Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 121 of 253
Found at i:38335364 original size:30 final size:30
Alignment explanation
Indices: 38335300--38335364 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
38335290 CTTATTTTAT
**
38335300 TGTTAATTTTGTTATTATTTTAAAGACATT
1 TGTTAATTTTGTTATTATTTTAAAGACAAG
*
38335330 TGTTAATTTTGTTATTATTTTAGAGACAAG
1 TGTTAATTTTGTTATTATTTTAAAGACAAG
38335360 TGTTA
1 TGTTA
38335365 TTTAAGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACAAG
Found at i:38342418 original size:43 final size:42
Alignment explanation
Indices: 38342352--38342547 Score: 155
Period size: 43 Copynumber: 4.6 Consensus size: 42
38342342 CACAAGTACA
** * *
38342352 ATGCCAACGTCCCAGACATGGTCTTACATTTAATTC-AATATCG
1 ATGCCAATATCCCAGACATGGTCTTACA-TGAAATCAAATA-CG
** *
38342395 ATGCCTCTATCCCAGACAAGGTCTTACATGAAATCAAATACG
1 ATGCCAATATCCCAGACATGGTCTTACATGAAATCAAATACG
* * *
38342437 ATGCCAATGTCCCAGACATGGTCTTATATGTAAATCTCAAT-CG
1 ATGCCAATATCCCAGACATGGTCTTACATG-AAATC-AAATACG
** * * * *
38342480 -TGGCCTGTGTCCCAGACATGGTCTTACACGATATCAGATACG
1 AT-GCCAATATCCCAGACATGGTCTTACATGAAATCAAATACG
* * *
38342522 ATGCCAATTTCCTAGGCATGGTCTTA
1 ATGCCAATATCCCAGACATGGTCTTA
38342548 TACGTAAATC
Statistics
Matches: 122, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 58 0.48
43 59 0.48
44 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACATGAAATCAAATACG
Found at i:38342495 original size:85 final size:85
Alignment explanation
Indices: 38342352--38342593 Score: 283
Period size: 85 Copynumber: 2.8 Consensus size: 85
38342342 CACAAGTACA
* * * * *
38342352 ATGCCAACGTCCCAGACATGGTCTTACAT-TTAAT-TCAATATCGAT-GCCTCTATCCCAGACAA
1 ATGCCAATGTCCCAGACATGGTCTTATATGTAAATCTC-A-ATCG-TGGCCTATGTCCCAGACAA
*
38342414 GGTCTTACATGAAATCAAATACG
63 GGTCTTACACGAAATCAAATACG
* *
38342437 ATGCCAATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGTGGCCTGTGTCCCAGACATGGT
1 ATGCCAATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGTGGCCTATGTCCCAGACAAGGT
* *
38342502 CTTACACGATATCAGATACG
66 CTTACACGAAATCAAATACG
* * * * * * *
38342522 ATGCCAATTTCCTAGGCATGGTCTTATACGTAAATCTCAATCGAGGCCTATGTCCCAAACACGGT
1 ATGCCAATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGTGGCCTATGTCCCAGACAAGGT
38342587 CTTACAC
66 CTTACAC
38342594 AATATCTCAG
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 129 0.94
86 5 0.04
87 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTATATGTAAATCTCAATCGTGGCCTATGTCCCAGACAAGGT
CTTACACGAAATCAAATACG
Found at i:38342599 original size:85 final size:85
Alignment explanation
Indices: 38342404--38342621 Score: 269
Period size: 85 Copynumber: 2.5 Consensus size: 85
38342394 GATGCCTCTA
* * * * *
38342404 TCCCAGACAAGGTCTTACATGAA-ATCAAATACGATGCCAATGTCCCAGACATGGTCTTATATGT
1 TCCCAGACAAGGTCTTACA-CAATATCAGATACGATGCCAATTTCCTAGACATGGTCTTATACGT
* *
38342468 AAATCTCAATCGTGGCCTGTG
65 AAATCTCAATCGAGGCCTATG
* * *
38342489 TCCCAGACATGGTCTTACACGATATCAGATACGATGCCAATTTCCTAGGCATGGTCTTATACGTA
1 TCCCAGACAAGGTCTTACACAATATCAGATACGATGCCAATTTCCTAGACATGGTCTTATACGTA
38342554 AATCTCAATCGAGGCCTATG
66 AATCTCAATCGAGGCCTATG
* * *
38342574 TCCCAAACACGGTCTTACACAATATCTCAGATA-GATGTCAATGTTCCT
1 TCCCAGACAAGGTCTTACACAATA--TCAGATACGATGCCAAT-TTCCT
38342622 TTAGAAGCAT
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
84 1 0.01
85 94 0.82
86 8 0.07
87 12 0.10
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (85 bp):
TCCCAGACAAGGTCTTACACAATATCAGATACGATGCCAATTTCCTAGACATGGTCTTATACGTA
AATCTCAATCGAGGCCTATG
Found at i:38344661 original size:46 final size:48
Alignment explanation
Indices: 38344551--38344871 Score: 263
Period size: 46 Copynumber: 6.8 Consensus size: 48
38344541 TGCTTATTGT
* * *
38344551 GAGCTAGTGTAAGACCATGTCTGGGACATGGAGTCGGCATTGAGAAG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCA-TCGGCATCGAGATGTA
* * *
38344599 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATTGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGATGTA
38344646 -AGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGC-TACGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGATGTA
* * ** *
38344691 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAAGGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGATGT-A
* * **
38344739 GAGCTAGTGTAAGACCATGTCTGGGACATGGAGTCGGCCTCGATTTCG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCA-TCGGCATCGAGAT-GTA
* * * ** *
38344788 TAG-TCAGTGTAAGACCATGTTTGGGACATGACATC--TA-CTTGATGGA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATG-CATCGGCATCGAGATGTA
*
38344834 TGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGG
1 -GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGG
38344872 TATTATACCC
Statistics
Matches: 222, Mismatches: 32, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.04
45 17 0.08
46 67 0.30
47 48 0.22
48 15 0.07
49 32 0.14
50 33 0.15
51 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGATGTA
Found at i:38355473 original size:7 final size:7
Alignment explanation
Indices: 38355454--38355551 Score: 151
Period size: 7 Copynumber: 13.6 Consensus size: 7
38355444 TTCAATTCAA
38355454 GTTTAGG
1 GTTTAGG
38355461 GTTTTAGG
1 G-TTTAGG
38355469 GTTTAGG
1 GTTTAGG
38355476 GTTTAGG
1 GTTTAGG
38355483 GTTTTAGG
1 G-TTTAGG
*
38355491 GTTTAGA
1 GTTTAGG
38355498 GTTTAGG
1 GTTTAGG
*
38355505 GTTTAAG
1 GTTTAGG
38355512 GTTTAGG
1 GTTTAGG
38355519 GTTTAGG
1 GTTTAGG
38355526 GTTTAGG
1 GTTTAGG
38355533 GTTTTAGG
1 G-TTTAGG
38355541 GTTTAGG
1 GTTTAGG
38355548 GTTT
1 GTTT
38355552 GTTTTCAATT
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
7 63 0.75
8 21 0.25
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:38355482 original size:22 final size:22
Alignment explanation
Indices: 38355454--38355551 Score: 155
Period size: 22 Copynumber: 4.5 Consensus size: 22
38355444 TTCAATTCAA
38355454 GTTTAGGGTTTTAGGGTTTAGG
1 GTTTAGGGTTTTAGGGTTTAGG
*
38355476 GTTTAGGGTTTTAGGGTTTAGA
1 GTTTAGGGTTTTAGGGTTTAGG
*
38355498 GTTTAGGG-TTTAAGGTTTAGG
1 GTTTAGGGTTTTAGGGTTTAGG
38355519 GTTTAGGG-TTTAGGGTTTTAGG
1 GTTTAGGGTTTTAGGG-TTTAGG
38355541 GTTTAGGGTTT
1 GTTTAGGGTTT
38355552 GTTTTCAATT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
21 25 0.36
22 43 0.61
23 2 0.03
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (22 bp):
GTTTAGGGTTTTAGGGTTTAGG
Found at i:38359098 original size:50 final size:50
Alignment explanation
Indices: 38359023--38359124 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
38359013 CCATTGCAAC
38359023 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
* *
38359073 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
38359123 AA
1 AA
38359125 AGTGGTAGCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
Found at i:38359136 original size:44 final size:44
Alignment explanation
Indices: 38359021--38359142 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 44
38359011 GACCATTGCA
*
38359021 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGG
1 ACAAGTGAAAAGTGATAGCTTCGGCTACACTTATCTGATCAAGG
* *
38359065 AAAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATG
1 ACAAGTG--A---A-AAGTGATAGCTTCGGCTACACTTATCTGATCAAGG
* *
38359115 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGAAAAGTGATAGCTTCGGCTAC
38359143 CTGATCCGTG
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
44 23 0.35
45 1 0.02
46 1 0.02
48 1 0.02
50 40 0.61
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (44 bp):
ACAAGTGAAAAGTGATAGCTTCGGCTACACTTATCTGATCAAGG
Found at i:38359157 original size:31 final size:31
Alignment explanation
Indices: 38359118--38359290 Score: 251
Period size: 31 Copynumber: 5.6 Consensus size: 31
38359108 ATCAATGACA
*
38359118 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
38359149 CGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
38359180 AGTGAAAAGTGGTTG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
38359211 AGTGAAAAGTGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
38359242 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
38359273 AGTGAATAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTT
38359291 TGGATACAAG
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
30 3 0.02
31 123 0.97
32 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:38359386 original size:47 final size:46
Alignment explanation
Indices: 38359317--38359438 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 46
38359307 GTGATTTCCG
* *
38359317 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTA
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-A
* * * *
38359364 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
* * *
38359410 TGTAAGACCATAGCTGGGCTATGGCATCG
1 TATAAGACCATATCTGGGATATGGCATCG
38359439 ATATATGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 25 0.38
47 40 0.62
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
Found at i:38359516 original size:42 final size:42
Alignment explanation
Indices: 38359409--38359523 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
38359399 TATGTGATTC
*
38359409 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
* * *
38359451 GTGTAAGACTATAGCCGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
* **
38359493 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
38359524 GAAAATGAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:38361571 original size:13 final size:14
Alignment explanation
Indices: 38361553--38361583 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
38361543 GCGAGATTTG
38361553 TACAACATAC-ACA
1 TACAACATACAACA
38361566 TACAACATACAACA
1 TACAACATACAACA
38361580 TACA
1 TACA
38361584 TGGCAGACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
TACAACATACAACA
Found at i:38361573 original size:7 final size:7
Alignment explanation
Indices: 38361553--38361583 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
38361543 GCGAGATTTG
38361553 TACAACA
1 TACAACA
38361560 TAC-ACA
1 TACAACA
38361566 TACAACA
1 TACAACA
38361573 TACAACA
1 TACAACA
38361580 TACA
1 TACA
38361584 TGGCAGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (7 bp):
TACAACA
Found at i:38367819 original size:63 final size:63
Alignment explanation
Indices: 38367600--38367823 Score: 182
Period size: 67 Copynumber: 3.4 Consensus size: 63
38367590 TATAGTGCTG
* * * * *
38367600 AGTGCACATCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATA
1 AGTGTACACCATGTGTACAAGAGAGCTAC--GAGA-TA-AATG-AGCTAGGTCGCATGGGTGGTA
38367665 CTA
61 CTA
* * * * * ** * *
38367668 TGTGTACACCATGTATACAAGAGAGCTACGGGATATATGTAGCTAAGTCGCATGCATGGTTCCA
1 AGTGTACACCATGTGTACAAGAGAGCTACGAGATAAATG-AGCTAGGTCGCATGGGTGGTACTA
* *
38367732 AGTGAAGGACACCATGTAG-ACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTA
