Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 14 of 25
Found at i:2150457 original size:28 final size:28
Alignment explanation
Indices: 2150412--2150493 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
2150402 AGTGTTTTAA
* *
2150412 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
2150439 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
2150466 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
2150494 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:2152939 original size:13 final size:13
Alignment explanation
Indices: 2152921--2152946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2152911 ACAAAGATCC
2152921 ATGTATCGATACA
1 ATGTATCGATACA
2152934 ATGTATCGATACA
1 ATGTATCGATACA
2152947 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2152942 original size:33 final size:33
Alignment explanation
Indices: 2152900--2152966 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2152890 AAAATTTCCA
***
2152900 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2152933 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2152966 A
1 A
2152967 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2153010 original size:19 final size:18
Alignment explanation
Indices: 2152986--2153053 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2152976 CAGTAGCTAA
2152986 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2153005 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2153020 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2153037 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2153054 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2153026 original size:13 final size:13
Alignment explanation
Indices: 2153008--2153032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2152998 ACAATACTTA
2153008 TGTATCGATACAT
1 TGTATCGATACAT
2153021 TGTATCGATACA
1 TGTATCGATACA
2153033 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2153030 original size:32 final size:32
Alignment explanation
Indices: 2152989--2153051 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2152979 TAGCTAATTA
*
2152989 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2153021 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2153052 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2153133 original size:21 final size:21
Alignment explanation
Indices: 2153109--2153165 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2153099 CATTTGTAGG
2153109 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2153130 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2153151 ATGTATCGATACATT
1 ATGTATCGATACATT
2153166 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2153199 original size:19 final size:18
Alignment explanation
Indices: 2153176--2153211 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2153166 TAAATTTTTT
2153176 TTTTTTTTTTTTTTCAAA
1 TTTTTTTTTTTTTTCAAA
2153194 TTTTTTTTTTTTTTCAAA
1 TTTTTTTTTTTTTTCAAA
2153212 CACTTTATCT
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:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTTTTTTCAAA
Found at i:2153887 original size:55 final size:54
Alignment explanation
Indices: 2153803--2154590 Score: 1149
Period size: 55 Copynumber: 14.3 Consensus size: 54
2153793 ATAAATTGTA
* * * * * *
2153803 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
2153858 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
2153913 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2153968 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTTAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAGGTG
* *
2154023 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2154078 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2154133 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
2154188 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2154243 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
2154298 TCCTACTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
2154353 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
2154408 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
2154463 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2154518 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2154573 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
2154591 AAAAAGCGGA
Statistics
Matches: 686, Mismatches: 31, Indels: 32
0.92 0.04 0.04
Matches are distributed among these distances:
53 2 0.00
54 21 0.03
55 642 0.94
56 19 0.03
57 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:2154322 original size:26 final size:26
Alignment explanation
Indices: 2154234--2154323 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
2154224 GTGTGGGCTT
* *
2154234 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTACTCTTTGGGGAC
*
2154260 TGAAAGGTG-CC-ACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTA-C-TCTT-TG-GGGAC
*
2154287 TTTAAGAGGTGTCCTACTCTTTGGGGAC
1 -TGAA-AGGTGTCCTACTCTTTGGGGAC
2154315 TGAAAGGTG
1 TGAAAGGTG
2154324 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 8 0.16
30 3 0.06
31 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTACTCTTTGGGGAC
Found at i:2154430 original size:27 final size:27
Alignment explanation
Indices: 2154400--2154543 Score: 64
Period size: 27 Copynumber: 5.3 Consensus size: 27
2154390 TGTGGGCTTT
2154400 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
2154427 GAAA-ATG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
2154454 TAAAAGGTGTCCTGCTCTTTGAGGACTG
1 GA-AAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
2154482 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
2154510 GAAAGGTGTCCTGCTCTTTGAGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
2154536 GAAAGGTG
1 GAAAGGTG
2154544 CCACCAACTT
Statistics
Matches: 78, Mismatches: 29, Indels: 21
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 18 0.23
27 19 0.24
28 19 0.24
29 10 0.13
30 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:2155597 original size:13 final size:12
Alignment explanation
Indices: 2155579--2155626 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
2155569 TCTCTTTTCC
2155579 TTTGTTTTGTTTT
1 TTTGTTTT-TTTT
2155592 TTTGTTTTTTTT
1 TTTGTTTTTTTT
* *
2155604 TGCTCTTTTTTTT
1 T-TTGTTTTTTTT
2155617 TTT-TTTTTTT
1 TTTGTTTTTTT
2155627 GAAGAGAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 7 0.23
12 6 0.19
13 18 0.58
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (12 bp):
TTTGTTTTTTTT
Found at i:2168141 original size:76 final size:78
Alignment explanation
Indices: 2168040--2168243 Score: 227
Period size: 76 Copynumber: 2.6 Consensus size: 78
2168030 GAGATAATAA
* * * * *
2168040 CGGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-
*
2168104 A-TT-AGAA-AAAAT
64 ATTTGAGAATAAAAC
* **
2168116 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* *
2168181 TTTGGGAATAAAGC
65 TTTGAGAATAAAAC
* * *
2168195 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
2168244 GAAATAACGA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
75 7 0.07
76 48 0.45
77 2 0.02
78 3 0.03
79 46 0.43
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTGAGAATAAAAC
Found at i:2168152 original size:28 final size:28
Alignment explanation
Indices: 2168108--2168161 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
2168098 TCGATGATTA
2168108 GAAAAAATCGGGATTGGAGTATCCCTTC
1 GAAAAAATCGGGATTGGAGTATCCCTTC
*
2168136 GAAAATAA-CGGGGTTGGAGTATCCCT
1 GAAAA-AATCGGGATTGGAGTATCCCT
2168162 AATTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
GAAAAAATCGGGATTGGAGTATCCCTTC
Found at i:2168235 original size:28 final size:28
Alignment explanation
Indices: 2168195--2168266 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2168185 GGAATAAAGC
** *
2168195 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2168223 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2168251 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2168267 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2168324 original size:52 final size:50
Alignment explanation
Indices: 2168255--2168424 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
2168245 AAATAACGAG
* * *
2168255 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
2168307 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
*
2168360 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
2168411 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2168425 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:2168443 original size:28 final size:28
Alignment explanation
Indices: 2168398--2168479 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
2168388 AGTGTTTTAA
* *
2168398 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
2168425 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
2168452 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
2168480 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:2170922 original size:13 final size:13
Alignment explanation
Indices: 2170904--2170929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2170894 ACAAAGATCC
2170904 ATGTATCGATACA
1 ATGTATCGATACA
2170917 ATGTATCGATACA
1 ATGTATCGATACA
2170930 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2170925 original size:33 final size:33
Alignment explanation
Indices: 2170883--2170949 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2170873 AAAATTTCCA
***
2170883 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2170916 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2170949 A
1 A
2170950 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2170993 original size:19 final size:18
Alignment explanation
Indices: 2170969--2171040 Score: 84
Period size: 19 Copynumber: 4.2 Consensus size: 18
2170959 CAGTAGCTAA
2170969 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2170988 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2171003 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2171020 TTATGTATCGATACAAA-
1 TTATGTATCGATACAAAC
2171037 TTAT
1 TTAT
2171041 CGATACAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.23
14 1 0.02
16 2 0.04
17 4 0.09
18 4 0.09
19 25 0.53
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2171009 original size:13 final size:13
Alignment explanation
Indices: 2170991--2171015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2170981 ACAATACTTA
2170991 TGTATCGATACAT
1 TGTATCGATACAT
2171004 TGTATCGATACA
1 TGTATCGATACA
2171016 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2171013 original size:32 final size:33
Alignment explanation
