Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 175 of 349
Found at i:56774223 original size:27 final size:26
Alignment explanation
Indices: 56774167--56774223 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
56774157 CAACCTTAAC
* *
56774167 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
56774193 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
56774220 CCTA
1 CCTA
56774224 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:56774508 original size:26 final size:26
Alignment explanation
Indices: 56774458--56774511 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
56774448 CTAACAGAAC
*
56774458 ATACTTATTTCTTATTTTTTATTATT
1 ATACATATTTCTTATTTTTTATTATT
56774484 ATACATATTT-TTATTATTTCT-TTATT
1 ATACATATTTCTTATT-TTT-TATTATT
56774510 AT
1 AT
56774512 TTACCCGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 19 0.76
27 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (26 bp):
ATACATATTTCTTATTTTTTATTATT
Found at i:56784772 original size:45 final size:45
Alignment explanation
Indices: 56784722--56784809 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
56784712 CGATATCATT
**
56784722 TCACCGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
56784767 TCACCGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
56784810 CTGTACGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:56792488 original size:43 final size:44
Alignment explanation
Indices: 56792438--56792554 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 44
56792428 CCAGAATTTC
*
56792438 GCCTGCTAGGCTCGAA-GCCTGATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCTGATAGT-ATCTCACCGGCATTATA
56792481 GCCTGCTAGGCTCGAAGGGCC-GAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCGAA-GGCCTG-ATAGTATCTCACCGGCATTATA
** *
56792526 GATTGCTAGGCTCAAAGGCCTGAATAGTA
1 GCCTGCTAGGCTCGAAGGCCTG-ATAGTA
56792555 CTGTACGATA
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
43 16 0.25
44 5 0.08
45 43 0.66
46 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAGGCCTGATAGTATCTCACCGGCATTATA
Found at i:56800554 original size:39 final size:39
Alignment explanation
Indices: 56800510--56800785 Score: 480
Period size: 39 Copynumber: 7.1 Consensus size: 39
56800500 ATGCAAGACA
56800510 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
56800549 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
56800588 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
56800627 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
56800666 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
56800705 CTGGAAATGTATCCGGGCCAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
56800744 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
56800783 CTG
1 CTG
56800786 ATAATATAAT
Statistics
Matches: 225, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 225 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:56805087 original size:46 final size:46
Alignment explanation
Indices: 56805037--56805208 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
56805027 TGGTCGAGCA
56805037 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
56805083 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
56805127 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
56805175 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56805209 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 6 0.06
44 4 0.04
45 7 0.07
46 73 0.68
47 7 0.07
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:56805191 original size:92 final size:93
Alignment explanation
Indices: 56805034--56805203 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
56805024 GGATGGTCGA
*
56805034 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
56805099 TGAGT-CGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
56805126 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
56805191 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56805204 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56805470 original size:19 final size:20
Alignment explanation
Indices: 56805433--56805470 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56805423 ATAAGGTGGT
56805433 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56805453 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56805471 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56820250 original size:19 final size:20
Alignment explanation
Indices: 56820213--56820250 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56820203 ATAAGGTGGT
56820213 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56820233 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56820251 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56828885 original size:22 final size:24
Alignment explanation
Indices: 56828842--56828890 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
56828832 GTTTCCTTAT
*
56828842 AAATTATATATTATTTTAATAA-A
1 AAATTATATATTATTATAATAAGA
56828865 AAATT-TATATTA-TATATATAAGA
1 AAATTATATATTATTATA-ATAAGA
56828888 AAA
1 AAA
56828891 ATTTCTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 11 0.48
23 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATTATATATTATTATAATAAGA
Found at i:56833005 original size:41 final size:41
Alignment explanation
Indices: 56832912--56833047 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
56832902 TTTCAAATCA
* * ** *
56832912 CACAGTAAGTGCCATACATAGCTGAAGCTATCACATTTCTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTCA-TTCTCG
*
56832954 CACACTAAGTGCCATATGTAGCCAAAGCTATCTCATTCTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTCATTCTCG
* **
56832995 CACACTAAGTGCCATATATAG-CAGAAGCTATGTCA-AATCG
1 CACACTAAGTGCCATATATAGCCA-AAGCTATCTCATTCTCG
56833035 CACACTAAGTGCC
1 CACACTAAGTGCC
56833048 TCAAATAGCC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 18 0.22
41 36 0.43
42 29 0.35
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATCTCATTCTCG
Found at i:56833047 original size:40 final size:41
Alignment explanation
Indices: 56832869--56833047 Score: 157
Period size: 40 Copynumber: 4.4 Consensus size: 41
56832859 ACTCGATATC
*** * * *
56832869 TCGCACACTAAGTGTTGTACATAGCCGAAGTTATTTCA-AA
1 TCGCACACTAAGTGCCATACATAGCAGAAGCTATCTCATAA
* * * * **
56832909 TCACACAGTAAGTGCCATACATAGCTGAAGCTATCACATTTC
1 TCGCACACTAAGTGCCATACATAGCAGAAGCTATCTCA-TAA
** **
56832951 TCGCACACTAAGTGCCATATGTAGCCA-AAGCTATCTCATTC
1 TCGCACACTAAGTGCCATACATAG-CAGAAGCTATCTCATAA
* *
56832992 TCGCACACTAAGTGCCATATATAGCAGAAGCTATGTCA-AA
1 TCGCACACTAAGTGCCATACATAGCAGAAGCTATCTCATAA
56833032 TCGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
56833048 TCAAATAGCC
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
40 47 0.41
41 36 0.32
42 30 0.26
43 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATACATAGCAGAAGCTATCTCATAA
Found at i:56840574 original size:40 final size:41
Alignment explanation
Indices: 56840513--56840691 Score: 148
Period size: 40 Copynumber: 4.4 Consensus size: 41
56840503 ATTCGATATC
* * *
56840513 TCGCACACTAAGTGTCGTACATAGCCGAAGCTATTTCA-AA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCATAA
* **
56840553 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCACATTTC
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCA-TAA
* * ** * * **
56840595 TCACACACTAAGTTCCATATGTAGCCAAAGCAATCTCATTC
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCATAA
* * * *
56840636 TCACACACTAAGTGCCATATATAGCTGAAGCTATGT--TGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAT-AA
*
56840676 TCGCACACTAAATGCC
1 TCGCACACTAAGTGCC
56840692 TCAAATAGCC
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 48 0.42
41 33 0.29
42 31 0.27
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCATAA
Found at i:56840620 original size:42 final size:41
Alignment explanation
Indices: 56840511--56840669 Score: 158
Period size: 40 Copynumber: 3.9 Consensus size: 41
56840501 ATATTCGATA
* * * * **
56840511 TCTCGCACACTAAGTGTCGTACATAGCCGAAGCTATTTCA-
1 TCTCACACACTAAGTGCCATATATAGCCGAAGCTATCACAT
** * *
56840551 AATCGCACACTAAGTGCCATACATAGCCGAAGCTATCACATT
1 TCTCACACACTAAGTGCCATATATAGCCGAAGCTATCACA-T
* * * * *
56840593 TCTCACACACTAAGTTCCATATGTAGCCAAAGCAATCTCAT
1 TCTCACACACTAAGTGCCATATATAGCCGAAGCTATCACAT
*
56840634 TCTCACACACTAAGTGCCATATATAGCTGAAGCTAT
1 TCTCACACACTAAGTGCCATATATAGCCGAAGCTAT
56840670 GTTGAATCGC
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
40 34 0.35
41 32 0.33
42 31 0.32
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (41 bp):
TCTCACACACTAAGTGCCATATATAGCCGAAGCTATCACAT
Found at i:56840654 original size:41 final size:42
Alignment explanation
Indices: 56840556--56840660 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
56840546 TTTCAAATCG
* * *
56840556 CACACTAAGTGCCATACATAGCCGAAGCTATCACATTTCTCA
1 CACACTAAGTGCCATATATAGCCAAAGCAATCACATTTCTCA
* * *
56840598 CACACTAAGTTCCATATGTAGCCAAAGCAATCTCA-TTCTCA
1 CACACTAAGTGCCATATATAGCCAAAGCAATCACATTTCTCA
56840639 CACACTAAGTGCCATATATAGC
1 CACACTAAGTGCCATATATAGC
56840661 TGAAGCTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 26 0.47
42 29 0.53
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (42 bp):
CACACTAAGTGCCATATATAGCCAAAGCAATCACATTTCTCA
Found at i:56846185 original size:10 final size:10
Alignment explanation
Indices: 56846170--56846220 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
56846160 TACTTAAATT
56846170 ATTAATTTTA
1 ATTAATTTTA
56846180 ATTAATTTTATA
1 ATTAA-TTT-TA
* *
56846192 ATAAATTTTG
1 ATTAATTTTA
56846202 ATTAATTTTA
1 ATTAATTTTA
*
56846212 ATTTATTTT
1 ATTAATTTT
56846221 TGACAGATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 22 0.65
11 6 0.18
12 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:56856375 original size:64 final size:64
Alignment explanation
Indices: 56856294--56856478 Score: 187
Period size: 67 Copynumber: 2.9 Consensus size: 64
56856284 AGAAATTATG
* * * *
56856294 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCCACGAGATAA
* * * * *
56856358 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCCACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCCACGAGAT
56856423 AA
63 AA
* * * *
56856425 AT-TGGCTAGGTCACATGGTTGGTACTGA-GTGTTCACCATGT-GCACAAGAGAGCC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCC
56856479 GAACTATATG
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.26
66 20 0.20
67 32 0.33
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCCACGAGATAA
Found at i:56862211 original size:8 final size:8
Alignment explanation
Indices: 56862200--56862247 Score: 78
Period size: 8 Copynumber: 6.0 Consensus size: 8
