Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold133
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: 2564099
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17052 characters in sequence are not A, C, G, or T
File 7 of 17
Found at i:731100 original size:18 final size:17
Alignment explanation
Indices: 731074--731121 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
731064 AAAATGAGAG
*
731074 AAAAAAGAAAGAGAAAA
1 AAAAAAGAAAAAGAAAA
731091 AAAAAGAGAAAAAGAGAAA
1 AAAAA-AGAAAAAGA-AAA
*
731110 AAAATAGAAAAA
1 AAAAAAGAAAAA
731122 TTAGTTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 15 0.56
19 7 0.26
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAGAAAA
Found at i:731112 original size:10 final size:10
Alignment explanation
Indices: 731076--731121 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
731066 AATGAGAGAA
731076 AAAAGAAAGAG
1 AAAA-AAAGAG
*
731087 AAAAAAAAAG
1 AAAAAAAGAG
*
731097 AGAAAAAGAG
1 AAAAAAAGAG
*
731107 AAAAAAATAG
1 AAAAAAAGAG
731117 AAAAA
1 AAAAA
731122 TTAGTTATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 26 0.87
11 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:731461 original size:20 final size:20
Alignment explanation
Indices: 731433--731507 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
731423 TTTTACCTAG
731433 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
731453 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
731473 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
731493 ATGTATCGATACATT
1 ATGTATCGATACATT
731508 ATGTCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:731488 original size:40 final size:39
Alignment explanation
Indices: 731433--731510 Score: 138
Period size: 40 Copynumber: 2.0 Consensus size: 39
731423 TTTTACCTAG
731433 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATATATCGATACAT-TATGA
*
731473 ATGTATCGATACATTTTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTTTTCAATATATCGATACATTATG
731511 TCTTTTTACC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTTTTCAATATATCGATACATTATGA
Found at i:741800 original size:2 final size:2
Alignment explanation
Indices: 741793--741817 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
741783 GATCCACACT
741793 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 T
741818 TCTTATTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:742977 original size:13 final size:13
Alignment explanation
Indices: 742959--742983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
742949 CAATTCGTTA
742959 TGTATCGATACAT
1 TGTATCGATACAT
742972 TGTATCGATACA
1 TGTATCGATACA
742984 ATGTGCTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:742997 original size:20 final size:20
Alignment explanation
Indices: 742972--743089 Score: 80
Period size: 20 Copynumber: 5.8 Consensus size: 20
742962 ATCGATACAT
742972 TGTATCGATACAATGTGCTA
1 TGTATCGATACAATGTGCTA
*
742992 TGTATCGATACAAATAGTGATA
1 TGTATCGATAC-AAT-GTGCTA
* * * * * **
743014 CGGTAGCTACTGCCA-GTTTTA
1 -TGTATCGA-TACAATGTGCTA
743035 TGTATCGATACAATTGTGC-A
1 TGTATCGATACAA-TGTGCTA
**
743055 TGTATCGATACAATGAAC-A
1 TGTATCGATACAATGTGCTA
743074 TGTATCGATACAATGT
1 TGTATCGATACAATGT
743090 ATCGATACAG
Statistics
Matches: 74, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
19 22 0.30
20 30 0.41
21 9 0.12
22 5 0.07
23 6 0.08
24 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAATGTGCTA
Found at i:743077 original size:19 final size:19
Alignment explanation
Indices: 743034--743088 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
743024 TGCCAGTTTT
**
743034 ATGTATCGATACAATTGTGC
1 ATGTATCGATACAA-TGAAC
743054 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
743073 ATGTATCGATACAATG
1 ATGTATCGATACAATG
743089 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:743091 original size:13 final size:13
Alignment explanation
Indices: 743073--743098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
743063 TACAATGAAC
743073 ATGTATCGATACA
1 ATGTATCGATACA
743086 ATGTATCGATACA
1 ATGTATCGATACA
743099 GCTGGATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:743182 original size:20 final size:20
Alignment explanation
Indices: 743157--743208 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
743147 GTCAACCTTA
743157 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
743177 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
*
743197 ATATATCGATAC
1 ATGTATCGATAC
743209 TTTGGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAAATACCT
Found at i:743691 original size:19 final size:19
Alignment explanation
Indices: 743664--743705 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
743654 TTAAAACTCT
743664 CCCTAAAAAAAAAATTCTTC
1 CCCTAAAAAAAAAATTC-TC
*
743684 CCCT-AAAAAAAATTTCTC
1 CCCTAAAAAAAAAATTCTC
743702 CCCT
1 CCCT
743706 TTTTGTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (19 bp):
CCCTAAAAAAAAAATTCTC
Found at i:745647 original size:20 final size:21
Alignment explanation
Indices: 745616--745655 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
745606 ATTTGAGTTT
745616 TTTCAGATGTATCGATACATC
1 TTTCAGATGTATCGATACATC
745637 TTTCA-ATGTATCGATACAT
1 TTTCAGATGTATCGATACAT
745656 TCTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTCAGATGTATCGATACATC
Found at i:756114 original size:27 final size:28
Alignment explanation
Indices: 755994--756491 Score: 568
Period size: 28 Copynumber: 18.1 Consensus size: 28
755984 TGGTGTTTCT
755994 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
756022 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
756050 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
756078 TTTTAAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
756105 TTTTAAAGTCCACAACTCCCTGGGA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
756132 CTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * *
756160 TTTTAAAATCTACCACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
756187 CTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * *
756215 TTTT-AAGTCAACAACTCTGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * ** *
756242 TTTT-ACGTCCATAACTCTATGGCATTC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * *
756269 GTTTCAAGTCCACAACTCCGTGGCATTC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
756297 TTTTAAAGTCCACAACTTCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
**
756325 TTTT-AAGTCCACAACTTTGTGGCA-CTC
1 TTTTAAAGTCCACAACTCCGTGGCATC-C
*
756352 TTTT-AAGTCCACAACTTCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
756379 TTTT-AAGTCCACAACTTCGTTGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * * *
756406 TTTTTAAGCCCACAAGTCAGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
756433 TTTCCAAAGTCCACAACTTCGTGGCATCC
1 TTT-TAAAGTCCACAACTCCGTGGCATCC
* * * *
756462 TTTTTAAGCCCACAAGTCAGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
756489 TTT
1 TTT
756492 CCAAAGCCCA
Statistics
Matches: 409, Mismatches: 53, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.00
27 200 0.49
28 203 0.50
29 5 0.01
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.30
Consensus pattern (28 bp):
TTTTAAAGTCCACAACTCCGTGGCATCC
Found at i:756162 original size:82 final size:82
Alignment explanation
Indices: 755994--756488 Score: 564
Period size: 82 Copynumber: 6.0 Consensus size: 82
755984 TGGTGTTTCT
755994 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGT
1 TTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCATCC-TTTAAAGT
*
756059 CCACAACTCCGTGGCATCC
64 CCACAACTCCGTGGCACCC
* * *
756078 TTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCCTGGGACCCTTTAAAGTCC
1 TTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGTCC
756143 ACAACTCCGTGGCACCC
66 ACAACTCCGTGGCACCC
* * * * * * *
