Indices: 16907516--16907666 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 75
16907506 TATGTGCAAG
*
16907516 TATACACAATCGAATCAAGTAATATAAGGTAAGTGAGTTATCGTCTCTTTAGAGATTGGTCTACG
1 TATACACAATCGAATCAAGTAATATAAGGTAAGTGAGTTATCATCTCTTTAGAGATTGGTCTACG
16907581 ATTTTAACCT
66 ATTTTAACCT
*
16907591 TATACACAATCGAATCAAGTAATATAGGGTAAGTGAGTTATCATCTCTTTACG-GATTGGTCTAC
1 TATACACAATCGAATCAAGTAATATAAGGTAAGTGAGTTATCATCTCTTTA-GAGATTGGTCTAC
16907655 GATTTTAACCT
65 GATTTTAACCT
16907666 T
1 T
16907667 CACCACAACT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 72 0.99
76 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (75 bp):
TATACACAATCGAATCAAGTAATATAAGGTAAGTGAGTTATCATCTCTTTAGAGATTGGTCTACG
ATTTTAACCT
Found at i:16911633 original size:38 final size:38
Alignment explanation
Indices: 16911591--16911677 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
16911581 AAAATAGATC
* * *
16911591 ATAATGAGAAAAAGTTTTCCAAGGAGGA-ATAAGAGTTT
1 ATAATGAGAAAAAGGTTTCCAA-GAAGATAGAAGAGTTT
* **
16911629 ATAATGAGGAAAAGGTTTGTAAGAAGATAGAAGAGTTT
1 ATAATGAGAAAAAGGTTTCCAAGAAGATAGAAGAGTTT
16911667 ATAATGAGAAA
1 ATAATGAGAAA
16911678 GGTTTTTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 4 0.10
38 37 0.90
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.25
Consensus pattern (38 bp):
ATAATGAGAAAAAGGTTTCCAAGAAGATAGAAGAGTTT
Found at i:16911639 original size:20 final size:19
Alignment explanation
Indices: 16911614--16911674 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
16911604 GTTTTCCAAG
16911614 GAGGAATAAGAGTTTATAAT
1 GAGGAA-AAGAGTTTATAAT
*
16911634 GAGGAAAAG-GTTTGTAA-
1 GAGGAAAAGAGTTTATAAT
*
16911651 GAAGATAGAAGAGTTTATAAT
1 GAGGA-A-AAGAGTTTATAAT
16911672 GAG
1 GAG
16911675 AAAGGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 6 0.18
20 13 0.39
21 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (19 bp):
GAGGAAAAGAGTTTATAAT
Found at i:16912651 original size:20 final size:21
Alignment explanation
Indices: 16912604--16912654 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
16912594 AATAATAGAG
16912604 TTTTATTAATGAATGTATATAGA
1 TTTTATTAATGAATGTATAT--A
16912627 GTTTTATTAATGAATGTATAT-
1 -TTTTATTAATGAATGTATATA
16912648 TTTTATT
1 TTTTATT
16912655 TATAGGACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
24 20 0.74
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTATTAATGAATGTATATA
Found at i:16912657 original size:24 final size:24
Alignment explanation
Indices: 16912598--16912647 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
16912588 GGAAGGAATA
16912598 ATAGAGTTTTATTAATGAATGTAT
1 ATAGAGTTTTATTAATGAATGTAT
16912622 ATAGAGTTTTATTAATGAATGTAT
1 ATAGAGTTTTATTAATGAATGTAT
16912646 AT
1 AT
16912648 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (24 bp):
ATAGAGTTTTATTAATGAATGTAT
Found at i:16915901 original size:19 final size:19
Alignment explanation
Indices: 16915877--16915934 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
16915867 TATGTATTGG
16915877 GCTATGAATTTAAAAATAA
1 GCTATGAATTTAAAAATAA
16915896 GCTATGAATTTAAAAATAA
1 GCTATGAATTTAAAAATAA
* *
16915915 GCTATGAGTTTGAAAATAA
1 GCTATGAATTTAAAAATAA
16915934 G
1 G
16915935 TTATTAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (19 bp):
GCTATGAATTTAAAAATAA
Found at i:16915951 original size:38 final size:38
Alignment explanation
Indices: 16915877--16915953 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
16915867 TATGTATTGG
*
16915877 GCTATGAATTTAAAAATAAGCTATGAATTTAAAAATAA
1 GCTATGAATTTAAAAATAAGCTATGAATCTAAAAATAA
* * * * **
16915915 GCTATGAGTTTGAAAATAAGTTATTAATCTGGAAATAA
1 GCTATGAATTTAAAAATAAGCTATGAATCTAAAAATAA
16915953 G
1 G
16915954 TTCTCATTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (38 bp):
GCTATGAATTTAAAAATAAGCTATGAATCTAAAAATAA
Found at i:16916014 original size:13 final size:12
Alignment explanation
Indices: 16915996--16916054 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
16915986 AATTATTTAT
*
16915996 TATGAACATGGAA
1 TATGAAAAT-GAA
16916009 TATGAAAATGAA
1 TATGAAAATGAA
*
16916021 TATGTGAAA-GAA
1 TATG-AAAATGAA
*
16916033 TATGAAAGTGAAA
1 TATGAAAATG-AA
16916046 TATGAAAAT
1 TATGAAAAT
16916055 AAAATAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 2 0.05
12 15 0.39
13 21 0.55
ACGTcount: A:0.53, C:0.02, G:0.20, T:0.25
Consensus pattern (12 bp):
TATGAAAATGAA
Found at i:16917659 original size:27 final size:24
Alignment explanation
Indices: 16917619--16917673 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
16917609 TAGAAAGAGT
*
16917619 GAAAGAATATGAAAGGGAGAAAAAA
1 GAAAGAATATGAAAAGGA-AAAAAA
*
16917644 GAAAGAGATAATGAAAATGAAAAAAA
1 GAAAGA-AT-ATGAAAAGGAAAAAAA
16917670 GAAA
1 GAAA
16917674 ACATTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.23
26 12 0.46
27 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (24 bp):
GAAAGAATATGAAAAGGAAAAAAA
Found at i:16920551 original size:236 final size:236
Alignment explanation
Indices: 16920138--16920606 Score: 866
Period size: 236 Copynumber: 2.0 Consensus size: 236
16920128 CAGAGGTTCT
* *
16920138 TTTTCAATGGTCCTGTCAAGTTCTGTTGGATTCTGTTGTCTTTTCTCAGCAACCATATTAACAGA
1 TTTTCAATGGTCCTGTCAAGTTCTGTTGGATTCAGATGTCTTTTCTCAGCAACCATATTAACAGA
* *
16920203 GTCCTGTTGATTAGCCTAAGGTTCTCTATCACTGTTGGTAGGGTGTTCTTCCAAGGCTTGTGAAG
66 GTCCTGTTGATTAGCCTAAGGTTCTCTATCACTGTTGGTAGGCTGTTCTTCCAAGGCCTGTGAAG
16920268 ACCTGTTGGTTTCAGTAATCTCTCTCACATGCGCGTCGATGCATGTGAATCTTTTTTAAAAAATT
131 ACCTGTTGGTTTCAGTAATCTCTCTCACATGCGCGTCGATGCATGTGAATCTTTTTTAAAAAATT
16920333 TAAGGGTAAAGTATATAAATTCACTAAACTTTCCAGATGTC
196 TAAGGGTAAAGTATATAAATTCACTAAACTTTCCAGATGTC
*
16920374 TTTTCAATGGTCCTGTCAAGTTCTGTTGGATTCAGATGTCTTTTCTCAGCAACCATATTAATAGA
1 TTTTCAATGGTCCTGTCAAGTTCTGTTGGATTCAGATGTCTTTTCTCAGCAACCATATTAACAGA
*
16920439 GTCCTGTTGATTAGCCTAAGGTTCTCTATCACTGTTGGTAGGCTGTTCTTCCGAGGCCTGTGAAG
66 GTCCTGTTGATTAGCCTAAGGTTCTCTATCACTGTTGGTAGGCTGTTCTTCCAAGGCCTGTGAAG
*
16920504 ACCTGTTGGTTTCAGTGATCTCTCTCACATGCGCGTCGATGCATGTGAATCTTTTTTAAAAAATT
131 ACCTGTTGGTTTCAGTAATCTCTCTCACATGCGCGTCGATGCATGTGAATCTTTTTTAAAAAATT
*
16920569 TAAGGGTAAAGTATATAAATTCACTAAACTTTTCAGAT
196 TAAGGGTAAAGTATATAAATTCACTAAACTTTCCAGAT
16920607 ACTTGCATTT
Statistics
Matches: 225, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
236 225 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (236 bp):
TTTTCAATGGTCCTGTCAAGTTCTGTTGGATTCAGATGTCTTTTCTCAGCAACCATATTAACAGA
GTCCTGTTGATTAGCCTAAGGTTCTCTATCACTGTTGGTAGGCTGTTCTTCCAAGGCCTGTGAAG
ACCTGTTGGTTTCAGTAATCTCTCTCACATGCGCGTCGATGCATGTGAATCTTTTTTAAAAAATT
TAAGGGTAAAGTATATAAATTCACTAAACTTTCCAGATGTC
Found at i:16920858 original size:35 final size:36
Alignment explanation
Indices: 16920793--16920870 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
16920783 AACACAGTCA
* *
16920793 TCAATTACATTCTAAACCCTAAATCAC-AAAATACT
1 TCAATTAAATTCTAAACCCGAAATCACAAAAATACT
* *
16920828 TCAATTAAATTGTAAACCTCGAATTC-CAAAAATACT
1 TCAATTAAATTCTAAACC-CGAAATCACAAAAATACT
*
16920864 TCTATTA
1 TCAATTA
16920871 CATGACCAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 17 0.47
36 19 0.53
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.32
Consensus pattern (36 bp):
TCAATTAAATTCTAAACCCGAAATCACAAAAATACT
Found at i:16921152 original size:23 final size:25
Alignment explanation
Indices: 16921106--16921152 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
16921096 ACTCAATTCG
**
16921106 ATTCGAAAAAATTTGACTTGAATTA
1 ATTCGAAAAAATTTGACTACAATTA
16921131 ATTC-AAAAAATTTGA-TACAATT
1 ATTCGAAAAAATTTGACTACAATT
16921153 GACTTTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (25 bp):
ATTCGAAAAAATTTGACTACAATTA
Found at i:16921527 original size:148 final size:147
Alignment explanation
Indices: 16921368--16921660 Score: 480
Period size: 148 Copynumber: 2.0 Consensus size: 147