56862190 CTAGATCGAC
56862200 AAAAGCCG
1 AAAAGCCG
56862208 AAAAGCCG
1 AAAAGCCG
*
56862216 AAATGCCG
1 AAAAGCCG
*
56862224 AAAAGCCA
1 AAAAGCCG
56862232 AAAAGCCG
1 AAAAGCCG
56862240 AAAAGCCG
1 AAAAGCCG
56862248 GCATTTCTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.23, T:0.02
Consensus pattern (8 bp):
AAAAGCCG
Found at i:56866447 original size:20 final size:20
Alignment explanation
Indices: 56866410--56866454 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
56866400 CTGTTTTGTT
*
56866410 ATGGG-CCAATTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
56866429 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
56866449 ATGGGC
1 ATGGGC
56866455 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:56876012 original size:27 final size:27
Alignment explanation
Indices: 56875972--56876025 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
56875962 TCATACAACC
*
56875972 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
56875999 CATGTAATAATAATTTGTCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
56876026 TCACACGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:56883477 original size:46 final size:46
Alignment explanation
Indices: 56883427--56883602 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56883417 TGGTTAAGCA
56883427 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56883473 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56883518 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56883566 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56883603 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56883583 original size:93 final size:93
Alignment explanation
Indices: 56883424--56883595 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56883414 GGATGGTTAA
* *
56883424 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56883489 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56883517 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56883582 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56883596 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56890382 original size:46 final size:46
Alignment explanation
Indices: 56890332--56890507 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
56890322 TGGTTGAGCA
56890332 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56890378 TCCGAACTCGTTGAGATGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
56890423 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56890471 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56890508 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56890491 original size:93 final size:93
Alignment explanation
Indices: 56890329--56890500 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56890319 GGATGGTTGA
* *
56890329 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGA
56890394 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
56890422 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGA
56890487 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56890501 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGA
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56893115 original size:31 final size:31
Alignment explanation
Indices: 56893072--56893140 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
56893062 TCGCCATTTG
56893072 GCTTGTCGCCTGTGTTAGATTGGTTTAGGTTT
1 GCTT-TCGCCTGTGTTAGATTGGTTTAGGTTT
56893104 GCTTTCGCCTGTGTTAGATTGGTTTAGGTTT
1 GCTTTCGCCTGTGTTAGATTGGTTTAGGTTT
56893135 GCTTTC
1 GCTTTC
56893141 TATGGTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.09, C:0.14, G:0.29, T:0.48
Consensus pattern (31 bp):
GCTTTCGCCTGTGTTAGATTGGTTTAGGTTT
Found at i:56897311 original size:43 final size:43
Alignment explanation
Indices: 56897240--56897322 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
56897230 GAGATATGTG
* *
56897240 GCATTCGAGCTCGTTGAGAAGTCTGAGTTTATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGAAGTCTGAGTTCATTATGGATGCGA
*
56897283 GCATCCGAGCTCGTTGAGAGGT-TCGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAAGTCT-GAGTTCATTATGGATG
56897323 TGTTACACGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAAGTCTGAGTTCATTATGGATGCGA
Found at i:56899094 original size:40 final size:40
Alignment explanation
Indices: 56899045--56899195 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
56899035 CAGAATTTAA
** *
56899045 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
56899085 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * * *
56899125 CCGGATTTAGTAACTCGCACCAATGCCTTTGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
56899164 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGG
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGG
56899196 ATCTTAGTCT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 34 0.35
40 62 0.65
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:56899178 original size:39 final size:40
Alignment explanation
Indices: 56899064--56899248 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
56899054 GCTACTCGTT
*
56899064 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56899104 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
56899144 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
56899183 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56899224 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56899249 GCATTTAACA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56899232 original size:79 final size:80
Alignment explanation
Indices: 56899064--56899248 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
56899054 GCTACTCGTT
* *
56899064 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
56899128 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * ** *
56899145 CAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCTGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
56899208 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
56899224 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
56899249 GCATTTAACA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 24 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:56907598 original size:40 final size:40
Alignment explanation
Indices: 56907553--56907735 Score: 312
Period size: 40 Copynumber: 4.6 Consensus size: 40
56907543 CAAGCTCAAT
* * * * *
56907553 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
56907593 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
56907633 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
56907673 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
56907713 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
56907736 GTATTCAAAT
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:56916027 original size:40 final size:40
Alignment explanation
Indices: 56915924--56916074 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
56915914 ATAACCACAA
* * * *
56915924 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
56915964 GCGACGAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GC-AC-AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
56916005 GCACAATTGCCTTCGAGTCTTAGCCCGGATATATCAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
56916045 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGAT
56916075 GTATTCAAAT
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 2 0.02
40 64 0.63
41 33 0.33
42 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
Found at i:56916032 original size:81 final size:80
Alignment explanation
Indices: 56915924--56916074 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 80
56915914 ATAACCACAA
* * *
56915924 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCGACGAATGCCTTCGGGTCTTAGC
1 GCACAATTGCCTTCGAGTCTTAACCCGGATATAGCAACTCGC-ACAAATGCCTTCGGGTCTTAGC
56915989 CCGGATATATCAACTT
65 CCGGATATATCAACTT
* * *
56916005 GCACAATTGCCTTCGAGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGAGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
56916070 CGGAT
66 CGGAT
56916075 GTATTCAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
80 27 0.42
81 37 0.58
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAATTGCCTTCGAGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTT
Found at i:56919348 original size:18 final size:18
Alignment explanation
Indices: 56919325--56919366 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
56919315 TAAAAATGAG
*
56919325 AGAAAAGAATAAAGA-TCA
1 AGAAAACAA-AAAGAGTCA
*
56919343 AGAAAACAAAAAGAGTGA
1 AGAAAACAAAAAGAGTCA
56919361 AGAAAA
1 AGAAAA
56919367 AATGAGTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.69, C:0.05, G:0.19, T:0.07
Consensus pattern (18 bp):
AGAAAACAAAAAGAGTCA
Found at i:56923629 original size:20 final size:20
Alignment explanation
Indices: 56923604--56923645 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
56923594 TCCCATTACC
*
56923604 AAAACATTTCGACCAACCGT
1 AAAACATTTCAACCAACCGT
56923624 AAAACATTTCAACCAACCGT
1 AAAACATTTCAACCAACCGT
56923644 AA
1 AA
56923646 TTTGTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.29, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAACATTTCAACCAACCGT
Found at i:56934876 original size:46 final size:48
Alignment explanation
Indices: 56934754--56934877 Score: 146
Period size: 48 Copynumber: 2.6 Consensus size: 48
56934744 TGATTCTTTT
*
56934754 ATTTGGCTACGGGCCATGGTATAGGTA-TTTCAGAGAGGAGTTACCTTG
1 ATTTGGCTACGGGCCATGGTATAGGTACTTT-AGAGAGAAGTTACCTTG
* * * * *
56934802 ATTTGGCAATGGGCCATAGTATAGGTACTTT-GGGATAAGTTACCTTG
1 ATTTGGCTACGGGCCATGGTATAGGTACTTTAGAGAGAAGTTACCTTG
* *
56934849 A-TTGGTTACGGGCCATGGTATAAGTACTT
1 ATTTGGCTACGGGCCATGGTATAGGTACTT
56934878 ATCAATTGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 23 0.36
47 14 0.22
48 24 0.38
49 3 0.05
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (48 bp):
ATTTGGCTACGGGCCATGGTATAGGTACTTTAGAGAGAAGTTACCTTG
Found at i:56940966 original size:37 final size:37
Alignment explanation
Indices: 56940907--56941052 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
56940897 AGCTCAGACG
* *
56940907 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56940944 AAATCTCCACAAGTAGTCATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
56940981 TACTCTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56941018 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56941053 ATATATTTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56941336 original size:47 final size:47
Alignment explanation
Indices: 56941258--56941591 Score: 506
Period size: 47 Copynumber: 7.1 Consensus size: 47
