Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 70 of 120
Found at i:21030909 original size:10 final size:11
Alignment explanation
Indices: 21030891--21030923 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
21030881 TCTCCTTCCT
21030891 TTCTTTCTTTC
1 TTCTTTCTTTC
21030902 TT-TTTCTTTC
1 TTCTTTCTTTC
*
21030912 TTCTTTTTTTC
1 TTCTTTCTTTC
21030923 T
1 T
21030924 ATTAATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTCTTTC
Found at i:21030920 original size:14 final size:14
Alignment explanation
Indices: 21030890--21030919 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
21030880 CTCTCCTTCC
21030890 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
21030904 TTTCTTTC-TTCTT
1 TTTCTTTCTTTCTT
21030917 TTT
1 TTT
21030920 TTCTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:21033102 original size:26 final size:27
Alignment explanation
Indices: 21033057--21033108 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
21033047 CACATGTATA
*
21033057 TATATTTTTTTTAAACGAATATTTTCC
1 TATATTTTTTTTAAACGAATACTTTCC
*
21033084 TATA-TTTTTTTAAATGAATACTTTC
1 TATATTTTTTTTAAACGAATACTTTC
21033109 ATATTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.56
Consensus pattern (27 bp):
TATATTTTTTTTAAACGAATACTTTCC
Found at i:21033973 original size:98 final size:98
Alignment explanation
Indices: 21033804--21033997 Score: 334
Period size: 98 Copynumber: 2.0 Consensus size: 98
21033794 NNNNNNNNNN
*
21033804 AAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
* *
21033869 TAAATCTTGAATGAGTGGATGTTCTTTTAAAAT
66 TAAATCTTGAACGAGTGGATGTTCCTTTAAAAT
* *
21033902 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
*
21033967 TAAATCTTGGACGAGTGGATGTTCCTTTAAA
66 TAAATCTTGAACGAGTGGATGTTCCTTTAAA
21033998 GTTTTATTGT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (98 bp):
AAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
TAAATCTTGAACGAGTGGATGTTCCTTTAAAAT
Found at i:21039767 original size:132 final size:132
Alignment explanation
Indices: 21039590--21040102 Score: 796
Period size: 132 Copynumber: 3.9 Consensus size: 132
21039580 ACAGTGAAGT
* * * *
21039590 AGATCGAAAATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATTCT
21039655 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
21039720 GC
131 GC
** * * *
21039722 AGATCGAAGATGGCAAATTTGACCTCCCTATGGTTACAGTAGAGTACATTGAAACCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATTCT
*
21039787 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
21039852 GC
131 GC
*
21039854 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATT-AAAGCCAGTAACTC
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAA-CCAGTAATTC
*
21039918 TACTTCCCTGGGCAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
65 TACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
21039983 AGC
130 AGC
* * *
21039986 AGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTATAGTGGAGTACATTGAAACCAATAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATTCT
* * ** * * *
21040051 ACTTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTAAG-CCTTATCTCCCT
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
21040103 GAAATTGCAG
Statistics
Matches: 348, Mismatches: 30, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
131 3 0.01
132 339 0.97
133 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATTCT
ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
GC
Found at i:21042456 original size:98 final size:98
Alignment explanation
Indices: 21042337--21042531 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
21042327 AGATTTTTTT
*
21042337 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
* *
21042402 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAA
66 TTAAATCTTGGACGAGTGGATGTTCCTTTAAAA
* * *
21042435 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
21042500 TTAAATCTTGGACGAGTGGATGTTCCTTTAAA
66 TTAAATCTTGGACGAGTGGATGTTCCTTTAAA
21042532 GTTTTATTGT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
TTAAATCTTGGACGAGTGGATGTTCCTTTAAAA
Found at i:21043134 original size:26 final size:26
Alignment explanation
Indices: 21043100--21043152 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
21043090 TGAAAAGTAG
21043100 TTTTAAAATT-TTATCTCTTAGAAATA
1 TTTTAAAATTATTATCTCTTA-AAATA
*
21043126 TTTTGAAATTAATTATCTCTTAAAATA
1 TTTTAAAATT-ATTATCTCTTAAAATA
21043153 AACATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 5 0.21
28 10 0.42
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (26 bp):
TTTTAAAATTATTATCTCTTAAAATA
Found at i:21043505 original size:3 final size:3
Alignment explanation
Indices: 21043497--21043544 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
21043487 TAGTTTACCC
*
21043497 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-C TAA -AA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21043542 TAA
1 TAA
21043545 ATTCTAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 5 0.12
3 35 0.88
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21055977 original size:19 final size:19
Alignment explanation
Indices: 21055949--21055987 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21055939 AATAAACACC
* *
21055949 AAAAATTTATTTTTAAAAT
1 AAAAAATTATTTTAAAAAT
21055968 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
21055987 A
1 A
21055988 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAAATTATTTTAAAAAT
Found at i:21059948 original size:23 final size:23
Alignment explanation
Indices: 21059922--21060001 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
21059912 AGGCATCATT
21059922 GAATACGCCACACAGGCCTTACA
1 GAATACGCCACACAGGCCTTACA
* * * *
21059945 GAATATGCCACTA-AGACTTTGCA
1 GAATACGCCAC-ACAGGCCTTACA
* *
21059968 G-ATCATGCCACACAGGCCTTATA
1 GAAT-ACGCCACACAGGCCTTACA
21059991 GAATACGCCAC
1 GAATACGCCAC
21060002 CAAGACTTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
22 3 0.07
23 38 0.86
24 3 0.07
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (23 bp):
GAATACGCCACACAGGCCTTACA
Found at i:21059980 original size:46 final size:46
Alignment explanation
Indices: 21059926--21060036 Score: 168
Period size: 46 Copynumber: 2.4 Consensus size: 46
21059916 ATCATTGAAT
* *
21059926 ACGCCACACAGGCCTTACAGAATATGCCACTAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
21059972 ATGCCACACAGGCCTTATAGAATACGCCACCAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
21060018 ACGCCACATAGGCATTACA
1 ACGCCACACAGGCCTTACA
21060037 AAGAGTTACG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (46 bp):
ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
Found at i:21060021 original size:23 final size:23
Alignment explanation
Indices: 21059951--21060024 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
21059941 TACAGAATAT
* *
21059951 GCCACTAAGACTTTGCAGATCAT
1 GCCACCAAGACTTTGCAGATCAC
* *
21059974 GCCACACAGGCCTTAT--AGAAT-AC
1 GCCAC-CAAGACTT-TGCAG-ATCAC
21059997 GCCACCAAGACTTTGCAGATCAC
1 GCCACCAAGACTTTGCAGATCAC
21060020 GCCAC
1 GCCAC
21060025 ATAGGCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
21 1 0.03
22 8 0.21
23 22 0.56
24 7 0.18
25 1 0.03
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (23 bp):
GCCACCAAGACTTTGCAGATCAC
Found at i:21064793 original size:16 final size:17
Alignment explanation
Indices: 21064774--21064805 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21064764 TTTTGGGTAC
21064774 AATTTTTTT-TAATTTT
1 AATTTTTTTATAATTTT
21064790 AATTTTTTTATAATTT
1 AATTTTTTTATAATTT
21064806 ATATACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
AATTTTTTTATAATTTT
Found at i:21064853 original size:9 final size:9
Alignment explanation
Indices: 21064794--21064860 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
21064784 AATTTTAATT
21064794 TTTTTATAA
1 TTTTTATAA
* *
21064803 TTTATATAC
1 TTTTTATAA
21064812 TTTTTA-AA
1 TTTTTATAA
*
21064820 GTTTTTAAGAA
1 -TTTTT-ATAA
* *
21064831 TTTTAAATAT
1 TTTT-TATAA
21064841 TTTTTATAA
1 TTTTTATAA
21064850 TTTTTATAA
1 TTTTTATAA
21064859 TT
1 TT
21064861 AGGACTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
8 1 0.02
9 31 0.69
10 11 0.24
11 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21072409 original size:43 final size:42
Alignment explanation
Indices: 21072337--21072564 Score: 282
Period size: 42 Copynumber: 5.4 Consensus size: 42
21072327 ACGTCTCTAA
*
21072337 CTTTTGCGGCGCTTACAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
* *
21072381 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCCTGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
* * *
21072424 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAAATCCTGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
21072466 CTTTAGCGGCGCTTAGAAAAAAACGCCGCT-AAGAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGA-TCATGTT
* **
21072508 CTATAGCGGCGCTTAGTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGA-TCA-TGTT
21072550 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
21072565 TTTCACAAAC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.02
42 108 0.65
43 41 0.25
44 12 0.07
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:21073006 original size:21 final size:21
Alignment explanation
Indices: 21072980--21073048 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
21072970 GCTTCTTTCG
* *
21072980 CTGCTTTTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
**
21073001 CTGCTTCTCTCGCTATAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* **
21073022 CTGCTTCCCTCGCTGCCTCCT
1 CTGCTTCTCTCGCTGCAGCCT
21073043 CTGCTT
1 CTGCTT
21073049 TAAGTTGTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.42, G:0.17, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:21074096 original size:40 final size:41
Alignment explanation
Indices: 21073979--21074102 Score: 223
Period size: 41 Copynumber: 3.0 Consensus size: 41
21073969 TCTTCAAGGT
* *
21073979 CCTGAACATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTATTCAGAAACGCCGCTAAAGA
21074020 CCTGAGCATTAGCGGCGCTTATTCAGAAACGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTATTCAGAAACGCCGCTAAAGA
21074061 CCTGAGCATTAGCGGCGCTT-TTCAGAAACGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTATTCAGAAACGCCGCTAAAGA
21074101 CC
1 CC
21074103 CCAAAAACTC
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
40 22 0.27
41 59 0.73
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (41 bp):
CCTGAGCATTAGCGGCGCTTATTCAGAAACGCCGCTAAAGA
Found at i:21074915 original size:27 final size:27
Alignment explanation
Indices: 21074857--21074913 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
21074847 TTCTAAAAGG
21074857 TAAATATAAAAATATTTTAAAACTTTT
1 TAAATATAAAAATATTTTAAAACTTTT
* *
21074884 TAAATAT-AATATATTTTTATAA-TTTT
1 TAAATATAAAAATA-TTTTAAAACTTTT
21074910 TAAA
1 TAAA
21074914 ATTAGAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TAAATATAAAAATATTTTAAAACTTTT
Found at i:21075248 original size:12 final size:12
Alignment explanation
Indices: 21075221--21075260 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
21075211 CCTTGCTTGC
21075221 AAATT-ATATC-
1 AAATTAATATCA
21075231 AAATTAATATCA
1 AAATTAATATCA
21075243 AAATTAATATCA
1 AAATTAATATCA
21075255 AAATTA
1 AAATTA
21075261 TTATTATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 5 0.18
11 5 0.18
12 18 0.64
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATTAATATCA
Found at i:21076367 original size:5 final size:5
Alignment explanation
Indices: 21076359--21076394 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
21076349 TGTTTTTGGG
21076359 GGGGT GGGG- GGGG- GGGGT GGGG- GGGGT GGGGT GGGG
1 GGGGT GGGGT GGGGT GGGGT GGGGT GGGGT GGGGT GGGG
21076395 GAGGGAGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 12 0.41
5 17 0.59
ACGTcount: A:0.00, C:0.00, G:0.89, T:0.11
Consensus pattern (5 bp):
GGGGT
Found at i:21076374 original size:13 final size:13
Alignment explanation
Indices: 21076356--21076395 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
21076346 TTTTGTTTTT
21076356 GGGGGGGTGGGGG
1 GGGGGGGTGGGGG
21076369 GGGGGGGTGGGGG
1 GGGGGGGTGGGGG
21076382 GGGTGGGGTGGGGG
1 GGG-GGGGTGGGGG
21076396 AGGGAGGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.00, C:0.00, G:0.90, T:0.10
Consensus pattern (13 bp):
GGGGGGGTGGGGG
Found at i:21076375 original size:14 final size:14
Alignment explanation
Indices: 21076356--21076395 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
21076346 TTTTGTTTTT
21076356 GGGGGGGT-GGGGG
1 GGGGGGGTGGGGGG
21076369 GGGGGGGTGGGGGG
1 GGGGGGGTGGGGGG
*
21076383 GGTGGGGTGGGGG
1 GGGGGGGTGGGGG
21076396 AGGGAGGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.00, C:0.00, G:0.90, T:0.10
Consensus pattern (14 bp):
GGGGGGGTGGGGGG
Found at i:21081200 original size:13 final size:13
Alignment explanation
Indices: 21081167--21081200 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21081157 TTTAAAAAAT
*
21081167 AAAAAAATTTGTG
1 AAAAAAAATTGTG
*
21081180 AGAAAAAATTGTG
1 AAAAAAAATTGTG
21081193 AAAAAAAA
1 AAAAAAAA
21081201 ACAAAAGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (13 bp):
AAAAAAAATTGTG
Found at i:21082101 original size:12 final size:12
Alignment explanation
Indices: 21082086--21082129 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
21082076 AATTGAGATT
21082086 GAGAAAGAAAAA
1 GAGAAAGAAAAA
*
21082098 GAGAAAGAAAAT
1 GAGAAAGAAAAA
*
21082110 GAGAGAACAAAAA
1 GAGA-AAGAAAAA
21082123 GA-AAAGA
1 GAGAAAGA
21082130 GGTTCGAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 3 0.11
12 16 0.59
13 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.02
Consensus pattern (12 bp):
GAGAAAGAAAAA
Found at i:21087191 original size:5 final size:5
Alignment explanation
Indices: 21087183--21087211 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
21087173 CATTCATTAC
21087183 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
21087212 GCATATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:21089464 original size:54 final size:52
Alignment explanation
Indices: 21089403--21089587 Score: 246
Period size: 54 Copynumber: 3.5 Consensus size: 52
21089393 CCATGACAAG
* *
21089403 TGAAGACCATATAGTGTAAGGCATAGACGTTTGATATGGCATCATATGGGGAA
1 TGAAGACCATATAGTGTAAGGCCTAG-CGTTTGCTATGGCATCATATGGGGAA
* *
21089456 CTGAAGACCATATAGTGTAAGGCCCAGCTATTTGCTATGGCATCATATGGGGAAA
1 -TGAAGACCATATAGTGTAAGGCCTAGC-GTTTGCTATGGCATCATATGGGG-AA
*
21089511 TGAAGACCATATAGTGTAAGGCCTACCCGTTTGCTATGGCATCATAT-GGGAA
1 TGAAGACCATATAGTGTAAGGCCTA-GCGTTTGCTATGGCATCATATGGGGAA
* * *
21089563 AGAAGACCACATAGTGTAAGACCTA
1 TGAAGACCATATAGTGTAAGGCCTA
21089588 TTTTGGGACT
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
52 24 0.20
53 4 0.03
54 87 0.74
55 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
TGAAGACCATATAGTGTAAGGCCTAGCGTTTGCTATGGCATCATATGGGGAA
Found at i:21089600 original size:52 final size:51
Alignment explanation
Indices: 21089404--21089611 Score: 231
Period size: 54 Copynumber: 3.9 Consensus size: 51
21089394 CATGACAAGT
* * * *
21089404 GAAGACCATATAGTGTAAGGCATAGACGTTTGATATGGCATCATATGGGGAACT
1 GAAGACCATATAGTGTAAGGCCT--ACTTTTGCTATGGCATCATATGGGGAA-A
*
21089458 GAAGACCATATAGTGTAAGGCCCAGCTATTTGCTATGGCATCATATGGGGAAA
1 GAAGACCATATAGTGTAAGGCCTA-CT-TTTGCTATGGCATCATATGGGGAAA
*
21089511 TGAAGACCATATAGTGTAAGGCCTACCCGTTTGCTATGGCATCATAT-GGGAAA
1 -GAAGACCATATAGTGTAAGGCCTA--CTTTTGCTATGGCATCATATGGGGAAA
* *
21089564 GAAGACCACATAGTGTAAGACCTA-TTTTGGGACTATGGCATCATATGG
1 GAAGACCATATAGTGTAAGGCCTACTTTT--G-CTATGGCATCATATGG
21089612 AGAGAAGATG
Statistics
Matches: 135, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
49 3 0.02
51 1 0.01
52 37 0.27
53 8 0.06
54 85 0.63
55 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (51 bp):
GAAGACCATATAGTGTAAGGCCTACTTTTGCTATGGCATCATATGGGGAAA
Found at i:21089818 original size:31 final size:29
Alignment explanation
Indices: 21089724--21089822 Score: 153
Period size: 29 Copynumber: 3.3 Consensus size: 29
21089714 AAAAGTGATA
21089724 CCTTTGTGGCTGAATCTGTTATATGTGAG
1 CCTTTGTGGCTGAATCTGTTATATGTGAG
* * *
21089753 CCTTTGTGGCTAAATCTATTTTATGTGAG
1 CCTTTGTGGCTGAATCTGTTATATGTGAG
21089782 CCTTTGTGGCTGAATCTGTTATATGTGGAAG
1 CCTTTGTGGCTGAATCTGTTATATGT-G-AG
21089813 CCTTTGTGGC
1 CCTTTGTGGC
21089823 CGTTCTTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
29 49 0.79
30 1 0.02
31 12 0.19
ACGTcount: A:0.17, C:0.15, G:0.26, T:0.41
Consensus pattern (29 bp):
CCTTTGTGGCTGAATCTGTTATATGTGAG
Found at i:21089847 original size:30 final size:29
Alignment explanation
Indices: 21089724--21089847 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 29
21089714 AAAAGTGATA
* *
21089724 CCTTTGTGGCTGAATCTGTTATATGTGAG
1 CCTTTGTGGCCGAATCTGTTACATGTGAG
** * **
21089753 CCTTTGTGGCTAAATCTATTTTATGTGAG
1 CCTTTGTGGCCGAATCTGTTACATGTGAG
* *
21089782 CCTTTGTGGCTGAATCTGTTATATGTGGAAG
1 CCTTTGTGGCCGAATCTGTTACATGT-G-AG
*
21089813 CCTTTGTGGCCG-TTCTTTGTTACATGTGAG
1 CCTTTGTGGCCGAATC--TGTTACATGTGAG
21089843 CCTTT
1 CCTTT
21089848 ATGGTGATAT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
29 49 0.60
30 10 0.12
31 14 0.17
32 9 0.11
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (29 bp):
CCTTTGTGGCCGAATCTGTTACATGTGAG
Found at i:21097397 original size:25 final size:25
Alignment explanation
Indices: 21097342--21097424 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
21097332 GAGTTATAAA
* *
21097342 CGGTAAGCTCATACGAGCTAAATAA
1 CGGTAAGCTCATATGAGCTAAATAT
* *
21097367 CAGTAAGCTCATGTGAGCTAAATAT
1 CGGTAAGCTCATATGAGCTAAATAT
* * *
21097392 TGGTAAGCTC-TCTCGAGCTGAATAT
1 CGGTAAGCTCATAT-GAGCTAAATAT
21097417 CGGTAAGC
1 CGGTAAGC
21097425 CCTCTCAAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
24 2 0.04
25 46 0.96
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (25 bp):
CGGTAAGCTCATATGAGCTAAATAT
Found at i:21097429 original size:25 final size:25
Alignment explanation
Indices: 21097381--21097451 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
21097371 AAGCTCATGT
* * *
21097381 GAGCTAAATATTGGTAAGCTCTCTC
1 GAGCTGAATATCGGTAAGCCCTCTC
21097406 GAGCTGAATATCGGTAAGCCCTCTC
1 GAGCTGAATATCGGTAAGCCCTCTC
*
21097431 AAGCTGAGA-ATCGGTAA-CCCT
1 GAGCTGA-ATATCGGTAAGCCCT
21097452 AATGACATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
24 4 0.10
25 36 0.88
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (25 bp):
GAGCTGAATATCGGTAAGCCCTCTC
Found at i:21105483 original size:5 final size:5
Alignment explanation
Indices: 21105459--21105493 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
21105449 ACTTAAACTA
21105459 AAAATG AAAAG AAGAAG AAAAG AAAAG AAAAG AAA
1 AAAA-G AAAAG AA-AAG AAAAG AAAAG AAAAG AAA
21105494 CCCTAACCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 19 0.68
6 9 0.32
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:21107336 original size:29 final size:29
Alignment explanation
Indices: 21107304--21107404 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
21107294 AATTTTCGTA
*
21107304 AAAAGGACGCCTTTGTGGCTATCTCTGTT
1 AAAAGGAAGCCTTTGTGGCTATCTCTGTT
* * * *
21107333 AAAAGGAAACCTTTGTGG-TGGTTTCTATT
1 AAAAGGAAGCCTTTGTGGCT-ATCTCTGTT
* * *
21107362 AAAAGTAAGCCTTTGTGGCGATGTCTGTT
1 AAAAGGAAGCCTTTGTGGCTATCTCTGTT
*
21107391 AAAAGAAAGCCTTT
1 AAAAGGAAGCCTTT
21107405 ATAGCGAACC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
28 1 0.02
29 57 0.98
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAAGGAAGCCTTTGTGGCTATCTCTGTT
Found at i:21114101 original size:22 final size:22
Alignment explanation
Indices: 21114066--21114118 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
21114056 GAACGGTAAT
*
21114066 GATACCATCTATGAGAAATATC
1 GATACCATCCATGAGAAATATC
*
21114088 GATACTATCCATGAGAAATATC
1 GATACCATCCATGAGAAATATC
*
21114110 GATATCATC
1 GATACCATC
21114119 GAATGAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (22 bp):
GATACCATCCATGAGAAATATC
Found at i:21118068 original size:19 final size:19
Alignment explanation
Indices: 21118044--21118080 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21118034 TATTTTTTAT
21118044 TTTTTTAATTTTAAAATAC
1 TTTTTTAATTTTAAAATAC
*
21118063 TTTTTTATTTTTAAAATA
1 TTTTTTAATTTTAAAATA
21118081 AATTTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTTAATTTTAAAATAC
Found at i:21118086 original size:19 final size:19
Alignment explanation
Indices: 21118045--21118087 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