756160 TTTTAAAATCTACCACTCCGTGGCACCCTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCA
1 TTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGTCC
*
756225 ACAACTCTGTGGCACCC
66 ACAACTCCGTGGCACCC
* * ** * * * *
756242 TTTT-ACGTCCATAACTCTATGGCATTCGTTTCAAGTCCACAACTCCGTGGCATTCTTTTAAAGT
1 TTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCA-TCCTTTAAAGT
*
756306 CCACAACTTCGTGGCACCC
64 CCACAACTCCGTGGCACCC
** * *
756325 TTTT-AAGTCCACAACTTTGTGGCACTCTTTT-AAGTCCACAACTTCGTGGCATCCTTTTAAGTC
1 TTTTAAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGTC
* * *
756388 CACAACTTCGTTGCATCC
65 CACAACTCCGTGGCACCC
* * * * * * * *
756406 TTTTTAAGCCCACAAGTCAGTGGCACCTTTCCAAAGTCCACAACTTCGTGGCATCCTTTTTAAGC
1 TTTTAAAGTCCACAACTCCGTGGCACCTTT-TAAAGTCCACAACTCCGTGGCATCC-TTTAAAGT
* *
756471 CCACAAGTCAGTGGCACC
64 CCACAACTCCGTGGCACC
756489 TTTCCAAAGC
Statistics
Matches: 351, Mismatches: 53, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
81 47 0.13
82 160 0.46
83 99 0.28
84 45 0.13
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (82 bp):
TTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGTCC
ACAACTCCGTGGCACCC
Found at i:756419 original size:137 final size:135
Alignment explanation
Indices: 755992--756491 Score: 553
Period size: 137 Copynumber: 3.6 Consensus size: 135
755982 AGTGGTGTTT
*
755992 CTTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAA
1 CTTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AA
* *
756057 GTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACT
64 GTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTTCGTGGCACCTTTT-AAGTCCACAACT
* * *
756122 CCCTGGGA-C
127 -TCTTGCATC
* * * * * * *
756131 CCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAATCTACCACTCCGTGGCACCCTTTAAAGT
1 CTTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * *
756196 CCACAACTCTGTGGCATCCTTTTAAGTCAACAAC-TCTGTGGCACCCTTTTACGTCCATAAC-TC
66 CCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTC-GTGGCA-CCTTTTAAGTCCACAACTTC
*
756259 TATGGCATT
129 T-T-GCATC
* * * *
756268 CGTTTCAAGTCCACAACTCCGTGGCATTCTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAGT
1 CTTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
*
756333 CCACAACTTTGTGGCA-CTCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTTC
66 CCACAACTCTGTGGCATC-CTTTTAAGTCCACAACTTCGTGGCA-CCTTTTAAGTCCACAACTTC
756397 GTTGCATC
129 -TTGCATC
* * * * * *
756405 CTTTTTAAGCCCACAAGTCAGTGGCA-CCTTTCCAAAGTCCACAACTTCGTGGCATCCTTTTTAA
1 CTTTTTAAGTCCACAACTCCGTGGCATCCTTT-TAAAGTCCACAACTCCGTGGCA-CCCTTTTAA
* * *
756469 GCCCACAAGTCAGTGGCA-CCTTT
64 GTCCACAACTCTGTGGCATCCTTT
756492 CCAAAGCCCA
Statistics
Matches: 306, Mismatches: 44, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
134 2 0.01
135 1 0.00
136 32 0.10
137 189 0.62
138 77 0.25
139 5 0.02
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.30
Consensus pattern (135 bp):
CTTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
CCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCACCTTTTAAGTCCACAACTTCTT
GCATC
Found at i:756498 original size:28 final size:27
Alignment explanation
Indices: 756411--756871 Score: 290
Period size: 32 Copynumber: 15.9 Consensus size: 27
756401 CATCCTTTTT
756411 AAGCCCACAAGTCAGTGGCACCTTTCCA
1 AAGCCCACAAGTCAGTGGCACCTTT-CA
* * **
756439 AAGTCCACAACTTC-GTGGCATCCTTTTT
1 AAGCCCACAA-GTCAGTGGCA-CCTTTCA
756467 AAGCCCACAAGTCAGTGGCACCTTTCCA
1 AAGCCCACAAGTCAGTGGCACCTTT-CA
* **
756495 AAGCCCACAAGTTAGTGGCACCCATTTTT
1 AAGCCCACAAGTCAGTGGCA-CC-TTTCA
**
756524 AAGCCCACAAGTCAGTGGCATTATTTCA
1 AAGCCCACAAGTCAGTGGCA-CCTTTCA
* * *
756552 AAGCCCACACAAGTCGGTGGCAACTTATTTGA
1 AAG-CC-CACAAGTCAGTGGC-AC--CTTTCA
*
756584 AAGCCCACACAAGTCAGTGGCAACTCATTTGA
1 AAG-CC-CACAAGTCAGTGGC-AC-C-TTTCA
756616 AAGCCCACACAAGTCAGTGGCAACCCATTTCA
1 AAG-CC-CACAAGTCAGTGGC-A-CC-TTTCA
* *
756648 AAGCCCACACAAGTTAGTGGCATCATTCTCA
1 AAG-CC-CACAAGTCAGTGGCA-CCTT-TCA
* *
756679 AAGCCCACAAGTTAGTGGCATCCTTCTTA
1 AAGCCCACAAGTCAGTGGCA-CCTT-TCA
*
756708 AAGCCCACAAGTCAGTGGCGTCCTTCTCA
1 AAGCCCACAAGTCAGTGGC-ACCTT-TCA
* *
756737 AAGCCCCACACAAATCAGTGGCATCTTTTCA
1 AAG--CC-CACAAGTCAGTGGCA-CCTTTCA
756768 AAGCCCACAAGTCAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCA-CCTTTCA
*
756796 AA----ACAAGTTAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCA-CCTTTCA
* * *
756820 AAGCCCAC-A-TAAGTCGGTAGCTTT-A
1 AAGCCCACAAGTCAGT-GGCACCTTTCA
*
756845 AAGCCCACATAAGTTAGTGGCACCTTT
1 AAGCCCAC--AAGTCAGTGGCACCTTT
756872 TTTTAAAAGC
Statistics
Matches: 362, Mismatches: 43, Indels: 56
0.79 0.09 0.12
Matches are distributed among these distances:
24 23 0.06
25 9 0.02
26 8 0.02
27 11 0.03
28 88 0.24
29 86 0.24
30 20 0.06
31 18 0.05
32 98 0.27
33 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (27 bp):
AAGCCCACAAGTCAGTGGCACCTTTCA
Found at i:756731 original size:29 final size:28
Alignment explanation
Indices: 755998--756828 Score: 381
Period size: 28 Copynumber: 29.4 Consensus size: 28
755988 GTTTCTTTTT
* * * *
755998 AAAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
756026 AAAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
756054 AAAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
756082 AAAGTCCACAACTCCGTGGCA-CCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * ** * *
756109 AAAGTCCACAACTCCCTGGGACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
756136 AAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
** * * * * *
756164 AAAATCTACCACTCCGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
756191 AAAGTCCACAACTCTGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * * *
756218 TAAGTCAACAACTCTGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * * *
756245 TACGTCCATAACTCTA-TGGCATTCGTTTC
1 AAAGCCCACAAGTC-AGTGGCA-TCCTTTC
* * * * *
756274 -AAGTCCACAACTCCGTGGCATTCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
756301 AAAGTCCACAACTTC-GTGGCACCCTTT-
1 AAAGCCCACAA-GTCAGTGGCATCCTTTC
* * * **
756328 TAAGTCCACAACTTTGTGGCA-CTCTTT-
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
* * *
756355 TAAGTCCACAACTTC-GTGGCATCCTTT-
1 AAAGCCCACAA-GTCAGTGGCATCCTTTC
* * * * *
756382 TAAGTCCACAACTTC-GTTGCATCCTTTT
1 AAAGCCCACAA-GTCAGTGGCATCCTTTC
*
756410 TAAGCCCACAAGTCAGTGGCA-CCTTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTT-C
* * *
756438 AAAGTCCACAACTTC-GTGGCATCCTTTT
1 AAAGCCCACAA-GTCAGTGGCATCCTTTC
*
756466 TAAGCCCACAAGTCAGTGGCA-CCTTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTT-C
* * *
756494 AAAGCCCACAAGTTAGTGGCACCCATTTT
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* **
756523 TAAGCCCACAAGTCAGTGGCATTATTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* ** *
756551 AAAGCCCACACAAGTCGGTGGCAACTTATTTG
1 AAAG-CC-CACAAGTCAGTGGC-A-TCCTTTC
* *
756583 AAAGCCCACACAAGTCAGTGGCAACTCATTTG
1 AAAG-CC-CACAAGTCAGTGGC-A-TCCTTTC
*
756615 AAAGCCCACACAAGTCAGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
* *
756647 AAAGCCCACACAAGTTAGTGGCATCATTCTC
1 AAAG-CC-CACAAGTCAGTGGCATCCTT-TC
* *
756678 AAAGCCCACAAGTTAGTGGCATCCTTCTT
1 AAAGCCCACAAGTCAGTGGCATCCTT-TC
*
756707 AAAGCCCACAAGTCAGTGGCGTCCTTCTC
1 AAAGCCCACAAGTCAGTGGCATCCTT-TC
* *
756736 AAAGCCCCACACAAATCAGTGGCATCTTTTC
1 AAAG--CC-CACAAGTCAGTGGCATCCTTTC
756767 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
756795 AAA----ACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
756819 AAAGCCCACA
1 AAAGCCCACA
756829 TAAGTCGGTA
Statistics
Matches: 690, Mismatches: 79, Indels: 68
0.82 0.09 0.08
Matches are distributed among these distances:
24 23 0.03
26 2 0.00
27 197 0.29
28 244 0.35
29 85 0.12
30 20 0.03
31 18 0.03
32 101 0.15
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:756808 original size:24 final size:24
Alignment explanation
Indices: 756746--756821 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 24