1 AGT---GTACACCATGT-GTACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCGCATGGGTGGTA
38367795 CTA
61 CTA
*
38367798 AGTGTTCACCATGTGTACAAGAGAGC
1 AGTGTACACCATGTGTACAAGAGAGC
38367824 CAAACTATAT
Statistics
Matches: 124, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.15
64 24 0.19
65 2 0.02
66 22 0.18
67 29 0.23
68 27 0.22
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (63 bp):
AGTGTACACCATGTGTACAAGAGAGCTACGAGATAAATGAGCTAGGTCGCATGGGTGGTACTA
Found at i:38369003 original size:16 final size:16
Alignment explanation
Indices: 38368982--38369012 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38368972 TCAGGAAACA
38368982 TGTTATTCTGCGCATC
1 TGTTATTCTGCGCATC
38368998 TGTTATTCTGCGCAT
1 TGTTATTCTGCGCAT
38369013 GTGGTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (16 bp):
TGTTATTCTGCGCATC
Found at i:38369020 original size:16 final size:16
Alignment explanation
Indices: 38368985--38369020 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38368975 GGAAACATGT
*
38368985 TATTCTGCGCATCTGT
1 TATTCTGCGCATCTGG
*
38369001 TATTCTGCGCATGTGG
1 TATTCTGCGCATCTGG
38369017 TATT
1 TATT
38369021 TTATAAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.44
Consensus pattern (16 bp):
TATTCTGCGCATCTGG
Found at i:38370981 original size:40 final size:40
Alignment explanation
Indices: 38370937--38371026 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
38370927 TGTGGCTATC
* * *
38370937 CCGAAGATCATTCGTGCTAGTGATGTATCCGGGCTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTT
* * * *
38370977 CCGAAGAGCATTCGTGCTGGTGTTATATCCAGGCTAGGTC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTT
*
38371017 CCAAAGAGCA
1 CCGAAGAGCA
38371027 ATCATGTTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTT
Found at i:38371038 original size:40 final size:40
Alignment explanation
Indices: 38370962--38371038 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
38370952 GCTAGTGATG
* * * * *
38370962 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCAGGCTAAGTCCCAAAGAGCAATCATGCTGGTGTTA
* *
38371002 TATCCAGGCTAGGTCCCAAAGAGCAATCATGTTGGTG
1 TATCCAGGCTAAGTCCCAAAGAGCAATCATGCTGGTG
38371039 ACGTGTATTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TATCCAGGCTAAGTCCCAAAGAGCAATCATGCTGGTGTTA
Found at i:38375090 original size:47 final size:47
Alignment explanation
Indices: 38375036--38375216 Score: 274
Period size: 47 Copynumber: 3.9 Consensus size: 47
38375026 TTAGGATTTT
** * *
38375036 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38375083 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38375130 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
38375177 ATGTGGTGAATATGAACATGCATATATGTG-TAAAGCCGAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAA
38375217 ATGTGAAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 9 0.07
47 114 0.93
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38375136 original size:22 final size:22
Alignment explanation
Indices: 38375065--38375136 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
38375055 GTATATATGA
38375065 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
38375087 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
38375112 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
38375134 GAT
1 GAT
38375137 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:38375185 original size:25 final size:25
Alignment explanation
Indices: 38375110--38375185 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
38375100 ATGCATATAT
38375110 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
38375135 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
38375157 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
38375182 GTGA
1 GTGA
38375186 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:38375335 original size:48 final size:48
Alignment explanation
Indices: 38375216--38375368 Score: 212
Period size: 48 Copynumber: 3.3 Consensus size: 48
38375206 GTAAAGCCGA
*
38375216 AATGTGAAATATGTATGAGATATGTA-ATGTGG--CAG-CGAATGGCT
1 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
*
38375260 AATGTGAAA-ATGTATG-GATATGCATATGTGGTAAAGCCGAATGG-T
1 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
*
38375305 CAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT
1 -AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
*
38375354 AGTGTGAAATATGTA
1 AATGTGAAATATGTA
38375369 GGCGATGTGC
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
42 7 0.07
43 13 0.14
44 9 0.09
45 3 0.03
46 16 0.17
47 6 0.06
48 40 0.42
49 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:38375393 original size:94 final size:89
Alignment explanation
Indices: 38375216--38375408 Score: 208
Period size: 94 Copynumber: 2.1 Consensus size: 89
38375206 GTAAAGCCGA
* * *
38375216 AATGTGAAATATGTATGAGATATGTAATGTGGCAGCGAATGGCTAATGTGAAAATGTATGGATAT
1 AATGTGAAATATATATGAGATATGTAATGTGGAAGCGAATGGCTAATGTGAAAATGTAGGGATAT
* * **
38375281 GCATATGTGGTAAAGCCGAATGGTC
66 GCATATATGGT-AAGCCGAACGACC
*
38375306 AATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGG
1 AATGTGAAATATATATGAGATATGTA-ATGTGG--AAG-CGAATGGCTAATGTGAAA-ATGTAGG
* * * *
38375371 CGATGTGCGTATATTGT-GGCCGAACGACC
61 -GATATGCATATATGGTAAGCCGAACGACC
38375400 AATGTGAAA
1 AATGTGAAA
38375409 GGTGTGTATT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
90 25 0.29
91 6 0.07
93 2 0.02
94 34 0.40
95 6 0.07
96 12 0.14
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (89 bp):
AATGTGAAATATATATGAGATATGTAATGTGGAAGCGAATGGCTAATGTGAAAATGTAGGGATAT
GCATATATGGTAAGCCGAACGACC
Found at i:38375564 original size:37 final size:37
Alignment explanation
Indices: 38375514--38375585 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
38375504 GGAAATATAT
*
38375514 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
38375551 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
38375586 CGTCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:38376288 original size:149 final size:153
Alignment explanation
Indices: 38376099--38376403 Score: 564
Period size: 149 Copynumber: 2.0 Consensus size: 153
38376089 TACTTAGTGA
38376099 AGTTTAAAATTTACCTCTGGTTGTGCTTAGTACTTATTTAAATGAACGATCTTTATTTCAAGAAA
1 AGTTTAAAATTTACCTCTGGTTGTGCTTAGTACTTATTTAAATGAACGATCTTTATTTCAAGAAA
38376164 AAATTCAAAATTTTACTGTTCTGACATGA-ACAAGTCC-GTAATGCCCCTTACCTATTCTGGCGA
66 AAATTCAAAATTTTACTGTTCTGACATGATACAAGTCCGGTAATGCCCCTTACCTATTCTGGCGA
38376227 CGGTTAC-GGATAGGGGTGTTAC
131 CGGTTACGGGATAGGGGTGTTAC
38376249 AGTTT-AAATTTACCTCTGGTTGTGCTTAGTACTTATTTAAATGAACGATCTTTATTTCAAGAAA
1 AGTTTAAAATTTACCTCTGGTTGTGCTTAGTACTTATTTAAATGAACGATCTTTATTTCAAGAAA
38376313 AAATTCAAAATTTTACTGTTCTGACATGAGTTACAAGTCCGGTAATGCCCCTTACCTATTCTGGC
66 AAATTCAAAATTTTACTGTTCTGACATGA--TACAAGTCCGGTAATGCCCCTTACCTATTCTGGC
38376378 GACGGTTACGGGATAGGGGTGTTAC
129 GACGGTTACGGGATAGGGGTGTTAC
38376403 A
1 A
38376404 TTATAGATAA
Statistics
Matches: 150, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
149 88 0.59
150 5 0.03
152 8 0.05
153 33 0.22
154 16 0.11
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (153 bp):
AGTTTAAAATTTACCTCTGGTTGTGCTTAGTACTTATTTAAATGAACGATCTTTATTTCAAGAAA
AAATTCAAAATTTTACTGTTCTGACATGATACAAGTCCGGTAATGCCCCTTACCTATTCTGGCGA
CGGTTACGGGATAGGGGTGTTAC
Found at i:38377094 original size:50 final size:48
Alignment explanation
Indices: 38376975--38377157 Score: 177
Period size: 50 Copynumber: 3.6 Consensus size: 48
38376965 ATTGTGAGAA
* * *
38376975 CACATGTGTAGTACTATGTTCAGGCTACTATGTGTTTAAGACAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGTTTTAGGT
* *
38377027 CACGTGTGTAGTACTAAGTGCAGGCTGCTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-TT-TTAGGT
* * * * *
38377077 CGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCTAATATTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC--A-GTTTTAGGT
* *
38377128 CACGTATGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
38377158 CATATATCCG
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 41 0.37
51 30 0.27
52 33 0.30
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (48 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGTTTTAGGT
Found at i:38381007 original size:49 final size:49
Alignment explanation
Indices: 38380938--38381420 Score: 736
Period size: 49 Copynumber: 10.1 Consensus size: 49
38380928 GAAATGATAG
38380938 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
38380987 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
38381034 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
38381083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
38381130 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
38381179 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
38381225 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
38381274 CAGGGCCGAGTGGCCAACGTGATGAATGTGAGAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
38381321 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
38381370 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
38381417 TAAG
1 TAAG
38381421 TCCCGAAGGG
Statistics
Matches: 396, Mismatches: 29, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
46 12 0.03
47 173 0.44
48 35 0.09
49 176 0.44
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:38381045 original size:47 final size:48
Alignment explanation
Indices: 38380938--38381420 Score: 717
Period size: 47 Copynumber: 10.1 Consensus size: 48
38380928 GAAATGATAG
38380938 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
38380987 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
*
38381034 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
38381083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
38381130 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
38381179 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
*
38381225 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
* * * * * * *
38381274 CAGGGCCGAGTGGCCAACGTGATGAATGTGAGAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
*
38381321 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
* * * * * * * *
38381370 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
38381417 TAAG
1 TAAG
38381421 TCCCGAAGGG
Statistics
Matches: 395, Mismatches: 30, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
46 12 0.03
47 177 0.45
48 34 0.09
49 172 0.44
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (48 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
Found at i:38381102 original size:96 final size:96
Alignment explanation
Indices: 38380938--38381420 Score: 797
Period size: 96 Copynumber: 5.0 Consensus size: 96
38380928 GAAATGATAG
