Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 26 of 145
Found at i:8414660 original size:85 final size:85
Alignment explanation
Indices: 8414521--8414788 Score: 312
Period size: 86 Copynumber: 3.2 Consensus size: 85
8414511 AAGTCATGTT
* * * ** *
8414521 TTTAGCGGCGTTTGT-G-AAAAACTGCCGCTAAAAGTTAT--TTTTATAGCGATGTTTGTAATAA
1 TTTAGCGGCGTTTGTGGTAAAAGC-GCCGCTAAAGGTCATGATTTT-TAGCGGCGTTTGT-GTAA
* * ** *
8414582 AAGTGCCACTAAAGGTCATGATT
63 AAGCGCCGCTAAAGACCATGATC
*
8414605 TTTAGTGGCGTTTGTGGTAAAAGCGCCGCT-AAGGTCATGATTTTTAGCGGCGTTTGTGTGAAAA
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGATTTTTAGCGGCGTTTGTGT-AAAA
8414669 GCGCCGCTAAAGACCATGATC
65 GCGCCGCTAAAGACCATGATC
** *
8414690 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGGTAAAA
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGATTTTTAGCGGCGTTTGT-GTAAAA
8414755 GCGCCGCTAAAGACCATGATC
65 GCGCCGCTAAAGACCATGATC
*
8414776 TTTAGCGACGTTT
1 TTTAGCGGCGTTT
8414789 TTTCACATAA
Statistics
Matches: 160, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
84 21 0.13
85 67 0.42
86 70 0.44
87 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGATTTTTAGCGGCGTTTGTGTAAAAG
CGCCGCTAAAGACCATGATC
Found at i:8420206 original size:16 final size:17
Alignment explanation
Indices: 8420185--8420219 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8420175 AATTTTAATT
*
8420185 AATTAATTAA-TTTCTC
1 AATTAAATAAGTTTCTC
8420201 AATTAAATAAGTTTCTC
1 AATTAAATAAGTTTCTC
8420218 AA
1 AA
8420220 CCCAATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
AATTAAATAAGTTTCTC
Found at i:8421442 original size:43 final size:42
Alignment explanation
Indices: 8421393--8421603 Score: 206
Period size: 43 Copynumber: 4.9 Consensus size: 42
8421383 GAAAAAATGT
*
8421393 CGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCACAAACGC
1 CGCTAAAGAACATGACCTTTAGC-GCGCTTTTATCACAAACGC
* ** * * *
8421436 TGCTAAAGGCCATGACCTTTAGTGGTGCTTTTAACACAAACGC
1 CGCTAAAGAACATGACCTTTAG-CGCGCTTTTATCACAAACGC
* ** ** ** *
8421479 TGCTAAAGGTCATGGTCTAGAGCGACGCTTTTGTCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCG-CGCTTTTATCACAAACGC
* **
8421522 CGCTAAAGAACATAACCTTTAGCGACGCTTTTGGCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCG-CGCTTTTATCACAAACGC
*
8421565 CGCTAAAGAACATGACCTTTAGTGGCGCTTTTATCACAA
1 CGCTAAAGAACATGACCTTTAG-CGCGCTTTTATCACAA
8421604 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 136 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
CGCTAAAGAACATGACCTTTAGCGCGCTTTTATCACAAACGC
Found at i:8421594 original size:86 final size:86
Alignment explanation
Indices: 8421393--8421603 Score: 233
Period size: 86 Copynumber: 2.5 Consensus size: 86
8421383 GAAAAAATGT
* * * ** *
8421393 CGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCACAAACGCTGCTAAAGGCCATGACCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATAACCTTTAG
* **
8421458 TGGTGCTTTTAACACAAACGC
66 CGACGCTTTTAACACAAACGC
* ** ** ** * *
8421479 TGCTAAAGGTCATGGTCTAGAGCGACGCTTTTGTCACAAACGCCGCTAAAGAACATAACCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATAACCTTTAG
**
8421544 CGACGCTTTTGGCACAAACGC
66 CGACGCTTTTAACACAAACGC
*
8421565 CGCTAAAGAACATGACCTTTAGTGGCGCTTTTATCACAA
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAA
8421604 NNNNNNNNNN
Statistics
Matches: 96, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
86 96 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (86 bp):
CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATAACCTTTAG
CGACGCTTTTAACACAAACGC
Found at i:8425614 original size:60 final size:60
Alignment explanation
Indices: 8425521--8425641 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
8425511 TCAGCTGGAC
8425521 AAAGAAACACCGTCCATGAAATTACAATAATAATTACAATCAATGCATTCGACTATAGAT
1 AAAGAAACACCGTCCATGAAATTACAATAATAATTACAATCAATGCATTCGACTATAGAT
*
8425581 AAAGAAACACCGTCCATGAAATTAGAATAATAATTACAATCAATGCATTCGACTATAGAT
1 AAAGAAACACCGTCCATGAAATTACAATAATAATTACAATCAATGCATTCGACTATAGAT
8425641 A
1 A
8425642 CAAACGTGAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (60 bp):
AAAGAAACACCGTCCATGAAATTACAATAATAATTACAATCAATGCATTCGACTATAGAT
Found at i:8430446 original size:7 final size:7
Alignment explanation
Indices: 8430438--8430488 Score: 66
