Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold143
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: 1221646
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Warning! 499 characters in sequence are not A, C, G, or T
File 7 of 8
Found at i:872492 original size:85 final size:86
Alignment explanation
Indices: 872310--872621 Score: 357
Period size: 85 Copynumber: 3.6 Consensus size: 86
872300 TCACATTTTC
* * * * * *
872310 AAAGCCCACAAGTCAATGGCATCTTTTCCAAAGCCCACAAGTCAATGGCAAC-CTTCAAAAGCCC
1 AAAGCCCACAAGTCAATGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCC
*
872374 ACAAGTCAGTGGC-ATCTTTTCC
66 ACAAGTCAGTGGCAATC--TTCA
* *
872396 AAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAATGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCC
872460 ACAAGTCAGTGGCAATCTTCA
66 ACAAGTCAGTGGCAATCTTCA
* * * *
872481 AAAGCCTACAAGTCAATGGCACCCCTTTC--AAGGCCACAAGTCAGTGGTATCTTTTCAAAAGCC
1 AAAGCCCACAAGTCAATGGCA-ACCTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
*
872544 CACAAGTCAGTGGCAACCTTCA
65 CACAAGTCAGTGGCAATCTTCA
* *** *
872566 AAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCAACACAAGTTAGTGGCATCTT
1 AAAGCCCACAAGTCAATGGCAA-CCTTTCAAAAGCC--CACAAGTCAGTGGCATCTT
872622 CTTCTAAGTC
Statistics
Matches: 192, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
84 9 0.05
85 107 0.56
86 56 0.29
87 3 0.02
88 17 0.09
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (86 bp):
AAAGCCCACAAGTCAATGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCC
ACAAGTCAGTGGCAATCTTCA
Found at i:872591 original size:28 final size:29
Alignment explanation
Indices: 872306--872617 Score: 201
Period size: 28 Copynumber: 10.9 Consensus size: 29
872296 TTCCTCACAT
* * * * *
872306 TTTC-AAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* * * *
872334 TTTCCAAAGCCCACAAGTCAATGGCAACC
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* * * *
872363 -TTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* * *
872391 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* * * *
872420 TTT-AAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* * * *
872448 TTTCCAAAGCCCACAAGTCAGTGGCAATC
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* * *
872477 -TTCAAAAGC-CTACAAGTCAATGGCACCCC
1 TTTCAAAAGCAC-ACAAGTTAGTGGCA-ACC
* * * * *
872506 TTTC-AAGGC-CACAAGTCAGTGGTATCT
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
* *
872533 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCACACAAGTTAGTGGCAACC
*
872562 -TTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTTCAAAAGCACACAAGTTAGTGGCAA-CC
872590 TTTCAAAAGCCAACACAAGTTAGTGGCA
1 TTTCAAAAG-C-ACACAAGTTAGTGGCA
872618 TCTTCTTCTA
Statistics
Matches: 238, Mismatches: 33, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
27 10 0.04
28 110 0.46
29 100 0.42
30 4 0.02
31 11 0.05
32 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (29 bp):
TTTCAAAAGCACACAAGTTAGTGGCAACC
Found at i:872824 original size:87 final size:87
Alignment explanation
Indices: 872621--872843 Score: 234
Period size: 87 Copynumber: 2.5 Consensus size: 87
872611 AGTGGCATCT
* * * * * * *
872621 TCTTCTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAAG-TCAATGTCACTG
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----TAAGCCCAATATCGCTG
*
872685 GCCTTGAATCAGTATATTGGCACCGGCA
61 GCCTTGAATCAGCATATTGGCACCGG-A
* * *
872713 TCTTTAAGACCAATGTTGCTGGCCTTGAATTAGCACATTGGCATAAGCCCAATATCGCTGGCTTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTT
* *
872778 GAATCGGCATATTGGCACCTTG-
66 GAATCAGCATATTGGCACC-GGA
* *
872800 TCTTTATGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
872844 TTTCATCTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
87 44 0.39
88 30 0.27
89 1 0.01
91 33 0.29
92 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (87 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCGGA
Found at i:872872 original size:136 final size:130
Alignment explanation
Indices: 872626--872892 Score: 291
Period size: 136 Copynumber: 2.0 Consensus size: 130
872616 CATCTTCTTC
* *
872626 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGTCAATGTCACTGGCCTTG
1 TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGCCAATGTCACTGGCCTTG
* * * *
872691 AATCAGTATATTGGCACCGGCATCTTTAAGACCAATGTTGCTGGCCTTGAATTAGCACATTGGCA
66 AATCAGTACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
872756 TAAGCCCAATATCGCTGGCTTTGAATCGGCATATTGGCACCTTGTCTTTATGACCAATGTCGCTG
1 TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-C----CTTTAAG-CCAATGTCACTG
**** * ** * * *
872821 GCCTTGAATCAGTACATTGGCATTTTCATCTTTAAGTCTGATATCGTTGGCCTTTAATCAGCATA
60 GCCTTGAATCAGTACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACA
872886 TTGGCA
125 TTGGCA
872892 T
1 T
872893 CTTTAACATC
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 35 0.32
131 1 0.01
135 6 0.05
136 68 0.62
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (130 bp):
TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGCCAATGTCACTGGCCTTG
AATCAGTACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:873820 original size:20 final size:20
Alignment explanation
Indices: 873795--873850 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
873785 CTGCTAAGGA
873795 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
873815 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
873835 TTTGTATCGATACATT
1 AATGTATCGATACATT
873851 TGGGAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:877618 original size:21 final size:21
Alignment explanation
Indices: 877592--877633 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
877582 GATCAGGATT
*
877592 CATGTCAAATCTCAATTGCCA
1 CATGTCAAATCTCAAATGCCA
877613 CATGTCAAATCTCAAATGCCA
1 CATGTCAAATCTCAAATGCCA
877634 AAACCATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.26
Consensus pattern (21 bp):
CATGTCAAATCTCAAATGCCA
Found at i:878359 original size:21 final size:20
Alignment explanation
Indices: 878330--878375 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
878320 GTTAATAGCC
* *
878330 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTCAG
878350 CTATGTTTCATGCATTTTCAG
1 C-ATGTTTCATGCATTTTCAG
878371 CATGT
1 CATGT
878376 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (20 bp):
CATGTTTCATGCATTTTCAG
Found at i:891373 original size:17 final size:15
Alignment explanation
Indices: 891353--891424 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
891343 CCCCCGCAAA
891353 AAAAAAAGAGAAAGAAG
1 AAAAAAA-A-AAAGAAG
891370 -AAAAAAAAAAGAAG
1 AAAAAAAAAAAGAAG
*
891384 AAAAAAAACAAACAA-
1 AAAAAAAA-AAAGAAG
* *
891399 ACAAAAAAAAACAA-
1 AAAAAAAAAAAGAAG
891413 AACAAAAAAAAA
1 AA-AAAAAAAAA
891425 CAACAACAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
14 14 0.29
15 24 0.49
16 11 0.22
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAG
Found at i:891373 original size:18 final size:16
Alignment explanation
Indices: 891350--891424 Score: 64
Period size: 17 Copynumber: 4.6 Consensus size: 16
891340 CATCCCCCGC
*
891350 AAAAAAAAAAGAGAAAG
1 AAAAAAAAAAAAG-AAG
891367 AAGAAAAAAAAAAGAAG
1 AA-AAAAAAAAAAGAAG
*
891384 AAAAAAAACAAACA-AAC
1 AAAAAAAA-AAA-AGAAG
* *
891401 AAAAAAAAACAA-AAC
1 AAAAAAAAAAAAGAAG
891416 AAAAAAAAA
1 AAAAAAAAA
891425 CAACAACAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
15 13 0.25
16 8 0.15
17 20 0.38
18 11 0.21
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAGAAG
Found at i:891380 original size:14 final size:13
Alignment explanation
Indices: 891370--891423 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 13
891360 GAGAAAGAAG
*
891370 AAAAAAAAAAGAAG
1 AAAAAAAAAA-AAC
*
891384 AAAAAAAACAAAC
1 AAAAAAAAAAAAC
891397 AAACAAAAAAAAAC
1 AAA-AAAAAAAAAC
891411 AAAACAAAAAAAA
1 AAAA-AAAAAAAA
891424 ACAACAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.17
14 29 0.83
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:891404 original size:28 final size:29
Alignment explanation
Indices: 891373--891437 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
891363 AAAGAAGAAA
* *
891373 AAAAAAAGAA-GAAA-AAAAACAAACAAAC
1 AAAAAAAGAACAAAACAAAAAAAAAC-AAC
891401 AAAAAAA-AACAAAACAAAAAAAAACAAC
1 AAAAAAAGAACAAAACAAAAAAAAACAAC
891429 AACAAAAAG
1 AA-AAAAAG
891438 GGTCTGGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 2 0.06
28 15 0.48
29 14 0.45
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (29 bp):
AAAAAAAGAACAAAACAAAAAAAAACAAC
Found at i:891425 original size:15 final size:16
Alignment explanation
Indices: 891384--891436 Score: 81
Period size: 15 Copynumber: 3.2 Consensus size: 16
891374 AAAAAAGAAG
891384 AAAAAAAACAAACAAACA
1 AAAAAAAAC-AAC-AACA
891402 AAAAAAAACAA-AACA
1 AAAAAAAACAACAACA
891417 AAAAAAAACAACAACA
1 AAAAAAAACAACAACA
891433 AAAA
1 AAAA
891437 GGGTCTGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.44
16 8 0.24
17 2 0.06
18 9 0.26
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAACAACA
Found at i:891429 original size:18 final size:18
Alignment explanation
Indices: 891384--891430 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
891374 AAAAAAGAAG
891384 AAAAAAAAC-AAACAAAC
1 AAAAAAAACAAAACAAAC
891401 AAAAAAAAACAAAACAAA-
1 -AAAAAAAACAAAACAAAC
891419 AAAAAACAACAA
1 AAAAAA-AACAA
891431 CAAAAAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
19 7 0.26
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAACAAAC
Found at i:891435 original size:14 final size:14
Alignment explanation
Indices: 891388--891436 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
891378 AAGAAGAAAA
891388 AAAACAAACAAACAA-
1 AAAA-AAAC-AACAAC
891403 AAAAAAACAA-AAC
1 AAAAAAACAACAAC
891416 AAAAAAA-AACAAC
1 AAAAAAACAACAAC
891429 AACAAAAA
1 AA-AAAAA
891437 GGGTCTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.13
13 14 0.45
14 9 0.29
15 4 0.13
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAACAAC
Found at i:891436 original size:1 final size:1
Alignment explanation
Indices: 891350--891424 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
891340 CATCCCCCGC
* * * * * * * * * *
891350 AAAAAAAAAAGAGAAAGAAGAAAAAAAAAAGAAGAAAAAAAACAAACAAACAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
891415 CAAAAAAAAA
1 AAAAAAAAAA
891425 CAACAACAAA
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:892898 original size:28 final size:27
Alignment explanation
Indices: 892851--892904 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
892841 CGTTCCTCAC
*
892851 CCTTCAAAAGCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCACAAGTCAATGGCAA
892878 CCTTCAAAAGTCCACAAGTCAATGGCA
1 CCTTCAAAAG-CCACAAGTCAATGGCA
892905 CATTTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.37, C:0.30, G:0.17, T:0.17
Consensus pattern (27 bp):
CCTTCAAAAGCCACAAGTCAATGGCAA
Found at i:892960 original size:34 final size:34
Alignment explanation
Indices: 892885--893126 Score: 162
Period size: 34 Copynumber: 7.6 Consensus size: 34
892875 CAACCTTCAA
* * *
892885 AAGTCCACAAGTCAATGGCAC-ATTTTT-CTTTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
* *
892917 GAAGTCCACAACTCTATGGCTCTCTTTTTCCTTTT
1 -AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
*
892952 AAGCCCACAACTCCATGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
* *
892986 AAGTCCAGAACTCCGTGGCA--C-----CCTTTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