16921358 AAACTATTTA
* * * *
16921368 AATTAGAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACCCAAA
16921433 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAAATT-AGTCAAC
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCG--AAAAAAATTAAGTCAAC
16921497 TATTTTATAAACTGAACTG
129 TATTTTATAAACTGAACTG
16921516 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACCCAAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACCCAAA
* * **
16921581 AATTCAATTTAATTCGACTTGATTTAAATTTTATAAATTCAAATCGAAAAATTTTCAAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATT-AAGTCAACT
16921646 ATTTTATAAACTGAA
130 ATTTTATAAACTGAA
16921661 TTGATTATTT
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
146 7 0.05
148 128 0.95
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (147 bp):
AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACCCAAA
AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTAAGTCAACTA
TTTTATAAACTGAACTG
Found at i:16921908 original size:35 final size:34
Alignment explanation
Indices: 16921819--16921914 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
16921809 GAATGGATTG
* * * *
16921819 TGAATTTGA-GTTTGGGTATGTAATTAAAGTATTT
1 TGAATTTGAGGTTT-AGAATGTAATTGAAGCATTT
16921853 TGAATTTGAGGTTTAGAATGTAATTGAAGCATTT
1 TGAATTTGAGGTTTAGAATGTAATTGAAGCATTT
*
16921887 T-AGATTTTAGGGTTTAGAATGTAATTGA
1 TGA-ATTTGA-GGTTTAGAATGTAATTGA
16921915 TGACTGTGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
33 1 0.02
34 31 0.57
35 22 0.41
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (34 bp):
TGAATTTGAGGTTTAGAATGTAATTGAAGCATTT
Found at i:16927212 original size:20 final size:20
Alignment explanation
Indices: 16927187--16927228 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16927177 TTCCAAAATA
*
16927187 ATCAAATTTC-ACACTCTAAC
1 ATCAAA-TTCAACACTCAAAC
16927207 ATCAAATTCAACACTCAAAC
1 ATCAAATTCAACACTCAAAC
16927227 AT
1 AT
16927229 TAATTTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (20 bp):
ATCAAATTCAACACTCAAAC
Found at i:16942240 original size:21 final size:22
Alignment explanation
Indices: 16942208--16942258 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
16942198 TTCCAGAATA
16942208 CTACAGGTGTATCAATACCC-TG
1 CTACA-GTGTATCAATACCCTTG
* *
16942230 CTGCAGTGTATCGATACCCTTG
1 CTACAGTGTATCAATACCCTTG
16942252 CTACAGT
1 CTACAGT
16942259 AATTTCGGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (22 bp):
CTACAGTGTATCAATACCCTTG
Found at i:16943044 original size:32 final size:32
Alignment explanation
Indices: 16942967--16943154 Score: 256
Period size: 32 Copynumber: 5.9 Consensus size: 32
16942957 TATAATAATC
*
16942967 TGTCCATATGTCCTG-AAGAACATAGGTAA-AT
1 TGTCCATATGTCCCGAAAG-ACATAGGTAATAT
16942998 TGTCCATATGTCCCG-AAGAACATAGGTAATAT
1 TGTCCATATGTCCCGAAAG-ACATAGGTAATAT
* * *
16943030 TATCTATATGTCCCGAAAGACATAGGTAATAC
1 TGTCCATATGTCCCGAAAGACATAGGTAATAT
* * * *
16943062 TATCGATATGTCCTGAAAAACATAGGTAATAT
1 TGTCCATATGTCCCGAAAGACATAGGTAATAT
*
16943094 TGTCCATATGTCCCGAAAGACATAGGTAATAC
1 TGTCCATATGTCCCGAAAGACATAGGTAATAT
16943126 TGTCCATATGTCCCGAAAGACATAGGTAA
1 TGTCCATATGTCCCGAAAGACATAGGTAA
16943155 CCCTCAACTC
Statistics
Matches: 142, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
31 28 0.20
32 111 0.78
33 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAAGACATAGGTAATAT
Found at i:16943135 original size:96 final size:95
Alignment explanation
Indices: 16942972--16943154 Score: 305
Period size: 96 Copynumber: 1.9 Consensus size: 95
16942962 TAATCTGTCC
* * *
16942972 ATATGTCCTGAAGAACATAGGTAAATTGTCCATATGTCCCGAAGAACATAGGTAATATTATCTAT
1 ATATGTCCTGAAAAACATAGGTAAATTGTCCATATGTCCCGAAGAACATAGGTAATACTATCCAT
16943037 ATGTCCCGAAAGACATAGGTAATACTATCG
66 ATGTCCCGAAAGACATAGGTAATACTATCG
*
16943067 ATATGTCCTGAAAAACATAGGTAATATTGTCCATATGTCCCGAA-AGACATAGGTAATACTGTCC
1 ATATGTCCTGAAAAACATAGGTAA-ATTGTCCATATGTCCCGAAGA-ACATAGGTAATACTATCC
16943131 ATATGTCCCGAAAGACATAGGTAA
64 ATATGTCCCGAAAGACATAGGTAA
16943155 CCCTCAACTC
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
95 24 0.29
96 58 0.71
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (95 bp):
ATATGTCCTGAAAAACATAGGTAAATTGTCCATATGTCCCGAAGAACATAGGTAATACTATCCAT
ATGTCCCGAAAGACATAGGTAATACTATCG
Found at i:16948302 original size:31 final size:31
Alignment explanation
Indices: 16948214--16948385 Score: 188
Period size: 31 Copynumber: 5.5 Consensus size: 31
16948204 AGAGTCGAGG
16948214 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * *
16948245 GAATTAACCTATATTTTTC-GAGACATATGGACA
1 GTA-T-ACCTATGTTCTACGGA-ACATATGGACA
16948278 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *
16948309 GAATTACCTATG-TCTTTC-GAGACATATGGACA
1 GTA-TACCTATGTTC-TACGGA-ACATATGGACA
*
16948341 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *
16948372 GTTTACCTAGGTTC
1 GTATACCTATGTTC
16948386 ATCATAACCT
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
31 61 0.52
32 33 0.28
33 23 0.20
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:16948350 original size:63 final size:63
Alignment explanation
Indices: 16948214--16948380 Score: 282
Period size: 63 Copynumber: 2.7 Consensus size: 63
16948204 AGAGTCGAGG
*
16948214 GTATACCTATGTTCTACGGAACATATGGACAGAATTAACCTATATTTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATT-ACCTATATCTTTCGAGACATATGGACA
*
16948278 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATATCTTTCGAGACATATGGACA
* *
16948341 GTATACCTATGTTCTAAGGAACATATGGACAG-TTTACCTA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTA
16948381 GGTTCATCAT
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
62 7 0.07
63 56 0.57
64 36 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATATCTTTCGAGACATATGGACA
Found at i:16958246 original size:228 final size:227
Alignment explanation
Indices: 16957764--16958673 Score: 1597
Period size: 227 Copynumber: 4.0 Consensus size: 227
16957754 ATATTGAACC
* * * *
16957764 ATTAAATTTGAAATAGTTATGACATGATAATTTTGATACTTATATTGATATGAATTTTGATGTGA
1 ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATACATATATTGATATCAATTTCGATGTGA
*
16957829 TGTTACCGGATCATATGTGATGTTTGCCCGATCGTAATTCTAGTAAGTGATTGAACTTAAACAAC
66 TGTTACCGAATCATATGTGATGTTTGCCCGATCGTAATTCTAGTAAGTGATTGAACTTAAACAAC
16957894 TTGAATTATGAAAATGAAATTTGTAAGATGATAAAGGAAAGATAGACATGTAAATGGTGAATAAT
131 TTGAATTATGAAAATGAAATTTGTAAGATGATAAAGGAAAGATAGACATGTAAATGGTGAATAAT
*
16957959 GGAATGATAATAAGATGATCGTTGTGACTAGG
196 GGAATGATAATAAGATGATCGTTGTGATTAGG
16957991 ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATACATATATTGATATCAATTTCGATGTGA
1 ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATACATATATTGATATCAATTTCGATGTGA
*
16958056 TATTACCGAATCATATGTGATGTTTGCCCGATCGTAATTCTAGTAAGTGATTGAACTTAAACAAC
66 TGTTACCGAATCATATGTGATGTTTGCCCGATCGTAATTCTAGTAAGTGATTGAACTTAAACAAC
* * *
16958121 TTGAATTATGAAAAATGAAATTTGTAACATGATAAAGGAAAAATAGACATGTAAATGGTGATTAA
131 TTGAATTATG-AAAATGAAATTTGTAAGATGATAAAGGAAAGATAGACATGTAAATGGTGAATAA
*
16958186 TGGAATGATAATAAGATGATCGTTGTGATTGGG
195 TGGAATGATAATAAGATGATCGTTGTGATTAGG
16958219 ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATACATATATTGATATCAATTTCGATGTGA
1 ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATACATATATTGATATCAATTTCGATGTGA
*
16958284 TGTTACCGAATCATATGTGATGTTTGCCCGATCGTGATTCTAGTAAGTGATTGAACTTAAACAAC
66 TGTTACCGAATCATATGTGATGTTTGCCCGATCGTAATTCTAGTAAGTGATTGAACTTAAACAAC
*
16958349 TTGAATTATGAAAATGAAATTTGTAAGATGATAAAGGAAAGATATACATGTAAATGGTGAATAAT
131 TTGAATTATGAAAATGAAATTTGTAAGATGATAAAGGAAAGATAGACATGTAAATGGTGAATAAT
*
16958414 GGAATGATAATAAGATGATCGCTGTGATTAGG
196 GGAATGATAATAAGATGATCGTTGTGATTAGG
* * *
16958446 ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATGCCTATA-TGATATCAATTTTGATGTGA