Indices: 2170971--2171050 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 33
2170961 GTAGCTAATT
2170971 ATGTATCGATACAATACTTATGTATCGATAC-A
1 ATGTATCGATACAATACTTATGTATCGATACAA
* *
2171003 TTGTATCGATACAAAACTTATGTATCGATACAA
1 ATGTATCGATACAATACTTATGTATCGATACAA
2171036 AT-TATCGATACAATA
1 ATGTATCGATACAATA
2171051 ATTCGTCCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 41 0.95
33 2 0.05
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACAATACTTATGTATCGATACAA
Found at i:2174016 original size:13 final size:13
Alignment explanation
Indices: 2173998--2174022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2173988 TTTTACAAAT
2173998 TGTATCGATACAA
1 TGTATCGATACAA
2174011 TGTATCGATACA
1 TGTATCGATACA
2174023 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2175041 original size:21 final size:20
Alignment explanation
Indices: 2175015--2175055 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2175005 TAACCCATGA
2175015 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAG-TATGT
*
2175036 TTCATGCATTTTTAGTATGT
1 TTCATGCATTTTGAGTATGT
2175056 CCAACACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (20 bp):
TTCATGCATTTTGAGTATGT
Found at i:2176411 original size:69 final size:69
Alignment explanation
Indices: 2176332--2176482 Score: 232
Period size: 69 Copynumber: 2.2 Consensus size: 69
2176322 ATTCCGAGGG
* *
2176332 GATACTCCAACCCTGTTTTTTAAGCTTGTCCA-GATCATTCTTATTTTTACCTAAACTATTATTA
1 GATACTCCAACCCTATTTTTGAAGCTTGT-CATGATCATTCTTATTTTTACCTAAACTATTATTA
2176396 TCGGC
65 TCGGC
* *
2176401 GATACTCCAACCCTATTTTTGAAGCTTGTCATGATCATTTTTATTTTTACCTAAACTATTATTGT
1 GATACTCCAACCCTATTTTTGAAGCTTGTCATGATCATTCTTATTTTTACCTAAACTATTATTAT
*
2176466 CGGG
66 CGGC
*
2176470 GACACTCCAACCC
1 GATACTCCAACCC
2176483 CATTATTCTG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
68 2 0.03
69 73 0.97
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (69 bp):
GATACTCCAACCCTATTTTTGAAGCTTGTCATGATCATTCTTATTTTTACCTAAACTATTATTAT
CGGC
Found at i:2176501 original size:96 final size:96
Alignment explanation
Indices: 2176401--2176709 Score: 413
Period size: 96 Copynumber: 3.2 Consensus size: 96
2176391 TATTATCGGC
* * *
2176401 GATACTCCAACCCTATTTTTGAAGCTTGTCATGATCATTTTTATTTTTACCTAAACTATTATTGT
1 GATACTCCAACCCTATTTTTTAAGCTTGTCAAGATCATTCTTATTTTTACCTAAACTATTATTGT
* * *
2176466 CGGGGACACTCCAACCCCATTATTCTGAGGG
66 CGGGGACACTCCAACCCCATTCTTCCGAAGG
* * * * * *
2176497 GATACTCTAATCCTGTTTTTTTAGCTTGTCAAGATCATTCTTATTTTTACCAAAATTATTATTGT
1 GATACTCCAACCCTATTTTTTAAGCTTGTCAAGATCATTCTTATTTTTACCTAAACTATTATTGT
* *
2176562 CGGGGACACTCCAACGCCATCCTTCCGAAGG
66 CGGGGACACTCCAACCCCATTCTTCCGAAGG
** * *
2176593 GATACTCCAACCCCGTTTTTTAATCTTGTCAAGATCATTCTTATTTTTATCTAAACTATTATTGT
1 GATACTCCAACCCTATTTTTTAAGCTTGTCAAGATCATTCTTATTTTTACCTAAACTATTATTGT
* * *
2176658 C-GGGACACTTCAACCCTATTCCTCCGAAGG
66 CGGGGACACTCCAACCCCATTCTTCCGAAGG
*
2176688 GATACTTCAACCCTATTTTTTA
1 GATACTCCAACCCTATTTTTTA
2176710 GCAAAAAAAC
Statistics
Matches: 183, Mismatches: 30, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
95 43 0.23
96 140 0.77
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (96 bp):
GATACTCCAACCCTATTTTTTAAGCTTGTCAAGATCATTCTTATTTTTACCTAAACTATTATTGT
CGGGGACACTCCAACCCCATTCTTCCGAAGG
Found at i:2178487 original size:35 final size:34
Alignment explanation
Indices: 2178441--2178506 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
2178431 GAAGTGATTG
*
2178441 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTCG-AAAAGATAGGGA
2178476 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
2178507 TGTTATAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
Found at i:2187415 original size:12 final size:12
Alignment explanation
Indices: 2187398--2187422 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2187388 CTTCAACTTG
2187398 GCTGAAACTTAT
1 GCTGAAACTTAT
2187410 GCTGAAACTTAT
1 GCTGAAACTTAT
2187422 G
1 G
2187423 GGCTTATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GCTGAAACTTAT
Found at i:2188990 original size:17 final size:17
Alignment explanation
Indices: 2188957--2188991 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2188947 ACGTGGTTGG
*
2188957 AAGGAAAAGGAACCTGA
1 AAGGAAAAGAAACCTGA
*
2188974 AAGGAAAAGAAATCTGA
1 AAGGAAAAGAAACCTGA
2188991 A
1 A
2188992 TTTCTGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.26, T:0.09
Consensus pattern (17 bp):
AAGGAAAAGAAACCTGA
Found at i:2190494 original size:5 final size:4
Alignment explanation
Indices: 2190445--2190503 Score: 54
Period size: 4 Copynumber: 15.0 Consensus size: 4
2190435 ATTGGTTATT
*
2190445 TTTA TTTA TTTA TTTA TTTA TTGT- TTTA -TTA TTT- TGT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA
2190490 GTTTA TATTA TTTA
1 -TTTA T-TTA TTTA
2190504 AATATTGAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 8 0.17
4 30 0.64
5 9 0.19
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:2191181 original size:3 final size:3
Alignment explanation
Indices: 2191173--2191201 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2191163 ATCAACACCT
2191173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2191202 GTAGACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2191427 original size:20 final size:20
Alignment explanation
Indices: 2191399--2191473 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2191389 TTTTACCTTG
2191399 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2191419 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2191439 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2191459 ATGTATCGATACATT
1 ATGTATCGATACATT
2191474 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2191466 original size:40 final size:39
Alignment explanation
Indices: 2191399--2191476 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2191389 TTTTACCTTG
* *
2191399 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2191439 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2191477 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2192439 original size:22 final size:22
Alignment explanation
Indices: 2192387--2192441 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2192377 AGCCTTTGAC
2192387 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
**
2192409 CATTAATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
2192431 CATGCATTTTT
1 CATGCATTTTT
2192442 AACATGTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:2206751 original size:29 final size:29
Alignment explanation
Indices: 2206709--2208180 Score: 2020
Period size: 28 Copynumber: 51.4 Consensus size: 29
2206699 AATGTTCATC
*
2206709 CCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2206738 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2206767 CTTTTCAAAGCCCACAAGTCAGTGGTAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2206795 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2206823 CCTTTCAAAGCCCACAAGTCAGTAGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2206852 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2206880 CCTTTCAAAGCCCACAAGTCAATGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2206909 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2206937 CCTTTCAAAACCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2206966 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2206995 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207023 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207051 CCTTTCAAAGCCCATAAGTCAGTGGCATT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207080 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207109 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207138 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207166 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207195 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207224 CTTTTCAAAGCCCACAAATCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207252 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207281 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207310 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207339 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207366 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* **
2207395 CCTTTTAAAGCCCATGAGTCAGTGGCACAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-T
* *
2207425 -TTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207453 CTTTTCAAAGCCCACAAGTCAGTGACAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207481 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207510 CCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2207539 CTTTTCAAAGCCCATAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207568 CTTTTCAAAGCCCACAAATCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207596 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207624 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207652 CCTTTCGAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
2207680 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207709 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207736 CCTTTTAAAGCCCACACAAGTTAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
2207767 CCTTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
* * *
2207797 CTTTTCAAAGCCCACGAGTCAGTAGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207826 -CTTTCAAAGCCCACAAGTCGGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207853 CCTTTCAAAGCCCACGAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2207881 CCTTTCAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
2207912 CCTTTCAAAGCCCACGCAAGTCAGTGGCACAT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAC-T
*
2207944 --TTTCAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2207971 -CTTTCAAAGCCTACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2207998 CCTTTC-AAGCCCACGAGTCAGTGGTAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2208025 CTTTTCAAAGCCCACGAGTTAGTGGCA--
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2208052 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2208081 -CTTTCAAAGCCCACGAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2208108 CATTTCAAAGCCCACGCAAGTTAGTGGCA-T
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* ***
2208138 CCTTTTAAAGCCCACGCAAGTCAGTAAAACT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
*
2208169 CTTTTCAAAGCC
1 CCTTTCAAAGCC
2208181 AACATGTGTT
Statistics
Matches: 1301, Mismatches: 107, Indels: 68
0.88 0.07 0.05
Matches are distributed among these distances:
27 50 0.04
28 589 0.45
29 512 0.39
30 89 0.07
31 60 0.05
32 1 0.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:2206978 original size:86 final size:86