756736 AAAGCCCCAC
* *
756746 ACAAATCAGTGGCATCTTTTCAAA
1 ACAAGTCAGTGGCATCCTTTCAAA
756770 GCCCACAAGTCAGTGGCATCCTTTCAAA
1 ----ACAAGTCAGTGGCATCCTTTCAAA
*
756798 ACAAGTTAGTGGCATCCTTTCAAA
1 ACAAGTCAGTGGCATCCTTTCAAA
756822 GCCCACATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
24 23 0.51
28 22 0.49
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (24 bp):
ACAAGTCAGTGGCATCCTTTCAAA
Found at i:757152 original size:48 final size:48
Alignment explanation
Indices: 756976--757145 Score: 259
Period size: 48 Copynumber: 3.5 Consensus size: 48
756966 GGCACCTTTA
* * * *
756976 TTAGCTCAATGCCGCTAGCCTTAAATCAGCACATTGTCCATTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
757024 TTAGCTCAATATCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
757072 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
757120 TTAGCTCGATGTTGTTGGCCTTGAAT
1 TTAGCTCAATGTCGCTGGCCTTGAAT
757146 TGGCACAATG
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:758260 original size:13 final size:14
Alignment explanation
Indices: 758221--758260 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
758211 ATTATAAGTG
758221 AGAAAAAAAGAAGA
1 AGAAAAAAAGAAGA
758235 AGAAAAAGGAAGAA-A
1 AGAAAAA--AAGAAGA
758250 AGAAAAAAAGA
1 AGAAAAAAAGA
758261 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 8 0.33
16 5 0.21
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAGAAGA
Found at i:763764 original size:15 final size:15
Alignment explanation
Indices: 763746--763776 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
763736 CGAGTCAACT
763746 TCATCATTATCATCA
1 TCATCATTATCATCA
*
763761 TCATCATTATCTTCA
1 TCATCATTATCATCA
763776 T
1 T
763777 TATCTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:765517 original size:19 final size:19
Alignment explanation
Indices: 765469--765524 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
765459 CTGCCAGTTT
**
765469 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
765489 CATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
765508 CATGTATCGATATAATG
1 CATGTATCGATACAATG
765525 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:765677 original size:21 final size:21
Alignment explanation
Indices: 765649--765689 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
765639 CGATACTTTG
*
765649 GTTTATTT-ATGCTTGAAAAC
1 GTTTATTTAAGGCTTGAAAAC
765669 GTTTGATTTAAGGCTTGAAAA
1 GTTT-ATTTAAGGCTTGAAAA
765690 TATTTATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (21 bp):
GTTTATTTAAGGCTTGAAAAC
Found at i:766352 original size:16 final size:16
Alignment explanation
Indices: 766331--766363 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
766321 CATGTACACC
766331 TGGGTGAAAAAAATAA
1 TGGGTGAAAAAAATAA
766347 TGGGTGAAAAAAATAA
1 TGGGTGAAAAAAATAA
766363 T
1 T
766364 ATGAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (16 bp):
TGGGTGAAAAAAATAA
Found at i:767091 original size:16 final size:16
Alignment explanation
Indices: 767058--767095 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
767048 TTTTAAAAAA
*
767058 ATATATGATTTATTTT
1 ATATTTGATTTATTTT
767074 ATGATTTGATTT-TTTT
1 AT-ATTTGATTTATTTT
767090 ATATTT
1 ATATTT
767096 TTAAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (16 bp):
ATATTTGATTTATTTT
Found at i:767189 original size:20 final size:19
Alignment explanation
Indices: 767135--767211 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 19
767125 ATTAACGACG
*
767135 TAATA-AAAATTTAT-TAA
1 TAATATAAATTTTATATAA
* **
767152 TATTATAAATATAAATATAA
1 TAATATAAAT-TTTATATAA
767172 TAATATAAAATTTTATATTAA
1 TAATAT-AAATTTTATA-TAA
* *
767193 TATTATAAATTTTAAATAA
1 TAATATAAATTTTATATAA
767212 AATTATTACT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
17 4 0.09
18 3 0.07
19 6 0.13
20 21 0.46
21 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATATAAATTTTATATAA
Found at i:767193 original size:18 final size:20
Alignment explanation
Indices: 767167--767217 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
767157 TAAATATAAA
767167 TATAATAATA-TA-AAATTT
1 TATAATAATATTATAAATTT
*
767185 TATATTAATATTATAAATTT
1 TATAATAATATTATAAATTT
*
767205 TA-AATAAAATTAT
1 TATAATAATATTAT
767218 TACTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 9 0.32
19 11 0.39
20 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATAATAATATTATAAATTT
Found at i:767235 original size:19 final size:19
Alignment explanation
Indices: 767180--767257 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
767170 AATAATATAA
* *
767180 AATTTTATATTAATATTATA
1 AATTTTA-AATAATATTATT
*
767200 AATTTTAAATAAAATTATT
1 AATTTTAAATAATATTATT
*
767219 ACTTTT-AATCAATATTATT
1 AATTTTAAAT-AATATTATT
*
767238 AA--TAAAATAATA-TATT
1 AATTTTAAATAATATTATT
767254 AATT
1 AATT
767258 AACTTTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
16 6 0.13
17 5 0.11
18 6 0.13
19 23 0.49
20 7 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTTTAAATAATATTATT
Found at i:772039 original size:15 final size:15
Alignment explanation
Indices: 772019--772054 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
772009 AATCTGATTA
772019 TTATTTTTTTAATTT
1 TTATTTTTTTAATTT
772034 TTA-TTTTTTAATTT
1 TTATTTTTTTAATTT
772048 TTATTTT
1 TTATTTT
772055 CTATGACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTTTTAATTT
Found at i:773901 original size:14 final size:13
Alignment explanation
Indices: 773869--773906 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
773859 TGAAATGTCT
773869 AATAAATATAA-A
1 AATAAATATAATA
773881 AAT-AATATAATA
1 AATAAATATAATA
773893 AATAAAATATAATA
1 AAT-AAATATAATA
773907 TGTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 7 0.30
14 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAATATAATA
Found at i:773924 original size:19 final size:20
Alignment explanation
Indices: 773891--773937 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
773881 AATAATATAA
773891 TAAATAAAATATAATATGTT
1 TAAATAAAATATAATATGTT
* *
773911 TAAATATAAT-TAATATTTT
1 TAAATAAAATATAATATGTT
*
773930 TATATAAA
1 TAAATAAA
773938 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAATAAAATATAATATGTT
Found at i:773958 original size:18 final size:19
Alignment explanation
Indices: 773920--773977 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
773910 TTAAATATAA
* *
773920 TTAATATTTTTATATAAATT
1 TTAATAATTTTA-ATATATT
773940 TTAA-AATTTTAATATA-T
1 TTAATAATTTTAATATATT
*
773957 TTAATAATTTGTATTATATT
1 TTAATAATTT-TAATATATT
773977 T
1 T
773978 ATATTACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.16
18 9 0.28
19 12 0.38
20 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTAATAATTTTAATATATT
Found at i:774318 original size:17 final size:17
Alignment explanation
Indices: 774298--774330 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
774288 AATTTTAATA
*
774298 TTTATAATTTTTTTATT
1 TTTAAAATTTTTTTATT
774315 TTTAAAATTTTTTTAT
1 TTTAAAATTTTTTTAT
774331 AAAATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTAAAATTTTTTTATT
Found at i:774640 original size:2 final size:2
Alignment explanation
Indices: 774633--774675 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
774623 TTCACCGTTT
774633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
774675 T
1 T
774676 GTGCTCACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:776656 original size:21 final size:22
Alignment explanation
Indices: 776627--776669 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
776617 ATTTAATTTT
*
776627 AATTTTAATT-TATAAATTAAA
1 AATTATAATTATATAAATTAAA
*
776648 AATTATAATTATTTAAATTAAA
1 AATTATAATTATATAAATTAAA
776670 TTAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTATAATTATATAAATTAAA
Found at i:776680 original size:27 final size:27
Alignment explanation
Indices: 776639--776704 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