56941248 ATATATATTC
* * * * * *
56941258 CACATTGACCATTCAGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
* *
56941305 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
*
56941352 CACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
*
56941399 CACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
* * *
56941446 CACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
* *
56941493 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
* **
56941540 CACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
56941587 CACAT
1 CACAT
56941592 AAAATCCTAA
Statistics
Matches: 262, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 262 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
Found at i:56941425 original size:22 final size:22
Alignment explanation
Indices: 56941397--56941473 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
56941387 GTTCACATTC
56941397 ATCACATAGGCCATTCGGCCTT
1 ATCACATAGGCCATTCGGCCTT
* * *
56941419 ATCACATATATG-CATGTTC-ACATT
1 ATCAC--ATAGGCCA--TTCGGCCTT
56941443 CATCACATAGGCCATTCGGCCTT
1 -ATCACATAGGCCATTCGGCCTT
56941466 ATCACATA
1 ATCACATA
56941474 TATGCATGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 9 0.21
25 8 0.19
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATAGGCCATTCGGCCTT
Found at i:56946762 original size:40 final size:40
Alignment explanation
Indices: 56946676--56946899 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
56946666 TATTCGGATG
*
56946676 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
56946717 ATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
56946757 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
56946798 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
56946838 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
56946878 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
56946900 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.08
40 91 0.55
41 61 0.37
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:56946812 original size:81 final size:80
Alignment explanation
Indices: 56946675--56946899 Score: 328
Period size: 81 Copynumber: 2.8 Consensus size: 80
56946665 TTATTCGGAT
56946675 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
*
56946740 CATTTGCGCTAGTGAC
65 CATTTGCGCGAGTGAC
*
56946756 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
* *
56946821 CATTTGTGCGAGTTAC
65 CATTTGCGCGAGTGAC
* * * * *
56946837 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CTATATCC-GGTTAAATCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGTTAAGTCCCGAAGG
56946900 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 14 0.11
80 16 0.12
81 102 0.77
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGC
ATTTGCGCGAGTGAC
Found at i:56952953 original size:25 final size:25
Alignment explanation
Indices: 56952925--56953003 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
56952915 ACTCGGCCCT
56952925 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
56952950 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
56952972 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
56952997 ATCACAT
1 ATCACAT
56953004 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:56952953 original size:47 final size:47
Alignment explanation
Indices: 56952875--56953277 Score: 698
Period size: 47 Copynumber: 8.6 Consensus size: 47
56952865 CCCTTCGGGA
* * * * * * *
56952875 CTTATCACATTTATACACTTTAACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56952922 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56952969 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56953016 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56953063 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56953110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56953157 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56953204 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56953251 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56953278 TATTCAAATA
Statistics
Matches: 343, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 343 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56958203 original size:39 final size:40
Alignment explanation
Indices: 56958102--56958325 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
56958092 TTGAATGATG
* *
56958102 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56958141 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56958182 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56958221 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56958260 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56958299 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56958326 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 78 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56958289 original size:79 final size:80
Alignment explanation
Indices: 56958102--56958325 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
56958092 TTGAATGATG
* * * *
56958102 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
56958165 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
56958182 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
56958244 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
56958260 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
56958325 G
66 G
56958326 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 56 0.44
80 35 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:56958356 original size:79 final size:79
Alignment explanation
Indices: 56958155--56958358 Score: 227
Period size: 79 Copynumber: 2.6 Consensus size: 79
56958145 GGACTAAGAT
** * * * *
56958155 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
56958219 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
56958233 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
56958297 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
56958313 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
56958359 TACGTGATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
78 34 0.31
79 50 0.46
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:56967987 original size:11 final size:11
Alignment explanation
Indices: 56967971--56967996 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56967961 AGAATTATCA
56967971 TTTATTTTTAT
1 TTTATTTTTAT
56967982 TTTATTTTTAT
1 TTTATTTTTAT
56967993 TTTA
1 TTTA
56967997 AGTAATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:56973476 original size:69 final size:69
Alignment explanation
Indices: 56973365--56973503 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
56973355 CAAGACTCTA
* *
56973365 TCAGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
56973430 CCTG
66 CCTG
56973434 TCAGCCCTACCACAACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
56973499 CCTG
66 CCTG
56973503 T
1 T
56973504 TTTTCCTATC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
CCTG
Found at i:56976409 original size:188 final size:188
Alignment explanation
Indices: 56976092--56976470 Score: 713
Period size: 188 Copynumber: 2.0 Consensus size: 188
56976082 CACGAACATC
56976092 AACTTTTAGTTGTGGTGAGCAGCTCACATAGAAGTAATTACTCTCACACCCACAACAGAAATCTT
1 AACTTTTAGTTGTGGTGAGCAGCTCACATAGAAGTAATTACTCTCACACCCACAACAGAAATCTT
56976157 TCTAATGACCATCTCATTCCAAACATGAAGTTAGACAACGAGTGAAAGAGCTTTAACCATACTAA
66 TCTAATGACCATCTCATTCCAAACATGAAGTTAGACAACGAGTGAAAGAGCTTTAACCATACTAA
56976222 ATTTTTAAAGAGAAATTTTCCTTAGGAGAGAATAAAGTGAAGAATGTGATATGCAAAT
131 ATTTTTAAAGAGAAATTTTCCTTAGGAGAGAATAAAGTGAAGAATGTGATATGCAAAT
* *
56976280 AACTTTTAGTTGTGGTGAGCAGCTCACATAGAAGTAATTACTCTGACACCCACAGCAGAAATCTT
1 AACTTTTAGTTGTGGTGAGCAGCTCACATAGAAGTAATTACTCTCACACCCACAACAGAAATCTT
* * *
56976345 TCTACTGACCATCTCATTCCAAACATGAAGTTAGACAATGAGTGAAAGGGCTTTAACCATACTAA
66 TCTAATGACCATCTCATTCCAAACATGAAGTTAGACAACGAGTGAAAGAGCTTTAACCATACTAA
56976410 ATTTTTAAAGAGAAATTTTCCTTAGGAGAGAATAAAGTGAAGAATGTGATATGCAAAT
131 ATTTTTAAAGAGAAATTTTCCTTAGGAGAGAATAAAGTGAAGAATGTGATATGCAAAT
56976468 AAC
1 AAC
56976471 CTGGCAATAC
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 186 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (188 bp):
AACTTTTAGTTGTGGTGAGCAGCTCACATAGAAGTAATTACTCTCACACCCACAACAGAAATCTT
TCTAATGACCATCTCATTCCAAACATGAAGTTAGACAACGAGTGAAAGAGCTTTAACCATACTAA
ATTTTTAAAGAGAAATTTTCCTTAGGAGAGAATAAAGTGAAGAATGTGATATGCAAAT
Found at i:56978211 original size:44 final size:44
Alignment explanation
Indices: 56978148--56978237 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
56978138 AGAGAAACAA
56978148 GATAGTCTCTCGAAGCCTATTTTACGGAGTTTAAAAACGTGTAT
1 GATAGTCTCTCGAAGCCTATTTTACGGAGTTTAAAAACGTGTAT
*
56978192 GATAGTCTCTCGAAGCCTATTTTACGGAGTTTAAAAAGGTGTAT
1 GATAGTCTCTCGAAGCCTATTTTACGGAGTTTAAAAACGTGTAT
56978236 GA
1 GA
56978238 AGAGATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (44 bp):
GATAGTCTCTCGAAGCCTATTTTACGGAGTTTAAAAACGTGTAT
Found at i:56989539 original size:10 final size:10
Alignment explanation
Indices: 56989518--56989600 Score: 58
Period size: 10 Copynumber: 8.9 Consensus size: 10
56989508 TGGTTTAGAA
56989518 TATTATAAAAT
1 TATTA-AAAAT
56989529 TATTAAAAAT
1 TATTAAAAAT
56989539 TA-TAAATAAT
1 TATTAAA-AAT
56989549 TA-T-AAAAT
1 TATTAAAAAT
56989557 TATTTAAAAA-
1 TA-TTAAAAAT
**
56989567 -GGTAAAAA-
1 TATTAAAAAT
56989575 TATT-AAAA-
1 TATTAAAAAT
56989583 -ATTAAAAAT
1 TATTAAAAAT
56989592 TATTAAAAA
1 TATTAAAAA
56989601 ATTGTCAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
7 3 0.05
8 19 0.32
9 7 0.12
10 22 0.37
11 9 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:56989572 original size:28 final size:29
Alignment explanation
Indices: 56989516--56989586 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
56989506 GATGGTTTAG
*
56989516 AATATTATAAAATTATTAAAAATTATAAA
1 AATATTATAAAATTATTAAAAATGATAAA
* *
56989545 TA-ATTATAAAATTATTTAAAAA-GGTAAA
1 AATATTATAAAATTA-TTAAAAATGATAAA
56989573 AATATTA-AAAATTA
1 AATATTATAAAATTA
56989587 AAAATTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 24 0.67
29 12 0.33
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
AATATTATAAAATTATTAAAAATGATAAA
Found at i:56989595 original size:17 final size:17
Alignment explanation
Indices: 56989530--56989600 Score: 83
Period size: 17 Copynumber: 4.1 Consensus size: 17
56989520 TTATAAAATT
56989530 ATTAAAAATTA-TAAATA
1 ATTAAAAATTATTAAA-A
56989547 ATTATAAAATTATTTAAAA
1 ATTA-AAAATTA-TTAAAA
*
56989566 AGGTAAAAA-TATTAAAA
1 A-TTAAAAATTATTAAAA
56989583 ATTAAAAATTATTAAAA
1 ATTAAAAATTATTAAAA
56989600 A
1 A