38380938 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
38381003 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
38381034 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
38381099 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
38381130 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
38381194 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
38381225 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
38381290 ACGTGATGAATGTGAGAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
38381321 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
38381386 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
38381417 TAAG
1 TAAG
38381421 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
95 93 0.25
96 280 0.75
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38395342 original size:24 final size:24
Alignment explanation
Indices: 38395310--38395359 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
38395300 ACAACAAAGA
38395310 ACCCATCCATAAAGAACGAAGGTT
1 ACCCATCCATAAAGAACGAAGGTT
*
38395334 ACCCATCCATGAAGAACGAAGGTT
1 ACCCATCCATAAAGAACGAAGGTT
38395358 AC
1 AC
38395360 AAATCGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (24 bp):
ACCCATCCATAAAGAACGAAGGTT
Found at i:38396950 original size:20 final size:20
Alignment explanation
Indices: 38396925--38396966 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
38396915 ATTAAAATCT
38396925 TTTAGGTTG-TTTCTCCCAAG
1 TTTAGGTTGCTTT-TCCCAAG
38396945 TTTAGGTTGCTTTTCCCAAG
1 TTTAGGTTGCTTTTCCCAAG
38396965 TT
1 TT
38396967 GAAATTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (20 bp):
TTTAGGTTGCTTTTCCCAAG
Found at i:38412765 original size:37 final size:37
Alignment explanation
Indices: 38412715--38412793 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38412705 TTATTACAAA
* * *
38412715 GTCTTACCTGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCTGGACAAAATCCCCACACGAAGTCATCGG
*
38412752 GTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCTGGACAAAATCCCCACACGAAGTCATCGG
38412789 GTCTT
1 GTCTT
38412794 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCTGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38412990 original size:47 final size:47
Alignment explanation
Indices: 38412912--38413420 Score: 813
Period size: 47 Copynumber: 10.7 Consensus size: 47
38412902 CCCTTCGGGA
* * * * * *
38412912 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38412959 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38413006 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38413053 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38413100 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38413147 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
38413194 CTTATCACATATATATACACTTTCACATTCATCACATCATCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38413243 CTTATCACATATATATACACTTTCACATTCATCAGATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38413292 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38413339 CTTATCACATATATACACTTTCACAGTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38413386 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
38413421 AGAATCCTAA
Statistics
Matches: 436, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 344 0.79
49 91 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38413327 original size:239 final size:235
Alignment explanation
Indices: 38412912--38413420 Score: 824
Period size: 239 Copynumber: 2.1 Consensus size: 235
38412902 CCCTTCGGGA
* * * * *
38412912 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
38412977 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
38413042 GGCCATTAGGCCTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
38413107 CATATATACACTTTCAC-GTTCATCACATCGGCCATTAGGC
196 CATATATACACTTTCACAG-TCATCACATCGGCCATTAGGC
* * *
38413147 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
*
38413212 ACTTTCACATTCATCACATCATCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
38413277 GATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
127 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
38413342 ATCACATATATACACTTTCACAGTCATCACATCGGCCATTAGGC
192 ATCACATATATACACTTTCACAGTCATCACATCGGCCATTAGGC
* *
38413386 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
38413421 AGAATCCTAA
Statistics
Matches: 253, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
235 47 0.19
237 45 0.18
238 1 0.00
239 159 0.63
240 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (235 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACAGTCATCACATCGGCCATTAGGC
Found at i:38418636 original size:119 final size:120
Alignment explanation
Indices: 38418447--38418662 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 120
38418437 ATGTCCGGGC
*
38418447 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCAAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAG
*
38418512 ATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTTCGAGTTACTAAATCTGGGT
66 ATACTATA-ACCGGGCTAAGTCCCGAAGGCATTGGTTCGAGTTACTAAATCTGGGT
* * * ** *
38418566 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCA
* *
38418629 AGTTACTATAACCGGGCTATGTCCCGAAGGCATT
64 AGATACTATAACCGGGCTAAGTCCCGAAGGCATT
38418663 TGAACGAGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 1 0.01
119 62 0.75
120 20 0.24
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (120 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAG
ATACTATAACCGGGCTAAGTCCCGAAGGCATTGGTTCGAGTTACTAAATCTGGGT
Found at i:38418671 original size:40 final size:40
Alignment explanation
Indices: 38418440--38418664 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
38418430 TCGAATGATG
* * * *
38418440 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
38418480 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38418520 TCCGGGCTAAG-CCCGAAGGCATTGGTTCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38418559 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38418599 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38418640 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38418665 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.19
40 120 0.75
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38418686 original size:119 final size:119
Alignment explanation
Indices: 38418447--38418697 Score: 269
Period size: 119 Copynumber: 2.1 Consensus size: 119
38418437 ATGTCCGGGC
*
38418447 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCAAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAG
* ** *
38418512 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTTCGAGTTACTAAATCTGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
* * * ** *
38418566 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCA
* * * *
38418629 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCTCGGT
* *
38418685 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
38418698 TACGTGATTT
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 77 0.70
120 30 0.27
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
Found at i:38426642 original size:40 final size:40
Alignment explanation
Indices: 38426552--38426776 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
38426542 TCAAATGATG
* * * *
38426552 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38426592 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
38426632 TCTGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38426671 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38426711 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38426752 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38426777 AACGAGTAGT
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38426799 original size:119 final size:119
Alignment explanation
Indices: 38426552--38426783 Score: 272
Period size: 119 Copynumber: 1.9 Consensus size: 119
38426542 TCAAATGATG
* *
38426552 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
38426617 GTGCGAGATACTAATTCTGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
* * * **
38426671 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
38426734 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGT
38426784 AGTTATATCC
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
118 3 0.03
119 67 0.71
120 24 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
Found at i:38429429 original size:13 final size:13
Alignment explanation
Indices: 38429411--38429444 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38429401 ATAAATATTA
38429411 TAATAATATAATT
1 TAATAATATAATT
*
38429424 TAATAATATACTT
1 TAATAATATAATT
*
38429437 AAATAATA
1 TAATAATA
38429445 AGTGAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATAATATAATT
Found at i:38429575 original size:16 final size:17
Alignment explanation
Indices: 38429554--38429586 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38429544 ACTTTATTTA
*
38429554 ATTAATATAA-AATATT
1 ATTAATACAATAATATT
38429570 ATTAATACAATAATATT
1 ATTAATACAATAATATT
38429587 TACTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAATACAATAATATT
Found at i:38434910 original size:33 final size:34
Alignment explanation
Indices: 38434867--38434945 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 34
38434857 AAACAGTCTC
* * * *
38434867 GGCCTAAGCCCCTAACAATAGCATTATCAGTGT-
1 GGCCTTAGCCCATAACAATAACAGTATCAGTGTG
* * *
38434900 GGCCTTAGCCCATTACGATAACAGTATTAGTGTG
1 GGCCTTAGCCCATAACAATAACAGTATCAGTGTG
38434934 GGCCTTAGCCCA
1 GGCCTTAGCCCA
38434946 ATTTAGTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 26 0.68
34 12 0.32
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (34 bp):
GGCCTTAGCCCATAACAATAACAGTATCAGTGTG
Found at i:38444818 original size:31 final size:30
Alignment explanation
Indices: 38444729--38444818 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 30
38444719 TTAGGGCCGA
*
38444729 TTAGTGCTTATTCTTTCGGAT-TTTTTACTCT
1 TTAGTGCTTATTCTTTCAG-TCTTTTT-CTCT
*
38444760 TTAGTGCTTATTCTTTCGAGTCATTTTCTCT
1 TTAGTGCTTATTCTTTC-AGTCTTTTTCTCT
*
38444791 TTAGTGCTTATTCGTTCACGTCTTTTTC
1 TTAGTGCTTATTCTTTCA-GTCTTTTTC
38444819 AAAGCTTTGC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.02
31 46 0.88
32 5 0.10
ACGTcount: A:0.12, C:0.19, G:0.13, T:0.56
Consensus pattern (30 bp):
TTAGTGCTTATTCTTTCAGTCTTTTTCTCT
Found at i:38447133 original size:24 final size:24
Alignment explanation
Indices: 38447106--38447157 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
38447096 GTTTAAAGTG
38447106 ATTGCTATAATGTGGAAATGATTC
1 ATTGCTATAATGTGGAAATGATTC
38447130 ATTGCTATAATGTGGAAATGATTC
1 ATTGCTATAATGTGGAAATGATTC
38447154 ATTG
1 ATTG
38447158 AATGAGTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (24 bp):