Period size: 7 Copynumber: 7.1 Consensus size: 7
8430428 AACCCTTAAA
*
8430438 CCATAAA
1 CCATAAT
8430445 CCATAAT
1 CCATAAT
8430452 CCATAAT
1 CCATAAT
8430459 CCATAAT
1 CCATAAT
8430466 CCATAAT
1 CCATAAT
* *
8430473 CCCTAAA
1 CCATAAT
8430480 CACATAAT
1 C-CATAAT
8430488 C
1 C
8430489 ACTAAACCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
7 33 0.87
8 5 0.13
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (7 bp):
CCATAAT
Found at i:8430487 original size:15 final size:14
Alignment explanation
Indices: 8430434--8430496 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
8430424 CCCCAACCCT
* *
8430434 TAAACCATAAACCA
1 TAAACCATAATCCC
* *
8430448 TAATCCATAATCCA
1 TAAACCATAATCCC
*
8430462 TAATCCATAATCCC
1 TAAACCATAATCCC
*
8430476 TAAACACATAATCAC
1 TAAAC-CATAATCCC
8430491 TAAACC
1 TAAACC
8430497 TTAAAATAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
14 30 0.70
15 13 0.30
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:8430550 original size:14 final size:14
Alignment explanation
Indices: 8430513--8430544 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8430503 TAGTAACTCT
*
8430513 TAAATCTTAAACCC
1 TAAATCATAAACCC
8430527 TAAATCATAAACCC
1 TAAATCATAAACCC
8430541 TAAA
1 TAAA
8430545 CTATAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAATCATAAACCC
Found at i:8430626 original size:15 final size:14
Alignment explanation
Indices: 8430597--8430638 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
8430587 AACCCTTAAG
8430597 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
8430611 CCATAATCCTTAAAT
1 CCATAATCCCT-AAT
*
8430626 CCATACTCCCTAA
1 CCATAATCCCTAA
8430639 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:8430639 original size:15 final size:15
Alignment explanation
Indices: 8430597--8430639 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
8430587 AACCCTTAAG
8430597 CCATAATCCCT-AAT
1 CCATAATCCCTAAAT
*
8430611 CCATAATCCTTAAAT
1 CCATAATCCCTAAAT
*
8430626 CCATACTCCCTAAA
1 CCATAATCCCTAAA
8430640 CCTTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (15 bp):
CCATAATCCCTAAAT
Found at i:8431869 original size:15 final size:14
Alignment explanation
Indices: 8431851--8431883 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
8431841 CCCATAATGT
8431851 CTAACCCCTAAGCCC
1 CTAACCCCTAA-CCC
8431866 CTAACCCCTAACCC
1 CTAACCCCTAACCC
8431880 CTAA
1 CTAA
8431884 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.30, C:0.52, G:0.03, T:0.15
Consensus pattern (14 bp):
CTAACCCCTAACCC
Found at i:8431886 original size:8 final size:7
Alignment explanation
Indices: 8431851--8431883 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
8431841 CCCATAATGT
8431851 CTAACCC
1 CTAACCC
8431858 CTAAGCCC
1 CTAA-CCC
8431866 CTAACCC
1 CTAACCC
8431873 CTAACCC
1 CTAACCC
8431880 CTAA
1 CTAA
8431884 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.30, C:0.52, G:0.03, T:0.15
Consensus pattern (7 bp):
CTAACCC
Found at i:8431886 original size:15 final size:15
Alignment explanation
Indices: 8431851--8431907 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
8431841 CCCATAATGT
*
8431851 CTAACCCCTAAGCCC
1 CTAACCCCTAAACCC
8431866 CTAACCCCT-AACCC
1 CTAACCCCTAAACCC
* * *
8431880 CTAAACCTTAAATCC
1 CTAACCCCTAAACCC
*
8431895 C-AACCCTTAAACC
1 CTAACCCCTAAACC
8431908 ATAATCCCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
14 21 0.60
15 14 0.40
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:8431905 original size:21 final size:20
Alignment explanation
Indices: 8431875--8431915 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8431865 CCTAACCCCT
*
8431875 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
8431896 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
8431916 TGATACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:8431963 original size:317 final size:312
Alignment explanation
Indices: 8431390--8432021 Score: 881
Period size: 317 Copynumber: 2.0 Consensus size: 312
8431380 TCAATATATT
* *
8431390 AAATTTATTATTATCTCTTTTATAATTATATAAGAACATATTTAAAATATAAATTAAAAACCTAA
1 AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTAA
** *
8431455 TTAATCTAAACCCAAAACCCTAACCCAACCCCTAGGGCCTAAACTCTAAATCCTTAACTCTTAAC
