Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 208 of 335
Found at i:62011511 original size:54 final size:55
Alignment explanation
Indices: 62011164--62011496 Score: 428
Period size: 54 Copynumber: 6.2 Consensus size: 55
62011154 AGGGGTAAAA
* * * * *
62011164 TGGTAATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTAC-AGCGGTATTT
1 TGGTAATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAG-GGTATTT
** *
62011218 CAGTAA-TTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
* * ** * * *
62011272 CGATAA-TTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
62011326 TGGT-ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
* *
62011380 TAGTAA-TTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTT
1 TGGTAATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
* *
62011434 TGGT-ATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
*
62011488 CGGTAATTT
1 TGGTAATTT
62011497 TGTAAATCGA
Statistics
Matches: 245, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
53 4 0.02
54 234 0.96
55 7 0.03
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (55 bp):
TGGTAATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
Found at i:62011511 original size:81 final size:81
Alignment explanation
Indices: 62011169--62011492 Score: 472
Period size: 81 Copynumber: 4.0 Consensus size: 81
62011159 TAAAATGGTA
* * * * *
62011169 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTAC-AGCGGTATTTCAGTAATTCTACCC
1 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAG-GGTATTTCAGTAATTCTACCC
62011232 TACAAGGGTATTTCGGT
65 TACAAGGGTATTTCGGT
* * * * *
62011249 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
* * *
62011314 ATAGGGGTATTTTGGT
66 ACAAGGGTATTTCGGT
*
62011330 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
*
62011395 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* *
62011411 ATTTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
62011476 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
62011492 A
1 A
62011493 ATTTTGTAAA
Statistics
Matches: 223, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
80 4 0.02
81 218 0.98
82 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:62011537 original size:54 final size:54
Alignment explanation
Indices: 62011479--62011610 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
62011469 CTACCCTACA
* * **
62011479 AGGGTATTTCGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCGAGGATAAAACGGTAATTCTACAAATCG
** * * *
62011533 AGGGTGAAAT-GGTAATTCTATAAATCGAGGATAAAATGGTAATTCTACAAATCG
1 AGGGT-ATTTCGGTAATTTTGTAAATCGAGGATAAAACGGTAATTCTACAAATCG
* * *
62011587 AGGGCATTTCAGTAATTTGGTAAA
1 AGGGTATTTCGGTAATTTTGTAAA
62011611 CTAAAGTATT
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
53 2 0.03
54 56 0.93
55 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTGTAAATCGAGGATAAAACGGTAATTCTACAAATCG
Found at i:62014815 original size:20 final size:20
Alignment explanation
Indices: 62014787--62014824 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62014777 AACTATCATG
*
62014787 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
62014807 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
62014825 TAAAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:62020962 original size:17 final size:17
Alignment explanation
Indices: 62020942--62020977 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
62020932 AAATCCTAGG
*
62020942 AAGCATGAAATGTTGAA
1 AAGCATGAAATATTGAA
62020959 AAGCATGAAATATTGAA
1 AAGCATGAAATATTGAA
62020976 AA
1 AA
62020978 TGATTTAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.22
Consensus pattern (17 bp):
AAGCATGAAATATTGAA
Found at i:62021960 original size:27 final size:26
Alignment explanation
Indices: 62021929--62021995 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
62021919 AAATATGTAA
62021929 TAATTATAAAATAATTAAATTTTACT
1 TAATTATAAAATAATTAAATTTTACT
* *
62021955 TCAATTATTAAAAT-TTTGAATTTTACT
1 T-AATTA-TAAAATAATTAAATTTTACT
* *
62021982 TAATTTTATAATAA
1 TAATTATAAAATAA
62021996 ATTTTGATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.15
26 5 0.15
27 17 0.52
28 6 0.18
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (26 bp):
TAATTATAAAATAATTAAATTTTACT
Found at i:62025558 original size:24 final size:24
Alignment explanation
Indices: 62025531--62025717 Score: 356
Period size: 24 Copynumber: 7.8 Consensus size: 24
62025521 CTTATTATGT
**
62025531 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
62025555 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62025579 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62025603 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62025627 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62025651 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62025675 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62025699 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
62025718 TATTTCCAGC
Statistics
Matches: 161, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 161 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:62032181 original size:43 final size:43
Alignment explanation
Indices: 62032087--62032183 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
62032077 TCTGATAGGA
*
62032087 TCGTACGGGTCACACAAGATGACTGTGGACTATTTTGTTAAGG
1 TCGTACGGGTCACACAAGACGACTGTGGACTATTTTGTTAAGG
* * *
62032130 -CTGCACGGGTCACACGAGACGATTGTGGACTATTTTGTTAAGG
1 TC-GTACGGGTCACACAAGACGACTGTGGACTATTTTGTTAAGG
62032173 TCGTACGGGTC
1 TCGTACGGGTC
62032184 GAGCGAGACG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 45 0.96
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
TCGTACGGGTCACACAAGACGACTGTGGACTATTTTGTTAAGG
Found at i:62032202 original size:43 final size:43
Alignment explanation
Indices: 62032091--62032202 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
62032081 ATAGGATCGT
* *
62032091 ACGGGTCACACAAGATGACTGTGGACTATTTTGTTAAGGCTGC
1 ACGGGTCACACGAGACGACTGTGGACTATTTTGTTAAGGCTGC
* *
62032134 ACGGGTCACACGAGACGATTGTGGACTATTTTGTTAAGG-TCGT
1 ACGGGTCACACGAGACGACTGTGGACTATTTTGTTAAGGCT-GC
* *
62032177 ACGGGTCGA-GCGAGACGACTATGGAC
1 ACGGGTC-ACACGAGACGACTGTGGAC
62032203 CTACTGACAG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 58 0.97
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
ACGGGTCACACGAGACGACTGTGGACTATTTTGTTAAGGCTGC
Found at i:62032253 original size:22 final size:22
Alignment explanation
Indices: 62032228--62032313 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
62032218 AGCCACTTGA
62032228 TCTGATTATGGCTCTGTGCCAT
1 TCTGATTATGGCTCTGTGCCAT
** * *
62032250 TCTGAAGATGGCTTTGTTCCAT
1 TCTGATTATGGCTCTGTGCCAT
* *
62032272 CCCGATTATGGCT-TCGTGCCA-
1 TCTGATTATGGCTCT-GTGCCAT
**
62032293 TCTTCTTCATGGCTCTGTGCC
1 TCTGATT-ATGGCTCTGTGCC
62032314 TATCATATTA
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 4 0.08
22 43 0.90
23 1 0.02
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.38
Consensus pattern (22 bp):
TCTGATTATGGCTCTGTGCCAT
Found at i:62032380 original size:30 final size:31
Alignment explanation
Indices: 62032301--62032407 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 31
62032291 CATCTTCTTC
* *
62032301 ATGGCTCTGTGCCTATCATATTACTGTTACTG
1 ATGGCTCTGTGCCGATCATATTAC-GCTACTG
* * *
62032333 ATGGCTCTATACCGATCATATTAC-CAACTG
1 ATGGCTCTGTGCCGATCATATTACGCTACTG
* *
62032363 ATGGCTCTGTGCAGATCATACTACAGCTACTG
1 ATGGCTCTGTGCCGATCATATTAC-GCTACTG
*
62032395 ATGGCTTTGTGCC
1 ATGGCTCTGTGCC
62032408 TGTAACAGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 24 0.39
32 37 0.61
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (31 bp):
ATGGCTCTGTGCCGATCATATTACGCTACTG
Found at i:62035444 original size:21 final size:21
Alignment explanation
Indices: 62035415--62035455 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
62035405 AAAAAATTGA
* *
62035415 TAATTTGTTTTGTTATATATG
1 TAATATGTTTTGTTACATATG
*
62035436 TAATATGTTTTTTTACATAT
1 TAATATGTTTTGTTACATAT
62035456 ATTGATTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
TAATATGTTTTGTTACATATG
Found at i:62035743 original size:26 final size:26
Alignment explanation
Indices: 62035707--62035781 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
62035697 AGCCATTCTG
*
62035707 TTACTGGCAGCCTTCCTGTGATACTA
1 TTACTGGCAGCCTTGCTGTGATACTA
* * * *
62035733 TTACTGGCAGCCCTGCTATGTTTCTA
1 TTACTGGCAGCCTTGCTGTGATACTA
*
62035759 TTACTGGCAGCATTGCTGTGATA
1 TTACTGGCAGCCTTGCTGTGATA
62035782 TTGGTGTGCT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
TTACTGGCAGCCTTGCTGTGATACTA
Found at i:62040566 original size:40 final size:39
Alignment explanation
Indices: 62040517--62040700 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 39
62040507 GACTCACTCG
* * *
62040517 ATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACA
1 ATTGCCTTCGGGACATAGCCCGGTT-TAGTAACTCGCACA
*
62040557 ATTGCCTTCGGGA-ATTAGCCCGGATTTAATAACTCGCACGA
1 ATTGCCTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCAC-A
* * *
62040598 A-TGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATAGCCCGG-TTTAGTAACTCGCACA
* * * * *
62040637 AATGCCTTCGGGA-GTTGACCCGGATTTAGTCACTTAGCACA
1 ATTGCCTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACA
** *
62040678 AAAGCCTTCGGGACTTAGCCCGG
1 ATTGCCTTCGGGACATAGCCCGG
62040701 ACACCATTCG
Statistics
Matches: 117, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.03
40 84 0.72
41 27 0.23
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
ATTGCCTTCGGGACATAGCCCGGTTTAGTAACTCGCACA
Found at i:62040620 original size:80 final size:81
Alignment explanation
Indices: 62040522--62040700 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 81
62040512 ACTCGATTGT
* * * *
62040522 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAA
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAA
* * *
62040586 TAAC-TCGCACGAATGC
65 TAACTTAGCACAAAAGC
* * * * *
62040602 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAAT
*
62040667 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
62040683 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
62040701 ACACCATTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 56 0.67
81 27 0.33
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAAT
AACTTAGCACAAAAGC
Found at i:62040689 original size:41 final size:39
Alignment explanation
Indices: 62040550--62040701 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
62040540 TTATAGTGAT
* *
62040550 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
62040590 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