ATTGCTATAATGTGGAAATGATTC
Found at i:38452602 original size:31 final size:32
Alignment explanation
Indices: 38452565--38452633 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
38452555 TTAAGGTCGG
*
38452565 TTAGTGCTTATTCTTTTGGGTC-TTTCTCTCT
1 TTAGTGCTTATTCTTTTAGGTCTTTTCTCTCT
*
38452596 TTAGTGCTTATTCTTTTAGGTCTTTTTTCTCT
1 TTAGTGCTTATTCTTTTAGGTCTTTTCTCTCT
38452628 TTAGTG
1 TTAGTG
38452634 TTTTGCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (32 bp):
TTAGTGCTTATTCTTTTAGGTCTTTTCTCTCT
Found at i:38452637 original size:16 final size:16
Alignment explanation
Indices: 38452591--38452637 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
38452581 TGGGTCTTTC
* *
38452591 TCTCTTTAGTGCTTAT
1 TCTCTTTAGTGTTTTT
*
38452607 TCT-TTTAGGTCTTTTT
1 TCTCTTTA-GTGTTTTT
38452623 TCTCTTTAGTGTTTT
1 TCTCTTTAGTGTTTT
38452638 GCAATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.09, C:0.15, G:0.13, T:0.64
Consensus pattern (16 bp):
TCTCTTTAGTGTTTTT
Found at i:38456718 original size:13 final size:13
Alignment explanation
Indices: 38456700--38456744 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
38456690 TAAATTTTAA
38456700 ATTATTTAGTGAT
1 ATTATTTAGTGAT
38456713 ATTATTTA--GA-
1 ATTATTTAGTGAT
38456723 ATTATTTAGTGAT
1 ATTATTTAGTGAT
*
38456736 AATATTTAG
1 ATTATTTAG
38456745 GAAAAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 2 0.07
13 16 0.57
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (13 bp):
ATTATTTAGTGAT
Found at i:38456743 original size:23 final size:23
Alignment explanation
Indices: 38456695--38456744 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
38456685 ATTTTTAAAT
*
38456695 TTTA-AATTATTTAGTGATATTA
1 TTTAGAATTATTTAGTGATAATA
38456717 TTTAGAATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
38456740 TTTAG
1 TTTAG
38456745 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (23 bp):
TTTAGAATTATTTAGTGATAATA
Found at i:38475330 original size:38 final size:38
Alignment explanation
Indices: 38475287--38475417 Score: 127
Period size: 38 Copynumber: 3.2 Consensus size: 38
38475277 TTTCAAATTA
38475287 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
38475325 ACATGTTTAACCGTGGTATATCGACGTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
38475366 GAATCAATATATGTAACCGTGGCATATGCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
38475410 ACATGTAT
1 ACATGTAT
38475418 CAATATGTGT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
38 33 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 25 0.34
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:38475386 original size:47 final size:48
Alignment explanation
Indices: 38475332--38475549 Score: 278
Period size: 48 Copynumber: 4.6 Consensus size: 48
38475322 GTTACATGTT
* *
38475332 TAACCGTGGTATATCGACGTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
38475379 TAACCGTGGCATATGCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
38475427 TAATCATGGTATATCCACTTAGCACCATGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * * * *
38475474 TAACCATGGCATATTCACTTAGCACCACGTTACTTGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
*
38475522 TAATCGTGGTATATCCACTTAGCACCAC
1 TAACCGTGGTATATCCACTTAGCACCAC
38475550 ATTTTTTCAT
Statistics
Matches: 145, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
47 69 0.48
48 76 0.52
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:38475398 original size:85 final size:88
Alignment explanation
Indices: 38475294--38475506 Score: 270
Period size: 95 Copynumber: 2.4 Consensus size: 88
38475284 TTAACATGTA
* *
38475294 TAACCGTGGCATATCCACTTAGCACCACGTTACATG-T-T-TAACCGTGGTATATCGACGTAGCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGATGTGTAACCATGGTATATCCACGTAGCA
38475356 CCACGTTAATGAATCAATATATG
66 CCACGTTAATGAATCAATATATG
* *
38475379 TAACCGTGGCATATGCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATG-------ATGTGTAACCATGGTATATCCA
* *
38475444 CTTAGCACCATGTTAATGAATCAATATATG
59 CGTAGCACCACGTTAATGAATCAATATATG
* *
38475474 TAACCATGGCATATTCACTTAGCACCACGTTAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTAC
38475507 TTGTATCAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
85 35 0.32
93 1 0.01
94 1 0.01
95 73 0.66
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (88 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGATGTGTAACCATGGTATATCCACGTAGCA
CCACGTTAATGAATCAATATATG
Found at i:38475501 original size:95 final size:95
Alignment explanation
Indices: 38475338--38475549 Score: 361
Period size: 95 Copynumber: 2.2 Consensus size: 95
38475328 TGTTTAACCG
* * *
38475338 TGGTATATCGACGTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATGCACTTAGCA
1 TGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATGCACTTAGCA
38475403 CCACGTTACATGTATCAATATGTGTAATCA
66 CCACGTTACATGTATCAATATGTGTAATCA
* *
38475433 TGGTATATCCACTTAGCACCATGTTAATGAATCAATATATGTAACCATGGCATATTCACTTAGCA
1 TGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATGCACTTAGCA
* *
38475498 CCACGTTACTTGTATCAATATGTGTAATCG
66 CCACGTTACATGTATCAATATGTGTAATCA
38475528 TGGTATATCCACTTAGCACCAC
1 TGGTATATCCACTTAGCACCAC
38475550 ATTTTTTCAT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 109 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (95 bp):
TGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATGCACTTAGCA
CCACGTTACATGTATCAATATGTGTAATCA
Found at i:38478190 original size:15 final size:15
Alignment explanation
Indices: 38478167--38478204 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
38478157 GAAGCCCAGA
*
38478167 ATAAGGAAATCCAAG
1 ATAAAGAAATCCAAG
*
38478182 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
38478197 AT-AAGAAA
1 ATAAAGAAA
38478205 ATCCCATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.58, C:0.11, G:0.16, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:38482768 original size:46 final size:48
Alignment explanation
Indices: 38482584--38482853 Score: 155
Period size: 46 Copynumber: 5.7 Consensus size: 48
38482574 TAAGTTACCG
* * * * ***
38482584 ATGCCATGTCTCAGACATGGTGTTACACTAGC-TATCATCATCGAGGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CGTC-TCGAGGCCA
* * * * * * * *
38482633 ATACCATGTTCCAGACATGATCTTACACTAGCTTTCGCATATCCG-TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACG--TCT-CGAGGCCA
* * * *
38482683 ATGCCATGTCCCAAACATGGTCTTACACTGAC--ACATCTCGTA-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCG-AGGCCA
** *
38482729 ATG-CATGTCTTAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGGCCA
* * * * * *
38482775 ATG-CATGTCCTAGATAT-GTCTTACACTAGCACT-CGTCTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACGTCTCGAGGCCA
38482821 ATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT
38482854 CATACCAATG
Statistics
Matches: 171, Mismatches: 38, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 58 0.34
47 13 0.08
48 13 0.08
49 28 0.16
50 30 0.18
51 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGGCCA
Found at i:38490430 original size:28 final size:28
Alignment explanation
Indices: 38490365--38490488 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
38490355 GAGATTGGCG
* * * *
38490365 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
38490394 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
38490422 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
38490450 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
38490478 CTGAGTGTGCG
1 CTAAGTGTGCG
38490489 GACTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 74 0.83
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:38497784 original size:27 final size:27
Alignment explanation
Indices: 38497754--38497931 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
38497744 ATATTGAGCC
* * *
38497754 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
38497781 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
38497808 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
38497836 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
38497863 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
38497890 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
38497917 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38497932 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:38497847 original size:55 final size:55
Alignment explanation
Indices: 38497754--38497931 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
38497744 ATATTGAGCC
* * *
38497754 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
38497808 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
38497863 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
38497917 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38497932 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:38497893 original size:82 final size:81
Alignment explanation
Indices: 38497775--38497930 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
38497765 TGCTATACAA
* * *
38497775 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
38497840 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
38497857 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
38497921 CACTTAGTGC
65 CACTTAGTGC
38497931 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38505809 original size:27 final size:27
Alignment explanation
Indices: 38505779--38505956 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
38505769 ATATTGAGCC
* * *
38505779 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
38505806 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
38505833 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
38505861 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
38505888 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
38505915 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
38505942 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38505957 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:38505872 original size:55 final size:55
Alignment explanation
Indices: 38505779--38505956 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
38505769 ATATTGAGCC
* * *
38505779 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
38505833 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
38505888 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
38505942 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38505957 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:38505918 original size:82 final size:81
Alignment explanation
Indices: 38505800--38505955 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
38505790 TGCTATACAA
* * *
38505800 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