1 ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATACATATATTGATATCAATTTCGATGTGA
* *
16958510 TGTTACCGAATCATATGTGATGTTTGCCCGATCGTGATTCTTGTAAGTGATTGAACTTAAACAAC
66 TGTTACCGAATCATATGTGATGTTTGCCCGATCGTAATTCTAGTAAGTGATTGAACTTAAACAAC
* * * *
16958575 TTGAATTCTGAAAATGAAACTTGTAAGATGATAAAGGAAAGATAGATATATAAATGGTGAATAAT
131 TTGAATTATGAAAATGAAATTTGTAAGATGATAAAGGAAAGATAGACATGTAAATGGTGAATAAT
16958640 GGAATGATAATAAGATGATCGTTGTGATTAGG
196 GGAATGATAATAAGATGATCGTTGTGATTAGG
16958672 AT
1 AT
16958674 GAAGTATGAA
Statistics
Matches: 653, Mismatches: 29, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
226 176 0.27
227 257 0.39
228 220 0.34
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (227 bp):
ATTAAATTTGAAATAGTTATGACATGATAGTTTTGATACATATATTGATATCAATTTCGATGTGA
TGTTACCGAATCATATGTGATGTTTGCCCGATCGTAATTCTAGTAAGTGATTGAACTTAAACAAC
TTGAATTATGAAAATGAAATTTGTAAGATGATAAAGGAAAGATAGACATGTAAATGGTGAATAAT
GGAATGATAATAAGATGATCGTTGTGATTAGG
Found at i:16960627 original size:18 final size:17
Alignment explanation
Indices: 16960595--16960660 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
16960585 TAAAGGAGCT
*
16960595 AGTTTAATTAATGAACC
1 AGTTTAATGAATGAACC
*
16960612 AGTTTAAATGAATGAACT
1 AGTTT-AATGAATGAACC
* * * *
16960630 TGTTTAATTAATGTACT
1 AGTTTAATGAATGAACC
16960647 AGCTTT-ATGAATGA
1 AG-TTTAATGAATGA
16960661 TCCAAGATAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 22 0.56
18 17 0.44
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (17 bp):
AGTTTAATGAATGAACC
Found at i:16966266 original size:26 final size:26
Alignment explanation
Indices: 16966236--16966291 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
16966226 TCGAATTAAT
*
16966236 TAAAATTTTATTTAATTATTCTGAAA
1 TAAAATCTTATTTAATTATTCTGAAA
*
16966262 TAAAATCTTATTTAATTATTCTGAAT
1 TAAAATCTTATTTAATTATTCTGAAA
16966288 TAAA
1 TAAA
16966292 TATTCATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (26 bp):
TAAAATCTTATTTAATTATTCTGAAA
Found at i:16966301 original size:25 final size:26
Alignment explanation
Indices: 16966236--16966299 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
16966226 TCGAATTAAT
* *
16966236 TAAAATTTTATTTAATTATTCTGAAA
1 TAAAATCTCATTTAATTATTCTGAAA
* *
16966262 TAAAATCTTATTTAATTATTCTGAAT
1 TAAAATCTCATTTAATTATTCTGAAA
16966288 TAAATAT-TCATT
1 TAAA-ATCTCATT
16966300 AAAAGAGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 32 0.94
27 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (26 bp):
TAAAATCTCATTTAATTATTCTGAAA
Found at i:16974575 original size:2 final size:2
Alignment explanation
Indices: 16974568--16974601 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
16974558 ATGGATTTCT
16974568 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
16974602 GTATTATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16974659 original size:2 final size:2
Alignment explanation
Indices: 16974652--16974693 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16974642 TCAATCTACA
16974652 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
16974694 TTACGAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16974866 original size:85 final size:85
Alignment explanation
Indices: 16974714--16974873 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 85
16974704 CAATCACGAT
* * * * *
16974714 ACACGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGTAATGTAAGTCATACAT
1 ACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGTAATGTAAGTCATAAAT
*
16974779 GCGTGTCATATATTTATGAC
66 GCGCGTCATATATTTATGAC
* *
16974799 ACACAAATGTGTGTCATCTTAATTT-ATGATGGGGGCTTCAATGACGC-TCAATG-AACGTCATA
1 ACACAAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGT-AATGTAA-GTCATA
16974861 AATGCGCGTCATA
63 AATGCGCGTCATA
16974874 AAGGTGTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
84 3 0.05
85 58 0.91
86 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (85 bp):
ACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGTAATGTAAGTCATAAAT
GCGCGTCATATATTTATGAC
Found at i:16974870 original size:13 final size:13
Alignment explanation
Indices: 16974854--16974915 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
16974844 GCTCAATGAA
*
16974854 CGTCATAAATGCG
1 CGTCATAAATGTG
*
16974867 CGTCATAAAGGTG
1 CGTCATAAATGTG
*
16974880 TGTCATAAATGTG
1 CGTCATAAATGTG
* *
16974893 TGTCATAAATGAG
1 CGTCATAAATGTG
16974906 CGTCATAAAT
1 CGTCATAAAT
16974916 TTATGACGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (13 bp):
CGTCATAAATGTG
Found at i:16980110 original size:42 final size:42
Alignment explanation
Indices: 16980048--16980143 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
16980038 CATAAGGAAG
* * * *
16980048 CACTTTCGATTCTCGTCTAAATTAGAACGAAAGTAAGCATAA
1 CACTTTCGATTCTCGCCTAAAGTAGAAAGAAAGAAAGCATAA
* *
16980090 CACTTTCGATTCTTGCCTAAAGTAGAAAGAAAGAAAGCATAG
1 CACTTTCGATTCTCGCCTAAAGTAGAAAGAAAGAAAGCATAA
16980132 CACTTTCGATTC
1 CACTTTCGATTC
16980144 GTGATGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (42 bp):
CACTTTCGATTCTCGCCTAAAGTAGAAAGAAAGAAAGCATAA
Found at i:16981509 original size:8 final size:8
Alignment explanation
Indices: 16981496--16981524 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
16981486 CTTTGATTCA
16981496 TTTATTAT
1 TTTATTAT
16981504 TTTATTA-
1 TTTATTAT
16981511 TTTATTAT
1 TTTATTAT
16981519 TTTATT
1 TTTATT
16981525 TCATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTAT
Found at i:16981515 original size:15 final size:15
Alignment explanation
Indices: 16981495--16981524 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16981485 CCTTTGATTC
16981495 ATTTATTATTTTATT
1 ATTTATTATTTTATT
16981510 ATTTATTATTTTATT
1 ATTTATTATTTTATT
16981525 TCATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTATTATTTTATT
Found at i:16981533 original size:12 final size:11
Alignment explanation
Indices: 16981496--16981676 Score: 51
Period size: 12 Copynumber: 16.3 Consensus size: 11
16981486 CTTTGATTCA
16981496 TTTA-TTATTT
1 TTTATTTATTT
16981506 TATTATTTATTAT
1 T-TTATTTATT-T
16981519 TTTATTTCATTT
1 TTTATTT-ATTT
* *
16981531 TTT-TCTCATTGA
1 TTTAT-TTATT-T
**
16981543 TTTATTT-TCC
1 TTTATTTATTT
16981553 TTTATTTATTTT
1 TTTATTTA-TTT
16981565 TTTATTTTATCTT
1 TTTA-TTTAT-TT
*
16981578 TTGATTTA-TT
1 TTTATTTATTT
*
16981588 ATTA-TT-TTT
1 TTTATTTATTT
*
16981597 TTTA--CATTT
1 TTTATTTATTT
* *
16981606 TTCCATTGATTT
1 TT-TATTTATTT
*
16981618 ATTTGATATA-TT
1 -TTT-ATTTATTT
*
16981630 TTTATTT-TAT
1 TTTATTTATTT
*
16981640 TTTATTT-TCCT
1 TTTATTTAT-TT
*
16981651 TTGATTTATTT
1 TTTATTTATTT
16981662 TTTATTTTATTT
1 TTTA-TTTATTT
16981674 TTT
1 TTT
16981677 TCTCCTTTTT
Statistics
Matches: 126, Mismatches: 23, Indels: 42
0.66 0.12 0.22
Matches are distributed among these distances:
9 12 0.10
10 25 0.20
11 22 0.17
12 47 0.37
13 20 0.16
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:16981598 original size:33 final size:33
Alignment explanation
Indices: 16981561--16981699 Score: 106
Period size: 33 Copynumber: 4.0 Consensus size: 33
16981551 CCTTTATTTA
*
16981561 TTTTTTTATTTTATCTTTTGATTTATTATTATT
1 TTTTTTTATTTTATCCTTTGATTTATTATTATT
* *
16981594 TTTTTTACATTTT-TCCATTGATTTATTTGATATATT
1 TTTTTT-TATTTTATCCTTTGATTTA-TT-AT-TATT
16981630 TTTATTTTATTTTATTTTCCTTTGATTTATT-TT-TT
1 TTT-TTTTATTTTA---TCCTTTGATTTATTATTATT
* *
16981665 ATTTTATTT-TTTTCTCCTTTTTATTTATTATTATT
1 -TTTT-TTTATTTTATCC-TTTGATTTATTATTATT
16981700 ATTATTATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
32 3 0.04
33 26 0.31
34 9 0.11
35 11 0.13
36 19 0.22
37 4 0.05
39 2 0.02
40 11 0.13
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (33 bp):
TTTTTTTATTTTATCCTTTGATTTATTATTATT
Found at i:16981635 original size:15 final size:15
Alignment explanation
Indices: 16981615--16981677 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 15
16981605 TTTCCATTGA