21118035 ATTTTTTATT
**
21118045 TTTTTAATTTTAAAATACT
1 TTTTTAATTTTAAAATAAA
*
21118064 TTTTTATTTTTAAAATAAA
1 TTTTTAATTTTAAAATAAA
21118083 TTTTT
1 TTTTT
21118088 GGTGTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTAATTTTAAAATAAA
Found at i:21119519 original size:14 final size:13
Alignment explanation
Indices: 21119480--21119521 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
21119470 TTATATATAT
*
21119480 ATATATTAAAAT-
1 ATATATAAAAATA
21119492 -TATATAAAAATA
1 ATATATAAAAATA
21119504 ATATATAAAAATTA
1 ATATATAAAAA-TA
21119518 ATAT
1 ATAT
21119522 GGACAGGCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.38
13 10 0.38
14 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATATAAAAATA
Found at i:21121300 original size:18 final size:18
Alignment explanation
Indices: 21121285--21121320 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21121275 GGTTTGAATT
21121285 ATTGGAACTTCATGAAGA
1 ATTGGAACTTCATGAAGA
21121303 ATTGGAACTTCATGAAGA
1 ATTGGAACTTCATGAAGA
21121321 CTTATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
ATTGGAACTTCATGAAGA
Found at i:21121304 original size:21 final size:21
Alignment explanation
Indices: 21121280--21121326 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 21
21121270 TTTTAGGTTT
21121280 GAATTATTGGAACTTCATGAA
1 GAATTATTGGAACTTCATGAA
21121301 G-A--ATTGGAACTTCATGAA
1 GAATTATTGGAACTTCATGAA
*
21121319 GACTTATT
1 GAATTATT
21121327 CTTTCAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 17 0.77
20 1 0.05
21 4 0.18
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (21 bp):
GAATTATTGGAACTTCATGAA
Found at i:21132871 original size:20 final size:20
Alignment explanation
Indices: 21132846--21132883 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21132836 ACGAGCTCAA
21132846 TGAGCTGAA-TTGAGCTCGTG
1 TGAGCT-AACTTGAGCTCGTG
21132866 TGAGCTAACTTGAGCTCG
1 TGAGCTAACTTGAGCTCG
21132884 AATGAACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (20 bp):
TGAGCTAACTTGAGCTCGTG
Found at i:21134797 original size:7 final size:6
Alignment explanation
Indices: 21134709--21134848 Score: 93
Period size: 6 Copynumber: 23.0 Consensus size: 6
21134699 TCAATCTCAA
* * * ** **
21134709 TTTCTT TTTCAAT TTTCTTT TCTTCGT TTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
*** * * *
21134760 TTTCTT TTTC-T TTTGAA TTTCTT TTTCTT TTTCGT TTTCTA TTTCTA
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
** * *
21134807 TTTCTT TTTCAC TTTCTA TTTCTT TTTATT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
21134849 CATTTTTGTT
Statistics
Matches: 100, Mismatches: 31, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
5 4 0.04
6 84 0.84
7 9 0.09
8 3 0.03
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:21138233 original size:26 final size:26
Alignment explanation
Indices: 21138153--21138235 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
21138143 GATGAACACG
*
21138153 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* *
21138179 CGTGTA-T-CGATAAAT-AATGG-TCAC-A
1 TGTGTAGTAC--TAAGTGAA-GGCT-ACTA
21138204 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
21138230 TGTGTA
1 TGTGTA
21138236 CTGAGAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:21138325 original size:102 final size:102
Alignment explanation
Indices: 21138149--21138490 Score: 412
Period size: 102 Copynumber: 3.4 Consensus size: 102
21138139 TATCGATGAA
*
21138149 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
* *
21138213 CTAAGTGAAGGCTACTATGTGTACTGAGAAGTTTTGAG-
65 CTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTG-GT
* * * * *
21138251 CACGTGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
21138316 TAAGTGAAGGCTACTATG-GATACTGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTG-TACTGAAAAGCTTTGGT
* * * * *
21138353 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTA
* * * *
21138416 CTATGTGAAGGCTACTACGTGAACTGTAAAA-C--TGAT
65 CTAAGTGAAGGCTACTATGTGTACTG-AAAAGCTTTGGT
* *
21138452 CTCGTGTGTTGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
21138491 AATGATAAAA
Statistics
Matches: 206, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
99 34 0.17
100 2 0.01
101 41 0.20
102 128 0.62
103 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGGT
Found at i:21138471 original size:49 final size:50
Alignment explanation
Indices: 21138149--21138485 Score: 292
Period size: 51 Copynumber: 6.7 Consensus size: 50
21138139 TATCGATGAA
* * *
21138149 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACT-G-TAAA-ACTTGAT
* * * * ** *
21138200 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACTG-AGAAGTTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTA-AA-ACTTGAT
* * * * * *
21138251 CACGTGTGTAGTACTGTGTGAAAGTTACTACGTGTATCGGT-AAACTATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTGTAAAACT-TGAT
* * * * * *
21138302 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACTG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGA-ACTGTAAAA-C-TTGAT
* * *
21138353 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
21138403 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
* *
21138452 CTCGTGTGTTGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
21138486 TATCGAATGA
Statistics
Matches: 229, Mismatches: 45, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
49 38 0.17
50 55 0.24
51 126 0.55
52 10 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
Found at i:21145824 original size:51 final size:51
Alignment explanation
Indices: 21145763--21146101 Score: 309
Period size: 51 Copynumber: 6.7 Consensus size: 51
21145753 CGATGAACAA
* *
21145763 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCAC
* * * * * * *
21145814 ATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GTCAC
* * * *
21145865 GTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGTTAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGTCAC
* * * * * * **
21145916 ATGTGTGGTACTAAGTGAAGGCTGCTATG-GATACCGA-AAAGCTTGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTG-TATCGATAAATATTGGTCAC
* * * *
21145966 GTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCATAAA-ACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGTCAC
* * * *
21146016 GTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGATCTC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGTCAC
21146065 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
21146102 ATGATAAAAA
Statistics
Matches: 229, Mismatches: 48, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
49 41 0.18
50 83 0.36
51 103 0.45
52 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCAC
Found at i:21145944 original size:102 final size:101
Alignment explanation
Indices: 21145763--21146101 Score: 379
Period size: 102 Copynumber: 3.4 Consensus size: 101
21145753 CGATGAACAA
21145763 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
* *
21145828 GTGAAGGCTACTATGTG-TACCGAGAAGTTTTGAG-CAC
66 GTGAAGGCTACTATG-GATACCGAAAAG-CTTG-GTCAC
* * * *
21145865 GTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACT-ATGGTTACATGTGTGGTACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTA
*
21145929 AGTGAAGGCTGCTATGGATACCGAAAAGCTTGGTCAC
65 AGTGAAGGCTACTATGGATACCGAAAAGCTTGGTCAC
* * * * * * *
21145966 GTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCATAAA-ACTTGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGTCACATGTGTAGTACTA
* * * * *
21146029 TGTGAAGGCTACTACGTGA-ACTGTAAAA-C-TGATCTC
65 AGTGAAGGCTACTATG-GATACCG-AAAAGCTTGGTCAC
*
21146065 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGA
21146102 ATGATAAAAA
Statistics
Matches: 202, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
99 35 0.17
100 43 0.21
101 41 0.20
102 82 0.41
103 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
GTGAAGGCTACTATGGATACCGAAAAGCTTGGTCAC
Found at i:21148505 original size:28 final size:27
Alignment explanation
Indices: 21148469--21148521 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
21148459 CGGCATTGAC
21148469 TAAGACATAATAAAAACTTGTAATAGT
1 TAAGACATAATAAAAACTTGTAATAGT
* * *
21148496 TAAGAACATATTAATAAGTTGTAATA
1 TAAG-ACATAATAAAAACTTGTAATA
21148522 ATACTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (27 bp):
TAAGACATAATAAAAACTTGTAATAGT
Found at i:21148647 original size:20 final size:20
Alignment explanation
Indices: 21148613--21148651 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21148603 ATAAGCTAAA
**
21148613 TTGAGCTCGTGTGAGCTGAC
1 TTGAGCTCGAATGAGCTGAC
21148633 TTGAGCTCGAATGAGCTGA
1 TTGAGCTCGAATGAGCTGA
21148652 ACCACATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTGAC
Found at i:21152431 original size:50 final size:50
Alignment explanation
Indices: 21152306--21152496 Score: 150
Period size: 50 Copynumber: 3.8 Consensus size: 50
21152296 GATAATAACA
* * * * ** * * * *
21152306 TGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * ** *
21152355 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * * ** *
21152405 TTCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* *
21152455 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21152497 TTACCCAAAT
Statistics
Matches: 109, Mismatches: 32, Indels: 1
0.77 0.23 0.01
Matches are distributed among these distances:
49 36 0.33
50 73 0.67
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:21154866 original size:50 final size:50
Alignment explanation
Indices: 21154799--21154996 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 50
21154789 TTTCTTGTAC
* * **
21154799 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *** * *
21154849 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
21154899 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
* *
21154955 TGCCAATGCCATGTCCCAGACATGTTCTTCCATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21154997 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 80 0.66
53 1 0.01
56 40 0.33
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:21173097 original size:25 final size:24
Alignment explanation
Indices: 21173043--21173110 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
21173033 GGCTATATAA