38505865 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
38505882 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
38505946 CACTTAGTGC
65 CACTTAGTGC
38505956 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38511034 original size:27 final size:27
Alignment explanation
Indices: 38510867--38511044 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
38510857 TAAATTGTAC
*
38510867 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
38510894 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
38510920 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
38510948 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
38510976 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
38511003 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
38511030 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38511045 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:38511035 original size:82 final size:81
Alignment explanation
Indices: 38510864--38511044 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
38510854 GATTAAATTG
* * * *
38510864 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38510929 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
38510945 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38511009 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
38511027 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38511045 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:38519020 original size:27 final size:27
Alignment explanation
Indices: 38518853--38519030 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
38518843 TAAATTGTAC
*
38518853 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
38518880 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
38518906 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
38518934 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
38518962 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
38518989 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
38519016 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38519031 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:38519021 original size:82 final size:81
Alignment explanation
Indices: 38518850--38519030 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
38518840 GATTAAATTG
* * * *
38518850 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38518915 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
38518931 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38518995 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
38519013 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38519031 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:38520847 original size:28 final size:28
Alignment explanation
Indices: 38520782--38520905 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
38520772 GAGATTGGCG
* * * *
38520782 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
38520811 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
38520839 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
38520867 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
38520895 CTGAGTGTGCG
1 CTAAGTGTGCG
38520906 GACTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 74 0.83
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:38528010 original size:48 final size:48
Alignment explanation
Indices: 38527797--38528012 Score: 387
Period size: 48 Copynumber: 4.5 Consensus size: 48
38527787 TATATATGTG
* *
38527797 TGTGGTCAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
38527845 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
38527893 TGCGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
38527941 TGCGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
38527989 TGTGGTAAAGCCGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
38528013 ATTCGGCTAG
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 164 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:38528238 original size:37 final size:37
Alignment explanation
Indices: 38528188--38528284 Score: 158
Period size: 37 Copynumber: 2.6 Consensus size: 37
38528178 ATATTCTGGG
38528188 TAAGACCCGATGACTACGTGTGGAGATTATGTCCCGA
1 TAAGACCCGATGACTACGTGTGGAGATTATGTCCCGA
* * *
38528225 TAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGG
1 TAAGACCCGATGACTACGTGTGGAGATTATGTCCCGA
*
38528262 TAAGACCCGATAACTACGTGTGG
1 TAAGACCCGATGACTACGTGTGG
38528285 GGACTATTCG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (37 bp):
TAAGACCCGATGACTACGTGTGGAGATTATGTCCCGA
Found at i:38529617 original size:40 final size:40
Alignment explanation
Indices: 38529564--38529841 Score: 360
Period size: 40 Copynumber: 6.9 Consensus size: 40
38529554 TTGAGAGTTA
*
38529564 TATAGCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
*
38529604 TATGTCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
*
38529644 TATGTCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
* * * * * *
38529684 TATGTCCGGCCTAAGTCCCGAAGAGTATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
* * *
38529724 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT-G-G-TGT
* * *
38529767 CTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 -TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
**
38529808 TATATCCGGGCTAAACCTCGAAG-GCATTCGTGCT
1 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
38529842 AGAATTATGA
Statistics
Matches: 213, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
39 11 0.05
40 164 0.77
41 1 0.00
42 2 0.01
43 1 0.00
44 34 0.16
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
Found at i:38529706 original size:80 final size:80
Alignment explanation
Indices: 38529563--38529841 Score: 398
Period size: 80 Copynumber: 3.5 Consensus size: 80
38529553 ATTGAGAGTT
* *
38529563 ATATAGCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAAGTCTCGAAGA
1 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAAGTCCCGAAGA
*
38529628 GCATTCGTGCTGGTG
66 GCATTCGTGCTAGTG
* * *
38529643 TTATGTCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATGTCCGGCCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAAGTCCCGAAGA
*
38529708 GTATTCGTGCTAGTG
66 GCATTCGTGCTAGTG
* * * *
38529723 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATCTATATCCGGGCTAAGTCCCG
1 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT-G-G-TGT-TATGTCCGGGCTAAGTCCCG
38529788 AAGAGCATTCGTGCTAGTG
62 AAGAGCATTCGTGCTAGTG
**
38529807 ATATATCCGGGCTAAACCTCGAAG-GCATTCGTGCT
1 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
38529842 AGAATTATGA
Statistics
Matches: 176, Mismatches: 19, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 105 0.60
81 1 0.01
82 1 0.01
83 12 0.07
84 57 0.32
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAAGTCCCGAAGA
GCATTCGTGCTAGTG
Found at i:38531227 original size:46 final size:46
Alignment explanation
Indices: 38531177--38531349 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
38531167 TGGTTGACCA
38531177 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38531223 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
38531268 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38531316 CCCGAGCTCGTTGAGTTGACTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38531350 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.28
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38531334 original size:93 final size:93
Alignment explanation
Indices: 38531175--38531344 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
38531165 GATGGTTGAC
***
38531175 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGTT
*
38531240 GAGTCCGAGTTCGTGAAATGTAACTAGG
66 GACTCCGAGTTCGTGAAATGTAACTAGG
*
38531268 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGTT
38531333 GACTCCGAGTTC
66 GACTCCGAGTTC
38531345 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGTT
GACTCCGAGTTCGTGAAATGTAACTAGG
Found at i:38532722 original size:29 final size:29
Alignment explanation
Indices: 38532690--38532765 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
38532680 GCGAGATTGG
*
38532690 TAATTGAGGCACTATGTGTACGAGTTCTT
1 TAATTGAGGCACTATGTGTACGAGTTCTA
*
38532719 TAATTGAGGCACTATGTGTGCGAGTTCTA
1 TAATTGAGGCACTATGTGTACGAGTTCTA
* *
38532748 TAATCGA-GCGCTATGTGT
1 TAATTGAGGCACTATGTGT
38532766 GCGAAATCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 10 0.23
29 33 0.77
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (29 bp):
TAATTGAGGCACTATGTGTACGAGTTCTA
Found at i:38536360 original size:48 final size:48
Alignment explanation
Indices: 38536298--38536649 Score: 615
Period size: 48 Copynumber: 7.4 Consensus size: 48
38536288 TATATATGTG
38536298 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
38536346 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
38536394 TGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
38536442 --TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
38536488 CGTGGTAAAGCCGAATGGCTAGTGTG-AATATGTAT--GATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
38536533 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
38536581 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
38536629 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
38536650 GTGATTCGGC
Statistics
Matches: 293, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
45 36 0.12
46 54 0.18
47 9 0.03
48 194 0.66
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:38536617 original size:187 final size:190
Alignment explanation
Indices: 38536299--38536649 Score: 618
Period size: 187 Copynumber: 1.9 Consensus size: 190
38536289 ATATATGTGT
*
38536299 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT-AGATATGTATACGTGGTAAAGCCGAATGG
*
38536364 CTAATGTGAAATATGTATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTA
65 CTAATGTGAAATATGTATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGCGAAATATGTA
38536429 TGAGATATGTATA-TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAC
130 TGAGATATGTATAGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAC
*
38536489 GTGGTAAAGCCGAATGGCTAGTGTG-AATATGTAT-GATATGTATACGTGGTAAAGCCGAATGGC
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAGATATGTATACGTGGTAAAGCCGAATGGC
* *
38536552 TAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTAT
66 TAATGTGAAATATGTATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGCGAAATATGTAT
38536617 GAGATATGTATATGTGGTAAAGCCGAATGGCTA
131 GAGATATGTATA-GTGGTAAAGCCGAATGGCTA
38536650 GTGATTCGGC
Statistics
Matches: 154, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
187 102 0.66
189 28 0.18
190 24 0.16