*
893013 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
** *
893040 AAGTCCACAACTATATGGCAC-C-TTTTCTTTTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
* * * *
893072 AAGCCCACACCTCCATGGCATCCCTTTTT-CTTGT
1 AAGTCCACAACTCCATGGCA-CTCTTTTTCCTTTT
* * *
893106 AAGCCCACAAGTCGATGGCAC
1 AAGTCCACAACTCCATGGCAC
893127 CCCTTTCAAA
Statistics
Matches: 175, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
27 49 0.28
28 1 0.01
32 22 0.13
33 20 0.11
34 74 0.42
35 9 0.05
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (34 bp):
AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
Found at i:893061 original size:27 final size:27
Alignment explanation
Indices: 892980--893051 Score: 135
Period size: 27 Copynumber: 2.7 Consensus size: 27
892970 CACTCTTTTT
*
892980 CCTTTTAAGTCCAGAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
893007 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
893034 CCTTTTAAGTCCACAACT
1 CCTTTTAAGTCCACAACT
893052 ATATGGCACC
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:0.24, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:893153 original size:29 final size:29
Alignment explanation
Indices: 893106--893200 Score: 108
Period size: 29 Copynumber: 3.3 Consensus size: 29
893096 TTTTTCTTGT
893106 AAGCCCACAAGTCGATGGCACCCCTTTC-A
1 AAGCCCACAAGTCGATGGCA-CCCTTTCAA
*
893135 AAGCCCACAAGTC-AGTGGCAACC-TTCAA
1 AAGCCCACAAGTCGA-TGGCACCCTTTCAA
* *
893163 AAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTCGATGGC-ACCCTTTCAA
893192 AAGCCCACA
1 AAGCCCACA
893201 CAAGTTGGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.09
28 19 0.34
29 32 0.57
ACGTcount: A:0.35, C:0.34, G:0.16, T:0.16
Consensus pattern (29 bp):
AAGCCCACAAGTCGATGGCACCCTTTCAA
Found at i:893344 original size:48 final size:47
Alignment explanation
Indices: 893277--893611 Score: 205
Period size: 48 Copynumber: 7.6 Consensus size: 47
893267 TTTTTAAAAC
* *
893277 CCAATGTTGCTGGCCTTGAATCAGCATACTGACACTTTGTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATACTGACAC-TTGTCTATAAGA
* * *
893325 CCAATGTCGCTGGCCTTGAATCAG----C--ACA-TTGGC-ACAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATACTGACACTTGTCTATAAGA
* * * * *
893364 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATACTGACA-CTTGTCTATAAGA
* * *
893412 CCAATGTTGCTGGCCTTGAAT---CA-AC--ACA-TTGGC-ATAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATACTGACACTTGTCTATAAGA
* * * * * *
893451 CCAATATCGTTGGCTTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATACTGACA-CTTGTCTATAAGA
* * *
893499 CCAATGTTGCTGGCCTTGAAT---CA-AC--ACA-TTGGC-ATAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATACTGACACTTGTCTATAAGA
* * * * * * *
893538 CCAATATCGCTAGCTTTGAATCGGCATATTGGCACCTTGTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATACTGACA-CTTGTCTATAAGA
893586 CCAATGTCGCTGGCCTTGAATCAGCA
1 CCAATGTCGCTGGCCTTGAATCAGCA
893612 CATTGGCATT
Statistics
Matches: 208, Mismatches: 52, Indels: 54
0.66 0.17 0.17
Matches are distributed among these distances:
39 67 0.32
40 12 0.06
42 11 0.05
43 2 0.01
44 3 0.01
45 10 0.05
47 12 0.06
48 91 0.44
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (47 bp):
CCAATGTCGCTGGCCTTGAATCAGCATACTGACACTTGTCTATAAGA
Found at i:893379 original size:39 final size:39
Alignment explanation
Indices: 893325--893572 Score: 154
Period size: 39 Copynumber: 5.9 Consensus size: 39
893315 GTCTTTAAGA
*
893325 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
893364 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA--------C-AAGC
* * * *
893412 CCAATGTTGCTGGCCTTGAATCAACACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * * *
893451 CCAATATCGTTGGCTTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA--------C-AAGC
* * * *
893499 CCAATGTTGCTGGCCTTGAATCAACACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * * *
893538 CCAATATCGCTAGCTTTGAATCGGCATATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
893573 CTTGTCTTTA
Statistics
Matches: 156, Mismatches: 35, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
39 92 0.59
47 1 0.01
48 63 0.40
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:893424 original size:87 final size:87
Alignment explanation
Indices: 893287--893620 Score: 533
Period size: 87 Copynumber: 3.8 Consensus size: 87
893277 CCAATGTTGC
* * * * *
893287 TGGCCTTGAATCAGCATACTGACACTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAACAC
*
893352 ATTGGCACAAGCCCAATATCGT
66 ATTGGCATAAGCCCAATATCGT
*
893374 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTTGCTGGCCTTGAATCAACAC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAACAC
893439 ATTGGCATAAGCCCAATATCGT
66 ATTGGCATAAGCCCAATATCGT
* *
893461 TGGCTTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTTGCTGGCCTTGAATCAACAC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAACAC
*
893526 ATTGGCATAAGCCCAATATCGC
66 ATTGGCATAAGCCCAATATCGT
* * * * *
893548 TAGCTTTGAATCGGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAACAC
893613 ATTGGCAT
66 ATTGGCAT
893621 TTTCATCTTT
Statistics
Matches: 233, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 233 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (87 bp):
TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAACAC
ATTGGCATAAGCCCAATATCGT
Found at i:894130 original size:32 final size:30
Alignment explanation
Indices: 894094--894152 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
894084 GAAATCAAAT
894094 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
894126 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
894153 CTTTGATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:894427 original size:90 final size:90
Alignment explanation
Indices: 894312--894488 Score: 336
Period size: 90 Copynumber: 2.0 Consensus size: 90
894302 GGCTTGTTGG
894312 AGCTTATTTTAATGATTTCCCGTGTGAATGTATCGATACAATTTTTGATGTATTGATACATATTT
1 AGCTTATTTTAATGATTTCCCGTGTGAATGTATCGATACAATTTTTGATGTATTGATACATATTT
894377 GAAAATATAGCCGTTACAAGCCAAT
66 GAAAATATAGCCGTTACAAGCCAAT
*
894402 AGCTTATTTTAATGATTTCCTGTGTGAATGTATCGATACAATTTTTGATGTATTGATACATATTT
1 AGCTTATTTTAATGATTTCCCGTGTGAATGTATCGATACAATTTTTGATGTATTGATACATATTT
*
894467 GAAAATATAGCCGTTACTAGCC
66 GAAAATATAGCCGTTACAAGCC
894489 GTTACAAGCC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (90 bp):
AGCTTATTTTAATGATTTCCCGTGTGAATGTATCGATACAATTTTTGATGTATTGATACATATTT
GAAAATATAGCCGTTACAAGCCAAT
Found at i:894540 original size:13 final size:13
Alignment explanation
Indices: 894522--894547 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
894512 AATTTTTTGG
894522 TGTATCGATACAT
1 TGTATCGATACAT
894535 TGTATCGATACAT
1 TGTATCGATACAT
894548 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:895224 original size:55 final size:52
Alignment explanation
Indices: 895085--895234 Score: 147
Period size: 52 Copynumber: 2.8 Consensus size: 52
895075 TTCTTTTTCC
* ** * * * *
895085 TTTTTCTTATCTTTAAACCCAATGTTATTGGCCTTGAATCAGTACATTGGCA
1 TTTTTCTCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGCACATTGACA
* * ** * *
895137 TTCTTCTCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACA
1 TTTTTCTCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGCACATTGACA
*
895189 TCTTTTTTCTCATCTTTAAACCCAATATCGTTGACCGTGAATCAGC
1 ---TTTTTCTCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGC
895235 GTATTAGTCC
Statistics
Matches: 75, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
52 39 0.52
55 36 0.48
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (52 bp):
TTTTTCTCATCTTTAAACCCAATGTCGTTGACCGTGAATCAGCACATTGACA
Found at i:895965 original size:31 final size:28
Alignment explanation
Indices: 895927--895987 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
895917 CAAATAGTAA
*
895927 ATGTATCGATACATAAGTGTTGTATTGATAC
1 ATGTATCGATACAT-A--GTTGTATCGATAC
895958 ATGTATCGATACATAGTTGTATCGATAC
1 ATGTATCGATACATAGTTGTATCGATAC
895986 AT
1 AT
895988 CGCTACAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 14 0.48
30 1 0.03
31 14 0.48
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (28 bp):
ATGTATCGATACATAGTTGTATCGATAC
Found at i:896036 original size:20 final size:20
Alignment explanation
Indices: 896011--896065 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
896001 CTTCCAAGGA
896011 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
896031 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
896051 TTTGTATCGATACAT
1 AATGTATCGATACAT
896066 CTGGAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:896102 original size:15 final size:15
Alignment explanation
Indices: 896082--896110 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
896072 ATTTTACCCA
896082 GATGTATCGATACAT
1 GATGTATCGATACAT
896097 GATGTATCGATACA
1 GATGTATCGATACA
896111 GCAGGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (15 bp):
GATGTATCGATACAT
Found at i:908222 original size:21 final size:21
Alignment explanation
Indices: 908197--908238 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
908187 AATCACATTT
908197 TTGTTCAAATGTATCGATACA
1 TTGTTCAAATGTATCGATACA
*
908218 TTGTTTAAATGTATCGATACA
1 TTGTTCAAATGTATCGATACA
908239 AGGTCCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (21 bp):
TTGTTCAAATGTATCGATACA
Found at i:908299 original size:19 final size:19
Alignment explanation
Indices: 908275--908328 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
908265 ATTCAACGAT
908275 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
908294 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
908313 TTGTATCGATACATAA
1 TTGTATCGATACATAA
908329 TTAGCTACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:914835 original size:14 final size:14
Alignment explanation
Indices: 914806--914852 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
914796 TGTAAAAATC
*
914806 AATAAAAAAGATTAA
1 AATATAAAA-ATTAA
914821 AATATAAAAATTAA
1 AATATAAAAATTAA
*
914835 AACT-TGAAAATTAA
1 AA-TATAAAAATTAA
914849 AATA
1 AATA
914853 AAATTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 1 0.04
14 18 0.64
15 9 0.32
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (14 bp):
AATATAAAAATTAA
Found at i:916656 original size:18 final size:19
Alignment explanation
Indices: 916631--916680 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
916621 GAAGAAGGTG
*
916631 ACAGCAACGTGAAAGAGCA
1 ACAGCAACGTGAAACAGCA
* *
916650 A-AGCAACATG-ACCAGCA
1 ACAGCAACGTGAAACAGCA
916667 ACAGCAACGTGAAA
1 ACAGCAACGTGAAA
916681 AACAGCAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 6 0.25
18 16 0.67
19 2 0.08
ACGTcount: A:0.48, C:0.24, G:0.22, T:0.06
Consensus pattern (19 bp):
ACAGCAACGTGAAACAGCA
Found at i:916720 original size:21 final size:21
Alignment explanation
Indices: 916662--916721 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
916652 GCAACATGAC
*
916662 CAGCAACAGCAACGTGAAAAA
1 CAGCAGCAGCAACGTGAAAAA
* * *
916683 CAGCAGTAGTAATGTGAAAAA
1 CAGCAGCAGCAACGTGAAAAA
*
916704 TAGCAGCAGCAACGTGAA
1 CAGCAGCAGCAACGTGAA
916722 GAAGAAAAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (21 bp):
CAGCAGCAGCAACGTGAAAAA
Found at i:916957 original size:24 final size:24
Alignment explanation
Indices: 916923--916970 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
916913 GGCAGCAAGT
916923 GAGAAAAAAAA-AGAAGAAAAAAGA