776629 TTTTAATTTA
**
776639 TAAATTAAAAATTATAATTATTTAAAT
1 TAAATTAAATTTTATAATTATTTAAAT
** *
776666 TAAATTAAATTTTATTTTTATTTAATT
1 TAAATTAAATTTTATAATTATTTAAAT
*
776693 TCAA-TAAATTTT
1 TAAATTAAATTTT
776705 TATTTTTTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TAAATTAAATTTTATAATTATTTAAAT
Found at i:776705 original size:27 final size:27
Alignment explanation
Indices: 776656--776711 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
776646 AAAATTATAA
776656 TTATTTAAATTAAATTAAATTTTATTT
1 TTATTTAAATTAAATTAAATTTTATTT
* *
776683 TTATTTAATTTCAA-TAAATTTTTATTT
1 TTATTTAAATTAAATTAAA-TTTTATTT
776710 TT
1 TT
776712 TACAGCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATTTAAATTAAATTAAATTTTATTT
Found at i:778821 original size:1 final size:1
Alignment explanation
Indices: 778817--778848 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
778807 TTCTTTTTTT
*
778817 GGGGGGGGGGGGGGGGGGGGGGTGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
778849 AATGTTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.97, T:0.03
Consensus pattern (1 bp):
G
Found at i:779137 original size:39 final size:39
Alignment explanation
Indices: 779061--779137 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
779051 GATTTATTTG
* * *
779061 ATTTAAAAATTTATTTTATTATTTGATATTTATTAAAAT
1 ATTTAAAAATATATTTTATTAATTGAAATTTATTAAAAT
779100 ATTTAAAAAATATATTTTA-TAATT-AAATTTATATAAAA
1 ATTT-AAAAATATATTTTATTAATTGAAATTTAT-TAAAA
779138 AATATTGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 7 0.21
39 13 0.39
40 13 0.39
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (39 bp):
ATTTAAAAATATATTTTATTAATTGAAATTTATTAAAAT
Found at i:780218 original size:18 final size:20
Alignment explanation
Indices: 780183--780220 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
780173 AAATATTCAA
*
780183 ATTTTATTACTTATAAAAAT
1 ATTTTATTAATTATAAAAAT
780203 ATTTT-TTAATTA-AAAAAT
1 ATTTTATTAATTATAAAAAT
780221 TAGTCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTATTAATTATAAAAAT
Found at i:780637 original size:22 final size:22
Alignment explanation
Indices: 780610--780654 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
780600 CGTTAACAAA
*
780610 AATAATATAATATAAT-TATATT
1 AATAATACAAT-TAATATATATT
780632 AATAATACAATTAATATATATT
1 AATAATACAATTAATATATATT
780654 A
1 A
780655 TGTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAATACAATTAATATATATT
Found at i:780693 original size:17 final size:18
Alignment explanation
Indices: 780671--780721 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
780661 TATTTTTGTT
780671 TTTAATA-TAATTAATAA
1 TTTAATATTAATTAATAA
*
780688 TTTAATATTATATTTAT-A
1 TTTAATATTA-ATTAATAA
780706 TTT-ATATTAATTAATA
1 TTTAATATTAATTAATA
780722 TGATAATACG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
17 13 0.45
18 6 0.21
19 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAATATTAATTAATAA
Found at i:781249 original size:25 final size:24
Alignment explanation
Indices: 781221--781267 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
781211 TCATTATAGA
*
781221 ATAATATGAATATAATAGATATAAT
1 ATAATATGAATAT-ATAAATATAAT
781246 ATAATATGAATATATAAATATA
1 ATAATATGAATATATAAATATA
781268 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (24 bp):
ATAATATGAATATATAAATATAAT
Found at i:781313 original size:17 final size:17
Alignment explanation
Indices: 781256--781313 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
781246 ATAATATGAA
*
781256 TATATAAATATATTAAAATT
1 TATATAAA-A-ATTAATA-T
*
781276 TATATAAAAATTAATAA
1 TATATAAAAATTAATAT
* *
781293 TATATCAAAATTTATAT
1 TATATAAAAATTAATAT
781310 TATA
1 TATA
781314 CTCTAAACAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 18 0.55
18 6 0.18
19 1 0.03
20 8 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATAAAAATTAATAT
Found at i:781594 original size:27 final size:28
Alignment explanation
Indices: 781564--781618 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
781554 TGAAATCATA
781564 TTTAA-AATATAATATATTTATA-TAAAT
1 TTTAATAATATAATA-ATTTATATTAAAT
* *
781591 TTTAATATTTTAATAATTTATATTAAAT
1 TTTAATAATATAATAATTTATATTAAAT
781619 AAATTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTAATAATATAATAATTTATATTAAAT
Found at i:781712 original size:16 final size:16
Alignment explanation
Indices: 781684--781719 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
781674 ATTGATTATA
781684 ATATTATATTTACATT
1 ATATTATATTTACATT
781700 ATATT-TATGTTACATT
1 ATATTATAT-TTACATT
781716 ATAT
1 ATAT
781720 CTAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
ATATTATATTTACATT
Found at i:782525 original size:18 final size:18
Alignment explanation
Indices: 782480--782541 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
782470 ATATATAAAG
782480 ATATTAAAATTTATATAA-
1 ATATTAAAATTTAT-TAAT
782498 A-A-T-AAA-TTATTAAT
1 ATATTAAAATTTATTAAT
*
782512 ATATTAAAATTTATAAAT
1 ATATTAAAATTTATTAAT
782530 AT-TTAATAATTT
1 ATATTAA-AATTT
782542 TAAATATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 3 0.08
14 5 0.14
15 4 0.11
16 2 0.05
17 8 0.22
18 15 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTAAAATTTATTAAT
Found at i:782535 original size:17 final size:19
Alignment explanation
Indices: 782498--782590 Score: 77
Period size: 18 Copynumber: 4.9 Consensus size: 19
782488 ATTTATATAA
* *
782498 AATAAATTATTAATATATT
1 AATAATTTATAAATATATT
782517 AA-AATTTATAAATAT-TT
1 AATAATTTATAAATATATT
782534 AATAATTT-TAAATATAATT
1 AATAATTTATAAATAT-ATT
* * *
782553 ATAAAATATATAAATATATA
1 A-ATAATTTATAAATATATT
*
782573 AAT-ATAATATAAATATAT
1 AATAAT-TTATAAATATAT
782591 ATTTTTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.18
18 18 0.29
19 18 0.29
20 8 0.13
21 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAATTTATAAATATATT
Found at i:782591 original size:8 final size:8
Alignment explanation
Indices: 782545--782578 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
782535 ATAATTTTAA
*
782545 ATATAATT
1 ATATAAAT
782553 ATA-AAAT
1 ATATAAAT
782560 ATATAAAT
1 ATATAAAT
782568 ATATAAAT
1 ATATAAAT
782576 ATA
1 ATA
782579 ATATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:782592 original size:23 final size:23
Alignment explanation
Indices: 782545--782592 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
782535 ATAATTTTAA
* *
782545 ATATAATTATAAAATATATAAAT
1 ATATAAATATAAAATAAATAAAT
* *
782568 ATATAAATATAATATAAATATAT
1 ATATAAATATAAAATAAATAAAT
782591 AT
1 AT
782593 TTTTAAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAAATATAAAATAAATAAAT
Found at i:782834 original size:11 final size:10
Alignment explanation
Indices: 782821--782888 Score: 50
Period size: 9 Copynumber: 6.5 Consensus size: 10
782811 TAAATATTTT
782821 TATATTATAA
1 TATATTATAA
782831 TTATATTTATAA
1 -TATA-TTATAA
782843 TAT-TTATAA
1 TATATTATAA
* *
782852 -AAATTTTAA
1 TATATTATAA
782861 TATATTAATAA
1 TATATT-ATAA
*
782872 TTTATATTATTA
1 --TATATTATAA
782884 TATAT
1 TATAT
782889 AAATTTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
8 1 0.02
9 11 0.24
10 9 0.20
11 10 0.22
12 9 0.20
13 6 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATATTATAA
Found at i:782858 original size:38 final size:36
Alignment explanation
Indices: 782804--782899 Score: 104
Period size: 38 Copynumber: 2.6 Consensus size: 36
782794 ATTTCGTATC
* * *
782804 ATATTTTTAAATATTTTTATAT-TATAATTATATTTATA
1 ATATTTATAAAAATTTTAATATAT-TAA-TA-ATTTATA
782842 ATATTTATAAAAATTTTAATATATTAATAATTTATA
1 ATATTTATAAAAATTTTAATATATTAATAATTTATA
* *
782878 TTATTATATATAAATTTTAATA
1 ATATT-TATAAAAATTTTAATA
782900 AATTTTTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
36 11 0.22
37 17 0.33
38 22 0.43
39 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
ATATTTATAAAAATTTTAATATATTAATAATTTATA