*
16981615 TTTATTTGATATATT
1 TTTATTTGATTTATT
*
16981630 TTTATTTTATTTTATT
1 TTTATTTGA-TTTATT
**
16981646 TTCCTTTGATTTATTT
1 TTTATTTGATTTA-TT
*
16981662 TTTATTTTATTT-TT
1 TTTATTTGATTTATT
16981676 TT
1 TT
16981678 CTCCTTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 22 0.58
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTTGATTTATT
Found at i:16981657 original size:40 final size:41
Alignment explanation
Indices: 16981577--16981762 Score: 122
Period size: 42 Copynumber: 4.6 Consensus size: 41
16981567 TATTTTATCT
*
16981577 TTTGATTTATTATTATTTTTTTTACATTTTTCCATTGATTTA
1 TTTGATATATTATTATTTTTTTTA-ATTTTTCCATTGATTTA
* *
16981619 TTTGATATATTTTTATTTTATTTT-A-TTTTCCTTTGATTTA
1 TTTGATATATTATTATTTT-TTTTAATTTTTCCATTGATTTA
* ** *
16981659 TTT--TTTATT-TTATTTTTTTCTCCTTTTT--ATTTA-TTA
1 TTTGATATATTATTATTTTTTT-TAATTTTTCCATTGATTTA
* ** * *
16981695 TTATTAT-TATTATTATTAGTTTTACATTTTTTCTTTGATTTA
1 TT-TGATATATTATTATTTTTTTTA-ATTTTTCCATTGATTTA
* *
16981737 TTTAATAT-TTATGTATTGTTTTTAAT
1 TTTGATATATTAT-TATTTTTTTTAAT
16981763 CTAACATTTT
Statistics
Matches: 114, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
36 8 0.07
37 12 0.11
38 10 0.09
39 18 0.16
40 17 0.15
41 13 0.11
42 32 0.28
43 4 0.04
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.69
Consensus pattern (41 bp):
TTTGATATATTATTATTTTTTTTAATTTTTCCATTGATTTA
Found at i:16985974 original size:36 final size:36
Alignment explanation
Indices: 16985920--16986071 Score: 277
Period size: 36 Copynumber: 4.2 Consensus size: 36
16985910 ATTTTACTCA
*
16985920 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
16985957 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
16985993 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
16986029 AAACAAATTTTGTCTCTCTTGAGACAGGTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
16986065 AAACAAA
1 AAACAAA
16986072 ATCTTTGAAT
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
36 106 0.94
37 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:16985975 original size:21 final size:21
Alignment explanation
Indices: 16985950--16986050 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 21
16985940 TGAGACAGTT
16985950 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
16985971 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
16985988 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
16986007 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
16986024 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
16986043 TCTCTTGA
1 TCTCTTGA
16986051 GACAGGTTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
15 14 0.23
16 2 0.03
17 6 0.10
18 8 0.13
19 6 0.10
20 2 0.03
21 22 0.37
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:16986162 original size:21 final size:21
Alignment explanation
Indices: 16986138--16986209 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
16986128 TGGAACTAAG
16986138 TTTTGTCTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAAACAAA
*
16986159 TTTTGTCTCTCTTGAGAC--A
1 TTTTGTCTCTCTTGAAACAAA
* *
16986178 -GTT-TC-C-CTTGAAATAAA
1 TTTTGTCTCTCTTGAAACAAA
16986195 TTTTGTCTCTCTTGA
1 TTTTGTCTCTCTTGA
16986210 GACAGTTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
15 6 0.15
16 1 0.03
17 3 0.08
18 4 0.10
19 3 0.08
20 1 0.03
21 22 0.55
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.46
Consensus pattern (21 bp):
TTTTGTCTCTCTTGAAACAAA
Found at i:16986188 original size:36 final size:36
Alignment explanation
Indices: 16986148--16986403 Score: 267
Period size: 36 Copynumber: 7.2 Consensus size: 36
16986138 TTTTGTCTCT
16986148 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
*
16986184 CTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * *
16986220 CTTGAAACAAA------ATCT-TTGA-ATATGTTTTC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACA-GTTTCC
* * * * *
16986249 TTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * * ** *
16986285 TTTGGAACTAAGTTTTGTCTCTCTTGAGACAACTTCT
1 CTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCC
*
16986322 CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* *
16986358 CTTGAAACAATGTTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCC
16986395 CTTGAAACA
1 CTTGAAACA
16986404 CCAATCTTTG
Statistics
Matches: 181, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 3 0.02
35 2 0.01
36 92 0.51
37 63 0.35
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
Found at i:16986278 original size:159 final size:159
Alignment explanation
Indices: 16985989--16986461 Score: 644
Period size: 159 Copynumber: 2.9 Consensus size: 159
16985979 GACAGTTTCC
16985989 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
* * * *
16986054 AGGTTCCCTTGAAACAAAATCTTTGAATATGTTTTAC-ATAAAACAAATTTCATCTCCCTTGAGA
66 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTT-CTTTGAAACAAATTTCGTCTCCCTTGAGA
16986118 CAGTTTCTTTTGGAACTAAGTTTTGTCTCT
130 CAGTTTCTTTTGGAACTAAGTTTTGTCTCT
*
16986148 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
16986213 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGAC
66 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGAC
*
16986278 ATTTTCTTTTGGAACTAAGTTTTGTCTCT
131 AGTTTCTTTTGGAACTAAGTTTTGTCTCT
*
16986307 CTTGAGACAACTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAATGTT
1 CTT--G-------------AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA-ATT
* *
16986372 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAATATG-TTTCTCTTGAAACAAA
50 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAATATGTTTTCT-TTGAAAC-AA
* * *
16986436 ATTTTGCCTCCCTAGAGACAGTTTCT
112 ATTTCGTCTCCCTTGAGACAGTTTCT
16986462 CTTGAAACAC
Statistics
Matches: 280, Mismatches: 14, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
158 1 0.00
159 154 0.55
161 1 0.00
174 41 0.15
175 38 0.14
176 21 0.08
177 24 0.09
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (159 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGAC
AGTTTCTTTTGGAACTAAGTTTTGTCTCT
Found at i:16986311 original size:37 final size:36
Alignment explanation
Indices: 16986245--16986403 Score: 194
Period size: 37 Copynumber: 4.4 Consensus size: 36
16986235 TTGAATATGT
* * * *
16986245 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAT
1 TTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAG
* * *
16986280 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAA
1 TTTCTCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAG
* * *
16986317 CTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAG
*
16986353 TTTCCCTTGAAACAATGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAA-GTTTTGTCTCTCTTGAGACAG
16986390 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
16986404 CCAATCTTTG
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
35 5 0.05
36 39 0.37
37 61 0.58
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAG
Found at i:16986373 original size:73 final size:73
Alignment explanation
Indices: 16986253--16986403 Score: 205
Period size: 73 Copynumber: 2.1 Consensus size: 73
16986243 GTTTTCTTTG
* ** *
16986253 AAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAAC
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACTAAGTTTTGTCTCTCTTGAGACAAC
16986318 TTCTCTTA
66 TTCTCTTA
* * *
16986326 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AATGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACTAA-GTTTTGTCTCTCTTGAGACAA
* *
16986390 TTTCTCTTG
65 CTTCTCTTA
16986399 AAACA
1 AAACA
16986404 CCAATCTTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 2 0.03
73 66 0.97
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (73 bp):
AAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACTAAGTTTTGTCTCTCTTGAGACAAC
TTCTCTTA
Found at i:16986689 original size:81 final size:81