66 TTAATCTAAACCCAAAACCCTAACCCAACCCCTAAAGCCTAAACTCTAAATCCCTAACTCTTAAC
* * *
8431520 CTCAAAATGTCTAACCCCTAAACCCTTAACCCCTAATTAACCTCTAAACCTTAAATCCCAACCCT
131 CCCAAAATGTCTAACCCCTAAACCCCTAACCCC--A-TAACCCCTAAACCTTAAATCCCAACCCT
** * *
8431585 TAAATTATACTCCCCAATCCATAATCCCTAAATCCAAACTCCATAAACCTTAAAATAGTAACTCC
193 TAAACCATAATCCCCAATACATAATCCCTAAATCCAAACTCCATAAACCTTAAAATAGTAACTCC
** *
8431650 TAAACCGGCCTTAAATTTTAAATTAATCATATACCCTAAACTAAAAACCCTAAAC
258 TAAACCGGCCTTAAATCGTAAATTAATCATATACCCTAAACCAAAAACCCTAAAC
*
8431705 AAATTTATTGTTATCTCTTTTACAATTGTATATATAAGAACATATTTAAAATATAAATTAAAAAA
1 AAATTTATTATTATCTCTTTTACAA---T-TATATAAGAACATATTTAAAATATAAATT-AAAAA
** * *
8431770 ACTAATTAATCTAAACCCAAAACCCTAACCTGACCCCTAAATCCTTAAAC-CTTAAATCCCTACC
61 ACTAATTAATCTAAACCCAAAACCCTAACCCAACCCCTAAAGCC-TAAACTC-TAAATCCCTAAC
* *
8431834 TCTTAACCCCATAATGTCTAACCCCTAAGCCCCTAACCCC-TAACCCCTAAACCTTAAATCCCAA
124 TCTTAACCCCAAAATGTCTAACCCCTAAACCCCTAACCCCATAACCCCTAAACCTTAAATCCCAA
** * * * * *
8431898 CCCTTAAACCATAATCCCTGATACATAATCCTTAAATCCATACTCCCTCAACCTTCAAATAGTAA
189 CCCTTAAACCATAATCCCCAATACATAATCCCTAAATCCAAACTCCATAAACCTTAAAATAGTAA
* *
8431963 CTCCTAAACTGGCCTTAAATCGTAAATTAATCATATACTCTAAACCAAAAACCCTAAAC
254 CTCCTAAACCGGCCTTAAATCGTAAATTAATCATATACCCTAAACCAAAAACCCTAAAC
8432022 TATAGTGATA
Statistics
Matches: 279, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
315 23 0.08
317 131 0.47
318 1 0.00
319 29 0.10
320 44 0.16
321 51 0.18
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.28
Consensus pattern (312 bp):
AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTAA
TTAATCTAAACCCAAAACCCTAACCCAACCCCTAAAGCCTAAACTCTAAATCCCTAACTCTTAAC
CCCAAAATGTCTAACCCCTAAACCCCTAACCCCATAACCCCTAAACCTTAAATCCCAACCCTTAA
ACCATAATCCCCAATACATAATCCCTAAATCCAAACTCCATAAACCTTAAAATAGTAACTCCTAA
ACCGGCCTTAAATCGTAAATTAATCATATACCCTAAACCAAAAACCCTAAAC
Found at i:8432408 original size:41 final size:41
Alignment explanation
Indices: 8432294--8432413 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
8432284 TAAAATGTTT
* *
8432294 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCA
* * *
8432335 TTAGCGGCGCTTTTGCAAAAAAGCCACTAAAGCCCCGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCA
* *
8432376 TTAGCGGTGCTTTTCCAAAAACGCTGCTAAAGCCCCGA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGA
8432414 AAGGTCAGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCA
Found at i:8433207 original size:19 final size:19
Alignment explanation
Indices: 8433183--8433223 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8433173 ACTTATTAAT
* *
8433183 TAAAATTAAAAATTAAAAA
1 TAAAATAAAAAAGTAAAAA
*
8433202 TAAAATAAAAAAGTGAAAA
1 TAAAATAAAAAAGTAAAAA
8433221 TAA
1 TAA
8433224 CATGTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
TAAAATAAAAAAGTAAAAA
Found at i:8433278 original size:19 final size:19
Alignment explanation
Indices: 8433254--8433291 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8433244 ATAATAAATT
*
8433254 CATTAAAAAAATGAAACAA
1 CATTAAAAAAATAAAACAA
*
8433273 CATTAAATAAATAAAACAA
1 CATTAAAAAAATAAAACAA
8433292 ATGTACTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.18
Consensus pattern (19 bp):
CATTAAAAAAATAAAACAA
Found at i:8433438 original size:59 final size:60
Alignment explanation
Indices: 8433365--8433526 Score: 191
Period size: 59 Copynumber: 2.7 Consensus size: 60
8433355 TTAATATAAT
* * * *
8433365 ATTTGGTATCTAAACTTGACACTTTCTCTTAATTTGATACCTAAACTTTTTT-TGGTCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTAAGGTCCA
* * * * ***
8433424 ATTTGGTACCTAAACTTGACACTTTTTATTAAGTTGGTACTTAATCTTTTTTAAGGTTTG
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTAAGGTCCA
* * *
8433484 ATTTGGTACCTAAACATGACTCTTTTTCCTAATTTGGTACCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTA
8433527 TTTTTTTTGT
Statistics
Matches: 85, Mismatches: 17, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
59 45 0.53
60 40 0.47
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (60 bp):
ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTAAGGTCCA
Found at i:8439481 original size:17 final size:17
Alignment explanation
Indices: 8439459--8439496 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8439449 TTCTATCTGC
