Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 213 of 226
Found at i:66928134 original size:16 final size:16
Alignment explanation
Indices: 66928115--66928166 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
66928105 GATTTGCTAT
* *
66928115 TACACATCTATTCCAT
1 TACACATCTAATCCAA
*
66928131 TACACCTCTAATCCAA
1 TACACATCTAATCCAA
66928147 TACACATCTAATCCAA
1 TACACATCTAATCCAA
66928163 TACA
1 TACA
66928167 GCAACCAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACATCTAATCCAA
Found at i:66932024 original size:9 final size:9
Alignment explanation
Indices: 66931987--66932025 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
66931977 ATCAAACGGT
66931987 ATTTTTAATA
1 ATTTTT-ATA
66931997 ATTTTT-TA
1 ATTTTTATA
66932005 TATTTTTATA
1 -ATTTTTATA
66932015 ATTTTTATA
1 ATTTTTATA
66932024 AT
1 AT
66932026 AACCTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 2 0.07
9 17 0.63
10 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:66932876 original size:2 final size:2
Alignment explanation
Indices: 66932869--66932895 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
66932859 AAATAAATTG
66932869 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
66932896 TATTAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66937857 original size:46 final size:46
Alignment explanation
Indices: 66937790--66938066 Score: 423
Period size: 46 Copynumber: 6.0 Consensus size: 46
66937780 ACATTGCTAT
* *
66937790 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
66937836 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
66937882 AACTTAGTATGGTTTTCTTCACTGAAACATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * * *
66937928 AACTCAGTATGGTGTTCTTCAGTGAAGCATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
66937974 AACTCAGTATGGTTTTCTTTA-TCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAACACCATACCTACTTTTCAC
*
66938020 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTA-TGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACT-TTTCAC
66938066 A
1 A
66938067 CTTTGCCATG
Statistics
Matches: 214, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 2 0.01
46 211 0.99
47 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:66941770 original size:27 final size:27
Alignment explanation
Indices: 66941740--66941797 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
66941730 ATATTTTACG
*
66941740 ATTTTTTA-AATTTTTTAAATTTTAAT
1 ATTTTTTACAATTTTTTAAATTATAAT
* *
66941766 AATTTTTACAATTTTTTAAGTTATAAT
1 ATTTTTTACAATTTTTTAAATTATAAT
66941793 ATTTT
1 ATTTT
66941798 AAATTACGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
ATTTTTTACAATTTTTTAAATTATAAT
Found at i:66941781 original size:19 final size:19
Alignment explanation
Indices: 66941720--66941781 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
66941710 TTTTTAAAGT
*
66941720 AATTTTT-ATTATATTTTAC
1 AATTTTTAATAAT-TTTTAC
* *
66941739 GATTTTTTAA-ATTTTTTA-
1 -AATTTTTAATAATTTTTAC
66941757 AA-TTTTAATAATTTTTAC
1 AATTTTTAATAATTTTTAC
66941775 AATTTTT
1 AATTTTT
66941782 TAAGTTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
16 6 0.18
17 8 0.24
18 2 0.06
19 9 0.27
20 7 0.21
21 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
AATTTTTAATAATTTTTAC
Found at i:66946056 original size:6 final size:6
Alignment explanation
Indices: 66946047--66946086 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
66946037 ACCAGCACCA
* * *
66946047 GCAGCG GCAGCG GCAGCG GCAGTG GCAGTG GCAGTG GCAG
1 GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAG
66946087 AAGCACCAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.25, G:0.50, T:0.07
Consensus pattern (6 bp):
GCAGCG
Found at i:66946064 original size:12 final size:12
Alignment explanation
Indices: 66946047--66946086 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
66946037 ACCAGCACCA
*
66946047 GCAGCGGCAGCG
1 GCAGCGGCAGTG
66946059 GCAGCGGCAGTG
1 GCAGCGGCAGTG
*
66946071 GCAGTGGCAGTG
1 GCAGCGGCAGTG
66946083 GCAG
1 GCAG
66946087 AAGCACCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.17, C:0.25, G:0.50, T:0.07
Consensus pattern (12 bp):
GCAGCGGCAGTG
Found at i:66946652 original size:6 final size:6
Alignment explanation
Indices: 66946643--66946713 Score: 70
Period size: 6 Copynumber: 11.8 Consensus size: 6
66946633 TGGGGATGAC
* * * * * * *
66946643 GATGGG GATGAT GATGGT GATGAT GATGGA GATGGA GATGGG GATGAT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
*
66946691 GATGGG GATGGT GATGGT GATGG
1 GATGGT GATGGT GATGGT GATGG
66946714 GCCTAAGTCC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.24, C:0.00, G:0.51, T:0.25
Consensus pattern (6 bp):
GATGGT
Found at i:66946713 original size:12 final size:12
Alignment explanation
Indices: 66946633--66946712 Score: 99
Period size: 12 Copynumber: 6.7 Consensus size: 12
66946623 GGGCCAGATT
*
66946633 TGGGGATGACGA
1 TGGGGATGATGA
66946645 TGGGGATGATGA
1 TGGGGATGATGA
*
66946657 TGGTGATGATGA
1 TGGGGATGATGA
*
66946669 TGGAGATGGA-GA
1 TGGGGAT-GATGA
66946681 TGGGGATGATGA
1 TGGGGATGATGA
*
66946693 TGGGGATGGTGA
1 TGGGGATGATGA
*
66946705 TGGTGATG
1 TGGGGATG
66946713 GGCCTAAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
11 2 0.03
12 56 0.93
13 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.50, T:0.25
Consensus pattern (12 bp):
TGGGGATGATGA
Found at i:66951454 original size:20 final size:20
Alignment explanation
Indices: 66951431--66951489 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
66951421 TAACTTTTGT
66951431 AATAAACTTAAATTTAACAA
1 AATAAACTTAAATTTAACAA
*
66951451 AATAAATTTAACGATATTAACAA
1 AATAAACTTAA--AT-TTAACAA
* *
66951474 ATTGAACCTTAAATTT
1 AAT-AAACTTAAATTT
66951490 TAAAATCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 10 0.32
21 2 0.06
22 4 0.13
23 9 0.29
24 6 0.19
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (20 bp):
AATAAACTTAAATTTAACAA
Found at i:66953338 original size:23 final size:22
Alignment explanation
Indices: 66953310--66953354 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
66953300 AAATTAAATA
66953310 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
66953333 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
66953355 AAGATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:66953357 original size:19 final size:19
Alignment explanation
Indices: 66953333--66953443 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
66953323 AATCATATCT
66953333 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
66953352 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
66953371 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
66953390 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
66953409 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
66953428 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
66953444 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:66953383 original size:38 final size:38
Alignment explanation
Indices: 66953333--66953436 Score: 208
Period size: 38 Copynumber: 2.7 Consensus size: 38
66953323 AATCATATCT
66953333 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
66953371 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
66953409 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
66953437 GCATATCCCT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATTATA
Found at i:66953997 original size:132 final size:132
Alignment explanation
Indices: 66953772--66954664 Score: 1330
Period size: 132 Copynumber: 6.8 Consensus size: 132
66953762 TAGGACTTAC
* * *
66953772 AATCTTCAA-CTTATTCCACTGCTGACCTGGG-AGATATG-ATTACTGGCTTCAATGTACTCCAC
1 AATCTTCAATC-TATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCAC
* * *
66953834 TGTAACCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAA
63 TGTAACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
66953899 TCTGA
128 TCTGA
*
66953904 AATCTTCAATCTATTCCACTGTTATCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
** * * *
66953969 AACCACAGGGAGGTAAAATTCGTTATCTTCGATCTACTCCACTACTGCTTAGGGGGATAAGACCT
66 AACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66954034 GA
131 GA
* * * *
66954036 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTAATGGCTTCAATGCACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
66954101 AACCACAGGGAGTTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGGGATAAGACCT
66 AACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66954166 GA
131 GA
* * *
66954168 AATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAGAATTACTAGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
66954233 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66954298 GA
131 GA
* * *
66954300 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
66954365 AACCACAAGG-GGTAAAA-TCTGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATC
66 AACCACAGGGAGGTAAAATTC-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
66954428 TGG
130 TGA
** *
66954431 AATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
66954496 AACCATAGGGAGGTAAAATCCTCCATCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66954561 GA
131 GA
* * *
66954563 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTATTGACTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