Alignment explanation
Indices: 2206709--2208180 Score: 2000
Period size: 86 Copynumber: 17.1 Consensus size: 86
2206699 AATGTTCATC
* * *
2206709 CCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
*
2206774 AAGCCCACAAGTCAGTGGTAC-
65 AAGCCCACAAGTCAGTGGCACT
* *
2206795 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
2206859 AAGCCCACAAGTCAGTGGCAC-
65 AAGCCCACAAGTCAGTGGCACT
* *
2206880 CCTTTCAAAGCCCACAAGTCAATGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
*
2206945 AACCCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
2206966 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
2207031 AGCCCACAAGTCAGTGGCAC-
66 AGCCCACAAGTCAGTGGCACT
* * *
2207051 CCTTTCAAAGCCCATAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
*
2207116 AAGCCCACAAATCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
*
2207138 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
2207202 AAGCCCACAAGTCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
* *
2207224 CTTTTCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
2207288 AAGCCCACAAGTCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
*
2207310 CCTTTCAAAGCCCACAAATCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
2207374 AGCCCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* ** * * *
2207395 CCTTTTAAAGCCCATGAGTCAGTGGCACAT-TTTTCAAAGCCCACAAATCAGTGGCACTCTTTTC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-TCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
*
2207459 AAAGCCCACAAGTCAGTGACAC-
64 AAAGCCCACAAGTCAGTGGCACT
* *
2207481 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
* *
2207546 AAGCCCATAAATCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
* * * *
2207568 CTTTTCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAG
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
2207632 AGCCCACAAGTCAGTGGCAC-
66 AGCCCACAAGTCAGTGGCACT
* * * * * *
2207652 CCTTTCGAAGCCCACAAGTCAGTGGCAC-CATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
2207716 AGCCCACAAGTCAGTGGCAC-
66 AGCCCACAAGTCAGTGGCACT
* * * * * *
2207736 CCTTTTAAAGCCCACACAAGTTAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTACCTTT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGC-C-CACAAGTCAGTGGCACCCTT
* *
2207801 TCAAAGCCCACGAGTCAGTAGCACT
62 TCAAAGCCCACAAGTCAGTGGCACT
* * *
2207826 -CTTTCAAAGCCCACAAGTCGGTGGCA-TCCTTTCAAAGCCCACGAGTTAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
2207889 AGCCCACACAAGTCAGTGGCACT
66 AG-CC-CACAAGTCAGTGGCACT
* *
2207912 CCTTTCAAAGCCCACGCAAGTCAGTGGCACAT--TTTCAAAGCCCACGAGTCAGTGGCACTCTTT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAC-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
*
2207975 CAAAGCCTACAAGTCAGTGGCAC-
63 CAAAGCCCACAAGTCAGTGGCACT
* * * * *
2207998 CCTTTC-AAGCCCACGAGTCAGTGGTAC-CTTTTCAAAGCCCACGAGTTAGTGGCA-CCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
2208060 AGCCCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* * * * *
2208081 -CTTTCAAAGCCCACGAGTCAGTGGCA-TCATTTCAAAGCCCACGCAAGTTAGTGGCATCCTTTT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTC
***
2208144 AAAGCCCACGCAAGTCAGTAAAACT
64 AAAGCCCA--CAAGTCAGTGGCACT
*
2208169 CTTTTCAAAGCC
1 CCTTTCAAAGCC
2208181 AACATGTGTT
Statistics
Matches: 1255, Mismatches: 98, Indels: 63
0.89 0.07 0.04
Matches are distributed among these distances:
82 31 0.02
83 68 0.05
84 103 0.08
85 264 0.21
86 545 0.43
87 125 0.10
88 17 0.01
89 101 0.08
91 1 0.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (86 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
AGCCCACAAGTCAGTGGCACT
Found at i:2208821 original size:20 final size:20
Alignment explanation
Indices: 2208793--2208867 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2208783 TTTTACCTTG
2208793 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2208813 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2208833 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2208853 ATGTATCGATACATT
1 ATGTATCGATACATT
2208868 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2208860 original size:40 final size:39
Alignment explanation
Indices: 2208793--2208870 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2208783 TTTTACCTTG
* *
2208793 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2208833 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2208871 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2209830 original size:22 final size:22
Alignment explanation
Indices: 2209778--2209832 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2209768 AGCCTTTGAC
2209778 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
**
2209800 CATTAATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
2209822 CATGCATTTTT
1 CATGCATTTTT
2209833 AACATGTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:2213191 original size:11 final size:11
Alignment explanation
Indices: 2213175--2213212 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2213165 TAAATATTAA
2213175 ATCAAACTTAG
1 ATCAAACTTAG
* *
2213186 ATCAAATTTCG
1 ATCAAACTTAG
2213197 ATCAAACTTA-
1 ATCAAACTTAG
2213207 ATCAAA
1 ATCAAA
2213213 TCATGTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.29
Consensus pattern (11 bp):
ATCAAACTTAG
Found at i:2213251 original size:20 final size:20
Alignment explanation
Indices: 2213226--2213263 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2213216 TGTTAAATTG
2213226 TTAAATTTAATCAAATCATA
1 TTAAATTTAATCAAATCATA
2213246 TTAAATTTAATCAAATCA
1 TTAAATTTAATCAAATCA
2213264 CAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAATTTAATCAAATCATA
Found at i:2222155 original size:2 final size:2
Alignment explanation
Indices: 2222148--2222188 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2222138 AACTTCTAGC
*
2222148 CT CT CT CT CT CT AT CT CT -T CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2222189 GTATGCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:2223855 original size:3 final size:3
Alignment explanation
Indices: 2223847--2223880 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2223837 TTAAGCAGTA
2223847 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2223881 TTGATAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2225942 original size:5 final size:6
Alignment explanation
Indices: 2225926--2225950 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2225916 AATAATTATT
2225926 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
2225951 TACATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:2225981 original size:24 final size:24
Alignment explanation
Indices: 2225940--2225987 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2225930 AATAAAAATA
* *
2225940 AAAATAAAAATTACATATTAATTAT
1 AAAATAAAAATAAAATATT-ATTAT
2225965 AAAAT-AAAATAAAATATTATTAT
1 AAAATAAAAATAAAATATTATTAT
2225988 TTATTTGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATAAAAATAAAATATTATTAT
Found at i:2226174 original size:13 final size:13
Alignment explanation
Indices: 2226133--2226191 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
2226123 TAATAGGTTA
2226133 AAAATATTATATTT
1 AAAATATTATA-TT
* *
2226147 ATTAATATT-TTTT
1 A-AAATATTATATT
2226160 AAAATATTATATT
1 AAAATATTATATT
*
2226173 AAAATAATAT-TT
1 AAAATATTATATT
2226185 AACAATA
1 AA-AATA
2226192 AATCTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 10 0.27
13 19 0.51
14 2 0.05
15 6 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
AAAATATTATATT
Found at i:2226180 original size:28 final size:28
Alignment explanation
Indices: 2226095--2226184 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 28
2226085 AAATTATTTT
2226095 TAATATTTTTTAAAATA-TATA--AAAA
1 TAATATTTTTTAAAATATTATATTAAAA
** * * *
2226120 TAATAATAGGTTAAAAATATTATATT-TAT
1 TAAT-AT-TTTTTAAAATATTATATTAAAA
2226149 TAATATTTTTTAAAATATTATATTAAAA
1 TAATATTTTTTAAAATATTATATTAAAA
2226177 TAATATTT
1 TAATATTT
2226185 AACAATAAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 23 0.47
28 15 0.31
29 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TAATATTTTTTAAAATATTATATTAAAA
Found at i:2226192 original size:13 final size:12
Alignment explanation
Indices: 2226157--2226264 Score: 57
Period size: 13 Copynumber: 8.9 Consensus size: 12
2226147 ATTAATATTT
*
2226157 TTTAAAATATTA
1 TTTAAAATAATA
2226169 TATTAAAATAATA
1 T-TTAAAATAATA
2226182 TTTAACAATAA-A
1 TTTAA-AATAATA
***
2226194 TCTTATTAAATGGCCA
1 T-TTA--AAAT-AATA
2226210 -TTAAAATAA-A
1 TTTAAAATAATA
2226220 TTTAAAATAATA
1 TTTAAAATAATA
*
2226232 TTT-TAATAATA
1 TTTAAAATAATA
2226243 TTTTAAAAT-AT-
1 -TTTAAAATAATA
*
2226254 TTTAACATAAT
1 TTTAAAATAAT
2226265 TTATTTTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
10 8 0.11
11 18 0.24
12 20 0.26
13 22 0.29
14 6 0.08
15 1 0.01
16 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (12 bp):
TTTAAAATAATA
Found at i:2226254 original size:10 final size:11
Alignment explanation
Indices: 2226225--2226258 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
2226215 ATAAATTTAA
2226225 AATAATATTTT
1 AATAATATTTT
2226236 AATAATATTTT
1 AATAATATTTT
2226247 AA-AATATTTT
1 AATAATATTTT
2226257 AA
1 AA
2226259 CATAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATAATATTTT
Found at i:2226266 original size:11 final size:10
Alignment explanation
Indices: 2226228--2226258 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
2226218 AATTTAAAAT
2226228 AATATTTTAA
1 AATATTTTAA
2226238 TAATATTTTAA
1 -AATATTTTAA
2226249 AATATTTTAA
1 AATATTTTAA
2226259 CATAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATATTTTAA
Found at i:2226280 original size:13 final size:14
Alignment explanation
Indices: 2226262--2226294 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2226252 ATTTTAACAT
2226262 AATTTAT-TTTTAA
1 AATTTATATTTTAA
2226275 AATTTATATTTTAA
1 AATTTATATTTTAA
2226289 ATATTT
1 A-ATTT
2226295 CAAAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTTAA
Found at i:2226294 original size:15 final size:15
Alignment explanation
Indices: 2226250--2226294 Score: 58
Period size: 14 Copynumber: 3.0 Consensus size: 15
2226240 ATATTTTAAA
2226250 ATATTTTAACATAATTT
1 ATATTTTAA-AT-ATTT
2226267 AT-TTTTAAA-ATTT
1 ATATTTTAAATATTT
2226280 ATATTTTAAATATTT
1 ATATTTTAAATATTT
2226295 CAAAAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.23
14 7 0.27
15 5 0.19
16 6 0.23
17 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTTTAAATATTT
Found at i:2226318 original size:51 final size:50
Alignment explanation
Indices: 2226220--2226318 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 50
2226210 TTAAAATAAA