1 GAGAAAAAAAACA-AAGAAAAAAGA
*
916947 GAGAAAGAAAACAAAGAAAAAAGA
1 GAGAAAAAAAACAAAGAAAAAAGA
916971 AAAATCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (24 bp):
GAGAAAAAAAACAAAGAAAAAAGA
Found at i:919109 original size:189 final size:190
Alignment explanation
Indices: 918779--919142 Score: 511
Period size: 189 Copynumber: 1.9 Consensus size: 190
918769 CCTTAAGGGT
* * ** *
918779 ATTTTGGTAATTTTTTAGAACCAACTGCTAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTGA
1 ATTTTGGTAATTTTATAGAACCAACTCCTAGGTCATCACCGAGTCCACTTTTATGCCGAAGGTGA
* *
918844 GCAATTAAGATAGGTTCATCCCTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCGGGATACTTT
66 GCAATTAAGATAGGTTCATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGCCAGGATACTTT
* *
918909 ACGTCGAAGGTATA-CTTCTA-GGGTATTTTGGTAATTTTCTAGAACTAACTTTTAGGGGC
131 ACGTCGAAGGTATACCCT-TAGGGGCATTTTGGTAATTTTCTAGAACTAACTTTTAGGGGC
* * * * *
918968 ATTTTGGTAATTTTATAGAACCAACTCCTGGGTCATCACCGGGTCTACTTTTATGCTG-AGGTGG
1 ATTTTGGTAATTTTATAGAACCAACTCCTAGGTCATCACCGAGTCCACTTTTATGCCGAAGGTGA
* *
919032 GCATTTAGGATAGGCTT-ATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGCCAGGATACTT
66 GCAATTAAGATAGG-TTCATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGCCAGGATAC-T
* *
919096 TTACGTTGAAGGTATACCCTTAGGGGCATTTTGGTAATTTTTTAGAA
129 TTACGTCGAAGGTATACCCTTAGGGGCATTTTGGTAATTTTCTAGAA
919143 TCAACTGCTA
Statistics
Matches: 153, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
188 60 0.39
189 69 0.45
190 24 0.16
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (190 bp):
ATTTTGGTAATTTTATAGAACCAACTCCTAGGTCATCACCGAGTCCACTTTTATGCCGAAGGTGA
GCAATTAAGATAGGTTCATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGCCAGGATACTTT
ACGTCGAAGGTATACCCTTAGGGGCATTTTGGTAATTTTCTAGAACTAACTTTTAGGGGC
Found at i:919250 original size:156 final size:156
Alignment explanation
Indices: 918960--919354 Score: 510
Period size: 155 Copynumber: 2.5 Consensus size: 156
918950 GAACTAACTT
* * * * *
918960 TTAGGGGCATTTTGGTAATTTTATAGAACCAACTCCTGGGTCATCACCGGGTCTACTTTTATGCT
1 TTAGGGGCATTTTGGTAATTTTTTAGAATCAACTCCTAGGTCATCACCGGGTCTGCTTTTATGCC
* *
919025 G-AGGTGGGCATTTAGGATAGGCTTATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGCCAG
66 GAAGGTGGGTATTTAGGATAGGCTTATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGACAG
* *
919089 GATACTTTTACGTTGAAGGTATACCC
131 GATACTTTCACGTCGAAGGTATACCC
* * * * * *
919115 TTAGGGGCATTTTGGTAATTTTTTAGAATCAACTGCTAGGTCATCGCTGGGTCCGCTTTCAAGCC
1 TTAGGGGCATTTTGGTAATTTTTTAGAATCAACTCCTAGGTCATCACCGGGTCTGCTTTTATGCC
* *
919180 GAAGGTGGGTATTTAGGATAGG-TTCATCCCTTTATGAGTCTTTTTAAGTCCTTTAGGGTT-ACT
66 GAAGGTGGGTATTTAGGATAGGCTT-ATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGACA
*
919243 GGAATACTTTCACGTCGAAGGTATTCCC
130 GG-ATACTTTCACGTCGAAGGTATACCC
* * ** * * * *
919271 -TAAGGGCATTTTCGTAATTTTTTAGAATTGAGTCCTAGGTTATCTCCGAGTCTGCTTTTATGCC
1 TTAGGGGCATTTTGGTAATTTTTTAGAATCAACTCCTAGGTCATCACCGGGTCTGCTTTTATGCC
919335 GAAGGTGGGTATTTAGGATA
66 GAAGGTGGGTATTTAGGATA
919355 CATTCACCTT
Statistics
Matches: 206, Mismatches: 31, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
155 131 0.64
156 75 0.36
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (156 bp):
TTAGGGGCATTTTGGTAATTTTTTAGAATCAACTCCTAGGTCATCACCGGGTCTGCTTTTATGCC
GAAGGTGGGTATTTAGGATAGGCTTATCCCTTTATGAGTCATTTTAAGTCCTTTAGGGTTGACAG
GATACTTTCACGTCGAAGGTATACCC
Found at i:924913 original size:13 final size:13
Alignment explanation
Indices: 924895--924923 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
924885 ATACATTATG
924895 CATTGTATCGATA
1 CATTGTATCGATA
924908 CATTGTATCGATA
1 CATTGTATCGATA
924921 CAT
1 CAT
924924 GTTCATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:924920 original size:33 final size:32
Alignment explanation
Indices: 924878--924940 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
924868 CACTTTCAAA
*
924878 TGTATCGATACAT-TATGCATTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTACCGATACAT
924911 TGTATCGATACATGTTCATTGTACCGATAC
1 TGTATCGATACATGTTCATTGTACCGATAC
924941 GTGAACAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.46
33 14 0.50
34 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTACCGATACAT
Found at i:924932 original size:19 final size:19
Alignment explanation
Indices: 924907--924969 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
924897 TTGTATCGAT
*
924907 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
* * *
924926 TCATTGTACCGATACGTGA
1 ACATTGTATCGATACATGA
*
924945 ACAAATGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
924965 A-ATTG
1 ACATTG
924970 GTAGTAGCTA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
18 3 0.09
19 16 0.47
20 15 0.44
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:925116 original size:72 final size:72
Alignment explanation
Indices: 925026--925200 Score: 323
Period size: 72 Copynumber: 2.4 Consensus size: 72
925016 ATCAAAACAT
* * *
925026 TATCGATACATGAAGAATTGTATCGATACATTGACTCAAACGACTATAAACGGCTATAATTTCAA
1 TATCGATACGTTATGAATTGTATCGATACATTGACTCAAACGACTATAAACGGCTATAATTTCAA
925091 ATGCATG
66 ATGCATG
925098 TATCGATACGTTATGAATTGTATCGATACATTGACTCAAACGACTATAAACGGCTATAATTTCAA
1 TATCGATACGTTATGAATTGTATCGATACATTGACTCAAACGACTATAAACGGCTATAATTTCAA
925163 ATGCATG
66 ATGCATG
925170 TATCGATACGTTATGAATTGTATCGATACAT
1 TATCGATACGTTATGAATTGTATCGATACAT
925201 AGCAATGGGA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 100 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (72 bp):
TATCGATACGTTATGAATTGTATCGATACATTGACTCAAACGACTATAAACGGCTATAATTTCAA
ATGCATG
Found at i:932705 original size:33 final size:33
Alignment explanation
Indices: 932652--932720 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
932642 AGTTGATCAC
* * *
932652 TTCACTTTTGCAGTGCATGGATGAGCACTTTAG
1 TTCACTTTCGCAGCGCATGGATGAGAACTTTAG
*
932685 TTCACTTTCGCAGCGTATGGATGAGAACTTTAG
1 TTCACTTTCGCAGCGCATGGATGAGAACTTTAG
932718 TTC
1 TTC
932721 TCTTAACCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (33 bp):
TTCACTTTCGCAGCGCATGGATGAGAACTTTAG
Found at i:933736 original size:51 final size:51
Alignment explanation
Indices: 933676--933773 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
933666 ATCAATACAT
*
933676 TGTATCGATACATGAAATTGGCAGTAGCTACCCTACCACTATTTGTACAAA
1 TGTATCGATACATGAAATTAGCAGTAGCTACCCTACCACTATTTGTACAAA
* *
933727 TGTATCGATACATGAAATTAGTAGTAGCTACCCTACTACTATTTGTA
1 TGTATCGATACATGAAATTAGCAGTAGCTACCCTACCACTATTTGTA
933774 TCGATACATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (51 bp):
TGTATCGATACATGAAATTAGCAGTAGCTACCCTACCACTATTTGTACAAA
Found at i:934727 original size:88 final size:90
Alignment explanation
Indices: 934576--934765 Score: 208
Period size: 88 Copynumber: 2.1 Consensus size: 90
934566 TGAGCTTACA
* * * * * * *
934576 CATATGCTTTTG-CCTTCCTATTGATGCTTGCATTTGCATCGTTTTACCTGCATATTCATTTTAG
1 CATATGCATTTGCCCTTCCTATTGATGCTTGCATTTGCATCATTTCACATACATATGCACTTTAG
*
934640 AT-AACATTGGTATTTGCATTAT-T
66 ATGAACATTGGTATTTGCATCATCT
* * *
934663 CCATATGCATTTGCCCTT-CTATTGATGTTTGCATTTGCATTATTTCACATACATCTGCACTTTA
1 -CATATGCATTTGCCCTTCCTATTGATGCTTGCATTTGCATCATTTCACATACATATGCACTTTA
****
934727 GATGGTGTTTGGTATTTGCATCATCT
65 GATGAACATTGGTATTTGCATCATCT
934753 CATATGCATTTGC
1 CATATGCATTTGC
934766 ATCATCTCAC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
88 51 0.61
89 32 0.38
90 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (90 bp):
CATATGCATTTGCCCTTCCTATTGATGCTTGCATTTGCATCATTTCACATACATATGCACTTTAG
ATGAACATTGGTATTTGCATCATCT
Found at i:942873 original size:152 final size:154
Alignment explanation
Indices: 942686--943052 Score: 415
Period size: 152 Copynumber: 2.4 Consensus size: 154
942676 TAGTATCTAC
* * *
942686 TAGGGTTATCGAGTACTTTTACGTCGAAGGTATCTTCTTGGGGTATTTTAGTAATTTTTAAAAAA
1 TAGGGGTATCGAGTACTTTTACGTCAAAGGTATCTTCTAGGGGTATTTTAGTAATTTTT-AAAAA
** * * *
942751 TTGAGTCTTAGATTATCATCAGGGTCTGCTTCTATGCCGAAGGT-GTGCATTTAGGATAAGTTCA
65 CCGAGTCCTAGATTATCA-CAGAGTCCGCTTCTATGCCGAAGGTAG-GCATTTAGGATAAGTTCA
942815 TCCC-TT-T-A-CCTTTTTAAGTCCTT
128 TCCCATTATAATCCTTTTTAAGTCCTT
* * *
942838 TAGGGGTATCGAGTACTTCTACGTCAAAGGTATCTTCTAGGGGTATTTTCA-TAATTTTCTTAGA
1 TAGGGGTATCGAGTACTTTTACGTCAAAGGTATCTTCTAGGGGTATTTT-AGTAATTTT-TAAAA
* * * * * *
942902 ACCGAGTCCTAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCAT
64 ACCGAGTCCTAGATTATCACAGAGTCCGCTTCTATGCCGAAGGTAGGCATTTAGGATAAGTTCAT
*
942967 CCCATTTATAATCCTTTTTAAGTCTTT
129 CCCA-TTATAATCCTTTTTAAGTCCTT
* * ** *
942994 TAGGGGTATC-AGGTATTTTTACGTCAAAGGTATCTCCTAAAGGTATTTTCGTAATTTTT
1 TAGGGGTATCGA-GTACTTTTACGTCAAAGGTATCTTCTAGGGGTATTTTAGTAATTTTT
943053 TTTAAACTTA
Statistics
Matches: 181, Mismatches: 24, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
151 41 0.23
152 69 0.38
153 4 0.02
154 1 0.01
155 3 0.02
156 63 0.35
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (154 bp):
TAGGGGTATCGAGTACTTTTACGTCAAAGGTATCTTCTAGGGGTATTTTAGTAATTTTTAAAAAC
CGAGTCCTAGATTATCACAGAGTCCGCTTCTATGCCGAAGGTAGGCATTTAGGATAAGTTCATCC
CATTATAATCCTTTTTAAGTCCTT
Found at i:946419 original size:27 final size:26
Alignment explanation
Indices: 946368--946434 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
946358 TTAAAAATAA
* *
946368 GGTTTGAGTAT-CCCTCAGAAGAATG
1 GGTTAGAGTATCCCCTCAGAAAAATG
*
946393 GGATTAGAGTATCCCCTCGGAAAAATG
1 GG-TTAGAGTATCCCCTCAGAAAAATG
* *
946420 GGTTGGAATATCCCC
1 GGTTAGAGTATCCCC
946435 GTGAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.06
26 19 0.54
27 14 0.40
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (26 bp):
GGTTAGAGTATCCCCTCAGAAAAATG
Found at i:946431 original size:26 final size:27
Alignment explanation
Indices: 946379--946434 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
946369 GTTTGAGTAT
* *
946379 CCCTCAGAAGAATGGGATTAGAGTATC
1 CCCTCAGAAAAATGGGATTAGAATATC
* *
946406 CCCTCGGAAAAATGGG-TTGGAATATC
1 CCCTCAGAAAAATGGGATTAGAATATC
946432 CCC
1 CCC
946435 GTGAATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
CCCTCAGAAAAATGGGATTAGAATATC
Found at i:948794 original size:20 final size:21
Alignment explanation
Indices: 948769--948820 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
948759 GACAGGGTCA
948769 GTATCGATACATTAACTT-AT
1 GTATCGATACATTAACTTGAT
* *
948789 GTATCGATACTTTAACTTGTT
1 GTATCGATACATTAACTTGAT
*
948810 GTATAGATACA
1 GTATCGATACA
948821 AATTGTAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (21 bp):
GTATCGATACATTAACTTGAT
Found at i:949712 original size:60 final size:60
Alignment explanation
Indices: 949644--949789 Score: 222
Period size: 60 Copynumber: 2.4 Consensus size: 60
949634 CGGCTTGGTA
* *
949644 CCAATGTGCTGATTCAAGGCCAACGACATTAGACTTTAAAAAGGATTTTTGACAAATGTG
1 CCAATGTGCTGATTTAAGGCCTACGACATTAGACTTTAAAAAGGATTTTTGACAAATGTG
* ** *
949704 CCAATGTGCAGATTTAAGGCCTGTGACATTGGACTTTAAAAAGGATTTTTGACAAATGTG
1 CCAATGTGCTGATTTAAGGCCTACGACATTAGACTTTAAAAAGGATTTTTGACAAATGTG
949764 CCAATGTG-TAGATTTAAGGCCTACGA
1 CCAATGTGCT-GATTTAAGGCCTACGA
949790 TACTAGTCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (60 bp):
CCAATGTGCTGATTTAAGGCCTACGACATTAGACTTTAAAAAGGATTTTTGACAAATGTG
Found at i:949859 original size:52 final size:52
Alignment explanation
Indices: 949797--950348 Score: 422
Period size: 52 Copynumber: 10.7 Consensus size: 52
949787 CGATACTAGT
**
949797 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCTAGCGACATTAGA
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
* * * * **
949849 CATAAGGATGATAAGAGTGCCAATATGTTGATTCAAGGGC-AACAACATTAGA
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAA-GGCTAGTAACATTAGA
* * * * * ** *
949901 CTTAAAGATAAGACGAGTGCCAATATGCTGATTCAAGGCCAGTGCCATTGGA
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
*
949953 CTTAAAGATGA-AAAAGGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
1 CTTAAAGATGATAAGA-GTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
* * * * * * *
950005 CATAAAGATGATGAGGGTGCCAACGTGCTGATTCAAGGCCAGTAACATTGGG
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
* * * * * *** *
950057 CTT--AGATGAT-AGTGGTGCCAATGTACTAATCCAAGGCCAACGACATTGGA
1 CTTAAAGATGATAAG-AGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
* * * * ** * * * *
950107 CTTAAAGATAATAAAAGTGCCAATGTGCTAATTTAAAACCAGTAACACTGGT
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
* * * * ** * *
950159 TTTAGAGATGAAAAAAGTGCTTATGTGCTGA-TCTAAGGCTAGTGACATTGGA
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTC-AAGGCTAGTAACATTAGA
** * * * **
950211 CTTAAAGATGATTGGGGTGCCAATGTGCTTATTCAAGGCTAGCAACA-CCGAA
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAG-A
* *
950263 CTTAAAGATGATAA-AGTTGCCAATGTGCTG-TTCCAAGACTAGTGACATTAGA
1 CTTAAAGATGATAAGAG-TGCCAATGTGCTGATT-CAAGGCTAGTAACATTAGA
*
950315 CTTAAAGATGATAAG-GTGCCAATGTACTGATTCA
1 CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCA
950349 TGGCCTGTGA
Statistics
Matches: 391, Mismatches: 93, Indels: 33
0.76 0.18 0.06
Matches are distributed among these distances:
49 2 0.01
50 39 0.10
51 24 0.06
52 318 0.81
53 8 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (52 bp):
CTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCTAGTAACATTAGA
Found at i:950567 original size:32 final size:32
Alignment explanation
Indices: 950503--950569 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
950493 AGCTTATGCA
* *
950503 GACTTTGAAAAAAGATGCCCCCAGCTCTTGTG
1 GACTTTGAAAAAAGATGCCACCAACTCTTGTG
*
950535 GACTTTGAAAAAGGATGCCACCAACT-TGTGTG
1 GACTTTGAAAAAAGATGCCACCAACTCT-TGTG
950567 GAC
1 GAC
950570 ATTAGGGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (32 bp):
GACTTTGAAAAAAGATGCCACCAACTCTTGTG
Found at i:950789 original size:59 final size:59
Alignment explanation
Indices: 950701--950813 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
950691 TGAAAAGAAC
* ** *
950701 GTTTTGATAAGTACCAATGTGTAGATTCAAGGCCAGTAACATTGGGCTTGAGAACGAAG
1 GTTTTGACAAGTACCAATGTGTAGATTCAAGGCCAACAACATTGGGCTTAAGAACGAAG
* *
950760 GTTTTGACAAGTGCCAGTGTGCTA-ATTCAAGGCCAACAACATTGGGCTTAAGAA
1 GTTTTGACAAGTACCAATGTG-TAGATTCAAGGCCAACAACATTGGGCTTAAGAA
950814 GGAAATACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 45 0.96
60 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (59 bp):
GTTTTGACAAGTACCAATGTGTAGATTCAAGGCCAACAACATTGGGCTTAAGAACGAAG
Found at i:951041 original size:32 final size:32
Alignment explanation
Indices: 950987--951047 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
950977 GAACTTTGAG
* * *
950987 AAAGGATGCCACTAGCTCGTGTGGACTTTAAA
1 AAAGGATACCACCAACTCGTGTGGACTTTAAA
* *
951019 AAAGGATACCACCAACTTGTGTGGGCTTT
1 AAAGGATACCACCAACTCGTGTGGACTTT
951048 TGGGGTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (32 bp):
AAAGGATACCACCAACTCGTGTGGACTTTAAA
Found at i:951121 original size:60 final size:59
Alignment explanation
Indices: 951018--951166 Score: 145
Period size: 60 Copynumber: 2.5 Consensus size: 59
951008 TGGACTTTAA
* * * ** **
951018 AAAAGGATACCACCAACTTGTGTGGGCTTTTGGGGTATTGCCAACCCATGCGGGCCTTG
1 AAAAGGATGCCACCAACTCGTGTAGGCTTTTGGGGTACCGCCAACCCATGCGAACCTTG
* * ** *
951077 AGAAAGGATGCCACCAACTCGTGTAGGCTTTTTGGGTGCCGCCAAGTCATGCGAACTTTG
1 A-AAAGGATGCCACCAACTCGTGTAGGCTTTTGGGGTACCGCCAACCCATGCGAACCTTG
* * * *
951137 AAAAGGATGCTACCAGCTCATGTAGACTTT
1 AAAAGGATGCCACCAACTCGTGTAGGCTTT
951167 GAGAAAGGTT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
59 26 0.36
60 47 0.64
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (59 bp):
AAAAGGATGCCACCAACTCGTGTAGGCTTTTGGGGTACCGCCAACCCATGCGAACCTTG
Found at i:951212 original size:95 final size:97
Alignment explanation
Indices: 951087--951267 Score: 278
Period size: 96 Copynumber: 1.9 Consensus size: 97
951077 AGAAAGGATG
* * *
951087 CCACCAACTCGTGTAGGCTTTTTGGGTGCCGCCAAG-TCATGCGAACTTTGA-AAAGGATGCTAC
1 CCACCAACTCGTGTAGGCTTCTTAGGTGCCGCC-AGCTCATGCGAACTTTGAGAAAGGATGCCAC
951150 CAGCTCATGTAGACTTTGAGAAAGGTTTGAGTA
65 CAGCTCATGTAGACTTTGAGAAAGGTTTGAGTA
* *
951183 CCACCAACTTGTGT-GGCTTCTTAGGTGCCGCCAGCTCGTGCGAACTTTGAGAAAGGATGCCACC
1 CCACCAACTCGTGTAGGCTTCTTAGGTGCCGCCAGCTCATGCGAACTTTGAGAAAGGATGCCACC
*
951247 AGCTCATGTGGACTTTGAGAA
66 AGCTCATGTAGACTTTGAGAA
951268 TGGTGCCACT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
94 2 0.03
95 30 0.39
96 45 0.58
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (97 bp):
CCACCAACTCGTGTAGGCTTCTTAGGTGCCGCCAGCTCATGCGAACTTTGAGAAAGGATGCCACC
AGCTCATGTAGACTTTGAGAAAGGTTTGAGTA
Found at i:951250 original size:32 final size:30
Alignment explanation
Indices: 951208--951305 Score: 94
Period size: 32 Copynumber: 3.2 Consensus size: 30
951198 GCTTCTTAGG
*
951208 TGCCGCCAGCTCGTGCGAACTTTGAGAAAGGA
1 TGCCACCAGCTCGTG-G-ACTTTGAGAAAGGA
*
951240 TGCCACCAGCTCATGTGGACTTTGAGAATGG-
1 TGCCACCAGCTC--GTGGACTTTGAGAAAGGA
* *
951271 TGCCACTAAG-TAGTGGACTTTGAG-AAGGA
1 TGCCAC-CAGCTCGTGGACTTTGAGAAAGGA
951300 TGCCAC
1 TGCCAC
951306 TAAGCCATGG
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.05
29 18 0.32
31 7 0.12
32 25 0.44
33 1 0.02
34 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (30 bp):
TGCCACCAGCTCGTGGACTTTGAGAAAGGA
Found at i:951588 original size:179 final size:179
Alignment explanation
Indices: 951255--951589 Score: 408
Period size: 179 Copynumber: 1.9 Consensus size: 179
951245 CCAGCTCATG
* * *
951255 TGGACTTTGAGAATGGTGCCACTAAGTAGTGGACTTTGAGAAGGATGCCACTAAGCCATGGACAT
1 TGGACTTTAAGAATGGCGCCACGAAGTAGTGGACTTTGAGAAGGATGCCACTAAGCCATGGACAT
** *
951320 TAAAAGGGGTGCCACTGAGTTGTAGACATTGAAAAGGGTGCCACTAAGTTGTGGACATTAAGAAA
66 TAAAAGGGGTGCCACTGAGTCATAGACATTGAAAAGGGTGCCACTAAGTCGTGGACATTAAGAAA
*
951385 GGGTGTCACTAAGTAGTAGACTTTGAGAAAGGTGCCACTAAGGGAGTCA
131 GGGTGCCACTAAGTAGTAGACTTTGAGAAAGGTGCCACTAAGGGAGTCA
* * * * * *
951434 TGGACTTTAAGAATGGCGCCACGGAGTCA-TTGACTTTGAGAAGGGTGCCACTGAGCCGTGGACT
1 TGGACTTTAAGAATGGCGCCACGAAGT-AGTGGACTTTGAGAAGGATGCCACTAAGCCATGGACA
* * * * * *
951498 TTGAGAA-GGGTGCCACTGAGTCATGGACTTTGAGAAGGGTGCCACTGAGTCGTGGACTTTGAA-
65 TT-AAAAGGGGTGCCACTGAGTCATAGACATTGAAAAGGGTGCCACTAAGTCGTGGACATT-AAG
* * *
951561 AAGGGGTGCCA-TAGAGTTGTGGACTTTGA
128 AAAGGGTGCCACTA-AGTAGTAGACTTTGA
951590 AAGGGGGTGC
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
178 2 0.02
179 122 0.94
180 6 0.05
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (179 bp):
TGGACTTTAAGAATGGCGCCACGAAGTAGTGGACTTTGAGAAGGATGCCACTAAGCCATGGACAT
TAAAAGGGGTGCCACTGAGTCATAGACATTGAAAAGGGTGCCACTAAGTCGTGGACATTAAGAAA
GGGTGCCACTAAGTAGTAGACTTTGAGAAAGGTGCCACTAAGGGAGTCA
Found at i:951599 original size:30 final size:29
Alignment explanation
Indices: 951254--951594 Score: 292
Period size: 29 Copynumber: 11.6 Consensus size: 29
951244 ACCAGCTCAT
* * *
951254 GTGGACTTTGAGAATGGTGCCACTAAGTA
1 GTGGACTTTGAGAAGGGTGCCACTGAGTC
* * *
951283 GTGGACTTTGAGAAGGATGCCACTAAGCC
1 GTGGACTTTGAGAAGGGTGCCACTGAGTC
* * * *
951312 ATGGACATT-AAAAGGGGTGCCACTGAGTT
1 GTGGACTTTGAGAA-GGGTGCCACTGAGTC
* * * * *
951341 GTAGACATTGAAAAGGGTGCCACTAAGTT
1 GTGGACTTTGAGAAGGGTGCCACTGAGTC
* * * * *
951370 GTGGACATTAAGAAAGGGTGTCACTAAGTA
1 GTGGACTTTGAG-AAGGGTGCCACTGAGTC
* *
951400 GTAGACTTTGAGAAAGGTGCCACTAAGGGAGTC
1 GTGGACTTTGAGAAGGGTGCCACT----GAGTC
* * * * *
951433 ATGGACTTTAAGAATGGCGCCACGGAGTC
1 GTGGACTTTGAGAAGGGTGCCACTGAGTC
* * *
951462 ATTGACTTTGAGAAGGGTGCCACTGAGCC
1 GTGGACTTTGAGAAGGGTGCCACTGAGTC
951491 GTGGACTTTGAGAAGGGTGCCACTGAGTC
1 GTGGACTTTGAGAAGGGTGCCACTGAGTC
*
951520 ATGGACTTTGAGAAGGGTGCCACTGAGTC
1 GTGGACTTTGAGAAGGGTGCCACTGAGTC
* *
951549 GTGGACTTTGAAAAGGGGTGCCA-TAGAGTT
1 GTGGACTTTGAGAA-GGGTGCCACT-GAGTC
951579 GTGGACTTTGA-AAGGG
1 GTGGACTTTGAGAAGGG
951595 GGTGCTCCAC
Statistics
Matches: 258, Mismatches: 45, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
28 6 0.02
29 180 0.70
30 51 0.20
33 21 0.08
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (29 bp):
GTGGACTTTGAGAAGGGTGCCACTGAGTC
Found at i:957670 original size:20 final size:20
Alignment explanation
Indices: 957645--957706 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
957635 TTTTACCCAG
957645 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
957665 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
957685 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
957705 AT
1 AT
957707 TTATTGTTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:957754 original size:91 final size:90
Alignment explanation
Indices: 957595--957769 Score: 269
Period size: 91 Copynumber: 1.9 Consensus size: 90
957585 TTTTACCCAG
* * *
957595 ATGTATTGATACATTTTTTAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATT
957660 TTTCAATGTATCGATACATGTATGA
66 TTTCAATGTATCGATACATGTATGA
* * * * *
957685 ATGTATCGATACATTCTTCAATTTATTGTTACATTCTGTCTTTTTACCTAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATC-TTTTACCCAGATGTATCGATACAT
957750 TTTTCAATGTATCGATACAT
65 TTTTCAATGTATCGATACAT
957770 CTAGTTAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
90 33 0.43
91 43 0.57
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (90 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATT
TTTCAATGTATCGATACATGTATGA
Found at i:963942 original size:21 final size:20
Alignment explanation
Indices: 963913--963955 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
963903 GACTAGTGTG
*
963913 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
963934 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
963954 GG
1 GG
963956 TGGGTGCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:964254 original size:21 final size:21
Alignment explanation
Indices: 964230--964276 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
964220 TTTGAAGCTG
964230 ATTTTG-A-TGAAAAACAAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
964250 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
964271 ATTTTG
1 ATTTTG
964277 TAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:964416 original size:13 final size:13
Alignment explanation
Indices: 964398--964433 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
964388 ATAACCCCCC
*
964398 TGTATCGATACAG
1 TGTATCGATACAA
964411 TGTATCGATACAA
1 TGTATCGATACAA
964424 TGTATCGATA
1 TGTATCGATA
964434 TAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:964631 original size:15 final size:13
Alignment explanation
Indices: 964599--964641 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
964589 AAAAACACAG
964599 AATCATTCATCAA
1 AATCATTCATCAA
964612 AATCATTCATTTCAA
1 AATCATTCA--TCAA
* *
964627 CATCATTCAACAA
1 AATCATTCATCAA
964640 AA
1 AA
964642 AATCACAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 13 0.52
15 12 0.48
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (13 bp):
AATCATTCATCAA
Found at i:966528 original size:15 final size:15
Alignment explanation
Indices: 966508--966548 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