**
8439459 AAAATTTAAATTTAAAA
1 AAAATTTAAAGGTAAAA
8439476 AAAATTTAAAGGTAAAA
1 AAAATTTAAAGGTAAAA
8439493 AAAA
1 AAAA
8439497 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAATTTAAAGGTAAAA
Found at i:8441181 original size:73 final size:72
Alignment explanation
Indices: 8441057--8441198 Score: 230
Period size: 73 Copynumber: 2.0 Consensus size: 72
8441047 TCGGGTTTAG
* * *
8441057 AAAAGGGATCATGCCTAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCATTTAAAAAC
1 AAAAAGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCATTT-AAAAC
8441122 TTGAGGAA
65 TTGAGGAA
* *
8441130 AAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACT
1 AAAAAGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAAACT
8441195 TGAG
66 TGAG
8441199 TTTAAAAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 10 0.16
73 54 0.84
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (72 bp):
AAAAAGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAAACT
TGAGGAA
Found at i:8441596 original size:20 final size:20
Alignment explanation
Indices: 8441573--8441615 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8441563 ATGTAAAAGG
8441573 ATATATATGCATGTATATAT
1 ATATATATGCATGTATATAT
* *
8441593 ATATATATGTATGTATGTAT
1 ATATATATGCATGTATATAT
8441613 ATA
1 ATA
8441616 AAAATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (20 bp):
ATATATATGCATGTATATAT
Found at i:8441602 original size:16 final size:16
Alignment explanation
Indices: 8441573--8441615 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
8441563 ATGTAAAAGG
**
8441573 ATATATATGCATGTAT
1 ATATATATATATGTAT
8441589 ATATATATATATGTAT
1 ATATATATATATGTAT
* *
8441605 GTATGTATATA
1 ATATATATATA
8441616 AAAATTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (16 bp):
ATATATATATATGTAT
Found at i:8441648 original size:39 final size:39
Alignment explanation
Indices: 8441595--8441723 Score: 114
Period size: 39 Copynumber: 3.1 Consensus size: 39
8441585 GTATATATAT
* * *
8441595 ATATATGTATGTATGTATATAAAAATTATAAAATATAAA
1 ATATATATAAGTATGTATATAAATATTATAAAATATAAA
* * *
8441634 ATATATATAAGTATGTATTTATATATTCATGAAAATAAAAA
1 ATATATATAAGTATGTATATAAATATT-AT-AAAATATAAA
* * *
8441675 ATATGTATATAGATATATATATAGATATGTATATAAATTATAAA
1 ATATATATA-AG-TATGTATATAAATAT-TATA-AAA-TATAAA
8441719 ATATA
1 ATATA
8441724 AGAAAAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
39 22 0.31
40 2 0.03
41 17 0.24
42 3 0.04
43 17 0.24
44 10 0.14
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.40
Consensus pattern (39 bp):
ATATATATAAGTATGTATATAAATATTATAAAATATAAA
Found at i:8441695 original size:12 final size:12
Alignment explanation
Indices: 8441675--8441709 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
8441665 AAAATAAAAA
8441675 ATATGTATATAG
1 ATATGTATATAG
*
8441687 ATATATATATAG
1 ATATGTATATAG
8441699 ATATGTATATA
1 ATATGTATATA
8441710 AATTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (12 bp):
ATATGTATATAG
Found at i:8443350 original size:44 final size:44
Alignment explanation
Indices: 8443300--8443614 Score: 161
Period size: 44 Copynumber: 7.1 Consensus size: 44
8443290 ACGACTTAGG
* * *
8443300 GAGATAATGTTTGCTACTTCAACCTACTCTACTGCAACTTCAGA
1 GAGATAAAGTTTGCTACTTTAACCTGCTCTACTGCAACTTCAGA
* * * * *
8443344 GAGATAAAGTTTG--A-TATGATCTGCTCTACTGTAACTTTAGA
1 GAGATAAAGTTTGCTACTTTAACCTGCTCTACTGCAACTTCAGA
* * *
8443385 GAGATGAGATCTGTTAT-CTATAGCTTTAATCC-GTTCCACTGCAACTTCA-A
1 GAGAT-A-A--AGTT-TGC--TA-CTTTAA-CCTGCTCTACTGCAACTTCAGA
* * * * *
8443435 G-GAAATAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGG
1 GAGATA-AAG-TTTGCTA-CTTTAACCTGCTCTACTGCAACTTCAGA
* * * * *
8443481 GAGATAACA-CTTG-TATCTTCAACTTGCCCCACTGCAACTTCATG-
1 GAGATAA-AGTTTGCTA-CTTTAACCTGCTCTACTGCAACTTCA-GA
* * *
8443525 GGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGA
1 GAGATAAAGTTTGCTACTTTAACCTGCTCTACTGCAACTTCAGA
* * *
8443569 GAGATAAAGTTTG--A-TATGATCTGCTCTACTGCAACTTCAGA
1 GAGATAAAGTTTGCTACTTTAACCTGCTCTACTGCAACTTCAGA
8443610 GAGAT
1 GAGAT
8443615 GAGATCTGTT
Statistics
Matches: 201, Mismatches: 48, Indels: 47
0.68 0.16 0.16
Matches are distributed among these distances:
41 53 0.26
42 3 0.01
43 2 0.01
44 77 0.38
45 30 0.15
46 5 0.02
47 7 0.03
48 2 0.01