* * * *
2226220 TTTAAAATAATATTTTAATAATATTTTAAAATATTTTAACATAATTTATT
1 TTTAAAATAATATTTTAATAATATTTAAAAATATCTTAAAAAAATTTATT
*
2226270 TTTAAAATTTATATTTT-A-AATATTTCAAAAATATGCTTAAAAAAATTTA
1 TTTAAAA-TAATATTTTAATAATATTT-AAAAATAT-CTTAAAAAAATTTA
2226319 ATCTCATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
49 7 0.17
50 15 0.37
51 19 0.46
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (50 bp):
TTTAAAATAATATTTTAATAATATTTAAAAATATCTTAAAAAAATTTATT
Found at i:2227667 original size:17 final size:18
Alignment explanation
Indices: 2227645--2227688 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
2227635 GTTACAAAAA
2227645 ATATATAATATAAATTT-
1 ATATATAATATAAATTTG
* *
2227662 ATATATAAAATTAATTTG
1 ATATATAATATAAATTTG
*
2227680 TTATATAAT
1 ATATATAAT
2227689 TAATTATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATATAATATAAATTTG
Found at i:2228289 original size:16 final size:17
Alignment explanation
Indices: 2228258--2228292 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2228248 ACCCTTTATA
*
2228258 AATAATATTTTATATTT
1 AATAATATTATATATTT
2228275 AATAATA-TATATATTT
1 AATAATATTATATATTT
2228291 AA
1 AA
2228293 AAGTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATATTATATATTT
Found at i:2228363 original size:25 final size:25
Alignment explanation
Indices: 2228296--2228364 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
2228286 TATTTAAAAG
*
2228296 TAATAATATTTTATTGTTTTAACTT
1 TAATAATATTTTATTATTTTAACTT
* ** *
2228321 TACTAATA-TTTAAAATTTT-ATTT
1 TAATAATATTTTATTATTTTAACTT
2228344 TAAATAATATTTTATTATTTT
1 T-AATAATATTTTATTATTTT
2228365 TTTCTTCCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 4 0.12
24 14 0.41
25 16 0.47
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (25 bp):
TAATAATATTTTATTATTTTAACTT
Found at i:2230365 original size:30 final size:30
Alignment explanation
Indices: 2230296--2230365 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
2230286 TGTACTTTAA
* *
2230296 TATTATTTTTTAAATTAATTATCAAATTAT
1 TATTATTTTTAAAATTAATTATAAAATTAT
*
2230326 TAATA-TTTTAAAA-TATATTATTAAAATT-T
1 TATTATTTTTAAAATTA-ATTA-TAAAATTAT
2230355 TATTATTTTTA
1 TATTATTTTTA
2230366 TTCACGAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 2 0.06
29 16 0.48
30 15 0.45
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (30 bp):
TATTATTTTTAAAATTAATTATAAAATTAT
Found at i:2230707 original size:20 final size:21
Alignment explanation
Indices: 2230684--2230744 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 21
2230674 ATATAAATTA
*
2230684 TTAATATATCAAAAT-TTATT
1 TTAATATATCAAAATATGATT
2230704 TTAATATAATATCATAAATATGATT
1 TT-A-AT-ATATCA-AAATATGATT
2230729 TTAATATAT-AAAATAT
1 TTAATATATCAAAATAT
2230745 ATGAATACAC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 8 0.23
21 2 0.06
22 6 0.17
23 8 0.23
24 5 0.14
25 6 0.17
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAATATATCAAAATATGATT
Found at i:2230714 original size:25 final size:26
Alignment explanation
Indices: 2230689--2230736 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
2230679 AATTATTAAT
*
2230689 ATATCA-AAAT-TTATTTTAATAT-A
1 ATATCATAAATATGATTTTAATATAA
2230712 ATATCATAAATATGATTTTAATATA
1 ATATCATAAATATGATTTTAATATA
2230737 TAAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 4 0.19
25 11 0.52
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATCATAAATATGATTTTAATATAA
Found at i:2230791 original size:12 final size:12
Alignment explanation
Indices: 2230769--2230809 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
2230759 AAAATACAAA
2230769 ATAAT-TAAAAT
1 ATAATATAAAAT
*
2230780 TTAATATAAAAT
1 ATAATATAAAAT
*
2230792 ATAATATAAAAA
1 ATAATATAAAAT
2230804 ATAATA
1 ATAATA
2230810 CGAGTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:2230825 original size:23 final size:22
Alignment explanation
Indices: 2230789--2230854 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
2230779 TTTAATATAA
*
2230789 AATATAATATAAAAAATAATACG
1 AATATTATAT-AAAAATAATACG
*
2230812 AGTATTATATAAAAATAATACG
1 AATATTATATAAAAATAATACG
*
2230834 AATATTAAATGAAAAATAATA
1 AATATTATAT-AAAAATAATA
2230855 TGAACATGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (22 bp):
AATATTATATAAAAATAATACG
Found at i:2230828 original size:22 final size:23
Alignment explanation
Indices: 2230789--2230872 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
2230779 TTTAATATAA
*
2230789 AATATAATATAAAAAATAATACG
1 AATATTATATAAAAAATAATACG
*
2230812 AGTATTATAT-AAAAATAATACG
1 AATATTATATAAAAAATAATACG
* * *
2230834 AATATTAAATGAAAAATAATATG
1 AATATTATATAAAAAATAATACG
* * *
2230857 AACATGACATAAAAAA
1 AATATTATATAAAAAA
2230873 ATATAAATAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 20 0.39
23 31 0.61
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (23 bp):
AATATTATATAAAAAATAATACG
Found at i:2230926 original size:11 final size:11
Alignment explanation
Indices: 2230912--2230941 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2230902 TATTAACAGT
2230912 TTATTTTTATA
1 TTATTTTTATA
*
2230923 TTATATTTATA
1 TTATTTTTATA
2230934 TTATTTTT
1 TTATTTTT
2230942 TCGTATTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:2231478 original size:28 final size:29
Alignment explanation
Indices: 2231421--2231481 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
2231411 TTATGAGATA
*
2231421 AAAATAATAATATTTTGATAATATATTTT
1 AAAATAATAATATTTTGATAATATAATTT
*
2231450 AAAATAATAGTA-TTTGATTAAT-TAATTT
1 AAAATAATAATATTTTGA-TAATATAATTT
2231478 AAAA
1 AAAA
2231482 AACTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AAAATAATAATATTTTGATAATATAATTT
Found at i:2232640 original size:18 final size:17
Alignment explanation
Indices: 2232613--2232646 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2232603 AAAATTACAA
*
2232613 TATTAGTATAATATATTT
1 TATTAATATAA-ATATTT
2232631 TATTAATATAAATATT
1 TATTAATATAAATATT
2232647 AAAAGAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTAATATAAATATTT
Found at i:2233245 original size:16 final size:15
Alignment explanation
Indices: 2233224--2233259 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
2233214 CATTTTAAAA
2233224 ATTTAAAATAAAACGT
1 ATTTAAAATAAAA-GT
2233240 ATTT-AAATAAAAGT
1 ATTTAAAATAAAAGT
2233254 ATTTAA
1 ATTTAA
2233260 TATTTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 9 0.47
16 4 0.21
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (15 bp):
ATTTAAAATAAAAGT
Found at i:2233257 original size:14 final size:15
Alignment explanation
Indices: 2233224--2233259 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
2233214 CATTTTAAAA
2233224 ATTTAAAATAAAACGT
1 ATTT-AAATAAAACGT
2233240 ATTTAAATAAAA-GT
1 ATTTAAATAAAACGT
2233254 ATTTAA
1 ATTTAA
2233260 TATTTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (15 bp):
ATTTAAATAAAACGT
Found at i:2233512 original size:27 final size:26
Alignment explanation
Indices: 2233457--2233515 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
2233447 AATTAAATTT
2233457 AAAATCTTAAAAAATATAAAAAATAA
1 AAAATCTTAAAAAATATAAAAAATAA
* *
2233483 AAAATTTTAAAATAATATAATAAAGTAA
1 AAAATCTTAAAA-AATATAA-AAAATAA
2233511 AAAAT
1 AAAAT
2233516 TAAATCTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 11 0.38
27 7 0.24
28 11 0.38
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATCTTAAAAAATATAAAAAATAA
Found at i:2234465 original size:17 final size:16
Alignment explanation
Indices: 2234431--2234481 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
2234421 TATATAGTAT
2234431 AAAT-TATTAATATAATA
1 AAATATATTAA-AT-ATA
*
2234448 AAATTTATGTAAATATA
1 AAATATAT-TAAATATA
2234465 AAATATATTAAATATA
1 AAATATATTAAATATA
2234481 A
1 A
2234482 TTATCACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 9 0.29
17 14 0.45
18 5 0.16
19 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
AAATATATTAAATATA
Found at i:2244014 original size:13 final size:13
Alignment explanation
Indices: 2243996--2244025 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2243986 TATAATAACT
2243996 ATAAGTATTAAAA
1 ATAAGTATTAAAA
*
2244009 ATAAGTTTTAAAA
1 ATAAGTATTAAAA
2244022 ATAA
1 ATAA
2244026 AATAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
ATAAGTATTAAAA
Found at i:2245337 original size:2 final size:2
Alignment explanation
Indices: 2245330--2245359 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2245320 ATGCTGTACA
*
2245330 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2245360 TCTAGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2248221 original size:22 final size:22
Alignment explanation
Indices: 2248195--2248254 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
2248185 TTTAATTGAG
*
2248195 TTTGGGTCAATCAGGTTTAACA
1 TTTGGGTCAATCAAGTTTAACA
2248217 TTT-GGTCAATCAAGTTTAACA
1 TTTGGGTCAATCAAGTTTAACA
* **
2248238 CTTGGGTTTATCAAGTT
1 TTTGGGTCAATCAAGTT
2248255 AGATCATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (22 bp):
TTTGGGTCAATCAAGTTTAACA
Found at i:2250564 original size:3 final size:3
Alignment explanation
Indices: 2250556--2250592 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2250546 TGTAAGCACA
2250556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2250593 TTATTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2254340 original size:51 final size:51
Alignment explanation
Indices: 2254276--2254458 Score: 147
Period size: 51 Copynumber: 3.6 Consensus size: 51
2254266 ATTATGCGCA
** * * *
2254276 AACTAATACGGACTTGGGTTCTATAGGGCCTGACCTTCCTATATAGGTGCT
1 AACTAATGTGGACTTAGATTCTATAGGGCCTGACCTTCCTATACAGGTGCT
* * * * *
2254327 AGCTAATGTGGACTTAGATTTTATATGGCTTGACCTTTCTATACAGGTGCT
1 AACTAATGTGGACTTAGATTCTATAGGGCCTGACCTTCCTATACAGGTGCT
* ** * *
2254378 AACTAATGTGGACATT-GACTT-TATAGCGTTTGACC-TCCTTATACAAGTGCC
1 AACTAATGTGGAC-TTAGA-TTCTATAGGGCCTGACCTTCC-TATACAGGTGCT
* * *
2254429 AACTAATATGGACTTTAGGTTTTATAGGGC
1 AACTAATGTGGAC-TTAGATTCTATAGGGC
2254459 TTAATCTCCC
Statistics
Matches: 105, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
50 2 0.02
51 92 0.88
52 11 0.10
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (51 bp):
AACTAATGTGGACTTAGATTCTATAGGGCCTGACCTTCCTATACAGGTGCT
Found at i:2254842 original size:3 final size:3
Alignment explanation
Indices: 2254834--2254907 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
2254824 AATCAATAGG
2254834 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2254882 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
2254908 TCAAAAGAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2255143 original size:17 final size:17
Alignment explanation
Indices: 2255117--2255151 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2255107 ATTCCATGCC