62040630 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
62040670 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
62040702 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:62041418 original size:2 final size:2
Alignment explanation
Indices: 62041411--62041446 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
62041401 ATGTGCAAGC
62041411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62041447 GCTAGAGCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62045807 original size:40 final size:40
Alignment explanation
Indices: 62045741--62045891 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
62045731 AAATTGAATA
* * *
62045741 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62045780 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62045820 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
62045860 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
62045892 ACGTGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62045905 original size:40 final size:40
Alignment explanation
Indices: 62045778--62045907 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
62045768 ATGCTGGAAA
* * *
62045778 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
62045818 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
62045858 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62045898 TTATATCCGG
1 TTATATCCGG
62045908 TTATGTTCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62053835 original size:40 final size:40
Alignment explanation
Indices: 62053750--62053900 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
62053740 AATTGAATGA
* * * *
62053750 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
62053790 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
62053831 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
62053870 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62053901 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:62053914 original size:40 final size:40
Alignment explanation
Indices: 62053787--62053916 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
62053777 ATGCTGGAAA
* * *
62053787 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
62053827 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
62053867 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62053907 TTATATCCGG
1 TTATATCCGG
62053917 TTATGTTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62053915 original size:80 final size:80
Alignment explanation
Indices: 62053749--62053916 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
62053739 AAATTGAATG
* *
62053749 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
62053814 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
62053829 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
62053892 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
62053909 ATATCCGG
1 ATATCCGG
62053917 TTATGTTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:62063145 original size:29 final size:29
Alignment explanation
Indices: 62063112--62063271 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
62063102 GTGACGAGAT
62063112 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
62063141 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
62063170 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
62063199 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
62063228 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
62063257 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
62063272 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:62067171 original size:39 final size:39
Alignment explanation
Indices: 62067087--62067239 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
62067077 TATGGTAACC
** * *
62067087 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
62067127 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62067166 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62067205 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
62067240 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:62067212 original size:78 final size:79
Alignment explanation
Indices: 62067056--62067238 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
62067046 TCGTTCAAAC
* * **
62067056 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
62067121 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
62067136 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
62067200 CAATTTGCACAATT
66 CAATTTGCACAATT
62067214 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
62067239 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:62071340 original size:55 final size:56
Alignment explanation
Indices: 62071281--62071397 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 56
62071271 AGACAGGGTT
*
62071281 TTACTCGCACACATATATCG-AGTCACATATCGATGCCAACGTATAAAACTTGGTC
1 TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGTGGTC
*
62071336 TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGTGGTT
1 TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGTGGTC
62071392 TTACTC
1 TTACTC
62071398 ATTCACATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 20 0.34
56 39 0.66
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
TTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGTGGTC
Found at i:62080863 original size:21 final size:21
Alignment explanation
Indices: 62080822--62080864 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
62080812 ACATTTGCTG
*
62080822 AAAACATTTATTTTCTTGGAAA
1 AAAACATTTATTTGC-TGGAAA
62080844 AAAACATTTACTTTGC-GGAAA
1 AAAACATTTA-TTTGCTGGAAA
62080865 CTTTGCACGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAACATTTATTTGCTGGAAA
Found at i:62084099 original size:18 final size:18
Alignment explanation
Indices: 62084076--62084113 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
62084066 AAAAATCACT
62084076 TAATAA-AATAATTTAAAA
1 TAATAACAAT-ATTTAAAA
62084094 TAATAACTAATATTTAAAA
1 TAATAAC-AATATTTAAAA
62084113 T
1 T
62084114 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 9 0.50
20 3 0.17
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAACAATATTTAAAA
Found at i:62085819 original size:35 final size:35
Alignment explanation
Indices: 62085768--62085841 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
62085758 TCATTTCCTC
*
62085768 TCTTCATTTCCAAGCATAACATCCTATATTTTCTT
1 TCTTCATTTCCAAGCATAACATCCCATATTTTCTT
* *
62085803 TCTTTATTTCTAAGCATAACATCCCATATTTTCTT
1 TCTTCATTTCCAAGCATAACATCCCATATTTTCTT
62085838 TCTT
1 TCTT
62085842 AGCCAAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (35 bp):
TCTTCATTTCCAAGCATAACATCCCATATTTTCTT
Found at i:62096083 original size:40 final size:40
Alignment explanation
Indices: 62095988--62096114 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
62095978 AGACTAAGAT
* * * *
62095988 CCGAAGGCGTTCGTACGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
62096027 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
62096067 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
62096107 CCGAAGGC
1 CCGAAGGC
62096115 CTTTGAGCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.42
40 36 0.46
41 9 0.12
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:62102460 original size:40 final size:40
Alignment explanation
Indices: 62102334--62102448 Score: 160
Period size: 39 Copynumber: 2.9 Consensus size: 40
62102324 GGACTAAGAT
** * *
62102334 CCGAAGGTGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
62102373 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
62102413 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTT
62102449 TGTCCTGAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.49
40 25 0.37
41 9 0.13
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:62102471 original size:40 final size:40
Alignment explanation
Indices: 62102346--62102472 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
62102336 GAAGGTGTTC
* *
62102346 GTGCGAGTTAATAAATCCGGGTTAAG-CCCGAAGGCATTT
1 GTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTT
*
62102385 GTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTT
* * * *
62102425 GTGCGAGTTACTATAACCGGGGTT-TGTCCTGAAGGCCTTT
1 GTGCGAGTTACTA-AACCCGGGTTAAGTCCCGAAGGCATTT
*
62102465 GAGCGAGT
1 GTGCGAGT
62102473 CGTTATATCC
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 24 0.31
40 44 0.57
41 9 0.12
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
GTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTT
Found at i:62104992 original size:17 final size:18
Alignment explanation
Indices: 62104967--62105002 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
62104957 ATATAGTTTG
62104967 TATTCGATTTA-TCAAAT
1 TATTCGATTTATTCAAAT
*
62104984 TATTTGATTTATTCAAAT
1 TATTCGATTTATTCAAAT
62105002 T
1 T
62105003 CAAATATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (18 bp):
TATTCGATTTATTCAAAT
Found at i:62124447 original size:40 final size:40
Alignment explanation
Indices: 62124402--62124568 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
62124392 CGGAATATAA
62124402 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62124442 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
62124482 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
62124522 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
62124561 CCGGATAT
1 CCGGATAT
62124569 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 92 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:62124552 original size:80 final size:79
Alignment explanation
Indices: 62124402--62124568 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
62124392 CGGAATATAA
*
62124402 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
62124467 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
62124482 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
62124544 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
62124561 CCGGATAT
1 CCGGATAT
62124569 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:62135630 original size:46 final size:44
Alignment explanation
Indices: 62135490--62135630 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 44
62135480 GCCCATAAGC
* *
62135490 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
62135537 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
62135583 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
62135629 GA
1 GA
62135631 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 30 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:62139559 original size:79 final size:80
