Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008123.1 Hibiscus syriacus cultivar Beakdansim tig00110677_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 770294
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3588 original size:21 final size:21
Alignment explanation
Indices: 3546--3588 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3536 TTTCTGGGCT
*
3546 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
3567 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
3588 A
1 A
3589 AAGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:4459 original size:103 final size:103
Alignment explanation
Indices: 4131--4451 Score: 615
Period size: 103 Copynumber: 3.1 Consensus size: 103
4121 GTAGAGGGTC
4131 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
4196 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
4234 TATGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
4299 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
4337 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
4402 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
4440 TATGTGGTCCTT
1 TATGTGGTCCTT
4452 ATGGACATTA
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:4495 original size:23 final size:23
Alignment explanation
Indices: 4468--4519 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
4458 ATTATTATAT
*
4468 GGCACTATGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
4491 GGCACTCCGGTGCAATTTTACGT
1 GGCACTACGGTGCAATTCTACGC
4514 GGCACT
1 GGCACT
4520 TAGGTACAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:4529 original size:23 final size:23
Alignment explanation
Indices: 4467--4530 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
4457 CATTATTATA
4467 TGGCAC-TATGGTGCAATTCTACG
1 TGGCACTTA-GGTGCAATTCTACG
* ** *
4490 CGGCACTCCGGTGCAATTTTACG
1 TGGCACTTAGGTGCAATTCTACG
*
4513 TGGCACTTAGGTACAATT
1 TGGCACTTAGGTGCAATT
4531 ATATGAGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (23 bp):
TGGCACTTAGGTGCAATTCTACG
Found at i:4849 original size:19 final size:19
Alignment explanation
Indices: 4825--4873 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
4815 AATGTAGGGT
4825 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
** *
4844 TAATTTTACATACGATTTA
1 TAATTTTGTATAAGATTTA
4863 TAATTTTGTAT
1 TAATTTTGTAT
4874 GTGAATGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:7779 original size:199 final size:196
Alignment explanation
Indices: 7336--8056 Score: 855
Period size: 199 Copynumber: 3.6 Consensus size: 196
7326 ACCTAAATAT
*
7336 GTGTTGATACATTTTCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTTC-AAAAGTATCGATCCC-AAAAACATCGAAACCAATAATTATAATGTAAT
* * * * * *
7400 AGGTAAATTAACAAGGTAACCGATATAAATATATCAGTTAATTAGAAAACAGGTCAACATAATA-
64 AGGTAAATTTACAATGTAACCGATATAAATATACCAGTTTATGAGAAAATAGGTC-ACATAA-AG
* ** * * *
7464 TATCTACACTTGTGGAATTTGTGTCGATACTTATTGTCCAGAATGAAATCCCAAATGAGGTGCAC
127 TATCGACACTTGTTAAATTTGTGTCGATACTT-TTGTTCAGAATG-AATGCCAAACGAGGTGCAC
*
7529 ACATAAA
190 GCATAAA
* *
7536 GTGTCGATACATTTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTT-TCAAAAGTATCGATCCCAA-AAACATCGAAACCAATAATTATAATGTAAT
* * * *
7600 ATGTAAATTTACAATGTAACTGGTATAAATATACCAATTTTATGAGAAAATAGGTCAGCATAAAG
64 AGGTAAATTTACAATGTAACCGATATAAATATACC-AGTTTATGAGAAAATAGGTCA-CATAAAG
* * *
7665 AATCGAAACTTGTTAAATTTGTGTCGATACATTTTGTTCATAATGAATGCCAAACGA-GTGCACG
127 TATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTTCAGAATGAATGCCAAACGAGGTGCACG
7729 CATAAA
191 CATAAA
* *
7735 GTGTCGATACATTTATCAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTGATA
1 GTGTCGATACATTT-TCAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * ** * *
7800 GGTAAATTTACAATGTACCCGATAGAAATATACCAGTTTATGAGAAAATAAATCTAAATAATGTA
65 GGTAAATTTACAATGTAACCGATATAAATATACCAGTTTATGAGAAAATAGGTC-ACATAAAGTA
* *
7865 TCGACACTTTTTAAGTTTGTGTCGATACTTTT-TTCCAGAATGAATGTCC-AACGAGGTGCACGC
129 TCGACACTTGTTAAATTTGTGTCGATACTTTTGTT-CAGAATGAATG-CCAAACGAGGTGCACGC
7928 ATAAA
192 ATAAA
* *
7933 GTGTCGATACA-TTTCAAATTGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTTCAAA-AGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * * * * *
7997 GGTAAATTTGCAATGTTACCGGTATAAATATATCGGTTTACTTATAAAATAGGTCA-ATAA
65 GGTAAATTTACAATGTAACCGATATAAATATACCAGTTTA-TGAGAAAATAGGTCACATAA
8057 GCGCTACCTA
Statistics
Matches: 452, Mismatches: 55, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
196 11 0.02
197 96 0.21
198 87 0.19
199 101 0.22
200 92 0.20
201 63 0.14
202 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (196 bp):
GTGTCGATACATTTTCAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGATATAAATATACCAGTTTATGAGAAAATAGGTCACATAAAGTATC
GACACTTGTTAAATTTGTGTCGATACTTTTGTTCAGAATGAATGCCAAACGAGGTGCACGCATAA
A
Found at i:8028 original size:197 final size:194
Alignment explanation
Indices: 7336--8053 Score: 823
Period size: 197 Copynumber: 3.6 Consensus size: 194
7326 ACCTAAATAT
* *
7336 GTGTTGATACATTTTCTAAAAGTATCGACCCAAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACA-TTTC-AAAAGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATA
* * * * * * *
7401 GGTAAATTAACAAGGTAACCGATATAAATATATCAGTTAATTAGAAAACAGGTCAACATAATATA
64 GGTAAATTTACAATGTAACCGATATAAATATACCAGTTTATGAGAAAATAGGTCAA-ATAATGTA
* ** * * * *
7466 TCTACACTTGTGGAATTTGTGTCGATACTTATTGTCCAGAATGAAATCCCAAATGAGGTGCACAC
128 TCGACACTT-TTTAATTTGTGTCGATACTT-TTTTCCAGAATG-AATGCCAAACGAGGTGCACGC
7531 ATAAA
190 ATAAA
* * *
7536 GTGTCGATACATTTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACA-TT-TCAAAAGTATCGAT-CCAAAAAACATCGAAACCAATAATTATAATGTAAT
* * * * * *
7600 ATGTAAATTTACAATGTAACTGGTATAAATATACCAATTTTATGAGAAAATAGGTCAGCATAAAG
63 AGGTAAATTTACAATGTAACCGATATAAATATACC-AGTTTATGAGAAAATAGGTCA-AATAATG
* * * *
7665 AATCGAAACTTGTTAAATTTGTGTCGATACATTTTGTT-CATAATGAATGCCAAACGA-GTGCAC
126 TATCGACACTT-TTTAATTTGTGTCGATAC-TTTT-TTCCAGAATGAATGCCAAACGAGGTGCAC
7728 GCATAAA
188 GCATAAA
* * *
7735 GTGTCGATACATTTATCAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTGATA
1 GTGTCGATACA-TT-TCAAAAGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATA
* * **
7800 GGTAAATTTACAATGTACCCGATAGAAATATACCAGTTTATGAGAAAATAAATCTAAATAATGTA
64 GGTAAATTTACAATGTAACCGATATAAATATACCAGTTTATGAGAAAATAGGTC-AAATAATGTA
7865 TCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGTCC-AACGAGGTGCACGCA
128 TCGACACTTTTTAA-TTTGTGTCGATACTTTTTTCCAGAATGAATG-CCAAACGAGGTGCACGCA
7929 TAAA
191 TAAA
*
7933 GTGTCGATACATTTCAAATTGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAG
1 GTGTCGATACATTTCAAA-AGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAG
* * * * * * *
7998 GTAAATTTGCAATGTTACCGGTATAAATATATCGGTTTACTTATAAAATAGGTCAA
65 GTAAATTTACAATGTAACCGATATAAATATACCAGTTTA-TGAGAAAATAGGTCAA
8054 TAAGCGCTAC
Statistics
Matches: 443, Mismatches: 61, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
196 7 0.02
197 101 0.23
198 86 0.19
199 96 0.22
200 88 0.20
201 62 0.14
202 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (194 bp):
GTGTCGATACATTTCAAAAGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGATATAAATATACCAGTTTATGAGAAAATAGGTCAAATAATGTATCG
ACACTTTTTAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGGTGCACGCATAAA
Found at i:8137 original size:62 final size:64
Alignment explanation
Indices: 8061--8187 Score: 186
Period size: 64 Copynumber: 2.0 Consensus size: 64
8051 CAATAAGCGC
* * *
8061 TACCTATTACA-T-TATAAGCGCTGCCTAATATGTTATTGTATTTGATAATATTTATGGTTAAA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTACGGTTAAA
** *
8123 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTACGGTTAAA
8187 T
1 T
8188 GATATAACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 9 0.16
63 1 0.02
64 47 0.82
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (64 bp):
TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTACGGTTAAA
Found at i:10384 original size:19 final size:17
Alignment explanation
Indices: 10343--10385 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
10333 TGCCATGAAA
10343 GGATATATTAACTTCAT
1 GGATATATTAACTTCAT
10360 GGATATATTAACTTCAT
1 GGATATATTAACTTCAT
10377 GGATATATT
1 GGATATATT
10386 CAAAGTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (17 bp):
GGATATATTAACTTCAT
Found at i:13431 original size:21 final size:21
Alignment explanation
Indices: 13402--13448 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13392 ATTCTGACTA
13402 TCGCATTGCGATTTCCCTAAT
1 TCGCATTGCGATTTCCCTAAT
* **
13423 TCGCGTTGCGATTTTTCTAAT
1 TCGCATTGCGATTTCCCTAAT
13444 TCGCA
1 TCGCA
13449 ATGCAAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCTAAT
Found at i:13556 original size:20 final size:19
Alignment explanation
Indices: 13444--13551 Score: 99
Period size: 20 Copynumber: 5.4 Consensus size: 19
13434 TTTTTCTAAT
* *
13444 TCGCAATGCAAATACGTAAA
1 TCGCAACGCGAATACGT-AA
** *
13464 TCGCAACGCGAATTTGGAAAA
1 TCGCAACGCGAA-TACG-TAA
13485 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGT-AA
13505 TCGCAACGCGAATACGTAA
1 TCGCAACGCGAATACGTAA
** *
13524 TCGCATTGCGATTTACGTAA
1 TCGCAACGCGA-ATACGTAA
13544 TCGCAACG