*
2255117 TTCATGCCTTCATGCAT
1 TTCATACCTTCATGCAT
2255134 TTCATACCTTCATGCAT
1 TTCATACCTTCATGCAT
2255151 T
1 T
2255152 GATTATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.43
Consensus pattern (17 bp):
TTCATACCTTCATGCAT
Found at i:2255793 original size:21 final size:21
Alignment explanation
Indices: 2255768--2255827 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
2255758 CAATAACAGT
*
2255768 AGCAACGA-CAACAGCAACCGA
1 AGCAAC-ACCAACAACAACCGA
*
2255789 AGCAACACCAACAACAACTGA
1 AGCAACACCAACAACAACCGA
* *
2255810 AGCAACACTAGCAACAAC
1 AGCAACACCAACAACAAC
2255828 AATAGCAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (21 bp):
AGCAACACCAACAACAACCGA
Found at i:2255815 original size:12 final size:10
Alignment explanation
Indices: 2255800--2255857 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 10
2255790 GCAACACCAA
2255800 CAACAACTGAAG
1 CAACAACT--AG
2255812 CAAC-ACTAG
1 CAACAACTAG
2255821 CAACAACAATAG
1 CAACAAC--TAG
2255833 CAACAAC-AG
1 CAACAACTAG
*
2255842 CAAC-AGTAG
1 CAACAACTAG
2255851 CAACAAC
1 CAACAAC
2255858 ACAAGCAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
8 1 0.03
9 18 0.46
10 3 0.08
11 3 0.08
12 14 0.36
ACGTcount: A:0.52, C:0.29, G:0.12, T:0.07
Consensus pattern (10 bp):
CAACAACTAG
Found at i:2255851 original size:18 final size:18
Alignment explanation
Indices: 2255824--2255858 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2255814 ACACTAGCAA
2255824 CAACAATAGCAACAACAG
1 CAACAATAGCAACAACAG
*
2255842 CAACAGTAGCAACAACA
1 CAACAATAGCAACAACA
2255859 CAAGCAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.29, G:0.11, T:0.06
Consensus pattern (18 bp):
CAACAATAGCAACAACAG
Found at i:2255857 original size:21 final size:21
Alignment explanation
Indices: 2255762--2255858 Score: 67
Period size: 21 Copynumber: 4.8 Consensus size: 21
2255752 CTTAAGCAAT
* *
2255762 AACAGTAGCAACGACAACAGC
1 AACAGTAGCAACAACAACAAC
* * *
2255783 AACCGAAGCAACACCAACAAC
1 AACAGTAGCAACAACAACAAC
* * *
2255804 AACTGAAGCAAC-ACTAGCAAC
1 AACAGTAGCAACAAC-AACAAC
* *
2255825 AACAATAG---CAACAACAGC
1 AACAGTAGCAACAACAACAAC
2255843 AACAGTAGCAACAACA
1 AACAGTAGCAACAACA
2255859 CAAGCAAATA
Statistics
Matches: 57, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
18 12 0.21
19 2 0.04
20 1 0.02
21 42 0.74
ACGTcount: A:0.52, C:0.30, G:0.13, T:0.05
Consensus pattern (21 bp):
AACAGTAGCAACAACAACAAC
Found at i:2255865 original size:30 final size:30
Alignment explanation
Indices: 2255775--2255865 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
2255765 AGTAGCAACG
* *
2255775 ACAACAGCAACCGAAGCAAC-AC-CAA-CA
1 ACAACAGCAACAGTAGCAACAACACAAGCA
*
2255802 ACAACTGAAGCAACACTAGCAACAACA-ATAGCA
1 ACAAC---AGCAACAGTAGCAACAACACA-AGCA
2255835 ACAACAGCAACAGTAGCAACAACACAAGCA
1 ACAACAGCAACAGTAGCAACAACACAAGCA
2255865 A
1 A
2255866 ATAAGCAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 5 0.10
30 35 0.67
31 4 0.08
32 1 0.02
33 7 0.13
ACGTcount: A:0.53, C:0.31, G:0.12, T:0.04
Consensus pattern (30 bp):
ACAACAGCAACAGTAGCAACAACACAAGCA
Found at i:2255900 original size:11 final size:11
Alignment explanation
Indices: 2255884--2255920 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2255874 TAAGAAACGG
2255884 CAGCAAGTAAA
1 CAGCAAGTAAA
*
2255895 CAGCAA--AAG
1 CAGCAAGTAAA
2255904 CAGCAAGTAAA
1 CAGCAAGTAAA
2255915 CAGCAA
1 CAGCAA
2255921 AAATAACAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.54, C:0.22, G:0.19, T:0.05
Consensus pattern (11 bp):
CAGCAAGTAAA
Found at i:2255908 original size:20 final size:20
Alignment explanation
Indices: 2255883--2255922 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2255873 ATAAGAAACG
2255883 GCAGCAAGTAAACAGCAAAA
1 GCAGCAAGTAAACAGCAAAA
2255903 GCAGCAAGTAAACAGCAAAA
1 GCAGCAAGTAAACAGCAAAA
2255923 ATAACAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.20, G:0.20, T:0.05
Consensus pattern (20 bp):
GCAGCAAGTAAACAGCAAAA
Found at i:2255930 original size:20 final size:20
Alignment explanation
Indices: 2255885--2255953 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
2255875 AAGAAACGGC
**
2255885 AGCAAGTAAACAGCAAAAGC
1 AGCAAGTAAACAGCAAAAAT
2255905 AGCAAGTAAACAGCAAAAAT
1 AGCAAGTAAACAGCAAAAAT
* *
2255925 AACAAGCAAGCACCAGCAAAAAT
1 AGCAAGTAA--A-CAGCAAAAAT
2255948 AGCAAG
1 AGCAAG
2255954 CAAATACCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.61
22 1 0.02
23 15 0.37
ACGTcount: A:0.57, C:0.20, G:0.17, T:0.06
Consensus pattern (20 bp):
AGCAAGTAAACAGCAAAAAT
Found at i:2255943 original size:23 final size:23
Alignment explanation
Indices: 2255915--2255991 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
2255905 AGCAAGTAAA
*
2255915 CAGCAAAAATAACAAGCAAGCAC
1 CAGCAAAAATAACAAGCAAACAC
* *
2255938 CAGCAAAAATAGCAAGCAAATAC
1 CAGCAAAAATAACAAGCAAACAC
* *
2255961 CAAC-AAAATCAACAACCAAACAC
1 CAGCAAAAAT-AACAAGCAAACAC
*
2255984 TAGCAAAA
1 CAGCAAAA
2255992 TAGCAATCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
22 5 0.12
23 35 0.81
24 3 0.07
ACGTcount: A:0.58, C:0.26, G:0.09, T:0.06
Consensus pattern (23 bp):
CAGCAAAAATAACAAGCAAACAC
Found at i:2255952 original size:43 final size:46
Alignment explanation
Indices: 2255895--2255997 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 46
2255885 AGCAAGTAAA
** * * * *
2255895 CAGCAAAAGCAGCAAGTAAACAGC-A-AAAAT-AACAAGCAAGCAC
1 CAGCAAAAATAGCAAGCAAACACCAACAAAATCAACAACCAAACAC
*
2255938 CAGCAAAAATAGCAAGCAAATACCAACAAAATCAACAACCAAACAC
1 CAGCAAAAATAGCAAGCAAACACCAACAAAATCAACAACCAAACAC
*
2255984 TAGC-AAAATAGCAA
1 CAGCAAAAATAGCAA
2255998 TCAAGGAAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 19 0.39
44 1 0.02
45 15 0.31
46 14 0.29
ACGTcount: A:0.57, C:0.24, G:0.12, T:0.07
Consensus pattern (46 bp):
CAGCAAAAATAGCAAGCAAACACCAACAAAATCAACAACCAAACAC
Found at i:2260111 original size:51 final size:51
Alignment explanation
Indices: 2259946--2260598 Score: 278
Period size: 51 Copynumber: 12.8 Consensus size: 51
2259936 ACGACAACAG
** * * * * *
2259946 GTGCTAGCTAATGTAAACTTTGGGCTCTATAGGGCTTGACTTCCCTATACAG
1 GTGCTAGCTAATGTGGA-TTTTGACTCTATAGGGCTTGACCTCCTTATACAA
* * ** * * * *
2259998 GTGCCAGCT-A-GT-GATTTGGGTTTTATA-GGTTTGACCT-CTCTATATAG
1 GTGCTAGCTAATGTGGATTTTGACTCTATAGGGCTTGACCTCCT-TATACAA
* *
2260045 GTGCCAACTAATGTGGATTTTGACTCTATAGGGCTTGACCTCCTTATACAA
1 GTGCTAGCTAATGTGGATTTTGACTCTATAGGGCTTGACCTCCTTATACAA
* * * ** * * * * * *
2260096 GTACTAGTTATTGTGGACTTGGGGCTTTATATGGTTTAACCTCCTTATGCAA
1 GTGCTAGCTAATGTGGA-TTTTGACTCTATAGGGCTTGACCTCCTTATACAA
** * * * *
2260148 GTGCTAGCTAATGTGGACTTAGGATTCTATAGAGCTTAACCTCCTTATACAT
1 GTGCTAGCTAATGTGGA-TTTTGACTCTATAGGGCTTGACCTCCTTATACAA
* * *
2260200 GTGCTACCAAATGTGGACTTTGACTCTATAGGGCTTGACGCT-C--ATACACA
1 GTGCTAGCTAATGTGGATTTTGACTCTATAGGGCTTGAC-CTCCTTATACA-A
* * * * * * * * *
2260250 GTTACCAGATAATATGGACTTGGACTCTATAGGGTTTGATCTCCCTATACAA
1 G-TGCTAGCTAATGTGGATTTTGACTCTATAGGGCTTGACCTCCTTATACAA
* * ** * * * *
2260302 GTG-TCAGCTAAGGTGGACTTTGGGTTTTATACGGCTTGACTTCC-TATACAG
1 GTGCT-AGCTAATGTGGA-TTTTGACTCTATAGGGCTTGACCTCCTTATACAA
* * * * *
2260353 GTGCTAGCTAGTGTGGACTTTAACTTTATAGGGCTTGACCTTCC-TGTACAA
1 GTGCTAGCTAATGTGGATTTTGACTCTATAGGGCTTGACC-TCCTTATACAA
* ** *
2260404 GTGC-CGACTAATGTGGACTTTTAGGTTCTATAGAGCTTGACCTCCTTATACAA
1 GTGCTAG-CTAATGTGGA-TTTT-GACTCTATAGGGCTTGACCTCCTTATACAA
* * * * * * ** *
2260457 GT-ATAGGCTAATGTAGACTTTGACTCTATATGACTTAACCT-CTCGTACAT
1 GTGCTA-GCTAATGTGGATTTTGACTCTATAGGGCTTGACCTCCTTATACAA
* ** ** * * *
2260507 GTG-TCAGCTAAGGTGGACATTGGTTCCATAAGGCTTGACCTTCC-TATACAG
1 GTGCT-AGCTAATGTGGATTTTGACTCTATAGGGCTTGACC-TCCTTATACAA
* * * *
2260558 GTGGC-AACTACTGTAGATTTGGACTCTATAGGGCTTGACCT
1 GT-GCTAGCTAATGTGGATTTTGACTCTATAGGGCTTGACCT
2260599 TTCTCTACAA
Statistics
Matches: 443, Mismatches: 129, Indels: 60
0.70 0.20 0.09
Matches are distributed among these distances:
46 1 0.00
47 22 0.05
48 12 0.03
49 8 0.02
50 68 0.15
51 170 0.38
52 125 0.28
53 36 0.08
54 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (51 bp):
GTGCTAGCTAATGTGGATTTTGACTCTATAGGGCTTGACCTCCTTATACAA
Found at i:2261529 original size:70 final size:71
Alignment explanation
Indices: 2261439--2261590 Score: 216
Period size: 71 Copynumber: 2.2 Consensus size: 71
2261429 CACCCAGATA
* * *
2261439 TATCGATACATTTTTTAATGTAGCAATACATTCTGTC-TTTTACCCAAATGTATCGACACATTTT
1 TATCGATACATATATGAATGTAGCAATACATTCTGTCTTTTTACCCAAATGTATCGACACATTTT
2261503 TCAATG
66 TCAATG
* * * * *
2261509 TGTCGATACATATATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATACATTTT
1 TATCGATACATATATGAATGTAGCAATACATTCTGTCTTTTTACCCAAATGTATCGACACATTTT
2261574 TCAATG
66 TCAATG
*
2261580 TATTGATACAT
1 TATCGATACAT
2261591 CTAGATAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
70 31 0.44
71 40 0.56
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (71 bp):
TATCGATACATATATGAATGTAGCAATACATTCTGTCTTTTTACCCAAATGTATCGACACATTTT
TCAATG
Found at i:2265118 original size:36 final size:36
Alignment explanation
Indices: 2265078--2265173 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 36
2265068 AAGAGAAGTT
2265078 TTGGAAGTTTTTAATGAAACATCCTCAAAAGAGGCA
1 TTGGAAGTTTTTAATGAAACATCCTCAAAAGAGGCA
* * * * * *
2265114 TTGGAGGTTTTGT--TAAAATATTCTTAAAAGAGGCT
1 TTGGAAGTTTT-TAATGAAACATCCTCAAAAGAGGCA
* * *
2265149 TTGAAAATGTTTAATGAAACATCCT
1 TTGGAAGTTTTTAATGAAACATCCT
2265174 TAAGAGAAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
34 1 0.02
35 24 0.55
36 18 0.41
37 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (36 bp):
TTGGAAGTTTTTAATGAAACATCCTCAAAAGAGGCA
Found at i:2265554 original size:16 final size:16
Alignment explanation
Indices: 2265535--2265565 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2265525 TTGAATGAAA
*
2265535 ATGTATATGAGTGCAG
1 ATGTAGATGAGTGCAG
2265551 ATGTAGATGAGTGCA
1 ATGTAGATGAGTGCA
2265566 ATTACACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (16 bp):
ATGTAGATGAGTGCAG
Found at i:2270305 original size:92 final size:92
Alignment explanation
Indices: 2270179--2270366 Score: 281
Period size: 92 Copynumber: 2.0 Consensus size: 92
2270169 AATTACCTTA
*
2270179 ATGATGGTAATATGATGCATGTGCATCATCATGTCTCTAGTAT-ACC-TGCCATGACAGCATGGC
1 ATGATGGTAATATGATGCATGTGCATCATCATGTCCCTAG-ATCACCAT-CCATGACAGCATGGC
* * *
2270242 TTTTGAAGGGAACGAATCCATACGAATGG
64 TCTTGAAGGGAACGAATCCATAAGAATAG
* *
2270271 ATGATGGTAATATGATGCATGTGCATCATCATGTCCCTAGATCACCATTCATGATAGCATGGCTC
1 ATGATGGTAATATGATGCATGTGCATCATCATGTCCCTAGATCACCATCCATGACAGCATGGCTC
*
2270336 TTGTAGGGAACGAATCCATAAGAATAG
66 TTGAAGGGAACGAATCCATAAGAATAG
2270363 ATGA
1 ATGA
2270367 ATTATGCAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
91 2 0.02
92 84 0.97