66954628 AACCACAGGGAGGTAAAA-TCTGCCATCTTCGATCTGC
66 AACCACAGGGAGGTAAAATTC-GCCATCTTCGATCTGC
66954665 GTCGCTGTCA
Statistics
Matches: 700, Mismatches: 54, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
130 1 0.00
131 123 0.18
132 572 0.82
133 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:66954305 original size:44 final size:44
Alignment explanation
Indices: 66953993--66954594 Score: 168
Period size: 44 Copynumber: 13.7 Consensus size: 44
66953983 AAAATTCGTT
* * * * *
66953993 ATCTTCGATCTACTCCACTACTGCTTAGGGGGATAAGACCTGAA
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGATAAGATCTGAA
* * *
66954037 ATCTTCAATCTATTCCACTGTTGTCTAGGGA-AGT-AGAAT-T--A
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGA-TAAG-ATCTGAA
** * * * * **
66954078 ATGGCTTCAATGC-ACTCCACTATAACCACAGGGAGTTAAAATCCGCC
1 AT--CTTCAAT-CTACTCCACTATTGCC-TAGGGAGATAAGATCTGAA
* * * * * *
66954125 ATCTTCGATCTGCTCCACTACTGCTTAGGGGGATAAGACCTGAA
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGATAAGATCTGAA
* * * * *
66954169 ATCTTCAATCTATTCCACTGTTGTCCAAGGAAG-T-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTATTG-CCTAGGGAGATAAG-ATCTGA-A
* * ** * * * * **
66954212 AGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGCC-TAGGGAGATAAGATCTGAA
* * *
66954257 ATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGATAAGATCTGAA
* * * *
66954301 ATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGA-TAAG-ATCTGA-A
* * ** * * **
66954344 AGCTTCAATGTACTCCACTATAACCACAAGGG-G-TAAAATCTGCC
1 ATCTTCAATCTACTCCACTAT-TGC-CTAGGGAGATAAGATCTGAA
* * * *
66954388 ATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGA
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGATAAGATCTGAA
* * * *
66954432 ATCTTCAATCTATTCCACTGTTACCCAGGGA-AGT-AGAAT-T--A
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGA-TAAG-ATCTGAA
* * * ** * * **
66954473 TTGGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCCT-CC
1 AT--CTTCAATCTACTCCACTATTGCC-TAGGGAGATAAGAT-CTGAA
* * * * *
66954520 ATCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCTAGGGAGATAAGATCTGAA
* * *
66954564 ATCTTCAATCTATTCCACTGTTGTCTAGGGA
1 ATCTTCAATCTACTCCACTATTGCCTAGGGA
66954595 AGTAGAATTA
Statistics
Matches: 383, Mismatches: 133, Indels: 84
0.64 0.22 0.14
Matches are distributed among these distances:
41 5 0.01
42 8 0.02
43 97 0.25
44 209 0.55
45 60 0.16
46 1 0.00
47 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTATTGCCTAGGGAGATAAGATCTGAA
Found at i:66962400 original size:22 final size:21
Alignment explanation
Indices: 66962365--66962459 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 21
66962355 AAAGGGTATC
* *
66962365 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
66962386 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
66962409 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
66962428 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
66962447 TGCATATCATATC
1 TACAAATCATATC
66962460 AAGATCATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
19 34 0.55
21 3 0.05
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:66962408 original size:23 final size:22
Alignment explanation
Indices: 66962365--66962422 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
66962355 AAAGGGTATC
* *
66962365 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
66962386 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
66962409 TGCATATCATATCT
1 TACAAATCATATCT
66962423 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:66962425 original size:19 final size:19
Alignment explanation
Indices: 66962401--66962510 Score: 150
Period size: 19 Copynumber: 5.8 Consensus size: 19
66962391 AATCATATCT
66962401 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
66962420 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
66962439 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*** *
66962458 TC-AAGATCATATATTATA
1 TCTAAGATTGCATATCATA
*
66962476 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
66962495 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
66962511 CCTGAAGATT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
18 14 0.18
19 64 0.82
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:66962477 original size:37 final size:38
Alignment explanation
Indices: 66962401--66962502 Score: 170
Period size: 37 Copynumber: 2.7 Consensus size: 38
66962391 AATCATATCT
*
66962401 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATCATATATCATA
*
66962439 TCTAAGATTGCATATCATATC-AAGATCATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATCATATATCATA
*
66962476 TCTAAGATTGTATATCATATCTAAGAT
1 TCTAAGATTGCATATCATATCTAAGAT
66962503 TGCATATCCC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 34 0.57
38 26 0.43
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATCATATATCATA
Found at i:66963668 original size:29 final size:29
Alignment explanation
Indices: 66963635--66963693 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
66963625 ATAAAATAAA
*
66963635 ATCTTAAAATTAAATAATCCTTA-ATAATT
1 ATCTTAAAATT-AATAATCCTAATATAATT
* *
66963664 ATCTTAATATTAATTATCCTAATATAATT
1 ATCTTAAAATTAATAATCCTAATATAATT
66963693 A
1 A
66963694 AAATAGAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (29 bp):
ATCTTAAAATTAATAATCCTAATATAATT
Found at i:66963679 original size:15 final size:14
Alignment explanation
Indices: 66963658--66963693 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
66963648 ATAATCCTTA
*
66963658 ATAATTATCTTAAT
1 ATAATTATCCTAAT
66963672 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
66963687 ATAATTA
1 ATAATTA
66963694 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:66970596 original size:24 final size:23
Alignment explanation
Indices: 66970552--66970596 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
66970542 ATTTAATTAT
*
66970552 ATTTTATTTTTATTTTGAATTTG
1 ATTTTATTTTTATTTTAAATTTG
66970575 ATTTTAATTTTT-TTCTTAAATT
1 ATTTT-ATTTTTATT-TTAAATT
66970597 ATACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (23 bp):
ATTTTATTTTTATTTTAAATTTG
Found at i:66970810 original size:22 final size:23
Alignment explanation
Indices: 66970782--66970849 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
66970772 TCGAAGATAA
66970782 AACTTAACGATAATCATATTAG-
1 AACTTAACGATAATCATATTAGT
* * *
66970804 AACTTAACAATAATCATGTAAGT
1 AACTTAACGATAATCATATTAGT
*
66970827 AGCATGTAACGATAATCATATTA
1 AAC-T-TAACGATAATCATATTA
66970850 TGTACTATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 19 0.53
23 2 0.06
24 1 0.03
25 14 0.39
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (23 bp):
AACTTAACGATAATCATATTAGT
Found at i:66973091 original size:17 final size:17
Alignment explanation
Indices: 66973069--66973102 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66973059 CTTGTGCTTT
66973069 TTTTTTGGGGAATTTTA
1 TTTTTTGGGGAATTTTA
**
66973086 TTTTTTTTGGAATTTTA
1 TTTTTTGGGGAATTTTA
66973103 AAATTAGGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (17 bp):
TTTTTTGGGGAATTTTA
Found at i:66978134 original size:17 final size:18
Alignment explanation
Indices: 66978104--66978138 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66978094 TTTATTTACG
66978104 AAAATAATACAAAAAAAT
1 AAAATAATACAAAAAAAT
*
66978122 AAAA-AATAGAAAAAAAT
1 AAAATAATACAAAAAAAT
66978139 GCTGCAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAATAATACAAAAAAAT
Found at i:66978243 original size:27 final size:27
Alignment explanation
Indices: 66978174--66978244 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
66978164 GAGGAGGGTA
** **
66978174 TCCCATAGGCGGCACCAAAGGTGCCTT
1 TCCCATAGGCGGCACTGAAGGTGCCCC
*
66978201 TCCCATAGGCGGCACTGATGGTGCCCC
1 TCCCATAGGCGGCACTGAAGGTGCCCC
66978228 TCCCATAGGCGGCACTG
1 TCCCATAGGCGGCACTG
66978245 CCTATATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.18, C:0.35, G:0.28, T:0.18
Consensus pattern (27 bp):
TCCCATAGGCGGCACTGAAGGTGCCCC
Found at i:66978323 original size:10 final size:10
Alignment explanation
Indices: 66978297--66978467 Score: 72
Period size: 10 Copynumber: 17.5 Consensus size: 10
66978287 AGGAGAGGGA
66978297 AAAAAG-AAG
1 AAAAAGAAAG
66978306 AAAGAAAGAAAG
1 -AA-AAAGAAAG
66978318 AAAAAGAAAG
1 AAAAAGAAAG
*
66978328 AAAAGGAAAG
1 AAAAAGAAAG
* * *
66978338 GAGAGGAAAG
1 AAAAAGAAAG
*
66978348 --AAGGAAAG
1 AAAAAGAAAG
*
66978356 AAAAGGAAAG
1 AAAAAGAAAG
* *
66978366 GAGAAG-AAG
1 AAAAAGAAAG
66978375 AAAAAAGAAAG
1 -AAAAAGAAAG
*
66978386 AAAAAGAAGG
1 AAAAAGAAAG
*
66978396 AAAGA-AAAG
1 AAAAAGAAAG
* *
66978405 GAAAGGAGAAG
1 AAAAAGA-AAG
*
66978416 -AGAA-AAA-
1 AAAAAGAAAG
66978423 AAAAAGAAAG
1 AAAAAGAAAG
*
66978433 AAGAAGAAGAG
1 AAAAAGAA-AG
** * *
66978444 GGAAGGAAGG
1 AAAAAGAAAG
66978454 AAAAAGAAA-
1 AAAAAGAAAG
66978463 AAAAA
1 AAAAA
66978468 AAGGTAATTT
Statistics
Matches: 121, Mismatches: 28, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
8 12 0.10
9 17 0.14
10 71 0.59
11 18 0.15
12 3 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:66978382 original size:34 final size:32
Alignment explanation
Indices: 66978299--66978437 Score: 108
Period size: 34 Copynumber: 4.3 Consensus size: 32
66978289 GAGAGGGAAA
*