1 TCGCAACG
13552 AGATTCTGAC
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
19 11 0.15
20 44 0.62
21 16 0.23
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAATACGTAA
Found at i:14439 original size:24 final size:24
Alignment explanation
Indices: 14412--14465 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
14402 GTATTCAAAA
14412 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
14436 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
14460 TTTGAT
1 TTTGAT
14466 GCTTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:16990 original size:20 final size:19
Alignment explanation
Indices: 16962--17016 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
16952 CAATCATCTT
*
16962 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
16982 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
17001 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
17017 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:17026 original size:14 final size:14
Alignment explanation
Indices: 17007--17058 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
16997 GCGAAATGAA
17007 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
17021 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
17040 AATCGCAACGAGAG
1 AATCGCAACGAGAG
17054 AATCG
1 AATCG
17059 TAATGCGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.32
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:17031 original size:33 final size:33
Alignment explanation
Indices: 16989--17115 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
16979 GGAAATGACT
16989 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
17022 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
17055 ATCGTAATGCGAAATGAAAATCACAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
17088 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
17116 CGAATTTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:17045 original size:19 final size:18
Alignment explanation
Indices: 16969--17119 Score: 83
Period size: 19 Copynumber: 8.7 Consensus size: 18
16959 CTTAATGTCT
**
16969 ATCGCAACGCGGAAATGACT
1 ATCGCAA-GC-GAAATGAAA
16989 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
17008 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
17022 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
17041 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
17055 ATCGTAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* **
17074 ATCACAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
17088 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
17107 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
17120 TTTAGTTTCG
Statistics
Matches: 100, Mismatches: 15, Indels: 33
0.68 0.10 0.22
Matches are distributed among these distances:
14 25 0.25
15 5 0.05
16 6 0.06
17 6 0.06
18 5 0.05
19 44 0.44
20 9 0.09
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:17167 original size:33 final size:33
Alignment explanation
Indices: 17125--17204 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
17115 GCGAATTTAG
* *
17125 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
17158 TTTCGCGTTGCGATTCTCTCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
17191 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
17205 AGTAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:17168 original size:19 final size:19
Alignment explanation
Indices: 17144--17204 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
17134 GCGATTTTGT
17144 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
17163 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
17177 CGTTGTGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
17196 CATTGCGAT
1 CGTTGCGAT
17205 AGTAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
14 9 0.28
16 3 0.09
17 3 0.09
19 17 0.53
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:17330 original size:14 final size:14
Alignment explanation
Indices: 17311--17347 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
17301 CATCAATTAA
17311 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
17325 ACAAATCATCTTTT
1 ACAAATCAACTTTT
17339 ACAAATCAA
1 ACAAATCAA
17348 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:19929 original size:147 final size:148
Alignment explanation
Indices: 19671--19971 Score: 543
Period size: 147 Copynumber: 2.0 Consensus size: 148
19661 CGAAGTGCCC
19671 CGTAGAATTGCACCGTAGTACCATATAATGATGTCCAAAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTACCATATAATGATGTCCAAAAGGACCACATAGAATTCTTTAAGAAT
*
19736 TATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAA-AATATA
19801 CATATGTCCCGAAGAACCG
130 CATATGTCCCGAAGAACCG
* *
19820 CGTAGAATTGCACCGTAGTGCCATATAAT-ATGTCCATAAGGACCACATAGAATTCTTT-AGAAT
1 CGTAGAATTGCACCGTAGTACCATATAATGATGTCCAAAAGGACCACATAGAATTCTTTAAGAAT
*
19883 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAAATATAC
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAAATATAC
19948 ATATGTCCCGAAGAACCG
131 ATATGTCCCGAAGAACCG
19966 CGTAGA
1 CGTAGA
19972 CCCTCGACTC
Statistics
Matches: 148, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 31 0.21
147 61 0.41
148 28 0.19
149 28 0.19
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (148 bp):
CGTAGAATTGCACCGTAGTACCATATAATGATGTCCAAAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAAATATAC
ATATGTCCCGAAGAACCG
Found at i:20880 original size:18 final size:18
Alignment explanation
Indices: 20859--20893 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20849 TCCCATCTAG
20859 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
20877 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
20894 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:21505 original size:21 final size:21
Alignment explanation
Indices: 21475--21519 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21465 ATTTTGTCGT
* *
21475 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
21496 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
21517 TTG
1 TTG
21520 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:24800 original size:23 final size:23
Alignment explanation
Indices: 24774--24818 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
24764 CACCACAGCT
*
24774 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
24797 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
24819 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:25056 original size:149 final size:149
Alignment explanation
Indices: 24797--25100 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
24787 CGAAGTGCCC
* *
24797 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATTGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
24862 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
24927 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
24946 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
25011 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
25076 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
25095 CGTAGA
1 CGTAGA
25101 CCCTCGACTC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:25604 original size:15 final size:15
Alignment explanation
Indices: 25555--25608 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
25545 ATAATAGAAA
*
25555 TACTTATAAGTCATAT
1 TACTTAT-AGTCACAT
* *
25571 CACTTAGAG-CACAT
1 TACTTATAGTCACAT
25585 ATACTTATAGTCACAT
1 -TACTTATAGTCACAT
25601 TACTTATA
1 TACTTATA
25609 TCTTAATCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.13
15 17 0.55
16 10 0.32
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (15 bp):
TACTTATAGTCACAT
Found at i:25995 original size:18 final size:18
Alignment explanation
Indices: 25974--26008 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25964 TCCCATCTAG
25974 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
25992 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
26009 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:26619 original size:21 final size:21
Alignment explanation
Indices: 26589--26633 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
26579 ATTTTGTCGT
* *
26589 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
26610 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
26631 TTG
1 TTG
26634 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:29907 original size:23 final size:23
Alignment explanation
Indices: 29881--29925 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
29871 CACCACAGCT
*
29881 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
29904 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
29926 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:30160 original size:147 final size:146
Alignment explanation
Indices: 29904--30203 Score: 530
Period size: 147 Copynumber: 2.0 Consensus size: 146
29894 CGAAGTGCCC
*
29904 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCATAGAATTCTTTAAGAATCA
1 CGTAGAATTGCACCGTAGTGCCA-ATAATAATGTCCATAAGGACCATAGAATTCTTTAAGAATCA