966498 GTTCATCAAT
966508 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
966523 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
*
966538 CTCAATTTGGA
1 TTC-ATTTGGA
966549 TATTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:970630 original size:13 final size:13
Alignment explanation
Indices: 970612--970637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
970602 AATTTTTTGG
970612 TGTATCGATACAT
1 TGTATCGATACAT
970625 TGTATCGATACAT
1 TGTATCGATACAT
970638 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:974582 original size:70 final size:69
Alignment explanation
Indices: 974480--975308 Score: 593
Period size: 70 Copynumber: 12.1 Consensus size: 69
974470 TTTTTTTAAA
* * * *
974480 TCAATGAGCAGGATG-CTTTTTCTTTTTAAAGCCCACATAAGCTGGTGAAACCTTTTATCCTTTT
1 TCAAAGAGCAAGATGCCTTTTTC-TTTTAAAGCCCACACAAGCTGGTGACACCTTTTATCCTTTT
*
974544 AATCC
65 AGTCC
* * *
974549 TCAAAGAGCAAGATGCCTTTTTCATTTTAAAGCCCACACAAACTAGTGGCACCTTTTATCCTTTT
1 TCAAAGAGCAAGATGCCTTTTTC-TTTTAAAGCCCACACAAGCTGGTGACACCTTTTATCCTTTT
974614 AGTCC
65 AGTCC
** * * * * * *
974619 TCAAAGAGTTAGACGTCTTTTTTCTTTTACAGCCCACACAAGCTGATAACACCTCTTA--CTTTT
1 TCAAAGAGCAAGATG-CCTTTTTCTTTTAAAGCCCACACAAGCTGGTGACACCTTTTATCCTTTT
974682 CAGTCC
65 -AGTCC
* *
974688 TCAAAGAGCAAGAT--TTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACATCTTTTATCCTT
1 TCAAAGAGCAAGATGCCTTTTTC-TTTTAAAGCCCACACAAGCTGGT-G-ACACCTTTTATCC-T
974751 TTTAGTCC
62 TTTAGTCC
* ** * *
974759 TCAAAGAGCAAGATGTCTTTTTCTTTTAAAGCCCACACAAGCTCATGGCACACTTTTTTATCTTT
1 TCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACAAGCTGGT-G-ACAC-CTTTTATCCTT
974824 TTAGTCC
63 TTAGTCC
* * * *
974831 TCAATGAGCAGGATGCCTTTTTCATTTTAAAGCCCACACAAGCTGGTGGCACCCCTTTTGTCCTT
1 TCAAAGAGCAAGATGCCTTTTTC-TTTTAAAGCCCACACAAGCTGGT-G-ACACCTTTTATCC-T
974896 TTTAGTCC
62 TTTAGTCC
* * *
974904 TCAAAGAGCAAGATGCCTTTTTCCTTTAAAGCCCACACAAGCTGGGGACACCTTTT-T--TTTGG
1 TCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACAAGCTGGTGACACCTTTTATCCTTT-T
* *
974966 GGTCT
65 AGTCC
* * * *
974971 TCAAAGAGTAGGATG-CTTTAATCTTTTAAAGCCTACACAAGCTGGTGGCACACCCTTTTATCCT
1 TCAAAGAGCAAGATGCCTTT-TTCTTTTAAAGCCCACACAAGCTGGT-G-ACA-CCTTTTATCCT
975035 TTTAGTCC
62 TTTAGTCC
* * * * ***** * * * *
975043 TTAAAGAGTAGGA-CCCTTTTTC-----AAGCTGGTGGC-ACCT-TTTA-TCCTTTTAGTCC---
1 TCAAAGAGCAAGATGCCTTTTTCTTTTAAAGC-CCACACAAGCTGGTGACACCTTTTA-TCCTTT
975096 ---TC-
64 TAGTCC
* * * * * * *
975098 --AAAGAGCAGGA--CATCTTT-TTTAAAAGCCCACACAAGCTAGTGGCATCTTTTATCCTTTTA
1 TCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACAAGCTGGTGACACCTTTTATCCTTTTA
975158 GTCC
66 GTCC
* * * * * *
975162 TCAAAAAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTATCCTTTCA
1 TCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACAAGCTGGTGACACCTTTTATCCTTTTA
* *
975227 ATCT
66 GTCC
* * * * *
975231 TCATAGAGCAGGATGCTTTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACCTTTTATCCCTTT
1 TCAAAGAGCAAGATGCCTTTTTC-TTTTAAAGCCCACACAAGCTGGTGACACCTTTTAT-CCTTT
* *
975296 TTGTCA
64 TAGTCC
975302 TCAAAGA
1 TCAAAGA
975309 ATAGGACTCT
Statistics
Matches: 608, Mismatches: 105, Indels: 92
0.76 0.13 0.11
Matches are distributed among these distances:
52 5 0.01
53 10 0.02
55 1 0.00
56 9 0.01
57 4 0.01
58 6 0.01
61 7 0.01
62 3 0.00
63 3 0.00
65 1 0.00
66 31 0.05
67 60 0.10
68 11 0.02
69 101 0.17
70 133 0.22
71 44 0.07
72 106 0.17
73 73 0.12
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (69 bp):
TCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACAAGCTGGTGACACCTTTTATCCTTTTA
GTCC
Found at i:974752 original size:139 final size:136
Alignment explanation
Indices: 974494--975339 Score: 686
Period size: 139 Copynumber: 6.2 Consensus size: 136
974484 TGAGCAGGAT
* * * *
974494 GCTTTTTCTTTTTAAAGCCCACATAAGCTGGTGAAACCTTTTATCCTTTTAATCCTCAAAGAGCA
1 GCTTTTTC-TTTTAAAGCCCACACAAGCTGATGACACCTTTTAT-CTTTTAGTCCTCAAAGAGCA
* * * *
974559 AGATGCCTTTTTCATTTTAAAGCCCACACAAACTAGTGGCAC-CTTTTATCCTTTTAGTCCTCAA
64 GGAT-CCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACACTTTTATCCTTTTAGTCCTCAA
*
974623 AGAGTTAGAC
128 AGAG-AAGAC
* * *
974633 GTCTTTTTTCTTTTACAGCCCACACAAGCTGATAACACCTCTTA-CTTTTCAGTCCTCAAAGAGC
1 G-C-TTTTTCTTTTAAAGCCCACACAAGCTGATGACACCTTTTATCTTTT-AGTCCTCAAAGAGC
* *
974697 AAGAT-TTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACATCTTTTATCCTTTTTAGTCCTC
63 AGGATCCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACA-CTTTTATCC-TTTTAGTCCTC
*
974761 AAAGAGCAAGAT
126 AAAGAG-AAGAC
* * *
974773 GTCTTTTTCTTTTAAAGCCCACACAAGCTCATGGCACACTTTTTTATCTTTTTAGTCCTCAATGA
1 G-CTTTTTCTTTTAAAGCCCACACAAGCTGAT-G-ACAC-CTTTTATC-TTTTAGTCCTCAAAGA
* * *
974838 GCAGGATGCCTTTTTCATTTTAAAGCCCACACAAGCTGGTGGCACCCCTTTTGTCCTTTTTAGTC
61 GCAGGAT-CCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA-CACTTTTATCC-TTTTAGTC
*
974903 CTCAAAGAGCAAGAT
123 CTCAAAGAG-AAGAC
* ** ** * *
974918 GCCTTTTTCCTTTAAAGCCCACACAAGCTGGGGACACCTTTT-T-TTTGGGGTCTTCAAAGAGTA
1 G-CTTTTTCTTTTAAAGCCCACACAAGCTGATGACACCTTTTATCTTT-TAGTCCTCAAAGAGCA
* * * *
974981 GGATGCTTTAATC-TTTTAAAGCCTACACAAGCTGGTGGCACACCCTTTTATCCTTTTAGTCCTT
64 GGATCCTTT-TTCTTTTTAAAGCCCACACAAGCTGGTGGCACA--CTTTTATCCTTTTAGTCCTC
*
975045 AAAGAGTAGGAC
126 AAAGAG-AAGAC
* * *
975057 -C-----CTTTT---------TCAAGCTGGTGGCACCTTTTATCCTTTTAGTCCTCAAAGAGCAG
1 GCTTTTTCTTTTAAAGCCCACACAAGCTGATGACACCTTTTAT-CTTTTAGTCCTCAAAGAGCAG
* * * * * *
975107 GA--CATCTT-TTTTAAAAGCCCACACAAGCTAGTGGCA-TCTTTTATCCTTTTAGTCCTCAAAA
65 GATCCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACACTTTTATCCTTTTAGTCCTCAAAG
*
975168 AGCAGGAC
130 AG-AAGAC
* * * * *
975176 GCCTTTTTCTTTTAAAGCCCACACAAGCT-AGTGGCACCTTTTATCCTTTCAATCTTCATAGAGC
1 G-CTTTTTCTTTTAAAGCCCACACAAGCTGA-TGACACCTTTTAT-CTTTTAGTCCTCAAAGAGC
* * * *
975240 AGGATGCTTTTTTCTTTTTAAAGCCCACACAAGCTGATGGCAC-CTTTTATCCCTTTTTGTCATC
63 AGGAT-CCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACACTTTTAT-CCTTTTAGTCCTC
975304 AAAGA-ATAGGAC
126 AAAGAGA-A-GAC
*
975316 TCTTTTTCTTTCTCAAAGCCCACA
1 GCTTTTTCTTT-T-AAAGCCCACA
975340 TAAGTTGGTG
Statistics
Matches: 578, Mismatches: 80, Indels: 96
0.77 0.11 0.13
Matches are distributed among these distances:
119 29 0.05
121 1 0.00
122 25 0.04
123 19 0.03
124 1 0.00
125 15 0.03
126 8 0.01
132 4 0.01
135 39 0.07
137 33 0.06
138 10 0.02
139 149 0.26
140 96 0.17
141 21 0.04
142 8 0.01
143 22 0.04
144 5 0.01
145 92 0.16
146 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (136 bp):
GCTTTTTCTTTTAAAGCCCACACAAGCTGATGACACCTTTTATCTTTTAGTCCTCAAAGAGCAGG
ATCCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACACTTTTATCCTTTTAGTCCTCAAAGA
GAAGAC
Found at i:975241 original size:69 final size:68
Alignment explanation
Indices: 975064--975355 Score: 313
Period size: 69 Copynumber: 4.2 Consensus size: 68
975054 GACCCTTTTT
* * *
975064 CAAGCTGGTGGCACCTTTTATCCTTTTAGTCCTCAAAGAGCAGGA-CATCTTT-TTTAAAAGCCC
1 CAAGCTAGTGGCACCTTTTATCCTTTTAGTCCTCAAAGAGCAGGAGCATTTTTCTTTTAAAGCCC
975127 ACA
66 ACA
* * *
975130 CAAGCTAGTGGCATCTTTTATCCTTTTAGTCCTCAAAAAGCAGGACGCCTTTTTCTTTTAAAGCC
1 CAAGCTAGTGGCACCTTTTATCCTTTTAGTCCTCAAAGAGCAGGA-GCATTTTTCTTTTAAAGCC
975195 CACA
65 CACA
* * * * *
975199 CAAGCTAGTGGCACCTTTTATCCTTTCAATCTTCATAGAGCAGGATGCTTTTTTCTTTTTAAAGC
1 CAAGCTAGTGGCACCTTTTATCCTTTTAGTCCTCAAAGAGCAGGA-GCATTTTTC-TTTTAAAGC
975264 CCACA
64 CCACA
* * ** *
975269 CAAGCT-GATGGCACCTTTTATCCCTTTTTGTCATCAAAGAATAGGA-CTCTTTTTCTTTCTCAA
1 CAAGCTAG-TGGCACCTTTTAT-CCTTTTAGTCCTCAAAGAGCAGGAGC-ATTTTTCTTT-T-AA
975332 AGCCCACA
61 AGCCCACA
* * *
975340 TAAGTTGGTGGCACCT
1 CAAGCTAGTGGCACCT
975356 ATCTACTTCA
Statistics
Matches: 192, Mismatches: 24, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
66 42 0.22
68 5 0.03
69 65 0.34
70 40 0.21
71 39 0.20
72 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (68 bp):
CAAGCTAGTGGCACCTTTTATCCTTTTAGTCCTCAAAGAGCAGGAGCATTTTTCTTTTAAAGCCC
ACA
Found at i:976074 original size:20 final size:20
Alignment explanation
Indices: 976049--976100 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
976039 TTTTGACATA
*
976049 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTTC
976069 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
976089 AATGTATCGATA
1 AATGTATCGATA
976101 AATGAGTTCA
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:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:989244 original size:20 final size:20
Alignment explanation
Indices: 989218--989272 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
989208 AAAAAGATAG
*
989218 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
989238 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
989258 AATGTATCGATACAT
1 AATGTATCGATACAT
989273 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:990327 original size:13 final size:13
Alignment explanation
Indices: 990308--990346 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
990298 ACTATTTATG
990308 ATGTATCGATACA
1 ATGTATCGATACA
*
990321 CTGTATCGATACA
1 ATGTATCGATACA
990334 ATGTATCGATACA
1 ATGTATCGATACA
990347 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:990455 original size:43 final size:43
Alignment explanation
Indices: 990404--990501 Score: 196
Period size: 43 Copynumber: 2.3 Consensus size: 43
990394 GTGAACAGTG
990404 TGAACAGTGATGTATCGATACATGAAAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACATGAAAGTGATGTATCGATACA
990447 TGAACAGTGATGTATCGATACATGAAAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACATGAAAGTGATGTATCGATACA
990490 TGAACAGTGATG
1 TGAACAGTGATG
990502 AATAGTGATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (43 bp):
TGAACAGTGATGTATCGATACATGAAAGTGATGTATCGATACA
Found at i:990458 original size:22 final size:22
Alignment explanation
Indices: 990404--990501 Score: 182
Period size: 21 Copynumber: 4.5 Consensus size: 22
990394 GTGAACAGTG
990404 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
990426 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
990447 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
990469 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
990490 TGAACAGTGATG
1 TGAACAGTGATG
990502 AATAGTGATG
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
21 42 0.57
22 32 0.43
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:990508 original size:10 final size:10
Alignment explanation
Indices: 990489--990519 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
990479 GTATCGATAC
990489 ATGAACAGTG
1 ATGAACAGTG
*
990499 ATGAATAGTG
1 ATGAACAGTG
990509 ATGAACAGTG
1 ATGAACAGTG
990519 A
1 A
990520 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:990608 original size:53 final size:54
Alignment explanation
Indices: 990543--990680 Score: 233
Period size: 53 Copynumber: 2.6 Consensus size: 54
990533 CTACTACCAA
990543 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTAC-TGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACATGCCAATGACC
* * *
990596 TGTATCAATACATATTGTGTGTATCGATACAAATTTGGCTACATGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACATGCCAATGACC
990650 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
990681 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 40 0.51
54 25 0.32
55 13 0.17
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (54 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACATGCCAATGACC
Found at i:990713 original size:20 final size:21
