Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 262 of 290
Found at i:90452616 original size:21 final size:21
Alignment explanation
Indices: 90452550--90452616 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
90452540 TCATTTTCAG
* *
90452550 CAACTTC-ATCTTCTTCAGCAA
1 CAACTTCTA-CTTCTACAGCAT
90452571 CAACTTCCT-CTTCTACAG--T
1 CAACTT-CTACTTCTACAGCAT
90452590 -AACTTCTACTTCTACAGCAT
1 CAACTTCTACTTCTACAGCAT
90452610 CAACTTC
1 CAACTTC
90452617 CTTCTTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
17 2 0.05
18 14 0.37
20 1 0.03
21 20 0.53
22 1 0.03
ACGTcount: A:0.27, C:0.34, G:0.04, T:0.34
Consensus pattern (21 bp):
CAACTTCTACTTCTACAGCAT
Found at i:90454624 original size:26 final size:26
Alignment explanation
Indices: 90454588--90454642 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
90454578 AACAAACCAA
*
90454588 TATCGTAGC-AAGACTGCCAGTAACAG
1 TATCGCAGCAAAG-CTGCCAGTAACAG
* *
90454614 TATCGCAGCAAAGCTGCTAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
90454640 TAT
1 TAT
90454643 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:90466946 original size:23 final size:24
Alignment explanation
Indices: 90466910--90466954 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
90466900 AATTCAATAC
90466910 TCAAATCCATATC-ATTTATCTAT
1 TCAAATCCATATCAATTTATCTAT
90466933 TCAAATACCA-ATCAATTTATCT
1 TCAAAT-CCATATCAATTTATCT
90466955 TGCTTTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (24 bp):
TCAAATCCATATCAATTTATCTAT
Found at i:90471285 original size:6 final size:5
Alignment explanation
Indices: 90471263--90471333 Score: 54
Period size: 5 Copynumber: 13.2 Consensus size: 5
90471253 TGTCTTCTTG
* * *
90471263 TTTTA TCTTA CTTCTA TTTCTA TTTTTG TTTTTA TTTTA TTTTA -TTTA
1 TTTTA TTTTA -TTTTA TTT-TA -TTTTA TTT-TA TTTTA TTTTA TTTTA
90471311 TTTTTA TTTTA TTTATA TTTTA T
1 -TTTTA TTTTA TTT-TA TTTTA T
90471334 GTTTCTTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.08
5 27 0.51
6 19 0.36
7 3 0.06
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:90471300 original size:5 final size:5
Alignment explanation
Indices: 90471292--90471333 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
90471282 CTATTTTTGT
90471292 TTTTA TTTTA TTTTA -TTTA TTTTTA TTTTA TTTATA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTT-TA TTTTA T
90471334 GTTTCTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
5 21 0.62
6 9 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:90471305 original size:11 final size:11
Alignment explanation
Indices: 90471286--90471333 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
90471276 CTATTTCTAT
*
90471286 TTTTGTTTTTA
1 TTTTATTTTTA
90471297 TTTTA-TTTTA
1 TTTTATTTTTA
90471307 -TTTATTTTTA
1 TTTTATTTTTA
*
90471317 TTTTATTTATA
1 TTTTATTTTTA
90471328 TTTTAT
1 TTTTAT
90471334 GTTTCTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 4 0.12
10 10 0.30
11 19 0.58
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:90471317 original size:15 final size:15
Alignment explanation
Indices: 90471293--90471333 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
90471283 TATTTTTGTT
90471293 TTTA-TTTTATTTTA
1 TTTATTTTTATTTTA
90471307 TTTATTTTTATTTTA
1 TTTATTTTTATTTTA
90471322 TTTATATTTTAT
1 TTTAT-TTTTAT
90471334 GTTTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.16
15 15 0.60
16 6 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:90471320 original size:26 final size:26
Alignment explanation
Indices: 90471283--90471333 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
90471273 CTTCTATTTC
*
90471283 TATTTTTGTTTTTATTT-TATTTTATT
1 TATTTTT-ATTTTATTTATATTTTATT
90471309 TATTTTTATTTTATTTATATTTTAT
1 TATTTTTATTTTATTTATATTTTAT
90471334 GTTTCTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (26 bp):
TATTTTTATTTTATTTATATTTTATT
Found at i:90471343 original size:31 final size:32
Alignment explanation
Indices: 90471263--90471343 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 32
90471253 TGTCTTCTTG
* * *
90471263 TTTTATCTTACTTCTATTTCTATTTTTGTTTTTA
1 TTTTATTTTAC-T-TATTTCTATTTTTATTTATA
* *
90471297 TTTTATTTTATTTATTTTTA-TTTTATTTATA
1 TTTTATTTTACTTATTTCTATTTTTATTTATA
90471328 TTTTATGTTT-CTTATT
1 TTTTAT-TTTACTTATT
90471344 ATCTTTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
31 20 0.50
32 10 0.25
33 1 0.03
34 9 0.22
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (32 bp):
TTTTATTTTACTTATTTCTATTTTTATTTATA
Found at i:90481476 original size:49 final size:49
Alignment explanation
Indices: 90481363--90481541 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 49
90481353 GTATAATGCT
* * *
90481363 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C--AT-CAAGTC
1 GATGCCATGT-CCAGACATGGTCTTACACTGACT-ATCACAAATCCAGGCC
* **
90481410 GATGCCATGTCCTAGACATGGGCTTACACTGACTATCA-AAATTGAGGCC
1 GATGCCATGTCC-AGACATGGTCTTACACTGACTATCACAAATCCAGGCC
* * * *
90481459 GATGCCATGTCTCAGACATGGTCTTACACT-AGCTCTCACATATCCATGCT
1 GATGCCATGTC-CAGACATGGTCTTACACTGA-CTATCACAAATCCAGGCC
90481509 GATGCCATGTCCCAGACATGGTCTTACACTGAC
1 GATGCCATGT-CCAGACATGGTCTTACACTGAC
90481542 ACATCTCGTA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
46 5 0.05
47 29 0.26
48 3 0.03
49 35 0.32
50 36 0.33
51 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCAGACATGGTCTTACACTGACTATCACAAATCCAGGCC
Found at i:90481608 original size:46 final size:49
Alignment explanation
Indices: 90481363--90481725 Score: 305
Period size: 46 Copynumber: 7.7 Consensus size: 49
90481353 GTATAATGCT
* * *
90481363 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCGAGGCC
* * * * *
90481410 GATGCCATGTCCTAGACATGGGCTTACACTGACTATCAAAAT-T-GAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTACATCTCGAGGCC
* * * * * *
90481459 GATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCCATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCTCGAGGCC
*
90481509 GATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG-AGGCC
* *
90481555 AATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAGGCC
* * ** * *
90481601 GATG-CATGTCCCAGACAT-GTCTTATACTAGCTCT-TGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAGGCC
* * *
90481647 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGAGGCC
90481695 GATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
90481726 ACACAAATAA
Statistics
Matches: 256, Mismatches: 44, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 74 0.29
47 60 0.23
48 27 0.11
49 37 0.14
50 32 0.12
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAGGCC
Found at i:90481671 original size:94 final size:93
Alignment explanation
Indices: 90481363--90481728 Score: 306
Period size: 94 Copynumber: 3.9 Consensus size: 93
90481353 GTATAATGCT
* * * * *
90481363 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ATC-CATCAAGTC-GATGCCATGTCCTAG
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTA-CATATCGAGGCTGATG-CATGTCCCAG
* * **
90481425 ACATGGGCTTACACTGAC-TATCAAAATTGAGGCC
64 ACAT-GTCTTACACTGACACATC-TCA-T-A-GCC
* * *
90481459 GATGCCATGT-CTCAGACATGGTCTTACACTAGCTCTCACATATCCATGCTGATGCCATGTCCCA
1 GATGCCATGTCCT-AGACATGGTCTTACACTGGCTCT-ACATATCGAGGCTGATG-CATGTCCCA
*
90481523 GACATGGTCTTACACTGACACATCTCGTAGCC
63 GACAT-GTCTTACACTGACACATCTCATAGCC
* * *
90481555 AATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCTGATGCATGTCCCAGAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCGAGGCTGATGCATGTCCCAGAC
* * *
90481617 ATGTCTTATACT-AGCTCTTGTCTCA-ATGCC
66 ATGTCTTACACTGA-CAC--ATCTCATA-GCC
* *
90481647 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACAT-ATCGAGGCTGATGCATGTCCCAGA
*
90481710 CATGTCTTACACTGGCACA
65 CATGTCTTACACTGACACA
90481729 CAAATAACCC
Statistics
Matches: 223, Mismatches: 31, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
89 1 0.00
90 11 0.05
91 15 0.07
92 24 0.11
93 14 0.06
94 63 0.28
95 14 0.06
96 38 0.17
97 2 0.01
98 7 0.03
99 31 0.14
100 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCGAGGCTGATGCATGTCCCAGAC
ATGTCTTACACTGACACATCTCATAGCC
Found at i:90481710 original size:140 final size:142
Alignment explanation
Indices: 90481357--90481725 Score: 416
Period size: 140 Copynumber: 2.6 Consensus size: 142
90481347 CATAGGGTAT
90481357 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT--CGATGCCATGT
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CAT-AAGTGCCGATG-CATGT
* * * *
90481420 CCTAGACATGGGCTTACACTGACTATCAAAATTGAGGCCGATGCCATGTCTCAGACATGGTCTTA
63 CCCAGACAT-GTCTTACACTGGCTAT-AAAATTGAGGCCGATGCCATGTCCCAGACATGGTCTTA
90481485 CACTAGCTCTCACATATC
126 CACTAGCTCT-ACATATC
* * * * *
90481503 CATGCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T-CGTAGCCAATGCATGTCC
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGT-GCCGATGCATGTCC
* * *
90481566 CAGACATGTCTTACACTGGCT-T-ACATCTCGAGGCTGATG-CATGTCCCAGACAT-GTCTTATA
65 CAGACATGTCTTACACTGGCTATAAAAT-T-GAGGCCGATGCCATGTCCCAGACATGGTCTTACA
** *
90481627 CTAGCTCT-TGTCTC
128 CTAGCTCTACATATC
* *
90481641 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTC
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAA-GT-GCCGATGCATGTC
90481705 CCAGACATGTCTTACACTGGC
64 CCAGACATGTCTTACACTGGC
90481726 ACACAAATAA
Statistics
Matches: 192, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
137 2 0.01
138 40 0.21
140 53 0.28
141 14 0.07
142 12 0.06
143 12 0.06
144 14 0.07
145 5 0.03
146 40 0.21
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (142 bp):
AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGTGCCGATGCATGTCCC
AGACATGTCTTACACTGGCTATAAAATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTA
GCTCTACATATC
Found at i:90483819 original size:27 final size:26
Alignment explanation
Indices: 90483781--90484095 Score: 269
Period size: 27 Copynumber: 11.7 Consensus size: 26
90483771 AGACCTCGTG
* *
90483781 TTGTAAAATTACTGAAATATCCCCAGC
1 TTGTAAAATTACCGAAATA-CCCCAGT
90483808 TTGTAAAATTACCGAAATACCCCTAGGT
1 TTGTAAAATTACCGAAATACCCC-A-GT
90483836 TT-TAAAATTACCGAAATACCCCTTA-T
1 TTGTAAAATTACCGAAATACCCC--AGT
* * * *
90483862 TTGTAAACTTACCAAAATACCCTTAGA
1 TTGTAAAATTACCGAAATACCC-CAGT
* *
90483889 TTGTAAAACTATCGAAATACCCCCGAG-
1 TTGTAAAATTACCGAAATA-CCCC-AGT
90483916 TTGTAAAATTACCGAAATACCCCAGT
1 TTGTAAAATTACCGAAATACCCCAGT
* * *
90483942 TTGTAAAATTACCAAAATACCTTCAGA
1 TTGTAAAATTACCGAAATACC-CCAGT
* * * *
90483969 TTATAAAATTATCAAAATACTCTC-GAT
1 TTGTAAAATTACCGAAATAC-CCCAG-T
90483996 TTGTAAAATTACCGAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCC-AGT