Alignment explanation
Indices: 16986506--16986691 Score: 207
Period size: 81 Copynumber: 2.3 Consensus size: 81
16986496 TCTTGAAACA
* * **
16986506 CAAAAACCTTAGAGTTCGATTCCATTCAGCTTAAAGGCACTATCATTTGCAGCATAGCTCAAGAC
1 CAAAAAACTTCGAGTTCGATTCCATTCAGCTTAAAGGCACTATCATTCACAGCATAGCTCAAGAC
*
16986571 TAAAAGGGTTATCTGC
66 TAAAAGGGCTATCTGC
* * * * * *
16986587 CAAAGACCTTCTAGTTCGATTCCATTCAGC-TCAAGGCAC-ATCATTCATAGCATAGCTCAAGGC
1 CAAAAAACTTCGAGTTCGATTCCATTCAGCTTAAAGGCACTATCATTCACAGCATAGCTCAAGAC
*
16986650 -AAGAAGGGCTATCTGT
66 TAA-AAGGGCTATCTGC
*
16986666 CAATAAAATTGTCGAGTTCGATTCCA
1 CAA-AAAACT-TCGAGTTCGATTCCA
16986692 ACTTCGCGAC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 2 0.02
79 34 0.39
80 11 0.12
81 41 0.47
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (81 bp):
CAAAAAACTTCGAGTTCGATTCCATTCAGCTTAAAGGCACTATCATTCACAGCATAGCTCAAGAC
TAAAAGGGCTATCTGC
Found at i:16987756 original size:41 final size:41
Alignment explanation
Indices: 16987711--16987792 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
16987701 TTTAACTATC
*
16987711 CATTTTTTTCT-TTT-ATTCATTTATTATTTATTATTTTATTT
1 CATTTTTTTCTCTTTGATTCATTT-TCATTTATT-TTTTATTT
* *
16987752 CATTTTTTTCTCTTTGATTTATTTTCCTTTATTTTTTATTT
1 CATTTTTTTCTCTTTGATTCATTTTCATTTATTTTTTATTT
16987793 TATCTTTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 19 0.53
42 10 0.28
43 7 0.19
ACGTcount: A:0.16, C:0.10, G:0.01, T:0.73
Consensus pattern (41 bp):
CATTTTTTTCTCTTTGATTCATTTTCATTTATTTTTTATTT
Found at i:16987785 original size:34 final size:33
Alignment explanation
Indices: 16987736--16987849 Score: 96
Period size: 34 Copynumber: 3.5 Consensus size: 33
16987726 TTCATTTATT
*
16987736 ATTTATTAT-TTTATTTCATTTTTTTCTCTTTG
1 ATTTATTTTATTTATTTCATTTTTTTCTCTTTG
* *
16987768 ATTTATTTTCCTTTATTT--TTTATTTTATCTTTTG
1 ATTTATTTT-ATTTATTTCATTT-TTTTCTC-TTTG
* *
16987802 ATTTATTATTATTT-TTACA-TTTTTTC-CATTG
1 ATTTATT-TTATTTATTTCATTTTTTTCTCTTTG
*
16987833 ATTTATTTTATATATTT
1 ATTTATTTTATTTATTT
16987850 TTATTTTATT
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
30 5 0.08
31 12 0.18
32 12 0.18
33 12 0.18
34 23 0.35
35 2 0.03
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (33 bp):
ATTTATTTTATTTATTTCATTTTTTTCTCTTTG
Found at i:16987787 original size:69 final size:65
Alignment explanation
Indices: 16987736--16987858 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 65
16987726 TTCATTTATT
*
16987736 ATTTATTATT-TTATTT-CATTTTTTTCTCTTTGATTTATTTTCCTTTATTTTTTATTTTATCTT
1 ATTTATTATTATT-TTTACA-TTTTTTC-CATTGATTTATTTTCCTTTATTTTTTATTTTATCTT
16987799 TTG
63 TTG
* *
16987802 ATTTATTATTATTTTTACATTTTTTCCATTGATTTATTTT-ATATA-TTTTTATTTTAT
1 ATTTATTATTATTTTTACATTTTTTCCATTGATTTATTTTCCTTTATTTTTTATTTTAT
16987859 TTTATTTTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
63 12 0.23
64 3 0.06
65 13 0.25
66 20 0.38
67 4 0.08
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (65 bp):
ATTTATTATTATTTTTACATTTTTTCCATTGATTTATTTTCCTTTATTTTTTATTTTATCTTTTG
Found at i:16987866 original size:15 final size:15
Alignment explanation
Indices: 16987834--16987939 Score: 62
Period size: 15 Copynumber: 6.9 Consensus size: 15
16987824 TTTCCATTGA
*
16987834 TTTATTTTA-TATATT
1 TTTATTTTATTTTA-T
16987849 TTTATTTTATTTTAT
1 TTTATTTTATTTTAT
* *
16987864 TTTCCTTTGA-TTTA-
1 TTT-ATTTTATTTTAT
16987878 TTT-TTTTATTTTAT
1 TTTATTTTATTTTAT
*
16987892 TTTATTTT-TTCTCAT
1 TTTATTTTATT-TTAT
16987907 TTTGA-TTTATTATTAT
1 TTT-ATTTTATT-TTAT
16987923 TATTATTATTAGTTTTA
1 T-TTATT-TTA-TTTTA
16987940 CGTTTTTTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
12 4 0.06
13 4 0.06
14 8 0.11
15 30 0.42
16 15 0.21
17 3 0.04
18 6 0.08
19 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:16987886 original size:33 final size:32
Alignment explanation
Indices: 16987736--16987899 Score: 109
Period size: 33 Copynumber: 4.8 Consensus size: 32
16987726 TTCATTTATT
* *
16987736 ATTTATTATTTTATTTCA-TTTTTTTCTCTTTG
1 ATTTATTTTTTTATTTTATTTTTTTTC-CTTTG
* *
16987768 ATTTATTTTCCTTTATTTT-TTATTTTATCTTTTG
1 ATTTATTTT--TTTATTTTATT-TTTTTTCCTTTG
* * ** *
16987802 ATTTATTATTAT-TTTTACATTTTTTCCATTGATTT
1 ATTTATTTTTTTATTTTATTTTTTTTCC--T--TTG
16987837 ATTTTATATATTTTTATTTTATTTTATTTTCCTTTG
1 A-TTTAT-T-TTTTTATTTTATTTT-TTTTCCTTTG
16987873 ATTTATTTTTTTATTTTATTTTATTTT
1 ATTTATTTTTTTATTTTATTTT-TTTT
16987900 TTCTCATTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
31 10 0.10
32 10 0.10
33 21 0.21
34 21 0.21
35 14 0.14
36 8 0.08
37 1 0.01
38 4 0.04
39 7 0.07
40 6 0.06
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (32 bp):
ATTTATTTTTTTATTTTATTTTTTTTCCTTTG
Found at i:16987915 original size:20 final size:18
Alignment explanation
Indices: 16987830--16987917 Score: 72
Period size: 20 Copynumber: 4.6 Consensus size: 18
16987820 ATTTTTTCCA
*
16987830 TTGATTTATTTTATATATT
1 TTGATTTATTTT-TTTATT
*
16987849 TTTATTTTATTTTATTT-TCCT
1 TTGA-TTTATTTT-TTTAT--T
16987870 TTGATTTATTTTTTTATT
1 TTGATTTATTTTTTTATT
16987888 TT-ATTTTATTTTTTCTCATT
1 TTGA-TTTATTTTTT-T-ATT
16987908 TTGATTTATT
1 TTGATTTATT
16987918 ATTATTATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.02
18 13 0.22
19 8 0.14
20 31 0.53
21 5 0.09
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (18 bp):
TTGATTTATTTTTTTATT
Found at i:16987920 original size:33 final size:30
Alignment explanation
Indices: 16987845--16987932 Score: 79
Period size: 33 Copynumber: 2.7 Consensus size: 30
16987835 TTATTTTATA
*
16987845 TATTTTTATTTTATTTTATTTTCCTTTGATT
1 TATTTTTATTTTATTTTATTTT-CTTTCATT
16987876 TATTTTTTTATTTTATTTTATTTT-TTCTCATTT
1 TA--TTTTTATTTTATTTTATTTTCTT-TCA-TT
16987909 TGATTTATTATTATTATTATTATT
1 T-ATTT-TTATT-TTATT-TTATT
16987933 AGTTTTACGT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
31 4 0.08
32 5 0.10
33 28 0.58
34 6 0.12
35 5 0.10
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (30 bp):
TATTTTTATTTTATTTTATTTTCTTTCATT
Found at i:17003008 original size:2 final size:2
Alignment explanation
Indices: 17003001--17003057 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
17002991 TAACAACATG
17003001 TA TA TA TA TA TA 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 TA TA TA TA TA TA
17003043 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
17003058 GTTTGTTTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17004885 original size:90 final size:89
Alignment explanation
Indices: 17004728--17004904 Score: 282
Period size: 90 Copynumber: 2.0 Consensus size: 89
17004718 CCTAACACAC
* * *
17004728 CCTTTTATAGCTAAGTTGCCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATAAATTAAATATATA
* *
17004793 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATTAAAATTAAATAAT
* *
17004817 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATAAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATAAATTAAATATAT
17004882 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
17004905 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 32 0.40
90 48 0.60
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATAAATTAAATATATA
TTTAATTAATTAAAATTAAATAAT
Found at i:17009726 original size:90 final size:88
Alignment explanation
Indices: 17009567--17009740 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 88
17009557 CCTAACACAC
17009567 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
*
17009632 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATT-GAAATTAATAAT
* *
17009656 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTTT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
17009721 ATTTAATTAATTGAAATTAA
65 ATTTAATTAATTGAAATTAA
17009741 ATATTCAAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 41 0.51
90 40 0.49
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAATAAT
Found at i:17016096 original size:134 final size:133
Alignment explanation
Indices: 17015949--17016885 Score: 949
Period size: 134 Copynumber: 7.0 Consensus size: 133
17015939 TCAGATACTC
* *
17015949 CCTTCAGAAGAAGCAGAACATATCCATCTCTTTCAAGATTTAATATTCCCTGAGTGACAACGAAA
1 CCTTCAGAAGAAGCAGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAAA
* * *
17016014 CAAGTCTGCCTCGATTCAATCTTCCTTGAGTAACAACGGAATGGATCAACTCCCCCAGATCTGAT
66 CAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAACGGAATGGATCAACTCCCCCAGATATGAT
*
17016079 TTT
131 ATT
* * *
17016082 ACCTTCAGAAGAAGC-GAACATATCCATCTCTTTCATGATTTGATATTCACTGAGTGACAGCGGA
1 -CCTTCAGAAGAAGCAGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAA
* * * * * * *
17016146 ACAAGTTTGCCCCAATTCAATCTTCCCTGAGTGACAGCGGAATAGATCAACTCCCCCAAATTTGA
65 ACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAACGGAATGGATCAACTCCCCCAGATATGA
17016211 TATT
130 TATT
* * * * * * *
17016215 CCCTTCAAAAGAAGCAGAACATATCTATATCTTTTAGGATTTGATATTCCCTTAGTGACAGCGGA
1 -CCTTCAGAAGAAGCAGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAA
* * * * ** *
17016280 GCAAGTCTACC-CTGATTCAATCCTCCCTGAGTGACAGCATAATGGATCAACTCCCCTAGATATG
65 ACAAGTCTGCCTC-GATTCAATCTTCCCTGAGTGACAACGGAATGGATCAACTCCCCCAGATATG
*
17016344 ACATT
129 ATATT
* * * * * *
17016349 CCCTTTAGAAGAAGCGGAACAAAT-CACTCTCTTTCAAGATTCGATATTCCCTGAGTGATAAC-A
1 -CCTTCAGAAGAAGCAGAACATATCCA-TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGA
* **
17016412 GAACAAGTCTG-CTCTGATTCAATCTTCCTTGAGTGGA-AGTGGAATGGATCAACTCCCCCAGAT
64 -AACAAGTCTGCCTC-GATTCAATCTTCCCTGAGT-GACAACGGAATGGATCAACTCCCCCAGAT
*
17016475 ATGATATGA
126 ATGATAT-T
* * * * * * * * * * *
17016484 CCTTTAAAAGAAGCAAAACAAATCCCT-TTTTTCCAAGATTTGATATTCACTAAGTTACATCAAA
1 CCTTCAGAAGAAGCAGAACATATCCATCTCTTT-CAAGATTTGATATTCCCTGAGTGACAGCGAA
* * *
17016548 ACAAGTCTGTCTCGATTCAATTTTCCCTGAGTGACAACGGAATGGATCAACTCCCCCAGATTTGA
65 ACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAACGGAATGGATCAACTCCCCCAGATATGA
17016613 TATTT
130 TA-TT
* * * *
17016618 CCTTCAGAAGAAGC-GTAGCAGATCCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGG
1 CCTTCAGAAGAAGCAG-AACATAT-CCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGA
* * * * *
17016682 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAACGAAATGAATCAACTACCCCATATCTG
64 AACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAACGGAATGGATCAACTCCCCCAGATATG
17016747 ATATT
129 ATATT
* * * * * *
17016752 CACTTCAGAAGAAGCAAAACATATCCCTCTCTTTCAATATTTGATATTCCCTGAGTAACAGTGGA
1 C-CTTCAGAAGAAGCAGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAA
** * * * * * * *
17016817 ACAAGTCAACC-CTAATTCAATCTACTCTGAGTGACAGCAGAATGGATCAACAT-CACCAGATCT
65 ACAAGTCTGCCTC-GATTCAATCTTCCCTGAGTGACAACGGAATGGATCAAC-TCCCCCAGATAT
17016880 GATATT
128 GATATT
17016886 TCCTGAGTGA
Statistics
Matches: 672, Mismatches: 111, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
133 126 0.19
134 426 0.63
135 116 0.17
136 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (133 bp):
CCTTCAGAAGAAGCAGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAAA
CAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAACGGAATGGATCAACTCCCCCAGATATGAT
ATT
Found at i:17017063 original size:3 final size:3
Alignment explanation
Indices: 17017057--17017104 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
17017047 CATACTATCT
* * *
17017057 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17017105 ATATGTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:17021479 original size:9 final size:9
Alignment explanation
Indices: 17021465--17021493 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
17021455 TTGTACCTAT
17021465 TTTTAATTA
1 TTTTAATTA
17021474 TTTTAATTA
1 TTTTAATTA
17021483 TTTTAATTA
1 TTTTAATTA
17021492 TT
1 TT
17021494 GTTTATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAATTA
Found at i:17022379 original size:30 final size:30
Alignment explanation
Indices: 17022334--17022396 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
17022324 TGACTAATCA
*
17022334 TTTCAACTAACTTGA-TTCTTTTTGTCTTG
1 TTTCAACTAACTTGATTTCTTTTTGTCTGG
*
17022363 TTTCTACTAACATTGATTTCTTTTTGTCTGG
1 TTTCAACTAAC-TTGATTTCTTTTTGTCTGG
17022394 TTT
1 TTT
17022397 TGTTGCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.33
30 4 0.13
31 16 0.53
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (30 bp):
TTTCAACTAACTTGATTTCTTTTTGTCTGG
Found at i:17022877 original size:29 final size:28
Alignment explanation
Indices: 17022840--17022912 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
17022830 CCTTGTTGCA
17022840 TTTGCATC-TCGCATTTTGCAGTCTCATTT
1 TTTGCATCTTCGCA-TTTGCA-TCTCATTT
* * *
17022869 TTTGCATCTTTGCATTTGCATGTGATTT
1 TTTGCATCTTCGCATTTGCATCTCATTT
* *
17022897 TTTGCATTTTTGCATT
1 TTTGCATCTTCGCATT
17022913 AGTATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 21 0.54
29 14 0.36
30 4 0.10
ACGTcount: A:0.14, C:0.18, G:0.15, T:0.53
Consensus pattern (28 bp):
TTTGCATCTTCGCATTTGCATCTCATTT
Found at i:17024271 original size:24 final size:24
Alignment explanation
Indices: 17024228--17024370 Score: 72
Period size: 24 Copynumber: 6.2 Consensus size: 24
17024218 TGACACAGAG
* *
17024228 AGAAGG-AAGAAAAGATATAACAAA
1 AGAAGGAAAGAAAAAAGATAA-AAA
17024252 A-AAGGAAAGAAAAAAGATAAAAA
1 AGAAGGAAAGAAAAAAGATAAAAA
* **
17024275 AGAAAGAAAG-GGAAA-ATAGAAAA
1 AGAAGGAAAGAAAAAAGATA-AAAA
*
17024298 AGAA--AAA-AAAAAA-AAAAAAA
1 AGAAGGAAAGAAAAAAGATAAAAA
* * *
17024318 AAAAGAGAAA-AAAAGAGAAAAAAA
1 AGAAG-GAAAGAAAAAAGATAAAAA
** *
17024342 AGAGAAAAAAGAAAAAA-AGAAAAA
1 AGA-AGGAAAGAAAAAAGATAAAAA
17024366 AGAAG
1 AGAAG
17024371 AATGAAGAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
20 7 0.08
21 8 0.09
22 3 0.03
23 28 0.30
24 41 0.44
25 6 0.06
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (24 bp):
AGAAGGAAAGAAAAAAGATAAAAA
Found at i:17024273 original size:7 final size:7
Alignment explanation
Indices: 17024257--17024369 Score: 92
Period size: 7 Copynumber: 15.9 Consensus size: 7
17024247 ACAAAAAAGG
17024257 AAAGAAA
1 AAAGAAA
17024264 AAAGATAAA
1 AAAG--AAA
17024273 AAAGAAA
1 AAAGAAA
17024280 GAAAGGGAAA
1 -AAA--GAAA
*
17024290 ATAG-AA
1 AAAGAAA
17024296 AAAGAAA
1 AAAGAAA
17024303 AAA-AAA
1 AAAGAAA
17024309 AAA-AAA
1 AAAGAAA
17024315 AAA-AAA
1 AAAGAAA
*
17024321 AGAGAAAA
1 AAAG-AAA
*
17024329 AAAGAGA
1 AAAGAAA
17024336 AAA-AAA
1 AAAGAAA
*
17024342 AGAGAAA
1 AAAGAAA
17024349 AAAGAAAA
1 AAAG-AAA
17024357 AAAGAAA
1 AAAGAAA
17024364 AAAGAA
1 AAAGAA
17024370 GAATGAAGAA
Statistics
Matches: 88, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
6 26 0.30
7 33 0.38
8 16 0.18
9 9 0.10
10 4 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:17024275 original size:9 final size:8
Alignment explanation
Indices: 17024257--17024366 Score: 93
Period size: 8 Copynumber: 13.2 Consensus size: 8
17024247 ACAAAAAAGG
17024257 AAAG-AAA
1 AAAGAAAA
17024264 AAAGATAAA
1 AAAGA-AAA
17024273 AAAGAAAGA
1 AAAGAAA-A
* *
17024282 AAGGGAAA
1 AAAGAAAA
*
17024290 ATAGAAAA
1 AAAGAAAA
17024298 AGAA-AAAA
1 A-AAGAAAA
17024306 AAA-AAAA
1 AAAGAAAA
17024313 AAA-AAAA
1 AAAGAAAA
17024320 AAGAGAAAAA
1 AA-AG-AAAA
17024330 AAGAGAAAAA
1 AA-AG-AAAA
17024340 AAAGAGAAA
1 AAAGA-AAA
17024349 AAAGAAAA
1 AAAGAAAA
17024357 AAAGAAAA
1 AAAGAAAA
17024365 AA
1 AA
17024367 GAAGAATGAA
Statistics
Matches: 89, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
7 19 0.21
8 29 0.33
9 25 0.28
10 16 0.18
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:17024290 original size:17 final size:16
Alignment explanation
Indices: 17024257--17024369 Score: 96
Period size: 15 Copynumber: 7.4 Consensus size: 16
17024247 ACAAAAAAGG
*
17024257 AAAGAAAAAAGATAAA
1 AAAGAAAAAAGAGAAA
*
17024273 AAAGAAAGAAAGGGAAA
1 AAAGAAA-AAAGAGAAA