Alignment explanation
Indices: 990650--990720 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 21
990640 GCCAATGTCC
**
990650 TGTATCGATACATATT-TGTG
1 TGTATCGATACATATTAAATG
** *
990670 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATATTAAATG
990690 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATTAAATG
990710 TGTATCGATAC
1 TGTATCGATAC
990721 TTTTAAGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATATTAAATG
Found at i:990725 original size:20 final size:20
Alignment explanation
Indices: 990668--990726 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
990658 TACATATTTG
* **
990668 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTTTTAAA
* *
990688 TCTGTATCGATACATTTAAA
1 TGTGTATCGATACTTTTAAA
990708 TGTGTATCGATACTTTTAA
1 TGTGTATCGATACTTTTAA
990727 GGGTTTTGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (20 bp):
TGTGTATCGATACTTTTAAA
Found at i:990786 original size:21 final size:21
Alignment explanation
Indices: 990760--990800 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
990750 GTCAACCTTG
990760 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
990781 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
990801 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:996149 original size:63 final size:63
Alignment explanation
Indices: 996033--996198 Score: 176
Period size: 63 Copynumber: 2.6 Consensus size: 63
996023 CCAGTGACAT
* * * * * * *
996033 TGGG-TTTAAAAGGGTTACCACCAACTTATGTGGGCTTTAGAGTAGGCTACCACCAACTTATG
1 TGGGCTTTAGAAGGGTTGCCACCAGCTTGTGTGGGCTTTAGAGGAGGATACCACCAACTTATA
* *
996095 TGGGCTTTAGAAGGGTTGCCACCAGCTTGTGTGGGCTTTAGAAGGA-GATGCCACCAACTTGTA
1 TGGGCTTTAGAAGGGTTGCCACCAGCTTGTGTGGGCTTTAG-AGGAGGATACCACCAACTTATA
* *
996158 TAGGCTCTTGAGAAGGGTTGCCA-CTGACTTGTGTGGGCTTT
1 TGGGCT-TT-AGAAGGGTTGCCACCAG-CTTGTGTGGGCTTT
996199 GTCGCAATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
62 4 0.05
63 50 0.57
64 7 0.08
65 27 0.31
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (63 bp):
TGGGCTTTAGAAGGGTTGCCACCAGCTTGTGTGGGCTTTAGAGGAGGATACCACCAACTTATA
Found at i:996156 original size:32 final size:31
Alignment explanation
Indices: 996033--996198 Score: 165
Period size: 32 Copynumber: 5.3 Consensus size: 31
996023 CCAGTGACAT
* * *
996033 TGGG-TTTAAAAGGGTTACCACCAACTTATG
1 TGGGCTTTAGAAGGGTTGCCACCAACTTGTG
* * *
996063 TGGGCTTTAG-AGTAGGCTACCACCAACTTATG
1 TGGGCTTTAGAAG--GGTTGCCACCAACTTGTG
*
996095 TGGGCTTTAGAAGGGTTGCCACCAGCTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCAACTTGTG
* *
996126 TGGGCTTTAGAAGGAGATGCCACCAACTTGTA
1 TGGGCTTTAGAAGG-GTTGCCACCAACTTGTG
* **
996158 TAGGCTCTTGAGAAGGGTTGCCACTGACTTGTG
1 TGGGCT-TT-AGAAGGGTTGCCACCAACTTGTG
996191 TGGGCTTT
1 TGGGCTTT
996199 GTCGCAATAT
Statistics
Matches: 114, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
30 6 0.05
31 32 0.28
32 48 0.42
33 22 0.19
34 6 0.05
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACCAACTTGTG
Found at i:996923 original size:20 final size:20
Alignment explanation
Indices: 996900--996965 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
996890 CACACCCAGA
996900 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
996920 TGTATCGATACA-------T
1 TGTATCGATACATGCTGCTT
996933 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
996953 TGTATCGATACAT
1 TGTATCGATACAT
996966 TGTATCAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGCTGCTT
Found at i:996937 original size:13 final size:13
Alignment explanation
Indices: 996919--996945 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
996909 ACATGCTGCT
996919 TTGTATCGATACA
1 TTGTATCGATACA
996932 TTGTATCGATACA
1 TTGTATCGATACA
996945 T
1 T
996946 GCTGCTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:996942 original size:33 final size:33
Alignment explanation
Indices: 996900--996997 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
996890 CACACCCAGA
996900 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCTTTGTATCGATACAT
996933 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCTTTGTATCGATACAT
* * * *
996966 TGTATCAATACAT-ATTCATTGTATCGATACAT
1 TGTATCGATACATGCTGCTTTGTATCGATACAT
996998 GGACAAATTG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 16 0.26
33 45 0.74
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATGCTGCTTTGTATCGATACAT
Found at i:1001890 original size:13 final size:13
Alignment explanation
Indices: 1001872--1001913 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
1001862 ACAACATTCC
1001872 TTGTATCGATACA
1 TTGTATCGATACA
1001885 TTGTATCGATACA
1 TTGTATCGATACA
1001898 TTGTATCGATACA
1 TTGTATCGATACA
1001911 TTG
1 TTG
1001914 GGTACTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1004385 original size:13 final size:13
Alignment explanation
Indices: 1004367--1004393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1004357 ACATGCTACT
1004367 TTGTATCGATACA
1 TTGTATCGATACA
1004380 TTGTATCGATACA
1 TTGTATCGATACA
1004393 T
1 T
1004394 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1004402 original size:19 final size:19
Alignment explanation
Indices: 1004377--1004434 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1004367 TTGTATCGAT
*
1004377 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
1004396 TCATTGTATCGATATATGG
1 ACATTGTATCGATACATGG
1004415 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
1004435 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.53
21 15 0.47
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1005888 original size:51 final size:51
Alignment explanation
Indices: 1005811--1005929 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
1005801 TCAGAAATAA
* ** * *
1005811 CAAGGTTGGAGTATCTATGATTGTGGAAAATCAGTGTTCTGGAAATAAAAC
1 CAAGGTTGGAATATCCCTGATGGTGGAAAATCAGTATTCTGGAAATAAAAC
* ** *
1005862 CAAGGTTGTAATATCCCTGATGGTGGAAAATTGGTATTTTGGAAATAAAAC
1 CAAGGTTGGAATATCCCTGATGGTGGAAAATCAGTATTCTGGAAATAAAAC
* *
1005913 CAGGGTTGGAGTATCCC
1 CAAGGTTGGAATATCCC
1005930 CTCGGAAATA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
CAAGGTTGGAATATCCCTGATGGTGGAAAATCAGTATTCTGGAAATAAAAC
Found at i:1005956 original size:79 final size:79
Alignment explanation
Indices: 1005873--1006107 Score: 231
Period size: 79 Copynumber: 3.0 Consensus size: 79
1005863 AAGGTTGTAA
* ** * **
1005873 TATCCCTGATGGTGGAAAATTGGTATTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAA
1 TATCCCTGATTGTGGAAAATTGGTGGTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAA
*
1005938 TAACGGGGTTGGTG
66 TAACGGGGTTGATG
* * * * * * * *
1005952 TATCCCCGATTATGAAAAATCGGTGGATTGGAAATAAAATCGGGGTTAGAGTATCCCCTCTAAAA
1 TATCCCTGATTGTGGAAAATTGGTGGTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAA
* *
1006017 TAATGAGGTTGATG
66 TAACGGGGTTGATG
* * * * * *
1006031 TAT-TCTCAATTGT-GAAAATTTAGTGGTATGGAAATAAAACTGGGGTTGGAGTCTCCCCTCAAA
1 TATCCCT-GATTGTGGAAAA-TTGGTGGTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAA
1006094 AATAACGGGGTTGA
64 AATAACGGGGTTGA
1006108 ACTATCTACA
Statistics
Matches: 122, Mismatches: 32, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
78 5 0.04
79 117 0.96
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (79 bp):
TATCCCTGATTGTGGAAAATTGGTGGTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAA
TAACGGGGTTGATG
Found at i:1006125 original size:79 final size:79
Alignment explanation
Indices: 1005980--1006127 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 79
1005970 ATCGGTGGAT
* * ** *
1005980 TGGAAATAAAATCGGGGTTAGAGTATCCCCTCTAAAATAATGAGGTTGATGTATTCTCAATTGTG
1 TGGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGAACTATTCTCAATGGTG
1006045 AAAATTTAGTGGTA
66 AAAATTTAGTGGTA
* * *
1006059 TGGAAATAAAA-CTGGGGTTGGAGTCTCCCCTCAAAAATAACGGGGTTGAACTA-TCTACAATGG
1 TGGAAATAAAATC-GGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGAACTATTCT-CAATGG
1006122 TGAAAA
64 TGAAAA
1006128 ATCGATATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
78 4 0.07
79 55 0.93
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
TGGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGAACTATTCTCAATGGTG
AAAATTTAGTGGTA
Found at i:1009055 original size:75 final size:74
Alignment explanation
Indices: 1008940--1009110 Score: 191
Period size: 74 Copynumber: 2.3 Consensus size: 74
1008930 AGGGGCATTC
* * * * * * ** *
1008940 TGCTCCTTGAGGA-TAAAGGAAAAGGAGTACGTCTTGCTCTTTGAGGATAAAGGAAAAGATAATG
1 TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGA-AATA
*
1009004 AAATGGGTCA
65 AAATGCGTCA
1009014 TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGAAATAA
1 TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGAAATAA
*
1009079 AATGCGTCC
66 AATGCGTCA
* * * *
1009088 TACTCTTTGAAGACAAAGGAAAA
1 TGCTCCTTGAGGACAAAAGAAAA
1009111 TAAGGAAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 43 0.53
75 38 0.47
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (74 bp):
TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGAAATAA
AATGCGTCA
Found at i:1009173 original size:42 final size:41
Alignment explanation
Indices: 1009046--1009268 Score: 281
Period size: 41 Copynumber: 5.4 Consensus size: 41
1009036 AAGGAGTACA
* *
1009046 TCCTGCTCTTCGAGGACAAA--AAAAAAGAAATAAAATGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGCG
* * * *
1009085 TCCTACTCTTTGAAGACAAAGGAAAATAAGGAAATTAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAA-AA-GAAATAAAGTGCG
*
1009128 TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAAGAAATAAAGTGCG
* * *
1009170 TCCTGCTCTTTGAGGACAATGGGAAAAAGAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGCG
*
1009211 TCCTGCTCTTTGAGGACAAAGTG-AAAAAGAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAG-GAAAAAAGAAATAAAGTGCG
*
1009252 TCCTGCTTTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1009269 TAAAAGATGT
Statistics
Matches: 161, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 17 0.11
41 74 0.46
42 35 0.22
43 32 0.20
44 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGCG
Found at i:1009406 original size:61 final size:61
Alignment explanation
Indices: 1009331--1009638 Score: 442
Period size: 61 Copynumber: 5.1 Consensus size: 61
1009321 TGCACTTTAG
**
1009331 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAA-GCGTCCTACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTCCTACTCTTTGA
* *
1009392 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTGTCCTACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
* * * *
1009453 GGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
** * *
1009514 GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATACTACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
* * * *
1009575 GGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGG-AAA-GTGTCATACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
1009634 GGACT
1 GGACT
1009639 GAATGGATAA
Statistics
Matches: 226, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
59 17 0.08
60 6 0.03
61 203 0.90
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (61 bp):
GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
Found at i:1009493 original size:122 final size:122
Alignment explanation
Indices: 1009260--1009638 Score: 496
Period size: 122 Copynumber: 3.1 Consensus size: 122
1009250 CATCCTGCTT
* * * *
1009260 TTTGAGGACTAAAAGATGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTGTCCTGCA
1 TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAA-G---GTGTCCTACT
*
1009325 CTTT-AGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCGTCCTACTC
61 CTTTGA-GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCTACTC
* *
1009387 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTGTCCTACTCTTTG
1 TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTG
* * * * *
1009452 AGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTGCTC
66 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAA-GCGTCCTACTC
* ** *
1009509 TTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATACTACTCTTTG
1 TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTG
* * *
1009574 AGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTGAAA-G-GAAAGTGTCATACTC
66 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCTACTC
1009629 TTTGAGGACT
1 TTTGAGGACT
1009639 GAATGGATAA
Statistics
Matches: 223, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
120 17 0.08
121 7 0.03
122 152 0.68
123 1 0.00
125 1 0.00
126 4 0.02
127 41 0.18
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (122 bp):
TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTG
AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCTACTC
Found at i:1009573 original size:183 final size:185
Alignment explanation
Indices: 1009260--1009641 Score: 553
Period size: 183 Copynumber: 2.1 Consensus size: 185
1009250 CATCCTGCTT
*
1009260 TTTGAGGACT-AAAAGATGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTGTCCTGC
1 TTTGAGGACTGAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAA--GTCCTGC
** ** * *
1009324 ACTTTAGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCGTCCTACTCTT
64 ACTTTAGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATACTACTCTT
*
1009389 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTGTCCTACTC
129 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GTGTCATACTC
* * *
1009448 TTTGAGGACTGGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGG-CA-TCCTGCTC
1 TTTGAGGACTGAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTCCTGCAC
1009509 TTT-GAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATACTACTCTT
66 TTTAG-GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA-GCATACTACTCTT
*
1009572 TGAGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAAGTGTCATACTC
129 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCATACTC
1009629 TTTGAGGACTGAA
1 TTTGAGGACTGAA
1009642 TGGATAAAAG
Statistics
Matches: 178, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
181 22 0.12
182 7 0.04
183 100 0.56
186 1 0.01
187 6 0.03
188 38 0.21
189 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (185 bp):
TTTGAGGACTGAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTCCTGCAC
TTTAGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATACTACTCTTTG
AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCATACTC
Found at i:1010631 original size:19 final size:17
Alignment explanation
Indices: 1010607--1010652 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1010597 CTTAAGCATG
*
1010607 TTCTTTTCTTTACTTTTTT
1 TTCTTTT-TTT-CTCTTTT
1010626 TTCTTTTTTTCTCTTTT
1 TTCTTTTTTTCTCTTTT
*
1010643 TTATTTTTTT
1 TTCTTTTTTT
1010653 TGTTTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.60
18 3 0.12
19 7 0.28
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (17 bp):
TTCTTTTTTTCTCTTTT
Found at i:1010633 original size:9 final size:9
Alignment explanation
Indices: 1010607--1010661 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
1010597 CTTAAGCATG
1010607 TTCTTTTCTT
1 TTCTTTT-TT
*
1010617 TACTTTTTT
1 TTCTTTTTT
1010626 TTC-TTTTT
1 TTCTTTTTT
*
1010634 TTCTCTTTT
1 TTCTTTTTT
*
1010643 TTATTTTTT
1 TTCTTTTTT
*
1010652 TTGTTTTTT
1 TTCTTTTTT
1010661 T
1 T
1010662 GTTTTTTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
8 8 0.21
9 24 0.63
10 6 0.16
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.84
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:1010634 original size:8 final size:8
Alignment explanation
Indices: 1010607--1010668 Score: 52
Period size: 8 Copynumber: 7.1 Consensus size: 8
1010597 CTTAAGCATG
1010607 TTCTTTTCT
1 TTCTTTT-T
1010616 TTACTTTTTT
1 TT-C-TTTTT
1010626 TTCTTTTT
1 TTCTTTTT
1010634 TTCTCTTTT
1 TTCT-TTTT
*
1010643 TTATTTTTT
1 TT-CTTTTT
*
1010652 TTGTTTTT
1 TTCTTTTT
*
1010660 TTGTTTTT
1 TTCTTTTT
1010668 T
1 T
1010669 AGAAAAAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
8 23 0.49
9 15 0.32
10 5 0.11
11 4 0.09
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.84
Consensus pattern (8 bp):
TTCTTTTT
Found at i:1010645 original size:27 final size:26
Alignment explanation
Indices: 1010607--1010666 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
1010597 CTTAAGCATG
1010607 TTCTTTTCTTTACTTTTTTTTCTTTTT
1 TTCTTTTCTTTA-TTTTTTTTCTTTTT
*
1010634 TTCTCTTT-TTTATTTTTTTTGTTTTT
1 TTCT-TTTCTTTATTTTTTTTCTTTTT
*
1010660 TTGTTTT
1 TTCTTTT
1010667 TTAGAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 3 0.10
26 16 0.53
27 8 0.27
28 3 0.10
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.83
Consensus pattern (26 bp):
TTCTTTTCTTTATTTTTTTTCTTTTT
Found at i:1013609 original size:32 final size:31
Alignment explanation
Indices: 1013535--1013611 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
1013525 GAGTAGGCTA
* * * *
1013535 CCACCAACTTATGTGGGCTTTAGAAGGGTTG
1 CCACCAACTTGTATGGGCTTTAAAAGGGATG
*
1013566 CCACCAGCTTGTATGGGCTTTAAAAGGAGATG
1 CCACCAACTTGTATGGGCTTTAAAAGG-GATG
1013598 CCACCAACTTGTAT
1 CCACCAACTTGTAT
1013612 AGTCTCTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 23 0.59
32 16 0.41
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (31 bp):
CCACCAACTTGTATGGGCTTTAAAAGGGATG
Found at i:1014376 original size:20 final size:20
Alignment explanation
Indices: 1014353--1014418 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1014343 CACACCCAGA
1014353 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
1014373 TGTATCGATACA-------T
1 TGTATCGATACATGCTGCTT
1014386 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
1014406 TGTATCGATACAT
1 TGTATCGATACAT
1014419 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGCTGCTT
Found at i:1014390 original size:13 final size:13
Alignment explanation
Indices: 1014372--1014431 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
1014362 ACATGCTGCT
1014372 TTGTATCGATACA
1 TTGTATCGATACA
1014385 TTGTATCGATACA
1 TTGTATCGATACA
* *
1014398 -TG---C--TGCT
1 TTGTATCGATACA
1014405 TTGTATCGATACA
1 TTGTATCGATACA
1014418 TTGTATCGATACA
1 TTGTATCGATACA
1014431 T
1 T
1014432 ATTCATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 1 0.03
11 1 0.03
12 2 0.05
13 29 0.78
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1014395 original size:33 final size:33
Alignment explanation
Indices: 1014353--1014450 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
1014343 CACACCCAGA
1014353 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCTTTGTATCGATACAT
1014386 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCTTTGTATCGATACAT
* * *
1014419 TGTATCGATACAT-ATTCATTGTATCGATACAT
1 TGTATCGATACATGCTGCTTTGTATCGATACAT
1014451 GGACAAATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 16 0.26
33 46 0.74
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATGCTGCTTTGTATCGATACAT
Found at i:1020362 original size:13 final size:13
Alignment explanation
Indices: 1020344--1020372 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1020334 ACAACATTCC
1020344 TTGTATCGATACA
1 TTGTATCGATACA
1020357 TTGTATCGATACA
1 TTGTATCGATACA
1020370 TTG
1 TTG
1020373 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1023022 original size:20 final size:19
Alignment explanation
Indices: 1022992--1023029 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1022982 ATAATTTCAA
*
1022992 ATCAATGTATCGATACATT
1 ATCAATGTATCAATACATT
1023011 ATCAATTGTATCAATACAT
1 ATCAA-TGTATCAATACAT
1023030 GGCTACAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
ATCAATGTATCAATACATT
Found at i:1024351 original size:51 final size:51
Alignment explanation
Indices: 1024274--1024392 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
1024264 TCAGAAATAA
* ** * *
1024274 CAAGGTTGGAGTATCTATGATTGTGGAAAATCAGTGTTCTGGAAATAAAAC
1 CAAGGTTGGAATATCCCTGATGGTGGAAAATCAGTATTCTGGAAATAAAAC
* ** *
1024325 CAAGGTTGTAATATCCCTGATGGTGGAAAATTGGTATTTTGGAAATAAAAC
1 CAAGGTTGGAATATCCCTGATGGTGGAAAATCAGTATTCTGGAAATAAAAC
* *
1024376 CAGGGTTGGAGTATCCC
1 CAAGGTTGGAATATCCC
1024393 CTCGGAAATA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
CAAGGTTGGAATATCCCTGATGGTGGAAAATCAGTATTCTGGAAATAAAAC
Found at i:1024419 original size:79 final size:79
Alignment explanation
Indices: 1024336--1024569 Score: 254
Period size: 79 Copynumber: 3.0 Consensus size: 79
1024326 AAGGTTGTAA
* * ** * **
1024336 TATCCCTGATGGTGGAAAATTGGTATTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAA
1 TATCCCTGATTGTGAAAAATTGGTGCTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAA
1024401 TAACGGGGTTGGAG
66 TAACGGGGTTGGAG
* * * * * * *
1024415 TATCCCCGATTATGAAAAATCGGTGCATTGGAAATAAAATCGGGGTTAGAGTATCCCCTCTAAAA
1 TATCCCTGATTGTGAAAAATTGGTGCTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAA
* *
1024480 TAATGAGGTTGGAG
66 TAACGGGGTTGGAG
* * * * * *
1024494 TAT-TCTCGATTGTGAAAAATTAGTGGTATGGAAATAAAACTGGGGTTGGAGTCTCCCCTCAAAA
1 TATCCCT-GATTGTGAAAAATTGGTGCTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAA
1024558 ATAACGGGGTTG
65 ATAACGGGGTTG
1024570 AACTATCTAC
Statistics
Matches: 124, Mismatches: 30, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
78 1 0.01
79 123 0.99
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
TATCCCTGATTGTGAAAAATTGGTGCTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAA
TAACGGGGTTGGAG
Found at i:1024588 original size:79 final size:78
Alignment explanation
Indices: 1024363--1024593 Score: 241
Period size: 79 Copynumber: 2.9 Consensus size: 78
1024353 AATTGGTATT
** ** * *
1024363 TTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTAT
1 TTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT-CTCGATTGT
*
1024428 GAAAAATCGGTGCA
65 GAAAAATCAGTGCA
* * * *
1024442 TTGGAAATAAAA-TCGGGGTTAGAGTATCCCCTCTAAAATAATGAGGTTGGAGTATTCTCGATTG
1 TTGGAAATAAAACT-GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTA-TCTCGATTG
* *
1024506 TGAAAAATTAGTG-G
64 TGAAAAATCAGTGCA
* * * * *
1024520 TATGGAAATAAAACTGGGGTTGGAGTCTCCCCTCAAAAATAACGGGGTTGAACTATCTACAATGG
1 T-TGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCT-CGATTG
1024585 TGAAAAATC
64 TGAAAAATC
1024594 GATATTTTAG
Statistics
Matches: 125, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 4 0.03
79 119 0.95
80 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (78 bp):
TTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCTCGATTGTG
AAAAATCAGTGCA
Found at i:1027513 original size:75 final size:74
Alignment explanation
Indices: 1027401--1027571 Score: 200
Period size: 74 Copynumber: 2.3 Consensus size: 74
1027391 AGGGGCATTC
* * * * * ** *
1027401 TGCTCCTTGAGGA-TAAAGGAAAAGGAGTACGTCCTGCTCTTTGAGGATAAAGGAAAAGAGAATG
1 TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGA-AATA
*
1027465 AAATGGGTCA
65 AAATGCGTCA