56989601 ATTGTCAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.13
17 20 0.43
18 9 0.19
19 6 0.13
20 6 0.13
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATTAAAAATTATTAAAA
Found at i:56989601 original size:18 final size:18
Alignment explanation
Indices: 56989530--56989603 Score: 82
Period size: 18 Copynumber: 4.2 Consensus size: 18
56989520 TTATAAAATT
*
56989530 ATTAAAAATTA-TAAATA
1 ATTAAAAATTATTAAAAA
56989547 ATTATAAAATTATTTAAAAA
1 ATTA-AAAATTA-TTAAAAA
**
56989567 GGTAAAAA-TATT-AAAA
1 ATTAAAAATTATTAAAAA
56989583 ATTAAAAATTATTAAAAA
1 ATTAAAAATTATTAAAAA
56989601 ATT
1 ATT
56989604 GTCAAAATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 10 0.21
17 10 0.21
18 16 0.34
19 4 0.09
20 7 0.15
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATTAAAAATTATTAAAAA
Found at i:56989996 original size:19 final size:19
Alignment explanation
Indices: 56989960--56990007 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
56989950 ATTTTCAGTT
* **
56989960 TTTTACAATTTTTTAATAA
1 TTTTAAAATTTTAAAATAA
* *
56989979 TTTTATAATTTTAAAATAT
1 TTTTAAAATTTTAAAATAA
56989998 TTTTAAAATT
1 TTTTAAAATT
56990008 CTTTTGTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAAAATTTTAAAATAA
Found at i:56990037 original size:19 final size:18
Alignment explanation
Indices: 56990015--56990080 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
56990005 ATTCTTTTGT
56990015 TTTTTATGATTTTTTAAAA
1 TTTTTAT-ATTTTTTAAAA
*
56990034 -TTTTA-ATTTTTTAGAA
1 TTTTTATATTTTTTAAAA
* **
56990050 TTATTATAATTTTTTACCA
1 TTTTTAT-ATTTTTTAAAA
56990069 TTTTTAATATTT
1 TTTTT-ATATTT
56990081 AATGTTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 10 0.26
17 4 0.11
18 5 0.13
19 17 0.45
20 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTTATATTTTTTAAAA
Found at i:56990060 original size:25 final size:26
Alignment explanation
Indices: 56990014--56990062 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
56990004 AATTCTTTTG
* *
56990014 TTTTTTATGATTTTTTAAAATTTTAA
1 TTTTTTATGAATTATTAAAATTTTAA
*
56990040 TTTTTTA-GAATTATTATAATTTT
1 TTTTTTATGAATTATTAAAATTTT
56990063 TTACCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTTTTATGAATTATTAAAATTTTAA
Found at i:56990117 original size:33 final size:34
Alignment explanation
Indices: 56990053--56990119 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
56990043 TTTAGAATTA
* *
56990053 TTATAATTTTTTACCATTTTTAATATTTAATGTT
1 TTATAATTTTTTACCATTTATAATATATAATGTT
*
56990087 TTATTATTTTTTACCATTTAT-ATATATAATGTT
1 TTATAATTTTTTACCATTTATAATATATAATGTT
56990120 CTGAACCACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (34 bp):
TTATAATTTTTTACCATTTATAATATATAATGTT
Found at i:57004359 original size:13 final size:14
Alignment explanation
Indices: 57004335--57004363 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
57004325 GCAAATTAGA
57004335 AAAAGAAAGAAAAG
1 AAAAGAAAGAAAAG
57004349 AAAAG-AAGAAAAG
1 AAAAGAAAGAAAAG
57004362 AA
1 AA
57004364 CACGCGGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAG
Found at i:57039529 original size:27 final size:27
Alignment explanation
Indices: 57039344--57039528 Score: 226
Period size: 27 Copynumber: 6.9 Consensus size: 27
57039334 ATTACCAAAG
* *
57039344 TACCCCCGATTTACAGAATTACTGTTC
1 TACCCTCGATTTACAGAATTACTGTTT
* **
57039371 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
57039398 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
57039425 TACCCTCGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
57039452 TACCCTTGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
57039479 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
57039506 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
57039529 AAAATACCCT
Statistics
Matches: 138, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:57039537 original size:81 final size:81
Alignment explanation
Indices: 57039344--57039556 Score: 246
Period size: 81 Copynumber: 2.6 Consensus size: 81
57039334 ATTACCAAAG
* * * *
57039344 TACCCCCGATTTACAGAATTACTGTTCTACCCTCGATTTATAGAATTACCATTTTACCATCGATT
1 TACCCTCGATTTACAGAATTACTGTTATACCCTTGATTTATAAAATTACCATTTTACCATCGATT
* *
57039409 TATAGAATTACCGTTT
66 TACAGAATTACCATTT
* * * ** * *
57039425 TACCCTCGATTTACAGAATTGCCGTTTTACCCTTGATTTATAAAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACTGTTATACCCTTGATTTATAAAATTACCATTTTACCATCGATT
*
57039490 TACAGAATTACTATTT
66 TACAGAATTACCATTT
* *** * *
57039506 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACTGTTATACCCTTGATTTATAAAATTACCA
57039557 AAATACCCTC
Statistics
Matches: 108, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 108 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTATACCCTTGATTTATAAAATTACCATTTTACCATCGATT
TACAGAATTACCATTT
Found at i:57039553 original size:54 final size:54
Alignment explanation
Indices: 57039344--57039554 Score: 143
Period size: 54 Copynumber: 3.9 Consensus size: 54
57039334 ATTACCAAAG
* * **** * * * *
57039344 TACCCCCGATTTACAGAATTACTGTTCTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACTATTT
* * * ***** * * * **
57039398 TACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACTATTT
* * **** *
57039452 TACCCTTGATTTATAAAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACTATTT
*
57039506 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTAC
57039555 CAAAATACCC
Statistics
Matches: 133, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 133 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACTATTT
Found at i:57039564 original size:54 final size:54
Alignment explanation
Indices: 57039452--57039836 Score: 215
Period size: 54 Copynumber: 7.1 Consensus size: 54
57039442 ATTGCCGTTT
* ***** * * ***
57039452 TACCCTTGATTTATAAAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * *
57039506 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * * * ** *
57039560 TACCCTCGA-TCAGTAAAATTACAAAAATATCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * *** ** *
57039613 TACCC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * *** *
57039667 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACTGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACC-CTTGGTTTACAAAATTACTAAAA
* * * * * *
57039721 TACCTTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTA-AAA
* * *** * *
57039775 TACCCTTGAGTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAT-AAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
57039831 TACCCT
1 TACCCT
57039837 TGGTTTGTAG
Statistics
Matches: 257, Mismatches: 62, Indels: 22
0.75 0.18 0.06
Matches are distributed among these distances:
52 1 0.00
53 40 0.16
54 172 0.67
55 7 0.03
56 37 0.14
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
Found at i:57039705 original size:81 final size:80
Alignment explanation
Indices: 57039520--57039754 Score: 310
Period size: 81 Copynumber: 2.9 Consensus size: 80
57039510 CTCGATTTAC
** * * ** *
57039520 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACAAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
57039585 AATA-TCCTAGTCTGT
65 AATACCCCTAGTCTGT
*
57039600 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
57039665 AATACCCCTAGTTTGT
65 AATACCCCTAGTCTGT
* * * *
57039681 AAAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATACCTTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
57039746 AATACCCCT
65 AATACCCCT
57039755 GATTTACAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 59 0.43
81 78 0.57
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTCTGT
Found at i:57039839 original size:27 final size:27
Alignment explanation
Indices: 57039452--57039842 Score: 191
Period size: 27 Copynumber: 14.4 Consensus size: 27
57039442 ATTGCCGTTT
* ****
57039452 TACCCTTGATTTATAAAATTACTGTTT
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * ***
57039479 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
57039506 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* *
57039533 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
57039560 TACCC-TCGATCAGTAAAATTACAAAAA
1 TACCCTTGGTTTA-TAAAATTACTAAAA
* * * * *
57039587 TATCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * **
57039613 TACCCCTGGTTTGTAAAATTACCGAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
*** * *
57039640 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
57039667 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
57039694 TACCAC-TGGTTTGTGAAATTACTGAAA
1 TACC-CTTGGTTTATAAAATTACTAAAA
** * *
57039721 TA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTT-GGTTTATAAAATTACTAAAA
* * * *
57039748 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGGTTTATAAAATTACTA-AAA
* *
57039775 TACCCTTGAGTTTCTAAAAATTA-TGGAAA
1 TACCCTTG-GTTTAT-AAAATTACT-AAAA
* * *
57039804 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
57039831 TACCCTTGGTTT
1 TACCCTTGGTTT
57039843 GTAGATTTGC
Statistics
Matches: 290, Mismatches: 62, Indels: 24
0.77 0.16 0.06
Matches are distributed among these distances:
25 1 0.00
26 23 0.08
27 238 0.82
28 12 0.04
29 16 0.06
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACTAAAA
Found at i:57039987 original size:27 final size:27
Alignment explanation
Indices: 57039896--57039987 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
57039886 ACCCCTATTA
*
57039896 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
57039923 GGTAAAGA-GACCGTAAAGCCCTTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
57039950 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
57039977 GGTAAAATGAC
1 GGTAAAATGAC
57039988 GAATATGCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:57040935 original size:25 final size:26
Alignment explanation
Indices: 57040792--57040966 Score: 201
Period size: 26 Copynumber: 6.8 Consensus size: 26
57040782 GAGGAAGTGC
* **
57040792 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
57040818 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
57040844 AAAAGAGCTTATGCGCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * *
57040870 AAAATGACTTATGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * * **
57040896 GAAAGGGATTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
57040922 AAAAGGGCTT-TGCCCCAGTTTACAG
1 AAAAGGGCTTATGCCCCAGTTTACCG
57040947 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
57040967 ATTAAAGAGG
Statistics
Matches: 124, Mismatches: 25, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
25 32 0.26
26 92 0.74
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:57041170 original size:42 final size:42
Alignment explanation
Indices: 57041111--57041202 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