Found at i:782859 original size:20 final size:19
Alignment explanation
Indices: 782835--782899 Score: 64
Period size: 18 Copynumber: 3.5 Consensus size: 19
782825 TTATAATTAT
782835 ATTTATAATATTTATAAAA
1 ATTTATAATATTTATAAAA
* *
782854 ATTT-TAATATAT-TAATA
1 ATTTATAATATTTATAAAA
* *
782871 ATTTATATTATTATATATAA
1 ATTTATAATATT-TATAAAA
782891 ATTT-TAATA
1 ATTTATAATA
782900 AATTTTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 8 0.22
18 12 0.33
19 9 0.25
20 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTATAATATTTATAAAA
Found at i:783312 original size:18 final size:17
Alignment explanation
Indices: 783279--783318 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
783269 TAATATTTTT
783279 TAAAAAATTTAAAAATTA
1 TAAAAAATTTAAAAA-TA
783297 TAAATAAATTT-AAAATA
1 TAAA-AAATTTAAAAATA
783314 TAAAA
1 TAAAA
783319 TATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.05
17 6 0.29
18 8 0.38
19 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAATTTAAAAATA
Found at i:786437 original size:20 final size:17
Alignment explanation
Indices: 786401--786435 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
786391 AAAATTTTTA
786401 AAATTATTTTTATAATT
1 AAATTATTTTTATAATT
*
786418 AAATTATTATT-TAATT
1 AAATTATTTTTATAATT
786434 AA
1 AA
786436 TTCGTAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATTATTTTTATAATT
Found at i:786745 original size:20 final size:20
Alignment explanation
Indices: 786722--786767 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
786712 TATTTAAATA
**
786722 TAAATAAATATGTAAAATTT
1 TAAATAAATATAAAAAATTT
*
786742 TAAATATATATAAAAAATTT
1 TAAATAAATATAAAAAATTT
*
786762 AAAATA
1 TAAATA
786768 TTAAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAATAAATATAAAAAATTT
Found at i:786747 original size:26 final size:27
Alignment explanation
Indices: 786714--786776 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
786704 TTATTATATA
*
786714 TTTAAATATAAAT-AAATATGTAAAAT
1 TTTAAATATAAATAAAAAATGTAAAAT
* *
786740 TTTAAATATATATAAAAAATTTAAAAT
1 TTTAAATATAAATAAAAAATGTAAAAT
*
786767 ATTAAATATA
1 TTTAAATATA
786777 TTTATATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTAAATATAAATAAAAAATGTAAAAT
Found at i:786779 original size:18 final size:18
Alignment explanation
Indices: 786727--786780 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
786717 AAATATAAAT
*
786727 AAATATGTAAAAT-TTTA
1 AAATATATAAAATATTTA
*
786744 AATATATATAAAAAATTTA
1 AA-ATATATAAAATATTTA
786763 AAATAT-TAAATATATTTA
1 AAATATATAAA-ATATTTA
786781 TATCTAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATATATAAAATATTTA
Found at i:787009 original size:2 final size:2
Alignment explanation
Indices: 787002--787032 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
786992 ACTTTAGATT
787002 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
787033 AGTTGAATTA
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:794553 original size:3 final size:3
Alignment explanation
Indices: 794545--794578 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
794535 GAAACTTTTT
794545 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
794579 GCTAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:794780 original size:15 final size:15
Alignment explanation
Indices: 794760--794796 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
794750 ATGAGTCACA
794760 TTTAAAATTTTA-AT
1 TTTAAAATTTTATAT
794774 GTTTAAAATTTTATAT
1 -TTTAAAATTTTATAT
794790 TTTAAAA
1 TTTAAAA
794797 ATAATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTTAAAATTTTATAT
Found at i:795884 original size:29 final size:28
Alignment explanation
Indices: 795821--795914 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 28
795811 TCATATATTC
795821 ATATTATATTTAAATATTTTATTATGTT
1 ATATTATATTTAAATATTTTATTATGTT
* *
795849 ATAATTATATTTGAGATTATTTT-TTATTTT
1 AT-ATTATATTT-A-AATATTTTATTATGTT
* * *
795879 ATATTAT-TTTTAATATGTTAATAAT-TT
1 ATATTATATTTAAATAT-TTTATTATGTT
795906 ATATTATAT
1 ATATTATAT
795915 AAATTTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
26 4 0.07
27 11 0.20
28 9 0.17
29 14 0.26
30 9 0.17
31 7 0.13
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
ATATTATATTTAAATATTTTATTATGTT
Found at i:801608 original size:18 final size:19
Alignment explanation
Indices: 801567--801608 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
801557 ATTCAATTAA
*
801567 ATAAA-TATTTTATATTTT
1 ATAAATTATTTAATATTTT
*
801585 ACAAATTATTTAATA-TTT
1 ATAAATTATTTAATATTTT
801603 ATAAAT
1 ATAAAT
801609 GAATTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAAATTATTTAATATTTT
Found at i:801855 original size:16 final size:17
Alignment explanation
Indices: 801836--801874 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
801826 TAAAATTTGG
801836 AAAAGAAA-AAGAAAAA
1 AAAAGAAATAAGAAAAA
*
801852 AAAAGAAATAAGGAAAA
1 AAAAGAAATAAGAAAAA
801869 AAAAGA
1 AAAAGA
801875 TATGACAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAGAAATAAGAAAAA
Found at i:801938 original size:9 final size:9
Alignment explanation
Indices: 801924--801958 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
801914 GATAAATTTG
801924 AAAAAGAAA
1 AAAAAGAAA
801933 AAAAAGAAA
1 AAAAAGAAA
*
801942 AAAAAAAAA
1 AAAAAGAAA
801951 AAGAAAGA
1 AA-AAAGA
801959 CAGCAGTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:801943 original size:15 final size:15
Alignment explanation
Indices: 801923--801956 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
801913 TGATAAATTT
*
801923 GAAAAAGAAAAAAAA
1 GAAAAAAAAAAAAAA
801938 GAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAA
801953 GAAA
1 GAAA
801957 GACAGCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAAAAA
Found at i:802846 original size:17 final size:16
Alignment explanation
Indices: 802820--802868 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
802810 TATTATTTGA
802820 AAAT-TATTTAATAGTT
1 AAATATATTTAATAG-T
802836 AAATATATTTAATAAGT
1 AAATATATTTAAT-AGT
*
802853 AAATATTTTGTAATAG
1 AAATATATT-TAATAG
802869 GAAAATTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.14
17 19 0.66
18 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (16 bp):
AAATATATTTAATAGT
Found at i:803392 original size:23 final size:22
Alignment explanation
Indices: 803348--803394 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
803338 TATTTAAATA
*
803348 TAAATATATTTAAATTTAATTT
1 TAAATATATTTAAAATTAATTT
*
803370 TAAATAATATTATAAAATTATTTT
1 TAAAT-ATATT-TAAAATTAATTT
803394 T
1 T
803395 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 5 0.24
24 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TAAATATATTTAAAATTAATTT
Found at i:804259 original size:27 final size:28
Alignment explanation
Indices: 804211--804263 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
804201 TATAATTAAA
**
804211 TTTAAATAAAAATTATTTTATTTTATTT
1 TTTAAATAAAAATTATAATATTTTATTT
804239 TTTAAA-AAAAATTATAATATTTTAT
1 TTTAAATAAAAATTATAATATTTTAT
804264 CGGACAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTAAATAAAAATTATAATATTTTATTT
Found at i:804374 original size:3 final size:3
Alignment explanation
Indices: 804366--804397 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
804356 AATGAGGTGC
804366 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
804398 ATTTAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:804792 original size:10 final size:10
Alignment explanation
Indices: 804777--804843 Score: 58
Period size: 10 Copynumber: 7.2 Consensus size: 10
804767 ATATATCTCA
804777 ATAAATATTT
1 ATAAATATTT
804787 ATAAATA-TT
1 ATAAATATTT
804796 A-AAAT-TTT
1 ATAAATATTT
*
804804 TTAAA-ATATT
1 ATAAATAT-TT
804814 ATAAAT-TTAT
1 ATAAATATT-T
804824 ATAAAT-TTT
1 ATAAATATTT
804833 A-AAATATTT
1 ATAAATATTT
804842 AT
1 AT