29969 TATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACA
65 TATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACA
30034 TATGTCCCGAAGAACCG
130 TATGTCCCGAAGAACCG
30051 CGTAGAATTGCACCGTAGTGCC-ATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATC
1 CGTAGAATTGCACCGTAGTGCCAATAATAATGTCCATAAGGA-C-CATAGAATTCTTTAAGAATC
* * *
30115 ATATACATATGCTAGTGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAATGAATATAC
64 ATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATAC
30180 ATATGTCCCGAAGAACCG
129 ATATGTCCCGAAGAACCG
30198 CGTAGA
1 CGTAGA
30204 CCCTCGACTC
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
145 18 0.12
146 1 0.01
147 128 0.87
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (146 bp):
CGTAGAATTGCACCGTAGTGCCAATAATAATGTCCATAAGGACCATAGAATTCTTTAAGAATCAT
ATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACAT
ATGTCCCGAAGAACCG
Found at i:31095 original size:18 final size:18
Alignment explanation
Indices: 31074--31108 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31064 TCCCATCTAG
31074 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
31092 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
31109 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:31713 original size:21 final size:20
Alignment explanation
Indices: 31683--31726 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
31673 ATTTTGTCGT
* *
31683 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
31703 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
31724 TTG
1 TTG
31727 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:32741 original size:19 final size:19
Alignment explanation
Indices: 32660--32811 Score: 95
Period size: 19 Copynumber: 8.8 Consensus size: 19
32650 TCTGGAACTT
*
32660 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
32681 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
32700 --AATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
32712 AGAATCACAACGCGAAATG
1 AAAATCGCAACGCGAAATG
32731 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
32745 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
32764 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
32778 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
32797 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
32812 TTATAGTTTC
Statistics
Matches: 102, Mismatches: 12, Indels: 36
0.68 0.08 0.24
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 27 0.26
15 4 0.04
16 6 0.06
17 11 0.11
18 3 0.03
19 38 0.37
21 11 0.11
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:32742 original size:33 final size:33
Alignment explanation
Indices: 32684--32808 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
32674 AAAAATGACT
32684 ATCGCAACGCGAAATG--AATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
32715 ATCACAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
32748 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
32781 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
32809 CGATTATAGT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 15 0.17
33 74 0.83
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:32752 original size:14 final size:14
Alignment explanation
Indices: 32699--32787 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
32689 AACGCGAAAT
32699 GAATCGCAACGAGA
1 GAATCGCAACGAGA
*
32713 GAATCACAACGCGAAATGA
1 GAATCGCAA--CG--A-GA
*
32732 AAATCGCAACGAGA
1 GAATCGCAACGAGA
32746 GAATCGCAACGCGAAATGA
1 GAATCGCAA--CG--A-GA
*
32765 AAATCGCAACGAGA
1 GAATCGCAACGAGA
32779 GAATCGCAA
1 GAATCGCAA
32788 TGCGAAATGA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 28 0.47
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.46, C:0.21, G:0.24, T:0.09
Consensus pattern (14 bp):
GAATCGCAACGAGA
Found at i:32842 original size:20 final size:20
Alignment explanation
Indices: 32817--32854 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32807 CGCGATTATA
32817 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
*
32837 GTTTCGCGTTGTGATTTT
1 GTTTCGCGTTGCGATTTT
32855 GTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.13, G:0.29, T:0.53
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:32880 original size:33 final size:33
Alignment explanation
Indices: 32823--32913 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
32813 TATAGTTTCG
** * *
32823 CGTTGCGATTTTTGGTTTCGCGTTGTGATTTTGT
1 CGTTGCGA-TTTTCATTTCGCGTTGTGATTCTCT
32857 CGTTGCGATTTTCATTTCGCGTTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGTGATTCTCT
*
32890 CGTTGCGATTTTTATTTCGCGTTG
1 CGTTGCGATTTTCATTTCGCGTTG
32914 CGATAGTCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
33 44 0.85
34 8 0.15
ACGTcount: A:0.08, C:0.16, G:0.25, T:0.51
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGTGATTCTCT
Found at i:33294 original size:95 final size:93
Alignment explanation
Indices: 33008--33294 Score: 466
Period size: 94 Copynumber: 3.1 Consensus size: 93
32998 ATGGATTGCA
* * *
33008 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTTAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
33073 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
33101 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
33166 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
* *
33195 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAAGAATAAATAG
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTT-AAAGAATACACAG
* * *
33260 TTTAGCAGTATTGACAGTAACCGAATAAAT
64 TTTAGCAGAATTGGCAGCAACCGAATAAAT
33290 TTACT
1 TTACT
33295 AAGCAATCTA
Statistics
Matches: 182, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
93 23 0.13
94 116 0.64
95 43 0.24
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:35073 original size:19 final size:19
Alignment explanation
Indices: 34983--35114 Score: 157
Period size: 19 Copynumber: 7.1 Consensus size: 19
34973 TCTTTTGGTT
*
34983 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
35002 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
35022 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
35040 G--A-GAGAATCGTAACGC
1 GAAATGAAAATCGCAACGC
35056 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
35075 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
35094 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
35113 GA
1 GA
35115 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
14 8 0.08
15 1 0.01
16 2 0.02
17 1 0.01
18 2 0.02
19 53 0.55
20 28 0.29
21 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:35181 original size:20 final size:20
Alignment explanation
Indices: 35121--35198 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
35111 GCGATTTTGG
*
35121 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
* **
35141 TTCTC-TCGTTGTGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
35162 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
*
35182 TTTCATGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
35199 AAGTTTAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.53
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:35780 original size:21 final size:21
Alignment explanation
Indices: 35756--35801 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
35746 TATTCGCATT
35756 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
35777 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
35798 GCGA
1 GCGA
35802 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:55517 original size:20 final size:20
Alignment explanation
Indices: 55492--55535 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
55482 AAAAAAAGGA
*
55492 GAATGGCAACATGGACGGGT
1 GAATGGCAACATGGACGGCT
*
55512 GAATGGCAACATGGGCGGCT
1 GAATGGCAACATGGACGGCT
55532 GAAT
1 GAAT
55536 TTTGTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.39, T:0.16
Consensus pattern (20 bp):
GAATGGCAACATGGACGGCT
Found at i:64308 original size:229 final size:226
Alignment explanation
Indices: 63905--64331 Score: 739
Period size: 229 Copynumber: 1.9 Consensus size: 226
63895 GTAAATTATC
* *
63905 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTTATTATTATCTTTAGTTA
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTTATTATTATATTTAGTTA
*
63970 ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAACAATCAAATAATTTTTTTG
66 ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAACAATCAAATAATTATTTTG
64035 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
131 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
64100 ACATAAATTACATAACTTTCAAAAAAGTATA
196 ACATAAATTACATAACTTTCAAAAAAGTATA
* *
64131 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TG-AAA-ATATTTATTATTATATTTAG
*
64196 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TAT
63 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATC-AAACAATCAAATAATTAT
* *
64260 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
127 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
64325 TGAAACA
192 TGAAACA
64332 CTATTAAATA
Statistics
Matches: 189, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