* * ** *
90484023 TTGTAACATTATCGAAATACCCTTGGA
1 TTGTAAAATTACCGAAATACCC-CAGT
**
90484050 TTGTAAAATTACTAAAATACCCCCAGT
1 TTGTAAAATTACCGAAATA-CCCCAGT
*
90484077 TTGTAAAATTATCGAAATA
1 TTGTAAAATTACCGAAATA
90484096 TATTTGTAGT
Statistics
Matches: 234, Mismatches: 38, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
25 2 0.01
26 35 0.15
27 182 0.78
28 15 0.06
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCCCAGT
Found at i:90483923 original size:81 final size:81
Alignment explanation
Indices: 90483808--90484095 Score: 338
Period size: 81 Copynumber: 3.6 Consensus size: 81
90483798 TATCCCCAGC
* * * *
90483808 TTGTAAAATTACCGAAATA-CCCCTAGGTTTTAAAATTACCGAAATACCCCTTA-TTTGTAAACT
1 TTGTAAAATTATCAAAATACCCCCGA-GTTGTAAAATTACCGAAATACCCC-TAGTTTGTAAACT
90483871 TACCAAAATACCCTTAGA
64 TACCAAAATACCCTTAGA
* * *
90483889 TTGTAAAACTATCGAAATACCCCCGAGTTGTAAAATTACCGAAATACCCC-AGTTTGTAAAATTA
1 TTGTAAAATTATCAAAATACCCCCGAGTTGTAAAATTACCGAAATACCCCTAGTTTGTAAACTTA
90483953 CCAAAATA-CCTTCAGA
66 CCAAAATACCCTT-AGA
* * * *
90483969 TTATAAAATTATCAAAATACTCTCGATTTGTAAAATTACCGAAATACCCCTAGTTTGT-AACATT
1 TTGTAAAATTATCAAAATACCCCCGAGTTGTAAAATTACCGAAATACCCCTAGTTTGTAAAC-TT
* * *
90484033 ATCGAAATACCCTTGGA
65 ACCAAAATACCCTTAGA
*
90484050 TTGTAAAATTA-CTAAAATACCCCC-AGTTTGTAAAATTATCGAAATA
1 TTGTAAAATTATC-AAAATACCCCCGAG-TTGTAAAATTACCGAAATA
90484096 TATTTGTAGT
Statistics
Matches: 179, Mismatches: 20, Indels: 16
0.83 0.09 0.07
Matches are distributed among these distances:
79 5 0.03
80 70 0.39
81 95 0.53
82 9 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
TTGTAAAATTATCAAAATACCCCCGAGTTGTAAAATTACCGAAATACCCCTAGTTTGTAAACTTA
CCAAAATACCCTTAGA
Found at i:90484108 original size:27 final size:27
Alignment explanation
Indices: 90484078--90484138 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
90484068 ACCCCCAGTT
* *
90484078 TGTAAAATTA-TCGAAATATATTTGTAG
1 TGTAAAATTACT-GAAATACACTTGTAG
90484105 TGTAAAATTACTGAAATACACTTGTAG
1 TGTAAAATTACTGAAATACACTTGTAG
90484132 -GTAAAAT
1 TGTAAAAT
90484139 GATTGTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 7 0.23
27 23 0.74
28 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.36
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACACTTGTAG
Found at i:90486209 original size:10 final size:9
Alignment explanation
Indices: 90486185--90486210 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
90486175 TTCAAGGATT
90486185 TCAAAAACA
1 TCAAAAACA
90486194 TCAAAAACA
1 TCAAAAACA
90486203 TCAAAAAC
1 TCAAAAAC
90486211 CAACACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAACA
Found at i:90488695 original size:43 final size:42
Alignment explanation
Indices: 90488602--90488774 Score: 152
Period size: 43 Copynumber: 4.1 Consensus size: 42
90488592 GATTACCGAA
* * *
90488602 ATGTGATTACATGTAAGACCATG-TCTGGGACATTTGAATTGT
1 ATGTGATTACATGTAAGACCATGTTC-GGGACATTGGCATCGT
*
90488644 ATTGTGATTACGTGTAAGACCATGTTCGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTTCGGGACATTGGCATCG-T
* * * * * *
90488688 ATATGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTTCGGGACATTGGCATCG-T
* * * * * *
90488731 ATGTGATAACATATAAGACCATATTTGGGATA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATGTTCGGGACATTGGCATCGT
90488772 ATG
1 ATG
90488775 AGCTTTATGT
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.04
42 8 0.07
43 93 0.85
44 4 0.04
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTTCGGGACATTGGCATCGT
Found at i:90490800 original size:27 final size:27
Alignment explanation
Indices: 90490770--90490861 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
90490760 ATTACCAAAG
*
90490770 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
**
90490797 TACCCTTTATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
90490824 TATCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
90490851 TACCCTCGATT
1 TACCCTCGATT
90490862 GTGAAATTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:90490923 original size:27 final size:27
Alignment explanation
Indices: 90490893--90491043 Score: 162
Period size: 27 Copynumber: 5.6 Consensus size: 27
90490883 TATAGGGTAG
*
90490893 AATTACCAAAATACCCCTAAATTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
*
90490920 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
90490947 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
90490974 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
* * * **
90491001 AATTACCGAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
90491028 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
90491044 TTGACTTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.04
27 99 0.93
28 3 0.03
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:90490932 original size:54 final size:54
Alignment explanation
Indices: 90490874--90491015 Score: 135
Period size: 54 Copynumber: 2.6 Consensus size: 54
90490864 GAAATTATTG
* *
90490874 AAATACCCCTA-TAGGGTAGAATTACCAAAATACCCCTAAATTGTAAAATTACCA
1 AAATACCCCTAGT-GGGTAAAATTACCAAAATACCACTAAATTGTAAAATTACCA
** ** * * *
90490928 AAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTATCG
1 AAATACCCCTAGTGGGTAAAATTACCAAAATACCACTAAATTGTAAAATTACCA
* ** *
90490982 AAATA-CCCTCAATTTGTAAAATTACCGAAATACC
1 AAATACCCCT-AGTGGGTAAAATTACCAAAATACC
90491016 CTTGATTTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 70 0.93
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (54 bp):
AAATACCCCTAGTGGGTAAAATTACCAAAATACCACTAAATTGTAAAATTACCA
Found at i:90491031 original size:54 final size:53
Alignment explanation
Indices: 90490918--90491130 Score: 162
Period size: 54 Copynumber: 3.9 Consensus size: 53
90490908 CCTAAATTGT
* * **
90490918 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACAAAAATACCCTC-AGTTTGTAAAATTACCAAAATACC-CTTGTTTAC
* * * *
90490972 GAAATTATC-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCTTGATTTAC
1 AAAATTA-CAAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTG-TTTAC
* * * * * *
90491026 AAAATTACAGAAATACCCTTGACTTTTTAAAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACAAAAATACCC-TCAGTTTGT-AAAATTACCA-AAATACCCTT-GTTTAC
* ** * *
90491082 AAAATTACTAAAATACCCTTGGTTTGTAAATTTACCAAAACACCCTTGT
1 AAAATTACAAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTGT
90491131 AGGATGAAAT
Statistics
Matches: 126, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
53 6 0.05
54 68 0.54
55 14 0.11
56 37 0.29
57 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATTACAAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTGTTTAC
Found at i:90491044 original size:27 final size:27
Alignment explanation
Indices: 90490973--90491102 Score: 122
Period size: 27 Copynumber: 4.7 Consensus size: 27
90490963 CTAGTTTGTG
** **
90490973 AAATTATC-GAAATACCCTCAATTTGTA
1 AAATTA-CAGAAATACCCTTGATTTACA
*
90491000 AAATTACCGAAATACCCTTGATTTACA
1 AAATTACAGAAATACCCTTGATTTACA
90491027 AAATTACAGAAATACCCTTGACTTTTTA-A
1 AAATTACAGAAATACCCTTGA---TTTACA
* * *
90491056 AAATTATAGAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGATTTACA
90491083 AAATTACTA-AAATACCCTTG
1 AAATTAC-AGAAATACCCTTG
90491103 GTTTGTAAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.06
27 58 0.67
28 1 0.01
29 19 0.22
30 4 0.05
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGATTTACA
Found at i:90491103 original size:27 final size:27
Alignment explanation
Indices: 90490918--90491129 Score: 117
Period size: 27 Copynumber: 7.8 Consensus size: 27
90490908 CCTAAATTGT
* * **
90490918 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAC
* **
90490945 AAAATTACCAAAATACCAC-TAGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTAC
* * * *** **
90490972 GAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTAC
* *
90490999 AAAATTACCGAAATACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTAC
*
90491026 AAAATTA-CAGAAATACCCTTGACTTTTTA-
1 AAAATTACCA-AAATACCCTTG---GTTTAC
* *
90491055 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACCA-AAATACCCTTGGTTTAC
* **
90491082 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAC
* *
90491109 AAATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
90491130 TAGGATGAAA
Statistics
Matches: 155, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
26 6 0.04
27 123 0.79
28 3 0.02
29 19 0.12
30 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTAC
Found at i:90492071 original size:25 final size:25
Alignment explanation
Indices: 90492033--90492102 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
90492023 AGGAAGTGCT
* *
90492033 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
90492058 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
90492083 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
90492103 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:90492115 original size:24 final size:24
Alignment explanation
Indices: 90492032--90492127 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
90492022 GAGGAAGTGC
*
90492032 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
90492057 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
90492081 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
90492105 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
90492128 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:90492126 original size:50 final size:50
Alignment explanation
Indices: 90492033--90492127 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
90492023 AGGAAGTGCT
**
90492033 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
90492083 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
90492128 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:90492308 original size:42 final size:42
Alignment explanation
Indices: 90492249--90492340 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
90492239 TAGTCTCCCC
* ** *
90492249 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
90492291 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
90492333 AAATGGGC
1 AAATGGGC
90492341 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:90492399 original size:31 final size:31
Alignment explanation
Indices: 90492364--90492473 Score: 211
Period size: 31 Copynumber: 3.5 Consensus size: 31
90492354 CGTTTACAGT
90492364 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
90492395 AAAGGCTTCGGCCCAGTAATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
90492426 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
90492457 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