804844 TTATTTATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
8 10 0.21
9 14 0.30
10 23 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
ATAAATATTT
Found at i:804800 original size:18 final size:17
Alignment explanation
Indices: 804779--804843 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 17
804769 ATATCTCAAT
804779 AAATATTTATAAATATTA
1 AAAT-TTTATAAATATTA
*
804797 AAATTTTTTAAAATATTA
1 AAATTTTAT-AAATATTA
*
804815 TAAATTTATATAAATTTTA
1 -AAATTT-TATAAATATTA
804834 AAATATTTAT
1 AAAT-TTTAT
804844 TTATTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.10
18 19 0.47
19 15 0.38
20 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTTTATAAATATTA
Found at i:804808 original size:27 final size:28
Alignment explanation
Indices: 804778--804853 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
804768 TATATCTCAA
*
804778 TAAATATTTATAAATATTA-A-AATTTTT
1 TAAATATTTATAAAT-TTATATAAATTTT
804805 TAAA-ATATTATAAATTTATATAAATTTT
1 TAAATAT-TTATAAATTTATATAAATTTT
* **
804833 AAAATATTTATTTATTTATAT
1 TAAATATTTATAAATTTATAT
804854 TATATTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.12
27 13 0.32
28 21 0.51
29 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAATATTTATAAATTTATATAAATTTT
Found at i:805277 original size:25 final size:27
Alignment explanation
Indices: 805224--805315 Score: 68
Period size: 30 Copynumber: 3.4 Consensus size: 27
805214 TGTATTTATA
* * *
805224 TTTAAAATATTATATATAATATAT-A-T
1 TTTAATATATTA-ATATTATATGTAATT
805250 TTTAATA-ATTAATATTATAT-TAATT
1 TTTAATATATTAATATTATATGTAATT
*
805275 TTTACGTTATATATTAATATTATATGTTATT
1 TTTA----ATATATTAATATTATATGTAATT
805306 TTTAAT-TATT
1 TTTAATATATT
805316 TTTATGTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
23 1 0.02
24 9 0.16
25 9 0.16
26 10 0.18
27 2 0.04
29 3 0.05
30 13 0.24
31 8 0.15
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTAATATATTAATATTATATGTAATT
Found at i:805442 original size:3 final size:3
Alignment explanation
Indices: 805434--805471 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
805424 GAGAATTTTG
*
805434 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
805472 AAGAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:817533 original size:16 final size:16
Alignment explanation
Indices: 817495--817546 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
817485 AATTTAAAAT
* *
817495 TTTAAATTTTTTTTTAA
1 TTTAAA-TTATTTTAAA
*
817512 TATAAATTATTTTAAA
1 TTTAAATTATTTTAAA
*
817528 TTTAAATTA-ATTAAA
1 TTTAAATTATTTTAAA
817543 TTTA
1 TTTA
817547 TTTAATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 9 0.30
16 16 0.53
17 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:817547 original size:26 final size:26
Alignment explanation
Indices: 817508--817583 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 26
817498 AAATTTTTTT
817508 TTAATATAAA-TTATTTTAA-ATTTAAA
1 TTAAT-TAAATTTA-TTTAATATTTAAA
*
817534 TTAATTAAATTTATTTAATATTTAAG
1 TTAATTAAATTTATTTAATATTTAAA
817560 TTAATTAAATTTA---AATATTTAAA
1 TTAATTAAATTTATTTAATATTTAAA
817583 T
1 T
817584 AAATAAGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
23 10 0.22
25 9 0.20
26 27 0.59
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
TTAATTAAATTTATTTAATATTTAAA
Found at i:817601 original size:22 final size:22
Alignment explanation
Indices: 817546--817601 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
817536 AATTAAATTT
* *
817546 ATTTAATATTTAAGTTAATTAA
1 ATTTAATATTTAAGATAAATAA
817568 ATTTAAATATTTAA-ATAAATAA
1 ATTT-AATATTTAAGATAAATAA
817590 GATTTAATATTT
1 -ATTTAATATTT
817602 TTAGATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTAATATTTAAGATAAATAA
Found at i:817644 original size:16 final size:16
Alignment explanation
Indices: 817631--817661 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
817621 TTTTATAATT
817631 TTAAATTCAAATAAAA
1 TTAAATTCAAATAAAA
*
817647 TTAAATTTAAATAAA
1 TTAAATTCAAATAAA
817662 TTATTTGATT
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:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAATTCAAATAAAA
Found at i:817860 original size:17 final size:18
Alignment explanation
Indices: 817817--817850 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
817807 TTCGAATATC
817817 TATT-TTATTTAAACAAA
1 TATTATTATTTAAACAAA
817834 TATTATTATTT-AACAAA
1 TATTATTATTTAAACAAA
817851 CTTTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTATTATTTAAACAAA
Found at i:818371 original size:15 final size:16
Alignment explanation
Indices: 818351--818393 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
818341 CAATTTAATT
*
818351 ATTTAAATAATTT-TA
1 ATTTAAATAATTTAAA
818366 ATTTAAATAATTTAAA
1 ATTTAAATAATTTAAA
*
818382 ATTTAAGTAATT
1 ATTTAAATAATT
818394 CTTATTCGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTAAATAATTTAAA
Found at i:818678 original size:25 final size:22
Alignment explanation
Indices: 818650--818704 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 22
818640 TAAAAAATTA
818650 AAAAAATTAAAATATATATAACAAT
1 AAAAAATTAAAA-ATA-ATAA-AAT
818675 AAAAAATTAAAAATAATAAAAT
1 AAAAAATTAAAAATAATAAAAT
818697 AATAAAAT
1 AA-AAAAT
818705 AATTTTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.17
23 9 0.31
24 3 0.10
25 12 0.41
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAAATTAAAAATAATAAAAT
Found at i:818695 original size:8 final size:8
Alignment explanation
Indices: 818657--818707 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
818647 TTAAAAAAAT
818657 TAAAATATA
1 TAAAATA-A
* *
818666 TATAACAA
1 TAAAATAA
818674 TAAAA-AA
1 TAAAATAA
818681 TTAAAAATAA
1 -T-AAAATAA
818691 TAAAATAA
1 TAAAATAA
818699 TAAAATAA
1 TAAAATAA
818707 T
1 T
818708 TTTAAGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
7 2 0.06
8 22 0.61
9 10 0.28
10 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (8 bp):
TAAAATAA
Found at i:818782 original size:21 final size:20
Alignment explanation
Indices: 818752--818796 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
818742 TTTTTTGGTC
*
818752 TTTTATTTGACAAAATCATAA
1 TTTTAATTGA-AAAATCATAA
* *
818773 TTTTAATTGAAAAGTTATAA
1 TTTTAATTGAAAAATCATAA
818793 TTTT
1 TTTT
818797 TAATATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTTAATTGAAAAATCATAA
Found at i:819619 original size:7 final size:7
Alignment explanation
Indices: 819603--819645 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
819593 TAAAGAAGTT
*
819603 ATTATGG
1 ATTATAG
819610 ATTATAG
1 ATTATAG
819617 ATTATAG
1 ATTATAG
819624 ATTATAG
1 ATTATAG
819631 ATTATAG
1 ATTATAG
819638 A-TATAG
1 ATTATAG
819644 AT
1 AT
819646 ATTATAGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (7 bp):
ATTATAG
Found at i:821541 original size:14 final size:14
Alignment explanation
Indices: 821522--821555 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
821512 TAGCATGAAT
821522 TTATAATTAAATTA
1 TTATAATTAAATTA
821536 TTATAA-TAAATTA
1 TTATAATTAAATTA
821549 -TATAATT
1 TTATAATT
821556 TAAGATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 8 0.42
14 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATAATTAAATTA
Found at i:821897 original size:15 final size:15
Alignment explanation
Indices: 821877--821925 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
821867 ACGTAAAAAT
821877 AATAATAAAATTATA
1 AATAATAAAATTATA
821892 AATAATAAAATT-TA
1 AATAATAAAATTATA
*
821906 AA-ATTTAAAATTATTA
1 AATA-ATAAAATTA-TA
821922 AATA
1 AATA
821926 TTAATTTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 1 0.03
14 11 0.38
15 12 0.41
16 4 0.14
17 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATAAAATTATA
Found at i:821924 original size:22 final size:23
Alignment explanation
Indices: 821877--821929 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
821867 ACGTAAAAAT
*
821877 AATAATAAAATTATAAATAATAA