93 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (92 bp):
ATGATGGTAATATGATGCATGTGCATCATCATGTCCCTAGATCACCATCCATGACAGCATGGCTC
TTGAAGGGAACGAATCCATAAGAATAG
Found at i:2272059 original size:20 final size:20
Alignment explanation
Indices: 2272034--2272071 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2272024 TTACCAAGGA
2272034 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2272054 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
2272072 ATCGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:2272076 original size:13 final size:13
Alignment explanation
Indices: 2272058--2272082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2272048 TTATTCAATG
2272058 TATCGATACATTA
1 TATCGATACATTA
2272071 TATCGATACATT
1 TATCGATACATT
2272083 GATCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2272080 original size:33 final size:33
Alignment explanation
Indices: 2272038--2272101 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
2272028 CAAGGAAATG
2272038 TATCGATACATT-ATTCAATGTATCGATACATTA
1 TATCGATACATTGA-TCAATGTATCGATACATTA
**
2272071 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
2272102 CTAGGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTA
Found at i:2275545 original size:13 final size:13
Alignment explanation
Indices: 2275529--2275555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2275519 TGCACCCACA
2275529 CGTGCATTAGATT
1 CGTGCATTAGATT
2275542 CGTGCATTAGATT
1 CGTGCATTAGATT
2275555 C
1 C
2275556 CTGCCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (13 bp):
CGTGCATTAGATT
Found at i:2278008 original size:12 final size:12
Alignment explanation
Indices: 2277991--2278028 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
2277981 ACCCCAGGCT
2277991 AACCCAAATGCC
1 AACCCAAATGCC
2278003 AACCCAAATGCC
1 AACCCAAATGCC
*
2278015 AACCCTAATGCC
1 AACCCAAATGCC
2278027 AA
1 AA
2278029 TAATGCACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.39, G:0.08, T:0.11
Consensus pattern (12 bp):
AACCCAAATGCC
Found at i:2279187 original size:10 final size:9
Alignment explanation
Indices: 2279163--2279208 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
2279153 TCAAAAGTAA
*
2279163 AAAAAAAAG
1 AAAAAAAAC
2279172 AAAAAAAAC
1 AAAAAAAAC
2279181 AACAAAAAAC
1 AA-AAAAAAC
*
2279191 ACATAAAAAC
1 A-AAAAAAAC
2279201 AAAAAAAA
1 AAAAAAAA
2279209 ATAGTGCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 16 0.50
10 15 0.47
11 1 0.03
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2279209 original size:10 final size:10
Alignment explanation
Indices: 2279161--2279209 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
2279151 AGTCAAAAGT
2279161 AAAAAAAAA-
1 AAAAAAAAAC
2279170 AGAAAAAAAAC
1 A-AAAAAAAAC
*
2279181 AACAAAAAAC
1 AAAAAAAAAC
* *
2279191 ACATAAAAAC
1 AAAAAAAAAC
2279201 AAAAAAAAA
1 AAAAAAAAA
2279210 TAGTGCAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
9 1 0.03
10 30 0.94
11 1 0.03
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:2280497 original size:32 final size:33
Alignment explanation
Indices: 2280456--2280645 Score: 182
Period size: 32 Copynumber: 6.0 Consensus size: 33
2280446 AATTCTTCAA
*
2280456 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTTCCAAGTCCACGACTCAGTGGC
2280488 ATCTCTTTTC-T--AAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTTCCAAGTCCACGACTCAGTGGC
* *
2280518 ATC-CTTTTCTTCCAAGTCCACGACTGAATGGC
1 ATCTCTTTTCTTCCAAGTCCACGACTCAGTGGC
* *
2280550 ATC-CTTTTCTTCCAAGTCCATGACTCCGTGGC
1 ATCTCTTTTCTTCCAAGTCCACGACTCAGTGGC
** * *
2280582 ATCT-TTTTCCTTTTAAGTCCACAACTCTGTGGC
1 ATCTCTTTT-CTTCCAAGTCCACGACTCAGTGGC
* ** *
2280615 A--ACTTTTCTTTTTAAGTCCACGACTCTGTGG
1 ATCTCTTTTC-TTCCAAGTCCACGACTCAGTGG
2280646 TACCCTTTTC
Statistics
Matches: 138, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
29 6 0.04
30 23 0.17
31 1 0.01
32 88 0.64
33 20 0.14
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.36
Consensus pattern (33 bp):
ATCTCTTTTCTTCCAAGTCCACGACTCAGTGGC
Found at i:2280653 original size:97 final size:94
Alignment explanation
Indices: 2280460--2280783 Score: 249
Period size: 97 Copynumber: 3.3 Consensus size: 94
2280450 CTTCAAATCT
* *
2280460 CTTTTC-TCAAAGTCCACGACTCAGTGGCATCTCTTTT-C-TAAGTCCACGACTCAGTGGCATCC
1 CTTTTCTTCAAAGTCCACGACTCCGTGGCATCT-TTTTCCTTAAGTCCACAACTCAGTGGCA-CC
** * *
2280522 TTTTCTTCCAAGTCCACGACTGAATGGCATC
64 TTTTCTTTTAAGTCCACGACTCAATGGCACC
* * * *
2280553 CTTTTCTTCCAAGTCCATGACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAAC
1 CTTTTCTTCAAAGTCCACGACTCCGTGGCATCTTTTTCC--TTAAGTCCACAACTCAGTGGCACC
** *
2280618 TTTTCTTTTTAAGTCCACGACTCTGTGGTACC
64 TTTTC-TTTTAAGTCCACGACTCAATGGCACC
** * * * *
2280650 CTTTTCCCTTTTAAGCCCCCGCCTCCGTGGCACCTCTTTTTCCTATAAGTCCACAACTCCGTGGC
1 CTTTT--CTTCAAAGTCCACGACTCCGTGGCA--TCTTTTTCCT-TAAGTCCACAACTCAGTGGC
* * **
2280715 ACCTTGTTCCTTTTAAAGCCCACAACTCCGTGGCACAC
61 ACCTT-TT-CTTTT-AAGTCCACGACTCAATGGCAC-C
* ** *
2280753 TTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CTTTT-CTTCAAAGTCCACGACTCCGTGGCA
2280784 CCCTTTTAAG
Statistics
Matches: 186, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
93 10 0.05
94 24 0.13
96 6 0.03
97 43 0.23
99 20 0.11
100 23 0.12
101 15 0.08
102 40 0.22
103 5 0.03
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.34
Consensus pattern (94 bp):
CTTTTCTTCAAAGTCCACGACTCCGTGGCATCTTTTTCCTTAAGTCCACAACTCAGTGGCACCTT
TTCTTTTAAGTCCACGACTCAATGGCACC
Found at i:2280711 original size:34 final size:34
Alignment explanation
Indices: 2280563--2280968 Score: 353
Period size: 34 Copynumber: 12.4 Consensus size: 34
2280553 CTTTTCTTCC
**
2280563 AAGTCCATGACTCCGTGGCA-TCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
2280596 AAGTCCACAACTCTGTGGCA-AC-TTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * * *
2280628 AAGTCCACGACTCTGTGGTACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * ** *
2280662 AAGCCCCCGCCTCCGTGGCACCTCTTTTTCC-TAT
1 AAGTCCACAACTCCGTGGCA-CTCTTTTTCCTTTT
*
2280696 AAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
2280729 AAAGCCCACAACTCCGTGGCACACTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
2280764 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * *
2280791 AAGTTCATAAGTCTGTGGCA-TCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
2280824 AAGTCTACAACTCCGTGGCAC-CTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
2280857 AAGTCCACAACTCTGTGGCAC-C-TTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
** *
2280889 AAGTCCATGACTCCGTGGCAC-CCTTTTCCATTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCC-TTTT
* * * *
2280923 AAGCCCACACCTCCGTGGCATCTTTTTTTCC-TGT
1 AAGTCCACAACTCCGTGGCA-CTCTTTTTCCTTTT
2280957 AAGTCCACAACT
1 AAGTCCACAACT
2280969 TTGTGACACC
Statistics
Matches: 302, Mismatches: 54, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.07
28 1 0.00
32 62 0.21
33 79 0.26
34 112 0.37
35 20 0.07
36 6 0.02
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (34 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:2280734 original size:68 final size:65
Alignment explanation
Indices: 2280563--2280968 Score: 357
Period size: 66 Copynumber: 6.2 Consensus size: 65
2280553 CTTTTCTTCC
** * * *
2280563 AAGTCCATGACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAACT-TTTCTT--
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTTAAGCCCACAACTCCGTGGC-ACTCTTT-TTCC
2280625 TTT
63 TTT
* * * * **
2280628 AAGTCCACGACTCTGTGGTACCCTTTTCCCTTTTAAGCCCCCGCCTCCGTGGCACCTCTTTTTCC
1 AAGTCCACAACTCCGTGGCA-CCTTTT-CCTTTTAAGCCCACAACTCCGTGGCA-CTCTTTTTCC
*
2280693 TAT
63 TTT
*
2280696 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAAGCCCACAACTCCGTGGCACACTTTTTCCT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCC-
2280761 TTT
63 TTT
** * * *
2280764 AAGTCCACAACTCCGTGGCA-C----CCTTTTAAGTTCATAAGTCTGTGGCA-TCTTTTTCCTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC-TT
2280823 T
65 T
* * * *
2280824 AAGTCTACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCAC-C-TTTTCTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTC-CT
2280887 TT
64 TT
** * *
2280889 AAGTCCATGACTCCGTGGCACCCTTTTCCATTTTAAGCCCACACCTCCGTGGCATCTTTTTTTCC
1 AAGTCCACAACTCCGTGGCA-CCTTTTCC-TTTTAAGCCCACAACTCCGTGGCA-CTCTTTTTCC
*
2280954 TGT
63 TTT
2280957 AAGTCCACAACT
1 AAGTCCACAACT
2280969 TTGTGACACC
Statistics
Matches: 279, Mismatches: 41, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
60 31 0.11
61 16 0.06
62 6 0.02
65 52 0.19
66 73 0.26
67 24 0.09
68 72 0.26
69 5 0.02
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (65 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
Found at i:2280808 original size:27 final size:27
Alignment explanation
Indices: 2280758--2280915 Score: 91
Period size: 33 Copynumber: 5.2 Consensus size: 27
2280748 CACACTTTTT
2280758 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
2280785 CCTTTTAAGTTCATAAGTCTGTGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
*
2280813 TTTTTCCTTTTAAGTCTACAACTCCGTGGCACC
1 -----CCTTTTAAGTCCACAACTCCGTGGCA-C
*
2280846 TTGTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
**
2280878 CTTTTCTTTTTAAGTCCATGACTCCGTGGCAC
1 C----C-TTTTAAGTCCACAACTCCGTGGCAC
2280910 CCTTTT
1 CCTTTT
2280916 CCATTTTAAG
Statistics
Matches: 104, Mismatches: 16, Indels: 22
0.73 0.11 0.15
Matches are distributed among these distances:
27 27 0.26
28 2 0.02
31 1 0.01
32 24 0.23
33 50 0.48
ACGTcount: A:0.18, C:0.29, G:0.15, T:0.38
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:2280819 original size:60 final size:59
Alignment explanation
Indices: 2280685--2280915 Score: 212
Period size: 60 Copynumber: 3.7 Consensus size: 59
2280675 CGTGGCACCT
* * *
2280685 CTTTTTCC-TATAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAAGCCCACAACTCCGTGGC
1 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTT-AAGTCCACAACTCTGTGG-
2280749 ACA
58 -CA
* * *
2280752 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTTCATAAGTCTGTGGCA
1 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA
*
2280811 TCTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGC
1 -CTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCTGTGGC
2280876 A
59 A
* * **
2280877 CCTTTTCTTTTTAAGTCCATGACTCCGTGGCACCCTTTT
1 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
2280916 CCATTTTAAG
Statistics
Matches: 141, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
59 8 0.06
60 31 0.22
61 14 0.10
62 6 0.04
64 1 0.01
65 27 0.19
66 23 0.16
67 9 0.06
68 22 0.16
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (59 bp):
CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA
Found at i:2280892 original size:32 final size:32
Alignment explanation