21173043 CGGGAAGCTCATAAGAGCCTAAAT
1 CGGGAAGCTCATAAGAGCCTAAAT
* * *
21173067 CAGGAAGTTCATAAGGAGCCTTTAAT
1 CGGGAAGCTCATAA-GAGCC-TAAAT
**
21173093 -GGGAAGCTCCGAAGAGCC
1 CGGGAAGCTCATAAGAGCC
21173111 ATTAATCAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
24 17 0.49
25 14 0.40
26 4 0.11
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCATAAGAGCCTAAAT
Found at i:21173148 original size:25 final size:25
Alignment explanation
Indices: 21173105--21173212 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
21173095 GAAGCTCCGA
*
21173105 AGAGCCAT-TAATC-AGAAGTTCCAG
1 AGAGCCATAT-ATCGAGAAGTTCAAG
*
21173129 ATAGCCATATATCGAGAAGTTCAAG
1 AGAGCCATATATCGAGAAGTTCAAG
* * *
21173154 CGAGCCATATATTGGGAAGTTCAAG
1 AGAGCCATATATCGAGAAGTTCAAG
* * *
21173179 CGAGCCA-A-ATCGAGAAGCTCTAG
1 AGAGCCATATATCGAGAAGTTCAAG
*
21173202 ATAGCCATATA
1 AGAGCCATATA
21173213 ACAGGACGCT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
23 16 0.24
24 12 0.18
25 40 0.59
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (25 bp):
AGAGCCATATATCGAGAAGTTCAAG
Found at i:21175834 original size:11 final size:11
Alignment explanation
Indices: 21175818--21175851 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21175808 AGGCATAAAG
21175818 ATGTTCACACC
1 ATGTTCACACC
*
21175829 ATGTTCA-GCC
1 ATGTTCACACC
21175839 ATGTTCACACC
1 ATGTTCACACC
21175850 AT
1 AT
21175852 ATGGCTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (11 bp):
ATGTTCACACC
Found at i:21178613 original size:25 final size:24
Alignment explanation
Indices: 21178556--21178631 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
21178546 CCTGGCTATA
21178556 TAACGGGAAGCT-CATAAGAGCC-T
1 TAACGGGAAGCTCCA-AAGAGCCAT
* * * *
21178579 AAATCAGGAAGTTCACAAAGAGCCTT
1 TAA-CGGGAAGCTC-CAAAGAGCCAT
*
21178605 TAACGGGAAGCTCCGAAGAGCCAT
1 TAACGGGAAGCTCCAAAGAGCCAT
21178629 TAA
1 TAA
21178632 TCAGAAGTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
23 2 0.05
24 19 0.46
25 15 0.37
26 5 0.12
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (24 bp):
TAACGGGAAGCTCCAAAGAGCCAT
Found at i:21178661 original size:49 final size:50
Alignment explanation
Indices: 21178553--21178663 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 50
21178543 TATCCTGGCT
*
21178553 ATATAACGGGAAGCTCATAAGAGCCTAAATCAGGAAGTTCACAAAGAGCC
1 ATATAACGGGAAGCTCAGAAGAGCCTAAATCAGGAAGTTCACAAAGAGCC
* * * * *
21178603 -TTTAACGGGAAGCTCCGAAGAGCCATTAATCA-GAAGTTC-CAGATAGCC
1 ATATAACGGGAAGCTCAGAAGAGCC-TAAATCAGGAAGTTCACAAAGAGCC
*
21178651 ATATATCGGGAAG
1 ATATAACGGGAAG
21178664 TTCAAACGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 7 0.14
49 38 0.75
50 6 0.12
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (50 bp):
ATATAACGGGAAGCTCAGAAGAGCCTAAATCAGGAAGTTCACAAAGAGCC
Found at i:21178665 original size:25 final size:26
Alignment explanation
Indices: 21178585--21178704 Score: 85
Period size: 25 Copynumber: 4.8 Consensus size: 26
21178575 GCCTAAATCA
* *
21178585 GGAAGTTCACAAA-GAGCC-TTTAACG
1 GGAAGTTC-CAAACGAGCCATATATCG
* *
21178610 GGAAGCTCCGAA-GAGCCAT-TAATC-
1 GGAAGTTCCAAACGAGCCATAT-ATCG
* * *
21178634 AGAAGTTCCAGA-TAGCCATATATCG
1 GGAAGTTCCAAACGAGCCATATATCG
*
21178659 GGAAGTT-CAAACGAGCCATATATTG
1 GGAAGTTCCAAACGAGCCATATATCG
*
21178684 GGAAGTT-CAAGCGAGCCATAT
1 GGAAGTTCCAAACGAGCCATAT
21178705 CAAGAAGCTC
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
24 29 0.38
25 48 0.62
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
GGAAGTTCCAAACGAGCCATATATCG
Found at i:21190226 original size:22 final size:22
Alignment explanation
Indices: 21190198--21190240 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21190188 CATCTTTTCC
**
21190198 TTTTATTTTTCAAGATATTTAA
1 TTTTATTTCCCAAGATATTTAA
21190220 TTTTATTTCCCAAGATATTTA
1 TTTTATTTCCCAAGATATTTA
21190241 GACAAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTATTTCCCAAGATATTTAA
Found at i:21191912 original size:34 final size:34
Alignment explanation
Indices: 21191851--21191918 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
21191841 TCACAGTTGA
*
21191851 ACAGTCTTGGGCCTAAGCCATTTTCAATATCAGTG
1 ACAGTCTTGGGCCTAAGCCATTCTCAATA-CAGTG
*
21191886 ACAGT-TTGGGCCTTAGCCCA-TCTCAATACAGTG
1 ACAGTCTTGGGCCTAAG-CCATTCTCAATACAGTG
21191919 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 17 0.57
35 8 0.27
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCATTCTCAATACAGTG
Found at i:21195323 original size:21 final size:20
Alignment explanation
Indices: 21195297--21195360 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
21195287 CATAATTCTA
21195297 TACTTAGCTAAGACAACACTT
1 TACTTAGCT-AGACAACACTT
*
21195318 TACTTA-CT---CATAC-CTA
1 TACTTAGCTAGACA-ACACTT
21195334 TACTTAGCTATGACAACACTT
1 TACTTAGCTA-GACAACACTT
21195355 TACTTA
1 TACTTA
21195361 CTCATATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
16 10 0.29
17 4 0.12
20 4 0.12
21 16 0.47
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (20 bp):
TACTTAGCTAGACAACACTT
Found at i:21195349 original size:37 final size:37
Alignment explanation
Indices: 21195294--21195375 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
21195284 ACACATAATT
21195294 CTATACTTAGCTAAGACAACACTTTACTTACTCATAC
1 CTATACTTAGCTAAGACAACACTTTACTTACTCATAC
* *
21195331 CTATACTTAGCTATGACAACACTTTACTTACTCATAT
1 CTATACTTAGCTAAGACAACACTTTACTTACTCATAC
21195368 CTATACTT
1 CTATACTT
21195376 TGCCAAATGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (37 bp):
CTATACTTAGCTAAGACAACACTTTACTTACTCATAC
Found at i:21202907 original size:31 final size:31
Alignment explanation
Indices: 21202869--21202940 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 31
21202859 AGGCCTTTTG
21202869 GCGGCGCTAAAAAGCGCAGCAAAAAGAATTT
1 GCGGCGCTAAAAAGCGCAGCAAAAAGAATTT
** * *
21202900 GCGGCGCTTTTGAAAGCGCTGCAAAAAGTATTT
1 GCGGCGC--TAAAAAGCGCAGCAAAAAGAATTT
21202933 GCGGCGCT
1 GCGGCGCT
21202941 TTTGAAAGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 8 0.23
33 27 0.77
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (31 bp):
GCGGCGCTAAAAAGCGCAGCAAAAAGAATTT
Found at i:21202924 original size:33 final size:33
Alignment explanation
Indices: 21202879--21202959 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
21202869 GCGGCGCTAA
*
21202879 AAAGCGCAGCAAAAAGAATTTGCGGCGCTTTTG
1 AAAGCGCTGCAAAAAGAATTTGCGGCGCTTTTG
*
21202912 AAAGCGCTGCAAAAAGTATTTGCGGCGCTTTTG
1 AAAGCGCTGCAAAAAGAATTTGCGGCGCTTTTG
21202945 AAAGCGCTGCAAAAA
1 AAAGCGCTGCAAAAA
21202960 ATGCCGCTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (33 bp):
AAAGCGCTGCAAAAAGAATTTGCGGCGCTTTTG
Found at i:21203070 original size:43 final size:43
Alignment explanation
Indices: 21203007--21203143 Score: 229
Period size: 43 Copynumber: 3.2 Consensus size: 43
21202997 TTATAGAAAT
* *
21203007 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
*
21203050 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
*
21203093 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
*
21203136 AAAAGCCG
1 AAACGCCG
21203144 TTATTGTTTG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
Found at i:21203701 original size:25 final size:26
Alignment explanation
Indices: 21203650--21203711 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
21203640 TTTTACAATG
* *
21203650 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
21203676 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
21203701 ATTAAGTTATG
1 ATTAAGTTATG
21203712 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:21203715 original size:17 final size:17
Alignment explanation
Indices: 21203650--21203721 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
21203640 TTTTACAATG
* *
21203650 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
21203667 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
21203684 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
21203701 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
21203718 ATTA
1 ATTA
21203722 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:21203836 original size:17 final size:17
Alignment explanation
Indices: 21203814--21203873 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
21203804 ATATATTTTA
21203814 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
** *
21203831 AAATTATGCGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
21203848 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
21203865 AAATTATTA
1 AAATTATTA
21203874 TGTGAATTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 5 0.15
17 23 0.70
18 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:21203896 original size:46 final size:46
Alignment explanation
Indices: 21203841--21203997 Score: 145
Period size: 46 Copynumber: 3.3 Consensus size: 46
21203831 AAATTATGCG
*
21203841 AGTTGTTAAGTTATTAAGTTATGTAAATTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAATTATTATGTGAATTATATA
* * * * *
21203887 AGTTATTAAGTTA-TATGGTATGACATATATATATGTATTATGTAAATTATGTG
1 AGTTATTAAGTTATTA-AGT-T---ATGTA-A-AT-TATTATGTGAATTATATA
* * * *
21203940 AGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAATTATTATGTGAATTATATA
21203986 AGTTATTAAGTT
1 AGTTATTAAGTT
21203998 GGACATTTTT
Statistics
Matches: 86, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
45 2 0.02
46 40 0.47
47 2 0.02
48 1 0.01
49 4 0.05
50 4 0.05
51 1 0.01
52 3 0.03
53 28 0.33
54 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (46 bp):
AGTTATTAAGTTATTAAGTTATGTAAATTATTATGTGAATTATATA
Found at i:21206408 original size:31 final size:31
Alignment explanation
Indices: 21206365--21206424 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
21206355 ACAGCCGCCC
*
21206365 CAATTTATTGGCTAAGCCTAACAATGCCTAA
1 CAATGTATTGGCTAAGCCTAACAATGCCTAA
21206396 CAATGTATTGGCTAAGCCTAACAATGCCT
1 CAATGTATTGGCTAAGCCTAACAATGCCT
21206425 CCGCATCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (31 bp):
CAATGTATTGGCTAAGCCTAACAATGCCTAA
Found at i:21207999 original size:15 final size:15
Alignment explanation
Indices: 21207977--21208023 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
21207967 TTTTAATCCC
21207977 TAAACCCCTAACCCT
1 TAAACCCCTAACCCT
* *
21207992 TTAACCCCTAAACCT
1 TAAACCCCTAACCCT
*
21208007 TAAATCCC-AACCCT