Alignment explanation
Indices: 62139461--62139639 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 80
62139451 TACTCGTTCA
* **
62139461 AATGCCTTCGGGACATAGCCTG-GTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCTGAAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
62139524 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
62139541 AATGCCTTCGGG-CTTAGCCTGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCTGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
62139605 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
62139620 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
62139640 CGGACATCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.69
80 24 0.28
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCTGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:62139643 original size:40 final size:40
Alignment explanation
Indices: 62139442--62139643 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 40
62139432 GAATTTAACT
** * *
62139442 GGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCT
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
62139482 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
62139522 GGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAG-CC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
62139560 TGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
* *
62139601 GGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
62139641 GGA
1 GGA
62139644 CATCATTCGG
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
38 6 0.04
39 27 0.20
40 87 0.64
41 16 0.12
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:62144091 original size:27 final size:27
Alignment explanation
Indices: 62144061--62144135 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
62144051 TATCCTATAG
* *
62144061 GGGTATGTCGGTCATTTTACACTACAA
1 GGGTATGTCGATAATTTTACACTACAA
* *
62144088 GGGTATTTCGATAATTTTACACTATAA
1 GGGTATGTCGATAATTTTACACTACAA
* * *
62144115 GGATATTTTGATAATTTTACA
1 GGGTATGTCGATAATTTTACA
62144136 AATCGAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (27 bp):
GGGTATGTCGATAATTTTACACTACAA
Found at i:62144156 original size:27 final size:27
Alignment explanation
Indices: 62144126--62144426 Score: 328
Period size: 27 Copynumber: 11.2 Consensus size: 27
62144116 GATATTTTGA
*
62144126 TAATTTTACAAATCGAGGGTGTTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* *
62144153 TAATTTTACAAATCTA-GGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCAG
62144179 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* * * *
62144206 TAATTTTATAAATCAAGGGTATTTTAA
1 TAATTTTACAAATCGAGGGTATTTCAG
*
62144233 TAATTTTACAAATCGAGGGTGTTTC-G
1 TAATTTTACAAATCGAGGGTATTTCAG
*
62144259 ATAATTTTACAACTCGAGGGTATTTC-G
1 -TAATTTTACAAATCGAGGGTATTTCAG
* * *
62144286 ATAATTTCACAAATTGAGGGTGTTTC-G
1 -TAATTTTACAAATCGAGGGTATTTCAG
* *
62144313 ATAATTTTACAAATCGAGGGTGTTT-TG
1 -TAATTTTACAAATCGAGGGTATTTCAG
* **
62144340 ATAATTTTAC-AATCGAGGGTGTTTTGG
1 -TAATTTTACAAATCGAGGGTATTTCAG
* * *
62144367 TAATTTCACAAAT-TAGGGGTATTTCGG
1 TAATTTTACAAATCGA-GGGTATTTCAG
62144394 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
62144421 TAATTT
1 TAATTT
62144427 CTTTTTATTA
Statistics
Matches: 237, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
26 46 0.19
27 190 0.80
28 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:62144210 original size:107 final size:107
Alignment explanation
Indices: 62144087--62144426 Score: 440
Period size: 107 Copynumber: 3.2 Consensus size: 107
62144077 TTACACTACA
* *
62144087 AGGGTATTTCGATAATTTTACACTAT-AAGGATATTTTGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCGATAATTTTACA-AATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTC
*
62144151 AGTAATTTTACAAATCTA-GGTATTTCAATAATTTTACAAATCG
65 -GTAATTTTACAAATCTAGGGTATTTCGATAATTTTACAAATCG
* *
62144194 AGGGTATTTC-AGTAATTTTATAAATCAAGGGTATTTTAATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCGA-TAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTC
* * * *
62144258 GATAATTTTACAACTCGAGGGTATTTCGATAATTTCACAAATTG
65 G-TAATTTTACAAATCTAGGGTATTTCGATAATTTTACAAATCG
* * * *
62144302 AGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTTGATAATTTTAC-AATCGAGGGTGTTTTG
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTG-TTTC
* *
62144366 GTAATTTCACAAAT-TAGGGGTATTTCGGTAATTTTACAAATCG
65 GTAATTTTACAAATCTA-GGGTATTTCGATAATTTTACAAATCG
62144409 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
62144427 CTTTTTATTA
Statistics
Matches: 203, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
106 6 0.03
107 129 0.64
108 67 0.33
109 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (107 bp):
AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCG
TAATTTTACAAATCTAGGGTATTTCGATAATTTTACAAATCG
Found at i:62144780 original size:28 final size:28
Alignment explanation
Indices: 62144743--62144858 Score: 115
Period size: 28 Copynumber: 4.1 Consensus size: 28
62144733 TGGCCTCTTT
* *
62144743 AGGCGCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCATTCACATGGCCCATC
* *
62144771 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCTCATTCACATGGCCCATC
** * * *
62144799 AGGCATAATCTTATTGACATGGCCTATC
1 AGGCCCAATCTCATTCACATGGCCCATC
** * *
62144827 AGGCCCAATCAAATTCATATGGTCCATC
1 AGGCCCAATCTCATTCACATGGCCCATC
62144855 AGGC
1 AGGC
62144859 ACAACTACTT
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCTCATTCACATGGCCCATC
Found at i:62146833 original size:31 final size:31
Alignment explanation
Indices: 62146798--62146863 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
62146788 AACTTGAATC
*
62146798 AACATCTTGGAATATTAAAACAAGAATTAAG
1 AACATCCTGGAATATTAAAACAAGAATTAAG
62146829 AACATCCTGGAATATTAAAACAAGAATTAAG
1 AACATCCTGGAATATTAAAACAAGAATTAAG
62146860 AACA
1 AACA
62146864 CATAATTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (31 bp):
AACATCCTGGAATATTAAAACAAGAATTAAG
Found at i:62149910 original size:106 final size:106
Alignment explanation
Indices: 62149771--62150011 Score: 365
Period size: 106 Copynumber: 2.3 Consensus size: 106
62149761 TGTTGTTGAA
** * *
62149771 AAGGATTTAGTTCGGATGGGTAATCCGATGATCTCAAAATAGAAAGGATTTAGCCTGAACGGGTG
1 AAGGATTTAGCCCGGATGGGTAATCTGATGATCTCAAAATAGAAAGGATCTAGCCTGAACGGGTG
* *
62149836 TTCTTTGAGTGATCAAGCCTCTCGAAGAATATGGGTGCATT
66 TTCCTTGAGTGATCAAGCCTCTCGAAGAAAATGGGTGCATT
* * * * *
62149877 ATGGATTTAGCCCGGATGGGTAATTTGATGATCTGAAAATAGAAAGGATCTAGCCTGGATGGGTG
1 AAGGATTTAGCCCGGATGGGTAATCTGATGATCTCAAAATAGAAAGGATCTAGCCTGAACGGGTG
*
62149942 TTCCTTGAGTGATCGAGCCTCTCGAAGAAAATGGGTGCATT
66 TTCCTTGAGTGATCAAGCCTCTCGAAGAAAATGGGTGCATT
*
62149983 AAGGATTTAGCCCGGATCGGTAATCTGAT
1 AAGGATTTAGCCCGGATGGGTAATCTGAT
62150012 TGAGGACTGA
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 120 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (106 bp):
AAGGATTTAGCCCGGATGGGTAATCTGATGATCTCAAAATAGAAAGGATCTAGCCTGAACGGGTG
TTCCTTGAGTGATCAAGCCTCTCGAAGAAAATGGGTGCATT
Found at i:62151664 original size:2 final size:2
Alignment explanation
Indices: 62151657--62151682 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62151647 ATCGGGTATG
62151657 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
62151683 AGTATGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62152165 original size:24 final size:24
Alignment explanation
Indices: 62152133--62152315 Score: 294
Period size: 24 Copynumber: 7.6 Consensus size: 24
62152123 TATCTCAAAT
62152133 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
62152157 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
62152181 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
62152205 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
62152229 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
62152253 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
62152277 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
62152301 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
62152316 ACATAATAAG
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 149 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:62152328 original size:48 final size:48
Alignment explanation
Indices: 62152133--62152337 Score: 279
Period size: 48 Copynumber: 4.3 Consensus size: 48
62152123 TATCTCAAAT
* *
62152133 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* *
62152181 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* **
62152229 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* * * *
62152277 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGA-ACA-TAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACT-AT-A
62152325 GCACTATGTGTGC
1 GCACTATGTGTGC
62152338 CACATTCGGT
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 140 0.97
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
Found at i:62152329 original size:72 final size:72
Alignment explanation
Indices: 62152133--62152337 Score: 254
Period size: 72 Copynumber: 2.8 Consensus size: 72
62152123 TATCTCAAAT
*
62152133 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACT-AT-GGCACTATGTGTGCGA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATAGGCACTATGTGTGCGA
*
62152196 TTTACTATG
64 TTTACTATA
* ** * *
62152205 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ATTTACTATGGCACTAAGTGTGCGAT
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-GGCACTATGTGTGCGAT
62152269 TTACTATA
65 TTACTATA
* * * * *
62152277 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGC
62152338 CACATTCGGT
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
72 105 0.94
73 5 0.04
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGCGATT
TACTATA
Found at i:62159882 original size:24 final size:24
Alignment explanation
Indices: 62159850--62160031 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
62159840 TATCTCAAAT
62159850 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
62159874 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
62159898 GCACTATGTGTGCGA-TTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
62159921 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
62159945 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
62159969 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
62159993 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
62160017 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
62160032 ACATAATAAG
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
23 22 0.15
24 125 0.85