66978299 AAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAGG
1 AAAGAAGAAA-AAAGAAAG-AAAA-AAAGGAAAGG
* ** *
66978334 AAAGGAGAGGAAAGAAGGAAAGAAAAGGAAAGG
1 AAAGAAGAAAAAAGAAAGAAA-AAAAGGAAAGG
66978367 AGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAA-G
1 A-AAGAAGAAAAAAGAAAGAAAAA-AAGGAAAGG
* **
66978400 AAA-AGGAAAGGAGAAGAGAAAAAAA--AAA-G
1 AAAGAAGAAAAAAGAA-AGAAAAAAAGGAAAGG
66978429 AAAGAAGAA
1 AAAGAAGAA
66978438 GAAGAGGGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 15
0.75 0.11 0.13
Matches are distributed among these distances:
29 7 0.08
30 4 0.05
31 11 0.13
32 9 0.10
33 17 0.20
34 31 0.36
35 7 0.08
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (32 bp):
AAAGAAGAAAAAAGAAAGAAAAAAAGGAAAGG
Found at i:66978394 original size:44 final size:44
Alignment explanation
Indices: 66978344--66978470 Score: 174
Period size: 44 Copynumber: 3.0 Consensus size: 44
66978334 AAAGGAGAGG
*
66978344 AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAAAAGAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAAAAAAAAGAA
66978388 AAAGAAGGAAAGAAAAGGAAAGGAGAAG-AGAAAAAAAAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAAAAAAAAGAA
**
66978431 AGAAGAA-GAAGAGGGAAGG-AAGGA-AA-AAGAAAAAAAAAAG
1 A-AAGAAGGAA-AGAAAAGGAAAGGAGAAGAAGAAAAAAAAAAG
66978471 GTAATTTTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
42 15 0.19
43 23 0.30
44 39 0.51
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (44 bp):
AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAAAAAAAAGAA
Found at i:66978469 original size:47 final size:47
Alignment explanation
Indices: 66978299--66978469 Score: 118
Period size: 47 Copynumber: 3.6 Consensus size: 47
66978289 GAGAGGGAAA
* * * *
66978299 AAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGAAAGAAGG
1 AAAGAA-AAGGAAAG-AAGAAAAAAAAAAAAAAAGAAA-GA-A--AAAGAAGG
* * *
66978352 AAAGAAAAGGAAAG--G-AGAAGAAGAAAAAAGAAAGAAAAAGAAGG
1 AAAGAAAAGGAAAGAAGAAAAAAAAAAAAAAAGAAAGAAAAAGAAGG
* * * *
66978396 AAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAGAAAGAAGAAGAAGAGG
1 AAAGAAAAGGAAAGAAGAAAAAAAAAAAAAAAGAAAGAAAAAG-A-AGG
* *
66978445 GAAG-GAAGGAAA-AAGAAAAAAAAAA
1 AAAGAAAAGGAAAGAAGAAAAAAAAAA
66978470 GGTAATTTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 22 0.22
46 2 0.02
47 33 0.33
48 22 0.22
49 7 0.07
52 7 0.07
53 6 0.06
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (47 bp):
AAAGAAAAGGAAAGAAGAAAAAAAAAAAAAAAGAAAGAAAAAGAAGG
Found at i:66984171 original size:42 final size:40
Alignment explanation
Indices: 66984043--66984177 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
66984033 CCACTAACCC
*
66984043 TAATAGCTAACACAATAACAATAATAATAGTTTTATACTCAAAA
1 TAATA-CTAAC-C-ATAACAATAATAATAGTTTTTTACT-AAAA
**
66984087 TAATACTAA-C-TAACAATAATAATTAGGGTTTTACTAAAAA
1 TAATACTAACCATAACAATAATAA-TAGTTTTTTACT-AAAA
* *
66984127 TAATAACTAACCATAATAATAATACTAGTTTTTTACTAACAA
1 TAAT-ACTAACCATAACAATAATAATAGTTTTTTACTAA-AA
66984169 TAATACTAA
1 TAATACTAA
66984178 GTAACATCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
39 12 0.15
40 17 0.22
41 13 0.17
42 17 0.22
43 14 0.18
44 5 0.06
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (40 bp):
TAATACTAACCATAACAATAATAATAGTTTTTTACTAAAA
Found at i:66984365 original size:10 final size:10
Alignment explanation
Indices: 66984337--66984373 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
66984327 AAATACCTTT
66984337 TTTTTCTCTTC
1 TTTTTCTC-TC
*
66984348 TCTTTCTCTC
1 TTTTTCTCTC
66984358 TTTTTCTCTC
1 TTTTTCTCTC
66984368 TTTTTC
1 TTTTTC
66984374 CGGAGCCACG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:66984487 original size:27 final size:27
Alignment explanation
Indices: 66984449--66984520 Score: 135
Period size: 27 Copynumber: 2.7 Consensus size: 27
66984439 TAACACAAGT
66984449 GGTGCCGCCTATGGGAAAGGCACCTTG
1 GGTGCCGCCTATGGGAAAGGCACCTTG
*
66984476 GGTGCCGCCTATGGGAAAGGCACCTTT
1 GGTGCCGCCTATGGGAAAGGCACCTTG
66984503 GGTGCCGCCTATGGGAAA
1 GGTGCCGCCTATGGGAAA
66984521 CCCTCCTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.19
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAAAGGCACCTTG
Found at i:66985063 original size:23 final size:24
Alignment explanation
Indices: 66985037--66985086 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
66985027 TTTTGAGTAA
66985037 TTTAA-TTTTTTATTTT-ATGTTCT
1 TTTAACTTTTTT-TTTTCATGTTCT
*
66985060 TTTAACTTTTTTTTTTCATTTTCT
1 TTTAACTTTTTTTTTTCATGTTCT
66985084 TTT
1 TTT
66985087 GCTTCCACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTAACTTTTTTTTTTCATGTTCT
Found at i:66985828 original size:18 final size:18
Alignment explanation
Indices: 66985807--66985845 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
66985797 ATATACGTAC
66985807 ATACA-CTCATATATTTTT
1 ATACATCTCATA-ATTTTT
*
66985825 ATACATTTCATAATTTTT
1 ATACATCTCATAATTTTT
66985843 ATA
1 ATA
66985846 TACATATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (18 bp):
ATACATCTCATAATTTTT
Found at i:66998151 original size:42 final size:43
Alignment explanation
Indices: 66998059--66998159 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 43
66998049 GTAATTTTTG
** * *
66998059 GAAATCTCGTATCGATGCCAATAGCCCAGCTGTGGTCTTACAC
1 GAAATCTCAAATCGATGCCAATAGCCCAGATATGGTCTTACAC
* *
66998102 GAAATCTCAAATCGATGCC-ATATCCCAGATATGGTCTTATAC
1 GAAATCTCAAATCGATGCCAATAGCCCAGATATGGTCTTACAC
**
66998144 GGGATCTCAAATCGAT
1 GAAATCTCAAATCGAT
66998160 ATTGGAACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 33 0.66
43 17 0.34
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GAAATCTCAAATCGATGCCAATAGCCCAGATATGGTCTTACAC
Found at i:66999992 original size:45 final size:44
Alignment explanation
Indices: 66999941--67000080 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
66999931 GGAGCCGATT
66999941 GAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGGTC
1 GAAGACAACAGATCTTGCCTTCCTGCATT-ACAGCGAAGCAGGTC
* * *** * * * *
66999986 GAAGAC-ACAAACCTTGCC-TCTCT-CAGTTGTGGTGGAGCTGGTT
1 GAAGACAACAGATCTTGCCTTC-CTGCA-TTACAGCGAAGCAGGTC
*
67000029 GAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGCTC
1 GAAGACAACAGATCTTGCCTTCCTGCATT-ACAGCGAAGCAGGTC
67000074 GAAGACA
1 GAAGACA
67000081 CAAACCTTGC
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 18 0.26
44 28 0.40
45 24 0.34
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (44 bp):
GAAGACAACAGATCTTGCCTTCCTGCATTACAGCGAAGCAGGTC
Found at i:67000031 original size:88 final size:87
Alignment explanation
Indices: 66999880--67000164 Score: 403
Period size: 88 Copynumber: 3.3 Consensus size: 87
66999870 AAAAAATACG
* * * *
66999880 ATTAACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCCCTCGTTTGTAGTGGAGCCGATTGAA
1 ATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCG-TTGTAGTGGAGCTGGTTGAA
66999944 GACAACAGATCTTGCCTTCCTGC
65 GACAACAGATCTTGCCTTCCTGC
* *
66999967 ATTAACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTGTGGTGGAGCTGGTTGAA
1 ATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTC-GTTGTAGTGGAGCTGGTTGAA
67000032 GACAACAGATCTTGCCTTCCTGC
65 GACAACAGATCTTGCCTTCCTGC
* *
67000055 ATTGACAGCGAAGCAGCTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAA
1 ATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTC-GTTGTAGTGGAGCTGGTTGAA
* * * *
67000120 GATAGCAGATCTTGTCTT-CTAGT
65 GACAACAGATCTTGCCTTCCT-GC
*
67000143 ATTAACAGCAAAGCAGATCGAA
1 ATTAACAGCGAAGCAGATCGAA
67000165 AAGATTTTGG
Statistics
Matches: 178, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
87 26 0.15
88 151 0.85
89 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (87 bp):
ATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGTTGTAGTGGAGCTGGTTGAAG
ACAACAGATCTTGCCTTCCTGC
Found at i:67000035 original size:43 final size:43
Alignment explanation
Indices: 66999986--67000121 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 43
66999976 GAAGCAGGTC
*
66999986 GAAGACACAAACCTTGCCTCTCTCAGTTGTGGTGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCAGTTGTAGTGGAGCTGGTT
* * * * * * * *
67000029 GAAGACAACAGATCTTGCCT-TCCTGCA-TTGACAGCGAAGCAGCTC
1 GAAGAC-ACAAACCTTGCCTCT-CT-CAGTTG-TAGTGGAGCTGGTT
*
67000074 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCAGTTGTAGTGGAGCTGGTT
67000117 GAAGA
1 GAAGA
67000122 TAGCAGATCT
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
43 21 0.30
44 32 0.46
45 16 0.23
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCAGTTGTAGTGGAGCTGGTT
Found at i:67003644 original size:22 final size:22
Alignment explanation
Indices: 67003619--67003661 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
67003609 ATCATGGCTA
67003619 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
67003641 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
67003662 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:67010784 original size:16 final size:17
Alignment explanation
Indices: 67010763--67010795 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
67010753 TCTAAAAGAA
*
67010763 ACAAAA-AAAATTAAAT
1 ACAAAAGAAAAATAAAT
67010779 ACAAAAGAAAAATAAAT
1 ACAAAAGAAAAATAAAT
67010796 TATTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (17 bp):
ACAAAAGAAAAATAAAT
Found at i:67010988 original size:109 final size:108
Alignment explanation
Indices: 67010798--67011092 Score: 504