90492474 AATAGTTAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:90495500 original size:14 final size:14
Alignment explanation
Indices: 90495481--90495511 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
90495471 AGATGATACC
*
90495481 TTTTGTTTATGTTA
1 TTTTGTTTAAGTTA
90495495 TTTTGTTTAAGTTA
1 TTTTGTTTAAGTTA
90495509 TTT
1 TTT
90495512 ATTAATTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (14 bp):
TTTTGTTTAAGTTA
Found at i:90495542 original size:13 final size:14
Alignment explanation
Indices: 90495518--90495547 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
90495508 ATTTATTAAT
90495518 TTACTAATTTAACC
1 TTACTAATTTAACC
90495532 TTACTAA-TTAACC
1 TTACTAATTTAACC
90495545 TTA
1 TTA
90495548 AAATCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (14 bp):
TTACTAATTTAACC
Found at i:90510859 original size:4 final size:4
Alignment explanation
Indices: 90510850--90510924 Score: 141
Period size: 4 Copynumber: 18.8 Consensus size: 4
90510840 AATAATAATA
*
90510850 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC TTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
90510898 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
90510925 GCGATTTTTG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 69 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:90512249 original size:12 final size:13
Alignment explanation
Indices: 90512213--90512250 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
90512203 AAATATTTGA
90512213 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
90512226 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
90512240 CTTG-TCTTAAT
1 CTTGTTCTTAAT
90512251 ATTCTAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:90518196 original size:46 final size:46
Alignment explanation
Indices: 90518053--90518270 Score: 153
Period size: 46 Copynumber: 4.7 Consensus size: 46
90518043 ATATCTGTGT
*
90518053 TGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATA-GC
1 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCATACATCTCA-AGGC
** * * * * *
90518099 CAAAGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGC
1 TGATGCATGTCCCAGACATGTCTTACACTAGCATACATCTCAAGGC
* *
90518145 TGATGCATGCCCCAGACATGTCTTACACTAGCA-ATCATCTCAATG-
1 TGATGCATGTCCCAGACATGTCTTACACTAGCATA-CATCTCAAGGC
* ** * **
90518190 TCGATGCCATGTCCCAGACATAATCTTACACT-GGTTATCATAAT-TTGGC
1 T-GATG-CATGTCCCAGACAT-GTCTTACACTAGCATA-CAT-CTCAAGGC
*
90518239 TGATGCATGTCCCAGACATGTCTTACGCTAGC
1 TGATGCATGTCCCAGACATGTCTTACACTAGC
90518271 TCACAATAAC
Statistics
Matches: 134, Mismatches: 27, Indels: 21
0.74 0.15 0.12
Matches are distributed among these distances:
44 10 0.07
45 18 0.13
46 56 0.42
47 29 0.22
48 19 0.14
49 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
TGATGCATGTCCCAGACATGTCTTACACTAGCATACATCTCAAGGC
Found at i:90520265 original size:43 final size:43
Alignment explanation
Indices: 90520129--90520288 Score: 132
Period size: 43 Copynumber: 3.7 Consensus size: 43
90520119 ATATAGCTCG
* * * * *
90520129 TACAATGCC-ATATCCCAGATATGGTCTTACATATTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACAGATAATCTCAA
* * * * *
90520170 TATCGATGCCACTGTCCCAAACAGGGTCTTATACGA-AA--TCAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACA-GATAATCTCAA
*
90520212 TTAACGATGCCAATGTCCCAGACATGGTCTTACAGATAATCTCAA
1 -T-ACAATGCCAATGTCCCAGACATGGTCTTACAGATAATCTCAA
* *
90520257 TACAATGCCAATCTTCCAGACATGGTCTTACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACA
90520289 TGTAATCACA
Statistics
Matches: 93, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 3 0.03
42 9 0.10
43 74 0.80
44 3 0.03
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACAGATAATCTCAA
Found at i:90532875 original size:30 final size:30
Alignment explanation
Indices: 90532841--90532901 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90532831 TCCTTAACTC
90532841 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90532871 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90532901 A
1 A
90532902 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90543113 original size:27 final size:26
Alignment explanation
Indices: 90543069--90543120 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90543059 CTCGCTGCAA
*
90543069 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
90543096 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
90543121 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:90543188 original size:26 final size:27
Alignment explanation
Indices: 90543159--90543218 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
90543149 CCACATATAT
*
90543159 ATATCTGT-TCTTGTGGCC-TAGCCACA
1 ATATCTGTATCTGGT-GCCTTAGCCACA
* *
90543185 ATATCTGTATCTGGTGCCTTCGTCACA
1 ATATCTGTATCTGGTGCCTTAGCCACA
90543212 ATATCTG
1 ATATCTG
90543219 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGCCTTAGCCACA
Found at i:90547851 original size:40 final size:40
Alignment explanation
Indices: 90547774--90547954 Score: 242
Period size: 40 Copynumber: 4.5 Consensus size: 40
90547764 ACCCAAGTAT
* *
90547774 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
90547813 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
90547853 CTCCGGGACTTAGCTCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
90547893 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
90547933 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
90547955 CATTCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 11 0.09
40 112 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:90547890 original size:80 final size:80
Alignment explanation
Indices: 90547803--90547954 Score: 268
Period size: 80 Copynumber: 1.9 Consensus size: 80
90547793 ATAACAACTC
* * *
90547803 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCTCCGGGACTTAGCT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTCCGGGACTTAGCC
90547868 CGGATATAGTCGCTA
66 CGGATATAGTCGCTA
*
90547883 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTCCGGGACTTAGCC
90547948 CGGATAT
66 CGGATAT
90547955 CATTCGAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTCCGGGACTTAGCC
CGGATATAGTCGCTA
Found at i:90550881 original size:68 final size:67
Alignment explanation
Indices: 90550809--90550958 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
90550799 CATCATGTGT
* * * *
90550809 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
90550871 ATGTAG
62 ATGTAG
** * *
90550877 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
90550942 AG
66 AG
90550944 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
90550959 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:90550914 original size:64 final size:64
Alignment explanation
Indices: 90550833--90551016 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
90550823 AGACATTATG
* *
90550833 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
90550897 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
90550962 AA
63 AA
* * * *
90550964 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
90551017 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:90555653 original size:47 final size:47
Alignment explanation
Indices: 90555599--90555745 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
90555589 TTAGGATTTT
** * *
90555599 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
90555646 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
90555693 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90555740 ATGTGA
1 ATGTGA
90555746 AATATATATG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:90555701 original size:25 final size:25
Alignment explanation
Indices: 90555628--90555701 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
90555618 GTATATATGA
*
90555628 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
90555653 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
90555675 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
90555700 GA
1 GA
90555702 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:90555778 original size:48 final size:48
Alignment explanation
Indices: 90555715--90556566 Score: 1650
Period size: 48 Copynumber: 17.8 Consensus size: 48
90555705 TGAACATGCA
90555715 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* * * * *
90555763 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90555811 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90555859 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90555907 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90555955 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556003 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556051 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556099 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556147 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556195 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556243 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556291 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556339 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556387 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556435 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
90556483 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
*
90556531 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
90556567 GTAGGCGATG
Statistics
Matches: 793, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 793 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
Found at i:90557930 original size:19 final size:19
Alignment explanation
Indices: 90557906--90557945 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
90557896 TGCAATTTTG
90557906 AAAGAGGGTTATGACTATA
1 AAAGAGGGTTATGACTATA
*
90557925 AAAGAGTGTTATGACTATA
1 AAAGAGGGTTATGACTATA
90557944 AA
1 AA
90557946 TGTGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.28
Consensus pattern (19 bp):
AAAGAGGGTTATGACTATA
Found at i:90558278 original size:40 final size:40
Alignment explanation
Indices: 90558075--90558266 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
90558065 TAGAATTGAG
*
90558075 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
90558115 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
90558155 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
90558195 AGTGATGTATCCGGACGAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
90558235 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