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:62159930 original size:71 final size:72
Alignment explanation
Indices: 62159850--62160031 Score: 285
Period size: 71 Copynumber: 2.5 Consensus size: 72
62159840 TATCTCAAAT
*
62159850 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-T
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTAAGTGTGCGATT
*
62159914 TACTATG
66 TACTATA
* *
62159921 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTAAGTGTGCGATT
62159986 TACTATA
66 TACTATA
* * * *
62159993 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA
62160032 ACATAATAAG
Statistics
Matches: 101, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
71 60 0.59
72 41 0.41
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTAAGTGTGCGATT
TACTATA
Found at i:62160044 original size:48 final size:48
Alignment explanation
Indices: 62159850--62160053 Score: 270
Period size: 48 Copynumber: 4.3 Consensus size: 48
62159840 TATCTCAAAT
* *
62159850 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* *
62159898 GCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* **
62159945 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* * * *
62159993 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGA-ACA-TAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACT-AT-A
62160041 GCACTATGTGTGC
1 GCACTATGTGTGC
62160054 CACATTCGGT
Statistics
Matches: 142, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 50 0.35
48 91 0.64
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
Found at i:62176293 original size:49 final size:49
Alignment explanation
Indices: 62176119--62176519 Score: 593
Period size: 49 Copynumber: 8.3 Consensus size: 49
62176109 CCCTTCGGGA
* * * * * *
62176119 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
62176166 CCTATTAC--ATATCTACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62176213 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62176260 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62176309 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62176358 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62176407 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62176454 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62176503 CTTATCACATATATATA
1 CTTATCACATATATATA
62176520 TCTCATACAT
Statistics
Matches: 324, Mismatches: 24, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 131 0.40
49 192 0.59
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62176315 original size:96 final size:96
Alignment explanation
Indices: 62176119--62176517 Score: 606
Period size: 96 Copynumber: 4.2 Consensus size: 96
62176109 CCCTTCGGGA
* * * * * * * * *
62176119 CTTATCACATTTATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCCTATTAC--ATATCTA
1 CTTATCACATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
* *
62176181 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
62176213 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
62176278 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
62176309 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGACTTATCACATATATAT
1 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
62176374 ACACTTTCACATTCATCACATCGGCCATTAGAC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62176407 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
62176472 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62176503 CTTATCACATATATA
1 CTTATCACATATATA
62176518 TATCTCATAC
Statistics
Matches: 282, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
94 43 0.15
95 3 0.01
96 142 0.50
97 1 0.00
98 93 0.33
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62176423 original size:145 final size:145
Alignment explanation
Indices: 62176119--62176519 Score: 621
Period size: 145 Copynumber: 2.8 Consensus size: 145
62176109 CCCTTCGGGA
* * * * * * * * *
62176119 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTATTACATATCT--AC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
62176182 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACCTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCA
*
62176245 CATCGGCCATTAGGC
131 CATCGGCCATTAGAC
*
62176260 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
* *
62176325 ACACTTTCACATTCATCACATCGGCCATTAGGACTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCAT
62176390 CACATCGGCCATTAGAC
129 CACATCGGCCATTAGAC
62176407 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
62176472 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
62176520 TCTCATACAT
Statistics
Matches: 237, Mismatches: 17, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
141 8 0.03
143 43 0.18
145 141 0.59
147 45 0.19
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCA
CATCGGCCATTAGAC
Found at i:62186674 original size:2 final size:2
Alignment explanation
Indices: 62186667--62186698 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62186657 TTATTTGAGT
62186667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62186699 ATTATTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62191223 original size:28 final size:28
Alignment explanation
Indices: 62191183--62191250 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
62191173 ACCTCACACG
* * *
62191183 CTAAGTGCTATTCTGGAT-GTTTCGCACA
1 CTAAGTGCCATTCTCGATACTTT-GCACA
62191211 CTAAGTGCCATTCTCGATACTTTGCACA
1 CTAAGTGCCATTCTCGATACTTTGCACA
*
62191239 CTAAGTTCCATT
1 CTAAGTGCCATT
62191251 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 32 0.91
29 3 0.09
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (28 bp):
CTAAGTGCCATTCTCGATACTTTGCACA
Found at i:62195069 original size:29 final size:28
Alignment explanation
Indices: 62195027--62195116 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
62195017 TGAGCATAAC
*
62195027 TATAAATGTGAATTGGGCTTGATGGGCCA
1 TATAAATGTGAATTGGGCCT-ATGGGCCA
62195056 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCT-ATGGGCCA
*
62195085 TATAAATGTG-ATTAGGCCTAGTGGGCCA
1 TATAAATGTGAATTGGGCCTA-TGGGCCA
62195113 TATA
1 TATA
62195117 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 1 0.02
28 19 0.33
29 37 0.65
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGAATTGGGCCTATGGGCCA
Found at i:62213094 original size:37 final size:37
Alignment explanation
Indices: 62213044--62213117 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
62213034 GATCGATGTC
*
62213044 GTTGTGATTAGCCA-AATGTATTGACTTATAATGATTT
1 GTTGTGATTAGCCATAATATATTG-CTTATAATGATTT
* *
62213081 GTTGT-ATGTAGCCATGATATGTTGCTTATAATGATTT
1 GTTGTGAT-TAGCCATAATATATTGCTTATAATGATTT
62213118 TGGCTTGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.06
37 24 0.75
38 6 0.19
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (37 bp):
GTTGTGATTAGCCATAATATATTGCTTATAATGATTT
Found at i:62217616 original size:26 final size:26
Alignment explanation
Indices: 62217587--62217637 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
62217577 ACACTTACTG
*
62217587 TTACTGGCAGCTATGCTGCGTTATTA
1 TTACTGGCAGCTATGCTGCGATATTA
* *
62217613 TTACTGGTAGCTTTGCTGCGATATT
1 TTACTGGCAGCTATGCTGCGATATT
62217638 GGTGTGCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (26 bp):
TTACTGGCAGCTATGCTGCGATATTA
Found at i:62219179 original size:39 final size:39
Alignment explanation
Indices: 62219095--62219247 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
62219085 TATGGTAACC
** * *
62219095 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
62219135 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62219174 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62219213 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
62219248 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:62219220 original size:78 final size:79
Alignment explanation
Indices: 62219064--62219246 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
62219054 TCGTTCAAAC
* * **
62219064 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
62219129 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
62219144 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
62219208 CAATTTGCACAATT
66 CAATTTGCACAATT
62219222 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
62219247 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:62226471 original size:29 final size:29
Alignment explanation
Indices: 62226438--62226597 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
62226428 GTGACGAGAT
62226438 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
62226467 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
62226496 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
62226525 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
62226554 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
62226583 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
62226598 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:62232050 original size:71 final size:71
Alignment explanation
Indices: 62231966--62232129 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62231956 CGATTTGTCT
62231966 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62232031 CTTTCA
66 CTTTCA
62232037 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62232102 CTTTCA
66 CTTTCA
62232108 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62232130 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62232167 original size:71 final size:70
Alignment explanation
Indices: 62231966--62232163 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62231956 CGATTTGTCT
* * * *
62231966 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62232031 CTTTCA
65 CTTTCA
* * * *
62232037 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62232102 CTTTCA
65 CTTTCA
* *
62232108 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62232164 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62241032 original size:44 final size:44
Alignment explanation
Indices: 62240965--62242204 Score: 1125
Period size: 44 Copynumber: 27.9 Consensus size: 44
62240955 TGAAGTTGTA
* * * * * *
62240965 ATTAAAGCTACAAATCTTGTCTCCTTAAAGTTACAGTAGTGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
62241009 ATTAAAGCTAAAAATCTTATCTCCCTGAAGTTGCAATGGAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
62241053 ATTGAAGCTACGAATCTTATCTCCCTGAAGTTACAGTGGAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
62241097 ATTGAAGCTACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAT
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