1 TAAACCCCTAACCCT
21208021 TAA
1 TAA
21208024 TCCATAATCC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:21208000 original size:23 final size:22
Alignment explanation
Indices: 21207960--21208005 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
21207950 NNNNNNNNAT
* *
21207960 CCCTAACTTTTAATCCCTAAAC
1 CCCTAACCTTTAACCCCTAAAC
21207982 CCCTAACCCTTTAACCCCTAAAC
1 CCCTAA-CCTTTAACCCCTAAAC
21208005 C
1 C
21208006 TTAAATCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.26
Consensus pattern (22 bp):
CCCTAACCTTTAACCCCTAAAC
Found at i:21208043 original size:15 final size:15
Alignment explanation
Indices: 21207970--21208055 Score: 54
Period size: 15 Copynumber: 5.9 Consensus size: 15
21207960 CCCTAACTTT
*
21207970 TAATCCCTAAACCCC
1 TAATCCCTAAACCCA
* *
21207985 TAA-CCCTTTAACCCC
1 TAATCCC-TAAACCCA
* *
21208000 TAAACCTTAAATCCC-
1 TAATCCCTAAA-CCCA
* *
21208015 -AA-CCCTTAATCCA
1 TAATCCCTAAACCCA
21208028 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
21208043 TACTCCCTAAACC
1 TAATCCCTAAACC
21208056 TTAAAATATG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
12 2 0.04
13 5 0.09
14 7 0.12
15 37 0.66
16 5 0.09
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:21208630 original size:73 final size:72
Alignment explanation
Indices: 21208549--21208688 Score: 217
Period size: 73 Copynumber: 1.9 Consensus size: 72
21208539 GCTTTCTTAT
* *
21208549 AAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTTTTTTTGCGGCGC
1 AAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGATTA-GTTTTTTTGCGGCGC
21208614 TTTACGAA
65 TTTACGAA
** * *
21208622 AAACGCTGCTAAATCCCCGAAAGCTTGGGAAACGACGTCGTTGGGATTAGTTTTTTTGCGGCGCT
1 AAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGATTAGTTTTTTTGCGGCGCT
21208687 TT
66 TT
21208689 CTCAAAAACG
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 18 0.30
73 43 0.70
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (72 bp):
AAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGATTAGTTTTTTTGCGGCGCT
TTACGAA
Found at i:21208635 original size:114 final size:113
Alignment explanation
Indices: 21208303--21208638 Score: 564
Period size: 114 Copynumber: 2.9 Consensus size: 113
21208293 TAAAATATTT
**
21208303 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGC-TTTCTTAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
21208368 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
65 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCA
*
21208417 TGAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCTT-AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
21208482 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCA
65 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCA
* *
21208531 TTAGCGGCGCTTTCTTATAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCT
1 TTAGCGGCGCTTTCTTA-AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* * *
21208596 TAGGTTTTTTTGCGGCGCTTTACGAAAAACGCTGCTAAATCCC
65 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCC
21208639 CGAAAGCTTG
Statistics
Matches: 210, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
113 5 0.02
114 205 0.98
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (113 bp):
TTAGCGGCGCTTTCTTAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT
AGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCA
Found at i:21210675 original size:65 final size:65
Alignment explanation
Indices: 21210593--21210714 Score: 217
Period size: 65 Copynumber: 1.9 Consensus size: 65
21210583 ACACGCTCAG
* * *
21210593 GTGCTTAAACCGTGTACAAATCGAAAATAGGGTCACATGGTCGTGTCCCTAGGCCGTTTAATCGT
1 GTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAGCCGTGTCCCTAGGCCGTTTAATCGT
21210658 GTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAGCCGTGTCCCTAGGCCGT
1 GTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAGCCGTGTCCCTAGGCCGT
21210715 GTAACTAACT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (65 bp):
GTGCTGAAACCGTGTACAAATCGAAAATAGGGTCACATAGCCGTGTCCCTAGGCCGTTTAATCGT
Found at i:21211762 original size:13 final size:13
Alignment explanation
Indices: 21211739--21211808 Score: 77
Period size: 13 Copynumber: 5.3 Consensus size: 13
21211729 TCATACATCT
21211739 ATTTCCATATAACC
1 ATTT-CATATAACC
*
21211753 AATTCATATAACC
1 ATTTCATATAACC
** *
21211766 ATTTCATGCAATC
1 ATTTCATATAACC
21211779 ATTTCATATAACC
1 ATTTCATATAACC
**
21211792 ATTTTGTATAACC
1 ATTTCATATAACC
21211805 ATTT
1 ATTT
21211809 GATTTAAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
13 43 0.93
14 3 0.07
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:21211822 original size:39 final size:38
Alignment explanation
Indices: 21211738--21211834 Score: 95
Period size: 39 Copynumber: 2.5 Consensus size: 38
21211728 TTCATACATC
*
21211738 TATTTCCATATAACCAATTCATATAACCATTTCATGCAA
1 TATTT-CATATAACCAATTCATATAACCATTTCATGAAA
* ** * *
21211777 TCATTTCATATAACCATTTTGTATAACCATTTGATTTAAA
1 T-ATTTCATATAACCAATTCATATAACCATTTCA-TGAAA
* *
21211817 TATTTCATTTAAACAATT
1 TATTTCATATAACCAATT
21211835 AACACATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
39 39 0.83
40 8 0.17
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (38 bp):
TATTTCATATAACCAATTCATATAACCATTTCATGAAA
Found at i:21212646 original size:18 final size:18
Alignment explanation
Indices: 21212623--21212661 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21212613 GCTTCCTTAA
*
21212623 ATTTTT-AATGTTTTATTC
1 ATTTTTAAAT-TTTAATTC
21212641 ATTTTTAAATTTTAATTC
1 ATTTTTAAATTTTAATTC
21212659 ATT
1 ATT
21212662 AATAATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTTTAAATTTTAATTC
Found at i:21213001 original size:14 final size:14
Alignment explanation
Indices: 21212982--21213019 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
21212972 TTTAGGGACA
21212982 AACCATTTGTACCT
1 AACCATTTGTACCT
21212996 AACCATTTGTACCT
1 AACCATTTGTACCT
*
21213010 AACTATTTGT
1 AACCATTTGT
21213020 TCACTTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (14 bp):
AACCATTTGTACCT
Found at i:21214128 original size:28 final size:28
Alignment explanation
Indices: 21214054--21214130 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
21214044 TAGTACAGTA
* * * * *
21214054 TGGGCCTTAGACCAAAACAATAACAATG
1 TGGGCCTTAGCCCAATACAGTAATAGTG
21214082 TGGGCCTTAGCCCAATACAGTAATAGTG
1 TGGGCCTTAGCCCAATACAGTAATAGTG
*
21214110 TGGGCCTTAGCCCAGTACAGT
1 TGGGCCTTAGCCCAATACAGT
21214131 CCAATAATGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTAATAGTG
Found at i:21214442 original size:27 final size:27
Alignment explanation
Indices: 21214412--21214625 Score: 218
Period size: 27 Copynumber: 7.9 Consensus size: 27
21214402 TCATCTCCTA
** *
21214412 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTCTG
* * *
21214439 GGGGTATTTTAGTCATTTTACCTTTTG
1 GGGGTATTTCAGTCATTTTACCCTCTG
** * *
21214466 GGGGTATTTTGGTCATTTTACCCTTTT
1 GGGGTATTTCAGTCATTTTACCCTCTG
* * * *
21214493 AGGGTATTTCGGTCATTTTACCATCCG
1 GGGGTATTTCAGTCATTTTACCCTCTG
*
21214520 GGGGTATTTCAGTTATTTTACCCTAC-G
1 GGGGTATTTCAGTCATTTTACCCT-CTG
* *
21214547 GGGGTATTTCAGTCATTTGACCCTCTA
1 GGGGTATTTCAGTCATTTTACCCTCTG
*
21214574 GGGGTATTTC-GATCATTTTACCCTCTA
1 GGGGTATTTCAG-TCATTTTACCCTCTG
21214601 GGGGTATTTC-GATCATTTTACCCTC
1 GGGGTATTTCAG-TCATTTTACCCTC
21214626 CAGGGTATTT
Statistics
Matches: 162, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 159 0.98
28 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTCTG
Found at i:21215351 original size:5 final size:5
Alignment explanation
Indices: 21215334--21215365 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
21215324 GAATGAAGAG
21215334 GAGAA GA-AA -AGAA GAGAA GAGAA GAGAA GAGA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGA
21215366 GAGGGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
3 1 0.04
4 4 0.16
5 20 0.80
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:21217372 original size:43 final size:42
Alignment explanation
Indices: 21217326--21217622 Score: 333
Period size: 43 Copynumber: 6.9 Consensus size: 42
21217316 AGCTAAAAGT
* * *
21217326 CATGACCTTTAGCGGTGCTTCTCCCACAAACGCCGCTATAGAT
1 CATGACCTTTAGCGGCGCTT-TCCCACAAACGCCGCTAAAGAA
* * * * *
21217369 CATGACTTTTAGCGACGCTTTTCCCACAAACGCTGCTATAGAT
1 CATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAA
* * *
21217412 CATGACTTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGAA
1 CATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAA
* * *
21217455 CATGAGCTTTAGCGGCACTTTACCACAAACGCCGCTAAAGAA
1 CATGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGAA
* *
21217497 CATGACCTTTAGCGTCGCTTTACCAACAAACGCCGCTAAAGAA
1 CATGACCTTTAGCGGCGCTTT-CCCACAAACGCCGCTAAAGAA
* * *
21217540 CATGATCTTTAGCGGCACTTTACCCACAAATGCCGCTAAAGAA
1 CATGACCTTTAGCGGCGCTTT-CCCACAAACGCCGCTAAAGAA
* * **
21217583 CATGATCTTTAGCGGCACTTTTATCACAAACGCCGCTAAA
1 CATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAA
21217623 AGTATGGTTC
Statistics
Matches: 224, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
42 40 0.18
43 179 0.80
44 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (42 bp):
CATGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGAA
Found at i:21217501 original size:128 final size:128
Alignment explanation
Indices: 21217326--21217622 Score: 380
Period size: 128 Copynumber: 2.3 Consensus size: 128
21217316 AGCTAAAAGT
** * * * * *
21217326 CATGACCTTTAGCGGTGCTTCTCCCACAAACGCCGCTATAGATCATGACTTTTAGCGACGCTTTT
1 CATGACCTTTAGCGGCACTT-TACCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTA
* * * * ** * *
21217391 CCCACAAACGCTGCTATAGATCATGA-CTTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGAA
65 CCAACAAACGCCGCTAAAGAACATGATC-TTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAA
* *
21217455 CATGAGCTTTAGCGGCACTTTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGTCGCTTTAC
1 CATGACCTTTAGCGGCACTTTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTAC
*
21217520 CAACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTACCCACAAATGCCGCTAAAGAA
66 CAACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAA
* *
21217583 CATGATCTTTAGCGGCACTTTTATCACAAACGCCGCTAAA
1 CATGACCTTTAGCGGCAC-TTTACCACAAACGCCGCTAAA