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (190 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAGATATGTATACGTGGTAAAGCCGAATGGC
TAATGTGAAATATGTATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGCGAAATATGTAT
GAGATATGTATAGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAC
Found at i:38536906 original size:36 final size:37
Alignment explanation
Indices: 38536821--38536923 Score: 190
Period size: 37 Copynumber: 2.8 Consensus size: 37
38536811 TGGAAATATA
38536821 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
*
38536858 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATT-T
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
38536894 TTCCGGGTAAGACCCGATGACTACGTGTGG
1 TTCCGGGTAAGACCCGATGACTACGTGTGG
38536924 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 30 0.47
37 34 0.53
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
Found at i:38545559 original size:39 final size:40
Alignment explanation
Indices: 38545512--38545603 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
38545502 GGACTAAGAT
*
38545512 CCGAAGGCATTTGTCCGAGATACTA-ATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTCCGAGATACTATA-ACCGGGCTAAGTC
* * *
38545551 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTCCGAGATACTATAACCGGGCTAAGTC
38545591 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38545604 AACGAGTAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
39 32 0.68
40 15 0.32
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTCCGAGATACTATAACCGGGCTAAGTC
Found at i:38545897 original size:47 final size:47
Alignment explanation
Indices: 38545828--38545995 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
38545818 AAGGGTTGGT
38545828 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38545875 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
38545922 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38545969 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38545996 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38553098 original size:55 final size:55
Alignment explanation
Indices: 38553014--38553123 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
38553004 ATCATTTTTG
*
38553014 TAAAATTTTTAGTGATTTTCCAAAATTGAGATAGGGTAGCCCGAAAGCAGTCTAA
1 TAAAATTTTTAGTGATTTTCCAAAATTGAGATAGGGTAGCCCGAAAGCACTCTAA
38553069 TAAAATTTTTAGTGATTTTCCAAAATTGAGATAGGGTAGCCCGAAAGCACTCTAA
1 TAAAATTTTTAGTGATTTTCCAAAATTGAGATAGGGTAGCCCGAAAGCACTCTAA
38553124 CTCTGTCTCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (55 bp):
TAAAATTTTTAGTGATTTTCCAAAATTGAGATAGGGTAGCCCGAAAGCACTCTAA
Found at i:38554146 original size:6 final size:6
Alignment explanation
Indices: 38554128--38554186 Score: 68
Period size: 6 Copynumber: 9.7 Consensus size: 6
38554118 AAGAAACATT
*
38554128 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
38554177 ATCAGA ATCA
1 ATCAGA ATCA
38554187 ATATTAGGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
5 3 0.07
6 38 0.83
7 3 0.07
8 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:38554203 original size:31 final size:31
Alignment explanation
Indices: 38554137--38554216 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
38554127 TATCAGAACT
* *
38554137 AGAATCAGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
38554168 AGAATCAGAATCAGAATCA-ATATTAGGTAAC
1 AGAATCAGAATCAGAATCAGA-ATCAGGTAAC
*
38554199 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
38554217 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.02
31 32 0.74
32 10 0.23
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:38554395 original size:27 final size:26
Alignment explanation
Indices: 38554353--38554454 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
38554343 GCTCAGTTAT
* *
38554353 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
38554380 CAGATATTGTGGCAGAGCCAGCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
38554406 CAGATATTTGTGGCATAGCCACTAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
38554434 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
38554455 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:38554641 original size:22 final size:22
Alignment explanation
Indices: 38554613--38554674 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
38554603 GCAAATACGT
38554613 TTGGCACACAACCATAAT-TAGG
1 TTGGCACA-AACCATAATGTAGG
*
38554635 TTGGCACAGATCCAT-ATGTAGG
1 TTGGCACA-AACCATAATGTAGG
*
38554657 TTGACACAAAGCCATAAT
1 TTGGCACAAA-CCATAAT
38554675 CAGAAGGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (22 bp):
TTGGCACAAACCATAATGTAGG
Found at i:38555158 original size:27 final size:27
Alignment explanation
Indices: 38555101--38555273 Score: 240
Period size: 27 Copynumber: 6.4 Consensus size: 27
38555091 GGGCCAAAAT
* * * *
38555101 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
38555127 GGTAATTCCACTCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38555154 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38555181 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38555208 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38555235 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38555262 GGTAATTCTACC
1 GGTAATTCTACC
38555274 GTATCGATAA
Statistics
Matches: 129, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
26 12 0.09
27 117 0.91
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:38555201 original size:54 final size:54
Alignment explanation
Indices: 38555102--38555643 Score: 628
Period size: 54 Copynumber: 10.3 Consensus size: 54
38555092 GGCCAAAATG
* * * * * * * *
38555102 GTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACTCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
38555155 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
38555208 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
38555263 GTAATTCTA--C--C----GTA--TCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
38555307 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
38555360 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
38555415 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACACTACAGGGGTA-TTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * ** *** *
38555468 ATAATTCTACCTTACAAGGATATTTTAGTAATTCTACCCTACAAAAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * * *
38555522 GTATTTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
38555576 GTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTT-T
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
38555629 GATAATTCTACCCTA
1 G-TAATTCTACCCTA
38555644 TAGGTCTATT
Statistics
Matches: 423, Mismatches: 49, Indels: 33
0.84 0.10 0.07
Matches are distributed among these distances:
44 36 0.09
46 4 0.01
50 1 0.00
52 4 0.01
53 60 0.14
54 316 0.75
55 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:38555240 original size:81 final size:81
Alignment explanation
Indices: 38555101--38555643 Score: 646
Period size: 81 Copynumber: 6.9 Consensus size: 81
38555091 GGGCCAAAAT
* * * * * * * * *
38555101 GGTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACTCTATAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
38555165 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
*
38555181 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
38555246 CCTACAGGGTTATTTC
66 CCTACAGGGGTATTTC
38555262 GGTAATTCTA--C--C----GTA--TCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
38555317 CCTATAGGGGTATTTC
66 CCTACAGGGGTATTTC
* *
38555333 GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
38555398 CCTATAGGGGTATTTC
66 CCTACAGGGGTATTTC
* *
38555414 GGTAATTCTACCCTACAGGGGTATTTC-AGTAATTCTACACTACAGGGGTA-TTCAATAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
* * * *
38555477 CCTTACAAGGATATTTT
65 CCCTACAGGGGTATTTC
* *** * * * * *
38555494 AGTAATTCTACCCTACAAAAGTATTTCGGTATTTCTACCCTATAAGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
38555559 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * *
38555575 AGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTT-TGATAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAG-TAATTCTA
38555639 CCCTA
65 CCCTA
38555644 TAGGTCTATT
Statistics
Matches: 401, Mismatches: 47, Indels: 29
0.84 0.10 0.06
Matches are distributed among these distances:
71 63 0.16
73 4 0.01
75 1 0.00
77 1 0.00
79 4 0.01
80 80 0.20
81 248 0.62
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:38555311 original size:27 final size:27
Alignment explanation
Indices: 38555281--38555662 Score: 464
Period size: 27 Copynumber: 14.2 Consensus size: 27
38555271 ACCGTATCGA
38555281 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
38555308 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
38555335 TAATTCTACCCTACAGGGGTATTGC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
*
38555361 ATAATTCTACCCTACAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCAG
* *
38555389 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
38555416 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
38555443 TAATTCTACACTACAGGGGTA-TTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
* * * *
38555469 TAATTCTACCTTACAAGGATATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*** *
38555496 TAATTCTACCCTACAAAAGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
38555523 TATTTCTACCCTATAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
38555550 TATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
**
38555577 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
38555604 TAATTCTACCCTACAAGGGTATTT-TG
1 TAATTCTACCCTACAGGGGTATTTCAG
* ** *
38555630 ATAATTCTACCCTATAGGTCTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTCAG
38555658 TAATT
1 TAATT
38555663 TGTAAATCGA
Statistics
Matches: 310, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.07
27 286 0.92
28 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:38555804 original size:27 final size:27
Alignment explanation
Indices: 38555700--38555816 Score: 123
Period size: 27 Copynumber: 4.3 Consensus size: 27
38555690 TATGAATCGG
* * *
38555700 GGGTACTTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTTAGTAATTTTACAAACT-GA
38555727 GGGTATTTTAGTAATTTTACAAA-TCGA
1 GGGTATTTTAGTAATTTTACAAACT-GA
* *
38555754 GGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTTAGTAATTTTACAAACTGA
* *
38555781 GGGTATTTTAGTCATTTAACAAACT-A
1 GGGTATTTTAGTAATTTTACAAACTGA
38555807 GGGGTATTTT
1 -GGGTATTTT
38555817 GGTGATTTGG
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.01
27 75 0.95
28 3 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACTGA
Found at i:38555916 original size:27 final size:27
Alignment explanation
Indices: 38555886--38555960 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