57041101 TAGTCTCCCC
* *
57041111 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGGTATTG
1 AAATGGGCTTACATACATTCATTGATATTTCATGTGGTATTG
* *
57041153 AAATGTGCTTACATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTACATACATTCATTGATATTTCATGTGGTATTG
57041195 AAATGGGC
1 AAATGGGC
57041203 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTACATACATTCATTGATATTTCATGTGGTATTG
Found at i:57041261 original size:31 final size:31
Alignment explanation
Indices: 57041226--57041304 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
57041216 CGTTTACAAT
57041226 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
57041257 AAAGGCTTCGGCCTAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
57041288 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
57041305 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:57042106 original size:48 final size:48
Alignment explanation
Indices: 57042043--57042212 Score: 153
Period size: 48 Copynumber: 3.5 Consensus size: 48
57042033 GTCGAGGCCG
* * * *** * *
57042043 ATGCCATGTCTCAGACATGGTCTTACACTAGCTCTTGTCTTAATGCCA
1 ATGCCATGACCCAGACATGGTCTTACACTAGCGCACCTATCAATGCCA
57042091 ATGCCAT-ACCCCAGACATGGTCTTACACTAGCGCACCTATCAATGCCA
1 ATGCCATGA-CCCAGACATGGTCTTACACTAGCGCACCTATCAATGCCA
* * * * * * ** *
57042139 ATGCCATGACCCAAACATGGTCCTACACTACCTCGCATATCAACACCG
1 ATGCCATGACCCAGACATGGTCTTACACTAGCGCACCTATCAATGCCA
* *
57042187 ATGCCATGTCCTAGACATGGTCTTAC
1 ATGCCATGACCCAGACATGGTCTTAC
57042213 TTTGGCTTTC
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
48 98 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (48 bp):
ATGCCATGACCCAGACATGGTCTTACACTAGCGCACCTATCAATGCCA
Found at i:57049534 original size:72 final size:73
Alignment explanation
Indices: 57049395--57049534 Score: 173
Period size: 72 Copynumber: 1.9 Consensus size: 73
57049385 AGCTCATAAG
* *
57049395 AGCCATAATCAGGAAGCTAATGCGAGCCAATAACGGGTACCTCTTAAGAGCCATTAATCGGGAAG
1 AGCCATAATCAGGAAGCTAATGCGAGCCAATAACAGGTACCTCTTAAGAGCCATTAATCAGGAAG
57049460 CTCCGGAT
66 CTCCGGAT
* *
57049468 AGCCATATATC-GAGAAGCTCAA-GCGAGCC-AT-ACAGGTAGCTC-TAGAGATCCATTAATCAG
1 AGCCATA-ATCAG-GAAGCT-AATGCGAGCCAATAACAGGTACCTCTTA-AGAGCCATTAATCAG
57049528 GAAGCTC
62 GAAGCTC
57049535 AAAAAGAGCC
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
71 2 0.03
72 29 0.49
73 10 0.17
74 16 0.27
75 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (73 bp):
AGCCATAATCAGGAAGCTAATGCGAGCCAATAACAGGTACCTCTTAAGAGCCATTAATCAGGAAG
CTCCGGAT
Found at i:57053157 original size:50 final size:50
Alignment explanation
Indices: 57053079--57053220 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
57053069 TGAATCACCA
* * * *
57053079 TTTGTGGACAAACGACCACTAATTTGCAGATAAATTGCCACTGATAACAC
1 TTTGTGGACAAGCCACCACTAATATGCAGATAAACTGCCACTGATAACAC
* ** * *
57053129 TTTGTGGACAAGCCACCACTGATATGCAGATATGCTGCCATTTATAACAC
1 TTTGTGGACAAGCCACCACTAATATGCAGATAAACTGCCACTGATAACAC
* * ** * *
57053179 TTTGTGGACTAGCCACTACTAATACCCAAATATACTGCCACT
1 TTTGTGGACAAGCCACCACTAATATGCAGATAAACTGCCACT
57053221 TACTTCCACC
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (50 bp):
TTTGTGGACAAGCCACCACTAATATGCAGATAAACTGCCACTGATAACAC
Found at i:57053422 original size:17 final size:15
Alignment explanation
Indices: 57053392--57053425 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
57053382 GATCATAGGT
57053392 CTCAATATTCACATA
1 CTCAATATTCACATA
57053407 CTCATATATATCACATA
1 CTCA-ATAT-TCACATA
57053424 CT
1 CT
57053426 TGAATCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (15 bp):
CTCAATATTCACATA
Found at i:57057087 original size:45 final size:45
Alignment explanation
Indices: 57057038--57057170 Score: 143
Period size: 45 Copynumber: 3.0 Consensus size: 45
57057028 AGGATTTTTG
*
57057038 ATATGTGTTCTTGTGTAAGACCAAGTCTGGGACATTGGCATCGAT
1 ATATGTGTTCTTGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* *
57057083 ATATGTGGTTAC--GAGTAAGACCATGTCTGGGACATCGGCATC-AT
1 ATATGT-GTT-CTTGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
57057127 AT-T-TGAT-TTGTGTAAGACCCTGTTTGGGACAGTGGCATCGAT
1 ATATGTGTTCTTGTGTAAGACCATGTCTGGGACATTGGCATCGAT
57057169 AT
1 AT
57057171 GAGATAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
41 27 0.36
42 5 0.07
43 1 0.01
44 4 0.05
45 33 0.45
46 3 0.04
47 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (45 bp):
ATATGTGTTCTTGTGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:57064188 original size:27 final size:26
Alignment explanation
Indices: 57064093--57064206 Score: 79
Period size: 27 Copynumber: 4.2 Consensus size: 26
57064083 TTTATATCAA
* *
57064093 TTTTATTATAAATATAATATT-AATTAT
1 TTTTAATAT-AATATAAT-TTAAATAAT
* * *
57064120 TATTTAATATTAA-AAAAATTAATATATT
1 T-TTTAATA-TAATATAATTTAA-ATAAT
* *
57064148 TTTTAGTATTATATAATTTAAATAAT
1 TTTTAATATAATATAATTTAAATAAT
* *
57064174 TTTTAATATGAATATAATTTTAATAAC
1 TTTTAATAT-AATATAATTTAAATAAT
57064201 TTTTAA
1 TTTTAA
57064207 CTATTGTTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
26 16 0.24
27 38 0.57
28 12 0.18
29 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTTAATATAATATAATTTAAATAAT
Found at i:57065584 original size:22 final size:22
Alignment explanation
Indices: 57065559--57065604 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
57065549 TGACTCTACA
57065559 AATGCATTCGATGATAGAAACG
1 AATGCATTCGATGATAGAAACG
57065581 AATGCATTCGATGATAGAAACG
1 AATGCATTCGATGATAGAAACG
57065603 AA
1 AA
57065605 AAGTGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (22 bp):
AATGCATTCGATGATAGAAACG
Found at i:57070373 original size:51 final size:51
Alignment explanation
Indices: 57070208--57070385 Score: 261
Period size: 51 Copynumber: 3.5 Consensus size: 51
57070198 ACTAGTGACT
* * *
57070208 CAAGTATGGTACTATGTGAAGGCGACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
57070257 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * *
57070309 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGATTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* *
57070360 CAAGGGTGGTACTATGTGTAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
57070386 CGGGTATCTG
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
49 32 0.27
51 44 0.37
52 42 0.36
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:57073658 original size:48 final size:46
Alignment explanation
Indices: 57073511--57073686 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
57073501 TGATATGTAG
* *
57073511 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCCAC-ATTACGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCCTCGA-CACGAGA
* * * * * *
57073557 GCCAGTGTAAGACCATGTTGGACATGGCCTTGGCATTGAGACAAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCCTCGACACGAGA
* * * *
57073603 TCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGA
1 GCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCTCGACACGAGA
57073651 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGACCATGT-T-GGACATGGCATCGGC
57073687 AATCCACCCT
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 53 0.49
47 2 0.02
48 53 0.49
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGGCCTCGACACGAGA
Found at i:57076599 original size:44 final size:45
Alignment explanation
Indices: 57076525--57076609 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
57076515 TTGATATCTC
** *
57076525 AAAGTCCATGGTTTGTACCATGGCAATTAAGGAAGAATTGATGGA
1 AAAGTCCATGGTTCATAACATGGCAATTAAGGAAGAATTGATGGA
* *
57076570 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTTCATAACATGGCAATTAAGGAAGAATTGA
57076610 CGATTAAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 26 0.74
45 9 0.26
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (45 bp):
AAAGTCCATGGTTCATAACATGGCAATTAAGGAAGAATTGATGGA
Found at i:57076817 original size:47 final size:47
Alignment explanation
Indices: 57076753--57076870 Score: 200
Period size: 47 Copynumber: 2.5 Consensus size: 47
57076743 TGGCACTAAT
57076753 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
*
57076800 ACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
* * *
57076847 ATAAGGACAGCATGTAAGACCATG
1 ACAAGGATACCATGTAAGACCATG
57076871 CCAAGGCATG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (47 bp):
ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
Found at i:57076978 original size:55 final size:55
Alignment explanation
Indices: 57076857--57077153 Score: 349
Period size: 55 Copynumber: 5.5 Consensus size: 55
57076847 ATAAGGACAG
* ** * *
57076857 CATGTAAGACCATGCCAAGGCATGGCATTGACAAGTTCTATAAGGC-AAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGATAC
* *
57076911 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGATAC
* *
57076966 CATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-AT-AGGGAAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCTATAAGGCAAAGGATAC
* * *
57077019 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TTC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGATAC
* * * *
57077074 CATATAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ACAAGGC-AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGATAC
* *
57077127 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
57077154 ATGGTAAGTT
Statistics
Matches: 208, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
52 12 0.06
53 67 0.32
54 38 0.18
55 79 0.38
56 12 0.06
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGATAC
Found at i:57077047 original size:108 final size:107
Alignment explanation
Indices: 57076857--57077153 Score: 459
Period size: 108 Copynumber: 2.7 Consensus size: 107
57076847 ATAAGGACAG
** * *
57076857 CATGTAAGACCATGCCAAGGCATGGCATTGACAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTG-TGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
*
57076922 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
64 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
* *
57076966 CATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAGGGAAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATT-GTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
*
57077031 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
65 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
* * *
57077074 CATATAAGACCATGCCAAGGCATGGCATTGGTGAGTTCACAAGGCAAGGATACCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATT-GTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
57077139 TGTCAAGACATGGCA
65 TGTCAAGACATGGCA
57077154 ATGGTAAGTT
Statistics
Matches: 173, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
108 138 0.80
109 34 0.20