21217623 AGTATGGTTC
Statistics
Matches: 146, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
128 108 0.74
129 38 0.26
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (128 bp):
CATGACCTTTAGCGGCACTTTACCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTAC
CAACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGAA
Found at i:21219553 original size:86 final size:84
Alignment explanation
Indices: 21219378--21219643 Score: 291
Period size: 86 Copynumber: 3.1 Consensus size: 84
21219368 TTAACACAAA
* * * * * * *
21219378 TCAATCTTACAACAGTTTATGTGAAACAAATTAGCAAAAATCAACT-ATTCATAGTTCATATATT
1 TCAATTTTATAACAATTTATATGCAACAAATTAGCAAAAATCAA-TGGTTCA-AGTTCATGTATT
** * *
21219442 TACTGACAATAGGGCTAAATCT
64 TACCAACAATA-GACTAAATTT
* *
21219464 TCAATTTCTATAACGATTTATATGCAACAAATTAACAAAAATCAATGGTTCAAGTTCATGTATTT
1 TCAATTT-TATAACAATTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTT
* *
21219529 ACCAAAAATTAGACTAATTTT
65 ACCAACAA-TAGACTAAATTT
* * *
21219550 TCAATATTTATAACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTT
1 TCAAT-TTTATAACAATTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTT
*
21219615 ACCAACAACCAGACTAAATTT
65 ACCAACAA-TAGACTAAATTT
21219636 TCAATTTT
1 TCAATTTT
21219644 CAATTTTTAA
Statistics
Matches: 152, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
85 3 0.02
86 110 0.72
87 39 0.26
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (84 bp):
TCAATTTTATAACAATTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTA
CCAACAATAGACTAAATTT
Found at i:21219750 original size:30 final size:30
Alignment explanation
Indices: 21219714--21219784 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
21219704 ATTTAAGGAG
21219714 ATATAAAAAATCATCATTTCAACAATTTAC
1 ATATAAAAAATCATCATTTCAACAATTTAC
21219744 ATATAAAAAATCATCATTTCAACAATTTAC
1 ATATAAAAAATCATCATTTCAACAATTTAC
**
21219774 ATGCAAAAAAT
1 ATATAAAAAAT
21219785 TAGCAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.31
Consensus pattern (30 bp):
ATATAAAAAATCATCATTTCAACAATTTAC
Found at i:21220149 original size:168 final size:168
Alignment explanation
Indices: 21219871--21220192 Score: 459
Period size: 168 Copynumber: 1.9 Consensus size: 168
21219861 TTTTAAATGC
* ** * * *
21219871 AACAAATTAGCACAAATTAACAATTCAAGTTCATATATTCACCAAAAACCAGACTAAATTTTCAA
1 AACAAATTAGCAAAAACCAACAATTCAAGTGCATATATGCACCAAAAACCAGACTAAATTTCCAA
* ** * *
21219936 TTTTTATAAAATAAGAGGATGGAAGTCTAACAAATTAAAGTTTCCAATGAAATTCAGACTTACAC
66 TTTTTACAAAATAAGAGGATCAAAGTCTAACAAATTAAAGTTTCCAATGAAATTCAAAATTACAC
21220001 CATTAAGTAAATAAGAGTTTTAAACTATTGAAGATCAA
131 CATTAAGTAAATAAGAGTTTTAAACTATTGAAGATCAA
** *
21220039 AACAAATTAGCAAAAACCAACTGTTCAAGTGCATGTATGCACCAAAAA-CAGGA-TCAAATTTCC
1 AACAAATTAGCAAAAACCAACAATTCAAGTGCATATATGCACCAAAAACCA-GACT-AAATTTCC
* * *
21220102 AATTTTTGCAAATTAAGAGGATCAAATTCTAACAAATTAAAGTTTCCAATGAAATTCAAAATTAC
64 AATTTTTACAAAATAAGAGGATCAAAGTCTAACAAATTAAAGTTTCCAATGAAATTCAAAATTAC
21220167 ACCATTAAGTAAATAAGAGTTTTAAA
129 ACCATTAAGTAAATAAGAGTTTTAAA
21220193 TTACCTGAGA
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
167 3 0.02
168 132 0.98
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (168 bp):
AACAAATTAGCAAAAACCAACAATTCAAGTGCATATATGCACCAAAAACCAGACTAAATTTCCAA
TTTTTACAAAATAAGAGGATCAAAGTCTAACAAATTAAAGTTTCCAATGAAATTCAAAATTACAC
CATTAAGTAAATAAGAGTTTTAAACTATTGAAGATCAA
Found at i:21223611 original size:31 final size:31
Alignment explanation
Indices: 21223480--21223610 Score: 122
Period size: 31 Copynumber: 4.3 Consensus size: 31
21223470 GTATATATTA
21223480 TATACATTGCTGAAATTTATTTGTATATGGT
1 TATACATTGCTGAAATTTATTTGTATATGGT
* * ** * * *
21223511 TATCCATTGTTGAAATAGAATTGTATGTGGA
1 TATACATTGCTGAAATTTATTTGTATATGGT
* * * **
21223542 TATA-AGTTGCCGAAA-TAATTCGTATATAAT
1 TATACA-TTGCTGAAATTTATTTGTATATGGT
*
21223572 TATACATTACTGAAATTTATTTGTATATGGT
1 TATACATTGCTGAAATTTATTTGTATATGGT
21223603 TATACATT
1 TATACATT
21223611 ATCGAAGTTG
Statistics
Matches: 73, Mismatches: 24, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
30 19 0.26
31 54 0.74
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (31 bp):
TATACATTGCTGAAATTTATTTGTATATGGT
Found at i:21223643 original size:92 final size:92
Alignment explanation
Indices: 21223470--21223671 Score: 242
Period size: 92 Copynumber: 2.2 Consensus size: 92
21223460 TAATTTAAAT
* * * * * *
21223470 GTATATATTATATACATTGCTGAAATTTATTTGTATATGGTTATCCATTGTTGAAATAGAATTGT
1 GTATATAAT-TATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAATAGAATTAT
** * *
21223535 ATGTGGATATAAGTTGCCGAAATAATTC
65 ATAAGAAAATAAGTTGCCGAAATAATTC
* * *
21223563 GTATATAATTATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAGTTGATTTATA
1 GTATATAATTATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAATAGAATTATA
* * *
21223628 TAAGAAAATAGGTTGCCGAATTGATTC
66 TAAGAAAATAAGTTGCCGAAATAATTC
*
21223655 GTATATGATTATACATT
1 GTATATAATTATACATT
21223672 GTCGAATTTG
Statistics
Matches: 92, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
92 84 0.91
93 8 0.09
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (92 bp):
GTATATAATTATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAATAGAATTATA
TAAGAAAATAAGTTGCCGAAATAATTC
Found at i:21223684 original size:31 final size:31
Alignment explanation
Indices: 21223559--21223771 Score: 101
Period size: 31 Copynumber: 6.9 Consensus size: 31
21223549 TGCCGAAATA
* *
21223559 ATTCGTATATAATTATACATT-ACTGAAATTT-
1 ATTCGTATATGATTATACATTGTC-G-AATTTG
* * * *
21223590 ATTTGTATATGGTTATACATTATCGAAGTTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
** * ** ** *
21223621 ATTTATATAAGAAAATAGGTTGCCGAA-TTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
21223651 ATTCGTATATGATTATACATTGTCGAATTTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
*** ** * * *
21223682 ATTCACCTCCGGTTATACATTG-CCAAATTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
* * ** * *
21223712 ATTTGTGTATGATTATATGTTGCCAAATTTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
* * *
21223743 ATTCGTATATGAATATAAATTGTTGAATT
1 ATTCGTATATGATTATACATTGTCGAATT
21223772 GACTTGAGCA
Statistics
Matches: 129, Mismatches: 49, Indels: 8
0.69 0.26 0.04
Matches are distributed among these distances:
30 45 0.35
31 83 0.64
32 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (31 bp):
ATTCGTATATGATTATACATTGTCGAATTTG
Found at i:21223696 original size:92 final size:92
Alignment explanation
Indices: 21223600--21223771 Score: 211
Period size: 92 Copynumber: 1.9 Consensus size: 92
21223590 ATTTGTATAT
* * * * *
21223600 GGTTATACATTATCGAAGTTGATTTATATAAGAAAATAGGTTGCCGAA-TTGATTCGTATATGAT
1 GGTTATACATT-GCCAAATTGATTTATATAAGAAAATAGGTTGCCAAATTTGATTCGTATATGAA
*
21223664 TATACATTGTCGAATTTGATTCACCTCC
65 TATAAATTGTCGAATTTGATTCACCTCC
* * * ** *
21223692 GGTTATACATTGCCAAATTGATTTGTGTATGATTATATGTTGCCAAATTTGATTCGTATATGAAT
1 GGTTATACATTGCCAAATTGATTTATATAAGAAAATAGGTTGCCAAATTTGATTCGTATATGAAT
*
21223757 ATAAATTGTTGAATT
66 ATAAATTGTCGAATT
21223772 GACTTGAGCA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
91 26 0.39
92 40 0.61
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (92 bp):
GGTTATACATTGCCAAATTGATTTATATAAGAAAATAGGTTGCCAAATTTGATTCGTATATGAAT
ATAAATTGTCGAATTTGATTCACCTCC
Found at i:21224030 original size:42 final size:42
Alignment explanation
Indices: 21223891--21224248 Score: 457
Period size: 42 Copynumber: 8.7 Consensus size: 42
21223881 AGAACTTCGG
*
21223891 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATAATT
1 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
21223933 -CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATT
1 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT--GATT
21223975 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
21224017 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
21224059 -CGTGTAAGACCATGTCTGGGA-ATTGGCATCG-ATATGAGATT
1 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT--GATT
21224100 ACGTGTAAGACCATGTCT--G-----GGCATCGTATATGATT
1 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
21224135 -CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATT
1 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT--GATT
21224177 -CGTGTAAGACCATAG-CTGGG-CTATTGGCATCGATATATGA-T
1 ACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCG-TATATGATT
* * *
21224218 AGCATGTAAGACCATATCTGGGATA-TGGCAT
1 A-CGTGTAAGACCATGTCTGGGACATTGGCAT
21224249 TGTGCGAGTT
Statistics
Matches: 287, Mismatches: 4, Indels: 50
0.84 0.01 0.15
Matches are distributed among these distances:
34 17 0.06
35 4 0.01
36 8 0.03
37 4 0.01
39 4 0.01
40 19 0.07
41 66 0.23
42 106 0.37
43 51 0.18
44 8 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
Found at i:21224130 original size:76 final size:76
Alignment explanation
Indices: 21224043--21224197 Score: 278
Period size: 76 Copynumber: 2.0 Consensus size: 76
21224033 CTGGGACATT
21224043 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGA-ATTGGCATCGATATGAGATTACGTGTA
1 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATT-CGTGTA
21224107 AGACCAT-GTCTG
65 AGACCATAG-CTG
21224119 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
1 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
21224184 GACCATAGCTG
66 GACCATAGCTG
21224195 GGC
1 GGC
21224198 TATTGGCATC
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
76 56 0.73
77 21 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (76 bp):
GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
GACCATAGCTG
Found at i:21224141 original size:34 final size:34
Alignment explanation
Indices: 21224043--21224154 Score: 136
Period size: 34 Copynumber: 3.1 Consensus size: 34
21224033 CTGGGACATT
21224043 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGG
1 GGCATCGTATATGATTCGTGTAAGACCATGTCT--G
21224079 AATTGGCATCG-ATATGAGATTACGTGTAAGACCATGTCTG
1 ----GGCATCGTATAT--GATT-CGTGTAAGACCATGTCTG
21224119 GGCATCGTATATGATTCGTGTAAGACCATGTCTG
1 GGCATCGTATATGATTCGTGTAAGACCATGTCTG
21224153 GG
1 GG
21224155 ACATTGGCAT
Statistics
Matches: 68, Mismatches: 0, Indels: 14
0.83 0.00 0.17
Matches are distributed among these distances:
34 20 0.29
35 4 0.06
36 7 0.10
37 4 0.06
39 4 0.06
40 8 0.12