62241141 ATTAAAGCTACAAATCTTATCTCCCT-AAGGTTGTAGTAGAGTAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAG
* * * *
62241185 ATTAAAGCTACAAATCTTATCTCCTTGAAGTTGTAGTAGAGCAA
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
62241229 ATTGAGGCTACGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
62241273 ATTGAAGCTACAAATCTTATCTCCCTAAAGTTTCAGTGGAGCAT
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * ** ** *
62241317 ATTGAAGGTACGAATCTTATCTCCCTAAAACTATAGTGGAGTAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
62241361 ATTGAAA-ATACAAATCTTATC-CTCCTGAAGTTGTAATGGAGCAG
1 ATT-AAAGCTACAAATCTTATCTC-CCTGAAGTTGCAGTGGAGCAG
* * *
62241405 ATTAAAGCTAGAAATCTTGTCTCCCTGAAGTTGTAGTGGAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
62241449 ATTATAGCTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* ** * *
62241493 ATTGAAGCTATGAATCTTATCTCTCTGAAGTTGCAGTGGAGTAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
62241537 ATTAAAACTACACATCTTATC-CCCTTGAAGTTGCAGTAGAGTAG
1 ATTAAAGCTACAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAG
* ** * * * *
62241581 ATTGAAGCTATGAATCTTATCTCCCTGAAGTTGTAATAGAGCAT
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * *
62241625 ATTGAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAT
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
62241669 ATTAAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
62241713 ATTAAAGCTAGAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
62241757 ATTAAAGCTACAAATCTTATCTTCGTGAAGTTGTAATGGAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
** * * *
62241801 ATTGAAA-CTATGAATCTTATCTCCCTAAAGTTGTAGTGGAGTAG
1 ATT-AAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* **
62241845 ATTAAAGCTACAAATCCTATAC-CCCTGAAGTTGCAGTGG-GTTGG
1 ATTAAAGCTACAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAG
* * * * *
62241889 ATTGAATCTACCATAGTGAATCTTATATCCTTGAAGTTGCAGTGGAGAAG
1 ATTAAAGCTA-C--A---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
62241939 ATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * ** *
62241983 ATTGAAGTTACAAATATTATCTCCCTAAAGTTATAGTGAAGCAG
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
62242027 ATTGAAA-CTACAAGTCTTATCTCCTTGAAGTTGTAGTGGAACAAG
1 ATT-AAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC-AG
* * * * *
62242072 A-TGAAGCTACTAATCTTATGC-CCCTAAAGTTGCAGTGGTGTAG
1 ATTAAAGCTACAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAG
* * * * *
62242115 AATGAAGTTGCAGTCACAAATCTTATCTCCCTGAAGTTTCTGTAGAGCAAG
1 -ATTAA--AGC--T-ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC-AG
* * * * *
62242166 A-TGAGGCTACAAATCCTATATCCTTGAAGTTGCAGTGGA
1 ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGA
62242205 TTGAATTGGA
Statistics
Matches: 983, Mismatches: 180, Indels: 66
0.80 0.15 0.05
Matches are distributed among these distances:
43 16 0.02
44 875 0.89
45 21 0.02
47 6 0.01
49 4 0.00
50 58 0.06
51 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
ATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
Found at i:62241120 original size:132 final size:132
Alignment explanation
Indices: 62240969--62242204 Score: 1267
Period size: 132 Copynumber: 9.3 Consensus size: 132
62240959 GTTGTAATTA
* * * * * *
62240969 AAGCTACAAATCTTGTCTCCTTAAAGTTACAGTAGTGCAGATTAAAGCTAAAAATCTTATCTCCC
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * * **
62241034 TGAAGTTGCAATGGAGCAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
66 TAAAGTTGCAGTGGAGTAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
62241099 TG
131 TG
* *
62241101 AAGCTACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCATATTAAAGCTACAAATCTTATCTCCC
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * * * * * * *
62241166 TAAGGTTGTAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCTTGAAGTTGTAGTAGAGCAAAT
66 TAAAGTTGCAGTGGAGTAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
62241231 TG
131 TG
* * *
62241233 AGGCTACGAATCTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCC
1 AAGCTACAAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCC
* * * * * ** * *
62241297 CTAAAGTTTCAGTGGAGCATATTGAAGGTACGAATCTTATCTCCCTAAAACTATAGTGGAGTAGA
65 CTAAAGTTGCAGTGGAGTAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
62241362 TTG
130 TTG
** * * * *
62241365 AAAATACAAATCTTATCCTCC-TGAAGTTGTAATGGAGCAGATTAAAGCTAGAAATCTTGTCTCC
1 AAGCTACAAATCTTAT-CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCC
* * * * *
62241429 CTGAAGTTGTAGTGGAGCAGATT-ATAGCTAC-AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCA
65 CTAAAGTTGCAGTGGAGTAGATTGA-AGCTACGAA-TCTTATCTCCCTGAAGTTGTAGTGGAGCA
62241492 GATTG
128 GATTG
** * * *
62241497 AAGCTATGAATCTTATCT-CTCTGAAGTTGCAGTGGAGTAGATTAAAACTACACATCTTATC-CC
1 AAGCTACAAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCC
* * * * * *
62241560 CTTGAAGTTGCAGTAGAGTAGATTGAAGCTATGAATCTTATCTCCCTGAAGTTGTAATAGAGCAT
65 C-TAAAGTTGCAGTGGAGTAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAG
62241625 ATTG
129 ATTG
* * *
62241629 AAGTTACAAATCTTATCTCCTTGAAGTTGCAGTAGAGCATATTAAAGCTACAAATCTTATCTCCC
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
*
62241694 TAAAGTTGCAGTGGAGTAGATTAAAGCTA-GAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
66 TAAAGTTGCAGTGGAGTAGATTGAAGCTACG-AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
*
62241758 TTA
130 TTG
* * * * **
62241761 AAGCTACAAATCTTATCTTCGTGAAGTTGTAATGGAGCAGATTGAAA-CTATGAATCTTATCTCC
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAATCTTATCTCC
* * * * * **
62241825 CTAAAGTTGTAGTGGAGTAGATTAAAGCTACAAATCCTATAC-CCCTGAAGTTGCAGTGG-GTTG
65 CTAAAGTTGCAGTGGAGTAGATTGAAGCTACGAATCTTAT-CTCCCTGAAGTTGTAGTGGAG-CA
62241888 GATTG
128 GATTG
* * * *
62241893 AATCTACCATAGTGAATCTTATATCCTTGAAGTTGCAGTGGAGAAGATTGAAGCTACAAATCTTA
1 AAGCTA-C--A---AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTA
* * * * * *
62241958 TCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTTACAAATATTATCTCCCTAAAGTTATAGTGAA
60 TCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTGTAGTGGA
62242023 GCAGATTG
125 GCAGATTG
* * * * * *
62242031 AAACTACAAGTCTTATCTCCTTGAAGTTGTAGTGGAACAAGA-TGAAGCTACTAATCTTATGC-C
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTAAAGCTACAAATCTTAT-CTC
* * * *
62242094 CCTAAAGTTGCAGTGGTGTAGAATGAAGTTGCAGTCACAAATCTTATCTCCCTGAAGTT-TCTGT
64 CCTAAAGTTGCAGTGGAGTAGATTGAA---GC--T-ACGAATCTTATCTCCCTGAAGTTGT-AGT
*
62242158 AGAGCAAGA-TG
122 GGAGC-AGATTG
* * *
62242169 AGGCTACAAATCCTATATCCTTGAAGTTGCAGTGGA
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
62242205 TTGAATTGGA
Statistics
Matches: 911, Mismatches: 157, Indels: 66
0.80 0.14 0.06
Matches are distributed among these distances:
130 1 0.00
131 12 0.01
132 705 0.77
133 19 0.02
134 1 0.00
135 3 0.00
137 6 0.01
138 160 0.18
139 4 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (132 bp):
AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
TAAAGTTGCAGTGGAGTAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
TG
Found at i:62245869 original size:48 final size:48
Alignment explanation
Indices: 62245810--62245908 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
62245800 TCCTCTTTTC
62245810 CTTTGGTTGTCATGAAAGATTGCAGGATTGTGGAATCTCTTGGCCATG
1 CTTTGGTTGTCATGAAAGATTGCAGGATTGTGGAATCTCTTGGCCATG
62245858 CTTTGGTTGTCATGAAAGATTGCAGGATTGTGGAATCTCTTGGCCATG
1 CTTTGGTTGTCATGAAAGATTGCAGGATTGTGGAATCTCTTGGCCATG
62245906 CTT
1 CTT
62245909 ATTCGGTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.36
Consensus pattern (48 bp):
CTTTGGTTGTCATGAAAGATTGCAGGATTGTGGAATCTCTTGGCCATG
Found at i:62261019 original size:40 final size:40
Alignment explanation
Indices: 62260891--62261021 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
62260881 TATGCTGGAA
* * * *
62260891 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
62260931 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
62260971 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
62261011 ATTATATCCGG
1 ATTATATCCGG
62261022 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:62263539 original size:37 final size:37
Alignment explanation
Indices: 62263447--62263562 Score: 159
Period size: 33 Copynumber: 3.2 Consensus size: 37
62263437 TAAAACACAG
62263447 AAAGAAAGAAAGAAAAAGAAAAACAAAAAGAATAAAGAA
1 AAAGAAAGAAAG-AAAA-AAAAACAAAAAGAATAAAGAA
*
62263486 AAAGAAAGAATG----AAAAACAAAAAGAATAAAGAA
1 AAAGAAAGAAAGAAAAAAAAACAAAAAGAATAAAGAA
* *
62263519 AAAGAAAGAACGAAAAAAAAACAAAAATAATAAAGAA
1 AAAGAAAGAAAGAAAAAAAAACAAAAAGAATAAAGAA
62263556 AAAGAAA
1 AAAGAAA
62263563 TTGGAAATGT
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
33 32 0.46
37 27 0.39
39 11 0.16
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.04
Consensus pattern (37 bp):
AAAGAAAGAAAGAAAAAAAAACAAAAAGAATAAAGAA
Found at i:62263560 original size:33 final size:33
Alignment explanation
Indices: 62263451--62263562 Score: 143
Period size: 37 Copynumber: 3.2 Consensus size: 33
62263441 ACACAGAAAG
62263451 AAAGAAAGAAAAAGAAAAACAAAAAGAATAAAGAA
1 AAAGAAAG-AAAA-AAAAACAAAAAGAATAAAGAA
**
62263486 AAAGAAAGAATGAAAAACAAAAAGAATAAAGAA
1 AAAGAAAGAAAAAAAAACAAAAAGAATAAAGAA
*
62263519 AAAGAAAGAACGAAAAAAAAACAAAAATAATAAAGAA
1 AAAG--A-AA-GAAAAAAAAACAAAAAGAATAAAGAA
62263556 AAAGAAA
1 AAAGAAA
62263563 TTGGAAATGT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
33 25 0.37
34 4 0.06
35 10 0.15
36 2 0.03
37 27 0.40
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (33 bp):
AAAGAAAGAAAAAAAAACAAAAAGAATAAAGAA
Found at i:62268425 original size:12 final size:12
Alignment explanation
Indices: 62268408--62268447 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
62268398 TATAGACGCT
62268408 CGTGTGCTAGGC
1 CGTGTGCTAGGC
62268420 CGTGTGCTAGGC
1 CGTGTGCTAGGC
62268432 CGTGTGCTAGGC
1 CGTGTGCTAGGC
62268444 CGTG
1 CGTG
62268448 CCAAACCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.07, C:0.25, G:0.42, T:0.25
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:62270332 original size:2 final size:2
Alignment explanation
Indices: 62270320--62270355 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
62270310 GACATTCAGT
*
62270320 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62270356 GATAAATTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:62275332 original size:39 final size:40
Alignment explanation
Indices: 62275262--62275483 Score: 308
Period size: 39 Copynumber: 5.6 Consensus size: 40
62275252 TATTCGGATG
*