90558267 ATCATGCTGG
Statistics
Matches: 138, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:90560077 original size:21 final size:21
Alignment explanation
Indices: 90560036--90560077 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90560026 AAGAAAGGAA
* **
90560036 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
90560057 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
90560078 GGTTATCACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:90561199 original size:47 final size:47
Alignment explanation
Indices: 90561145--90562043 Score: 1690
Period size: 47 Copynumber: 19.1 Consensus size: 47
90561135 TTAGGATTTT
** * *
90561145 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561192 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561239 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561286 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561333 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561380 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561427 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561474 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561521 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561568 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561615 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561662 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561709 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561756 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561803 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561850 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90561897 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
90561944 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
90561991 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCAAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90562038 ATGTGA
1 ATGTGA
90562044 AATTTATATG
Statistics
Matches: 837, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 837 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:90561999 original size:25 final size:25
Alignment explanation
Indices: 90561924--90561999 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
90561914 ATGCATATAT
90561924 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
90561949 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
90561971 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
90561996 GTGA
1 GTGA
90562000 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:90562295 original size:37 final size:37
Alignment explanation
Indices: 90562245--90562316 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
90562235 GGAAATATAT
* *
90562245 TCCGGGTAAGACCCGATGAC-TACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACAT-CGTATGGAGATTTTG
90562282 TCCGGGTAAGACCCGATAACATCGTATGGAGATTT
1 TCCGGGTAAGACCCGATAACATCGTATGGAGATTT
90562317 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACATCGTATGGAGATTTTG
Found at i:90571907 original size:46 final size:46
Alignment explanation
Indices: 90571841--90571968 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
90571831 TGTAACCTGC
* *
90571841 CCATAAGCGAA-TCGGACTCAACTCAACGAGCTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
90571886 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
90571932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
90571969 TGCCCAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 10 0.13
46 67 0.87
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:90577159 original size:79 final size:80
Alignment explanation
Indices: 90577028--90577187 Score: 270
Period size: 79 Copynumber: 2.0 Consensus size: 80
90577018 TACCAGTGAT
* *
90577028 AACATCTAGCGCTGAAGCTTCCCCTCTAGCACGGATCGCATAAGCTCTAGCAGACACTCGTG-C-
1 AACATCTAGCGATGAAGCTTCCCCTCTAGCACAGATCGCATAAGCTCTAGCAGACACTCGTGACT
90577091 CAAGATCTCACAGTAG
66 C-AGATCTCACAGTAG
*
90577107 AACATCTAGTGATGAAGCTTCCCCTCTAGCACAGATCGCATAAGCTCTAGCAGACACTCGTGACT
1 AACATCTAGCGATGAAGCTTCCCCTCTAGCACAGATCGCATAAGCTCTAGCAGACACTCGTGACT
90577172 CAGATCTCACAGTAG
66 CAGATCTCACAGTAG
90577187 A
1 A
90577188 GTATTTCATC
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
79 59 0.78
80 16 0.21
81 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (80 bp):
AACATCTAGCGATGAAGCTTCCCCTCTAGCACAGATCGCATAAGCTCTAGCAGACACTCGTGACT
CAGATCTCACAGTAG
Found at i:90583453 original size:20 final size:20
Alignment explanation
Indices: 90583430--90583531 Score: 64
Period size: 20 Copynumber: 5.1 Consensus size: 20
90583420 TGTAACCAGA
90583430 GGCACAAATGTACATTCAGG
1 GGCACAAATGTACATTCAGG
** ** *
90583450 GGCAC-CGTAGTACAAACAAG
1 GGCACAAAT-GTACATTCAGG
* * *
90583470 GGCATAGATGTGCATTCAGG
1 GGCACAAATGTACATTCAGG
* **
90583490 GGTACTAAA-GTACAAACAGG
1 GGCAC-AAATGTACATTCAGG
*
90583510 GGCACAAATGTGCATTCAGG
1 GGCACAAATGTACATTCAGG
90583530 GG
1 GG
90583532 TACCGAAGTA
Statistics
Matches: 56, Mismatches: 22, Indels: 8
0.65 0.26 0.09
Matches are distributed among these distances:
19 4 0.07
20 49 0.88
21 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (20 bp):
GGCACAAATGTACATTCAGG
Found at i:90583486 original size:40 final size:40
Alignment explanation
Indices: 90583430--90583634 Score: 232
Period size: 40 Copynumber: 5.1 Consensus size: 40
90583420 TGTAACCAGA
* * * * *
90583430 GGCACAAATGTACATTCAGGGGCACCGTAGTACAAACAAG
1 GGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAGG
* **
90583470 GGCATAGATGTGCATTCAGGGGTACTAAAGTACAAACAGG
1 GGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAGG
*
90583510 GGCACAAATGTGCATTCAGGGGTACCGAAGTACAAACAGG
1 GGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAGG
* * * *
90583550 GGCACAGACGTGAATTCAAGGGTACCGGAGTACAAACAGG
1 GGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAGG
* ** * *
90583590 GGAACAGACATGCATTTAGGGGTA-CGAAAGTACAAATAGG
1 GGCACAGATGTGCATTCAGGGGTACCG-AAGTACAAACAGG
90583630 GGCAC
1 GGCAC
90583635 TTCTTCATTT
Statistics
Matches: 139, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.16
Consensus pattern (40 bp):
GGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAGG
Found at i:90583549 original size:20 final size:20
Alignment explanation
Indices: 90583486--90583591 Score: 54
Period size: 20 Copynumber: 5.3 Consensus size: 20
90583476 GATGTGCATT
**
90583486 CAGGGGTACTAAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * **
90583506 CAGGGGCA-CAAATGTGCATT
1 CAGGGGTACCGAA-GTACAAA
90583526 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * **
90583546 CAGGGGCACAGACGTGA-ATT
1 CAGGGGTACCGAAGT-ACAAA
* *
90583566 CAAGGGTACCGGAGTACAAA
1 CAGGGGTACCGAAGTACAAA
90583586 CAGGGG
1 CAGGGG
90583592 AACAGACATG
Statistics
Matches: 59, Mismatches: 23, Indels: 8
0.66 0.26 0.09
Matches are distributed among these distances:
19 4 0.07
20 51 0.86
21 4 0.07
ACGTcount: A:0.36, C:0.19, G:0.32, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:90585471 original size:43 final size:43
Alignment explanation
Indices: 90585424--90585527 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
90585414 CCCGGACAGA
* * *
90585424 GTCTTACAGGAAATCATAATACGATGCCAATGTCCCAAACATG
1 GTCTTACACGAAATCACAATACAATGCCAATGTCCCAAACATG
* * * * *
90585467 GTCTTATACGTAATCACAATATAATGCCAATGTCCTAGACATG
1 GTCTTACACGAAATCACAATACAATGCCAATGTCCCAAACATG
* *
90585510 GTCTTACATGTAATCACA
1 GTCTTACACGAAATCACA
90585528 TCTCGATAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (43 bp):
GTCTTACACGAAATCACAATACAATGCCAATGTCCCAAACATG
Found at i:90599006 original size:30 final size:30
Alignment explanation
Indices: 90598972--90599032 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90598962 TCCTTAACTC
90598972 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90599002 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90599032 A
1 A
90599033 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90601226 original size:31 final size:31
Alignment explanation
Indices: 90601188--90601251 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
90601178 TTCAGTAATA
* *
90601188 TAGGCCCACACACCCATGTGGGTTGCTCGTG
1 TAGGCCCACACACCCATGTGGGTTACCCGTG
* *
90601219 TAGGCCCAGACACCCGTGTGGGTTACCCGTG
1 TAGGCCCACACACCCATGTGGGTTACCCGTG
90601250 TA
1 TA
90601252 ACACCCCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.22
Consensus pattern (31 bp):
TAGGCCCACACACCCATGTGGGTTACCCGTG
Found at i:90602480 original size:16 final size:16
Alignment explanation
Indices: 90602461--90602491 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90602451 CTTCTTCACT
90602461 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
90602477 TACTTACTTACTTAA
1 TACTCACTTACTTAA
90602492 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:90602497 original size:20 final size:20
Alignment explanation
Indices: 90602458--90602497 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
90602448 AAACTTCTTC
* *
90602458 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
90602478 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
90602498 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:90602886 original size:55 final size:52
Alignment explanation
Indices: 90602743--90602938 Score: 155
Period size: 55 Copynumber: 3.6 Consensus size: 52
90602733 CTTACCATTA
* *
90602743 TCATGTCTTGACATGGTCTTACATGGTATACATGCCTTATGAACTCATCAATG
1 TCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAACTCATCAATG
* * * * *
90602796 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 TCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G-AACTCATCAATG
* * * *
90602851 TCATGTCTTGACATGGTCTTAGATGATTTCCTTGCCTTA-GAAAC-CTTGCCAATT
1 TCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AACTCAT--CAATG
* *
90602905 TCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 T-CATGTCTTGACATGGTCTTACAT-GTATCCTT
90602939 AAACCCTAAT
Statistics
Matches: 113, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
52 2 0.02
53 36 0.32
54 7 0.06
55 65 0.58
56 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (52 bp):
TCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAACTCATCAATG
Found at i:90609929 original size:40 final size:40
Alignment explanation
Indices: 90609852--90610029 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
90609842 AAACCAAGTA
* * *
90609852 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
90609891 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