49 3 0.01
50 2 0.01
51 16 0.08
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
GAGATAAAGTTTGCTACTTTAACCTGCTCTACTGCAACTTCAGA
Found at i:8443561 original size:225 final size:224
Alignment explanation
Indices: 8443273--8443691 Score: 678
Period size: 225 Copynumber: 1.9 Consensus size: 224
8443263 AGGCTCGTTG
* * * *
8443273 CTTCAACTTGCTCCACTACGACTTAGGGAGATAATGTTTGCTACTTCAACCTACTCTACTGCAAC
1 CTTCAACTTGCCCCACTACAACTTAGGGAGATAAGGTTTGCTACTTCAACATACTCTACTGCAAC
* *
8443338 TTCAGAGAGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATC
66 TTCAGAGAGATAAAGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTTATC
8443403 TATAGCTTTAATCCGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTTAATCTACTTTA
131 TATAGCTTTAATCCGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTTAATCTACTTTA
8443468 CTGCAACTTCAGGGAGATAACACTTGTAT
196 CTGCAACTTCAGGGAGATAACACTTGTAT
* * *
8443497 CTTCAACTTGCCCCACTGCAACTTCATGGG-GATAAGGTTTGCTACTTTAACATGCTCTACTGCA
1 CTTCAACTTGCCCCACTACAACTT-A-GGGAGATAAGGTTTGCTACTTCAACATACTCTACTGCA
8443561 ACTTCAGAGAGATAAAGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTTA
64 ACTTCAGAGAGATAAAGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTTA
* * * * * *
8443626 TTTATAGCTTTAATCTGTTCCACTGCAATTTTAGGGAAATAAGATTTGCTATCTTTAATCTGCTT
129 TCTATAGCTTTAATCCGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTTAATCTACTT
8443691 T
194 T
8443692 GCTGTAAACT
Statistics
Matches: 178, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
224 21 0.12
225 154 0.87
226 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (224 bp):
CTTCAACTTGCCCCACTACAACTTAGGGAGATAAGGTTTGCTACTTCAACATACTCTACTGCAAC
TTCAGAGAGATAAAGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTTATC
TATAGCTTTAATCCGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTTAATCTACTTTA
CTGCAACTTCAGGGAGATAACACTTGTAT
Found at i:8443876 original size:89 final size:89
Alignment explanation
Indices: 8443703--8444293 Score: 616
Period size: 89 Copynumber: 6.6 Consensus size: 89
8443693 CTGTAAACTA
* * * * * *
8443703 TGGTGTCTTCGATCTGCTTTGCTGTTAATACAAGAAGGCAAGATCTGCTATCTTTAGTTTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * * *
8443768 GCT-ACA-AACCCAGGGAGGCAAGAC
66 ACTGTCAGTA--CAGGAAGGCAAGGC
* * ** * * * * *
8443792 TGGTGTCTTCGATCTTCTTCGCAATCAGTACAAGAAGGCAATATCTGTTATCTTCAATCTACTTC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
8443857 ACTGTCATTACAGGAAGGCAAGGC
66 ACTGTCAGTACAGGAAGGCAAGGC
8443881 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
8443946 GCTG-CA-AACCTAGGGAGGCAAGGC
66 ACTGTCAGTA-C-AGGAAGGCAAGGC
* * * * * *
8443970 TGGTGTCTTCGATCTGCTTCGTTGTCAGTAC-AGAAAGGCAATATTTGTTATCTTCAGTCTGCTT
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAG-AAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
8444034 CACTGTTAGTACAGGAAGGCAAGGC
65 CACTGTCAGTACAGGAAGGCAAGGC
* * * *
8444059 TGGTGCCTTCGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATTTACTATCTTTAGTCTGCTC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAA-GAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
8444124 CGCTGTCAGTACAGGAAGGCAAGGC
65 CACTGTCAGTACAGGAAGGCAAGGC
* * * * * * *
8444149 TAGTGCCTTCGATCTGCTTCGCTGTCAGTATAGGAAAGTAAGATTTGTTATCTTCAGTCTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
8444214 ACTGTCAGTACAGAAAGGTAAGGT
66 ACTGTCAGTACAGGAAGGCAAGGC
* * * * ** *
8444238 TGTTGTCTTCGATCTACTTCACTGTCAGTGTAGGAAGGCAAGATCTGCTATCTTCA
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCA
8444294 CTGATTTGTT
Statistics
Matches: 420, Mismatches: 73, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
87 1 0.00
88 5 0.01
89 329 0.78
90 82 0.20
91 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (89 bp):
TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
ACTGTCAGTACAGGAAGGCAAGGC
Found at i:8444010 original size:178 final size:177
Alignment explanation
Indices: 8443703--8444293 Score: 747
Period size: 178 Copynumber: 3.3 Consensus size: 177
8443693 CTGTAAACTA
* * * * * *
8443703 TGGTGTCTTCGATCTGCTTTGCTGTTAATACAAGAAGGCAAGATCTGCTATCTTTAGTTTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * **
8443768 GCTACAAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTTCTTCGCAATCAGTACA-AGAAGGCA