1 AATATTAAAATTATAAATAATAA
* *
821900 AAT-TTAAAATT-TAAAATTATTA
1 AATATTAAAATTAT-AAATAATAA
821922 AATATTAA
1 AATATTAA
821930 TTTACTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 17 0.68
23 7 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATTAAAATTATAAATAATAA
Found at i:823592 original size:4 final size:4
Alignment explanation
Indices: 823583--823607 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
823573 TATAATCTCT
823583 ATCA ATCA ATCA ATCA ATCA ATCA A
1 ATCA ATCA ATCA ATCA ATCA ATCA A
823608 ACCCTTCTTT
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATCA
Found at i:823875 original size:20 final size:19
Alignment explanation
Indices: 823840--823878 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
823830 TATAATTTTT
*
823840 TTATTTTTTAATAATAATA
1 TTATTTTTTAAAAATAATA
823859 TTATTTTTATAAAAATAATA
1 TTATTTTT-TAAAAATAATA
823879 CACATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATTTTTTAAAAATAATA
Found at i:825177 original size:29 final size:29
Alignment explanation
Indices: 825109--825177 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
825099 ATTTATGATA
*
825109 TTATATATTTTAAAAAAATTTTAATATAT
1 TTATATATTATAAAAAAATTTTAATATAT
* ** *
825138 TAATA-ATTTATATTAAAATTTTGATATAT
1 TTATATA-TTATAAAAAAATTTTAATATAT
825167 TTATATATTAT
1 TTATATATTAT
825178 CATCGTGTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.03
29 30 0.94
30 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
TTATATATTATAAAAAAATTTTAATATAT
Found at i:826788 original size:42 final size:41
Alignment explanation
Indices: 826713--826791 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
826703 TACTGAAAAT
*
826713 AATACAATTTATTATTAAAAATTGATTAAATTAATATTTAA
1 AATACAATTTATTAATAAAAATTGATTAAATTAATATTTAA
*
826754 AATACAATAGTTATTAAT-AAAATT-ATTTATATTAATAT
1 AATACAAT--TTATTAATAAAAATTGA-TTAAATTAATAT
826792 AATTATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
41 9 0.27
42 17 0.52
43 7 0.21
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (41 bp):
AATACAATTTATTAATAAAAATTGATTAAATTAATATTTAA
Found at i:826868 original size:23 final size:24
Alignment explanation
Indices: 826824--826869 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
826814 TTACAATTTT
*
826824 AAATAGTAATGTTATTATAATATC
1 AAATAGTAATGTTATTAAAATATC
826848 AAATAGT-AT-TTAATTAAAATAT
1 AAATAGTAATGTT-ATTAAAATAT
826870 TACAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
24 7 0.35
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (24 bp):
AAATAGTAATGTTATTAAAATATC
Found at i:826873 original size:55 final size:55
Alignment explanation
Indices: 826814--826978 Score: 179
Period size: 55 Copynumber: 3.0 Consensus size: 55
826804 AATATTATTT
* ** *
826814 TTACAATTT-TAAATAGTAATGTTATTATAATATCAAATAGTATTTAATTAAAATA
1 TTACAATTTATAAATA-AAATAATATTATAATATCAAATAATATTTAATTAAAATA
* * * * *
826869 TTACAATTTATTATTAAAATAATGTTGTAATATCAAATAATATTTAATTAAAATG
1 TTACAATTTATAAATAAAATAATATTATAATATCAAATAATATTTAATTAAAATA
* * * * *
826924 TTACAATTTATTATTAAAATAATGTTGTAATATCAAATAATATGTTTATTAAAAT
1 TTACAATTTATAAATAAAATAATATTATAATATCAAATAATAT-TTAATTAAAAT
826979 GATAAATTAT
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
55 84 0.86
56 14 0.14
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (55 bp):
TTACAATTTATAAATAAAATAATATTATAATATCAAATAATATTTAATTAAAATA
Found at i:827138 original size:22 final size:23
Alignment explanation
Indices: 827106--827177 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 23
827096 TTGAGTTATA
827106 ATATTAAAATAATTTTATATTAAT
1 ATATT-AAATAATTTTATATTAAT
* * *
827130 ATATT-AATATTTTTAAAGTAA-
1 ATATTAAATAATTTTATATTAAT
* *
827151 AAATTAAACAATTTTATTATTAAT
1 ATATTAAATAATTTTA-TATTAAT
827175 ATA
1 ATA
827178 ATATTTAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
21 4 0.11
22 21 0.58
23 4 0.11
24 7 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
ATATTAAATAATTTTATATTAAT
Found at i:827342 original size:22 final size:22
Alignment explanation
Indices: 827293--827342 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
827283 ATAAAAGGCC
* *
827293 TTATTTTTCATTAACTAATAAA
1 TTATTTTTCATTAACCAAGAAA
* **
827315 TCATTTTTCATTAACCAAGCTA
1 TTATTTTTCATTAACCAAGAAA
827337 TTATTT
1 TTATTT
827343 ATGAAACAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATTTTTCATTAACCAAGAAA
Found at i:827662 original size:32 final size:32
Alignment explanation
Indices: 827621--827681 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
827611 GTGCTATAAA
827621 AAATATA-TTTATATTTATATAAATTTTGACAC
1 AAATATATTTTAT-TTTATATAAATTTTGACAC
* *
827653 AAATATATTTTATTTTATTTAGATTTTGA
1 AAATATATTTTATTTTATATAAATTTTGA
827682 TACATTCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 21 0.81
33 5 0.19
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (32 bp):
AAATATATTTTATTTTATATAAATTTTGACAC
Found at i:831864 original size:34 final size:34
Alignment explanation
Indices: 831821--831888 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
831811 AGATAGTTTC
831821 CTTCGTTCACTTGTTGGTTTACTAGCTTTGCAAT
1 CTTCGTTCACTTGTTGGTTTACTAGCTTTGCAAT
831855 CTTCGTTCACTTGTTGGTTTACTAGCTTTGCAAT
1 CTTCGTTCACTTGTTGGTTTACTAGCTTTGCAAT
831889 TCCTTAGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (34 bp):
CTTCGTTCACTTGTTGGTTTACTAGCTTTGCAAT
Found at i:840109 original size:21 final size:22
Alignment explanation
Indices: 840076--840119 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 22
840066 TAATTTCATT
840076 AAAACGAAGTTTTAGATATTAAA
1 AAAACGAAGTTTTA-ATATTAAA
840099 AAAAC-AA-TTTTAATATTAAA
1 AAAACGAAGTTTTAATATTAAA
840119 A
1 A
840120 TATAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 5 0.24
22 2 0.10
23 5 0.24
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAACGAAGTTTTAATATTAAA
Found at i:840298 original size:4 final size:4
Alignment explanation
Indices: 840289--840316 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
840279 CAATTTTATG
840289 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
840317 TACATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:840327 original size:2 final size:2
Alignment explanation
Indices: 840314--840397 Score: 132
Period size: 2 Copynumber: 42.0 Consensus size: 2
840304 ACATACATAC
* * * *
840314 AT AT AC AT AT AT AT AT AT AT AT AC AT AT AC AT AT AC 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
840356 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
840398 GCGCGCGCAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:848622 original size:16 final size:17
Alignment explanation
Indices: 848601--848670 Score: 76
Period size: 16 Copynumber: 4.3 Consensus size: 17
848591 ATATAAATAT
848601 TATAAAATTTTTAT-AA
1 TATAAAATTTTTATAAA
*
848617 TAT-AAATTATTAATAAA
1 TATAAAATT-TTTATAAA
*
848634 T-TAAAATTTATATAAA
1 TATAAAATTTTTATAAA
*
848650 TATAAAA-TATTATAAA
1 TATAAAATTTTTATAAA
848666 TATAA
1 TATAA
848671 TTATTATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
15 5 0.11
16 27 0.60
17 13 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAAAATTTTTATAAA
Found at i:848679 original size:27 final size:27
Alignment explanation
Indices: 848589--848683 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 27
848579 CATGATAAAG
** *
848589 ATATATAAATATTATAAA-ATTTTTATA
1 ATATA-AAATATTATAAATATAATTATT
* *
848616 ATATAAATTATTAATAAATTAAAATTTATAT
1 ATATAAAATATT-ATAAA-TATAA-TTAT-T
848647 AAATATAAAATATTATAAATATAATTATT
1 --ATATAAAATATTATAAATATAATTATT
848676 ATATAAAA
1 ATATAAAA
848684 AATAAATTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
26 6 0.11
27 18 0.33
29 2 0.04
30 8 0.15
31 4 0.07
32 5 0.09
33 11 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATAAAATATTATAAATATAATTATT
Found at i:848682 original size:33 final size:33
Alignment explanation