Period size: 109 Copynumber: 2.7 Consensus size: 108
67010788 AAATAAATTA
67010798 TTTTTTGAAATGACTGAGTATTTGACTTTTCTCTTTCTCTTCATGTCATTTTGAAACATTACGTT
1 TTTTTTGAAATGACTGAGTATTTGACTTTTCTCTTTCTCTTCATGTCATTTTGAAACATTACGTT
*
67010863 GATATTTTCTAGCATTTAAGGAAGGGCAGTTTTGGCTTTTTAT
66 GATATTTTCTAACATTTAAGGAAGGGCAGTTTTGGCTTTTTAT
* * *
67010906 TTTTTTGAAATGACTGAATATTTGACTCTTCT-TTTCTTTTCTATTGTCATTTTGAAACATTACG
1 TTTTTTGAAATGACTGAGTATTTGACTTTTCTCTTTCTCTTC-A-TGTCATTTTGAAACATTACG
* *
67010970 TTGATATTTTCTAACATTTATGGAAGGGCAGTTTTGGCTTTTTTT
64 TTGATATTTTCTAACATTTAAGGAAGGGCAGTTTTGGCTTTTTAT
67011015 TTTTTTGAAATGACTGAGTATTTGACTTTTCTCTTTCTCTTCATGTCATTTTGAAACATTACGTT
1 TTTTTTGAAATGACTGAGTATTTGACTTTTCTCTTTCTCTTCATGTCATTTTGAAACATTACGTT
67011080 GATATTTTC-AACA
66 GATATTTTCTAACA
67011093 CTCTATTCCA
Statistics
Matches: 175, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
107 12 0.07
108 62 0.35
109 93 0.53
110 8 0.05
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (108 bp):
TTTTTTGAAATGACTGAGTATTTGACTTTTCTCTTTCTCTTCATGTCATTTTGAAACATTACGTT
GATATTTTCTAACATTTAAGGAAGGGCAGTTTTGGCTTTTTAT
Found at i:67011617 original size:26 final size:27
Alignment explanation
Indices: 67011568--67011622 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
67011558 CTTAATTCCC
* * **
67011568 GATTTTAATTTGTTTTGTTTTGTT-TT
1 GATTTTAATTTGTTATCTAATGTTATT
67011594 GATTTTAATTTGTTATCTAATGTTATT
1 GATTTTAATTTGTTATCTAATGTTATT
67011621 GA
1 GA
67011623 ATAATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.15, T:0.64
Consensus pattern (27 bp):
GATTTTAATTTGTTATCTAATGTTATT
Found at i:67013569 original size:17 final size:17
Alignment explanation
Indices: 67013547--67013585 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
67013537 GGAATGAGCC
67013547 AAAATAA-CTCAAATCTA
1 AAAATAATCT-AAATCTA
*
67013564 AAAATAATCTAAATCTT
1 AAAATAATCTAAATCTA
67013581 AAAAT
1 AAAAT
67013586 TTTTTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATAATCTAAATCTA
Found at i:67020153 original size:88 final size:87
Alignment explanation
Indices: 67019944--67020201 Score: 290
Period size: 87 Copynumber: 2.9 Consensus size: 87
67019934 TTTTGTTTCT
* * *
67019944 AAATTAAAGTTAAATAAAATCTGTTTCG-GAATTTATTCCTGCTGTTTAACGAATTTTATTCCAT
1 AAATTAAAATTAAATAAAATCTATTTCGAG-ATTTATTCCTGCTGTTCAACGAATTTTATTCCAT
67020008 TTTGATTTTATTTCCAAAACGAG
65 TTTGATTTTATTTCCAAAACGAG
* * * * **
67020031 -TATTTAAATGAAAATAAAATCTATTTCGAGATTTATTCCTG-TCGTTCAATGAATTTTATTCTT
1 AAATTAAAAT-TAAATAAAATCTATTTCGAGATTTATTCCTGCT-GTTCAACGAATTTTATTCCA
*
67020094 TTTTTATTTTATTTCCAAAAACGAG
64 TTTTGATTTTATTTCC-AAAACGAG
* ** *
67020119 AAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCTGATT-AAAAATATTTTATTCAA
1 AAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCTGCTG-TTCAACGA-ATTTTATTCCA
* *
67020183 TTTTAATTTTGTTTCCAAA
64 TTTTGATTTTATTTCCAAA
67020202 TTAGAATTAA
Statistics
Matches: 143, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
86 7 0.05
87 58 0.41
88 45 0.31
89 33 0.23
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (87 bp):
AAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCTGCTGTTCAACGAATTTTATTCCATT
TTGATTTTATTTCCAAAACGAG
Found at i:67020245 original size:90 final size:89
Alignment explanation
Indices: 67020119--67020290 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 89
67020109 CAAAAACGAG
* *
67020119 AAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCTGATTAAAAATATTTTATTCAAT
1 AAATTAAAATTAAATAAAA-CTATTTCGAGATTTATTCCCGCCGATTAAAAAGATTTTATTCAAT
*
67020184 TTTAATTTTGTTTCCAAATTAGAATT
65 ATTAA-TTTGTTTCCAAATTAGAATT
* * * *
67020210 AAATT-AAATTAAATAAAA-TATGTTCTGAGATTTATTCTCGCCGTTTAACAAGATTTTATTCTA
1 AAATTAAAATTAAATAAAACTAT-TTC-GAGATTTATTCCCGCCGATTAAAAAGATTTTATTCAA
67020273 TATTAATTTGTTTCCAAA
64 TATTAATTTGTTTCCAAA
67020291 CGAAGACTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 3 0.04
89 15 0.21
90 49 0.68
91 5 0.07
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (89 bp):
AAATTAAAATTAAATAAAACTATTTCGAGATTTATTCCCGCCGATTAAAAAGATTTTATTCAATA
TTAATTTGTTTCCAAATTAGAATT
Found at i:67025650 original size:57 final size:57
Alignment explanation
Indices: 67025561--67025673 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 57
67025551 CAACCACACC
* **
67025561 AATTAGGACTACAAGAGTCCTTCCATCTAATCACATCGGGTCATGGTGGTATGTCAT
1 AATTAGGACTACAAGAGTCCTTCCATCCAATCACATCGGGTCATAATGGTATGTCAT
*
67025618 AATTAGGACTACAAGAGTCCTTCCATCCAATCACATTGGGTCATAATGGTATGTCA
1 AATTAGGACTACAAGAGTCCTTCCATCCAATCACATCGGGTCATAATGGTATGTCA
67025674 CTCATAAAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (57 bp):
AATTAGGACTACAAGAGTCCTTCCATCCAATCACATCGGGTCATAATGGTATGTCAT
Found at i:67040200 original size:3 final size:3
Alignment explanation
Indices: 67040192--67040237 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
67040182 ATTTTGTCAC
*
67040192 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
67040238 TATTTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:67057459 original size:5 final size:5
Alignment explanation
Indices: 67057449--67057475 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
67057439 GTATTGGAAT
67057449 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
67057476 CTACCTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:67067576 original size:21 final size:22
Alignment explanation
Indices: 67067551--67067591 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
67067541 TAATAAAAAT
*
67067551 TTAAT-ATTAAAAAATTAAACA
1 TTAATAATTAAAAAACTAAACA
67067572 TTAATAATTAAAAAACTAAA
1 TTAATAATTAAAAAACTAAA
67067592 ACTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAATAATTAAAAAACTAAACA
Found at i:67067604 original size:21 final size:23
Alignment explanation
Indices: 67067552--67067604 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
67067542 AATAAAAATT
* *
67067552 TAATATTAAAAAATTAAACATTAA
1 TAATA-TAAAAAACTAAACACTAA
67067576 TAAT-TAAAAAACTAAA-ACTAA
1 TAATATAAAAAACTAAACACTAA
67067597 -AATATAAA
1 TAATATAAA
67067605 TTCCCAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.12
21 8 0.31
22 11 0.42
24 4 0.15
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
TAATATAAAAAACTAAACACTAA
Found at i:67068021 original size:6 final size:6
Alignment explanation
Indices: 67068010--67068035 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
67068000 ATAATAACGA
67068010 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
67068036 AGTAATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:67072286 original size:4 final size:4
Alignment explanation
Indices: 67072277--67072301 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
67072267 TTTTATTAGA
67072277 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
67072302 GCTTTTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:67077083 original size:43 final size:43
Alignment explanation
Indices: 67076983--67077086 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
67076973 GTGGATGCGC
* **
67076983 AACAAATTCGCAGATAAAAACTACCACTAGGCTATGGATGCAT
1 AACAAATTCGCAGATAAAAACTACCACTAAGCTATGGATAAAT
* * * * * *
67077026 AGCGAATTCACAGATAAAAACTCCCAGTAAGCTGTGGATAAAT
1 AACAAATTCGCAGATAAAAACTACCACTAAGCTATGGATAAAT
*
67077069 AACAAATTTGCAGATAAA
1 AACAAATTCGCAGATAAA
67077087 CTGCCATTGG
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.21
Consensus pattern (43 bp):
AACAAATTCGCAGATAAAAACTACCACTAAGCTATGGATAAAT
Found at i:67077220 original size:34 final size:34
Alignment explanation
Indices: 67077172--67077289 Score: 128
Period size: 34 Copynumber: 3.4 Consensus size: 34
67077162 TATGCAATGT
*
67077172 AATATGACATGCTTATAACATATCAATACAATAGC
1 AATA-GACATGCTTATAACAAATCAATACAATAGC
* * **
67077207 AATGGACATGCTTATAACAGATCAATACGGTAGC
1 AATAGACATGCTTATAACAAATCAATACAATAGC
* * **
67077241 AATAGATATGCTTATAACAAATCAATGCTGTAGC
1 AATAGACATGCTTATAACAAATCAATACAATAGC
* *
67077275 AAAAGTCATGCTTAT
1 AATAGACATGCTTAT
67077290 CATGAATTAG
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
34 68 0.96
35 3 0.04
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (34 bp):
AATAGACATGCTTATAACAAATCAATACAATAGC
Found at i:67079081 original size:15 final size:16
Alignment explanation
Indices: 67079061--67079098 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
67079051 CAATTCGATT
67079061 AAATAAA-TTATAAAA
1 AAATAAATTTATAAAA
**
67079076 AAATAAATTTATTTAA
1 AAATAAATTTATAAAA
67079092 AAATAAA
1 AAATAAA
67079099 AAAAAACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATAAATTTATAAAA
Found at i:67086210 original size:2 final size:2
Alignment explanation
Indices: 67086203--67086236 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
67086193 GTTTAATGTT
67086203 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67086237 TTACTCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67087293 original size:20 final size:19
Alignment explanation
Indices: 67087235--67087296 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
67087225 GAACGTTGAC
* *
67087235 CTCAAACCCTAAACCTAAA
1 CTCAAACTCTAAACCCAAA
*
67087254 TATCAAACTCTAAACCCAAA
1 -CTCAAACTCTAAACCCAAA
*
67087274 CTCAAACTTTAAATCCCAAA
1 CTCAAACTCTAAA-CCCAAA
67087294 CTC
1 CTC
67087297 GAATCTTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 11 0.31