66 GCTGCAAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGA-AAGGCA
* * * *
8443832 ATATCTGTTATCTTCAATCTACTTCACTGTCATTACAGGAAGGCAAGGC
129 ATATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
8443881 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
8443946 GCTGCAAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGAAAGGCAA
66 GCTGCAAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAA
*
8444011 TATTTGTTATCTTCAGTCTGCTTCACTGTTAGTACAGGAAGGCAAGGC
130 TATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
* * * *
8444059 TGGTGCCTTCGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATTTACTATCTTTAGTCTGCTC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAA-GAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* * * * *
8444124 CGCTGTCAGTA-CAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCAGTATAGGAAA-G
65 CGCTG-CA-AACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACA-GAAAGG
* * * * * *
8444187 TAAGATTTGTTATCTTCAGTCTGCTCCACTGTCAGTACAGAAAGGTAAGGT
127 CAATATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
* * * * ** *
8444238 TGTTGTCTTCGATCTACTTCACTGTCAGTGTAGGAAGGCAAGATCTGCTATCTTCA
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCA
8444294 CTGATTTGTT
Statistics
Matches: 362, Mismatches: 45, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
177 2 0.01
178 208 0.57
179 144 0.40
180 7 0.02
181 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (177 bp):
TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGCAAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAT
ATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
Found at i:8444184 original size:44 final size:44
Alignment explanation
Indices: 8443778--8444279 Score: 323
Period size: 44 Copynumber: 11.3 Consensus size: 44
8443768 GCTACAAACC
* * * **
8443778 CAGGGAGGCAAGACTGGTGTCTTCGATCTTCTTCGCAATCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* ** * * * * * *
8443822 CAAGAAGGCAATATCTGTTATCTTCAATCTACTTCACTGTCATTA
1 CAGGAAGGCAA-GGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
*
8443867 CAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* * * * * *
8443911 CAAGAAGGCAAGATCTGCTATCTTC-AGTCTGCTCCGCTG-CA-AA
1 CAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* *
8443954 CCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTA
1 -C-AGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* *** * * * *
8444000 CAGAAAGGCAATATTTGTTATCTTC-AGTCTGCTTCACTGTTAGTA
1 CAGGAAGGCAA-GGCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* *
8444045 CAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTATCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
** ** * * *
8444089 CAAGGAAGGCAAGATTTACTATCTT-TAGTCTGCTCCGCTGTCAGTA
1 C-AGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* *
8444135 CAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* * * ** * * * *
8444179 TAGGAAAGTAAGATTTGTTATCTTC-AGTCTGCTCCACTGTCAGTA
1 CAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* * * * * * *
8444224 CAGAAAGGTAAGGTTGTTGTCTTCGATCTACTTCACTGTCAGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
*
8444268 TAGGAAGGCAAG
1 CAGGAAGGCAAG
8444280 ATCTGCTATC
Statistics
Matches: 345, Mismatches: 95, Indels: 36
0.72 0.20 0.08
Matches are distributed among these distances:
43 1 0.00
44 166 0.48
45 155 0.45
46 23 0.07
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
Found at i:8444247 original size:268 final size:267
Alignment explanation
Indices: 8443778--8444293 Score: 649
Period size: 268 Copynumber: 1.9 Consensus size: 267
8443768 GCTACAAACC
* * * * **
8443778 CAGGGAGGCAAGACTGGTGTCTTCGATCTTCTTCGCAATCAGTACAAGAAGGCAATATCTGTTAT
1 CAGGAAGGCAAGACTGGTGCCTTCGATCTGCTTCGCAATCAGTACAAGAAGGCAAGATCTACTAT
* * *
8443843 CTTCAATCTACTTCACTGTCATTACAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTGTCA
66 CTTCAATCTACTCCACTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCA
* * **
8443908 GTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACCTAGGGAGGCAAGGCTGG
131 GTACAAGAAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAAACCTAGAAAGGCAAGGCTGG
* ** * * *
8443973 TGTCTTCGATCTGCTTCGTTGTCAGTACAGAAAGGCAATATTTGTTATCTTCAGTCTGCTTCACT
196 TGTCTTCGATCTACTTCACTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTGCTTCACT
8444038 GTTAGTA
261 GTTAGTA
* * *
8444045 CAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATTTACTA
1 CAGGAAGGCAAGACTGGTGCCTTCGATCTGCTTCGCAATCAGTACAA-GAAGGCAAGATCTACTA
* * * *
8444110 TCTTTAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTC
65 TCTTCAATCTACTCCACTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTC
* * * * * * * *
8444175 AGTATAGGAAAGTAAGATTTGTTATCTTCAGTCTGCTCCACTGTCAGTA-C-AGAAAGGTAAGGT
130 AGTACAAGAAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTG-CA-AACCTAGAAAGGCAAGGC
* ** *
8444238 TGTTGTCTTCGATCTACTTCACTGTCAGTGTAGGAAGGCAAGATCTGCTATCTTCA
193 TGGTGTCTTCGATCTACTTCACTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCA
8444294 CTGATTTGTT
Statistics
Matches: 208, Mismatches: 38, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
267 42 0.20
268 162 0.78
269 3 0.01
270 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (267 bp):
CAGGAAGGCAAGACTGGTGCCTTCGATCTGCTTCGCAATCAGTACAAGAAGGCAAGATCTACTAT
CTTCAATCTACTCCACTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCA
GTACAAGAAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAAACCTAGAAAGGCAAGGCTGG
TGTCTTCGATCTACTTCACTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTGCTTCACT
GTTAGTA
Found at i:8445755 original size:25 final size:25
Alignment explanation
Indices: 8445721--8445775 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
8445711 TACCAGGTCC
8445721 CCTTCATGGAATTCTCTAGGGCGAA
1 CCTTCATGGAATTCTCTAGGGCGAA
8445746 CCTTCATGGAATTCTCTAGGGCGAA
1 CCTTCATGGAATTCTCTAGGGCGAA
8445771 CCTTC
1 CCTTC
8445776 TTTGGTGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (25 bp):
CCTTCATGGAATTCTCTAGGGCGAA
Found at i:8451079 original size:27 final size:27
Alignment explanation
Indices: 8451048--8451102 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
8451038 TTTGTTGATG
*
8451048 TAAGATTTTAAAATTAAAAAGGAATAC
1 TAAGATTTTAAAATTAAAAAAGAATAC
8451075 TAAGATTTTAAAATTAAAAAAGAATAC
1 TAAGATTTTAAAATTAAAAAAGAATAC
8451102 T
1 T
8451103 CATTTAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (27 bp):
TAAGATTTTAAAATTAAAAAAGAATAC
Found at i:8451878 original size:11 final size:11
Alignment explanation
Indices: 8451862--8451948 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
8451852 ATTAATCATT
8451862 TCTCAATTTCC
1 TCTCAATTTCC
* *
8451873 TCTCAAATTAC
1 TCTCAATTTCC
8451884 TCTCAATTTCC
1 TCTCAATTTCC
8451895 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
8451906 TCTCAA-ATCC
1 TCTCAATTTCC
* **
8451916 -AT--ATTTAA
1 TCTCAATTTCC
*
8451924 TCTCAATTTGC
1 TCTCAATTTCC
8451935 TCTCAATTTCC
1 TCTCAATTTCC
8451946 TCT
1 TCT
8451949 TAAATTTCTC
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 4 0.07
11 40 0.73
12 6 0.11
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:8451887 original size:22 final size:22
Alignment explanation
Indices: 8451862--8451911 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
8451852 ATTAATCATT
8451862 TCTCAATTTCC-TCTCAAATTAC
1 TCTCAATTTCCTTC-CAAATTAC
*
8451884 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTAC
8451906 TCTCAA
1 TCTCAA
8451912 ATCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTAC
Found at i:8456857 original size:142 final size:141
Alignment explanation
Indices: 8456694--8456976 Score: 539
Period size: 142 Copynumber: 2.0 Consensus size: 141
8456684 AATCTGAGAA
8456694 CATTTTTTTCCTCATTTATAGCCTCAGCCCAAACATGCTACTGTAGCAAAAGCGCATCCATGTGG
1 CATTTTTTTCCTCATTTATAGCCTCAGCCCAAACATGCTACTGTAGCAAAAGCGCATCCATGTGG
*
8456759 GAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCTCA
66 GAGCGATTTCAAAAATTCTTCTGATAAAGCATACTGCTTGAAGCG-TTTTTATACTATTTGCTCA
8456824 GAAACGTCAACT
130 GAAACGTCAACT
8456836 CATTTTTTTCCTCATTTATAGCCTCAGCCCAAACATGCTACTGTAGCAAAAGCGCATCCATGTGG
1 CATTTTTTTCCTCATTTATAGCCTCAGCCCAAACATGCTACTGTAGCAAAAGCGCATCCATGTGG
8456901 GAGCGATTTCAAAAATTCTTCTGATAAAGCATACTGCTTGAAGCGTTTTTATACTATTTGCTCAG
66 GAGCGATTTCAAAAATTCTTCTGATAAAGCATACTGCTTGAAGCGTTTTTATACTATTTGCTCAG
*
8456966 AAATGTCAACT
131 AAACGTCAACT
8456977 TGAAATTATT
Statistics
Matches: 139, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
141 30 0.22