226 35 0.19
227 2 0.01
228 3 0.02
229 135 0.71
230 14 0.07
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTTATTATTATATTTAGTTA
ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAACAATCAAATAATTATTTTG
TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:64363 original size:21 final size:20
Alignment explanation
Indices: 64305--64351 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
64295 GTGGAAAACA
64305 TGAAACACTATTAAATAAAT
1 TGAAACACTATTAAATAAAT
64325 TGAAACACTATTAAATAAAT
1 TGAAACACTATTAAATAAAT
64345 TGAAACA
1 TGAAACA
64352 TAAATTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (20 bp):
TGAAACACTATTAAATAAAT
Found at i:64711 original size:20 final size:20
Alignment explanation
Indices: 64686--64734 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
64676 AACGATATAC
*
64686 CAGGTAAAAATATGATAAAA
1 CAGGTAAAAAAATGATAAAA
*
64706 CCGGTAAAAAAATGATAAAA
1 CAGGTAAAAAAATGATAAAA
64726 CAGGTAAAA
1 CAGGTAAAA
64735 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.16
Consensus pattern (20 bp):
CAGGTAAAAAAATGATAAAA
Found at i:64822 original size:181 final size:181
Alignment explanation
Indices: 64476--64906 Score: 639
Period size: 182 Copynumber: 2.4 Consensus size: 181
64466 GATCCAAATT
* * * *
64476 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATAGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* * * * *
64541 AAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACAGGTAAAACGCTACCGGATACATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
64606 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATAC-TTTA
* *
64658 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAAAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* * *
64723 AAACAGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACAGGTAAAACGCTACCGGATACATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
64787 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTA
** * *
64838 AAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
64903 AAAC
66 AAAC
64907 CGGTGTCGAT
Statistics
Matches: 224, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
180 67 0.30
181 60 0.27
182 97 0.43
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
AAACAGGTAAAACGCTACCGGATACATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTA
Found at i:64891 original size:20 final size:20
Alignment explanation
Indices: 64868--64910 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
64858 CGATATAACA
64868 GGTA-AAAATATGATAAAACC
1 GGTATAAAA-ATGATAAAACC
*
64888 GGTATCAAAATGATAAAACC
1 GGTATAAAAATGATAAAACC
64908 GGT
1 GGT
64911 GTCGATACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.21
Consensus pattern (20 bp):
GGTATAAAAATGATAAAACC
Found at i:67136 original size:21 final size:21
Alignment explanation
Indices: 67109--67173 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
67099 AAGACAATCA
*
67109 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
67130 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
67151 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
67172 AG
1 AG
67174 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:67248 original size:33 final size:33
Alignment explanation
Indices: 67206--67271 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
67196 AAATAGATGG
*
67206 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
67239 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
67272 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:69024 original size:19 final size:19
Alignment explanation
Indices: 69000--69048 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
68990 AATGTAGGGT
69000 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
69019 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
69038 TATTTTTGTAT
1 TAATTTTGTAT
69049 GTGAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:69669 original size:197 final size:198
Alignment explanation
Indices: 69166--70321 Score: 2086
Period size: 195 Copynumber: 5.9 Consensus size: 198
69156 CAATATGGCC
* * *
69166 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* * *
69231 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGATTTTATGA-A
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
* *
69295 AAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTCTTTTCCAGAATGAA
130 TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTT-TTTTCCAGAATGAA
69360 TGGAA
194 TGGAA
69365 AACAGGGTGCA-CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
69428 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
69493 -A-ATGTATAAATAATATGTCGACACTAATATAGTTTGTGTCGATATTGTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT-TTTTTCCAGAATGAAT
69556 GGAA
195 GGAA
69560 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
69625 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
69690 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
69755 GAA
196 GAA
69758 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA-C
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
69822 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
69887 AATATGTATAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
69950 G-A
196 GAA
69952 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
70016 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
70081 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
70146 GAA
196 GAA
*
70149 AACAGGGTGCA-CCATAAAGTGTCGATTCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
70211 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
70276 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
70322 ATTTAAATAT
Statistics
Matches: 933, Mismatches: 14, Indels: 24
0.96 0.01 0.02
Matches are distributed among these distances:
193 11 0.01
194 145 0.16
195 248 0.27
196 146 0.16
197 221 0.24
198 107 0.11
199 55 0.06
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:69921 original size:394 final size:393
Alignment explanation
Indices: 69166--70321 Score: 2094
Period size: 394 Copynumber: 2.9 Consensus size: 393
69156 CAATATGGCC
* * *
69166 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* * *
69231 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGATTTTATGA-A
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
* *
69295 AAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTCTTTTCCAGAATGAA
130 TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTT-TTTTCCAGAATGAA
69360 TGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGA
194 TGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGA
69425 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
259 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
*
69490 GAT-A-ATGTATAAATAATATGTCGACACTAATATAGTTTGTGTCGATATTGTTTTTCCAGAATG
324 GATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT-TTTTTCCAGAATG
69553 AATGGAA
388 AATGG-A
69560 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
69625 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
69690 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
69755 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCA-CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGA
69820 A-CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
259 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
69884 GATAATATGTATAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCAGAATGA
324 GATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
69947 ATGGA
389 ATGGA
69952 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
70016 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
70081 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
70146 GAAAACAGGGTGCACCATAAAGTGTCGATTCATATATAAAAGTGTCGATCCC-AAATCATCGAAC
196 GAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAAC
*
70210 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGA
261 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
70275 TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
326 TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
70322 ATTTAAATAT
Statistics
Matches: 741, Mismatches: 13, Indels: 19
0.96 0.02 0.02
Matches are distributed among these distances:
388 11 0.01
389 107 0.14
390 23 0.03
391 172 0.23
392 52 0.07
393 109 0.15
394 215 0.29
395 29 0.04
396 23 0.03
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (393 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
GGA
Found at i:71775 original size:6 final size:6
Alignment explanation
Indices: 71751--71842 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
71741 AGCGGTCGCA
* * * ** * *
71751 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATTAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
71799 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
71843 TGATCCAAAC
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.22
Consensus pattern (6 bp):
GAAGAT
Found at i:71805 original size:36 final size:36
Alignment explanation
Indices: 71754--71830 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