20 25 0.69
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (19 bp):
CTCAAACTCTAAACCCAAA
Found at i:67087763 original size:44 final size:42
Alignment explanation
Indices: 67087671--67087780 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 42
67087661 AAAGTTTTTG
* * *
67087671 TAATCAAATAAATTATATTATAATTTATGTTATACAAAATTTGG
1 TAAT-AAATAAAATATATTATAATTTATGTTATAC-AAATTAGA
67087715 TAATAAAATAAAATATATTATAATTTATGTTATAC-AATGTAGTA
1 TAAT-AAATAAAATATATTATAATTTATGTTATACAAAT-TAG-A
* *
67087759 TAATATATAAAA-ATATTGTAAT
1 TAATAAATAAAATATATTATAAT
67087781 GTTGTAGTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
42 12 0.21
43 9 0.16
44 37 0.64
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (42 bp):
TAATAAATAAAATATATTATAATTTATGTTATACAAATTAGA
Found at i:67092705 original size:20 final size:20
Alignment explanation
Indices: 67092665--67092705 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
67092655 ATTACAGTTA
*
67092665 CATTTCCCAATTCCCCTCCC
1 CATTTCCCAATTCCCCACCC
* *
67092685 CATTTCCCATTTCCCGACCC
1 CATTTCCCAATTCCCCACCC
67092705 C
1 C
67092706 GTGTATCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.54, G:0.02, T:0.29
Consensus pattern (20 bp):
CATTTCCCAATTCCCCACCC
Found at i:67094011 original size:13 final size:13
Alignment explanation
Indices: 67093964--67094133 Score: 171
Period size: 13 Copynumber: 12.8 Consensus size: 13
67093954 AAATAACTAG
*
67093964 TTTATTATACTGT
1 TTTAATATACTGT
* *
67093977 TTTAACATATTGT
1 TTTAATATACTGT
*
67093990 TTTAATATATTGT
1 TTTAATATACTGT
*
67094003 TTTAGTATACTGT
1 TTTAATATACTGT
* **
67094016 TATAAATATACCAT
1 T-TTAATATACTGT
*
67094030 TTTAATATAATGT
1 TTTAATATACTGT
67094043 TTTAATATACTGT
1 TTTAATATACTGT
*
67094056 TATAAATATACTGT
1 T-TTAATATACTGT
*
67094070 TATAAATATACTGT
1 T-TTAATATACTGT
*
67094084 TTTAGTATACTGT
1 TTTAATATACTGT
*
67094097 TATAAATATACTGT
1 T-TTAATATACTGT
67094111 TTTAATATACTGT
1 TTTAATATACTGT
*
67094124 TATAA-ATACT
1 TTTAATATACT
67094134 ACACCTTAAT
Statistics
Matches: 132, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
12 5 0.04
13 81 0.61
14 46 0.35
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (13 bp):
TTTAATATACTGT
Found at i:67094037 original size:40 final size:40
Alignment explanation
Indices: 67093964--67094124 Score: 218
Period size: 40 Copynumber: 4.0 Consensus size: 40
67093954 AAATAACTAG
* * *
67093964 TTTATTATACTGTTTTAACATAT--TGTTTTAATATATTGT
1 TTTAGTATACTGTTATAA-ATATACTGTTTTAATATACTGT
** *
67094003 TTTAGTATACTGTTATAAATATACCATTTTAATATAATGT
1 TTTAGTATACTGTTATAAATATACTGTTTTAATATACTGT
* *
67094043 TTTAATATACTGTTATAAATATACTGTTATAAATATACTGT
1 TTTAGTATACTGTTATAAATATACTGTT-TTAATATACTGT
67094084 TTTAGTATACTGTTATAAATATACTGTTTTAATATACTGT
1 TTTAGTATACTGTTATAAATATACTGTTTTAATATACTGT
67094124 T
1 T
67094125 ATAAATACTA
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
38 4 0.04
39 16 0.15
40 50 0.47
41 37 0.35
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (40 bp):
TTTAGTATACTGTTATAAATATACTGTTTTAATATACTGT
Found at i:67094065 original size:14 final size:14
Alignment explanation
Indices: 67094008--67094131 Score: 148
Period size: 14 Copynumber: 9.1 Consensus size: 14
67093998 ATTGTTTTAG
67094008 TATACTGTTATAAA
1 TATACTGTTATAAA
** *
67094022 TATACCATT-TTAA
1 TATACTGTTATAAA
* *
67094035 TATAATGTT-TTAA
1 TATACTGTTATAAA
67094048 TATACTGTTATAAA
1 TATACTGTTATAAA
67094062 TATACTGTTATAAA
1 TATACTGTTATAAA
* *
67094076 TATACTGTT-TTAG
1 TATACTGTTATAAA
67094089 TATACTGTTATAAA
1 TATACTGTTATAAA
*
67094103 TATACTGTT-TTAA
1 TATACTGTTATAAA
67094116 TATACTGTTATAAA
1 TATACTGTTATAAA
67094130 TA
1 TA
67094132 CTACACCTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
13 44 0.47
14 49 0.53
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (14 bp):
TATACTGTTATAAA
Found at i:67094079 original size:54 final size:53
Alignment explanation
Indices: 67093976--67094181 Score: 204
Period size: 54 Copynumber: 3.9 Consensus size: 53
67093966 TATTATACTG
* * * *
67093976 TTTTAACATATTGTTTTAATATATTGTTTTAGTATACTGTTATAAATATACCA
1 TTTTAATATAATGTTTTAATATACTGTTTTAATATACTGTTATAAATATACCA
* **
67094029 TTTTAATATAATGTTTTAATATACTGTTATAAATATACTGTTATAAATATACTG
1 TTTTAATATAATGTTTTAATATACTGTT-TTAATATACTGTTATAAATATACCA
* * *
67094083 TTTTAGTATACTGTTATAAATATACTGTTTTAATATACTGTTATAAATACTA-CA
1 TTTTAATATAATGTT-TTAATATACTGTTTTAATATACTGTTATAAATA-TACCA
** * * *
67094137 CCTTAATTATTAATG---TAATATACTGGTTTAATATATTATTATAAA
1 TTTTAA-TA-TAATGTTTTAATATACTGTTTTAATATACTGTTATAAA
67094182 ATTTGTAATA
Statistics
Matches: 127, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 26 0.20
53 25 0.20
54 56 0.44
55 16 0.13
56 4 0.03
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (53 bp):
TTTTAATATAATGTTTTAATATACTGTTTTAATATACTGTTATAAATATACCA
Found at i:67094143 original size:27 final size:27
Alignment explanation
Indices: 67093969--67094131 Score: 204
Period size: 27 Copynumber: 6.1 Consensus size: 27
67093959 ACTAGTTTAT
* * *
67093969 TATACTGTTTTAACATATTGTT-TTAA
1 TATACTGTTTTAATATACTGTTATAAA
* *
67093995 TATATTGTTTTAGTATACTGTTATAAA
1 TATACTGTTTTAATATACTGTTATAAA
** * *
67094022 TATACCATTTTAATATAATGTT-TTAA
1 TATACTGTTTTAATATACTGTTATAAA
*
67094048 TATACTGTTATAAATATACTGTTATAAA
1 TATACTGTT-TTAATATACTGTTATAAA
*
67094076 TATACTGTTTTAGTATACTGTTATAAA
1 TATACTGTTTTAATATACTGTTATAAA
67094103 TATACTGTTTTAATATACTGTTATAAA
1 TATACTGTTTTAATATACTGTTATAAA
67094130 TA
1 TA
67094132 CTACACCTTA
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
26 28 0.24
27 75 0.65
28 12 0.10
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (27 bp):
TATACTGTTTTAATATACTGTTATAAA
Found at i:67094194 original size:35 final size:35
Alignment explanation
Indices: 67094150--67094216 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
67094140 TAATTATTAA
*
67094150 TGTAATATACTGGTTTAATATATTATTATAAAATT
1 TGTAATATACTAGTTTAATATATTATTATAAAATT
* *
67094185 TGTAATATACTATTTTAATATATTGTTATAAA
1 TGTAATATACTAGTTTAATATATTATTATAAA
67094217 TTATCACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (35 bp):
TGTAATATACTAGTTTAATATATTATTATAAAATT
Found at i:67095000 original size:14 final size:14
Alignment explanation
Indices: 67094951--67094996 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
67094941 AATTCACAAC
* *
67094951 ATATACGAATAAAT
1 ATATACAAATATAT
*
67094965 ATTTACAAATATAT
1 ATATACAAATATAT
67094979 ATATACAAATATA-
1 ATATACAAATATAT
67094992 ATATA
1 ATATA
67094997 ACAATAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (14 bp):
ATATACAAATATAT
Found at i:67097245 original size:89 final size:89
Alignment explanation
Indices: 67096977--67097814 Score: 1195
Period size: 89 Copynumber: 9.4 Consensus size: 89
67096967 TCTGCTGCGC
* * * *
67096977 TTGATCTACTTCACGCC---A-ATGAAGACAAGGTCTG-TTCTCTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAG
* *
67097037 TATGGGGAGACAAGATCTGTTGTCT
65 TATGGGAAGACAAGATCTGTTATCT
* * *
67097062 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACC
**
67097127 AGTATGGGAAGACAAGATCTGTTGCCT
63 AGTATGGGAAGACAAGATCTGTTATCT
* *
67097154 TTGATCTACTTCACGCCAGTACATGAAAACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
67097219 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
67097243 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
67097308 ATGGGAAGACAATATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
67097332 TTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
* * *
67097397 ATGGGAAGGCAAGACCTGTTACCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
67097421 TTGATCTACTTCATGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCCGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
67097486 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * *
67097510 CTGATCTACTTCACGCCAGTACATGAAGAAAAGATCTACTTTCTTTGATCTGCTTCGCCACTAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
* *
67097575 ATGGGAAGGCAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * *
67097599 CTGATCTACTTCACGCCAGTACATGAAGACAAGGTCTG-TTCTCTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAG
67097663 TAT-GGAGAGACAAGATCTGTTATCT
65 TATGGGA-AGACAAGATCTGTTATCT
* *
67097688 TTGATCTACTTCACGCCTGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
* *
67097753 ATGGGAAGGCAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
67097777 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
67097815 TTATCTTTTA
Statistics
Matches: 680, Mismatches: 61, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
85 17 0.03
88 6 0.01
89 567 0.83
90 8 0.01
91 1 0.00
92 81 0.12
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:67121938 original size:31 final size:31
Alignment explanation
Indices: 67121860--67121939 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 31
67121850 TATTGATAAC
*
67121860 TTTAATAATTAAAATTAAAATTAAAATTTTGA
1 TTTAATAATT-AAATAAAAATTAAAATTTTGA
* *
67121892 -TAAATTCAAAT-AATAAAAATTAAAATATTT-A
1 TTTAA-T-AATTAAATAAAAATTAAAAT-TTTGA
67121923 TTTAATAATTAAATAAA
1 TTTAATAATTAAATAAA
67121940 CAATAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
30 3 0.08
31 25 0.66
32 7 0.18
33 3 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
TTTAATAATTAAATAAAAATTAAAATTTTGA