90609931 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
90609971 CCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
90610011 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
90610030 TTATCATCCG
Statistics
Matches: 125, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
39 17 0.14
40 107 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:90617917 original size:40 final size:40
Alignment explanation
Indices: 90617847--90618024 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
90617837 AAACCAAGTA
* *
90617847 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
90617886 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
90617926 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
90617966 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
90618006 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
90618025 TTATCATCCG
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 15 0.12
40 115 0.88
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:90622610 original size:21 final size:21
Alignment explanation
Indices: 90622584--90622625 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
90622574 TTCATCGATC
90622584 ACACGGTC-GTGTCATCGCACA
1 ACACGG-CAGTGTCATCGCACA
90622605 ACACGGCAGTGTCATCGCACA
1 ACACGGCAGTGTCATCGCACA
90622626 TGACCTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (21 bp):
ACACGGCAGTGTCATCGCACA
Found at i:90624226 original size:102 final size:101
Alignment explanation
Indices: 90624112--90624302 Score: 253
Period size: 101 Copynumber: 1.9 Consensus size: 101
90624102 CAAAAAAAAT
* * **
90624112 TAAATTCAGAGTGTGTTGGGTTGAGTAACCGATGAG-GGGTG-TTGTGGTTGTCATTCCACTTTG
1 TAAATTCAGAGTGTGTTGAGCTGAGTAA-CGA-GAGTGGGTGATTG-GGTTGTCATTCCACTACG
90624175 AATCAAAAGGGCCAATACATTCTTAAAAAATAATAATAA
63 AATCAAAAGGGCCAATACATTCTTAAAAAATAATAATAA
** * *
90624214 TAAATT-AGGAGTGTGTTGAGCTGAGTAATTAGGGTGGGTGATTGGGTTGTCATTCCACTACGCA
1 TAAATTCA-GAGTGTGTTGAGCTGAGTAACGAGAGTGGGTGATTGGGTTGTCATTCCACTACGAA
90624278 TCAAAAGGGCCAATACATTCTTAAA
65 TCAAAAGGGCCAATACATTCTTAAA
90624303 TAGAAATATA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
100 2 0.03
101 49 0.63
102 27 0.35
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (101 bp):
TAAATTCAGAGTGTGTTGAGCTGAGTAACGAGAGTGGGTGATTGGGTTGTCATTCCACTACGAAT
CAAAAGGGCCAATACATTCTTAAAAAATAATAATAA
Found at i:90633442 original size:20 final size:20
Alignment explanation
Indices: 90633414--90633454 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
90633404 CTGAGGACAT
90633414 GGGCATGTCCCAAGCCACAC
1 GGGCATGTCCCAAGCCACAC
*
90633434 GGGCGTGTCCCAAGCCACAC
1 GGGCATGTCCCAAGCCACAC
90633454 G
1 G
90633455 ACCCAACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.39, G:0.29, T:0.10
Consensus pattern (20 bp):
GGGCATGTCCCAAGCCACAC
Found at i:90639610 original size:49 final size:50
Alignment explanation
Indices: 90639554--90639731 Score: 198
Period size: 50 Copynumber: 3.6 Consensus size: 50
90639544 ATCTGGTACG
* * **
90639554 CATAGTAGTCTGCACTTAGTACTACACATGCGACC-AATTATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACA
** * *
90639603 TGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACA
* * * * * *
90639653 CATAGTAGCCTGCACTTAGTACTACACACGTC-ATCGAAGCTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACG-CGACCTAA-CCATCCGATACA
90639704 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
90639732 TGTGACCTCA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 30 0.28
50 43 0.39
51 36 0.33
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCCGATACA
Found at i:90640014 original size:27 final size:27
Alignment explanation
Indices: 90639984--90640037 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
90639974 TCATAAAACC
* *
90639984 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
90640011 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
90640038 TCTTATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:90648457 original size:25 final size:25
Alignment explanation
Indices: 90648408--90648508 Score: 105
Period size: 25 Copynumber: 4.0 Consensus size: 25
90648398 TCATGTACAT
*
90648408 GTATGCTCATACGAGCTGT-GAATCG
1 GTATGCTCACACGAGCTGTAG-ATCG
* *
90648433 GTATGCTCACTCCAGCTGTAGATCG
1 GTATGCTCACACGAGCTGTAGATCG
* * ** * *
90648458 ATTTGCTTTCACGAGCTATAAATCG
1 GTATGCTCACACGAGCTGTAGATCG
90648483 GTATGCTCACACGAGCTGTAGATCG
1 GTATGCTCACACGAGCTGTAGATCG
90648508 G
1 G
90648509 AATACTCTCA
Statistics
Matches: 58, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
25 57 0.98
26 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAGATCG
Found at i:90649566 original size:13 final size:13
Alignment explanation
Indices: 90649548--90649573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90649538 ACAAAATCTA
90649548 TAAAACAGAGAAT
1 TAAAACAGAGAAT
90649561 TAAAACAGAGAAT
1 TAAAACAGAGAAT
90649574 AAGCATTTCG
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:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
TAAAACAGAGAAT
Found at i:90650123 original size:41 final size:41
Alignment explanation
Indices: 90650078--90650246 Score: 130
Period size: 41 Copynumber: 4.1 Consensus size: 41
90650068 GCACAAACAT
* *
90650078 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * * *
90650119 CCTTC-GAGACCAAGCTCGGATTA-GACCACTGGCTCGAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * * *
90650160 CCTTCGGAACTAAGTCTGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
** ** * *
90650200 CCTTCTAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
90650241 CCTTCG
1 CCTTCG
90650247 AGACCAAGCT
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
40 40 0.39
41 55 0.54
42 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:90650202 original size:40 final size:42
Alignment explanation
Indices: 90650104--90650246 Score: 154
Period size: 41 Copynumber: 3.5 Consensus size: 42
90650094 CGATTCTTAG
*
90650104 CACTGGCTCAAAAGCCCTTC-GAGACCAAG-CTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGGA-ACTAAGTCTCGG-TTATGAC
* *
90650145 CACTGGCTCGAAGGCCCTTCGGAACTAAGTCT-GGTTATGA-
1 CACTGGCTCAAAAGCCCTTCGGAACTAAGTCTCGGTTATGAC
* ** * *
90650185 CACTGGCTCTAAAGCCCTTCTAAACTAAGT-TCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGGAACTAAGTCTCGGTTATGAC
90650226 CACTGGCTCAAAAGCCCTTCG
1 CACTGGCTCAAAAGCCCTTCG
90650247 AGACCAAGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 36 0.41
41 46 0.53
42 4 0.05
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (42 bp):
CACTGGCTCAAAAGCCCTTCGGAACTAAGTCTCGGTTATGAC
Found at i:90650894 original size:33 final size:33
Alignment explanation
Indices: 90650856--90650925 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
90650846 ATCCAAATCA
90650856 TTAATTATTTTAACACACGCATAACACAGAAAG
1 TTAATTATTTTAACACACGCATAACACAGAAAG
*
90650889 TTAATTATTTTAACACACGCATAACACATAAAG
1 TTAATTATTTTAACACACGCATAACACAGAAAG
90650922 TTAA
1 TTAA
90650926 CTAAAGCTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (33 bp):
TTAATTATTTTAACACACGCATAACACAGAAAG
Found at i:90651934 original size:43 final size:42
Alignment explanation
Indices: 90651866--90651957 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 42
90651856 TAGAAAAATA
* *
90651866 CATA-TTTTCATTAGTAACCCATACCATGGCCGGGCACTATC
1 CATACTTTTCATTAATAACCCATACCATGGCCGGCCACTATC
90651907 CATACTTTATCATTAATAACCCATACCATGGCCGGCCACTATC
1 CATACTTT-TCATTAATAACCCATACCATGGCCGGCCACTATC
90651950 CATACTTT
1 CATACTTT
90651958 GGCTAATTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 4 0.09
42 3 0.06
43 40 0.85
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.30
Consensus pattern (42 bp):
CATACTTTTCATTAATAACCCATACCATGGCCGGCCACTATC
Found at i:90658645 original size:41 final size:40
Alignment explanation
Indices: 90658600--90658768 Score: 135
Period size: 41 Copynumber: 4.2 Consensus size: 40
90658590 GCACAAACAT
*
90658600 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATT-ATAGCACTGGCTCAAAAGC
* * * * * *
90658641 CCTTC-GAGACCAAGCTCGGATTAGACCACTGGCTCGAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATAGCACTGGCTCAAAAGC
* * * *
90658682 CCTTCGGAACTAAGTCCGGTTATAACACTGGCTCTAAAGC
1 CCTTCGGAACTAAGCCCGATTATAGCACTGGCTCAAAAGC
** ** *
90658722 CCTTCTAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTA-TAGCACTGGCTCAAAAGC
90658763 CCTTCG
1 CCTTCG
90658769 AGACCAGGCT
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
40 40 0.39
41 55 0.54
42 7 0.07
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGAACTAAGCCCGATTATAGCACTGGCTCAAAAGC
Found at i:90658724 original size:40 final size:40
Alignment explanation
Indices: 90658626--90658768 Score: 146
Period size: 41 Copynumber: 3.5 Consensus size: 40
90658616 CGATTCTTAG
* * *
90658626 CACTGGCTCAAAAGCCCTTC-GAGACCAAG-CTCGGATTAGAC
1 CACTGGCTCAAAAGCCCTTCGGA-ACTAAGTC-CGG-TTATAA
* *
90658667 CACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATAA
1 CACTGGCTCAAAAGCCCTTCGGAACTAAGTCCGGTTATAA
* ** * *
90658707 CACTGGCTCTAAAGCCCTTCTAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGGAACTAAGTCCGGTTA-TAA
90658748 CACTGGCTCAAAAGCCCTTCG
1 CACTGGCTCAAAAGCCCTTCG
90658769 AGACCAGGCT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 36 0.42
41 47 0.55
42 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CACTGGCTCAAAAGCCCTTCGGAACTAAGTCCGGTTATAA
Found at i:90665750 original size:37 final size:37
Alignment explanation
Indices: 90665691--90665799 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
90665681 AGCTCAGACG
* *
90665691 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
90665728 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
90665765 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
90665800 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:90666080 original size:47 final size:47
Alignment explanation
Indices: 90666001--90666194 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
90665991 CATATAAATT
* * * * *
90666001 TCACATTAGCCATTTGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
90666048 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
90666095 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
90666142 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
90666189 TCACAT
1 TCACAT
90666195 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:90666121 original size:22 final size:22
Alignment explanation
Indices: 90666094--90666165 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
90666084 GCTCACATTC