38555876 TGTATTTCAA
* *
38555886 TAATTTTGTAAATTGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACAG
*
38555913 TAATTCTGTAAATCAAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACAG
*
38555940 TAATTCTATAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
38555961 CTTTGGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACAG
Found at i:38556020 original size:229 final size:228
Alignment explanation
Indices: 38555620--38556059 Score: 540
Period size: 229 Copynumber: 1.9 Consensus size: 228
38555610 TACCCTACAA
* * * *
38555620 GGGTATTTTGATAATTCTACCCTATAGGTCTATTTCAATAATTTGTAAATCGAGGGTAAAACGGT
1 GGGTATTTCGATAATTCTACCCTACAAGTCTATTTCAATAATTTGTAAATCGAGGGTAAAACAGT
* ** ***** * * *
38555685 AATTCTATGAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAA
66 AATTCTATAAATCAAGGGTAAAACAGTAATTCTACAAATCGAGGGTACTTTAGTAATTTTACAAA
* * ** * * *
38555750 TCGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTTAGTCATTTAACAAACTAGGGGTATT
131 CCGAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTAACAAACCAAGGGTATT
*
38555815 TTGGTGATTTGGTAAACTAAATATTCTAAATAG
196 TTGGTAATTTGGTAAACTAAATATTCTAAATAG
* * * *
38555848 GGGTATTTCGGTATTTCTACCCTACAAGTGTATTTCAATAATTTTGTAAATTGAGGGTAAAACAG
1 GGGTATTTCGATAATTCTACCCTACAAGTCTATTTCAATAA-TTTGTAAATCGAGGGTAAAACAG
* * *
38555913 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAA
65 TAATTCTATAAATCAAGGGTAAAACAGTAATTCTACAAATCGAGGGTACTTTAGTAATTTTACAA
** * *
38555978 ACC-AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTA
130 ACCGA-GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTAACAAACCAAGGGTA
*
38556042 TTTTGGTAATTTTGTAAA
194 TTTTGGTAATTTGGTAAA
38556060 TTAAGGGTAT
Statistics
Matches: 175, Mismatches: 35, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
228 36 0.21
229 139 0.79
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (228 bp):
GGGTATTTCGATAATTCTACCCTACAAGTCTATTTCAATAATTTGTAAATCGAGGGTAAAACAGT
AATTCTATAAATCAAGGGTAAAACAGTAATTCTACAAATCGAGGGTACTTTAGTAATTTTACAAA
CCGAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTAACAAACCAAGGGTATT
TTGGTAATTTGGTAAACTAAATATTCTAAATAG
Found at i:38556141 original size:27 final size:27
Alignment explanation
Indices: 38555939--38556144 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
38555929 GGGTAAAACA
* * * *
38555939 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAACCAAGGGTATTTTG
* *
38555966 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTATAAACCAAGGGTATTTTG
* *
38555993 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTATAAACCAAGGGTATTTTG
*
38556020 GTAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTATAAACCAAGGGTATTTTG
* ** *
38556047 GTAATTTTGTAAATTAAGGGTATTTTA
1 GTAATTTTATAAACCAAGGGTATTTTG
* * *
38556074 GTGATTTTATAAACCAAGGGTATTCTA
1 GTAATTTTATAAACCAAGGGTATTTTG
* *
38556101 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTATAAACCAAGGGTATTTTG
*
38556128 GTAATTTTGTAAACCAA
1 GTAATTTTATAAACCAA
38556145 ACAGTGATAA
Statistics
Matches: 148, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTTTATAAACCAAGGGTATTTTG
Found at i:38557279 original size:42 final size:43
Alignment explanation
Indices: 38557180--38557335 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 43
38557170 CATCCATTCT
* * ** * ** * *
38557180 GAACTCGGACCACTAAACAAGCTCGGATGCTCACATCCATAAT
1 GAACTCGGACCACTCAACGAGCTTAGATGCTAACATATATCAC
38557223 GAACTCGGACCACTCAACGAGCTTAGATGCT-ACATATATCAC
1 GAACTCGGACCACTCAACGAGCTTAGATGCTAACATATATCAC
* * * * * *
38557265 GAACTTGGACCACTCAGCAAG-TTCGGATTCTAACGTATATCAC
1 GAACTCGGACCACTCAACGAGCTT-AGATGCTAACATATATCAC
* *
38557308 GAACTGGGACCACTCAACGAGCTCAGAT
1 GAACTCGGACCACTCAACGAGCTTAGAT
38557336 TTCTTAAGTC
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
41 2 0.02
42 30 0.33
43 58 0.64
44 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGCTTAGATGCTAACATATATCAC
Found at i:38559837 original size:23 final size:23
Alignment explanation
Indices: 38559811--38559857 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38559801 CATCAAAGTC
38559811 TGCTAGGAAATATACACTTTTCA
1 TGCTAGGAAATATACACTTTTCA
38559834 TGCTAGGAAATATACACTTTTCA
1 TGCTAGGAAATATACACTTTTCA
38559857 T
1 T
38559858 TCAGACTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (23 bp):
TGCTAGGAAATATACACTTTTCA
Found at i:38560420 original size:15 final size:15
Alignment explanation
Indices: 38560377--38560420 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
38560367 ACCAAAAATA
* *
38560377 AAGAAACCCAAGACAG
1 AAGAAATCCAAGA-TG
38560393 AA-AAATCCAAGATG
1 AAGAAATCCAAGATG
38560407 AAGAAATCCAAGAT
1 AAGAAATCCAAGAT
38560421 ACAGAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.57, C:0.18, G:0.16, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAAGATG
Found at i:38560426 original size:15 final size:15
Alignment explanation
Indices: 38560395--38560437 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38560385 CAAGACAGAA
38560395 AAATCCAAGATGA-AG
1 AAATCCAAGAT-ACAG
38560410 AAATCCAAGATACAG
1 AAATCCAAGATACAG
* *
38560425 AAACCCAATATAC
1 AAATCCAAGATAC
38560438 GATACCGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.14
Consensus pattern (15 bp):
AAATCCAAGATACAG
Found at i:38562933 original size:59 final size:59
Alignment explanation
Indices: 38562863--38562980 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
38562853 AGCTTGGATA
38562863 AATAGGCTTACAAGCCATAACCTATGCGAGCCACATCTCATGGCTAAACATGTAACACC
1 AATAGGCTTACAAGCCATAACCTATGCGAGCCACATCTCATGGCTAAACATGTAACACC
38562922 AATAGGCTTACAAGCCATAACCTATGCGAGCCACATCTCATGGCTAAACATGTAACACC
1 AATAGGCTTACAAGCCATAACCTATGCGAGCCACATCTCATGGCTAAACATGTAACACC
38562981 CCCTTACCCG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.36, C:0.29, G:0.15, T:0.20
Consensus pattern (59 bp):
AATAGGCTTACAAGCCATAACCTATGCGAGCCACATCTCATGGCTAAACATGTAACACC
Found at i:38564670 original size:20 final size:21
Alignment explanation
Indices: 38564647--38564685 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38564637 CATATCATAT
38564647 AAATAAC-ATTAAGTTACTTA
1 AAATAACAATTAAGTTACTTA
*
38564667 AAATAACAATTATGTTACT
1 AAATAACAATTAAGTTACT
38564686 ACATTTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATAACAATTAAGTTACTTA
Found at i:38576930 original size:22 final size:22
Alignment explanation
Indices: 38576905--38576948 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38576895 TGATGAGATG
38576905 ATAAATTTGTGCACAATTAGGT
1 ATAAATTTGTGCACAATTAGGT
* *
38576927 ATAAGTTTGTGTACAATTAGGT
1 ATAAATTTGTGCACAATTAGGT
38576949 GTCTTGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (22 bp):
ATAAATTTGTGCACAATTAGGT
Found at i:38579033 original size:49 final size:49
Alignment explanation
Indices: 38578912--38579180 Score: 182
Period size: 49 Copynumber: 5.6 Consensus size: 49
38578902 ACATCTAAGT
* * * **
38578912 CGATGCCATGTCCCAGACAGGTCTTACA-TAACTCACA-TAAATCAAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACT-TAT-TTGTGC
* * *
38578960 CGATGCCATGTCTCAGACAAGTCTTACACTAGCTCTCACTTATTTGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGTGC
* * * * * * * *
38579009 CGGTGCCATGTCCCAAACAGGTCTTATACTAACACAC-CTCA----AGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGTGC
* * * *
38579053 CGATGCCATGTCCCAAATAGATCTTACACTAGCT-TGCA--TATCTTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CACTTAT-TTG-TGC
* * * **
38579102 CGATGCCATGTCCCAGACAGGTTTTACACTGGCTCTCACTAATTTGTTT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGTGC
*
38579151 CGATGCCGTGTCCCAGACAGGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
38579181 GACACACACA
Statistics
Matches: 168, Mismatches: 39, Indels: 27
0.72 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 30 0.18
48 30 0.18
49 100 0.60
50 5 0.03
51 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGTGC
Found at i:38579109 original size:93 final size:95
Alignment explanation
Indices: 38578912--38579123 Score: 231
Period size: 93 Copynumber: 2.2 Consensus size: 95
38578902 ACATCTAAGT
* * *
38578912 CGATGCCATGTCCCAGACAGGTCTTACATAACTCACATAAATCAAGGCCGATGCCATGTCTCAGA
1 CGATGCCATGTCCCAGACAGGTCTTA-ATAACTAACACAAATCAAGGCCGATGCCATGTCCCAGA
* *
38578977 CAAGTCTTACACTAGCTCTCACTTATTTGTGT
65 CAAGTCTTACACTAGCTCTCAC-TATTTGGGC
* * **
38579009 CGGTGCCATGTCCCAAACAGGTCTT-AT-ACTAACACACCTCAA-GCCGATGCCATGTCCCA-A-
1 CGATGCCATGTCCCAGACAGGTCTTAATAACTAACACAAATCAAGGCCGATGCCATGTCCCAGAC
38579069 ATAGATCTTACACTAGCT-TGCA-TATCTTGAGGC
66 A-AG-TCTTACACTAGCTCT-CACTAT-TTG-GGC
38579102 CGATGCCATGTCCCAGACAGGT
1 CGATGCCATGTCCCAGACAGGT
38579124 TTTACACTGG
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
91 4 0.04
92 7 0.07
93 52 0.53
94 11 0.11
95 2 0.02
97 23 0.23
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACAGGTCTTAATAACTAACACAAATCAAGGCCGATGCCATGTCCCAGAC
AAGTCTTACACTAGCTCTCACTATTTGGGC
Found at i:38586217 original size:29 final size:29
Alignment explanation
Indices: 38586148--38586282 Score: 138
Period size: 29 Copynumber: 4.7 Consensus size: 29
38586138 ATAATGTGAT
*
38586148 TTGGGCCGGATGGGCCATAT-AAATGAGA
1 TTGGGCCTGATGGGCCATATGAAATGAGA
*
38586176 TTGGGCCTAATGGGCCATATGAATATGA-A
1 TTGGGCCTGATGGGCCATATGAA-ATGAGA
* *
38586205 TTGGGCCTGATGGGTCATATGAACGTGA-A
1 TTGGGCCTGATGGGCCATATGAA-ATGAGA
* *
38586234 TTAGG-CAGAATGGGCCATAT-AAATGAGA
1 TTGGGCCTG-ATGGGCCATATGAAATGAGA
38586262 TTGGGCCT-AGTGGGCCATATG
1 TTGGGCCTGA-TGGGCCATATG
38586283 CAGGCATGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
27 4 0.05
28 37 0.42
29 43 0.49
30 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAAATGAGA
Found at i:38591356 original size:49 final size:47
Alignment explanation
Indices: 38591207--38591379 Score: 156
Period size: 49 Copynumber: 3.6 Consensus size: 47
38591197 CGATGCTGAC
* *
38591207 GCCATGTTCCAAACATGGTCTTACACTAGCTCTCAC-ATCTAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAGCTCTCACTATCT-AGTCGAT
* * * * *
38591255 GCCATGTCCCACACAGGTCTTACA-TTGACT-T-ACATACATCGAGGCTAGT
1 GCCATGTCCCAGACAGGTCTTACACTAG-CTCTCAC-T--ATCTAGTCGA-T
38591304 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTA-GTCGAT
* *
38591353 GCCATGTCCTAGATAGGTCTTACACTA
1 GCCATGTCCCAGACAGGTCTTACACTA
38591380 ACACACCTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 19
0.75 0.10 0.14
Matches are distributed among these distances:
45 2 0.02
46 3 0.03
47 11 0.11
48 17 0.17
49 59 0.58
50 6 0.06
51 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTAGTCGAT
Found at i:38591443 original size:93 final size:93
Alignment explanation
Indices: 38591207--38591478 Score: 235
Period size: 93 Copynumber: 2.9 Consensus size: 93
38591197 CGATGCTGAC
* * * * *
38591207 GCCATGTTCCAA-ACATGGTCTTACACTAGCTCTCAC--ATCTAAGTCGATGCCATGTCCCACAC