110 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (107 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGTGAGTTCATAAGGCAAGGATACCATGTAAGACCAT
GTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
Found at i:57082560 original size:50 final size:50
Alignment explanation
Indices: 57082506--57082607 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
57082496 AAAGTTTGAG
57082506 TTAGGGAATATTTTGAATAGTAAATTAATTAAATAAGTGAAATATGATGT
1 TTAGGGAATATTTTGAATAGTAAATTAATTAAATAAGTGAAATATGATGT
* *
57082556 TTAGGGAATGTTTTGAATAGTACATTAATTAAATAAGTGAAATATGATGT
1 TTAGGGAATATTTTGAATAGTAAATTAATTAAATAAGTGAAATATGATGT
57082606 TT
1 TT
57082608 TAGATCCTAG
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:0.41, C:0.01, G:0.19, T:0.39
Consensus pattern (50 bp):
TTAGGGAATATTTTGAATAGTAAATTAATTAAATAAGTGAAATATGATGT
Found at i:57083231 original size:53 final size:54
Alignment explanation
Indices: 57083069--57083353 Score: 330
Period size: 55 Copynumber: 5.3 Consensus size: 54
57083059 AGCTATGACT
* * * *
57083069 TGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCA
1 TGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCA
* *
57083123 TGTCAAGACATAGCATTGATGAGTTACTATAAGGCAAAGG-T-CCTATGTAAGACCA
1 TGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATACC-ATGTAAGACCA
* *
57083178 TACCAAGGCATGGCATT-AGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACCA
1 TGCCAAGACATGGCATTGA-TGAGTTCTATAAGGCAAGGATACCATGTAAGACCA
* * *
57083231 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TTCCATATAAGACCA
1 TGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATACCATGTAAGACCA
* * * *
57083286 TTCCAAGGCATGGCATTGGTGAGTT-TATAAGGCAAGGATACCACGTAAGACCA
1 TGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCA
*
57083339 TGTCAAGACATGGCA
1 TGCCAAGACATGGCA
57083354 ATGGTAAGTT
Statistics
Matches: 195, Mismatches: 25, Indels: 23
0.80 0.10 0.09
Matches are distributed among these distances:
52 8 0.04
53 71 0.36
54 28 0.14
55 80 0.41
56 8 0.04
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
TGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCA
Found at i:57083261 original size:108 final size:107
Alignment explanation
Indices: 57083071--57083353 Score: 442
Period size: 108 Copynumber: 2.6 Consensus size: 107
57083061 CTATGACTTG
* * * *
57083071 CCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATAG
1 CCAAGGCATGGCATTG-TGAGTTC-ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGG
*
57083136 CATTGATGAGTTACTATAAGGCAAAGG-TCCTATGTAAGACCATA
64 CATTGATGAGTTACTATAAGGCAAAGGTTCC-ATATAAGACCATA
57083180 CCAAGGCATGGCATTAGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGC
1 CCAAGGCATGGCATT-GTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGC
*
57083245 ATTGATGAGTTACTATAAGGCAAAGGTTCCATATAAGACCATT
65 ATTGATGAGTTACTATAAGGCAAAGGTTCCATATAAGACCATA
* *
57083288 CCAAGGCATGGCATTGGTGAGTTTATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGC
1 CCAAGGCATGGCATT-GTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGC
57083353 A
65 A
57083354 ATGGTAAGTT
Statistics
Matches: 163, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
108 138 0.85
109 24 0.15
110 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (107 bp):
CCAAGGCATGGCATTGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCA
TTGATGAGTTACTATAAGGCAAAGGTTCCATATAAGACCATA
Found at i:57085327 original size:22 final size:23
Alignment explanation
Indices: 57085293--57085338 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
57085283 ATTTTGAAGG
*
57085293 CACACAGGTGTGT-CCTTGTGTC
1 CACACAGGCGTGTACCTTGTGTC
*
57085315 CACACGGGCGTGTGACCTTGTGTC
1 CACACAGGCGTGT-ACCTTGTGTC
57085339 ATTGAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.13, C:0.28, G:0.30, T:0.28
Consensus pattern (23 bp):
CACACAGGCGTGTACCTTGTGTC
Found at i:57097189 original size:13 final size:13
Alignment explanation
Indices: 57097171--57097205 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
57097161 AAGAGTTACC
57097171 GTAGAAATTCTTT
1 GTAGAAATTCTTT
57097184 GTAGAAATTCTTT
1 GTAGAAATTCTTT
57097197 GTAGAAATT
1 GTAGAAATT
57097206 GAATTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (13 bp):
GTAGAAATTCTTT
Found at i:57097635 original size:16 final size:17
Alignment explanation
Indices: 57097616--57097654 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
57097606 GTAATTTTTC
*
57097616 ATTTTTGGAAA-CTTTA
1 ATTTTTAGAAAGCTTTA
*
57097632 ATTTTTAGAAAGCTTTC
1 ATTTTTAGAAAGCTTTA
57097649 ATTTTT
1 ATTTTT
57097655 CTTCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (17 bp):
ATTTTTAGAAAGCTTTA
Found at i:57097649 original size:33 final size:35
Alignment explanation
Indices: 57097576--57097654 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 35
57097566 TCTTAAAAAA
* * **
57097576 TTTCTATTTTTTGAAAATTTAATATTTTTAGTAATT
1 TTTC-ATTTTTGGAAAATTTAATATTTTTAGAAAGC
*
57097612 TTTCATTTTTGGAAACTTT-A-ATTTTTAGAAAGC
1 TTTCATTTTTGGAAAATTTAATATTTTTAGAAAGC
57097645 TTTCATTTTT
1 TTTCATTTTT
57097655 CTTCATTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 20 0.53
34 1 0.03
35 13 0.34
36 4 0.11
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (35 bp):
TTTCATTTTTGGAAAATTTAATATTTTTAGAAAGC
Found at i:57099169 original size:32 final size:32
Alignment explanation
Indices: 57099133--57099193 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
57099123 TTTTTTTATT
57099133 TTTAAAAAAATTATATAATTTTTAATTTAATA
1 TTTAAAAAAATTATATAATTTTTAATTTAATA
* ** * *
57099165 TTTAATAATTTTATATATTTTTTTATTTA
1 TTTAAAAAAATTATATAATTTTTAATTTA
57099194 TGAAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTAAAAAAATTATATAATTTTTAATTTAATA
Found at i:57102623 original size:23 final size:23
Alignment explanation
Indices: 57102593--57102638 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
57102583 AAATGATCGA
57102593 ACATAATTTAGGTAATTTAGTGG
1 ACATAATTTAGGTAATTTAGTGG
57102616 ACATAATTTAGGTAATTTAGTGG
1 ACATAATTTAGGTAATTTAGTGG
57102639 TTTAAGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
ACATAATTTAGGTAATTTAGTGG
Found at i:57110584 original size:101 final size:103
Alignment explanation
Indices: 57110406--57110592 Score: 290
Period size: 101 Copynumber: 1.8 Consensus size: 103
57110396 AAGTTAAACT
* *
57110406 ATGTAATATATACATCGAGAGATTAATGATTTGTAAAGATGACAATAAACTTTTGTTGTCTAAAC
1 ATGTAATATATA-ATCGAGAGATTAATGATTAGTAAAGATGACAAGAAACTTTTGTTGTCTAAAC
*
57110471 ATACCCTTTGAAGTTTCTCTTAAAAAGTGAGAACGAACC
65 ATACCATTTGAAGTTTCTCTTAAAAAGTGAGAACGAACC
* *
57110510 ATGTAATATAT-ATCTAGAGATTAATGA-TAGCTAAAGATTAC-AGAAACTTTTGTTGTCTAAAC
1 ATGTAATATATAATCGAGAGATTAATGATTAG-TAAAGATGACAAGAAACTTTTGTTGTCTAAAC
57110572 ATACCATTTGAAGTTTCTCTT
65 ATACCATTTGAAGTTTCTCTT
57110593 GGAAATTTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
101 42 0.55
102 24 0.31
104 11 0.14
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (103 bp):
ATGTAATATATAATCGAGAGATTAATGATTAGTAAAGATGACAAGAAACTTTTGTTGTCTAAACA
TACCATTTGAAGTTTCTCTTAAAAAGTGAGAACGAACC
Found at i:57110613 original size:36 final size:36
Alignment explanation
Indices: 57110566--57110636 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
57110556 CTTTTGTTGT
57110566 CTAAACATACCATTTGAAGTTTCTCTTGGAAATTTC
1 CTAAACATACCATTTGAAGTTTCTCTTGGAAATTTC
57110602 CTAAACATACCATTTGAAGTTTCTCTTGGAAATTT
1 CTAAACATACCATTTGAAGTTTCTCTTGGAAATTT
57110637 AGAGTGACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.39
Consensus pattern (36 bp):
CTAAACATACCATTTGAAGTTTCTCTTGGAAATTTC
Found at i:57112415 original size:21 final size:21
Alignment explanation
Indices: 57112383--57112423 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
57112373 AGGCTCGAGG
57112383 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
57112404 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
57112424 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:57117928 original size:16 final size:16
Alignment explanation
Indices: 57117897--57117941 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
57117887 TCTTTCATTG
57117897 AATCCCTAACAATCTTCA
1 AATCCCT-A-AATCTTCA
57117915 AATCCCTAAATCTTCA
1 AATCCCTAAATCTTCA
*
57117931 AATACCTAAAT
1 AATCCCTAAAT
57117942 TGTTAGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 18 0.69
17 1 0.04
18 7 0.27
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (16 bp):
AATCCCTAAATCTTCA
Found at i:57118336 original size:117 final size:117
Alignment explanation
Indices: 57118128--57118338 Score: 323
Period size: 117 Copynumber: 1.8 Consensus size: 117
57118118 TTTGATTTGT
* * * *
57118128 TGGTTATTTGTGATTTAGTATTGCAATTTGAGTGCGACAATGTAGGGTTTGTTTTGTCGATTTTT
1 TGGTTAATTGTGATTTAGTATTGCAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTCGATTTGT
* * *
57118193 GATGCGATAGTGGTCCCGATGTTGTTGATAAAACTGTTATAAAAGTTGTAGA
66 GATGAGATAGTGGTCCAGATGATGTTGATAAAACTGTTATAAAAGTTGTAGA
* * * *
57118245 TGGTTAATTGTGATTTATTATTGCAATTTCAGTGCCAGAGTGTAGGGTTTGTTTTGTTGATTTGT
1 TGGTTAATTGTGATTTAGTATTGCAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTCGATTTGT
57118310 GATGAGATAGTGGTCCAGATGATGTTGAT
66 GATGAGATAGTGGTCCAGATGATGTTGAT
57118339 TTCTGTTACC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 83 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (117 bp):
TGGTTAATTGTGATTTAGTATTGCAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTCGATTTGT
GATGAGATAGTGGTCCAGATGATGTTGATAAAACTGTTATAAAAGTTGTAGA
Found at i:57118981 original size:33 final size:34
Alignment explanation
Indices: 57118937--57119046 Score: 93
Period size: 33 Copynumber: 3.3 Consensus size: 34
57118927 TGTTAACTAC
* **
57118937 TGGGGAGGGTGATGAT-GAAGGGGTAGAATCTGA
1 TGGGAAGGGTGATGATAGAAAAGGTAGAATCTGA
* *
57118970 TGGTGAA-GGTGAT-CTAGAAAAGGTAGAATCTGG
1 TGG-GAAGGGTGATGATAGAAAAGGTAGAATCTGA
* * * *
57119003 TGGGAAGGGTGATG-TAGGAGAGGTACAAGCTGA
1 TGGGAAGGGTGATGATAGAAAAGGTAGAATCTGA
*
57119036 TGGGGAGGGTG
1 TGGGAAGGGTG
57119047 TGTCTGCTAC
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
32 4 0.06
33 56 0.90
34 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.46, T:0.21
Consensus pattern (34 bp):
TGGGAAGGGTGATGATAGAAAAGGTAGAATCTGA
Found at i:57119215 original size:51 final size:51
Alignment explanation
Indices: 57119146--57119294 Score: 217
Period size: 51 Copynumber: 2.9 Consensus size: 51
57119136 GTTGCTGGTA
* * *
57119146 ATGAATATGCTGGTGATTTTGCAACATCAGAGGGAGTGGATAATGTTGCTG
1 ATGAAAATGCTGATGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * *
57119197 ATGAAAATGTTGATGATTTTGAAACATCAGATGGAGTGGATAATATTGCTG
1 ATGAAAATGCTGATGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * *
57119248 ATGAATATGCTGGTGATTTTGCAACATCAGATGGACTGGATAATGTT