Indices: 848603--848666 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
848593 ATAAATATTA
* *
848603 TAAAATTTTTAT-AATATAAATTATTAATAAAT
1 TAAAATTTATATAAATATAAAATATTAATAAAT
848635 TAAAATTTATATAAATATAAAATATT-ATAAAT
1 TAAAATTTATATAAATATAAAATATTAATAAAT
848667 ATAATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
TAAAATTTATATAAATATAAAATATTAATAAAT
Found at i:850281 original size:22 final size:22
Alignment explanation
Indices: 850231--850281 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 22
850221 TTTTTTAAAA
850231 AATTATTTTTATATTAATATTT
1 AATTATTTTTATATTAATATTT
850253 -A-TATATTTTATAATTAA-ATTTT
1 AATTAT-TTTTAT-ATTAATA-TTT
850275 AATTATT
1 AATTATT
850282 AAATATGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
20 3 0.12
21 8 0.33
22 8 0.33
23 2 0.08
24 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTATTTTTATATTAATATTT
Found at i:850800 original size:15 final size:15
Alignment explanation
Indices: 850782--850830 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
850772 GATTTGATTT
850782 TTATAAATTTAAATA
1 TTATAAATTTAAATA
*
850797 TTATAAATTGAAATAA
1 TTATAAATTTAAAT-A
* *
850813 TTTTATATTTAAATA
1 TTATAAATTTAAATA
850828 TTA
1 TTA
850831 AATTTATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTATAAATTTAAATA
Found at i:850990 original size:11 final size:11
Alignment explanation
Indices: 850974--851008 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
850964 TCTATTTGTA
850974 TATTTAATTTT
1 TATTTAATTTT
850985 TATTTAATTTT
1 TATTTAATTTT
850996 ATATTTAATTTT
1 -TATTTAATTTT
851008 T
1 T
851009 TAAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTTAATTTT
Found at i:851002 original size:12 final size:12
Alignment explanation
Indices: 850967--851007 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
850957 AACGACATCT
850967 ATTTGTATATTTA
1 ATTT-TATATTTA
850980 ATTTT-TATTTA
1 ATTTTATATTTA
850991 ATTTTATATTTA
1 ATTTTATATTTA
851003 ATTTT
1 ATTTT
851008 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.41
12 12 0.44
13 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
ATTTTATATTTA
Found at i:851523 original size:27 final size:26
Alignment explanation
Indices: 851476--851550 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 26
851466 AATACATATT
851476 TATTTTATTATATTATAATTATATTTAAAA
1 TATTTTA-TAT-TTAT-ATTATATTT-AAA
*
851506 TATTTTATATTTATATTA-ATTTTAA
1 TATTTTATATTTATATTATATTTAAA
*
851531 TATATTA-ATTTATATTATAT
1 TATTTTATATTTATATTATAT
851551 AAATTATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 10 0.24
25 10 0.24
26 4 0.10
27 4 0.10
28 4 0.10
29 3 0.07
30 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTTATATTTATATTATATTTAAA
Found at i:851536 original size:14 final size:15
Alignment explanation
Indices: 851517--851559 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
851507 ATTTTATATT
851517 TATATTAATTT-TAA
1 TATATTAATTTATAA
*
851531 TATATTAATTTATAT
1 TATATTAATTTATAA
*
851546 TATA-TAAATTATAA
1 TATATTAATTTATAA
851560 AAAATATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTAATTTATAA
Found at i:852059 original size:10 final size:10
Alignment explanation
Indices: 852044--852074 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
852034 AATTTTATTT
852044 TCACTGTTCA
1 TCACTGTTCA
852054 TCACTGTTCA
1 TCACTGTTCA
852064 TCACTGTTCA
1 TCACTGTTCA
852074 T
1 T
852075 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:852093 original size:32 final size:32
Alignment explanation
Indices: 852052--852245 Score: 172
Period size: 32 Copynumber: 6.1 Consensus size: 32
852042 TTTCACTGTT
*
852052 CATCACTGTTCATCACTGTTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
*
852084 CATCACTGTTCATCACAATTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
* *
852116 CATCACTGTTCATAACTGTTCACTGT-TC-ATAA
1 CATCACTGTTCATCACTATTCA-TGTATCGAT-A
*
852148 CTGTTCACTG-T--TCACTATTCATGTATCGAT-
1 C--ATCACTGTTCATCACTATTCATGTATCGATA
852178 -A--ACTGTTCACATATCACTATTCATGTATCGATAA
1 CATCACTGTT--C--ATCACTATTCATGTATCGAT-A
* * *
852212 AATCTCTGTTTATCACTATTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
852244 CA
1 CA
852246 CTGTGAATAG
Statistics
Matches: 132, Mismatches: 12, Indels: 36
0.73 0.07 0.20
Matches are distributed among these distances:
25 4 0.03
26 1 0.01
30 3 0.02
31 12 0.09
32 76 0.58
33 24 0.18
34 6 0.05
35 1 0.01
37 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (32 bp):
CATCACTGTTCATCACTATTCATGTATCGATA
Found at i:852140 original size:17 final size:17
Alignment explanation
Indices: 852118--852161 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
852108 TATCGATACA
852118 TCACTGTTCATAACTGT
1 TCACTGTTCATAACTGT
852135 TCACTGTTCATAACTGT
1 TCACTGTTCATAACTGT
852152 TCACTGTTCA
1 TCACTGTTCA
852162 CTATTCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (17 bp):
TCACTGTTCATAACTGT
Found at i:853540 original size:13 final size:14
Alignment explanation
Indices: 853516--853546 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
853506 GTTAAATAAC
853516 ATATATTTTTTAAA
1 ATATATTTTTTAAA
*
853530 ATATATTTTTAAAA
1 ATATATTTTTTAAA
853544 ATA
1 ATA
853547 AAAATTAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATTTTTTAAA
Found at i:860097 original size:22 final size:22
Alignment explanation
Indices: 860066--860114 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
860056 TGTGTTTACA
*
860066 TGTTTGATTTCCATACTTTGAG
1 TGTTTAATTTCCATACTTTGAG
*
860088 TGTTTAATTTCCCTACTTTGAG
1 TGTTTAATTTCCATACTTTGAG
*
860110 AGTTT
1 TGTTT
860115 GTTTCACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.51
Consensus pattern (22 bp):
TGTTTAATTTCCATACTTTGAG
Found at i:860775 original size:73 final size:73
Alignment explanation
Indices: 860656--860792 Score: 249
Period size: 73 Copynumber: 1.9 Consensus size: 73
860646 GATTTAGAAC
*
860656 TTTTTCAATTTTATAGATTTAAGCTTTTCATGATTTAAGAGAAATGATTACTTT-ATATTAGATT
1 TTTTTCAATTTTATAGATTTAAACTTTTCATGATTTAAGAGAAATGATTA-TTTCATATTAGATT
860720 AAATCAAAA
65 AAATCAAAA
860729 TTTTTCAATTTTATAGATTTAAACTTTTCATGATTTAAGAGAAATGATTATTTCATATTAGATT
1 TTTTTCAATTTTATAGATTTAAACTTTTCATGATTTAAGAGAAATGATTATTTCATATTAGATT
860793 GATAAGAAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
72 3 0.05
73 59 0.95
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.47
Consensus pattern (73 bp):
TTTTTCAATTTTATAGATTTAAACTTTTCATGATTTAAGAGAAATGATTATTTCATATTAGATTA
AATCAAAA
Found at i:861322 original size:2 final size:2
Alignment explanation
Indices: 861317--861350 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
861307 ATCACACGCA
861317 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
861351 CAAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:861806 original size:21 final size:21
Alignment explanation
Indices: 861766--861807 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
861756 AAATATTTTT
*
861766 TATATAAATTTAATTTTAAAA
1 TATATAAATTTAATTATAAAA
861787 TATATAAATATTAA-TATAAAA
1 TATATAAAT-TTAATTATAAAA
861808 ATTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATAAATTTAATTATAAAA
Found at i:861813 original size:21 final size:21
Alignment explanation
Indices: 861766--861814 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
861756 AAATATTTTT
* *
861766 TATATAAATTTAATTTTAAAA
1 TATATAAATTTAATATAAAAA
861787 TATATAAATATTAATATAAAAA
1 TATATAAAT-TTAATATAAAAA
861809 TTATAT
1 -TATAT
861815 TTTTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATAAATTTAATATAAAAA
Found at i:864556 original size:19 final size:19
Alignment explanation
Indices: 864528--864565 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
864518 TTGTCTAGAG
*
864528 AAATGCATTAGCATGTCTT
1 AAATGCATTAGCATATCTT
*
864547 AAATGTATTAGCATATCTT
1 AAATGCATTAGCATATCTT
864566 GGGTGTAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (19 bp):
AAATGCATTAGCATATCTT
Done.