Found at i:67128254 original size:15 final size:15
Alignment explanation
Indices: 67128234--67128268 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
67128224 TTAAATAGAA
67128234 GTTGAAAATGACAAG
1 GTTGAAAATGACAAG
67128249 GTTGAAAATGACAAG
1 GTTGAAAATGACAAG
67128264 GTTGA
1 GTTGA
67128269 CTATTGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.29, T:0.23
Consensus pattern (15 bp):
GTTGAAAATGACAAG
Found at i:67131061 original size:35 final size:35
Alignment explanation
Indices: 67131015--67131085 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 35
67131005 TGATGGCATG
67131015 AACCTTAGATTCATCTTTTTCACC-ATTTTCATTTT
1 AACCTTAGATTCATCTTTTTCACCTA-TTTCATTTT
67131050 AACCTTAGATTCATCTTTTTCACCTATTTCATTTT
1 AACCTTAGATTCATCTTTTTCACCTATTTCATTTT
67131085 A
1 A
67131086 CTTATATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.03, T:0.51
Consensus pattern (35 bp):
AACCTTAGATTCATCTTTTTCACCTATTTCATTTT
Found at i:67134769 original size:98 final size:99
Alignment explanation
Indices: 67134496--67134783 Score: 307
Period size: 98 Copynumber: 2.9 Consensus size: 99
67134486 CTTTTTGTGC
* * * * * * * **
67134496 CATAGTCCAACTATGGTCTTACACATACATTGTCATGGCCCTACCATGGTCTTACATTTGTAGTG
1 CATAGCCCAGCTATGGTCTTACATATACATTGCCATGGTCCAACCATGGTCTTACGTTCATAGTG
* *
67134561 CCATAACCCAGTTATGGTCTTATTATCAGAATGT
66 CCATAACCCAGTTATGGTCTCATTATCAGAAAGT
*
67134595 CATAGCCCAGCTATGGTCTTACACATGTATCTATATTGCCATGGTCCAACCATGGTCTTACGTTC
1 CATAGCCCAGCTATGGTCTT--ACA--TA--TACATTGCCATGGTCCAACCATGGTCTTACGTTC
67134660 A-AGGTGCCATAACCCAGTTATGGTCTCA-T-T-AGAAAG-
60 ATA-GTGCCATAACCCAGTTATGGTCTCATTATCAGAAAGT
*
67134696 CTATAGCCCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGTTCATA
1 C-ATAGCCCAGCTATGGTCTTACATAT--ACATTGCCATGGTCCAACCATGGTCTTACGTTCATA
* * *
67134761 GTGTCATAACCTAGTTACGGTCT
63 GTGCCATAACCCAGTTATGGTCT
67134784 TATCCCTCAA
Statistics
Matches: 161, Mismatches: 17, Indels: 23
0.80 0.08 0.11
Matches are distributed among these distances:
96 1 0.01
98 54 0.34
99 19 0.12
100 3 0.02
101 4 0.02
102 24 0.15
103 2 0.01
104 2 0.01
105 52 0.32
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (99 bp):
CATAGCCCAGCTATGGTCTTACATATACATTGCCATGGTCCAACCATGGTCTTACGTTCATAGTG
CCATAACCCAGTTATGGTCTCATTATCAGAAAGT
Found at i:67135311 original size:18 final size:18
Alignment explanation
Indices: 67135280--67135314 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
67135270 ATTCCACATC
67135280 CTTAATGTATATATTATG
1 CTTAATGTATATATTATG
67135298 CTTATATGTA-ATATTAT
1 CTTA-ATGTATATATTAT
67135315 CTATAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (18 bp):
CTTAATGTATATATTATG
Found at i:67137971 original size:21 final size:20
Alignment explanation
Indices: 67137945--67137989 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
67137935 CGCTTTTTAC
* *
67137945 ATTTGGGCTTGTAATATTTTT
1 ATTTGGACTTGTAAT-TTTGT
*
67137966 ATTTGGATTTGTAATTTTGT
1 ATTTGGACTTGTAATTTTGT
67137986 ATTT
1 ATTT
67137990 ATTTGTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.20, C:0.02, G:0.18, T:0.60
Consensus pattern (20 bp):
ATTTGGACTTGTAATTTTGT
Found at i:67137993 original size:18 final size:20
Alignment explanation
Indices: 67137953--67137997 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
67137943 ACATTTGGGC
*
67137953 TTGTAATATTTTTATTTGGAT
1 TTGTAATATTTGTATTT-GAT
67137974 TTGTAAT-TTTGTATTT-AT
1 TTGTAATATTTGTATTTGAT
67137992 TTGTAA
1 TTGTAA
67137998 ATTAGGCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (20 bp):
TTGTAATATTTGTATTTGAT
Found at i:67138000 original size:19 final size:19
Alignment explanation
Indices: 67137953--67138000 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
67137943 ACATTTGGGC
67137953 TTGTAATATTTTTATTTGGAT
1 TTGTAA-ATTTTTATTT-GAT
67137974 TTGT-AATTTTGTATTT-AT
1 TTGTAAATTTT-TATTTGAT
67137992 TTGTAAATT
1 TTGTAAATT
67138001 AGGCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 6 0.24
21 4 0.16
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (19 bp):
TTGTAAATTTTTATTTGAT
Found at i:67138292 original size:15 final size:16
Alignment explanation
Indices: 67138272--67138309 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
67138262 CAATGAATCA
67138272 ATTTTAGTTTTAAT-T
1 ATTTTAGTTTTAATGT
*
67138287 ATTTTAATTTTTAATGT
1 ATTTT-AGTTTTAATGT
67138304 ATTTTA
1 ATTTTA
67138310 TATTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
ATTTTAGTTTTAATGT
Found at i:67138599 original size:2 final size:2
Alignment explanation
Indices: 67138534--67138580 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
67138524 GGTTTAGAGA
67138534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67138576 AT AT A
1 AT AT A
67138581 GAATATTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67141688 original size:28 final size:31
Alignment explanation
Indices: 67141649--67141707 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
67141639 GTATTTTTTA
67141649 ATAATTTAATAAT-TTTT-AA-TTTTTAAAT
1 ATAATTTAATAATATTTTGAATTTTTTAAAT
*
67141677 ATAATTTTATAATATTTTGAATTTTTTAAAT
1 ATAATTTAATAATATTTTGAATTTTTTAAAT
67141708 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.44
29 4 0.15
30 2 0.07
31 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
ATAATTTAATAATATTTTGAATTTTTTAAAT
Found at i:67142477 original size:14 final size:14
Alignment explanation
Indices: 67142460--67142495 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
67142450 TTCTAACTCA
*
67142460 AAATTTGACTTGAT
1 AAATTTAACTTGAT
67142474 AAATTTAACTTGAT
1 AAATTTAACTTGAT
*
67142488 GAATTTAA
1 AAATTTAA
67142496 AATAAAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (14 bp):
AAATTTAACTTGAT
Found at i:67142916 original size:18 final size:18
Alignment explanation
Indices: 67142893--67142936 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
67142883 GCCTAGAACT
* *
67142893 ACCCATAGCCCCTCCTCA
1 ACCCATAACCCCTCCCCA
67142911 ACCCATAACCCCTCCCCA
1 ACCCATAACCCCTCCCCA
67142929 ACCCATAA
1 ACCCATAA
67142937 ATAGGAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.55, G:0.02, T:0.14
Consensus pattern (18 bp):
ACCCATAACCCCTCCCCA
Found at i:67152844 original size:34 final size:34
Alignment explanation
Indices: 67152801--67152868 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
67152791 GCATTTTTGA
* *
67152801 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
67152834 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
67152869 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:67156965 original size:2 final size:2
Alignment explanation
Indices: 67156960--67156994 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
67156950 TATAATTTGG
67156960 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
67156995 TACTTCTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:67160625 original size:18 final size:19
Alignment explanation
Indices: 67160584--67160644 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
67160574 AGAAACAAAA
*
67160584 AAAATTATAAAGAATAATT
1 AAAATTATAAAAAATAATT
67160603 AAAATTATAAAAAATAA-T
1 AAAATTATAAAAAATAATT
* *
67160621 AAAATTATTATAAATTAATT
1 AAAATTA-TAAAAAATAATT
67160641 AAAA
1 AAAA
67160645 ATCATAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.22
19 24 0.65
20 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAAATAATT
Found at i:67160634 original size:29 final size:29
Alignment explanation
Indices: 67160602--67160673 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
67160592 AAAGAATAAT
67160602 TAAAATT-ATAAAAAATAATAAAATTATTA
1 TAAAATTAATAAAAAATAATAAAATT-TTA
* *
67160631 T-AAATTAATTAAAAATCATAAAATTTTA
1 TAAAATTAATAAAAAATAATAAAATTTTA
* *
67160659 TAAAATAAATTAAAA
1 TAAAATTAATAAAAA
67160674 CAAAGCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 9 0.24
29 29 0.76
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
TAAAATTAATAAAAAATAATAAAATTTTA
Found at i:67160920 original size:10 final size:10
Alignment explanation
Indices: 67160905--67161002 Score: 58
Period size: 11 Copynumber: 9.4 Consensus size: 10
67160895 ATTTTATACG
67160905 TTTTAATAAT
1 TTTTAATAAT
67160915 TTTTAATAAT
1 TTTTAATAAT
** *
67160925 TTAAAAAAAACT
1 TT-TTAATAA-T
* *
67160937 TTTAAAAAAT
1 TTTTAATAAT
67160947 AATTTTAATAAT
1 --TTTTAATAAT
67160959 TTTATAATAAT
1 TTT-TAATAAT
67160970 TTTATAA-AA-
1 TTT-TAATAAT
67160979 -TTTAATAAT
1 TTTTAATAAT
*
67160988 TTTGTTATAAT
1 TTT-TAATAAT
67160999 TTTT
1 TTTT
67161003 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
10 21 0.29
11 33 0.46
12 11 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:67160968 original size:11 final size:11
Alignment explanation
Indices: 67160908--67160987 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
67160898 TTATACGTTT
67160908 TAATAATTTT-
1 TAATAATTTTA
*
67160918 TAATAATTTAA
1 TAATAATTTTA
* *
67160929 AAAAAACTTTTA
1 TAATAA-TTTTA
*
67160941 -AAAAATAATTT-
1 TAATAAT--TTTA
67160952 TAATAATTTTA
1 TAATAATTTTA
67160963 TAATAATTTTA
1 TAATAATTTTA
*
67160974 TAA-AATTTAA
1 TAATAATTTTA
67160984 TAAT
1 TAAT
67160988 TTTGTTATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
10 22 0.39
11 23 0.40
12 12 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATAATTTTA
Found at i:67160969 original size:20 final size:18