41 4 0.06
42 17 0.25
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (34 bp):
GGCATCGTATATGATTCGTGTAAGACCATGTCTG
Found at i:21224741 original size:21 final size:22
Alignment explanation
Indices: 21224714--21224793 Score: 83
Period size: 21 Copynumber: 3.6 Consensus size: 22
21224704 CTAATTAATC
*
21224714 TAAACCCTAAACCCCTAACCCC
1 TAAACCCTAAACCCCTAACCCT
21224736 T-AACCCTTAAGTACCCCTAACCCT
1 TAAACCC-TAA--ACCCCTAACCCT
**
21224760 TAAACTTTAAACCCC-AACCCT
1 TAAACCCTAAACCCCTAACCCT
*
21224781 TAAACCATAAACC
1 TAAACCCTAAACC
21224794 ATAATCCCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 22 0.45
22 9 0.18
24 15 0.31
25 3 0.06
ACGTcount: A:0.38, C:0.41, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAACCCTAAACCCCTAACCCT
Found at i:21224769 original size:24 final size:22
Alignment explanation
Indices: 21224714--21224793 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 22
21224704 CTAATTAATC
* *
21224714 TAAACCCTAAACCCCTAACCCC
1 TAAACCTTAAACCCCTAACCCT
*
21224736 TAACCCTTAAGTACCCCTAACCCT
1 TAAACCTTAA--ACCCCTAACCCT
*
21224760 TAAACTTTAAACCCC-AACCCT
1 TAAACCTTAAACCCCTAACCCT
*
21224781 TAAACCATAAACC
1 TAAACCTTAAACC
21224794 ATAATCCCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
21 17 0.35
22 13 0.27
24 19 0.39
ACGTcount: A:0.38, C:0.41, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAACCTTAAACCCCTAACCCT
Found at i:21224810 original size:15 final size:15
Alignment explanation
Indices: 21224775--21224822 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
21224765 TTTAAACCCC
* *
21224775 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
21224790 AA-CCATAATCCCTA
1 AACCCATAATCCATA
21224804 AACCCATAATCCATA
1 AACCCATAATCCATA
21224819 AACC
1 AACC
21224823 TTAAGATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:21225050 original size:255 final size:243
Alignment explanation
Indices: 21224640--21225201 Score: 840
Period size: 255 Copynumber: 2.3 Consensus size: 243
21224630 GTTTAAATAA
* *
21224640 TAAAATTAATATTATCTCTTTTACAATTATATAAGAAATTATTTAATATATAAATTAAAAAACAC
1 TAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTATTTAATATATAAATTAAAAAACAC
* * *
21224705 TAATTAATCTAAACCCTAAACCCCTAACCCCTAACCCTTAAGTACCCCTAACCCTTAAACTTTAA
66 TAATTAATCTAAACCCTAAACCCCTAACCCCTAACCATTAAGAACCCCTAACCCTTAAACCTTAA
21224770 ACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAGATAGTAA
131 ACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAGATAGTAA
* **
21224835 CTCCTAAACCTTAAACCCTAAACTATAATGATAATTAATTTAATGTTT
196 CTCCTAAACCTTAAACCCTAAACTATAATGATAATTAATTCAACATTT
*
21224883 TAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTATTTAATATATAAATTAAATAACAC
1 TAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTATTTAATATATAAATTAAAAAACAC
* * *
21224948 TAATTAATCT-AACCCTTAAACCCTTATCCCCTATCCCCTAAACCATAAATCAGAAACTCCTAAC
66 TAATTAATCTAAACCC-T-AA-----A-CCCCTAACCCCT-AACCAT---TAAG-AACCCCTAAC
*
21225012 TCC-TAAACCTTAAACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATGATCCATAAA
118 -CCTTAAACCTTAAACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAA
*
21225076 CCTTAAGATAGTAACTCCTAAACCTTAAACCTTAAACTATAATGATAATTAATTCAACATTT
182 CCTTAAGATAGTAACTCCTAAACCTTAAACCCTAAACTATAATGATAATTAATTCAACATTT
* *
21225138 TAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTATTTAATACATAAACTAAAAAACA
1 TAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTATTTAATATATAAATTAAAAAACA
21225202 ATCAATAATG
Statistics
Matches: 288, Mismatches: 17, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
242 5 0.02
243 73 0.25
244 2 0.01
249 1 0.00
250 11 0.04
251 5 0.02
254 3 0.01
255 186 0.65
256 2 0.01
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.31
Consensus pattern (243 bp):
TAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTATTTAATATATAAATTAAAAAACAC
TAATTAATCTAAACCCTAAACCCCTAACCCCTAACCATTAAGAACCCCTAACCCTTAAACCTTAA
ACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAGATAGTAA
CTCCTAAACCTTAAACCCTAAACTATAATGATAATTAATTCAACATTT
Found at i:21225060 original size:21 final size:20
Alignment explanation
Indices: 21225013--21225062 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
21225003 ACTCCTAACT
* *
21225013 CCTAAACCTTAAACCCCAAC
1 CCTAAACCATAAACCACAAC
*
21225033 CCTTAAACCATAAACCATAATC
1 CC-TAAACCATAAACCACAA-C
21225055 CCTAAACC
1 CCTAAACC
21225063 CATGATCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 20 0.80
22 3 0.12
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (20 bp):
CCTAAACCATAAACCACAAC
Found at i:21225065 original size:15 final size:15
Alignment explanation
Indices: 21225030--21225077 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
21225020 CTTAAACCCC
* *
21225030 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
21225045 AA-CCATAATCCCTA
1 AACCCATAATCCATA
*
21225059 AACCCATGATCCATA
1 AACCCATAATCCATA
21225074 AACC
1 AACC
21225078 TTAAGATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:21225487 original size:41 final size:41
Alignment explanation
Indices: 21225425--21225700 Score: 250
Period size: 41 Copynumber: 6.7 Consensus size: 41
21225415 TTTTCGCAGA
* ** * * *
21225425 GCTTTTTCAAAAATGCCGCTAAAGCCCCGAGAATTAGCGGC
1 GCTTCTTCAAAAACACCGCTAAAGCACCGAGCATTAGCGAC
* *
21225466 GTTTCTTCAAAAACATCGCTAAAGCACCGAGCATTAGCGAC
1 GCTTCTTCAAAAACACCGCTAAAGCACCGAGCATTAGCGAC
* * *
21225507 GTTTCTTCAAAAACGCCGCTAAAGCACCGAGCATTCGCGAC
1 GCTTCTTCAAAAACACCGCTAAAGCACCGAGCATTAGCGAC
* * **
21225548 GCTTCTTCGAAAACGCCGCTAAAGCACCGAGCATTAGCGGT
1 GCTTCTTCAAAAACACCGCTAAAGCACCGAGCATTAGCGAC
* * * *
21225589 GCTTCTTCGAAAACATCGCTAAAGCATCGAGCATTAG-TAGC
1 GCTTCTTCAAAAACACCGCTAAAGCACCGAGCATTAGCGA-C
** * * **
21225630 GCTT-TTCCAAAAATGCCCCTAAAGTACCGAGCATTAGCGGT
1 GCTTCTT-CAAAAACACCGCTAAAGCACCGAGCATTAGCGAC
* * ** *
21225671 ACTTTTTCAAAAATGCCGCTAAAGCCCCGA
1 GCTTCTTCAAAAACACCGCTAAAGCACCGA
21225701 AAGGTAAGAA
Statistics
Matches: 195, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
40 2 0.01
41 191 0.98
42 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (41 bp):
GCTTCTTCAAAAACACCGCTAAAGCACCGAGCATTAGCGAC
Found at i:21225568 original size:82 final size:82
Alignment explanation
Indices: 21225430--21225700 Score: 280
Period size: 82 Copynumber: 3.3 Consensus size: 82
21225420 GCAGAGCTTT
* * * * * **
21225430 TTCAAAAATGCCGCTAAAGCCCCGAGAATTAGCGGCGTTTCTTCAAAAACATCGCTAAAGCACCG
1 TTCAAAAACGCCGCTAAAGCACCGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCACCG
21225495 AGCATTAGCGACGTTTC
66 AGCATTAGCGACGTTTC
* *
21225512 TTCAAAAACGCCGCTAAAGCACCGAGCATTCGCGACGCTTCTTCGAAAACGCCGCTAAAGCACCG
1 TTCAAAAACGCCGCTAAAGCACCGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCACCG
** *
21225577 AGCATTAGCGGTGCTTC
66 AGCATTAGCGACGTTTC
* ** * * * * *
21225594 TTCGAAAACATCGCTAAAGCATCGAGCATTAG-TAGCGCTT-TTCCAAAAATGCCCCTAAAGTAC
1 TTCAAAAACGCCGCTAAAGCACCGAGCATTAGCGA-CGCTTCTT-CAAAAACGCCGCTAAAGCAC
21225657 CGAGCATTAGCGGTAC-TTT-
64 CGAGCATTAGC-G-ACGTTTC
* *
21225676 TTCAAAAATGCCGCTAAAGCCCCGA
1 TTCAAAAACGCCGCTAAAGCACCGA
21225701 AAGGTAAGAA
Statistics
Matches: 154, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
81 3 0.02
82 148 0.96
83 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (82 bp):
TTCAAAAACGCCGCTAAAGCACCGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCACCG
AGCATTAGCGACGTTTC
Found at i:21225641 original size:123 final size:122
Alignment explanation
Indices: 21225417--21225700 Score: 358
Period size: 123 Copynumber: 2.3 Consensus size: 122
21225407 TAAAATGTTT
*
21225417 TTCGCAGAGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGAATTAGCGGCGTTTCTTCAAAAACAT
1 TTCGC-GAGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGAATTAGCGGCGCTTCTTCAAAAACAT
* * *
21225482 CGCTAAAGCACCGAGCATTAGCGACGTTTCTTCAAAAACGCCGCTAAAGCACCGAGCA
65 CGCTAAAGCACCGAGCATTAGAGACGTTTCTCCAAAAACGCCCCTAAAGCACCGAGCA
* * * * * * *
21225540 TTCGCGACGCTTCTTCGAAAACGCCGCTAAAGCACCGAGCATTAGCGGTGCTTCTTCGAAAACAT
1 TTCGCGA-GCTTTTTCAAAAATGCCGCTAAAGCCCCGAGAATTAGCGGCGCTTCTTCAAAAACAT
* * *
21225605 CGCTAAAGCATCGAGCATTAGTAG-CGCTTT-TCCAAAAATGCCCCTAAAGTACCGAGCA
65 CGCTAAAGCACCGAGCATTAG-AGACG-TTTCTCCAAAAACGCCCCTAAAGCACCGAGCA
*
21225663 TTAGCG-GTACTTTTTCAAAAATGCCGCTAAAGCCCCGA
1 TTCGCGAG--CTTTTTCAAAAATGCCGCTAAAGCCCCGA
21225701 AAGGTAAGAA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
121 1 0.01
122 2 0.01
123 130 0.95
124 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (122 bp):
TTCGCGAGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGAATTAGCGGCGCTTCTTCAAAAACATC
GCTAAAGCACCGAGCATTAGAGACGTTTCTCCAAAAACGCCCCTAAAGCACCGAGCA
Found at i:21225793 original size:40 final size:40
Alignment explanation
Indices: 21225749--21225861 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 40
21225739 GACGATTTTT
* *
21225749 GAAAAAATGCCGCTAATGC-TCATTTTCAGCGGCGTGTTCC
1 GAAAAAGTGCCGCTAATGCTTGATTTT-AGCGGCGTGTTCC
*
21225789 G-AAAAGTGCCG-TAAATGCTTGATCTTTAGCGGCGTTTTCC
1 GAAAAAGTGCCGCT-AATGCTTGAT-TTTAGCGGCGTGTTCC
* *
21225829 -ATAAAGCGCCGCTAATGCTTGATTTTTAGCGGC
1 GAAAAAGTGCCGCTAATGCTTGA-TTTTAGCGGC
21225862 ATTTTTTGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
38 1 0.02
39 14 0.23
40 42 0.68
41 5 0.08
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (40 bp):
GAAAAAGTGCCGCTAATGCTTGATTTTAGCGGCGTGTTCC
Found at i:21227504 original size:22 final size:20
Alignment explanation
Indices: 21227478--21227518 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
21227468 GCTATTTCAG
21227478 TTAAATTCATGTCGAAAAATAA
1 TTAAATT-ATGT-GAAAAATAA
*
21227500 TTAAATTATGTTAAAAATA
1 TTAAATTATGTGAAAAATA
21227519 TGAACATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (20 bp):
TTAAATTATGTGAAAAATAA
Found at i:21236385 original size:27 final size:27
Alignment explanation
Indices: 21236347--21236404 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
21236337 ATGTCTGTAA
21236347 TACGGTCTTAGATGGTTTCCAATCCAG
1 TACGGTCTTAGATGGTTTCCAATCCAG
21236374 TACGGTCTTAGATGGTTTCCAATCCAG
1 TACGGTCTTAGATGGTTTCCAATCCAG
21236401 TACG
1 TACG
21236405 ACTTCAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
TACGGTCTTAGATGGTTTCCAATCCAG
Found at i:21239867 original size:28 final size:28