1 GCCATG-TCCAAGACA-GATCTTACACTAGCTCTCACTTATCTATGTCGATCCCATGTCCTAGAC
* * * * * * *
38591269 AGGTCTTACATTGACTTACATACATCGAGGCTAGT
64 AAGTCTTAC----ACTAACACACCTCAAGCCGA-T
* * * * *
38591304 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTATGTCGATGCCATGTCCTAGATAG
1 GCCATGTCCAAGACAGATCTTACACTAGCTCTCACTTATCTATGTCGATCCCATGTCCTAGACAA
38591369 GTCTTACACTAACACACCTCAAGCCGAT
66 GTCTTACACTAACACACCTCAAGCCGAT
* * * * * *
38591397 GCCATGTCCAAGATAGATCTTGCACTGGCTCTCACTTTTCTGTGTCGATCCCGTGTCCTAGACAA
1 GCCATGTCCAAGACAGATCTTACACTAGCTCTCACTTATCTATGTCGATCCCATGTCCTAGACAA
* *
38591462 GTTTTACACTGACACAC
66 GTCTTACACTAACACAC
38591479 ACATCACCCA
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
93 70 0.47
94 14 0.09
96 24 0.16
97 9 0.06
98 31 0.21
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (93 bp):
GCCATGTCCAAGACAGATCTTACACTAGCTCTCACTTATCTATGTCGATCCCATGTCCTAGACAA
GTCTTACACTAACACACCTCAAGCCGAT
Found at i:38592906 original size:20 final size:20
Alignment explanation
Indices: 38592881--38592918 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38592871 TGTTTAGTGG
38592881 AAAAATTTTCT-AAGTTCTGT
1 AAAAA-TTTCTAAAGTTCTGT
38592901 AAAAATTTCTAAAGTTCT
1 AAAAATTTCTAAAGTTCT
38592919 CTGTTTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATTTCTAAAGTTCTGT
Found at i:38596502 original size:48 final size:48
Alignment explanation
Indices: 38596428--38596534 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
38596418 CCCAAACCCA
* *
38596428 AAATCAATGTAACTCGCAACCAAAGTGCTAATATCATGGC-TCGAAGCT
1 AAATCAATGAAACTCGCAACCAAAGTGCTAATATCATGGCAT-GAAGCC
* * * *
38596476 AAATCAATGAAACTTGCACCCGAAGTGCTGATATCATGGCATGAAGCC
1 AAATCAATGAAACTCGCAACCAAAGTGCTAATATCATGGCATGAAGCC
*
38596524 AAATTAATGAA
1 AAATCAATGAA
38596535 GCTCACACCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 50 0.98
49 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (48 bp):
AAATCAATGAAACTCGCAACCAAAGTGCTAATATCATGGCATGAAGCC
Found at i:38600262 original size:25 final size:25
Alignment explanation
Indices: 38600233--38600280 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38600223 TTATAACATG
* * *
38600233 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38600258 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38600281 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38600424 original size:23 final size:23
Alignment explanation
Indices: 38600394--38600488 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
38600384 AGGAAGTGAA
38600394 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38600417 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38600440 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38600462 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
38600486 AAA
1 AAA
38600489 AGAGGCTAGG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
22 9 0.13
23 48 0.72
24 10 0.15
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:38600505 original size:25 final size:24
Alignment explanation
Indices: 38600393--38600509 Score: 134
Period size: 23 Copynumber: 5.0 Consensus size: 24
38600383 GAGGAAGTGA
*
38600393 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
38600417 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
*
38600440 -AAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
**
38600462 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
38600486 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
38600510 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
22 9 0.11
23 45 0.54
24 19 0.23
25 11 0.13
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:38600738 original size:31 final size:31
Alignment explanation
Indices: 38600703--38600766 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
38600693 CGTTTACAGT
38600703 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38600734 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38600765 AA
1 AA
38600767 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38602199 original size:35 final size:35
Alignment explanation
Indices: 38602157--38602289 Score: 160
Period size: 35 Copynumber: 3.8 Consensus size: 35
38602147 TATATGGCCA
*
38602157 AATATACAAATTCAATATAATCC-CACATGTAAACG
1 AATATACAAGTTCAATATAA-CCTCACATGTAAACG
* * *
38602192 AAAATACAAGTTCAATATAAGCTCACATGTAATCG
1 AATATACAAGTTCAATATAACCTCACATGTAAACG
* * * **
38602227 AATACACAAGTTTAATATAACCTCACATGCAGCCG
1 AATATACAAGTTCAATATAACCTCACATGTAAACG
*
38602262 AATATACAACTTCAATATAACCTCACAT
1 AATATACAAGTTCAATATAACCTCACAT
38602290 ATACTTACCT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 82 0.99
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.26
Consensus pattern (35 bp):
AATATACAAGTTCAATATAACCTCACATGTAAACG
Found at i:38619449 original size:35 final size:35
Alignment explanation
Indices: 38619410--38619543 Score: 121
Period size: 35 Copynumber: 3.8 Consensus size: 35
38619400 TCATATGGCC
*
38619410 GAATATACAAATTCAATATAATCTCGCATGTAACT
1 GAATATACAAATTCAATATAATCTCACATGTAACT
*
38619445 GAATATACAAATTCAATAGAAGT-TCACATGTAA-T
1 GAATATACAAATTCAATATAA-TCTCACATGTAACT
* * * * *
38619479 CGAATACA-AAAGTTCAATATAACCTCACATGCAGCC
1 -GAATATACAAA-TTCAATATAATCTCACATGTAACT
* * * *
38619515 GAATATACAAGTTCCATATGACCTCACAT
1 GAATATACAAATTCAATATAATCTCACAT
38619544 ATACTTACCT
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
34 4 0.05
35 74 0.91
36 3 0.04
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (35 bp):
GAATATACAAATTCAATATAATCTCACATGTAACT
Found at i:38627525 original size:47 final size:47
Alignment explanation
Indices: 38627456--38627834 Score: 571
Period size: 47 Copynumber: 8.1 Consensus size: 47
38627446 GAAATGATAG
* * *
38627456 TAAGGCCTAATAGCTGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
38627503 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
38627550 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
38627597 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
38627644 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
38627691 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
38627738 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * * * * * **
38627784 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
38627831 TAAG
1 TAAG
38627835 TCCCGAAGGG
Statistics
Matches: 310, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.13
47 270 0.87
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:38640678 original size:39 final size:40
Alignment explanation
Indices: 38640633--38640856 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
38640623 GCTCCTCGTT
* * * *
38640633 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
38640673 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38640712 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
38640752 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
38640791 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38640832 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38640857 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 66 0.42
40 78 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38640722 original size:79 final size:78
Alignment explanation
Indices: 38640633--38640857 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 78
38640623 GCTCCTCGTT
* * *
38640633 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
38640698 TTTAATAACTCGCA
66 CTT-ATAACTCGCA
* * * *
38640712 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
38640776 AACTTGTATCTCGCA
65 -ACTTATAACTCGCA
* * * * * *
38640791 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
38640855 GAC
64 GAC
38640858 AGCATTCAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.02
79 91 0.75
80 27 0.22
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
CTTATAACTCGCA
Found at i:38640865 original size:41 final size:41
Alignment explanation
Indices: 38640788--38640865 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38640778 CTTGTATCTC
* * *
38640788 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38640829 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38640866 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38648620 original size:39 final size:40
Alignment explanation
Indices: 38648575--38648799 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
38648565 GCTCCTCGTT
* * * *
38648575 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
38648615 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38648654 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
38648694 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
38648734 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38648775 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38648800 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38648808 original size:41 final size:41
Alignment explanation
Indices: 38648731--38648808 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38648721 CTTGTATCTC
* * *
38648731 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38648772 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38648809 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38650570 original size:42 final size:43
Alignment explanation
Indices: 38650493--38650629 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 43
38650483 TCCCGGACGT
* **
38650493 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
*
38650536 GGTCTTACATG-AAATCAGATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCAATGTCCCAGACAG
* * * * * ** *
38650578 GGTCCTATACGTAAATCTCA-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACATGTAAATC-AATATCGATGCCAATGTCCCAGACAG
38650621 GGTCTTACA
1 GGTCTTACA
38650630 CGATGTCTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 32 0.42
43 44 0.58
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
Found at i:38655542 original size:53 final size:54
Alignment explanation
Indices: 38655479--38655681 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 54
38655469 TTTTTAAACA
*
38655479 TACCACTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACT
1 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACT
* * * * ** **
38655532 TACCATTGCCATGGCTTGGCATGGTCTTACATGGGATATTTGCCTTATAGTAGTT
1 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACT
* * * * * * * *
38655587 TATCAATGCCATGTCTTGTCATGGTTTTACATGATTTCCTTGCATTGTAAAACT
1 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACT
* * *
38655641 TACCAATGCCATGCCTT-AGCATGGCCTTACTTGGTATCCTT
1 TACCAATGCCATGTCTTGA-CATGGTCTTACATGGTATCCTT
38655682 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
53 42 0.36
54 35 0.30
55 39 0.34
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACT
Done.