Indices: 2280491--2280968 Score: 326
Period size: 34 Copynumber: 14.6 Consensus size: 32
2280481 CAGTGGCATC
* *
2280491 TCTTTTCTAAGTCCACGACTCAGTGGCATCCTTT
1 TCTTTT-TAAGTCCACAACTCCGTGGCA-CCTTT
** * ***
2280525 TC-TTCCAAGTCCACGACTGAATGGCATCCTTT
1 TCTTTTTAAGTCCACAACTCCGTGGCA-CCTTT
** ** *
2280557 TC-TTCCAAGTCCATGACTCCGTGGCATCTTTT
1 TCTTTTTAAGTCCACAACTCCGTGGCA-CCTTT
* * *
2280589 TCCTTTTAAGTCCACAACTCTGTGGCAACTTT
1 TCTTTTTAAGTCCACAACTCCGTGGCACCTTT
* * *
2280621 TCTTTTTAAGTCCACGACTCTGTGGTACCCTTT
1 TCTTTTTAAGTCCACAACTCCGTGGCA-CCTTT
* * * **
2280654 TCCCTTTTAAGCCCCCGCCTCCGTGGCACCTCTT
1 T-CTTTTTAAGTCCACAACTCCGTGGCACCT-TT
*
2280688 T-TTCCTATAAGTCCACAACTCCGTGGCACCTTGT
1 TCTT--TTTAAGTCCACAACTCCGTGGCACCTT-T
* *
2280722 TCCTTTTAAAGCCCACAACTCCGTGGCACACTTTT
1 T-CTTTTTAAGTCCACAACTCCGTGGCAC-C-TTT
*
2280757 TCCTTTTAAGTCCACAACTCCGTGGCACC---
1 TCTTTTTAAGTCCACAACTCCGTGGCACCTTT
* * * * *
2280786 -C-TTTTAAGTTCATAAGTCTGTGGCATCTTTT
1 TCTTTTTAAGTCCACAACTCCGTGGCA-CCTTT
* *
2280817 TCCTTTTAAGTCTACAACTCCGTGGCACCTTGT
1 TCTTTTTAAGTCCACAACTCCGTGGCACCTT-T
* *
2280850 TCCTTTTAAGTCCACAACTCTGTGGCACCTTT
1 TCTTTTTAAGTCCACAACTCCGTGGCACCTTT
**
2280882 TCTTTTTAAGTCCATGACTCCGTGGCACCCTTT
1 TCTTTTTAAGTCCACAACTCCGTGGCA-CCTTT
* * * *
2280915 TCCATTTTAAGCCCACACCTCCGTGGCATCTTT
1 T-CTTTTTAAGTCCACAACTCCGTGGCACCTTT
2280948 T-TTTCCTGTAAGTCCACAACT
1 TCTTT--T-TAAGTCCACAACT
2280969 TTGTGACACC
Statistics
Matches: 357, Mismatches: 64, Indels: 46
0.76 0.14 0.10
Matches are distributed among these distances:
27 20 0.06
28 2 0.01
31 2 0.01
32 109 0.31
33 92 0.26
34 125 0.35
35 3 0.01
36 4 0.01
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (32 bp):
TCTTTTTAAGTCCACAACTCCGTGGCACCTTT
Found at i:2281131 original size:87 final size:87
Alignment explanation
Indices: 2280985--2281280 Score: 448
Period size: 87 Copynumber: 3.4 Consensus size: 87
2280975 CACCTTTAAT
* * * *
2280985 ACCAATGTCGTTGGCTTTGAATCAGTACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAAC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGC
*
2281050 ATATTGGCACCTTGTCTCCAAG
66 ATATTGGCACCTTGTCTCTAAG
* *
2281072 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATGAGCCCACTATCGCTGGCCTTGAATCAGC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGC
2281137 ATATTGGCACCTTGTCTCTAAG
66 ATATTGGCACCTTGTCTCTAAG
* * * *
2281159 ACCAATGTTGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTCGCTTTCAATCAGC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGC
* * *
2281224 ATATTGGCACTTTATCTTTAAG
66 ATATTGGCACCTTGTCTCTAAG
* *
2281246 ACCAATGTTGCTGGCCTTGAATCAGCATATTGGCA
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2281281 CTTTATCTTT
Statistics
Matches: 192, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 192 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (87 bp):
ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGC
ATATTGGCACCTTGTCTCTAAG
Found at i:2281278 original size:135 final size:136
Alignment explanation
Indices: 2281118--2281609 Score: 474
Period size: 135 Copynumber: 3.6 Consensus size: 136
2281108 GAGCCCACTA
* *
2281118 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTTGCTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCA
* * *
2281183 GCACATTGGCATAAGCCCAATATCGCTCGCTTTCAATCAGCATATTGGCA-CTTTATCTTTAAGA
66 GCACATTGGCACAAGCCCAATATCGCTCGCCTTCAATCAGCATATTGGCACCTTCATCTTTAAGA
2281247 CCAATG
131 CCAATG
* * * *
2281253 TTGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGAGCAATGTCGCTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCA
* *
2281318 GCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
66 GCACATTGGCACAAGCCCAATATCGCTCGCCTTCAATCAGCATATTGGCACCTTCATCTTTAAGA
*
2281383 CTAATG
131 CCAATG
* * * * *
2281389 TCGCTAGCCTTGAATCAGCACATTGGCACC---T-T-TAAGTCTAATATCGCTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCA
* * * * * * ** * * *
2281449 GTATATTGGCACCGTCATCTTTAAGACCAATGTTGCTGGCCTAGAATCAACACATTGGCATCTTC
66 GCACATT-G----G-CA-C---AAGCCCAATATCGCTCGCCTTCAATCAGCATATTGGCACCTTC
* *
2281514 ATCTTTAAGTCCGATG
121 ATCTTTAAGACCAATG
* * * * * *
2281530 TCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGTTGGCCTTGT
1 TCGCTGGCCTTGAATCAGCATATTGGCA-CCTTATC--T-CTAAGACCAATGTCGCTGGCCTTGA
* *
2281595 CTCAGCATATTGGCA
62 ATCAGCACATTGGCA
2281610 TTCTTCTTCA
Statistics
Matches: 293, Mismatches: 44, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
131 29 0.10
132 2 0.01
133 1 0.00
135 105 0.36
136 45 0.15
137 2 0.01
138 1 0.00
141 74 0.25
142 1 0.00
144 2 0.01
145 1 0.00
148 1 0.00
149 1 0.00
150 28 0.10
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (136 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCA
GCACATTGGCACAAGCCCAATATCGCTCGCCTTCAATCAGCATATTGGCACCTTCATCTTTAAGA
CCAATG
Found at i:2281414 original size:49 final size:49
Alignment explanation
Indices: 2281340--2281712 Score: 325
Period size: 49 Copynumber: 7.7 Consensus size: 49
2281330 AAGCCCAATA
*
2281340 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACTAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATG
* * *
2281389 TCGCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCTAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATG
* * * *
2281432 TCGCTGGCCTTGAATCAGTATATTGGCACCGTCATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATG
* * * * * **
2281481 TTGCTGGCCTAGAATCAACACATTGGCATCTTCATCTTTAAGTCCGATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATG
* * * * * *
2281530 TCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGTCTAATG
* ** * *
2281582 TCGTTGGCCTTGTCTCAGCATATTGGCA--TTCTTCTTCAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATG
* * * *
2281629 TCGCTGGCCTTGAATCAGCACATTGTCATTCTTCGCATCTTTAAG-CTTAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CATCTTTAAGTC-TAATG
*
2281681 TCACTGGTCC-TGAATCAGCATATTGGCACCTT
1 TCGCTGG-CCTTGAATCAGCATATTGGCACCTT
2281713 TATCACTCTT
Statistics
Matches: 260, Mismatches: 48, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
43 37 0.14
45 1 0.00
47 32 0.12
49 108 0.42
50 7 0.03
51 4 0.02
52 69 0.27
53 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATG
Found at i:2281436 original size:43 final size:43
Alignment explanation
Indices: 2281375--2281461 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
2281365 GCACCTTCAT
*
2281375 CTTTAAGACTAATGTCGCTAGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGACTAATATCGCTAGCCTTGAATCAGCACATTGGCAC
* * * *
2281418 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGTATATTGGCAC
1 CTTTAAGACTAATATCGCTAGCCTTGAATCAGCACATTGGCAC
2281461 C
1 C
2281462 GTCATCTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGACTAATATCGCTAGCCTTGAATCAGCACATTGGCAC
Found at i:2281470 original size:92 final size:87
Alignment explanation
Indices: 2281255--2281508 Score: 357
Period size: 92 Copynumber: 2.9 Consensus size: 87
2281245 GACCAATGTT
*
2281255 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGAGCAATGTCGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA-CAATGTCGCTGGCCTTGAATCAG
2281319 CACATTGGCACAAGCCCAATATC
65 CACATTGGCACAAGCCCAATATC
*
2281342 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACTAATGTCGCTAGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGAC-AATGTCGCTGGCCTTGAATCAG
* *
2281407 CACATTGGCACCTTTAAGTCTAATATC
65 CACATTGGCA-C---AAGCCCAATATC
* * * * *
2281434 GCTGGCCTTGAATCAGTATATTGGCACCGTCATCTTTAAGACCAATGTTGCTGGCCTAGAATCAA
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA-CAATGTCGCTGGCCTTGAATCAG
2281499 CACATTGGCA
65 CACATTGGCA
2281509 TCTTCATCTT
Statistics
Matches: 150, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
87 27 0.18
88 44 0.29
89 1 0.01
92 77 0.51
93 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (87 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACAATGTCGCTGGCCTTGAATCAGC
ACATTGGCACAAGCCCAATATC
Found at i:2281560 original size:92 final size:87
Alignment explanation
Indices: 2281239--2281564 Score: 275
Period size: 92 Copynumber: 3.6 Consensus size: 87
2281229 GGCACTTTAT
* * * *
2281239 CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGAGCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-C---ATCTTTAAGACCAATGTCG
* * *
2281304 CTGGCCTTGAATCAGCACATTGGCA-
62 CTAGCCTAGAATCAACACATTGGCAC
* *
2281329 C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACTAATGTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---C--CATCTTTAAGACCAATGTC
* *
2281391 GCTAGCCTTGAATCAGCACATTGGCAC
61 GCTAGCCTAGAATCAACACATTGGCAC
* * *
2281418 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCGTCATCTTTAAGACCAATGTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---C--CATCTTTAAGACCAATGTC
*
2281483 GCTGGCCTAGAATCAACACATTGGCATCTTC
61 GCTAGCCTAGAATCAACACATTGGCA----C
* * *
2281514 ATCTTTAAGTCCGATGTCGTTGGCCTTGAATCAGCATATTGG-CATCTTTAA
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCCATCTTTAA
2281565 CATTCCTAAG
Statistics
Matches: 201, Mismatches: 21, Indels: 26
0.81 0.08 0.10
Matches are distributed among these distances:
87 33 0.16
88 41 0.20
89 1 0.00
90 2 0.01
91 1 0.00
92 87 0.43
96 1 0.00
98 35 0.17
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (87 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCCATCTTTAAGACCAATGTCGCTAG
CCTAGAATCAACACATTGGCAC
Found at i:2288877 original size:27 final size:27
Alignment explanation
Indices: 2288843--2288898 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
2288833 CCCTTTTCTT
**
2288843 TTGCTATTGGAATCTCTCGACTATTTC
1 TTGCTATTAAAATCTCTCGACTATTTC
2288870 TTGCTATTAAAATCTCTCGACTATTTC
1 TTGCTATTAAAATCTCTCGACTATTTC
2288897 TT
1 TT
2288899 TCTCTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.46
Consensus pattern (27 bp):
TTGCTATTAAAATCTCTCGACTATTTC
Found at i:2289918 original size:51 final size:52
Alignment explanation
Indices: 2289863--2290111 Score: 179
Period size: 52 Copynumber: 4.8 Consensus size: 52
2289853 AGTTTTAAAG
* ** *
2289863 GGCTTGACCTCTCTATATAGGTGCCGGCTAAGGTGGAC-TTGGATTCTATAA
1 GGCTTGACCTCTCTATACAGGTGCCAACTAAGGTAGACTTTGGATTCTATAA
* * * *
2289914 GGCTTGATCTCTTTATACAGGTGCCAACT-AGTGTGGACATT-GACTT-TAT-A
1 GGCTTGACCTCTCTATACAGGTGCCAACTAAG-GTAGACTTTGGA-TTCTATAA
* * * * * *
2289964 GAGCTTGACCTCTCGATACAGGTGTCAGCTAAAGTAGACTTTAGG-CTCTATAG
1 G-GCTTGACCTCTCTATACAGGTGCCAACTAAGGTAGACTTT-GGATTCTATAA
* * ** * *
2290017 GGCTTAACTTCTCTATACAGGCACCAACTAATGTAGACTTTGGGTTCTATAA
1 GGCTTGACCTCTCTATACAGGTGCCAACTAAGGTAGACTTTGGATTCTATAA
* * * * *
2290069 GGCTTGACCTC-CTCATACAAGTGCTAGCTAATGTGGACTTTGG
1 GGCTTGACCTCTCT-ATACAGGTGCCAACTAAGGTAGACTTTGG
2290112 GTTGCCAATT
Statistics
Matches: 154, Mismatches: 33, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