71744 GGTCGCAGAA
* *
71754 GATGAAGCTGACGATGAAGATGACGATGATTATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
71790 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
71826 GATGA
1 GATGA
71831 TGATGAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.35, C:0.09, G:0.34, T:0.22
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:71823 original size:3 final size:3
Alignment explanation
Indices: 71802--71846 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
71792 TGAAGCTGGC
* * *
71802 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
71847 CCAAACAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:71846 original size:12 final size:12
Alignment explanation
Indices: 71754--71842 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
71744 GGTCGCAGAA
*
71754 GATGAAGCTGAC
1 GATGAAGATGAC
71766 GATGAAGATGAC
1 GATGAAGATGAC
**
71778 GATGATTATGAC
1 GATGAAGATGAC
* *
71790 GATGAAGCTGGC
1 GATGAAGATGAC
*
71802 GATGAAGATGAT
1 GATGAAGATGAC
* * *
71814 GACGATGATGAT
1 GATGAAGATGAC
* *
71826 GATGATGATGAA
1 GATGAAGATGAC
71838 GATGA
1 GATGA
71843 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:71846 original size:18 final size:18
Alignment explanation
Indices: 71751--71842 Score: 67
Period size: 18 Copynumber: 5.1 Consensus size: 18
71741 AGCGGTCGCA
*
71751 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* **
71769 GAAGATGACGATGATTAT
1 GAAGATGAAGATGACGAT
* * *
71787 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
71805 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
71823 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
71841 GA
1 GA
71843 TGATCCAAAC
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.22
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:72985 original size:20 final size:21
Alignment explanation
Indices: 72960--73002 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
72950 TTTTAATATA
*
72960 TTAT-AAAGTATCTATCCTTT
1 TTATAAAAGTATCTATACTTT
*
72980 TTATAAAAGTGTCTATACTTT
1 TTATAAAAGTATCTATACTTT
73001 TT
1 TT
73003 CCACTGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (21 bp):
TTATAAAAGTATCTATACTTT
Found at i:73728 original size:182 final size:182
Alignment explanation
Indices: 73310--73794 Score: 846
Period size: 183 Copynumber: 2.7 Consensus size: 182
73300 TTCAACATAT
* *
73310 TATAAATATACCGGTTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
* * *
73375 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCAATACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTATCGACATTT
*
73440 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
130 ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
73493 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
73558 TCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTATCGACATTT
*
73623 ACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAA-CGG
130 ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
* *
73675 TATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
73740 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGT
73795 GTCGGTAATT
Statistics
Matches: 289, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
182 118 0.41
183 168 0.58
184 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTATCGACATTTA
CACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
Found at i:76296 original size:25 final size:25
Alignment explanation
Indices: 76268--76332 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
76258 TTATCATTAA
76268 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
76293 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
76318 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
76333 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:76661 original size:22 final size:22
Alignment explanation
Indices: 76616--76661 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
76606 ATTACATAAC
**
76616 TTTTAAAAAAAGTATCGATTCT
1 TTTTAAAAAAAGTATCGACACT
* *
76638 TTTTATAAAAAGTATGGACACT
1 TTTTAAAAAAAGTATCGACACT
76660 TT
1 TT
76662 CAATATAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAAGTATCGACACT
Found at i:76710 original size:23 final size:23
Alignment explanation
Indices: 76679--76751 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
76669 ATAGGTAAAC
*
76679 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
76702 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
76725 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
76748 ATAT
1 ATAT
76752 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:77200 original size:18 final size:18
Alignment explanation
Indices: 77179--77215 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
77169 GTAATTGGAG
77179 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
77197 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
77215 T
1 T
77216 ATATATTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:77516 original size:39 final size:39
Alignment explanation
Indices: 77473--77559 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
77463 TCCGATGCTC
*
77473 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
77512 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
77551 ATCAAAATC
1 ATCAAAATC
77560 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:78012 original size:23 final size:23
Alignment explanation
Indices: 77981--78053 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
77971 ATAGGTAAAC
*
77981 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
78004 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
78027 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
78050 ATAT
1 ATAT
78054 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:78242 original size:29 final size:29
Alignment explanation
Indices: 78199--78264 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
78189 GTTACGATAT
*
78199 ATATTATTATTAAAT-T-AAAAATTCTAAATA
1 ATATT-TTATAAAATATCAAAAA-TC-AAATA
78229 ATATTTTATAAAATATCAAAAATCAAATA
1 ATATTTTATAAAATATCAAAAATCAAATA
*
78258 ATTTTTT
1 ATATTTT
78265 GTGCAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 19 0.59
30 8 0.25
31 5 0.16
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATTTTATAAAATATCAAAAATCAAATA
Found at i:78559 original size:22 final size:23
Alignment explanation
Indices: 78524--78566 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
78514 TATTGTACTT
**
78524 TATAATATTTCCGGT-TAAATAA
1 TATAATATAACCGGTATAAATAA
78546 TATAATATAACCGGTATAAAT
1 TATAATATAACCGGTATAAAT
78567 TTTAACCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (23 bp):
TATAATATAACCGGTATAAATAA
Found at i:86320 original size:13 final size:13
Alignment explanation
Indices: 86304--86354 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
86294 CATTAGCTGG
*
86304 TTTGATCAATTGA
1 TTTGATTAATTGA
86317 TTTGATTAATTGA
1 TTTGATTAATTGA
**
86330 TTTGAGAAATTGA
1 TTTGATTAATTGA
86343 TTTGATTAATTG
1 TTTGATTAATTG
86355 TTTATAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (13 bp):
TTTGATTAATTGA
Found at i:88592 original size:43 final size:43
Alignment explanation
Indices: 88543--88724 Score: 229
Period size: 43 Copynumber: 4.2 Consensus size: 43
88533 TGAGAACCAA
* * * * *
88543 AAACGCCGCCATAGTTCAAGATCTATAGCGGCATTTTTGGATC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
* * * *
88586 AAACGCCGCAAAAGGTCGATATCTATAGCAGCGTTTTTAGAAC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
* * *
88629 AAACGCCTCAAAAAGTCAAGATCTATAGCGGCGTTTATGGAAC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
* *
88672 AAACGCCACAAAAGGTCGAGATCTATAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGA-AC
88716 AAACGCCGC
1 AAACGCCGC
88725 TAATTACCAT
Statistics
Matches: 117, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 107 0.91
44 10 0.09
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
Found at i:88648 original size:86 final size:87
Alignment explanation
Indices: 88558--88722 Score: 260
Period size: 86 Copynumber: 1.9 Consensus size: 87
88548 CCGCCATAGT
* * * *
88558 TCAAGATCTATAGCGGCATTTTTGGATCAAACGCCGCAAAAGGTCGATATCTATAGCAGCGTTTT
1 TCAAGATCTATAGCGGCATTTATGGAACAAACGCCACAAAAGGTCGAGATCTATAGCAGCGTTTT
88623 TAGA-ACAAACGCCTCAAAAAG
66 TAGATACAAACGCCTCAAAAAG
* *
88644 TCAAGATCTATAGCGGCGTTTATGGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCGTTTT
1 TCAAGATCTATAGCGGCATTTATGGAACAAACGCCACAAAAGGTCGAGATCTATAGCAGCGTTTT
*
88709 TGGATACAAACGCC
66 TAGATACAAACGCC
88723 GCTAATTACC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 62 0.87
87 9 0.13
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (87 bp):
TCAAGATCTATAGCGGCATTTATGGAACAAACGCCACAAAAGGTCGAGATCTATAGCAGCGTTTT
TAGATACAAACGCCTCAAAAAG
Found at i:92090 original size:43 final size:41
Alignment explanation
Indices: 92040--92485 Score: 404
Period size: 43 Copynumber: 10.8 Consensus size: 41
92030 CTTTAAATTT
* * *
92040 GCGGCGTTTGTAAAATAAACGCCATTAAAGTACGAGTTTTTTA
1 GCGGCGTTTGTAAAA-AAACGCCACTAAAGTACGAG-TCTATA
* * *
92083 GTGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