Alignment explanation
Indices: 67160944--67160990 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
67160934 ACTTTTAAAA
**
67160944 AATAATTTTAATAATTTTAT
1 AATAATTTT-ATAAAATT-T
67160964 AATAATTTTATAAAATTT
1 AATAATTTTATAAAATTT
67160982 AATAATTTT
1 AATAATTTT
67160991 GTTATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.40
19 6 0.24
20 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATAATTTTATAAAATTT
Found at i:67160976 original size:8 final size:9
Alignment explanation
Indices: 67160944--67160990 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
67160934 ACTTTTAAAA
67160944 AATAATTTT
1 AATAATTTT
67160953 AATAATTTTAT
1 AATAA-TTT-T
67160964 AATAATTTT
1 AATAATTTT
*
67160973 -ATAAAATTT
1 AAT-AATTTT
67160982 AATAATTTT
1 AATAATTTT
67160991 GTTATAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 2 0.06
9 16 0.50
10 8 0.25
11 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATAATTTT
Found at i:67160999 original size:11 final size:10
Alignment explanation
Indices: 67160958--67161019 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
67160948 ATTTTAATAA
*
67160958 TTTTATAATAA
1 TTTTATAAT-T
**
67160969 TTTTATAAAA
1 TTTTATAATT
*
67160979 TTTAATAATT
1 TTTTATAATT
67160989 TTGTTATAATT
1 TT-TTATAATT
*
67161000 TTTT-TATTT
1 TTTTATAATT
67161009 TTTTATAATT
1 TTTTATAATT
67161019 T
1 T
67161020 CGAAATGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
9 8 0.19
10 17 0.40
11 17 0.40
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:67163008 original size:124 final size:123
Alignment explanation
Indices: 67162880--67163143 Score: 370
Period size: 124 Copynumber: 2.1 Consensus size: 123
67162870 GTTTCTGGTT
** ** * * * *
67162880 AAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGT
1 AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
*
67162945 GGACGCGATTTCGCTACAG-TGGTCATGT-GAGAAATAATTTTTTTTGACGTTTTCTGAGG
66 GGACGCGATTTCGCTACAGTTGGTCATGTAG-GAAATAATTTTTTTTGACG-TTT-TGAGC
* * *
67163004 AAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGT
1 AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
67163069 GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTTGAGC
66 GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTTGAGC
*
67163127 AAATAGTGTCAAATCGC
1 AAATAGTGTAAAATCGC
67163144 ACCCTCGTGG
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
123 19 0.15
124 76 0.61
125 28 0.23
126 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (123 bp):
AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTTGAGC
Found at i:67164354 original size:23 final size:23
Alignment explanation
Indices: 67164322--67164573 Score: 141
Period size: 28 Copynumber: 9.9 Consensus size: 23
67164312 TACAATTTAA
67164322 TTAGGGTTTTTAATTAAATAGGG
1 TTAGGGTTTTTAATTAAATAGGG
*
67164345 TTAGGATTTTTAATTTAATTAAATTA-GG
1 TTAGG---GTT--TTTAATTAAA-TAGGG
*
67164373 TTAGGGTTTTTAATTAAGTAGGG
1 TTAGGGTTTTTAATTAAATAGGG
*
67164396 TTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGG---TT--TTTAATTAAATAGGG
*
67164424 TTAGGGTTTTTAATTTAAGTAGGTTAGG
1 TTAGGGTTTTTAA-TTAAATA-G---GG
67164452 TTAGGGTTTTTAATTTAATAAAATTA-GG
1 TTAGGGTTTTTAA--T--T-AAA-TAGGG
67164480 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAA-TA-G---GG
* **
67164508 TTAGGGTTTTTAATTTAATTA-AA
1 TTAGGGTTTTTAA-TTAAATAGGG
*
67164531 TTAGGGTTTTTAATTAAGTAGGG
1 TTAGGGTTTTTAATTAAATAGGG
* *
67164554 TTAGGGATTTTAATCAAATA
1 TTAGGGTTTTTAATTAAATA
67164574 ATGTCAAAAT
Statistics
Matches: 183, Mismatches: 17, Indels: 58
0.71 0.07 0.22
Matches are distributed among these distances:
22 8 0.04
23 63 0.34
24 7 0.04
25 4 0.02
26 5 0.03
28 83 0.45
29 8 0.04
31 1 0.01
32 2 0.01
33 2 0.01
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATAGGG
Found at i:67164374 original size:28 final size:28
Alignment explanation
Indices: 67164330--67164535 Score: 262
Period size: 28 Copynumber: 7.5 Consensus size: 28
67164320 AATTAGGGTT
*
67164330 TTTAATTAAA-TAGGGTTAGGATTTTTAA
1 TTTAATTAAATTA-GGTTAGGGTTTTTAA
67164358 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
67164386 -TTAAGT--A--GGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
67164409 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
67164437 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
67164465 TTTAATAAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
67164493 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
67164521 TTTAATTAAATTAGG
1 TTTAATTAAATTAGG
67164536 GTTTTTAATT
Statistics
Matches: 152, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
23 15 0.10
24 5 0.03
25 1 0.01
26 1 0.01
27 5 0.03
28 123 0.81
29 2 0.01
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (28 bp):
TTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:67164395 original size:51 final size:51
Alignment explanation
Indices: 67164322--67164567 Score: 313
Period size: 51 Copynumber: 4.7 Consensus size: 51
67164312 TACAATTTAA
* *
67164322 TTAGGGTTTTTAATTAAATAGGGTTAGGATTTTTAATTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAATTAGG
*
67164373 TTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAATTAGG
*
67164424 TTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTTTTTAATTTAATAAAATTAGG
1 TTAGGGTTTTTAA-TTAAGTA-G---GGTTAGGGTTTTTAATTTAATTAAATTAGG
*
67164480 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATT-AA--A--
1 TTAGGGTTTTTAATT-AAGTA-G---GGTTAGGGTTTTTAATTTAATTAAATTAGG
*
67164531 TTAGGGTTTTTAATTAAGTAGGGTTAGGGATTTTAAT
1 TTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAAT
67164568 CAAATAATGT
Statistics
Matches: 180, Mismatches: 9, Indels: 17
0.87 0.04 0.08
Matches are distributed among these distances:
46 15 0.08
49 1 0.01
50 4 0.02
51 76 0.42
52 7 0.04
53 2 0.01
55 4 0.02
56 71 0.39
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (51 bp):
TTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAATTAGG
Found at i:67164554 original size:17 final size:18
Alignment explanation
Indices: 67164521--67164555 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
67164511 GGGTTTTTAA
*
67164521 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
67164539 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
67164556 AGGGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:67168436 original size:15 final size:15
Alignment explanation
Indices: 67168418--67168452 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67168408 AACCCAATTA
*
67168418 AACTACACCTAGCCC
1 AACTACACCAAGCCC
67168433 AACTACACCAAGCCC
1 AACTACACCAAGCCC
*
67168448 GACTA
1 AACTA
67168453 GCCTAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.43, G:0.09, T:0.11
Consensus pattern (15 bp):
AACTACACCAAGCCC
Found at i:67171275 original size:9 final size:9
Alignment explanation
Indices: 67171261--67171293 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
67171251 TTTCACCCAT
67171261 TTTTTTTTC
1 TTTTTTTTC
*
67171270 TTTTTTGTC
1 TTTTTTTTC
67171279 TTTTTTTT-
1 TTTTTTTTC
67171287 TTTTTTT
1 TTTTTTT
67171294 GGTGGAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:67175802 original size:21 final size:21
Alignment explanation
Indices: 67175765--67175804 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67175755 ACATGTTCCA
67175765 AATGTAAAGAGAAAGAAGCTT
1 AATGTAAAGAGAAAGAAGCTT
*
67175786 AATGTCAAAG-GAGAGAAGC
1 AATGT-AAAGAGAAAGAAGC
67175805 GTGTCTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.50, C:0.07, G:0.28, T:0.15
Consensus pattern (21 bp):
AATGTAAAGAGAAAGAAGCTT
Found at i:67179596 original size:18 final size:17
Alignment explanation
Indices: 67179570--67179608 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
67179560 GAGTTTTAGT
*
67179570 AATTCAGTATTTTTACGA
1 AATTCAGTA-ATTTACGA
*
67179588 AATTTAGTAATTTACGA
1 AATTCAGTAATTTACGA
67179605 AATT
1 AATT
67179609 ATGAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (17 bp):
AATTCAGTAATTTACGA
Found at i:67181001 original size:9 final size:9
Alignment explanation
Indices: 67180963--67181029 Score: 55
Period size: 9 Copynumber: 6.8 Consensus size: 9
67180953 AAATATATAA
67180963 AAAAATATTT
1 AAAAAT-TTT
*
67180973 TAAAA-TTT
1 AAAAATTTT
67180981 AAAATCATTTT
1 AAAA--ATTTT
67180992 AAAAATTTT
1 AAAAATTTT
67181001 AAAAATATATTTT
1 --AAA-A-ATTTT
67181014 AAAAATTTT
1 AAAAATTTT
67181023 AAAAATT
1 AAAAATT
67181030 AATTAATTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
8 6 0.12
9 17 0.35
10 6 0.12
11 13 0.27
12 1 0.02
13 5 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (9 bp):
AAAAATTTT
Found at i:67190367 original size:18 final size:21
Alignment explanation
Indices: 67190344--67190389 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
67190334 GAATTTAGGG
67190344 TTTTAT-AAAAA-TAT-AGAA
1 TTTTATGAAAAATTATAAGAA
*
67190362 TTTTATGAAAAATTTTAAGAA
1 TTTTATGAAAAATTATAAGAA
67190383 TTTTATG
1 TTTTATG
67190390 GTAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 5 0.21
20 2 0.08
21 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (21 bp):
TTTTATGAAAAATTATAAGAA
Found at i:67190482 original size:18 final size:18
Alignment explanation
Indices: 67190443--67190502 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
67190433 AATTTCTTCT
*
67190443 AAATTTTAATAAAATTCC-A