*
17024290 ATAG-AAAAAGA-AAA
1 AAAGAAAAAAGAGAAA
* *
17024304 AAA-AAAAAAAAAAAA
1 AAAGAAAAAAGAGAAA
*
17024319 AAAGAGAAAAA-A-AGA
1 AAAGA-AAAAAGAGAAA
*
17024334 GAA-AAAAAAGAGAAA
1 AAAGAAAAAAGAGAAA
17024349 AAAGAAAAAA-AGAAA
1 AAAGAAAAAAGAGAAA
17024364 AAAGAA
1 AAAGAA
17024370 GAATGAAGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
13 5 0.06
14 13 0.16
15 29 0.37
16 17 0.22
17 15 0.19
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAAGAGAAA
Found at i:17024298 original size:44 final size:42
Alignment explanation
Indices: 17024250--17024368 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 42
17024240 AGATATAACA
* *
17024250 AAAAAGGAAAGAAAAAAGATAAAAAAGAAAGAAAG-GGAAAATAG
1 AAAAA-GAAAGAAAAAAGA-AAAAAAGAAA-AAAGAGAAAAAAAG
17024294 AAAAAGAAA-AAAAAA-AAAAAAA-AAAAAAGAGAAAAAAAGAG
1 AAAAAGAAAGAAAAAAGAAAAAAAGAAAAAAGAG-AAAAAA-AG
*
17024335 AAAAAAAAGAGAAAAAAGAAAAAAAGAAAAAAGA
1 AAAAAGAA-AGAAAAAAGAAAAAAAGAAAAAAGA
17024369 AGAATGAAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
38 4 0.06
39 4 0.06
40 10 0.15
41 10 0.15
42 7 0.11
43 10 0.15
44 12 0.18
45 8 0.12
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (42 bp):
AAAAAGAAAGAAAAAAGAAAAAAAGAAAAAAGAGAAAAAAAG
Found at i:17024300 original size:39 final size:38
Alignment explanation
Indices: 17024249--17024381 Score: 130
Period size: 38 Copynumber: 3.5 Consensus size: 38
17024239 AAGATATAAC
* * * *
17024249 AAAAAAGGAAAGAAAAAAGATAAAAAAGAAAGAAAGGG
1 AAAAAAAGAAAGAAAAAAGAAAAAAAAGAAAAAAAGAG
*
17024287 AAAATAGAA-AAAGAAAAAA-AAAAAAAAAAAAAAAAGAG
1 AAAA-A-AAGAAAGAAAAAAGAAAAAAAAGAAAAAAAGAG
*
17024325 AAAAAAAGAGAA-AAAAAAGAGAAAAAAGAAAAAAAGA-
1 AAAAAAAGA-AAGAAAAAAGAAAAAAAAGAAAAAAAGAG
*
17024362 AAAAAGAAGAATGAAGAAAA
1 AAAAA-AAGAAAGAA-AAAA
17024382 TAGACATATC
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
36 2 0.03
37 14 0.18
38 47 0.59
39 15 0.19
40 1 0.01
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (38 bp):
AAAAAAAGAAAGAAAAAAGAAAAAAAAGAAAAAAAGAG
Found at i:17024304 original size:1 final size:1
Alignment explanation
Indices: 17024294--17024366 Score: 65
Period size: 1 Copynumber: 73.0 Consensus size: 1
17024284 GGGAAAATAG
* * * * * * * *
17024294 AAAAAGAAAAAAAAAAAAAAAAAAAAAAGAGAAAAAAAGAGAAAAAAAAGAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
17024359 AGAAAAAA
1 AAAAAAAA
17024367 GAAGAATGAA
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:17024348 original size:46 final size:49
Alignment explanation
Indices: 17024249--17024371 Score: 137
Period size: 48 Copynumber: 2.5 Consensus size: 49
17024239 AAGATATAAC
* * *
17024249 AAAAAAGGAAAGAAAAAAGATAAAAA-AGAAAGAAAGGGAAAATAGAAAAAG
1 AAAAAA-GAAA-AAAAAA-AAAAAAAGAGAAAAAAAGAGAAAATAGAAAAAG
*
17024300 AAAAAA-AAAAAAAAAAAAAAAAGAGAAAAAAAGAGAAAA-A-AAAGAG
1 AAAAAAGAAAAAAAAAAAAAAAAGAGAAAAAAAGAGAAAATAGAAAAAG
*
17024346 AAAAAAGAAAAAAAGAAAAAAGAAGA
1 AAAAAAGAAAAAAA-AAAAAAAAAGA
17024372 ATGAAGAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
46 11 0.17
47 14 0.22
48 30 0.47
49 3 0.05
51 6 0.09
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (49 bp):
AAAAAAGAAAAAAAAAAAAAAAAGAGAAAAAAAGAGAAAATAGAAAAAG
Found at i:17025398 original size:27 final size:27
Alignment explanation
Indices: 17025368--17025424 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
17025358 AGAATTCAAG
17025368 TGAGGAAACACTTCTTCTGAATCATGT
1 TGAGGAAACACTTCTTCTGAATCATGT
17025395 TGAGGAAACACTTCTTCTGAATCATGT
1 TGAGGAAACACTTCTTCTGAATCATGT
17025422 TGA
1 TGA
17025425 AGAAGCAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (27 bp):
TGAGGAAACACTTCTTCTGAATCATGT
Found at i:17034101 original size:15 final size:17
Alignment explanation
Indices: 17034075--17034109 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
17034065 AATGTTTAAA
17034075 TCAAACTTTTTC-ATTT
1 TCAAACTTTTTCAATTT
17034091 TCAAA-TTTTTCAATTT
1 TCAAACTTTTTCAATTT
17034107 TCA
1 TCA
17034110 TTTTTGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (17 bp):
TCAAACTTTTTCAATTT
Found at i:17036768 original size:22 final size:21
Alignment explanation
Indices: 17036706--17036768 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
17036696 GCCAGAGCAT
17036706 TTTATTT-TA-TTTTG-TTT-
1 TTTATTTATATTTTTGTTTTA
* * *
17036723 TTTATTTTTATTTTTGTATAA
1 TTTATTTATATTTTTGTTTTA
17036744 TTTACTTTATATTTTTGTTTTA
1 TTTA-TTTATATTTTTGTTTTA
17036766 TTT
1 TTT
17036769 TTCAGGTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 7 0.19
18 2 0.06
19 5 0.14
20 1 0.03
21 4 0.11
22 17 0.47
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATTTATATTTTTGTTTTA
Found at i:17046864 original size:40 final size:40
Alignment explanation
Indices: 17046836--17047031 Score: 293
Period size: 40 Copynumber: 4.9 Consensus size: 40
17046826 GGACCCAAAA
* *
17046836 TGCATTTGGTGGGCACGACCTTATGTGTAATGCACTCAGG
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTCAAG
17046876 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTCAAG
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTCAAG
* * * *
17046916 TGTATATGGTAGGCACAACCTTATGTGTAATGCACTCAGG
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTCAAG
*
17046956 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTCAGG
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTCAAG
* * * *
17046996 TGCATATGATGAGAACGACTTTATGTGTAATGCACT
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACT
17047032 ATGGTCTATA
Statistics
Matches: 143, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (40 bp):
TGCATATGGTGGGCACGACCTTATGTGTAATGCACTCAAG
Found at i:17051018 original size:49 final size:48
Alignment explanation
Indices: 17050937--17051284 Score: 199
Period size: 41 Copynumber: 7.4 Consensus size: 48
17050927 TTTGTAAATA
* *
17050937 TGACCTACCGTGAAGAGTAGTGAAGCAGATTCCTTTTCTTCTTTAGATT
1 TGACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTC-TCTTTAGATT
* *
17050986 TGACCTACCCTGAAGAGTATTGGAGCATATTCCTTTTCTCTTTAGATT
1 TGACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTCTTTAGATT
* * * *
17051034 TAACCTACCCTGAAGAGTAGTGGAGCA-AAT-C---TATC-TT-GATC
1 TGACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTCTTTAGATT
* * * * *
17051075 TGACCTACCTTGAAGAGCAAG-GGAGAAGATTCCATTTTTTTCATTTGGATT
1 TGACCTACCCTGAAGAG-TAGTGGAGCAGATTCC--TTTTCTC-TTTAGATT
* * * ** *
17051126 TAACATACTCTGAAGAGTAGTGGAGCA-A-AGC---TATC-TT-GATT
1 TGACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTCTTTAGATT
* * * * * * *
17051167 TGACCTACCTTGAAGAGAAGAGGAGAAGATCCCTTTT-TCTCT-GAATC
1 TGACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTCTTTAG-ATT
** * *** * *
17051214 TGACCTACTTTGAAGAGCAACAGAGCATATTCCCTTTTTTTCTTTAGATT
1 TGACCTACCCTGAAGAGTAGTGGAGCAGATT-CC-TTTTCTCTTTAGATT
17051264 TGACCTACCCTGAAGAGTAGT
1 TGACCTACCCTGAAGAGTAGT
17051285 ATAACAAATC
Statistics
Matches: 225, Mismatches: 51, Indels: 45
0.70 0.16 0.14
Matches are distributed among these distances:
41 47 0.21
42 9 0.04
43 5 0.02
44 3 0.01
45 2 0.01
46 4 0.02
47 27 0.12
48 40 0.18
49 39 0.17
50 27 0.12
51 22 0.10
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (48 bp):
TGACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTCTTTAGATT
Found at i:17051044 original size:48 final size:49
Alignment explanation
Indices: 17050939--17051060 Score: 192
Period size: 48 Copynumber: 2.5 Consensus size: 49
17050929 TGTAAATATG
* * *
17050939 ACCTACCGTGAAGAGTAGTGAAGCAGATTCCTTTTCTTCTTTAGATTTG
1 ACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTTCTTTAGATTTA
* *
17050988 ACCTACCCTGAAGAGTATTGGAGCATATTCCTTTTC-TCTTTAGATTTA
1 ACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTTCTTTAGATTTA
17051036 ACCTACCCTGAAGAGTAGTGGAGCA
1 ACCTACCCTGAAGAGTAGTGGAGCA
17051061 AATCTATCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
48 35 0.52
49 32 0.48