1 GCGGCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATA
* * *
92124 GCGGCGTTTGTAAACAAAAACGCCA-TAAAAGAATGAGTCTTTA
1 GCGGCGTTTGT-AA-AAAAACGCCACT-AAAGTACGAGTCTATA
92167 GCGGCGTTTGT-AAAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATA
* *
92207 GCGGCGTTTATAAACAAAAACGCCACTAAAGTACGATTCTATA
1 GCGGCGTTTGT-AA-AAAAACGCCACTAAAGTACGAGTCTATA
*
92250 GCGGCGTTTG-AATAAAAACGCCACTAAAGTATGAGT-TATA
1 GCGGCGTTTGTAA-AAAAACGCCACTAAAGTACGAGTCTATA
* * * * *
92290 GTGGCGTTTTTATACAAACGCCACTACAGTACGAGT-TATA
1 GCGGCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATA
* * * *
92330 ACATCGCTTTTATAAAAAAAACGCCACTAAAGTACGAGTCT-TA
1 GC--GGCGTTTGT-AAAAAAACGCCACTAAAGTACGAGTCTATA
* * *
92373 GCGGCGTTTGTATAAAAACGCTCA-TAAAGTATGATTCTATA
1 GCGGCGTTTGTAAAAAAACGC-CACTAAAGTACGAGTCTATA
** * * * *
92414 GCGGCGTTTGTGTAAAAATGCAACTATAGTACTG-GTCTTTA
1 GCGGCGTTTGTAAAAAAACGCCACTAAAGTAC-GAGTCTATA
* * * * *
92455 GCGGCATTTGTATACAAACACCACTATAGTA
1 GCGGCGTTTGTAAAAAAACGCCACTAAAGTA
92486 AGATCTTTTG
Statistics
Matches: 332, Mismatches: 55, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
40 91 0.27
41 105 0.32
42 28 0.08
43 107 0.32
44 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (41 bp):
GCGGCGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATA
Found at i:92208 original size:83 final size:82
Alignment explanation
Indices: 92040--92472 Score: 407
Period size: 83 Copynumber: 5.2 Consensus size: 82
92030 CTTTAAATTT
* * * *
92040 GCGGCGTTTGTAAA-ATAAACGCCATTAAAGTACGAGTTTTTTAGTGGCGTTTGTATAAAAACGC
1 GCGGCGTTTGTAAACAAAAACGCCA-TAAAGTACGAG-TCTATAGCGGCGTTTGTA-AAAAACGC
*
92104 CACTAAAGTACAAGTCTATA
63 CACTAAAGTACGAGTCTATA
* * *
92124 GCGGCGTTTGTAAACAAAAACGCCATAAAAGAATGAGTCTTTAGCGGCGTTTGTAAAAAACGCCA
1 GCGGCGTTTGTAAACAAAAACGCCAT-AAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCA
92189 CTAAAGTACGAGTCTATA
65 CTAAAGTACGAGTCTATA
* * *
92207 GCGGCGTTTATAAACAAAAACGCCACTAAAGTACGATTCTATAGCGGCGTTTGAATAAAAACGCC
1 GCGGCGTTTGTAAACAAAAACGCCA-TAAAGTACGAGTCTATAGCGGCGTTTGTA-AAAAACGCC
*
92272 ACTAAAGTATGAGT-TATA
64 ACTAAAGTACGAGTCTATA
* * * * * * * *
92290 GTGGCGTTTTTATAC--AAACGCCACTACAGTACGAGT-TATAACATCGCTTTTATAAAAAAAAC
1 GCGGCGTTTGTAAACAAAAACGCCA-TAAAGTACGAGTCTATAGC--GGCGTTTGT--AAAAAAC
92352 GCCACTAAAGTACGAGTCT-TA
61 GCCACTAAAGTACGAGTCTATA
* * * * * *
92373 GCGGCGTTTGT--ATAAAAACGCTCATAAAGTATGATTCTATAGCGGCGTTTGTGTAAAAATGCA
1 GCGGCGTTTGTAAACAAAAACGC-CATAAAGTACGAGTCTATAGCGGCGTTTGT-AAAAAACGCC
* *
92436 ACTATAGTACTG-GTCTTTA
64 ACTAAAGTAC-GAGTCTATA
* *
92455 GCGGCATTTGTATACAAA
1 GCGGCGTTTGTAAACAAA
92473 CACCACTATA
Statistics
Matches: 291, Mismatches: 41, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
80 5 0.02
81 40 0.14
82 24 0.08
83 138 0.47
84 67 0.23
85 17 0.06
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (82 bp):
GCGGCGTTTGTAAACAAAAACGCCATAAAGTACGAGTCTATAGCGGCGTTTGTAAAAAACGCCAC
TAAAGTACGAGTCTATA
Found at i:94591 original size:26 final size:23
Alignment explanation
Indices: 94546--94596 Score: 57
Period size: 26 Copynumber: 2.1 Consensus size: 23
94536 TGAACAAGAG
**
94546 ATAAGAGAGATAAAGGATAATATT
1 ATAAGAGAGATAAAACATAA-ATT
94570 ATAAGAGTATGATAAAACATAAATT
1 ATAAGAG-A-GATAAAACATAAATT
94595 AT
1 AT
94597 GGCATGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 6 0.26
26 10 0.43
ACGTcount: A:0.55, C:0.02, G:0.16, T:0.27
Consensus pattern (23 bp):
ATAAGAGAGATAAAACATAAATT
Found at i:95158 original size:31 final size:31
Alignment explanation
Indices: 95115--95201 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
95105 GAGTCGAGGG
*
95115 TTACATATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
95146 TTACCTATGTTCTTCGGGACATATGGATTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
95177 TTACCTATGTTCTTCGGGACATATG
1 TTACCTATGTTCTTCGGGACATATG
95202 ATGTAACACC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:95960 original size:18 final size:18
Alignment explanation
Indices: 95937--95982 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
95927 ACCAGTCATA
95937 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
95955 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
*
95973 ACCAGACCCG
1 ACCCGACCCG
95983 TTGACCCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.48, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:96849 original size:17 final size:18
Alignment explanation
Indices: 96827--96860 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
96817 TGAAAAGAAT
96827 TATTGATCTGC-TAAAAC
1 TATTGATCTGCATAAAAC
*
96844 TATTGATGTGCATAAAA
1 TATTGATCTGCATAAAA
96861 AATGTTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TATTGATCTGCATAAAAC
Found at i:98543 original size:24 final size:24
Alignment explanation
Indices: 98495--98562 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
98485 ACCTGACCTA
98495 GATTCTGATCTGA-A-ATTGACATG
1 GATTCTGATCTGATACA-TGACATG
98518 GATTCTGATCTGATACATGACATG
1 GATTCTGATCTGATACATGACATG
* *
98542 GATTCTGATATGATACTTGAC
1 GATTCTGATCTGATACATGAC
98563 TTGAATTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
23 13 0.32
24 27 0.66
25 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (24 bp):
GATTCTGATCTGATACATGACATG
Found at i:103235 original size:24 final size:24
Alignment explanation
Indices: 103173--103254 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
103163 AATTTTGTTA
* *
103173 TGATACCTGACCTGGATTCTAATC
1 TGATACTTGACCTGGATTCTGATC
*
103197 TGATA-TTGACATGGATTCTGATC
1 TGATACTTGACCTGGATTCTGATC
* *
103220 TGATACATGACCTGGATTCTGATA
1 TGATACTTGACCTGGATTCTGATC
103244 TGATACTTGAC
1 TGATACTTGAC
103255 TTGAATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 20 0.40
24 30 0.60
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (24 bp):
TGATACTTGACCTGGATTCTGATC
Found at i:104300 original size:31 final size:31
Alignment explanation
Indices: 104265--104363 Score: 162
Period size: 31 Copynumber: 3.2 Consensus size: 31
104255 TATATGTTAT
104265 AGATTACCTATGTTCTTTGGGACATATGGAC
1 AGATTACCTATGTTCTTTGGGACATATGGAC
*
104296 AGATTACCTATGTTCTTTGGGATATATGGAC
1 AGATTACCTATGTTCTTTGGGACATATGGAC
* *
104327 AGGTTACCTATGTTCTTCGGGACATATGGAC
1 AGATTACCTATGTTCTTTGGGACATATGGAC
*
104358 AAATTA
1 AGATTA
104364 TTATATGAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (31 bp):
AGATTACCTATGTTCTTTGGGACATATGGAC
Found at i:105075 original size:21 final size:22
Alignment explanation
Indices: 105038--105090 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
105028 GGACGAAATT
105038 ACTGTAGCAAGGGTATC-AGTAC
1 ACTGTAGCAAGGGTATCGA-TAC
105060 ACTGTAGCAA-GGTATCGATAC
1 ACTGTAGCAAGGGTATCGATAC
105081 ACCTGTAGCA
1 A-CTGTAGCA
105091 TTTTGGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (22 bp):
ACTGTAGCAAGGGTATCGATAC
Found at i:105142 original size:22 final size:22
Alignment explanation
Indices: 105114--105167 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
105104 TAGCACTTCG
* *
105114 TACTGTTCACGGTATTGTTCAT
1 TACTGTTCACGGTACTGTACAT
*
105136 TACTGTTCATGGTACTGTACAT
1 TACTGTTCACGGTACTGTACAT
*
105158 TATTGTTCAC
1 TACTGTTCAC
105168 AATACTGTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (22 bp):
TACTGTTCACGGTACTGTACAT
Found at i:105151 original size:12 final size:12
Alignment explanation
Indices: 105113--105153 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
105103 TTAGCACTTC
*
105113 GTACTGTTCACG
1 GTACTGTTCATG
*
105125 GTATTGTTCAT-
1 GTACTGTTCATG
105136 -TACTGTTCATG
1 GTACTGTTCATG
105147 GTACTGT
1 GTACTGT
105154 ACATTATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (12 bp):
GTACTGTTCATG
Found at i:109085 original size:18 final size:20
Alignment explanation
Indices: 109045--109087 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
109035 AGAGAGTATT
* *
109045 GATACTCTACCCTGGGTATC
1 GATACTCTACCCTGAGTACC
109065 GATACTC-A-CCTGAGTACC
1 GATACTCTACCCTGAGTACC
109083 GATAC
1 GATAC
109088 CAAATTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (20 bp):
GATACTCTACCCTGAGTACC
Found at i:110585 original size:14 final size:14
Alignment explanation
Indices: 110562--110594 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110552 GAAGAAGAAG
110562 AAAA-AGAAAAAAA
1 AAAAGAGAAAAAAA
*
110575 AAAAGAGAAAAGAA
1 AAAAGAGAAAAAAA
110589 AAAAGA
1 AAAAGA
110595 AGAGGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAGAGAAAAAAA
Found at i:110670 original size:19 final size:20
Alignment explanation
Indices: 110636--110722 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
110626 TAGTAGTAGT
*
110636 AGAAGAAGATGATGAAGA-A
1 AGAAGAAGAGGATGAAGAGA
*
110655 AGAAGAAGAGGGTGAAGAGGA
1 AGAAGAAGAGGATGAAGA-GA
110676 AGAA-AAGAGGAAT-AAGAAGA
1 AGAAGAAGAGG-ATGAAG-AGA
* * *
110696 AGAAAAAAAGGAAG-AG-GA
1 AGAAGAAGAGGATGAAGAGA
110714 AGAAGAAGA
1 AGAAGAAGA
110723 TGAGGAGGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
18 9 0.16
19 16 0.29
20 18 0.33
21 12 0.22
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.05
Consensus pattern (20 bp):
AGAAGAAGAGGATGAAGAGA
Found at i:110715 original size:21 final size:21
Alignment explanation