1 AAATTTT-ATAAAA-ACCTA
67190462 AAATTTTATAAAAACCTA
1 AAATTTTATAAAAACCTA
* *
67190480 AAATTTTCTACAAACCTA
1 AAATTTTATAAAAACCTA
67190498 AAATT
1 AAATT
67190503 CCAAAAAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 2 0.05
18 28 0.76
19 7 0.19
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTTTATAAAAACCTA
Found at i:67190795 original size:3 final size:3
Alignment explanation
Indices: 67190787--67190816 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
67190777 TTCCGTAGTT
67190787 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
67190817 CTCTCTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:67193216 original size:2 final size:2
Alignment explanation
Indices: 67193209--67193245 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
67193199 CTTCAAAACC
*
67193209 TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67193246 TATTTAAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:67194944 original size:50 final size:50
Alignment explanation
Indices: 67194890--67195058 Score: 162
Period size: 50 Copynumber: 3.4 Consensus size: 50
67194880 AGTAAGATTT
* * * *
67194890 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAAATCC
1 GCCGTCGTAGCTTCAATCTTTTAAATTGCAATATCAGGGAAACTAAATCC
* ** * * * * *
67194940 GCCGTCGTAGCTTCAATCTGTTCCACTGCACT-GCTAAGG-AAGTAAGATCC
1 GCCGTCGTAGCTTCAATCTTTTAAATTGCAATATC-AGGGAAACTAA-ATCC
* * * *
67194990 GCCGTTGTGGCTTCAATCTTTTAAATTGTAATATCAGGGAAACTAGATCC
1 GCCGTCGTAGCTTCAATCTTTTAAATTGCAATATCAGGGAAACTAAATCC
67195040 GCCGTCGTAGCTTCAATCT
1 GCCGTCGTAGCTTCAATCT
67195059 GTTCCGCTGC
Statistics
Matches: 90, Mismatches: 25, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
49 5 0.06
50 80 0.89
51 5 0.06
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (50 bp):
GCCGTCGTAGCTTCAATCTTTTAAATTGCAATATCAGGGAAACTAAATCC
Found at i:67194982 original size:100 final size:100
Alignment explanation
Indices: 67194816--67195113 Score: 445
Period size: 100 Copynumber: 3.0 Consensus size: 100
67194806 TTTGCTCAAC
* * * * * * *
67194816 TGCAATGTCGGGGAAACCAGATCCGCCGTCGTGGCTTCAATCTATTCCACCGCACCG-TTAGAGA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAG-GA
**
67194880 AGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
*
67194916 TGCAATATCAGGGAAACCAAATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
67194981 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
67195016 TGTAATATCAGGGAAACTAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
67195081 GTAAAATCCGCCGTTGTGGCTTCAATCTTTTTA
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
67195114 CTTTTCAACC
Statistics
Matches: 180, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
100 177 0.98
101 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:67195090 original size:50 final size:50
Alignment explanation
Indices: 67194934--67195108 Score: 174
Period size: 50 Copynumber: 3.5 Consensus size: 50
67194924 CAGGGAAACC
67194934 AAATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AAATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * * ** * * * * * *
67194984 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGTAAT-ATCAGGGAAACT-
1 AAATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGG-AAGTA
* *
67195034 AGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTA
1 AAATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* *
67195084 AAATCCGCCGTTGTGGCTTCAATCT
1 AAATCCGCCGTCGTAGCTTCAATCT
67195109 TTTTACTTTT
Statistics
Matches: 94, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
49 4 0.04
50 86 0.91
51 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
AAATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
Found at i:67207177 original size:15 final size:16
Alignment explanation
Indices: 67207152--67207189 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
67207142 TAAACACATA
67207152 TATATAAAATAT-AAGG
1 TATA-AAAATATAAAGG
67207168 TATAAAAATATAAAGG
1 TATAAAAATATAAAGG
67207184 -ATAAAA
1 TATAAAA
67207190 GATAGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (16 bp):
TATAAAAATATAAAGG
Found at i:67208414 original size:2 final size:2
Alignment explanation
Indices: 67208407--67208437 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
67208397 TTACACGTAT
67208407 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67208438 AACCAATGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67210186 original size:31 final size:30
Alignment explanation
Indices: 67210128--67210190 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
67210118 TAACAATTTA
* *
67210128 ATTTTTTTTGAAAGGTTGATGGTCAAATATG
1 ATTTTTTTTGAAAGGTCGATGGCCAAAT-TG
*
67210159 ATTTTTTTTTAAAGGTCG-TGAGCCAAATTG
1 ATTTTTTTTGAAAGGTCGATG-GCCAAATTG
67210189 AT
1 AT
67210191 AAAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (30 bp):
ATTTTTTTTGAAAGGTCGATGGCCAAATTG
Found at i:67211483 original size:29 final size:29
Alignment explanation
Indices: 67211441--67211543 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
67211431 CGAACTGAAG
* *
67211441 CATATGTGCGAACCCTACATGTACGAACC
1 CATATGTGCAAACCCTACATGTGCGAACC
* * * *
67211470 CCTAGGTGCAAACCCTACATGCGCTAACC
1 CATATGTGCAAACCCTACATGTGCGAACC
* *
67211499 CATATGTGC-AATCCTATATGTGCGAACC
1 CATATGTGCAAACCCTACATGTGCGAACC
*
67211527 CTGTATGTGCAAACCCT
1 C-ATATGTGCAAACCCT
67211544 GCTTATGTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
28 16 0.28
29 37 0.64
30 5 0.09
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CATATGTGCAAACCCTACATGTGCGAACC
Found at i:67211535 original size:15 final size:15
Alignment explanation
Indices: 67211442--67211543 Score: 84
Period size: 15 Copynumber: 7.0 Consensus size: 15
67211432 GAACTGAAGC
67211442 ATATGTGCGAACCCT
1 ATATGTGCGAACCCT
* *
67211457 ACATGTACGAACCC-
1 ATATGTGCGAACCCT
* * *
67211471 CTAGGTGCAAACCCT
1 ATATGTGCGAACCCT
* * *
67211486 ACATGCGCTAACCC-
1 ATATGTGCGAACCCT
*
67211500 ATATGTGC-AATCCT
1 ATATGTGCGAACCCT
67211514 ATATGTGCGAACCCT
1 ATATGTGCGAACCCT
* *
67211529 GTATGTGCAAACCCT
1 ATATGTGCGAACCCT
67211544 GCTTATGTAT
Statistics
Matches: 66, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
13 4 0.06
14 23 0.35
15 39 0.59
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (15 bp):
ATATGTGCGAACCCT
Found at i:67217174 original size:14 final size:15
Alignment explanation
Indices: 67217136--67217174 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
67217126 TTCTTTTTTA
*
67217136 TATTTTATATTTACT
1 TATTTTATATATACT
67217151 TATTTT-TATATACT
1 TATTTTATATATACT
67217165 T-TTTTATATA
1 TATTTTATATA
67217175 AAAGAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 12 0.55
15 6 0.27
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTATATATACT
Found at i:67217331 original size:27 final size:27
Alignment explanation
Indices: 67217301--67217353 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
67217291 TTATTTAATT
67217301 TTGATGAAGTTTGACATATAAAATACA
1 TTGATGAAGTTTGACATATAAAATACA
*
67217328 TTGATTAAGTTTGACATATAAAATAC
1 TTGATGAAGTTTGACATATAAAATAC
67217354 TCACTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (27 bp):
TTGATGAAGTTTGACATATAAAATACA
Found at i:67217685 original size:12 final size:12
Alignment explanation
Indices: 67217668--67217692 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67217658 ATACTTTAAT
67217668 ATTGAATGGATA
1 ATTGAATGGATA
67217680 ATTGAATGGATA
1 ATTGAATGGATA
67217692 A
1 A
67217693 GGGAGTATGT
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:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATTGAATGGATA
Found at i:67218578 original size:21 final size:21
Alignment explanation
Indices: 67218540--67218584 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
67218530 TTAATTGTGA
* *
67218540 AATTAATTTAACTAATTAGTT
1 AATTAAATTAACTAATTAATT
* *
67218561 AATTAAATTAAGTTATTAATT
1 AATTAAATTAACTAATTAATT
67218582 AAT
1 AAT
67218585 ATTTTAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTAAATTAACTAATTAATT
Found at i:67218579 original size:17 final size:16
Alignment explanation
Indices: 67218541--67218583 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
67218531 TAATTGTGAA
*
67218541 ATTAATTTAACTAATT
1 ATTAATTAAACTAATT
*
67218557 AGTTAATTAAATTAAGTT
1 A-TTAATTAAACTAA-TT
67218575 ATTAATTAA
1 ATTAATTAA
67218584 TATTTTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 3 0.13
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTAATTAAACTAATT
Found at i:67222774 original size:2 final size:2
Alignment explanation
Indices: 67222767--67222805 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
67222757 CCAAATTTCC
67222767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67222806 CACGATAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67228397 original size:22 final size:21
Alignment explanation
Indices: 67228368--67228416 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
67228358 TCTGAAAATA
*
67228368 GTTTAGGTTA-TGGGCTATTTG
1 GTTTAGGTTATTGGG-TATTAG
67228389 GCTTTAGGTTATTGGGTATTAG
1 G-TTTAGGTTATTGGGTATTAG
67228411 GTTTAG
1 GTTTAG
67228417 CATATGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 15 0.60
23 4 0.16
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTAGGTTATTGGGTATTAG
Done.