1027475 TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGAAATAA
1 TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGAAATAA
*
1027540 AATGCGTCC
66 AATGCGTCA
* * * *
1027549 TACTCTTTGAAGACAAAGGAAAA
1 TGCTCCTTGAGGACAAAAGAAAA
1027572 TAAGGAAATT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 43 0.52
75 39 0.48
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (74 bp):
TGCTCCTTGAGGACAAAAGAAAAAGGAGTACATCCTGCTCTTCGAGGACAAAAAAAAAGAAATAA
AATGCGTCA
Found at i:1027634 original size:42 final size:41
Alignment explanation
Indices: 1027507--1027729 Score: 272
Period size: 41 Copynumber: 5.4 Consensus size: 41
1027497 AAGGAGTACA
* *
1027507 TCCTGCTCTTCGAGGACAAA--AAAAAAGAAATAAAATGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGCG
* * * *
1027546 TCCTACTCTTTGAAGACAAAGGAAAATAAGGAAATTAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAA-AA-GAAATAAAGTGCG
* *
1027589 TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATAACGTGCG
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAAGAAATAAAGTGCG
* * *
1027631 TCCTGCTCTTTGAGGACAATGGGAAAAAGAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGCG
*
1027672 TCCTGCTCTTTGAGGACAAAGTG-AAAAAGAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAG-GAAAAAAGAAATAAAGTGCG
*
1027713 TCCTGCTTTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1027730 TAAAAGATGT
Statistics
Matches: 159, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 17 0.11
41 73 0.46
42 34 0.21
43 32 0.20
44 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGCG
Found at i:1027866 original size:61 final size:61
Alignment explanation
Indices: 1027792--1028099 Score: 433
Period size: 61 Copynumber: 5.1 Consensus size: 61
1027782 TGCACTTTAG
* **
1027792 GGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAA-GCGTCCTACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTCCTACTCTTTGA
* *
1027853 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTGTCCTACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
* * * *
1027914 GGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
** * *
1027975 GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATACTACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
* * * *
1028036 GGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGG-AAA-GTGTCATACTCTTTGA
1 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
1028095 GGACT
1 GGACT
1028100 GAATGGATAA
Statistics
Matches: 225, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
59 17 0.08
60 6 0.03
61 202 0.90
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (61 bp):
GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGA
Found at i:1027954 original size:122 final size:122
Alignment explanation
Indices: 1027721--1028099 Score: 487
Period size: 122 Copynumber: 3.1 Consensus size: 122
1027711 CATCCTGCTT
* * * *
1027721 TTTGAGGACTAAAAGATGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTGTCCTGCA
1 TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAA-G---GTGTCCTACT
* *
1027786 CTTT-AGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAAGCGTCCTACTC
61 CTTTGA-GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCTACTC
* *
1027848 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTGTCCTACTCTTTG
1 TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTG
* * * * *
1027913 AGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTGCTC
66 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAA-GCGTCCTACTC
* ** *
1027970 TTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATACTACTCTTTG
1 TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTG
* * *
1028035 AGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTGAAA-G-GAAAGTGTCATACTC
66 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCTACTC
1028090 TTTGAGGACT
1 TTTGAGGACT
1028100 GAATGGATAA
Statistics
Matches: 222, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
120 17 0.08
121 7 0.03
122 151 0.68
123 1 0.00
125 1 0.00
126 4 0.02
127 41 0.18
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (122 bp):
TTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTG
AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCGTCCTACTC
Found at i:1028034 original size:183 final size:185
Alignment explanation
Indices: 1027721--1028102 Score: 544
Period size: 183 Copynumber: 2.1 Consensus size: 185
1027711 CATCCTGCTT
*
1027721 TTTGAGGACT-AAAAGATGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTGTCCTGC
1 TTTGAGGACTGAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAA--GTCCTGC
** ** * *
1027785 ACTTTAGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAAGCGTCCTACTCTT
64 ACTTTAGGGACTAGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAGAAAGCATACTACTCTT
*
1027850 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTGTCCTACTC
129 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GTGTCATACTC
* * *
1027909 TTTGAGGACTGGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGG-CA-TCCTGCTC
1 TTTGAGGACTGAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTCCTGCAC
*
1027970 TTT-GAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATACTACTCTT
66 TTTAG-GGACTAGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAGAAA-GCATACTACTCTT
*
1028033 TGAGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAAGTGTCATACTC
129 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCATACTC
1028090 TTTGAGGACTGAA
1 TTTGAGGACTGAA
1028103 TGGATAAAAG
Statistics
Matches: 177, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
181 22 0.12
182 7 0.04
183 99 0.56
186 1 0.01
187 6 0.03
188 38 0.21
189 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (185 bp):
TTTGAGGACTGAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGTCCTGCAC
TTTAGGGACTAGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAGAAAGCATACTACTCTTTG
AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCATACTC
Found at i:1029093 original size:8 final size:8
Alignment explanation
Indices: 1029076--1029129 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
1029066 TGTTCTTTTC
1029076 TTTTCTTTT
1 TTTTC-TTT
1029085 TTTTCTTT
1 TTTTCTTT
1029093 TTTTCTCTT
1 TTTTCT-TT
*
1029102 TTTTATTTT
1 TTTT-CTTT
*
1029111 TTTTGTTT
1 TTTTCTTT
*
1029119 TTTTGTTT
1 TTTTCTTT
1029127 TTT
1 TTT
1029130 AGAAAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
8 23 0.56
9 17 0.41
10 1 0.02
ACGTcount: A:0.02, C:0.07, G:0.04, T:0.87
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1029098 original size:17 final size:17
Alignment explanation
Indices: 1029076--1029129 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
1029066 TGTTCTTTTC
*
1029076 TTTTCTTTTTTTTCTTT
1 TTTTCTTTTTTTTATTT
*
1029093 TTTTCTCTTTTTTATTT
1 TTTTCTTTTTTTTATTT
*
1029110 TTTT-TGTTTTTTTGTTT
1 TTTTCT-TTTTTTTATTT
1029127 TTT
1 TTT
1029130 AGAAAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 1 0.03
17 31 0.97
ACGTcount: A:0.02, C:0.07, G:0.04, T:0.87
Consensus pattern (17 bp):
TTTTCTTTTTTTTATTT
Found at i:1029129 original size:9 final size:9
Alignment explanation
Indices: 1029068--1029122 Score: 67
Period size: 9 Copynumber: 6.1 Consensus size: 9
1029058 CTTAAGCATG
1029068 TTCTTTTCTT
1 TTCTTTT-TT
1029078 TTCTTTTTT
1 TTCTTTTTT
1029087 TTC-TTTTT
1 TTCTTTTTT
*
1029095 TTCTCTTTT
1 TTCTTTTTT
*
1029104 TTATTTTTT
1 TTCTTTTTT
*
1029113 TTGTTTTTT
1 TTCTTTTTT
1029122 T
1 T
1029123 GTTTTTTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
8 8 0.20
9 25 0.62
10 7 0.17
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:1034937 original size:51 final size:50
Alignment explanation
Indices: 1034859--1034974 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 50
1034849 GAAATAACGG
* *
1034859 GGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAAATAAAACTGA
1 GGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTTGAAAATAAAACT-A
* * *
1034910 GGTTGGAGTAT-CCTCGATGGTGGAAAATCGGTGTTTTGGAAATAAAACTA
1 GGTTGGAGTATCCCT-GATGGTGAAAAATCGATGTTTTGAAAATAAAACTA
1034960 GGATTGGAGTATCCC
1 GG-TTGGAGTATCCC
1034975 CTCGAAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
50 6 0.11
51 49 0.86
52 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTTGAAAATAAAACTA
Found at i:1034991 original size:79 final size:78
Alignment explanation
Indices: 1034908--1035193 Score: 326
Period size: 79 Copynumber: 3.6 Consensus size: 78
1034898 AAATAAAACT
* * * *
1034908 GAGGTTGGAGTATCCTCGATGGTGGAAAATCGGTGTTTTGGAAATAAAACTAGGATTGGAGTATC
1 GAGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGGTTTGGAAATAAAACAAGG-TTGGAGTATC
1034973 CCCTCGAAAATAAC
65 CCCTCGAAAATAAC
1034987 GAGGTTGGAGTATCCCCGAT--TAGGAAAATTCAGTGGTTTGGAAATAAAACCAAGGTTGGAGTA
1 GAGGTTGGAGTATCCCCGATGGT-GGAAAA-TCAGTGGTTTGGAAATAAAA-CAAGGTTGGAGTA
*
1035050 TCCCTTC-AGAAATAAC
63 TCCCCTCGA-AAATAAC
* * * ** * * * *
1035066 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGGATTGGAAGTAAAACCAGGGTTAGAGTATC
1 GAGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGGTTTGGAAATAAAA-CAAGGTTGGAGTATC
1035131 CCCTCGAAAATAAC
65 CCCTCGAAAATAAC
* * ** *
1035145 GGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTATTTTAGAAATAAAA
1 GAGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGGTTTGGAAATAAAA
1035194 ACATTAATGA
Statistics
Matches: 176, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 7 0.04
79 157 0.89
80 10 0.06
81 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (78 bp):
GAGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGGTTTGGAAATAAAACAAGGTTGGAGTATCC
CCTCGAAAATAAC
Found at i:1035046 original size:130 final size:130
Alignment explanation
Indices: 1034813--1035052 Score: 333
Period size: 130 Copynumber: 1.8 Consensus size: 130
1034803 AAATTTAATA
* * * * *
1034813 TTTTGGAGATAAAAATGGGGTTGGAGTATCCCCTTCGAAATAACGGGGTTGGAGTATCCCTGATT
1 TTTTGGAAATAAAAATAGGATTGGAGTATCCCCTTCGAAATAACGAGGTTGGAGTATCCCCGATT
* * **
1034878 GTGAAAAATTGATGTTTTGAAAATAAAACTGAGGTTGGAGTATCCTCGATGGTGGAAAATCGGTG
66 GTGAAAAATTCATGGTTTGAAAATAAAACCAAGGTTGGAGTATCCTCGATGGTGGAAAATCGGTG
*
1034943 TTTTGGAAATAAAACTAGGATTGGAGTATCCCC-TCGAAAATAACGAGGTTGGAGTATCCCCGAT
1 TTTTGGAAATAAAAATAGGATTGGAGTATCCCCTTCG-AAATAACGAGGTTGGAGTATCCCCGAT
*
1035007 TAG-G-AAAATTCAGTGGTTTGGAAATAAAACCAAGGTTGGAGTATCC
65 T-GTGAAAAATTCA-TGGTTTGAAAATAAAACCAAGGTTGGAGTATCC
1035053 CTTCAGAAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
129 10 0.10
130 85 0.89
131 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (130 bp):
TTTTGGAAATAAAAATAGGATTGGAGTATCCCCTTCGAAATAACGAGGTTGGAGTATCCCCGATT
GTGAAAAATTCATGGTTTGAAAATAAAACCAAGGTTGGAGTATCCTCGATGGTGGAAAATCGGTG
Found at i:1037607 original size:50 final size:50
Alignment explanation
Indices: 1037523--1037650 Score: 195
Period size: 50 Copynumber: 2.6 Consensus size: 50
1037513 TACCTCAATG
*
1037523 TATCGATACAATG-AGAAATGTATCGATACATCTAGGTAAAACCCAGAATA
1 TATCGATACAATGAAG-AATGTATCGATACATCTAGGTAAAACCCAAAATA
* * * *
1037573 TATTGATATAATGAATAATGTATCGATACATCTAGGTAAAACCCAAAATG
1 TATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAACCCAAAATA
1037623 TATCGATACAATGAAGAATGTATCGATA
1 TATCGATACAATGAAGAATGTATCGATA
1037651 TAAATTGTGG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 68 0.99
51 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (50 bp):
TATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAACCCAAAATA
Done.