90666094 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
90666116 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
90666140 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
90666163 ATC
1 ATC
90666166 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:90687075 original size:40 final size:40
Alignment explanation
Indices: 90686134--90687062 Score: 1702
Period size: 40 Copynumber: 23.2 Consensus size: 40
90686124 TATAACCACC
* * * * *
90686134 CGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTCACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAAT-TAGTAACT
* *
90686173 AGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAAT-TAGTAACT
90686213 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686253 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686293 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686333 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686373 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686413 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686453 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686493 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686533 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686573 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686613 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686653 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686693 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686733 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686773 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686813 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686853 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686893 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90686933 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
*
90686973 CGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
* * * *
90687013 CGCACAAATGCCTTCGGGACTTAGCCCTGAATTAATCACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
*
90687053 AGCACAAATG
1 CGCACAAATG
90687063 TCTTTGGGAC
Statistics
Matches: 875, Mismatches: 13, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
39 4 0.00
40 869 0.99
41 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
Found at i:90695924 original size:40 final size:40
Alignment explanation
Indices: 90694983--90695916 Score: 1703
Period size: 40 Copynumber: 23.4 Consensus size: 40
90694973 TATAACCACC
* * * * *
90694983 CGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTCACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAAT-TAGTAACT
* *
90695022 AGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAAT-TAGTAACT
90695062 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695102 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695142 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695182 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695222 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695262 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695302 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695342 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695382 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695422 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695462 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695502 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695542 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695582 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695622 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695662 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695702 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695742 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
90695782 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
*
90695822 CGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
* * * *
90695862 CGCACAAATGCCTTCGGGACTTAGCCCTGAATTAATCACT
1 CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
* *
90695902 AGCACAAATGTCTTC
1 CGCACAAATGCCTTC
90695917 AGGACTTAAC
Statistics
Matches: 879, Mismatches: 14, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
39 4 0.00
40 873 0.99
41 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACT
Found at i:90699671 original size:100 final size:100
Alignment explanation
Indices: 90699498--90699696 Score: 380
Period size: 100 Copynumber: 2.0 Consensus size: 100
90699488 TAATACACCG
* *
90699498 TTCACCATGCAGGTAATGTCTACTGATCTTCAGAGCAAACACTACCGCAAGCAGCTCAAGATCAT
1 TTCACCATGCAGGTAATGCCTACTGATCTTCAGAGCAAACACTACCGCAACCAGCTCAAGATCAT
90699563 GAGTAGGGTAGTTACCCTCGTGTGTCTTAAGCTGA
66 GAGTAGGGTAGTTACCCTCGTGTGTCTTAAGCTGA
90699598 TTCACCATGCAGGTAATGCCTACTGATCTTCAGAGCAAACACTACCGCAACCAGCTCAAGATCAT
1 TTCACCATGCAGGTAATGCCTACTGATCTTCAGAGCAAACACTACCGCAACCAGCTCAAGATCAT
90699663 GAGTAGGGTAGTTACCCTCGTGTGTCTTAAGCTG
66 GAGTAGGGTAGTTACCCTCGTGTGTCTTAAGCTG
90699697 TTCCGGTGTA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (100 bp):
TTCACCATGCAGGTAATGCCTACTGATCTTCAGAGCAAACACTACCGCAACCAGCTCAAGATCAT
GAGTAGGGTAGTTACCCTCGTGTGTCTTAAGCTGA
Found at i:90700432 original size:104 final size:104
Alignment explanation
Indices: 90700252--90700458 Score: 405
Period size: 104 Copynumber: 2.0 Consensus size: 104
90700242 GAAACACTCG
*
90700252 ATTCATTAAATCCATAAATGCCGCCAGGGCATTTATCAAATTGAAAGGCATCACTAGGAACTCGT
1 ATTCATTAAATCCATAAATGCCGCCAGGGCATTTATCAAATTGAAAGGCATCACTAGGAACTCAT
90700317 AACGTTCGTAACAAGTCCTGAAGGTAGTTTTGTACACAA
66 AACGTTCGTAACAAGTCCTGAAGGTAGTTTTGTACACAA
90700356 ATTCATTAAATCCATAAATGCCGCCAGGGCATTTATCAAATTGAAAGGCATCACTAGGAACTCAT
1 ATTCATTAAATCCATAAATGCCGCCAGGGCATTTATCAAATTGAAAGGCATCACTAGGAACTCAT
90700421 AACGTTCGTAACAAGTCCTGAAGGTAGTTTTGTACACA
66 AACGTTCGTAACAAGTCCTGAAGGTAGTTTTGTACACA
90700459 TCAGTCTCTT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (104 bp):
ATTCATTAAATCCATAAATGCCGCCAGGGCATTTATCAAATTGAAAGGCATCACTAGGAACTCAT
AACGTTCGTAACAAGTCCTGAAGGTAGTTTTGTACACAA
Found at i:90709780 original size:22 final size:22
Alignment explanation
Indices: 90709754--90709803 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
90709744 TCTCACGAAA
90709754 GGAATTATCCGACTCATGATTT
1 GGAATTATCCGACTCATGATTT
90709776 GGAATTATCCGACTCATGATTT
1 GGAATTATCCGACTCATGATTT
90709798 GGAATT
1 GGAATT
90709804 GGCTGTGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (22 bp):
GGAATTATCCGACTCATGATTT
Found at i:90711931 original size:80 final size:79
Alignment explanation
Indices: 90711847--90712018 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
90711837 GGACTAAGAT
*
90711847 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
90711911 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
90711927 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
90711992 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
90712006 CCGAAGGCATTTG
1 CCGAAGGCATTTG
90712019 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:90711998 original size:39 final size:39
Alignment explanation
Indices: 90711794--90712016 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
90711784 TTGAATGCTG
* * * * *
90711794 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
90711834 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
90711873 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
90711914 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
90711954 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
90711993 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
90712017 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:90712036 original size:79 final size:80
Alignment explanation
Indices: 90711874--90712051 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
90711864 AGATACAAAT
* * * *
90711874 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
90711939 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
90711954 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
90712018 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
90712033 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
90712052 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:90714679 original size:40 final size:40
Alignment explanation
Indices: 90714614--90714781 Score: 250
Period size: 40 Copynumber: 4.2 Consensus size: 40
90714604 GAACTTTAAG
* * *
90714614 CCCGGATATA-A-TACCAGCACTAAGCCTGTGGGATTTAA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
* *
90714652 CCCGGATATACGTTACCAGCACGAAGCCTGCTGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
90714692 CCCGGATATACATTACCAGCACGAAGCCTACGGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
* *
90714732 CCCGGATATACATTACCAGCACAAAGTCTGCGGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
90714772 CCCGGATATA
1 CCCGGATATA
90714782 TATAATATAT
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 10 0.09
40 107 0.91
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (40 bp):
CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
Found at i:90722673 original size:40 final size:40
Alignment explanation
Indices: 90722593--90722723 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
90722583 AGCTCAAAGT
* * *
90722593 CTGCGGAACTTTAAGCCCGGATATA-A-TACTAGCACCAAGC
1 CTGCGGGA-TTTAA-CCCGGATATACATTACCAGCACGAAGC
*
90722633 CTACGGGATTTAACCCGGATATACATTACCAGCACGAAGC
1 CTGCGGGATTTAACCCGGATATACATTACCAGCACGAAGC
* *
90722673 CTGCAGGATTTGACCCGGATATACATTACCAGCACGAAGC
1 CTGCGGGATTTAACCCGGATATACATTACCAGCACGAAGC
90722713 CTGCGGGATTT
1 CTGCGGGATTT
90722724 GACCTAGATA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 10 0.12
39 6 0.07
40 65 0.80
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (40 bp):
CTGCGGGATTTAACCCGGATATACATTACCAGCACGAAGC
Found at i:90722735 original size:40 final size:40
Alignment explanation
Indices: 90722608--90722727 Score: 181
Period size: 40 Copynumber: 3.0 Consensus size: 40
90722598 GAACTTTAAG
* * * *
90722608 CCCGGATATA-A-TACTAGCACCAAGCCTACGGGATTTAA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
90722646 CCCGGATATACATTACCAGCACGAAGCCTGCAGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
90722686 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
90722726 CC
1 CC
90722728 TAGATATATA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
38 10 0.14
39 1 0.01
40 63 0.85
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (40 bp):
CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
Found at i:90728539 original size:22 final size:22
Alignment explanation
Indices: 90728514--90728560 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
90728504 ATTACTTTCA
90728514 TAGTATTTTCAATTTCAGAAAC
1 TAGTATTTTCAATTTCAGAAAC
90728536 TAGTATTTTCAATTTCAGAAAC
1 TAGTATTTTCAATTTCAGAAAC
90728558 TAG
1 TAG
90728561 CTTAGGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (22 bp):
TAGTATTTTCAATTTCAGAAAC
Found at i:90761796 original size:12 final size:12
Alignment explanation
Indices: 90761779--90761803 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90761769 ATGTAAGTGA
90761779 TCTTGATGATTT
1 TCTTGATGATTT
90761791 TCTTGATGATTT
1 TCTTGATGATTT
90761803 T
1 T
90761804 TACATTTTTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:90764490 original size:49 final size:51
Alignment explanation
Indices: 90764415--90764552 Score: 160
Period size: 49 Copynumber: 2.8 Consensus size: 51
90764405 AGCCGAAGCT
* *
90764415 ATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATAC-GA-C-CAAC
1 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATACGGACCTCAAC
* *
90764463 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACATACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTACACTTAGTACTACACATACG-GACCTCAAC
** *
90764514 ATCTAATACACGTAGTAGCCTACAATTAGTACTACACAT
1 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACAT
90764553 GCGAACTCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
47 6 0.08
48 1 0.01
49 31 0.41
50 29 0.39
51 4 0.05
52 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (51 bp):
ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATACGGACCTCAAC
Found at i:90764562 original size:50 final size:51
Alignment explanation
Indices: 90764427--90764562 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 51
90764417 CTGGTACGCA
* * **
90764427 TAGTAGCCTACACTTAGTACTACACATACG-AC-CAACAGTCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGAACTCACCAGTCTAATACACG
* * * * *
90764476 TAGTAGCCTGCACTTAGTACTACATACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGAACTCACCAGTCTAATACACG
*
90764526 TAGTAGCCTACAATTAGTACTACACATGCGAACTCAC
1 TAGTAGCCTACACTTAGTACTACACATGCGAACTCAC
90764563 AATAGATCAT
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
49 25 0.36
50 41 0.59
51 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTACACTTAGTACTACACATGCGAACTCACCAGTCTAATACACG
Found at i:90768936 original size:19 final size:19
Alignment explanation
Indices: 90768901--90768938 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
90768891 GTGCGGTGCC
*
90768901 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTAGGCCCA
90768920 CACG-GCCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
90768939 ACGTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:90774799 original size:36 final size:36
Alignment explanation
Indices: 90774759--90774832 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
90774749 TTATTTTATG
90774759 GTTATTGTGAGGCCTAGAATATGCGTATATGCATTT
1 GTTATTGTGAGGCCTAGAATATGCGTATATGCATTT
90774795 GTTATTGTGAGGCCTAGAATATGCGTATATGCATTT
1 GTTATTGTGAGGCCTAGAATATGCGTATATGCATTT
90774831 GT
1 GT
90774833 AGGAAATTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (36 bp):
GTTATTGTGAGGCCTAGAATATGCGTATATGCATTT
Found at i:90778688 original size:40 final size:40
Alignment explanation
Indices: 90778619--90778843 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
90778609 AAACCAAGTA
* * * *
90778619 CCTTCGGGATTTAG-TCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
90778658 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
90778698 CCTTCGGGTCTTAGCCCGAAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
90778738 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
*
90778781 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
90778821 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
90778844 CATCCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 12 0.08
40 110 0.69
42 1 0.01
43 36 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:90778806 original size:83 final size:80
Alignment explanation
Indices: 90778619--90778843 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
90778609 AAACCAAGTA
* * * * *
90778619 CCTTCGGGATTTAG-TCGGATATCG-CAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
90778682 GTAACTCGCACACATG
65 GAAACTCGCACAAATG
* * * *
90778698 CCTTCGGGTCTTAGCCCGAAAATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
90778763 CAACTACTCGCACAAATG
66 -AA--ACTCGCACAAATG
* *
90778781 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
90778844 CATCCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 12 0.10
80 41 0.33
81 2 0.02
83 69 0.56
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
AAACTCGCACAAATG
Found at i:90787051 original size:40 final size:40
Alignment explanation
Indices: 90786991--90787252 Score: 368
Period size: 40 Copynumber: 6.6 Consensus size: 40
90786981 AAACCAAGTA
* * * * *
90786991 CCTTCAGGATTTAGC-CGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
* * *
90787030 CCTTCGGGACTTAAC-CTGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCTC-GGATATAGTAACTTGCACAAATG
* * * * *
90787070 CCTTCGGGTCTTAGC-CCGAAAGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCTCGGATA-TAGTAACTTGCACAAATG
90787110 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
90787150 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
90787190 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
90787230 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCTCGGATAT
90787253 CATCGAATAA
Statistics
Matches: 202, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.08
40 182 0.90
41 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
Found at i:90802084 original size:121 final size:121
Alignment explanation
Indices: 90801882--90802145 Score: 528
Period size: 121 Copynumber: 2.2 Consensus size: 121
90801872 TGAAAAACTA
90801882 CTTGAAATATGGATAGAAATAGTGAAAGTTGTTTACTATCCTTTAAACTCTCATATTCCTCCATA
1 CTTGAAATATGGATAGAAATAGTGAAAGTTGTTTACTATCCTTTAAACTCTCATATTCCTCCATA
90801947 AATCATCAAAACACAAATATCTCATGCATGGGTAAATTTTTGAACATGAACCCTAG
66 AATCATCAAAACACAAATATCTCATGCATGGGTAAATTTTTGAACATGAACCCTAG
90802003 CTTGAAATATGGATAGAAATAGTGAAAGTTGTTTACTATCCTTTAAACTCTCATATTCCTCCATA
1 CTTGAAATATGGATAGAAATAGTGAAAGTTGTTTACTATCCTTTAAACTCTCATATTCCTCCATA
90802068 AATCATCAAAACACAAATATCTCATGCATGGGTAAATTTTTGAACATGAACCCTAG
66 AATCATCAAAACACAAATATCTCATGCATGGGTAAATTTTTGAACATGAACCCTAG
90802124 CTTGAAATATGGATAGAAATAG
1 CTTGAAATATGGATAGAAATAG
90802146 AGAGAGCATG
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 143 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (121 bp):
CTTGAAATATGGATAGAAATAGTGAAAGTTGTTTACTATCCTTTAAACTCTCATATTCCTCCATA
AATCATCAAAACACAAATATCTCATGCATGGGTAAATTTTTGAACATGAACCCTAG
Found at i:90803074 original size:50 final size:49
Alignment explanation
Indices: 90803015--90803110 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 49
90803005 AGGCTAACTG
*
90803015 TCCAACTCTCTCAATAATCTCGTAGGGCCCAATAAACCTTGGACTCACAA
1 TCCAACTCTCTCAATAATCTCGTA-GGCCCAACAAACCTTGGACTCACAA
*
90803065 TCCAACTCTCTCAATAATCTCGTAGGTCCAACAAACCTTGGACTCA
1 TCCAACTCTCTCAATAATCTCGTAGGCCCAACAAACCTTGGACTCA
90803111 GTTTGCCTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 20 0.45
50 24 0.55
ACGTcount: A:0.31, C:0.32, G:0.11, T:0.25
Consensus pattern (49 bp):
TCCAACTCTCTCAATAATCTCGTAGGCCCAACAAACCTTGGACTCACAA
Found at i:90818906 original size:26 final size:26
Alignment explanation
Indices: 90818871--90818960 Score: 108
Period size: 26 Copynumber: 3.5 Consensus size: 26
90818861 TTCGACCCAT
* * *
90818871 AGCTCATGTGAGTAGGCCCATTTCAT
1 AGCTCGTGTGAGTAGACCCATTTCAC
* *
90818897 AGCTGGTGTGAGCAGACCCATTTCAC
1 AGCTCGTGTGAGTAGACCCATTTCAC
**
90818923 AAATCGTGTGAGTAGACCCATTTCAC
1 AGCTCGTGTGAGTAGACCCATTTCAC
*
90818949 AGCTCATGTGAG
1 AGCTCGTGTGAG
90818961 CAACCATGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AGCTCGTGTGAGTAGACCCATTTCAC
Found at i:90820629 original size:42 final size:42
Alignment explanation
Indices: 90820558--90820640 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
90820548 TTTAAAGGTG
* *
90820558 GTATTTCGAGAGTTACACGGGTTGGGACAT-GGTCGTGTGTCC
1 GTATTTCGAGAGTTACACGGCTTGAGACATAGGT-GTGTGTCC
** *
90820600 GTATTTCGATTGTTATACGGCTTGAGACATAGGTGTGTGTC
1 GTATTTCGAGAGTTACACGGCTTGAGACATAGGTGTGTGTC
90820641 TTACCTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (42 bp):
GTATTTCGAGAGTTACACGGCTTGAGACATAGGTGTGTGTCC
Found at i:90836929 original size:18 final size:18
Alignment explanation
Indices: 90836883--90836929 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
90836873 ATGATAAACA
* *
90836883 AACAGAAATCAGTGCAGT
1 AACAGTAATCAATGCAGT
*
90836901 AACCA-TGATCAATGCAGT
1 AA-CAGTAATCAATGCAGT
90836919 AACAGTAATCA
1 AACAGTAATCA
90836930 GTGTAGAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (18 bp):
AACAGTAATCAATGCAGT
Found at i:90837218 original size:23 final size:22
Alignment explanation
Indices: 90837187--90837242 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 22
90837177 CATCCCACCC
90837187 CATGCGATGCAACATA-ATATCATA
1 CATG-GATGCAACATACATAT-A-A
90837211 CATGGATGCAACATACATATAA
1 CATGGATGCAACATACATATAA
90837233 CATGGCATGC
1 CATGG-ATGC
90837243 TCAAATACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (22 bp):
CATGGATGCAACATACATATAA
Found at i:90837323 original size:27 final size:27
Alignment explanation
Indices: 90837305--90837393 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
90837295 GGTATTACAA
90837305 TCATTTTACCCTAT-AGGGGTATTTCGG
1 TCATTTTACCCTATGA-GGGTATTTCGG
*
90837332 TCATTCTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
*
90837359 TCATTTTACCCTATGAGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCGG
90837386 TCATTTTA
1 TCATTTTA
90837394 TAACATAAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGG
Found at i:90837404 original size:27 final size:27
Alignment explanation
Indices: 90837305--90837404 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
90837295 GGTATTACAA
** *
90837305 TCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTAAACTATAAGGGTATTTCGG
* ** *
90837332 TCATTCTACCCTATGAGGGTATTTCGG
1 TCATTTTAAACTATAAGGGTATTTCGG
** * *
90837359 TCATTTTACCCTATGAGGGTATTTTGG
1 TCATTTTAAACTATAAGGGTATTTCGG
90837386 TCATTTTATAAC-ATAAGGG
1 TCATTTTA-AACTATAAGGG