Alignment explanation
Indices: 21239823--21239899 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
21239813 CCTATACAGT
21239823 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
*
21239850 AACAGTAACAATGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
* *
21239878 TACAGTAATAGTGTGGGCCTTA
1 AACAGTAACAGTGTGGGCCTTA
21239900 CCCTAGTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 6 0.13
28 39 0.87
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
AACAGTAACAGTGTGGGCCTTAGCCCAA
Found at i:21239909 original size:28 final size:28
Alignment explanation
Indices: 21239824--21239912 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
21239814 CTATACAGTA
*
21239824 ACAGT-ACAGTGTGGGCCTTAGCCCAAA
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
21239851 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
21239879 ACAGTAATAGTGTGGGCCTTA-CCCTAGT
1 ACAGTAACAGTGTGGGCCTTAGCCC-AAT
21239907 ACAGTA
1 ACAGTA
21239913 TAATATTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
27 8 0.15
28 47 0.85
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:21240275 original size:27 final size:26
Alignment explanation
Indices: 21240256--21240477 Score: 150
Period size: 27 Copynumber: 8.2 Consensus size: 26
21240246 GGTATACCAA
21240256 TCATTTTACCTGATGAGGGTATTTCAG
1 TCATTTTACCT-ATGAGGGTATTTCAG
*
21240283 TCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTA-CCTATGAGGGTATTTCAG
*
21240310 TCATTTTACC-ATTCGGGGGTATTTC-G
1 TCATTTTACCTA-T-GAGGGTATTTCAG
* * **
21240336 ATCATTTTACCCATCAGGGGTATTTTGG
1 -TCATTTTACCTATGA-GGGTATTTCAG
* *
21240364 TCATTTTACCCTCTAAGGGTATTTC-G
1 TCATTTTA-CCTATGAGGGTATTTCAG
*
21240390 ATCATTTTACCT-TACAGAGGTATTTCAG
1 -TCATTTTACCTAT-GAG-GGTATTTCAG
* *
21240418 TCATTTTACCT-TGCGGGGATATTT-TG
1 TCATTTTACCTATG-AGGG-TATTTCAG
** *
21240444 ATCATTTTACTCTCCGGGGGTATTTCAG
1 -TCATTTTAC-CTATGAGGGTATTTCAG
21240472 TCATTT
1 TCATTT
21240478 GCCCACGAAT
Statistics
Matches: 161, Mismatches: 16, Indels: 36
0.76 0.08 0.17
Matches are distributed among these distances:
25 1 0.01
26 13 0.08
27 129 0.80
28 17 0.11
29 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (26 bp):
TCATTTTACCTATGAGGGTATTTCAG
Found at i:21240330 original size:54 final size:53
Alignment explanation
Indices: 21240272--21240477 Score: 204
Period size: 54 Copynumber: 3.8 Consensus size: 53
21240262 TACCTGATGA
*
21240272 GGGTATTTC-AGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCGG
1 GGGTATTTCGA-TCATTTTACCCTTTCAGGGTATTTCAGTCATTTTACC-TTCGG
* ** * **
21240326 GGGTATTTCGATCATTTTACCC-ATCAGGGGTATTTTGGTCATTTTACCCTCTAA
1 GGGTATTTCGATCATTTTACCCTTTCA-GGGTATTTCAGTCATTTTACCTTC-GG
*
21240380 GGGTATTTCGATCATTTTA-CCTTACAGAGGTATTTCAGTCATTTTACCTTGCGG
1 GGGTATTTCGATCATTTTACCCTTTCAG-GGTATTTCAGTCATTTTACCTT-CGG
* * * * *
21240434 GGATATTTTGATCATTTTACTC-TCCGGGGGTATTTCAGTCATTT
1 GGGTATTTCGATCATTTTACCCTTTC-AGGGTATTTCAGTCATTT
21240478 GCCCACGAAT
Statistics
Matches: 125, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
53 7 0.06
54 114 0.91
55 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (53 bp):
GGGTATTTCGATCATTTTACCCTTTCAGGGTATTTCAGTCATTTTACCTTCGG
Found at i:21240367 original size:81 final size:80
Alignment explanation
Indices: 21240255--21240477 Score: 231
Period size: 81 Copynumber: 2.8 Consensus size: 80
21240245 GGGTATACCA
* * ** *
21240255 ATCATTTTACCTGATGA-GGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTAC
1 ATCATTTTACC-CATCAGGGGTATTTTGGTCATTTTACCCTCTGAGGGTATTTCAGTCATTTTAC
* *
21240319 CATT-CGGGGGTATTTC
65 C-TTACAGAGGTATTTC
*
21240335 GATCATTTTACCCATCAGGGGTATTTTGGTCATTTTACCCTCTAAGGGTATTTC-GATCATTTTA
1 -ATCATTTTACCCATCAGGGGTATTTTGGTCATTTTACCCTCTGAGGGTATTTCAG-TCATTTTA
21240399 CCTTACAGAGGTATTTC
64 CCTTACAGAGGTATTTC
* * * * *
21240416 AGTCATTTTA-CCTTGC-GGGGATATTTTGATCATTTTACTCTCCGGGGGTATTTCAGTCATTT
1 A-TCATTTTACCCAT-CAGGGG-TATTTTGGTCATTTTACCCTCTGAGGGTATTTCAGTCATTT
21240478 GCCCACGAAT
Statistics
Matches: 121, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
80 14 0.12
81 106 0.88
82 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (80 bp):
ATCATTTTACCCATCAGGGGTATTTTGGTCATTTTACCCTCTGAGGGTATTTCAGTCATTTTACC
TTACAGAGGTATTTC
Found at i:21242033 original size:24 final size:24
Alignment explanation
Indices: 21241974--21242034 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
21241964 CATTCTATTA
* * *
21241974 GCCTTTATGGCATATTTTTATTTG
1 GCCTTTATGGCATATTCTGATTGG
* *
21241998 ACCTTTAGGGCATATTCTGATTGG
1 GCCTTTATGGCATATTCTGATTGG
*
21242022 GCCTTCATGGCAT
1 GCCTTTATGGCAT
21242035 TTTGTTAGCC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (24 bp):
GCCTTTATGGCATATTCTGATTGG
Found at i:21242092 original size:19 final size:20
Alignment explanation
Indices: 21242029--21242092 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 20
21242019 TGGGCCTTCA
*
21242029 TGGCATTTTGTTAGCCTTTG
1 TGGCATTATGTTAGCCTTTG
* * *
21242049 TGGAAATCT-TTAGCCGTTT-
1 TGGCATTATGTTAGCC-TTTG
21242068 TGGCATTATGTT-GCCTTTG
1 TGGCATTATGTTAGCCTTTG
21242087 TGGCAT
1 TGGCAT
21242093 ACTCTGTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.09
19 21 0.60
20 11 0.31
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (20 bp):
TGGCATTATGTTAGCCTTTG
Found at i:21261118 original size:16 final size:15
Alignment explanation
Indices: 21261077--21261115 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
21261067 TGATGACTTT
21261077 CTAGGGTTGTCAAGC
1 CTAGGGTTGTCAAGC
*
21261092 CTAAGGATTGTCAAGC
1 CT-AGGGTTGTCAAGC
21261108 CTAGGGTT
1 CTAGGGTT
21261116 TGTTTCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (15 bp):
CTAGGGTTGTCAAGC
Found at i:21265889 original size:25 final size:25
Alignment explanation
Indices: 21265861--21265910 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
21265851 TAAAGGGGAC
21265861 TAAGGCATTTCACATGAATTTTTAA
1 TAAGGCATTTCACATGAATTTTTAA
**
21265886 TAAGGCATTTCGTATGAATTTTTAA
1 TAAGGCATTTCACATGAATTTTTAA
21265911 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (25 bp):
TAAGGCATTTCACATGAATTTTTAA
Found at i:21267994 original size:19 final size:22
Alignment explanation
Indices: 21267968--21268017 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
21267958 GAACTAGATT
21267968 AGGTTAAAA-GGG-TG-TTTTA
1 AGGTTAAAAGGGGATGTTTTTA
*
21267987 ATGTTAAAAGGGGATGTTTTTA
1 AGGTTAAAAGGGGATGTTTTTA
21268009 AGGTTAAAA
1 AGGTTAAAA
21268018 ATCGAGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 3 0.12
21 2 0.08
22 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (22 bp):
AGGTTAAAAGGGGATGTTTTTA
Found at i:21274635 original size:18 final size:18
Alignment explanation
Indices: 21274612--21274646 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21274602 CCACTTTCCA
21274612 CTTTTAAGTTT-TTTTTAT
1 CTTTTAA-TTTATTTTTAT
21274630 CTTTTAATTTATTTTTA
1 CTTTTAATTTATTTTTA
21274647 CAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
CTTTTAATTTATTTTTAT
Found at i:21292015 original size:51 final size:52
Alignment explanation
Indices: 21291847--21292019 Score: 287
Period size: 52 Copynumber: 3.3 Consensus size: 52
21291837 ACTAATGACT
21291847 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* *
21291899 CCAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAATATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
*
21291951 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
*
21292002 CAAGGGTGGTACTATGTG
1 CAAGTGTGGTACTATGTG
21292020 CAAGCCATCG
Statistics
Matches: 114, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 29 0.25
52 84 0.74
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:21294118 original size:20 final size:20
Alignment explanation
Indices: 21294095--21294136 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21294085 ATTGATACCA
21294095 CTTAAAGAAAATATCGATAC
1 CTTAAAGAAAATATCGATAC
* **
21294115 CTTAATGTCAATATCGATAC
1 CTTAAAGAAAATATCGATAC
21294135 CT
1 CT
21294137 GCGGGCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (20 bp):
CTTAAAGAAAATATCGATAC
Found at i:21314486 original size:20 final size:20
Alignment explanation
Indices: 21314461--21314693 Score: 80
Period size: 20 Copynumber: 11.7 Consensus size: 20
21314451 TCTTGAATAA
21314461 GTGCTCCTGATAGTACTACG
1 GTGCTCCTGATAGTACTACG
* *
21314481 GTGCTCCTGGA-AATACTTTC-
1 GTGCTCCT-GATAGTAC-TACG
* **
21314501 GTACTCCTGATAACACTACG
1 GTGCTCCTGATAGTACTACG
* * ***
21314521 GTGCTCCTGACAATACTTTT
1 GTGCTCCTGATAGTACTACG
* * *
21314541 GTACTCTTGATAGCACTACG
1 GTGCTCCTGATAGTACTACG
* * *
21314561 GTGCTCCTGACAGTAGTTTC-
1 GTGCTCCTGATAGTA-CTACG
* * * *
21314581 ATACTCCTGATAGCACTATG
1 GTGCTCCTGATAGTACTACG
* * * ***
21314601 GTGCTCCTAACAGTTCTTTT
1 GTGCTCCTGATAGTACTACG
* *
21314621 GTACTCCT-ATTAGCACTACG
1 GTGCTCCTGA-TAGTACTACG
* *
21314641 GTGCTCTTGATAGTACTTTC-
1 GTGCTCCTGATAGTAC-TACG
* * *
21314661 GTACTCCTGTTAGCACTACG
1 GTGCTCCTGATAGTACTACG
*
21314681 GTGCTCTTGATAG
1 GTGCTCCTGATAG
21314694 CATATTCAAG
Statistics
Matches: 144, Mismatches: 59, Indels: 20
0.65 0.26 0.09
Matches are distributed among these distances:
19 8 0.06
20 127 0.88
21 9 0.06
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (20 bp):
GTGCTCCTGATAGTACTACG
Found at i:21314693 original size:40 final size:40
Alignment explanation
Indices: 21314464--21314686 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
21314454 TGAATAAGTG
* *
21314464 CTCCTGATAGTACTACGGTGCTCCTGGA-AATACTTTCGTA
1 CTCCTGATAGCACTACGGTGCTCCT-GACAGTACTTTCGTA
* * *
21314504 CTCCTGATAACACTACGGTGCTCCTGACAATACTTTTGTA
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
* * *
21314544 CTCTTGATAGCACTACGGTGCTCCTGACAGTAGTTTCATA
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
* * * *
21314584 CTCCTGATAGCACTATGGTGCTCCTAACAGTTCTTTTGTA
1 CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
* *
21314624 CTCCT-ATTAGCACTACGGTGCTCTTGATAGTACTTTCGTA
1 CTCCTGA-TAGCACTACGGTGCTCCTGACAGTACTTTCGTA
*
21314664 CTCCTGTTAGCACTACGGTGCTC
1 CTCCTGATAGCACTACGGTGCTC
21314687 TTGATAGCAT
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 154 0.98
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (40 bp):
CTCCTGATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
Done.