Indices: 110668--110740 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
110658 AGAAGAGGGT
* * *
110668 GAAGAGGAAGAAAAGAGGAATAA
1 GAAGAAGAA-AAAA-AGGAAGAG
110691 GAAGAAGAAAAAAAGGAAGAG
1 GAAGAAGAAAAAAAGGAAGAG
* ** *
110712 GAAGAAGAAGATGAGGAGGAG
1 GAAGAAGAAAAAAAGGAAGAG
110733 GAAGAAGA
1 GAAGAAGA
110741 GTGAGAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 31 0.72
22 4 0.09
23 8 0.19
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (21 bp):
GAAGAAGAAAAAAAGGAAGAG
Found at i:110730 original size:18 final size:19
Alignment explanation
Indices: 110709--110745 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
110699 AAAAAAGGAA
110709 GAGGAAGAAGAAGA-TGAG
1 GAGGAAGAAGAAGAGTGAG
*
110727 GAGGAGGAAGAAGAGTGAG
1 GAGGAAGAAGAAGAGTGAG
110746 AATAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.49, T:0.05
Consensus pattern (19 bp):
GAGGAAGAAGAAGAGTGAG
Found at i:110740 original size:3 final size:3
Alignment explanation
Indices: 110288--110722 Score: 297
Period size: 3 Copynumber: 147.7 Consensus size: 3
110278 GGAGGAGGAG
* *
110288 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA AAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
110336 GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAG GAA -CA GAA -ATA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A
** * * * * *
110380 TG-A GAAA GGG GAA GAA GAA TAA GAA GAA GAT GAG GAG GAA GAT GAA
1 -GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * *
110426 GAA GAA GCAA -AG GAA TAA GAA GAG GAA -AA TGAG GAT GAA GAA GAA
1 GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA
* * * *
110471 GAA GAA GAA GAA GAG GAA GAG GAA TAA GAA AAA G-A GAA -AA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
110516 AAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAG GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * *
110564 AAA GAA AAA AAA AAA G-A GAA -AA GAA -AA -AA GAA GAG GAA GAT GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * * * * *
110608 AAA GAA GAA -AA GAA GAA GTA GTA GTA GTA GAA GAA GAT GAT GAA GAAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA
* ** * * *
110656 GAA GAA GAG GGT GAA GAG GAA GAA -AA GAG GAA TAA GAA GAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
110702 AAA GGAA GAG GAA GAA GAA GA
1 GAA -GAA GAA GAA GAA GAA GA
110723 TGAGGAGGAG
Statistics
Matches: 340, Mismatches: 72, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
2 26 0.08
3 304 0.89
4 10 0.03
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:110842 original size:15 final size:15
Alignment explanation
Indices: 110766--110844 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
110756 GGAAGAGTAG
*
110766 TCTTTTTCATCTTCT
1 TCTTTTTCTTCTTCT
* *
110781 TCCTTTTCTTCTTTT
1 TCTTTTTCTTCTTCT
** * *
110796 TCTTCCTCTTTTTTT
1 TCTTTTTCTTCTTCT
** *
110811 TCTCATTC-TCTTAT
1 TCTTTTTCTTCTTCT
110825 TCTTTTTCTTCTTCT
1 TCTTTTTCTTCTTCT
110840 TCTTT
1 TCTTT
110845 ACTCATGTAT
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
14 10 0.21
15 38 0.79
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTTTTTCTTCTTCT
Found at i:119987 original size:12 final size:12
Alignment explanation
Indices: 119969--120000 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
119959 ATGTTCGTTT
119969 ATATGTTCATGA
1 ATATGTTCATGA
*
119981 ATGTGTTCATGA
1 ATATGTTCATGA
119993 ATATGTTC
1 ATATGTTC
120001 GTTTAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (12 bp):
ATATGTTCATGA
Found at i:120022 original size:23 final size:24
Alignment explanation
Indices: 119996--120047 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
119986 TTCATGAATA
*
119996 TGTTCGTTTA-ATGTTCACAAACG
1 TGTTCGTTTATATGTTAACAAACG
*
120019 TGTTCGTTTATATGTTAATAAACG
1 TGTTCGTTTATATGTTAACAAACG
120043 TGTTC
1 TGTTC
120048 ATGAACAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (24 bp):
TGTTCGTTTATATGTTAACAAACG
Found at i:120034 original size:35 final size:36
Alignment explanation
Indices: 119953--120023 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
119943 TCGCGAACAT
* ** *
119953 ATGAACATGTTCGTTTATATGTTCATGAATGTGTTC
1 ATGAATATGTTCGTTTATATGTTCACAAACGTGTTC
119989 ATGAATATGTTCGTTTA-ATGTTCACAAACGTGTTC
1 ATGAATATGTTCGTTTATATGTTCACAAACGTGTTC
120024 GTTTATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (36 bp):
ATGAATATGTTCGTTTATATGTTCACAAACGTGTTC
Found at i:120086 original size:22 final size:22
Alignment explanation
Indices: 120056--120119 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
120046 TCATGAACAA
120056 GTTCGTTTATCATTCATTTAGT
1 GTTCGTTTATCATTCATTTAGT
* * **
120078 GTTCATTTAGCATTTTTTTAGT
1 GTTCGTTTATCATTCATTTAGT
* *
120100 GTTTGTTTATCGTTCATTTA
1 GTTCGTTTATCATTCATTTA
120120 TATATTTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.11, G:0.14, T:0.58
Consensus pattern (22 bp):
GTTCGTTTATCATTCATTTAGT
Found at i:121107 original size:2 final size:2
Alignment explanation
Indices: 121095--121128 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
121085 TGCATTTGCA
*
121095 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121129 GAGGTAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126343 original size:2 final size:2
Alignment explanation
Indices: 126336--126369 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
126326 ACTCAAGTTC
126336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126370 CATGTTCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:131750 original size:21 final size:22
Alignment explanation
Indices: 131717--131757 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
131707 TTAAATATTA
*
131717 TAAAGGAAGTACTGATACTCAT
1 TAAAAGAAGTACTGATACTCAT
131739 TAAAAGAA-TACTGATACTC
1 TAAAAGAAGTACTGATACTC
131758 CCTGTCCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (22 bp):
TAAAAGAAGTACTGATACTCAT
Found at i:132488 original size:22 final size:22
Alignment explanation
Indices: 132461--132569 Score: 116
Period size: 22 Copynumber: 5.0 Consensus size: 22
132451 CATGTGAAAT
132461 TTTGTCCCGAAAGACCTATATA
1 TTTGTCCCGAAAGACCTATATA
* *
132483 TTTGTCCCGAATGA-CTCATGTA
1 TTTGTCCCGAAAGACCT-ATATA
* *
132505 TTTGTCCCGAAGGACCTATGTA
1 TTTGTCCCGAAAGACCTATATA
* *
132527 TTTGTTCCGAAAGACCCTGTATA
1 TTTGTCCCGAAAGA-CCTATATA
*
132550 --TGTCCCGAATGACCTATATA
1 TTTGTCCCGAAAGACCTATATA
132570 ACCCTCAACT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.09
21 12 0.16
22 47 0.64
23 8 0.11
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (22 bp):
TTTGTCCCGAAAGACCTATATA
Found at i:132514 original size:44 final size:43
Alignment explanation
Indices: 132461--132569 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 43
132451 CATGTGAAAT
*
132461 TTTGTCCCGAAAGACCTATATATTTGTCCCGAATGACTCATGTA
1 TTTGTCCCGAAAGACCTATATATTTGTCCCGAAAGAC-CATGTA
* * * *
132505 TTTGTCCCGAAGGACCTATGTATTTGTTCCGAAAGACCCTGTA
1 TTTGTCCCGAAAGACCTATATATTTGTCCCGAAAGACCATGTA
* *
132548 TATGTCCCGAATGACCTATATA
1 TTTGTCCCGAAAGACCTATATA
132570 ACCCTCAACT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 24 0.42
44 33 0.58
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (43 bp):
TTTGTCCCGAAAGACCTATATATTTGTCCCGAAAGACCATGTA
Found at i:133033 original size:20 final size:20
Alignment explanation
Indices: 133008--133058 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
132998 TTAAGGTAAG
133008 TCGGTACA-CTCTATAGTGTA
1 TCGGTACATC-CTATAGTGTA
133028 TCGGTACATCCTATAGTGTA
1 TCGGTACATCCTATAGTGTA
133048 TCGGTACATCC
1 TCGGTACATCC
133059 CTTAATGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGGTACATCCTATAGTGTA
Found at i:145198 original size:21 final size:21
Alignment explanation
Indices: 145141--145201 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
145131 TTGGTGCAGA
145141 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCC-TGAAG
* * *
145163 GGGAACCGATTCCCCCTGTAG
1 GGGAATCGATACCCCCTGAAG
*
145184 GGGAATCAATACCCCCTG
1 GGGAATCGATACCCCCTG
145202 GAGGTTCTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (21 bp):
GGGAATCGATACCCCCTGAAG
Found at i:147274 original size:65 final size:63
Alignment explanation
Indices: 147076--147285 Score: 228
Period size: 65 Copynumber: 3.3 Consensus size: 63
147066 TTCACTAAGA
* * ** *
147076 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* * *
147140 GTGCATCGATGCATCAAATGCATTCGATGTTCTCATAAAATCCTCA-GTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTC-AATATAAT--TCAGGTGCATCGATGCATGGT-
147204 T-
62 TG
* *
147205 GTGCATCGATGCATGAAATGCATTCGATGTTCAATTTAATTCATGGTGCATCGATGCATGGATTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTCAATATAATTCA-GGTGCATCGATGCATGG-TTG
*
147270 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
147286 CATTGAAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.42
65 62 0.51
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:147832 original size:18 final size:19
Alignment explanation
Indices: 147806--147853 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
147796 GACGACTCCG
* *
147806 ACGATGAACCAGAAC-AGC
1 ACGAGGAACAAGAACAAGC
*
147824 ACGAGGAACAAGCACAAGC