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (49 bp):
ACCTACCCTGAAGAGTAGTGGAGCAGATTCCTTTTCTTCTTTAGATTTA
Found at i:17051147 original size:92 final size:91
Alignment explanation
Indices: 17051030--17051204 Score: 280
Period size: 92 Copynumber: 1.9 Consensus size: 91
17051020 TTTCTCTTTA
* *
17051030 GATTTAACCTACCCTGAAGAGTAGTGGAGCAAATCTATCTTGATCTGACCTACCTTGAAGAGCAA
1 GATTTAACATACCCTGAAGAGTAGTGGAGCAAAGCTATCTTGATCTGACCTACCTTGAAGAG-AA
17051095 G-GGAGAAGATTCCATTTTTTTCATTTG
65 GAGGAGAAGA-TCCATTTTTTTCATTTG
* *
17051122 GATTTAACATACTCTGAAGAGTAGTGGAGCAAAGCTATCTTGATTTGACCTACCTTGAAGAGAAG
1 GATTTAACATACCCTGAAGAGTAGTGGAGCAAAGCTATCTTGATCTGACCTACCTTGAAGAGAAG
*
17051187 AGGAGAAGATCCCTTTTT
66 AGGAGAAGATCCATTTTT
17051205 CTCTGAATCT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
91 11 0.14
92 66 0.86
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (91 bp):
GATTTAACATACCCTGAAGAGTAGTGGAGCAAAGCTATCTTGATCTGACCTACCTTGAAGAGAAG
AGGAGAAGATCCATTTTTTTCATTTG
Found at i:17051268 original size:50 final size:48
Alignment explanation
Indices: 17051163--17051280 Score: 123
Period size: 47 Copynumber: 2.4 Consensus size: 48
17051153 AAGCTATCTT
*
17051163 GATTTGACCTACCTTGAAGAGAAGAGGAGAAGATCCCTTTTTCTCTGA
1 GATTTGACCTACCTTGAAGAGAACAGGAGAAGATCCCTTTTTCTCTGA
* * * * * *
17051211 -ATCTGACCTACTTTGAAGAGCAACA-GAGCATATTCCCTTTTTTTCTTTA
1 GATTTGACCTACCTTGAAGAG-AACAGGAGAAGA-TCCCTTTTTCTC-TGA
*
17051260 GATTTGACCTACCCTGAAGAG
1 GATTTGACCTACCTTGAAGAG
17051281 TAGTATAACA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
47 23 0.41
48 14 0.25
49 2 0.04
50 17 0.30
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (48 bp):
GATTTGACCTACCTTGAAGAGAACAGGAGAAGATCCCTTTTTCTCTGA
Found at i:17051364 original size:136 final size:138
Alignment explanation
Indices: 17051072--17051366 Score: 333
Period size: 136 Copynumber: 2.1 Consensus size: 138
17051062 ATCTATCTTG
** * *
17051072 ATCTGACCTACCTTGAAGAGCAAGGGAGAAGATTCCATTTTTTTCATTTGGATTTAACATACTCT
1 ATCTGACCTACCTTGAAGAGCAACAGAGAAGATTCCATTTTTTTCATTTAGATTTAACATACCCT
* * * * * **
17051137 GAAGAGTAGTGGAGCAAAGCTATCTTGATTTGACCTACCTTGAAGAGAAGAGGAGAAGATCCCTT
66 GAAGAGTAGTAGAACAAAGCTATCTTGATCTGA-CTACCCTAAAGAGAAGAGGAGAAGATCCCAG
*
17051202 TTTCTCTGA
130 TTTCTATGA
* * * * * *
17051211 ATCTGACCTACTTTGAAGAGCAACAGAGCATATTCCCTTTTTTTC-TTTAGATTTGACCTACCCT
1 ATCTGACCTACCTTGAAGAGCAACAGAGAAGATTCCATTTTTTTCATTTAGATTTAACATACCCT
* * ** * *
17051275 GAAGAGTAGTATAACAAATCTATCTTGATCTGA-TACCCTAAAGAGAAGCTGAGCAGATCTCAGT
66 GAAGAGTAGTAGAACAAAGCTATCTTGATCTGACTACCCTAAAGAGAAGAGGAGAAGATCCCAGT
17051339 TTCTATGA
131 TTCTATGA
* *
17051347 ATTTGACCTACCCTGAAGAG
1 ATCTGACCTACCTTGAAGAG
17051367 TAGCGAAACA
Statistics
Matches: 129, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
136 47 0.36
138 43 0.33
139 39 0.30
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (138 bp):
ATCTGACCTACCTTGAAGAGCAACAGAGAAGATTCCATTTTTTTCATTTAGATTTAACATACCCT
GAAGAGTAGTAGAACAAAGCTATCTTGATCTGACTACCCTAAAGAGAAGAGGAGAAGATCCCAGT
TTCTATGA
Found at i:17053982 original size:15 final size:17
Alignment explanation
Indices: 17053953--17053986 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
17053943 GATAACATTT
17053953 TTATCCATTTCCTTTTC
1 TTATCCATTTCCTTTTC
17053970 TTAT-CATTT-CTTTTC
1 TTATCCATTTCCTTTTC
17053985 TT
1 TT
17053987 CTTTCATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATCCATTTCCTTTTC
Found at i:17058095 original size:20 final size:21
Alignment explanation
Indices: 17058048--17058098 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
17058038 TCAATATCAC
* *
17058048 ATTAAGAAAATAAGATTATAA
1 ATTAATAAAACAAGATTATAA
* *
17058069 ATAAATAAAACAA-ATTATTA
1 ATTAATAAAACAAGATTATAA
17058089 ATTAATAAAA
1 ATTAATAAAA
17058099 ATATATGAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
ATTAATAAAACAAGATTATAA
Found at i:17058792 original size:14 final size:15
Alignment explanation
Indices: 17058767--17058796 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
17058757 AAAAAATAAG
17058767 AAAAATACATTTTAA
1 AAAAATACATTTTAA
17058782 AAAAATA-ATTTTAA
1 AAAAATACATTTTAA
17058796 A
1 A
17058797 TTATGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATACATTTTAA
Found at i:17062216 original size:32 final size:31
Alignment explanation
Indices: 17062180--17062256 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
17062170 TGGGGCCATG
* *
17062180 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGAGCCGCA
* *
17062212 GGGCCTATCTAAGAATAATCTCAGAGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGAGCCGCA
*
17062243 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
17062257 GTCACATTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 24 0.62
32 15 0.38
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGAGCCGCA
Found at i:17065984 original size:29 final size:32
Alignment explanation
Indices: 17065934--17066025 Score: 93
Period size: 32 Copynumber: 3.0 Consensus size: 32
17065924 ACCTAAGGGA
* *
17065934 ACATCTTAGGGCC-TGAGAGCCTACCCAAGAA-
1 ACATCTTAGGGCCACG-GGGCCTACCCAAGAAC
* * *
17065965 A-GT-TTGGGGCCACGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCACGGGGCCTACCCAAGAAC
*
17065995 ACATCTTAGGGCCACGGGGCCTACCCGAGAA
1 ACATCTTAGGGCCACGGGGCCTACCCAAGAA
17066026 TAATCTCAGG
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 20 0.42
30 3 0.06
31 2 0.04
32 23 0.48
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.15
Consensus pattern (32 bp):
ACATCTTAGGGCCACGGGGCCTACCCAAGAAC
Found at i:17068428 original size:24 final size:24
Alignment explanation
Indices: 17068401--17068478 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
17068391 AGGCAGTGAT
17068401 GACAATCATTATTGGAGACAGCAA
1 GACAATCATTATTGGAGACAGCAA
*
17068425 GACAATCATTATTGGAGATAGCAA
1 GACAATCATTATTGGAGACAGCAA
*
17068449 GACAATCATTATTGGAGACAACAA
1 GACAATCATTATTGGAGACAGCAA
*
17068473 AACAAT
1 GACAAT
17068479 GCGCCAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (24 bp):
GACAATCATTATTGGAGACAGCAA
Found at i:17069904 original size:82 final size:83
Alignment explanation
Indices: 17069785--17069994 Score: 242
Period size: 82 Copynumber: 2.5 Consensus size: 83
17069775 GTTGTTTGAT
* * * * * * * * *
17069785 AAACGCCGCTAAATTACTTCTATATAGCGTCGTTTGTTGGACAAATGCCACTATAAACAACCCTA
1 AAACGCCGCTAAATTACTACTCTATTGCGGCATTTGTTGAAAAAAGGCCACTATAAACAACCATA
* *
17069850 TTGCGGAATTT-ATATAA
66 TTCCGGAATTTGAGATAA
* *
17069867 AAACACCGCTAAATTACTACTCTATTGCGGCATTTGTTGAAAAAAGGCCACTATAAACAACTATA
1 AAACGCCGCTAAATTACTACTCTATTGCGGCATTTGTTGAAAAAAGGCCACTATAAACAACCATA
** * *
17069932 TTCCGGCGTTTGAGCTAC
66 TTCCGGAATTTGAGATAA
* *
17069950 AAACGCCGCTAAATTACCACTCTATTACGGCATTTGTTGAAAAAA
1 AAACGCCGCTAAATTACTACTCTATTGCGGCATTTGTTGAAAAAA
17069995 CACCGCTAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
82 62 0.58
83 45 0.42
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (83 bp):
AAACGCCGCTAAATTACTACTCTATTGCGGCATTTGTTGAAAAAAGGCCACTATAAACAACCATA
TTCCGGAATTTGAGATAA
Found at i:17069910 original size:41 final size:42
Alignment explanation
Indices: 17069865--17070004 Score: 124
Period size: 42 Copynumber: 3.4 Consensus size: 42
17069855 GAATTTATAT
*
17069865 AAAAACACCGCTAAATTACTACTCTATTGCGGCATTTGTTGA
1 AAAAACACCGCTAAATTACAACTCTATTGCGGCATTTGTTGA
** * * * * * *
17069907 AAAAAGGCCACTATAA--ACAACTATATTCCGGCGTTTG-AGCT
1 AAAAACACCGCTA-AATTACAACTCTATTGCGGCATTTGTTG-A
* * * *
17069948 ACAAACGCCGCTAAATTACCACTCTATTACGGCATTTGTTGA
1 AAAAACACCGCTAAATTACAACTCTATTGCGGCATTTGTTGA
17069990 AAAAACACCGCTAAA
1 AAAAACACCGCTAAA
17070005 GTAGAATTTT
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
40 3 0.04
41 27 0.37
42 40 0.55
43 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (42 bp):
AAAAACACCGCTAAATTACAACTCTATTGCGGCATTTGTTGA
Done.