1 ATGAAAATGCTGATGATTTTGCAACATCAGATGGAGTGGATAATGTT
57119295 ACTGTTGCAC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 86 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGAAAATGCTGATGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:57122038 original size:22 final size:22
Alignment explanation
Indices: 57121994--57122038 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57121984 TCATATGCTT
*
57121994 TTGTAAAGTACATTTATAGAAA
1 TTGTAAAGTACATTTATACAAA
*
57122016 TTGTAAAGTACATTTATCCAAA
1 TTGTAAAGTACATTTATACAAA
57122038 T
1 T
57122039 CATATGCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (22 bp):
TTGTAAAGTACATTTATACAAA
Found at i:57123046 original size:32 final size:33
Alignment explanation
Indices: 57123010--57123080 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
57123000 TTTGGTTCTA
*
57123010 AGGGATTTC-ACGATTTTG-TTCCTAATAGTTTT
1 AGGGATTTCAACGA-TTTGATTCCTAAAAGTTTT
*
57123042 AGGGA-TTCAACGATTTGATTCGTAAAAGTTTT
1 AGGGATTTCAACGATTTGATTCCTAAAAGTTTT
57123074 AGGGATT
1 AGGGATT
57123081 ATAAGAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 7 0.21
32 26 0.76
33 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.41
Consensus pattern (33 bp):
AGGGATTTCAACGATTTGATTCCTAAAAGTTTT
Found at i:57128975 original size:49 final size:49
Alignment explanation
Indices: 57128812--57129255 Score: 546
Period size: 49 Copynumber: 8.8 Consensus size: 49
57128802 TGAGGTCGCA
* * * * *
57128812 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * * **
57128863 TGTGTAGTACAAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
57128913 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
*
57128962 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA---C--G
* *
57129016 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
*
57129065 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA---C--G
* *
57129119 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
57129168 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
57129217 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57129256 GCTTTGGCTA
Statistics
Matches: 348, Mismatches: 34, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
49 180 0.52
50 42 0.12
51 35 0.10
52 1 0.00
54 90 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:57129047 original size:103 final size:103
Alignment explanation
Indices: 57128812--57129255 Score: 627
Period size: 103 Copynumber: 4.4 Consensus size: 103
57128802 TGAGGTCGCA
* * * * * *
57128812 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAAAACTGTGATCACGTGTGTAGTACAAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTAGTACTAAG
* * * *
57128877 TGCAGGCTACTACGTGTATC--A-AA-TGGTTAGGTCACG
64 TGCAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
* * *
57128913 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCATGTGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
57128978 CAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
66 CAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
* *
57129016 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCGTGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
57129081 CAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
66 CAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
* *
57129119 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCGTGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
57129184 CAGGCTACTACGTGTACCGGATAATTGGT--CG-CA--
66 CAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
* * *
57129217 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57129256 GCTTTGGCTA
Statistics
Matches: 319, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
98 35 0.11
99 38 0.12
100 3 0.01
101 39 0.12
102 2 0.01
103 202 0.63
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (103 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCGGATAATTGGTCACGTCATG
Found at i:57129250 original size:152 final size:147
Alignment explanation
Indices: 57128812--57129255 Score: 582
Period size: 152 Copynumber: 2.9 Consensus size: 147
57128802 TGAGGTCGCA
* * * * * * *
57128812 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAAAACTGTGATCACGTGTGTAGTACAAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCGTGTGTAGTACTAAG
* * ** *
57128877 TGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGT
64 TGCAGGCTACTACGTGTACCAGATAATT-GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGT
57128942 GTACCGGATAATTGGTCATG
128 GTACCGGATAATTGGTCATG
*
57128962 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTCATGTGTGTAGTACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGT--CG-C--GTGTGTAGTACT
* *
57129027 AAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTAC
61 AAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTAT
57129092 GTGTACCGGATAATTGGTCACGTCATG
126 GTGTACCGGATAATT-G----GTCATG
*
57129119 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCGTGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCGTGTGTAGTACTAAGTG
* * * *
57129184 CAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTA
66 CAGGCTACTACGTGTACCAGATAATTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA
*
57129249 CCAGATA
131 CCGGATA
57129256 GCTTTGGCTA
Statistics
Matches: 260, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
148 3 0.01
149 1 0.00
150 36 0.14
151 1 0.00
152 129 0.50
153 38 0.15
154 1 0.00
155 2 0.01
157 49 0.19
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (147 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATAATTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA
CCGGATAATTGGTCATG
Found at i:57132638 original size:25 final size:25
Alignment explanation
Indices: 57132583--57132641 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
57132573 AATCTGATGA
*
57132583 AATGACTGTTATAACCCTATGAGGT
1 AATGACTGATATAACCCTATGAGGT
* *
57132608 AAATGACTGATATACCCCTATTGATGT
1 -AATGACTGATATAACCCTA-TGAGGT
57132635 -ATGACTG
1 AATGACTG
57132642 TTTGAGCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 7 0.24
26 17 0.59
27 5 0.17
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (25 bp):
AATGACTGATATAACCCTATGAGGT
Found at i:57136864 original size:40 final size:40
Alignment explanation
Indices: 57136809--57137334 Score: 818
Period size: 40 Copynumber: 13.0 Consensus size: 40
57136799 TGTGTCATGA
57136809 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57136849 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57136889 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57136929 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* *
57136969 GAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
1 GAGTTG--ATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* * *
57137011 AAGTTGATATATCCGGGTTAAGACCCGCAGGCATTTGCGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57137051 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* *
57137091 GAGTTGTTATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
1 GAGTTG--ATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* *
57137133 AAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57137173 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* *
57137213 GAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
1 GAGTTG--ATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* * *
57137255 AAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* ** * * *
57137295 GAGTTGCTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57137335 TTGTGGTAAT
Statistics
Matches: 450, Mismatches: 30, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
40 339 0.75
42 111 0.25
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
Found at i:57137033 original size:122 final size:122
Alignment explanation
Indices: 57136809--57137334 Score: 903
Period size: 122 Copynumber: 4.3 Consensus size: 122
57136799 TGTGTCATGA
57136809 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG--ATATATCCGGGCTAAGA
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGA
* * *
57136872 CCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
66 CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57136929 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGA
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGA
* *
57136994 CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGTTAAGACCCGCAGGCATTTGCGC
66 CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
*
57137051 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGTTATATATCCGGGCTAAGA
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGA
*
57137116 CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGC
66 CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57137173 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGA
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGA
* *
57137238 CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGC
66 CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
* ** * * *
57137295 GAGTTGCTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
57137335 TTGTGGTAAT
Statistics
Matches: 385, Mismatches: 19, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
120 46 0.12
122 339 0.88
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (122 bp):
GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGA
CCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGC
Found at i:57137082 original size:162 final size:160
Alignment explanation
Indices: 57136809--57137334 Score: 827
Period size: 162 Copynumber: 3.2 Consensus size: 160
57136799 TGTGTCATGA
* *
57136809 GAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACC
1 GAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATATATCCGGGCTAAGACC
57136874 CGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATAT
66 CGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATAT
*
57136939 ATCCGGGCTAAGACCCGCAGGCATTTGTGC
131 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
* *
57136969 GAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGTTAAGA
1 GAGTTG--ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATATATCCGGGCTAAGA
*
57137034 CCCGCAGGCATTTGCGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGTT
64 CCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG--
*
57137099 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
127 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
* * * *
57137133 AAGTTGATATATCCGGGCTAAGACCTGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACC
1 GAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATATATCCGGGCTAAGACC
* * *
57137198 CGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAT
66 CGCAGGCATTTGTGCGAGTTG--ATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGAT
*
57137263 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC
129 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
* ** *
57137295 GAGTTGCTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 GAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
57137335 TTGTGGTAAT
Statistics
Matches: 333, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
160 6 0.02
162 253 0.76
164 74 0.22
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (160 bp):
GAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATATATCCGGGCTAAGACC
CGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATAT
ATCCGGGCTAAGACCCGAAGGCATTTGTGC
Found at i:57142830 original size:28 final size:28
Alignment explanation
Indices: 57142777--57142830 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
57142767 GAAGGCATTT
* *
57142777 GTGCGAGATACTAATTCCGGGCTAAGCC
1 GTGCGAGATACTAAATCAGGGCTAAGCC
* *
57142805 GTGCGAGTTACTAAATCAGGGTTAAG
1 GTGCGAGATACTAAATCAGGGCTAAG
57142831 TCCCGAAGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (28 bp):
GTGCGAGATACTAAATCAGGGCTAAGCC
Found at i:57142874 original size:40 final size:40
Alignment explanation
Indices: 57142805--57142885 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
57142795 GGGCTAAGCC
*
57142805 GTGCGAGTTACTAAATCAGGGTTAAGTCCCGAAGGCATTT
1 GTGCGAGTTACTAAATCAGGGCTAAGTCCCGAAGGCATTT
* *
57142845 GTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTT
1 GTGCGAGTTACTA-AATCAGGGCTAAGTCCCGAAGGCATTT
57142885 G
1 G
57142886 AACGAGTAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GTGCGAGTTACTAAATCAGGGCTAAGTCCCGAAGGCATTT
Found at i:57150742 original size:39 final size:40
Alignment explanation
Indices: 57150641--57150864 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
57150631 TTGAATGATG
* *
57150641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
57150680 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
57150721 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57150760 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57150799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57150838 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57150865 ATCGAGTAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 78 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:57150828 original size:79 final size:79
Alignment explanation
Indices: 57150641--57150883 Score: 282
Period size: 79 Copynumber: 3.1 Consensus size: 79
57150631 TTGAATGATG
* * * *
57150641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
57150704 TTGTGCGAGATACTAAT
64 TTGTGCGAG-TACTAAA
57150721 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
57150783 TGTGCGAGTTACTAAA
65 TGTGCGAG-TACTAAA
* * * * *
57150799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
*
57150864 GAT-CGAGTAGCTATA
66 G-TGCGAGTA-CTAAA
57150879 TCCGG
1 TCCGG
57150884 TTAAATTCCG
Statistics
Matches: 144, Mismatches: 11, Indels: 16
0.84 0.06 0.09
Matches are distributed among these distances:
78 36 0.25
79 58 0.40
80 48 0.33
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:57153433 original size:35 final size:35
Alignment explanation
Indices: 57153394--57153463 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
57153384 TAAGAGTATG
*
57153394 CCCAAAAATCAATCACGAGATGGTTGTAATTACAT
1 CCCAAAAATCAATCACGAGATGGTTGTAATAACAT
57153429 CCCAAAAATCAATCACGAGATGGTTGTAATAACAT
1 CCCAAAAATCAATCACGAGATGGTTGTAATAACAT
57153464 ACTTGATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (35 bp):
CCCAAAAATCAATCACGAGATGGTTGTAATAACAT
Found at i:57157355 original size:51 final size:50
Alignment explanation
Indices: 57157298--57157411 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
57157288 AATGATTTAT
* * *
57157298 TAATGCATGACTTCATTTACGATGCCAA-CTTTAACTATCATGAGAGTTACA
1 TAATGCATGACTTAATTTACGATG-CAATC-TTAACTAACATAAGAGTTACA
* * ** *
57157349 TAATGCATGTCATAATTTATTATGCAATCTTAACTAACATAAGAGTTTCA
1 TAATGCATGACTTAATTTACGATGCAATCTTAACTAACATAAGAGTTACA
57157399 TAATGCATGACTT
1 TAATGCATGACTT
57157412 TATTAAATGC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
50 32 0.62
51 20 0.38
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (50 bp):
TAATGCATGACTTAATTTACGATGCAATCTTAACTAACATAAGAGTTACA
Found at i:57163998 original size:40 final size:40
Alignment explanation
Indices: 57163734--57163985 Score: 314
Period size: 40 Copynumber: 6.3 Consensus size: 40
57163724 GCTCCTCGTT
* * * * * *
57163734 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* * ** *
57163774 C-AATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* * *
57163813 CGAATGCCTTCGGGACTTAACTCGG-ATTTAGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
*
57163853 CAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
57163893 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
57163933 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
57163973 CAAATGCCTTCGG
1 CAAATGCCTTCGG
57163986 ATCTTAGTCC
Statistics
Matches: 195, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.17
40 157 0.81
41 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
Found at i:57164022 original size:80 final size:80
Alignment explanation
Indices: 57163807--57164038 Score: 267
Period size: 80 Copynumber: 2.9 Consensus size: 80
57163797 GATTTAACAA
* * * *
57163807 CTCGCACGAATGCCTTCGG-GACTTAACTCGG-ATTTAGTATCTCGCACAAAGGCCTTCGGGGCT
1 CTCGCACAAATGCCTTCGGAG-CTTAACCCGGAATTT-GCATCTAGCACAAAGGCCTTCGGGGCT
57163870 TAACCCGGAATTTGTAT
64 TAACCCGGAATTTGTAT
* * * *
57163887 CTCGCACAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCACAAATGCCTTCGGGGCTTA
1 CTCGCACAAATGCCTTCGGAGCTTAACCCGGAATTTGCATCTAGCACAAAGGCCTTCGGGGCTTA
57163952 ACCCGGAATTTGTAT
66 ACCCGGAATTTGTAT
* ** *
57163967 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATT-CA-CTTAGCACAAA-GCCTTCGGGAC
1 CTCGCACAAATGCCTTCGGAGCTTAACCCGGA-AT-TTGCATC-TAGCACAAAGGCCTTCGGGGC
*
57164029 TTAGCCCGGA
63 TTAACCCGGA
57164039 CAGCATTCAA
Statistics
Matches: 136, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
80 118 0.87
81 16 0.12
82 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (80 bp):
CTCGCACAAATGCCTTCGGAGCTTAACCCGGAATTTGCATCTAGCACAAAGGCCTTCGGGGCTTA
ACCCGGAATTTGTAT
Found at i:57164022 original size:120 final size:120
Alignment explanation
Indices: 57163772--57164038 Score: 301
Period size: 120 Copynumber: 2.2 Consensus size: 120
57163762 TAGTAACTCA
* * * *
57163772 CACAATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACTC
1 CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
* * *
57163836 GGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
66 GGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGAATTTGCATCTAG
* ** * *
57163891 CACAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACC
1 CACAAA-GCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
* * **
57163955 CGGAATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATT-CA-CTTAG
65 CGG-ATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGA-AT-TTGCATC-TAG
*
57164012 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAAAGCCTTCGGGACTTAACCCGGA
57164039 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
119 5 0.04
120 98 0.79
121 19 0.15
122 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (120 bp):
CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
GGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGAATTTGCATCTAG
Found at i:57164047 original size:41 final size:41
Alignment explanation
Indices: 57163970--57164047 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57163960 TTTGTATCTC
* * *
57163970 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57164011 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57164048 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:57171915 original size:39 final size:38
Alignment explanation
Indices: 57171701--57171939 Score: 210
Period size: 39 Copynumber: 6.3 Consensus size: 38
57171691 GCTCCTCGTT
* * * * *
57171701 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGG-CTTAACCCGGATTT-GTATCTCGCA
* ** *
57171741 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGG-CTTAACCCGGATTT-GTATCTCGCA
* * **
57171780 CGAATGCCTTCGGACTTAA--CGGA-TT-TAAATCG--
1 CAAATGCCTTCGGGCTTAACCCGGATTTGTATCTCGCA
57171812 CAAA-GCCTTCGGGCTTAACCCGGA-TT-TATCTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTGTATCTCGCA
57171847 CAAATGCCTTCGGGGCTTAACCCGGATTTGTATCTCGCA
1 CAAATGCCTTC-GGGCTTAACCCGGATTTGTATCTCGCA
57171886 CAAATGCCTTCGGGCTTAACCCGGAATTTGTAGTTCTCGCA
1 CAAATGCCTTCGGGCTTAACCCGG-ATTTGTA--TCTCGCA
*
57171927 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
57171940 ATCTTAGTCC
Statistics
Matches: 173, Mismatches: 14, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
31 13 0.08
32 3 0.02
33 11 0.06
34 5 0.03
35 4 0.02
36 8 0.05
37 18 0.10
38 15 0.09
39 65 0.38
40 12 0.07
41 19 0.11
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAACCCGGATTTGTATCTCGCA
Found at i:57172001 original size:41 final size:41
Alignment explanation
Indices: 57171924--57172001 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57171914 TGTAGTTCTC
* * *
57171924 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57171965 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57172002 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57174611 original size:40 final size:39
Alignment explanation
Indices: 57174421--57174604 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
57174411 CGAATGATGT
* * * *
57174421 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
57174461 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
57174501 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57174539 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57174580 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57174605 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57174627 original size:79 final size:79
Alignment explanation
Indices: 57174473--57174639 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 79
57174463 GGACTAAGAT
* **
57174473 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
57174538 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * *
57174552 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
57174615 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
57174631 CCGAAGGCA
1 CCGAAGGCA
57174640 CGTGATTCGG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Done.