1 ACGAGGAACAAGAACAAGC
147843 A-GAGGAACAAG
1 ACGAGGAACAAG
147854 CACTGCCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.48, C:0.23, G:0.27, T:0.02
Consensus pattern (19 bp):
ACGAGGAACAAGAACAAGC
Found at i:147854 original size:18 final size:19
Alignment explanation
Indices: 147821--147856 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
147811 GAACCAGAAC
147821 AGCACGAGGAACAAGCACA
1 AGCACGAGGAACAAGCACA
147840 AGCA-GAGGAACAAGCAC
1 AGCACGAGGAACAAGCAC
147857 TGCCAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.47, C:0.25, G:0.28, T:0.00
Consensus pattern (19 bp):
AGCACGAGGAACAAGCACA
Found at i:148363 original size:14 final size:14
Alignment explanation
Indices: 148344--148371 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
148334 CGAGTCTTTT
148344 TTATTTAACAAAAA
1 TTATTTAACAAAAA
148358 TTATTTAACAAAAA
1 TTATTTAACAAAAA
148372 GAGGGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
TTATTTAACAAAAA
Found at i:149693 original size:22 final size:22
Alignment explanation
Indices: 149666--149775 Score: 175
Period size: 22 Copynumber: 5.0 Consensus size: 22
149656 CATGTGAAAT
*
149666 TTTGTCCCTAAGGACCTATGTA
1 TTTGTCCCGAAGGACCTATGTA
149688 TTTGTCCCGAAGGACCTATGTA
1 TTTGTCCCGAAGGACCTATGTA
*
149710 TTTGTCCCGAATGACCTATGTA
1 TTTGTCCCGAAGGACCTATGTA
* *
149732 TTTGTCCCGAAGGACCTCTGTC
1 TTTGTCCCGAAGGACCTATGTA
*
149754 TATGTCCCGAAGGACCTATGTA
1 TTTGTCCCGAAGGACCTATGTA
149776 ACCCTCGACT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 80 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (22 bp):
TTTGTCCCGAAGGACCTATGTA
Found at i:162829 original size:6 final size:6
Alignment explanation
Indices: 162818--162866 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
162808 GACACGTATT
* *
162818 ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
162866 A
1 A
162867 GCCGAGCCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.31, C:0.49, G:0.16, T:0.04
Consensus pattern (6 bp):
ACCACG
Found at i:162874 original size:5 final size:5
Alignment explanation
Indices: 162864--162922 Score: 64
Period size: 5 Copynumber: 11.8 Consensus size: 5
162854 ACCACGACCA
* * * * * *
162864 CGAGC CGAGC CGAGC CGAGC CGAAC CGAAC CGAGC CGTGC CGTGT CGTGC
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
162914 CGAGC CGAG
1 CGAGC CGAG
162923 ACGAAACGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.19, C:0.37, G:0.37, T:0.07
Consensus pattern (5 bp):
CGAGC
Found at i:168829 original size:5 final size:5
Alignment explanation
Indices: 168819--168857 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
168809 ACCATGACCA
* *
168819 CGAGC CGAGC CGAGC CGAGC CGTGC CGAGC CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
168858 ACAAGACGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.21, C:0.36, G:0.41, T:0.03
Consensus pattern (5 bp):
CGAGC
Found at i:170611 original size:2 final size:2
Alignment explanation
Indices: 170599--170631 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
170589 ATATTTTGCT
*
170599 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
170632 TTACTTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:173141 original size:15 final size:15
Alignment explanation
Indices: 173121--173169 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
173111 TAGGAAAAAA
173121 ATTATTTAAAATATT
1 ATTATTTAAAATATT
*
173136 ATTA-TT--ATTATT
1 ATTATTTAAAATATT
*
173148 ATTATTTAAAACATT
1 ATTATTTAAAATATT
*
173163 AATATTT
1 ATTATTT
173170 TTTAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTTAAAATATT
Found at i:175500 original size:63 final size:63
Alignment explanation
Indices: 175424--175567 Score: 143
Period size: 63 Copynumber: 2.3 Consensus size: 63
175414 TTCTATAATT
* * *
175424 TTATTAATAAAAATATTAAGATTAGTATATTTTATTGAAATAAAATATT-ATAAAT-TATATT-A
1 TTATTTATTAAAATATTAA-A-TAGTATATTATATTGAAA-AAAATATTAATAAATATATATTAA
175486 A
63 A
* * * * *
175487 TTATTTATTAAAATAAT-AATATTATATTATATTTAAAAAAATATTAATTAATATATTTTAAA
1 TTATTTATTAAAATATTAAATAGTATATTATATTGAAAAAAATATTAATAAATATATATTAAA
*
175549 TATATTTGTTAAAATATTA
1 T-TATTTATTAAAATATTA
175568 TGAGATTGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
59 8 0.12
60 20 0.30
61 6 0.09
62 4 0.06
63 28 0.42
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (63 bp):
TTATTTATTAAAATATTAAATAGTATATTATATTGAAAAAAATATTAATAAATATATATTAAA
Found at i:175508 original size:25 final size:24
Alignment explanation
Indices: 175475--175545 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
175465 AAAATATTAT
*
175475 AAATTATATTAATTATTTATTAAAA
1 AAATAATATTAATTATTT-TTAAAA
* *
175500 TAATAATATTATATTATATTTAAAA
1 AAATAATATTA-ATTATTTTTAAAA
*
175525 AAATATTAATTAATATATTTT
1 AAATAAT-ATTAAT-TATTTT
175546 AAATATATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
25 22 0.59
26 15 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATAATATTAATTATTTTTAAAA
Found at i:175528 original size:28 final size:28
Alignment explanation
Indices: 175449--175543 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 28
175439 TTAAGATTAG
* *
175449 TATATTTTATTGAAATAAAATATTATAA-AT
1 TATATTATATTTAAA-AAAATA--ATAATAT
**
175479 TATATTAATTATTTATTAAAATAATAATAT
1 TATATT-A-TATTTAAAAAAATAATAATAT
* *
175509 TATATTATATTTAAAAAAATATTAATTAA
1 TATATTATATTTAAAAAAATAATAA-TAT
175538 TATATT
1 TATATT
175544 TTAAATATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
28 15 0.28
29 13 0.25
30 14 0.26
31 6 0.11
32 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
TATATTATATTTAAAAAAATAATAATAT
Found at i:175540 original size:22 final size:24
Alignment explanation
Indices: 175480--175540 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
175470 ATTATAAATT
*
175480 ATATTAATTATTTATTAAAATAATA
1 ATATTAATTA-ATATTAAAATAATA
*
175505 ATATTATATT-ATATTTAAA-AA-A
1 ATATTA-ATTAATATTAAAATAATA
175527 ATATTAATTAATAT
1 ATATTAATTAATAT
175541 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 3 0.09
22 11 0.34
23 2 0.06
24 7 0.22
25 6 0.19
26 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATTAATTAATATTAAAATAATA
Found at i:175726 original size:27 final size:27
Alignment explanation
Indices: 175673--175726 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
175663 TTTTTTGTTA
*
175673 TATATTATTAAAATAAAAATATTATAT
1 TATATTATTAAAATAAAAATATAATAT
*
175700 TATATTATTAAAAATATAAATA-AATAT
1 TATATTATT-AAAATAAAAATATAATAT
175727 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
TATATTATTAAAATAAAAATATAATAT
Found at i:175736 original size:22 final size:25
Alignment explanation
Indices: 175671--175736 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 25
175661 ATTTTTTTGT
175671 TATATATTATTAAAATAAAAATATTA
1 TATATATTATTAAAATAAAAATA-TA
*
175697 TATTATATTATTAAAAATATAAATA-A
1 TA-TATATTATT-AAAATAAAAATATA
175723 -ATATATT-TTAAAAT
1 TATATATTATTAAAAT
175737 TTTTAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
22 5 0.14
23 2 0.05
24 6 0.16
25 1 0.03
26 3 0.08
27 9 0.24
28 11 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATATTATTAAAATAAAAATATA
Found at i:176190 original size:20 final size:21
Alignment explanation
Indices: 176165--176203 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
176155 TTTTATAATT
*
176165 TTTTGTTTTAA-TATTTAAAC
1 TTTTGTATTAATTATTTAAAC
176185 TTTTGTATTAATTATTTAA
1 TTTTGTATTAATTATTTAA
176204 TAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTGTATTAATTATTTAAAC
Found at i:176510 original size:23 final size:23
Alignment explanation
Indices: 176463--176514 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 23
176453 TATTTATTAT
176463 TTAATTTTTATTTTAATCACTCAA
1 TTAATTTTTATTTTAATCAC-CAA
176487 TTAATTTTTATTTTAAATCA-CAA
1 TTAATTTTTATTTT-AATCACCAA
176510 TTAAT
1 TTAAT
176515 GTTACATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 8 0.30
24 14 0.52
25 5 0.19
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTTTTATTTTAATCACCAA
Found at i:180578 original size:29 final size:29
Alignment explanation
Indices: 180535--180617 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
180525 CTCACCTAAC
180535 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
180565 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
180594 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
180618 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:185346 original size:29 final size:29
Alignment explanation
Indices: 185303--185385 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
185293 CTCACCTAAC
185303 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
185333 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
185362 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
185386 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:188470 original size:2 final size:2
Alignment explanation
Indices: 188463--188512 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
188453 ATGGATTTCA
188463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188505 AT AT AT AT
1 AT AT AT AT
188513 TAAAAAACGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.