50 4 0.03
51 70 0.45
52 78 0.51
53 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (52 bp):
GGCTTGACCTCTCTATACAGGTGCCAACTAAGGTAGACTTTGGATTCTATAA
Found at i:2290320 original size:51 final size:51
Alignment explanation
Indices: 2290139--2290850 Score: 421
Period size: 51 Copynumber: 13.9 Consensus size: 51
2290129 TCTGAGATTC
* * * *
2290139 TATAAGGCTTGACCTCCATATACATGTGCCAGCTAATATGGACTTT-AGGTT
1 TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGA-CTT
* * * * * * * * *
2290190 CTATAGGGCTTCATCT-CTCTATACATGTGCAAACTAGTGTGGAC-TTAAGTTT
1 -TATAAGGCTTGACCTCCT-TATACAAGTGCCAGCTAATGTGGACTTTGA-CTT
** * * * *
2290242 TATTGGGCTTGACCT-TTCTATTA-AGGTGCCAACTAATGTGGACTTTGACTA
1 TATAAGGCTTGACCTCCT-TA-TACAAGTGCCAGCTAATGTGGACTTTGACTT
* * * ** *
2290293 TATAAGGCTTGACCTCCTTATATAGGTGCTAATTAATGTGGA-TTTGAGGTT
1 TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGA-CTT
* * * * **
2290344 CTATAGAGG-TTGACCTTCTTAGACAAGTGCCAGTTAATGT-GACTTAGGGTTT
1 -TATA-AGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTT-TGACTT
* * * * * * *
2290396 TATAGGGCTTAACCT-CTCTATACATGTGCTAGCTAATATGGATTTTAACTT
1 TATAAGGCTTGACCTCCT-TATACAAGTGCCAGCTAATGTGGACTTTGACTT
* * * * * * *
2290447 TATAGGGTTTGACCTCCCTATATAGGTGCCAACTAATGTGAACTTTGACTT
1 TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGACTT
* * **
2290498 TATAAGGCTTGACCTCCTTATACAAGTGTCAG-TTATGGTGGACTTTAGGTTT
1 TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAAT-GTGGACTTT-GACTT
* * * *
2290550 TATAAGGCTTGACCTCTTTATACAAGTGCTAGTTTATGTGGACTTTGACTT
1 TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGACTT
* * * * * *
2290601 CAT-AGAGCTTGACCTCCTTATACAAGCGCTAGCTAATATGGAATTT-AGGTT
1 TATAAG-GCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGA-CTT
* *
2290652 CTAT-AGAGCTTGACCT-CTCATACAAGTGCCAACTAATGTGGACTTTGACTT
1 -TATAAG-GCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGACTT
* * * * * * **
2290703 TAT-AGGACTTAACCTACC-TATACAAGTGTCAGTTAAGGCGGGCTTTGGGTT
1 TATAAGG-CTTGACCT-CCTTATACAAGTGCCAGCTAATGTGGACTTTGACTT
* * * * *
2290754 GTATAAGGCTTGACTTTCTTATACAAGTGCTAGCTAGTATGGACTTTGACTT
1 -TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGACTT
* * * * *
2290806 TATAGGGCTTGATCTTCTTATACAGGTGCCAGCTAATGTAGACTT
1 TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTT
2290851 GGATTTAGAT
Statistics
Matches: 511, Mismatches: 121, Indels: 57
0.74 0.18 0.08
Matches are distributed among these distances:
49 1 0.00
50 29 0.06
51 300 0.59
52 170 0.33
53 11 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (51 bp):
TATAAGGCTTGACCTCCTTATACAAGTGCCAGCTAATGTGGACTTTGACTT
Found at i:2290396 original size:154 final size:153
Alignment explanation
Indices: 2290139--2290850 Score: 486
Period size: 154 Copynumber: 4.6 Consensus size: 153
2290129 TCTGAGATTC
* * * * * * *
2290139 TATAAGGCTTGACCTCCATATACATGTGCCAGCTAATATGGACTTT-AGGTTCTATAG-GGCTTC
1 TATAAGGCTTGACCTCCTTATATAGGTGCTAACTAATGTGGA-TTTGAGGTTCTATAGAGG-TTG
* * * ** * * *
2290202 ATC-TCTCTATACATGTGCAAACTAGTGTGGACTTAAGTTTTATTGGGCTTGACCTTTCTATTA-
64 ACCTTCT-TATACAAGTGCCAGTTAATGTGGACTTAGGTTTTATAGGGCTTGACCTTTCTA-TAC
* * *
2290265 AGGTGCCAACTAATGTGGACTTTGACT
127 AAGTGCTAGCTAATGTGGACTTTGACT
*
2290292 ATATAAGGCTTGACCTCCTTATATAGGTGCTAATTAATGTGGATTTGAGGTTCTATAGAGGTTGA
1 -TATAAGGCTTGACCTCCTTATATAGGTGCTAACTAATGTGGATTTGAGGTTCTATAGAGGTTGA
* * * *
2290357 CCTTCTTAGACAAGTGCCAGTTAATGT-GACTTAGGGTTTTATAGGGCTTAACCTCTCTATACAT
65 CCTTCTTATACAAGTGCCAGTTAATGTGGACTTA-GGTTTTATAGGGCTTGACCTTTCTATACAA
* * *
2290421 GTGCTAGCTAATATGGATTTTAACTT
129 GTGCTAGCTAATGTGGACTTTGAC-T
* * * * * *
2290447 TATAGGGTTTGACCTCCCTATATAGGTGCCAACTAATGTGAACTTTGA-CTT-TATA-AGGCTTG
1 TATAAGGCTTGACCTCCTTATATAGGTGCTAACTAATGTGGA-TTTGAGGTTCTATAGAGG-TTG
* * *
2290509 ACCTCCTTATACAAGTGTCAGTT-ATGGTGGACTTTAGGTTTTATAAGGCTTGACCTCTT-TATA
64 ACCTTCTTATACAAGTGCCAGTTAAT-GTGGAC-TTAGGTTTTATAGGGCTTGACCT-TTCTATA
* *
2290572 CAAGTGCTAGTTTATGTGGACTTTGACT
126 CAAGTGCTAGCTAATGTGGACTTTGACT
* * * * * *
2290600 TCAT-AGAGCTTGACCTCCTTATACAAGCGCTAGCTAATATGGAATTT-AGGTTCTATAGAGCTT
1 T-ATAAG-GCTTGACCTCCTTATATAGGTGCTAACTAATGTGG-ATTTGAGGTTCTATAGAGGTT
* ** * ** * * **
2290663 GACC-TCTCATACAAGTGCCAACTAATGTGGACTTTGACTTTATAGGACTTAACCTACCTATACA
63 GACCTTCTTATACAAGTGCCAGTTAATGTGGACTTAGGTTTTATAGGGCTTGACCTTTCTATACA
* * * * **
2290727 AGTG-TCAGTTAAGGCGGGCTTTGGGTT
128 AGTGCT-AGCTAATGTGGACTTT-GACT
* * * * * * * *
2290754 GTATAAGGCTTGACTTTCTTATACAAGTGCTAGCTAGTATGGACTTTGA-CTT-TATAG-GGCTT
1 -TATAAGGCTTGACCTCCTTATATAGGTGCTAACTAATGTGGA-TTTGAGGTTCTATAGAGG-TT
* * * *
2290816 GATCTTCTTATACAGGTGCCAGCTAATGTAGACTT
63 GACCTTCTTATACAAGTGCCAGTTAATGTGGACTT
2290851 GGATTTAGAT
Statistics
Matches: 444, Mismatches: 86, Indels: 56
0.76 0.15 0.10
Matches are distributed among these distances:
152 7 0.02
153 94 0.21
154 309 0.70
155 32 0.07
156 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (153 bp):
TATAAGGCTTGACCTCCTTATATAGGTGCTAACTAATGTGGATTTGAGGTTCTATAGAGGTTGAC
CTTCTTATACAAGTGCCAGTTAATGTGGACTTAGGTTTTATAGGGCTTGACCTTTCTATACAAGT
GCTAGCTAATGTGGACTTTGACT
Found at i:2290494 original size:205 final size:204
Alignment explanation
Indices: 2290117--2290842 Score: 652
Period size: 205 Copynumber: 3.5 Consensus size: 204
2290107 TTTGGGTTGC
* * * * * * * *
2290117 CAATTAGTGTGG-TCTGAGATTCTATAAGGCTTGACCTCCATATACATGTGCCAGCTAATATGGA
1 CAATTAATGTGGATTTGAGGTTCTATAAGGCTTGACCTTCTTATACAAGTGCCAGTTAATGTGGA
* * * * * * * * * *
2290181 CTTTAGGTTCTATAGGGCTTCATCTCTCTATACATGTGCAAACTAGTGTGGACTTAAGTTTTATT
66 C-TTAGGTTTTATAGGGCTTAACCTCTCTATACATGTGCTAGCTAATATGGATTTAA-CTTTATA
* *
2290246 GGGCTTGACCTTTCTAT-TAAGGTGCCAACTAATGTGGACTTTGACTATATAAGGCTTGACCTCC
129 GGGCTTGACCTCTCTATAT-AGGTGCCAACTAATGTGGACTTTGACTTTATAAGGCTTGACCTCC
* *
2290310 TTATATAGGTG-
193 TTATACAAGTGT
*
2290321 CTAATTAATGTGGATTTGAGGTTCTATAGAGG-TTGACCTTCTTAGACAAGTGCCAGTTAATGT-
1 C-AATTAATGTGGATTTGAGGTTCTATA-AGGCTTGACCTTCTTATACAAGTGCCAGTTAATGTG
2290384 GACTTAGGGTTTTATAGGGCTTAACCTCTCTATACATGTGCTAGCTAATATGGATTTTAACTTTA
64 GACTTA-GGTTTTATAGGGCTTAACCTCTCTATACATGTGCTAGCTAATATGGA-TTTAACTTTA
* * *
2290449 TAGGGTTTGACCTCCCTATATAGGTGCCAACTAATGTGAACTTTGACTTTATAAGGCTTGACCTC
127 TAGGGCTTGACCTCTCTATATAGGTGCCAACTAATGTGGACTTTGACTTTATAAGGCTTGACCTC
2290514 CTTATACAAGTGT
192 CTTATACAAGTGT
* * * *
2290527 CAGTT-ATGGTGGACTTT-AGGTTTTATAAGGCTTGACC-TCTTTATACAAGTGCTAGTTTATGT
1 CAATTAAT-GTGGA-TTTGAGGTTCTATAAGGCTTGACCTTC-TTATACAAGTGCCAGTTAATGT
* ** * * * * * **
2290589 GGACTTTGACTTCATAGAGCTTGACCTC-CTTATACAAGCGCTAGCTAATATGGAATTTAGGTTC
63 GGACTTAGGTTTTATAGGGCTTAACCTCTC-TATACATGTGCTAGCTAATATGG-ATTTAACTT-
* * * *
2290653 TATAGAGCTTGACCTCTC-ATACAAGTGCCAACTAATGTGGACTTTGACTTTAT-AGGACTTAAC
125 TATAGGGCTTGACCTCTCTATATAGGTGCCAACTAATGTGGACTTTGACTTTATAAGG-CTTGAC
2290716 CTACC-TATACAAGTGT
189 CT-CCTTATACAAGTGT
* * * * * * * * * *
2290732 CAGTTAAGGCGGGCTTTG-GGTTGTATAAGGCTTGACTTTCTTATACAAGTGCTAGCTAGTATGG
1 CAATTAATG-TGGATTTGAGGTTCTATAAGGCTTGACCTTCTTATACAAGTGCCAGTTAATGTGG
* ** * * * *
2290796 ACTTTGACTTTATAGGGCTTGATCT-TCTTATACAGGTGCCAGCTAAT
65 ACTTAGGTTTTATAGGGCTTAACCTCTC-TATACATGTGCTAGCTAAT
2290843 GTAGACTTGG
Statistics
Matches: 437, Mismatches: 63, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
204 15 0.03
205 345 0.79
206 74 0.17
207 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (204 bp):
CAATTAATGTGGATTTGAGGTTCTATAAGGCTTGACCTTCTTATACAAGTGCCAGTTAATGTGGA
CTTAGGTTTTATAGGGCTTAACCTCTCTATACATGTGCTAGCTAATATGGATTTAACTTTATAGG
GCTTGACCTCTCTATATAGGTGCCAACTAATGTGGACTTTGACTTTATAAGGCTTGACCTCCTTA
TACAAGTGT
Found at i:2290804 original size:103 final size:101
Alignment explanation
Indices: 2290277--2290829 Score: 376
Period size: 103 Copynumber: 5.4 Consensus size: 101
2290267 GTGCCAACTA
* * * * *
2290277 ATGTGGACTTTGACTATATAAGG-CTTGACCTCCTTATATAGGTG-CTAATTAATGTGGA-TTTG
1 ATGTGGACTTTGACTTTAT-AGGACTTGACCTCCTTATACAAGTGTC-AGTTAAGGTGGACTTT-
* * *
2290339 AGGTTCTATAGAGG-TTGACCTTCTTAGACAAGTGCCAGTT
63 AGGTTCTATA-AGGCTTGACC-TCTTATACAAGTGCTAGCT
* ** * * * * ** *
2290379 AATGT-GACTTAGGGTTTTATAGGGCTTAACCT-CTCTATACATGTG-CTAGCTAATATGGATTT
1 -ATGTGGACTT-TGACTTTATAGGACTTGACCTCCT-TATACAAGTGTC-AGTTAAGGTGGACTT
** * * * * * * *
2290441 TAACTT-TATAGGGTTTGACCTCCCTATATAGGTGCCAACT
62 TAGGTTCTATAAGGCTTGACCT-CTTATACAAGTGCTAGCT
* *
2290481 AATGTGAACTTTGACTTTATAAGG-CTTGACCTCCTTATACAAGTGTCAGTTATGGTGGACTTTA
1 -ATGTGGACTTTGACTTTAT-AGGACTTGACCTCCTTATACAAGTGTCAGTTAAGGTGGACTTTA
* *
2290545 GGTTTTATAAGGCTTGACCTCTTTATACAAGTGCTAGTTT
64 GGTTCTATAAGGCTTGACCTC-TTATACAAGTGCTAG-CT
* * * ** *
2290585 ATGTGGACTTTGACTTCATA-GAGCTTGACCTCCTTATACAAGCG-CTAGCTAATATGGAATTTA
1 ATGTGGACTTTGACTTTATAGGA-CTTGACCTCCTTATACAAGTGTC-AGTTAAGGTGGACTTTA
* * *
2290648 GGTTCTAT-AGAGCTTGACCTCTCATACAAGTGCCAACT
64 GGTTCTATAAG-GCTTGACCTCTTATACAAGTGCTAGCT
* * * *
2290686 AATGTGGACTTTGACTTTATAGGACTTAACCTACC-TATACAAGTGTCAGTTAAGGCGGGCTTTG
1 -ATGTGGACTTTGACTTTATAGGACTTGACCT-CCTTATACAAGTGTCAGTTAAGGTGGACTTTA
* *
2290750 GGTTGTATAAGGCTTGACTTTCTTATACAAGTGCTAGCT
64 GGTTCTATAAGGCTTGAC-CTCTTATACAAGTGCTAGCT
* * * *
2290789 AGTATGGACTTTGACTTTATAGGGCTTGATCTTCTTATACA
1 A-TGTGGACTTTGACTTTATAGGACTTGACCTCCTTATACA
2290830 GGTGCCAGCT
Statistics
Matches: 352, Mismatches: 73, Indels: 50
0.74 0.15 0.11
Matches are distributed among these distances:
101 5 0.01
102 151 0.43
103 192 0.55
104 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (101 bp):
ATGTGGACTTTGACTTTATAGGACTTGACCTCCTTATACAAGTGTCAGTTAAGGTGGACTTTAGG
TTCTATAAGGCTTGACCTCTTATACAAGTGCTAGCT
Found at i:2294908 original size:21 final size:21
Alignment explanation
Indices: 2294884--2294940 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2294874 AATTTATCCA
2294884 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2294905 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2294926 AATGTATCGATACAT
1 AATGTATCGATACAT
2294941 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2295019 original size:19 final size:19
Alignment explanation
Indices: 2294995--2295062 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2294985 AATTCAACAA
2294995 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2295014 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2295029 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2295046 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2295063 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2295034 original size:13 final size:13
Alignment explanation
Indices: 2295016--2295040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2295006 ACATAAGTTT
2295016 TGTATCGATACAA
1 TGTATCGATACAA
2295029 TGTATCGATACA
1 TGTATCGATACA
2295041 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.