90837405 AAAAATCGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 63 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
TCATTTTAAACTATAAGGGTATTTCGG
Found at i:90837415 original size:27 final size:27
Alignment explanation
Indices: 90837385--90837485 Score: 157
Period size: 27 Copynumber: 3.7 Consensus size: 27
90837375 GGGTATTTTG
*
90837385 GTCATTTTATAACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
* *
90837412 GTCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
* *
90837439 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
90837466 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
90837486 TTTAGGTATG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGAAAAATC
Found at i:90845245 original size:44 final size:42
Alignment explanation
Indices: 90845168--90845279 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 42
90845158 CGATATGTGT
* * * **
90845168 TTTCGTGTAAGACGACGTTTGGGACATTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATCAGCATCGTA-TT-TGA
*
90845211 TTTACGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTTA
1 TTT-CGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGA
* * *
90845254 TTTCATGTAAGACCTTATCTGGGACA
1 TTTCGTGTAAGACCATGTCTGGGACA
90845280 GTGGTATCGA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 20 0.34
43 8 0.14
44 29 0.50
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGA
Found at i:90850415 original size:33 final size:33
Alignment explanation
Indices: 90850373--90850436 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
90850363 ATGCAGCAAC
* *
90850373 AGTCTGGGCCTGAGCCCTATCCAGTATCAGTAT
1 AGTCTGGGCCTGAGCCCTATACAGTAACAGTAT
*
90850406 AGTCTGGGCCTTAGCCCTATACAGTAACAGT
1 AGTCTGGGCCTGAGCCCTATACAGTAACAGT
90850437 GTGGGCCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (33 bp):
AGTCTGGGCCTGAGCCCTATACAGTAACAGTAT
Found at i:90856578 original size:10 final size:10
Alignment explanation
Indices: 90856563--90856587 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
90856553 TAAATTCGGT
90856563 TATGTGCATA
1 TATGTGCATA
90856573 TATGTGCATA
1 TATGTGCATA
90856583 TATGT
1 TATGT
90856588 TTGATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (10 bp):
TATGTGCATA
Found at i:90865337 original size:60 final size:54
Alignment explanation
Indices: 90865267--90865381 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 54
90865257 GATATCTGTT
*
90865267 TTCCTGCTGATCTGATGCTTTTTCCTTTCGACGAATTTGATATAATTCTGGGAA
1 TTCCTGCTGATCTGATGCTTTTACCTTTCGACGAATTTGATATAATTCTGGGAA
* *
90865321 TNNNNNNTCCTGCTGATCTGATGCTTTTACCTTTCGATGAATTTGATATAATTTTGGGAA
1 T------TCCTGCTGATCTGATGCTTTTACCTTTCGACGAATTTGATATAATTCTGGGAA
90865381 T
1 T
90865382 GGATTGGTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
54 1 0.02
60 51 0.98
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.42
Consensus pattern (54 bp):
TTCCTGCTGATCTGATGCTTTTACCTTTCGACGAATTTGATATAATTCTGGGAA
Found at i:90871560 original size:27 final size:27
Alignment explanation
Indices: 90871502--90871923 Score: 191
Period size: 27 Copynumber: 15.7 Consensus size: 27
90871492 TTAGTTTACC
** *
90871502 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
90871529 AAATTACCAAAATACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **** ***
90871556 GAATTATCGTTTTACCCTCGATTAACA
1 AAATTACCAAAATACCCTCGATTTGTA
*** **
90871583 AAATTACCATTTTACCCTC-AGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *** *
90871610 AAATTATCATTTTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** **
90871636 AAATTACTGAAATACCC-CTG-TAGGATA
1 AAATTACCAAAATACCCTC-GATTTG-TA
* *
90871663 GAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
**
90871690 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
90871717 AAATTACTGAAATACCC-CTG-TAGGATA
1 AAATTACCAAAATACCCTC-GATTTG-TA
* *
90871744 GAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
90871771 AAATTACCAAAATACCC-CTACTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
90871798 AAATTACCAAAATACCATTGGTTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
90871825 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
**
90871852 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTGTA
** * *
90871879 AAATTACTGAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
90871906 GATTTACCAAAACACCCT
1 AAATTACCAAAATACCCT
90871924 TGTAGGATGA
Statistics
Matches: 296, Mismatches: 81, Indels: 36
0.72 0.20 0.09
Matches are distributed among these distances:
25 1 0.00
26 18 0.06
27 271 0.92
28 6 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:90871705 original size:54 final size:54
Alignment explanation
Indices: 90871631--90871949 Score: 216
Period size: 54 Copynumber: 5.9 Consensus size: 54
90871621 TTACCCTCGA
* ** * *
90871631 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCCTGTATGATAAAATTACCAAAATACCCTTAGT
* * ** *
90871685 TTGTAAAATTACCAAAATACCCCTG-ATTTACAAAATTACTGAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTGTA-TGATAAAATTACCAAAATACCCTTAGT
** * * * * *
90871738 AGGATAGAATTACCAAAATACCCTTAGTTTG-TAAAATTACCAAAATACCCCTACT
1 TTG-TAAAATTACCAAAATACCCCT-GTATGATAAAATTACCAAAATACCCTTAGT
** * * * * * *
90871793 TTGTAAAATTACCAAAATACCATTGGTTTG-TGAAATTATCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GTATGATAAAATTACCAAAATACCCTTAGT
* * ** *
90871847 TTGTAAAATTACCAAAATACCCCTG-ATTTACAAAATTACTGAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGTA-TGATAAAATTACCAAAATACCCTTAGT
* * * * * * * *
90871901 TTGTAGATTTACCAAAACACCCTTGTAGGATGAAATGACTAAAATACCC
1 TTGTAAAATTACCAAAATACCCCTGTATGATAAAATTACCAAAATACCC
90871950 CTAATAGGTA
Statistics
Matches: 205, Mismatches: 52, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
53 6 0.03
54 194 0.95
55 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCCTGTATGATAAAATTACCAAAATACCCTTAGT
Found at i:90871900 original size:81 final size:81
Alignment explanation
Indices: 90871636--90871924 Score: 361
Period size: 81 Copynumber: 3.6 Consensus size: 81
90871626 CTCGATTGTG
* **
90871636 AAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
1 AAATTACTGAAATACCCTTGGTTTG-TAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
90871700 AATACCCCTGATTTACA
65 AATACCCCTGATTTACA
* **
90871717 AAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
1 AAATTACTGAAATACCCTTGGTTTG-TAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
**
90871781 AATACCCCT-ACTTTGTA
65 AATACCCCTGA-TTTACA
** * * * * *
90871798 AAATTACCAAAATACCATTGGTTTGT-GAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAATTACTGAAATACCCTTGGTTTGTAG-AATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
90871862 AATACCCCTGATTTACA
65 AATACCCCTGATTTACA
* *
90871879 AAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 AAATTACTGAAATACCCTTGGTTTGTAGAATTACCAAAATACCCTT
90871925 GTAGGATGAA
Statistics
Matches: 181, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 174 0.96
82 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACTGAAATACCCTTGGTTTGTAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
ATACCCCTGATTTACA
Found at i:90871951 original size:81 final size:81
Alignment explanation
Indices: 90871636--90871895 Score: 364
Period size: 81 Copynumber: 3.2 Consensus size: 81
90871626 CTCGATTGTG
90871636 AAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
1 AAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
90871701 ATACCCCTGATTTACA
66 ATACCCCTGATTTACA
90871717 AAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
1 AAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
**
90871782 ATACCCCT-ACTTTGTA
66 ATACCCCTGA-TTTACA
** ** ** * * * *
90871798 AAATTACCAAAATACCATTGGTTTG-T-GAAATTATCGAAATACCCTCAATTTGTAAAATTACCA
1 AAATTACTGAAATACCCCT-GTAGGATAG-AATTACCAAAATACCCTTAGTTTGTAAAATTACCA
90871861 AAATACCCCTGATTTACA
64 AAATACCCCTGATTTACA
90871879 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
90871896 TTGGTTTGTA
Statistics
Matches: 158, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
80 2 0.01
81 152 0.96
82 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
ATACCCCTGATTTACA
Found at i:90874472 original size:40 final size:40
Alignment explanation
Indices: 90874417--90874718 Score: 518
Period size: 40 Copynumber: 7.6 Consensus size: 40
90874407 TATTCGAATG
90874417 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
90874457 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90874497 ATATCCGGGCTAAGTCCCGAAGGCATTTCTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90874537 ATATCCGGGCTAAGTCCCGAAGGCATTTCTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90874577 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90874617 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
90874657 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
90874697 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
90874719 TACTTGGGTT
Statistics
Matches: 253, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 14 0.06
40 237 0.94
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:90876518 original size:42 final size:42
Alignment explanation
Indices: 90876451--90876570 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 42
90876441 ATGTCAAATA
90876451 CTCGAATTCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT
1 CTCGAA-TCTCGCACACTAAGTGCC-ATACATAGCCGAAGCTAT
** * *
90876495 -TTTAATCTCGCACACTAAATGCCATACATAGCTGAAGCTAT
1 CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT
90876536 CTCGAA--TCGCACACTAAGTGCCATACATAGCCGAA
1 CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAA
90876571 TTGTCGTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
40 27 0.40
41 17 0.25
42 20 0.30
43 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (42 bp):
CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT
Found at i:90879822 original size:27 final size:27
Alignment explanation
Indices: 90879792--90879969 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90879782 ATATTGAGTC
* * * *
90879792 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90879819 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90879846 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90879874 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90879901 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90879928 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90879955 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90879970 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Done.