62275262 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62275302 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62275341 ATATCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* *
62275383 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62275422 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62275462 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62275484 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 4 0.02
39 69 0.43
40 53 0.33
41 6 0.04
42 29 0.18
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62281869 original size:40 final size:40
Alignment explanation
Indices: 62281814--62282044 Score: 275
Period size: 40 Copynumber: 5.7 Consensus size: 40
62281804 TATTCGGATG
*
62281814 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62281854 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
62281894 ATATCCGGGCGAAGTCCCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GCG-AGTTACT
* * *
62281937 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * **
62281977 ACATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
62282017 ATAT-CTGGCTAAATCCCGAAGGTATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
62282045 GGTTTGGAAG
Statistics
Matches: 160, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 19 0.12
40 106 0.66
41 1 0.01
42 1 0.01
43 33 0.21
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62282057 original size:83 final size:79
Alignment explanation
Indices: 62281816--62282044 Score: 314
Period size: 83 Copynumber: 2.8 Consensus size: 79
62281806 TTCGGATGAT
*
62281816 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT-CGGGCTAAGTCCCGAAGGCATT
*
62281881 TGTGCTAGTGACTAT
65 TGTGCTAGTGACTAC
* * *
62281896 ATCCGGGCGAAGTCCCGAAGGCATTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGT--GCG-AGTTGCTATA-TCGGGCTAAGTCCCGAAGGC
62281961 ATTTGTGCTAGTGACTAC
62 ATTTGTGCTAGTGACTAC
* * * * * *
62281979 ATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCTGGCTAAATCCCGAAGGTATTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCGGGCTAAGTCCCGAAGGCATTT
62282044 G
66 G
62282045 GGTTTGGAAG
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 21 0.16
80 36 0.27
81 2 0.02
82 2 0.02
83 70 0.53
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCGGGCTAAGTCCCGAAGGCATTT
GTGCTAGTGACTAC
Found at i:62292797 original size:15 final size:15
Alignment explanation
Indices: 62292754--62292826 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
62292744 GGTATTGTAA
**
62292754 CTTGGATTTCTGAAT
1 CTTGGATTTCTTTAT
62292769 CTTGGGAGTTTCTTTAT
1 CTT-GGA-TTTCTTTAT
*
62292786 CTTGGATTTCTTTGT
1 CTTGGATTTCTTTAT
* * *
62292801 CTCGGACTACTTTAT
1 CTTGGATTTCTTTAT
*
62292816 -TTGGTTTTCTT
1 CTTGGATTTCTT
62292827 ACCATATCTA
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
14 7 0.16
15 22 0.49
16 6 0.13
17 10 0.22
ACGTcount: A:0.12, C:0.15, G:0.19, T:0.53
Consensus pattern (15 bp):
CTTGGATTTCTTTAT
Found at i:62294870 original size:40 final size:39
Alignment explanation
Indices: 62294826--62294940 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 39
62294816 AAGTGACTAT
* *
62294826 ATCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAA
1 ATCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAA
* * *
62294866 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
* *
62294905 ACCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTA
1 ATCCGGGCTAAGTC-CGAAGGCATTCGTGCGAGTTA
62294941 CTATAACTGG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 34 0.52
40 31 0.48
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:62294932 original size:79 final size:81
Alignment explanation
Indices: 62294787--62294978 Score: 214
Period size: 79 Copynumber: 2.4 Consensus size: 81
62294777 TTGAATGATG
** * * *
62294787 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
62294851 CGTGCGAGTTAATA-AA
65 CGTGCGAGTTAATATAA
* **
62294867 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATC-CGAAGGCATT
*
62294930 CGTGCGAGTTACTATAA
65 CGTGCGAGTTAATATAA
* ** *
62294947 -CTGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
62294979 CGTTATATCC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 54 0.57
80 39 0.41
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:62294941 original size:40 final size:39
Alignment explanation
Indices: 62294840--62294978 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 39
62294830 GGACTAAGAT
* * *
62294840 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAGC
* *
62294879 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAG-C
* * **
62294919 TCGAAGGCATTCGTGCGAGTTACTATAA-CTGGGCTTTGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGCTAAG-C
* *
62294959 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
62294979 CGTTATATCC
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 33 0.39
40 49 0.58
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAGC
Found at i:62294993 original size:79 final size:78
Alignment explanation
Indices: 62294787--62295004 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 78
62294777 TTGAATGATG
* ** * * *
62294787 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAG-CGAGTCACTATATCCGG-TTAAGATCCGAAGGCATT
62294851 CGTGCGAGTTAATAAA
63 CGTGCGAGTTAATAAA
* * * *
62294867 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCTCGAAGGCATTC
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCC-GGTTAAGATC-CGAAGGCATTC
*
62294931 GTGCGAGTTACTATAA
64 GTGCGAGTTAATA-AA
* ** **
62294947 -CTGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCCGGTTAA-ATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTCACTATATCCGGTTAAGA-TCCGAAGG
62295005 TACATGATTC
Statistics
Matches: 114, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
78 2 0.02
79 64 0.56
80 48 0.42
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCCGGTTAAGATCCGAAGGCATTCGT
GCGAGTTAATAAA
Found at i:62298202 original size:34 final size:34
Alignment explanation
Indices: 62298159--62298229 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
62298149 TCTTGTGAAA
*
62298159 ATATGATTTTGAGTCAATTTGAATAATGTGCGTC
1 ATATGATTTTGAGTCAATTTGAATAATGTGCATC
62298193 ATATGATTTTGAGTCAATTTGAATAATGTGCATC
1 ATATGATTTTGAGTCAATTTGAATAATGTGCATC
62298227 ATA
1 ATA
62298230 AATAGGCTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (34 bp):
ATATGATTTTGAGTCAATTTGAATAATGTGCATC
Found at i:62310819 original size:46 final size:46
Alignment explanation
Indices: 62310704--62310869 Score: 192
Period size: 45 Copynumber: 3.7 Consensus size: 46
62310694 TGATCGGAGC
* * * *
62310704 ATGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCTC-GTCTTG
1 ATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTG
* *
62310749 ATGCTATAGTGTCTTTCAACCATGGTGTTATTCATTTTCTGTCGTG
1 ATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTG
* * * *
62310795 TTGCCATAGTGTCTTTCAACCATGGTCTTATTCGTTTTAT-TTGTG
1 ATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTG
* * * *
62310840 ATGCCATAGCGTCTTTTAGCTATGGTCTTA
1 ATGCCATAGTGTCTTTCAACCATGGTCTTA
62310870 CTCGATAGAA
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 63 0.61
46 40 0.39
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (46 bp):
ATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTG
Found at i:62310886 original size:45 final size:45
Alignment explanation
Indices: 62310837--62311004 Score: 189
Period size: 45 Copynumber: 3.7 Consensus size: 45
62310827 CGTTTTATTT
* *
62310837 GTGATGCCATAGCGTCTTTTAG-CTATGGTCTTACTCGATAGAATC
1 GTGATGCCATAACATCTTTTAGTC-ATGGTCTTACTCGATAGAATC
* * * *
62310882 GTGATGCTC-TAACGT-TTTTCAATCATGGTCTTACCCGATAGAATT
1 GTGATGC-CATAACATCTTTT-AGTCATGGTCTTACTCGATAGAATC
* * *
62310927 GCGATGTCATAACATCTTTTAGTCATGGTCTTACTTGATAGAATC
1 GTGATGCCATAACATCTTTTAGTCATGGTCTTACTCGATAGAATC
* *
62310972 GTGATTCCATAACATCTTTCAGTCATGGTCTTA
1 GTGATGCCATAACATCTTTTAGTCATGGTCTTA
62311005 TTCATTTTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 5 0.05
45 92 0.89
46 6 0.06
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (45 bp):
GTGATGCCATAACATCTTTTAGTCATGGTCTTACTCGATAGAATC
Found at i:62311035 original size:45 final size:46
Alignment explanation
Indices: 62310996--62311092 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
62310986 TCTTTCAGTC
* *
62310996 ATGGTCTTATTCATT-TTTGGTATGGTGCCATAGTGTCTTTCAACT
1 ATGGTCTTATTCATTCTTTGGTATAGTGCCATAATGTCTTTCAACT
* * *
62311041 GTGGTCTTATTTATTCTTTGGTATAGTGGCATAATGTCTTTCAACT
1 ATGGTCTTATTCATTCTTTGGTATAGTGCCATAATGTCTTTCAACT
62311087 ATGGTC
1 ATGGTC
62311093 ATAAGCATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
45 13 0.29
46 32 0.71
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (46 bp):
ATGGTCTTATTCATTCTTTGGTATAGTGCCATAATGTCTTTCAACT
Found at i:62313560 original size:54 final size:54
Alignment explanation
Indices: 62313456--62313567 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
62313446 AGGAAGTGTC
62313456 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGATCTCCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGATCTCCCACATATATCTGTT
* * * **
62313510 CTGGTGGCTCTGCCACGATTATCTGTATCTGGT-GACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTGGA-TCTCCCACATATATCTGTT
62313564 CTGG
1 CTGG
62313568 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 36 0.71
55 15 0.29
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGGATCTCCCACATATATCTGTT
Found at i:62313561 original size:27 final size:26
Alignment explanation
Indices: 62313456--62313567 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
62313446 AGGAAGTGTC
* * **
62313456 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGACTCTGCCAC-ATTATCTGTT
*
62313483 CTGGTGGA-TCTCCCACATATATCTGTT
1 CTGGT-GACTCTGCCACAT-TATCTGTT
*
62313510 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTGT-T
*
62313538 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
62313564 CTGG
1 CTGG
62313568 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.11
27 45 0.63
28 18 0.25
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:62315921 original size:29 final size:29
Alignment explanation
Indices: 62315887--62315989 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
62315877 TAATCAGCCG
** *
62315887 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
62315916 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
62315945 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
62315974 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
62315990 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:62323995 original size:29 final size:29
Alignment explanation
Indices: 62323961--62324063 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
62323951 TAATCAGCCG
** *
62323961 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
62323990 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
62324019 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
62324048 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
62324064 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:62327374 original size:43 final size:42
Alignment explanation
Indices: 62327281--62327377 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 42
62327271 TCACTGAGAC
* * * ***
62327281 TACATGTAAGACCATATCTGGGTTATGGCATCGATGTGAGAT
1 TACATGTAAGACCATAGCTGGGCTATGGCACCGATACAAGAT
***
62327323 TTTGTGTAAGACCATAGCTGGGCTATTGGCACCGATACAAGAT
1 TACATGTAAGACCATAGCTGGGCTA-TGGCACCGATACAAGAT
62327366 TACATGTAAGAC
1 TACATGTAAGAC
62327378 TGTATTTGGG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 20 0.48
43 22 0.52
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TACATGTAAGACCATAGCTGGGCTATGGCACCGATACAAGAT
Found at i:62333353 original size:23 final size:23
Alignment explanation
Indices: 62333326--62333370 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
62333316 GATGAGAATG
62333326 GTGATTGGATCGTTGGTTACAGT
1 GTGATTGGATCGTTGGTTACAGT
62333349 GTGATTGGATCGTTGGTTACAG
1 GTGATTGGATCGTTGGTTACAG
62333371 CCGATTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.36, T:0.38
Consensus pattern (23 bp):
GTGATTGGATCGTTGGTTACAGT
Found at i:62334544 original size:22 final size:22
Alignment explanation
Indices: 62334487--62334544 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
62334477 ATAAATATTT
*
62334487 AAAAATACATAAAATTTTCAAAA
1 AAAAATTC-TAAAATTTTCAAAA
* *
62334510 AAAAATT-TCAAATTTTCAATA
1 AAAAATTCTAAAATTTTCAAAA
62334531 AAAAATTCTAAAAT
1 AAAAATTCTAAAAT
62334545 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 19 0.63
22 5 0.17
23 6 0.20
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAATTCTAAAATTTTCAAAA
Found at i:62337778 original size:18 final size:20
Alignment explanation
Indices: 62337742--62337788 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62337732 AGTTGCAAGT
62337742 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
62337762 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
62337781 ATGATATA
1 AT-ATATA
62337789 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:62338254 original size:50 final size:50
Alignment explanation
Indices: 62338187--62338456 Score: 380
Period size: 50 Copynumber: 5.4 Consensus size: 50
62338177 AGATTGATAG
* *
62338187 GTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAAGTCATGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTA
* * * *** * *
62338237 GTTCTAAGTGCAGGCTACTATGTGTACCAGATTAATAGGTCACATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTA
62338287 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTA
*
62338337 GTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAAGTCACGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTA
* * * * *
62338387 GTACTAAGTGCAGGCTACTACGTGT-TCCAGATTGATAGGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTAT-CAGATGGTTAAGTCACGTGTGTA
62338437 GTACTAAGTGCAGGCTACTA
1 GTACTAAGTGCAGGCTACTA
62338457 TGCGTACCAG
Statistics
Matches: 194, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
49 1 0.01
50 193 0.99
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTA
Found at i:62342909 original size:40 final size:40
Alignment explanation
Indices: 62342855--62343039 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
62342845 CTCGCACAAG
* *
62342855 GCCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAG-TCACTAGCACAAAT
* *
62342895 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * * * **
62342935 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCGTAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
62342975 GCCTTC-GGATCTTAGTCCTGATATAGTCACTTAACACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
62343016 GCCTTCGGGACTTAGGCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
62343040 CATTCGAATA
Statistics
Matches: 115, Mismatches: 26, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
39 2 0.02
40 86 0.75
41 24 0.21
42 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:62342953 original size:80 final size:81
Alignment explanation
Indices: 62342855--62343039 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 81
62342845 CTCGCACAAG
*
62342855 GCCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAATGCCTTCAGGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-TAACTAGCATAAATGCCTTC-GGATCTTAGCCCGGATA
* * *
62342918 TAGTCGC-TAGCACAAAT
64 TAGTCACTTAACACAAAA
* * * * * *
62342935 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCGTAAATGCCTTCGGATCTTAGTCCTGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
62343000 GTCACTTAACACAAAA
66 GTCACTTAACACAAAA
* *
62343016 GCCTTCGGGACTTAGGCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
62343040 CATTCGAATA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 56 0.64
81 29 0.33
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
GTCACTTAACACAAAA
Found at i:62345280 original size:15 final size:15
Alignment explanation
Indices: 62345260--62345303 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
62345250 TATGATATTG
62345260 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
*
62345274 TTATCTTAGATTTCTC
1 -TATCTTGGATTTCTC
*
62345290 TATCTTGGACTTCT
1 TATCTTGGATTTCT
62345304 TAATCCTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.11, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:62345318 original size:30 final size:30
Alignment explanation
Indices: 62345260--62345318 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
62345250 TATGATATTG
* *
62345260 TATCTTGGATTTCCTTATCTTAGATTTCTC
1 TATCTTGGACTTCCTTATCCTAGATTTCTC
*
62345290 TATCTTGGACTT-CTTAATCCTAGTTTTCT
1 TATCTTGGACTTCCTT-ATCCTAGATTTCT
62345319 TGTTATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCCTTATCCTAGATTTCTC
Found at i:62347421 original size:18 final size:20
Alignment explanation
Indices: 62347385--62347431 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62347375 AGTTGTAAGC
62347385 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
62347405 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
62347424 ATGATATA
1 AT-ATATA
62347432 ACATATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:62350262 original size:25 final size:26
Alignment explanation
Indices: 62350234--62350330 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
62350224 CCTCTTTAAT
**
62350234 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCAATA
62350259 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAATA
*
62350284 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAATA
*
62350310 AACTGGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
62350331 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 32 0.47
26 36 0.53
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCAATA
Found at i:62350305 original size:51 final size:51
Alignment explanation
Indices: 62350234--62350330 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
62350224 CCTCTTTAAT
**
62350234 AACTAGGGCAAAGCCCTTTTCGGTAAACTAGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAATA
* *
62350284 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTAGGGCA-AAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
62350331 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 9 0.22
51 22 0.54
52 10 0.24
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (51 bp):
AACTAGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAATA
Found at i:62350405 original size:20 final size:20
Alignment explanation
Indices: 62350380--62350426 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
62350370 TTATGAATAC
62350380 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
62350400 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
62350420 ATCATGT
1 ATCATGT
62350427 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:62354379 original size:40 final size:40
Alignment explanation
Indices: 62354296--62354476 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
62354286 TCGAATGATG
* * * *
62354296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAA
* *
62354336 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTATGCGAGTTACTAAA
*
62354376 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
* * *
62354416 TCCGGGTTAAGTCCCAAAGGCATTTACGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AA
* *
62354457 -CCAGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
62354477 GTTTGAATGA
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 113 0.91
41 10 0.08
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
Found at i:62358872 original size:40 final size:38
Alignment explanation
Indices: 62358836--62358941 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
62358826 ATATCCGGAC
62358836 TAAGATCCGAAGGCATTCGTGCGAGTTAATAAATCCGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGT
* * * *
62358875 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCC-GGT
62358914 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
62358942 CTATAACCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 27 0.46
39 11 0.19
40 21 0.36
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (38 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGT
Found at i:62358942 original size:40 final size:40
Alignment explanation
Indices: 62358842--62358967 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
62358832 GGACTAAGAT
* *
62358842 CCGAAGGCATTCGTGCGAGTTAATAAATCC-GGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
62358880 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
62358920 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
62358960 CCGAAGGC
1 CCGAAGGC
62358968 CTTTGAGCGA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 27 0.34
39 7 0.09
40 36 0.46
41 9 0.11
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:62365780 original size:76 final size:80
Alignment explanation
Indices: 62365647--62365828 Score: 214
Period size: 76 Copynumber: 2.3 Consensus size: 80
62365637 TCGAATGATG
* *
62365647 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATT-TGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
**
62365712 GTGCGAGTTACTA-AA
65 ACGCGAGTTACTATAA
* * **
62365727 TCCGGG-TAAGT-CCGAAGGCATTTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTT
62365788 ACGCGAGTTACTATAA
65 ACGCGAGTTACTATAA
* *
62365804 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62365829 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
75 1 0.01
76 45 0.51
77 9 0.10
78 22 0.25
79 5 0.06
80 6 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTA
CGCGAGTTACTATAA
Found at i:62365808 original size:40 final size:40
Alignment explanation
Indices: 62365647--62365828 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
62365637 TCGAATGATG
* * *
62365647 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
62365687 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
62365727 TCCGGG-TAAGT-CCGAAGGCA-TT-TGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
62365763 TCCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
62365804 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62365829 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
36 20 0.16
37 7 0.06
38 19 0.15
39 6 0.05
40 63 0.50
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62369392 original size:27 final size:26
Alignment explanation
Indices: 62369345--62369395 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
62369335 CGAGGATGCT
*
62369345 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
62369371 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
62369396 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:62370023 original size:26 final size:27
Alignment explanation
Indices: 62369994--62370047 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62369984 TCACACAAGT
*
62369994 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
62370020 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
62370047 T
1 T
62370048 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:62370166 original size:27 final size:27
Alignment explanation
Indices: 62370048--62370165 Score: 164
Period size: 27 Copynumber: 4.4 Consensus size: 27
62370038 GGGGCAAAAT
* * *
62370048 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62370075 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62370102 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62370129 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
62370156 GGTAATTCTA
1 GGTAATTCTA
62370166 TAACTTATCC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:62379269 original size:51 final size:49
Alignment explanation
Indices: 62379137--62379331 Score: 194
Period size: 49 Copynumber: 3.9 Consensus size: 49
62379127 TAGCCAAAGC
* *
62379137 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATC-CGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACA-CGCGACCAAT
* * * * * * *
62379186 TATCCAGTATACGTAGCAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGCGA-CCAA-T
* * * *
62379237 TATCGGGTACGCATAGTAGCTTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCAAT
** * * *
62379286 TATCCGGTACATGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACC
62379332 TGACAATAGA
Statistics
Matches: 116, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
48 1 0.01
49 74 0.64
50 6 0.05
51 35 0.30
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCAAT
Found at i:62379282 original size:100 final size:100
Alignment explanation
Indices: 62379137--62379329 Score: 314
Period size: 100 Copynumber: 1.9 Consensus size: 100
62379127 TAGCCAAAGC
* *
62379137 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATCCGACCAATTATCCAGTATACGTAG
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATCCGACCAATTATCCAGTACACGTAG
62379202 CAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 CAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * *
62379237 TATCGGGTACGCATAGTAGCTTACACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAG
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATCCGACCAATTATCCAGTACACGTAG
* *
62379302 TAGCTTGCACTTAGTACTACACACGTGA
66 CAGCCTGCACTTAGTACTACACACGTGA
62379330 CCTGACAATA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATCCGACCAATTATCCAGTACACGTAG
CAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:62381135 original size:13 final size:13
Alignment explanation
Indices: 62381113--62381153 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
62381103 CCCATGTGCC
*
62381113 TCACATAGTCGTG
1 TCACACAGTCGTG
62381126 TCACACAGTCGTG
1 TCACACAGTCGTG
62381139 TCACACAGTCGTG
1 TCACACAGTCGTG
62381152 TC
1 TC
62381154 TCAGCTCGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (13 bp):
TCACACAGTCGTG
Found at i:62382049 original size:2 final size:2
Alignment explanation
Indices: 62382042--62382073 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62382032 GTAAAGTTAA
62382042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62382074 TTCTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62383325 original size:48 final size:48
Alignment explanation
Indices: 62383254--62383351 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
62383244 TAAAATTTAT
* **
62383254 TTACCTTACAAGCATTAAATATCTCGTTTACGTAATTAATCATAATTA
1 TTACCTGACAAGCATTAAATATCTCGTTTACACAATTAATCATAATTA
* *
62383302 TTACCTGACAAGCATTAAGTATCTTGTTTACACAATTAATCATAATTA
1 TTACCTGACAAGCATTAAATATCTCGTTTACACAATTAATCATAATTA
62383350 TT
1 TT
62383352 GTGAAATCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (48 bp):
TTACCTGACAAGCATTAAATATCTCGTTTACACAATTAATCATAATTA
Found at i:62383684 original size:15 final size:15
Alignment explanation
Indices: 62383651--62383700 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
62383641 CAAGCAGTAC
* *
62383651 AAACAACACAGAAAC
1 AAACAACAAAGAAAA
*
62383666 AAACAACAAACAAAA
1 AAACAACAAAGAAAA
*
62383681 AAACAA-AAAGAAGA
1 AAACAACAAAGAAAA
62383695 AAACAA
1 AAACAA
62383701 ATGAGTTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.76, C:0.18, G:0.06, T:0.00
Consensus pattern (15 bp):
AAACAACAAAGAAAA
Found at i:62384784 original size:43 final size:42
Alignment explanation
Indices: 62384737--62384829 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
62384727 AAATCATTTT
* * *
62384737 ATTATTATTTAATTTAG-TTTTTTTTACATGCTATGTGTTTTAA
1 ATTATTATTCAATTTAGATTTTATATACAT--TATGTGTTTTAA
* *
62384780 ATTATTATTCATTTTAGATTTTATATACATTATTTGTTTTAA
1 ATTATTATTCAATTTAGATTTTATATACATTATGTGTTTTAA
*
62384822 ACTATTAT
1 ATTATTAT
62384830 ATATATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 18 0.42
43 15 0.35
44 10 0.23
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.59
Consensus pattern (42 bp):
ATTATTATTCAATTTAGATTTTATATACATTATGTGTTTTAA
Found at i:62384832 original size:28 final size:28
Alignment explanation
Indices: 62384797--62385102 Score: 128
Period size: 28 Copynumber: 11.3 Consensus size: 28
62384787 TTCATTTTAG
*
62384797 ATTTTATATACATTATTTGTTTTAAACT
1 ATTTTATATACATTATTTATTTTAAACT
* *
62384825 A--TTATATATATTATTTATTTTGAAAAT
1 ATTTTATATACATTATTTATTTT-AAACT
* * *
62384852 -TTTTAGATACCTTTTTTATTTTAAACT
1 ATTTTATATACATTATTTATTTTAAACT
* * *
62384879 ATTTTATATATATTATCTATTTTAATAGTT
1 ATTTTATATACATTATTTATTTTAA-A-CT
* ** * *
62384909 ATTTT-TTTATGTTATTTA-GTTATACT
1 ATTTTATATACATTATTTATTTTAAACT
* * *
62384935 A-TTT-TATACATTAATCATTCTAAACT
1 ATTTTATATACATTATTTATTTTAAACT
* * *
62384961 CCTTTT-TAT-TATTATTTATTTTGAACT
1 -ATTTTATATACATTATTTATTTTAAACT
* * *
62384988 -TTCTATAT--ATTATTTGTTTTAAAATAT
1 ATTTTATATACATTATTTATTTT-AAA-CT
* *
62385015 ATTTTATATAC--TCTTTATTTTAAATT
1 ATTTTATATACATTATTTATTTTAAACT
* *
62385041 ATTTTCATAT--ATTATCTA-TTCAAA--
1 ATTTT-ATATACATTATTTATTTTAAACT
* * *
62385065 ATTTTCATATAAAGTATTTAATTTAAACT
1 ATTTT-ATATACATTATTTATTTTAAACT
*
62385094 GTTTTATAT
1 ATTTTATAT
62385103 GTTATTAAGT
Statistics
Matches: 206, Mismatches: 49, Indels: 46
0.68 0.16 0.15
Matches are distributed among these distances:
24 10 0.05
25 25 0.12
26 47 0.23
27 39 0.19
28 64 0.31
29 15 0.07
30 6 0.03
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.57
Consensus pattern (28 bp):
ATTTTATATACATTATTTATTTTAAACT
Found at i:62384837 original size:26 final size:26
Alignment explanation
Indices: 62384782--62385138 Score: 113
Period size: 26 Copynumber: 13.6 Consensus size: 26
62384772 TGTTTTAAAT
* * *
62384782 TATTATTCATTTTAGA-TTTTATATA
1 TATTATTTATTTTAAACTATTATATA
* *
62384807 CATTATTTGTTTTAAACTATTATATA
1 TATTATTTATTTTAAACTATTATATA
* * *
62384833 TATTATTTATTTTGAAAAT-TTTTAGA
1 TATTATTTATTTT-AAACTATTATATA
*
62384859 TACCTTTTTTATTTTAAACTATTTTATATA
1 TA--TTATTTATTTTAAACTA--TTATATA
* * * *
62384889 TATTATCTATTTTAATAGTTATTTTTTTA
1 TATTATTTATTTTAA-A-CTA-TTATATA
* * * *
62384918 TGTTATTTA-GTTATACTATTTTATA
1 TATTATTTATTTTAAACTATTATATA
* * * * * *
62384943 CATTAATCATTCTAAACTCCTT-TTTA
1 TATTATTTATTTTAAACT-ATTATATA
* *
62384969 TTATTATTTATTTTGAACT-TTCTATA
1 -TATTATTTATTTTAAACTATTATATA
* * *
62384995 TATTATTTGTTTTAAAATATATTTTATA
1 TATTATTTATTTT-AAA-CTATTATATA
* * * *
62385023 TACTCTTTATTTTAAATTATTTTCATA
1 TATTATTTATTTTAAACTATTAT-ATA
* * * *
62385050 TATTATCTA-TTCAAAATTTTCATATA
1 TATTATTTATTTTAAACTATT-ATATA
* * * * *
62385076 AAGTATTTAATTTAAACTGTTTTATA
1 TATTATTTATTTTAAACTATTATATA
* * * *
62385102 TGTTATTAAGTTT-AA-T-TT-TTTA
1 TATTATTTATTTTAAACTATTATATA
62385124 TATTATTTATTTTAA
1 TATTATTTATTTTAA
62385139 GCTTTTTTTT
Statistics
Matches: 241, Mismatches: 71, Indels: 42
0.68 0.20 0.12
Matches are distributed among these distances:
22 13 0.05
23 3 0.01
24 1 0.00
25 39 0.16
26 76 0.32
27 46 0.19
28 40 0.17
29 14 0.06
30 9 0.04
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTATTTATTTTAAACTATTATATA
Found at i:62385152 original size:21 final size:20
Alignment explanation
Indices: 62385112--62385164 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
62385102 TGTTATTAAG
*
62385112 TTTAATTTTTTATATTATTTAT
1 TTTAAGTTTTT-T-TTATTTAT
62385134 TTTAAGCTTTTTTTTATTTAT
1 TTTAAG-TTTTTTTTATTTAT
62385155 TTTAAGTTTT
1 TTTAAGTTTT
62385165 ATACATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 14 0.48
22 6 0.21
23 5 0.17
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTAAGTTTTTTTTATTTAT
Found at i:62385242 original size:26 final size:26
Alignment explanation
Indices: 62385169--62385248 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
62385159 AGTTTTATAC
* * *
62385169 ATTATTCATTTGAAACTGTTTCTTTGT
1 ATTATTTATTTTAAACTGTTTCATT-T
**
62385196 ATTATTTA-TTTATAGTTGTTTCATTT
1 ATTATTTATTTTA-AACTGTTTCATTT
* *
62385222 ATTATTTATTTTAAACCGTTTTATTT
1 ATTATTTATTTTAAACTGTTTCATTT
62385248 A
1 A
62385249 CTTTAAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
26 22 0.52
27 20 0.48
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTATTTATTTTAAACTGTTTCATTT
Done.