142 109 0.78
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (141 bp):
CATTTTTTTCCTCATTTATAGCCTCAGCCCAAACATGCTACTGTAGCAAAAGCGCATCCATGTGG
GAGCGATTTCAAAAATTCTTCTGATAAAGCATACTGCTTGAAGCGTTTTTATACTATTTGCTCAG
AAACGTCAACT
Found at i:8457121 original size:124 final size:124
Alignment explanation
Indices: 8456873--8457158 Score: 439
Period size: 124 Copynumber: 2.3 Consensus size: 124
8456863 CCCAAACATG
* * *
8456873 CTACTGTAGCAAAAGCGCATCCATGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATACTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATACTGC
* * * *
8456938 TTGAAGCGTTTTTATACTATTTGCTCAGAAATGTCAACTTGAAATTATTTTTTCAGGAC
66 TTAAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTATTTCAGGAC
* * *
8456997 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTTATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATACTGC
*
8457062 TTAAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TATTTCTGGAC
66 TTAAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTATTTCAGGAC
* *
8457121 CTACTGTATCAAAAACGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
8457159 CTTAATAAAT
Statistics
Matches: 148, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
124 111 0.75
125 37 0.25
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATACTGC
TTAAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTATTTCAGGAC
Found at i:8457543 original size:14 final size:14
Alignment explanation
Indices: 8457524--8457551 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8457514 CCCCTGACAT
8457524 CGCGCTGACGTGGA
1 CGCGCTGACGTGGA
8457538 CGCGCTGACGTGGA
1 CGCGCTGACGTGGA
8457552 AAAGGGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.43, T:0.14
Consensus pattern (14 bp):
CGCGCTGACGTGGA
Found at i:8457883 original size:19 final size:19
Alignment explanation
Indices: 8457828--8457883 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
8457818 TTTATTAAAT
*
8457828 AAAATTAATATAAACTTCTA
1 AAAATTAATA-AAACTTATA
8457848 AAAATT-ATAAATA-TTATA
1 AAAATTAATAAA-ACTTATA
8457866 AAAATTAATAAAACTTAT
1 AAAATTAATAAAACTTAT
8457884 TTAAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.41
19 13 0.41
20 6 0.19
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTAATAAAACTTATA
Found at i:8458450 original size:43 final size:43
Alignment explanation
Indices: 8458394--8458515 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
8458384 ATTATATAAA
* * *
8458394 AAAGAACCATGATCTTTAACGGAGTTTGTGGAAAAAGCGCCGCT
1 AAAGAA-CATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCACT
* *
8458438 AAAGAACATGATCTTTAGTGGCGTTTGTTGAAAAAGCGCCACT
1 AAAGAACATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCACT
*
8458481 AAAGAACATGACCTTTAGCGGCGTTTGTAGGAAAA
1 AAAGAACATGATCTTTAGCGGCGTTTGT-GGAAAA
8458516 CGCTGCTAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 58 0.84
44 11 0.16
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGAACATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCACT
Found at i:8459142 original size:9 final size:10
Alignment explanation
Indices: 8459119--8459181 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
8459109 AGAAGTTAGA
8459119 AAAAAATTAT
1 AAAAAATTAT
*
8459129 AAAAAATTGT
1 AAAAAATTAT
8459139 AAAAAATTAT
1 AAAAAATTAT
*
8459149 AAAATA-TAT
1 AAAAAATTAT
*
8459158 -AGAAA-TAT
1 AAAAAATTAT
*
8459166 AGAAAAAATAT
1 A-AAAAATTAT
8459177 AAAAA
1 AAAAA
8459182 TTTTATAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 6 0.14
9 3 0.07
10 31 0.70
11 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:8459152 original size:28 final size:28
Alignment explanation
Indices: 8459121--8459180 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
8459111 AAGTTAGAAA
*
8459121 AAAAT-TATA-AAAAATTGTAAAAAATTAT
1 AAAATATATAGAAAAATAG-AAAAAA-TAT
*
8459149 AAAATATATAGAAATATAGAAAAAATAT
1 AAAATATATAGAAAAATAGAAAAAATAT
8459177 AAAA
1 AAAA
8459181 ATTTTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.43
29 10 0.36
30 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAATATATAGAAAAATAGAAAAAATAT
Found at i:8459409 original size:18 final size:19
Alignment explanation
Indices: 8459379--8459434 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
8459369 CCGTTAATTT
*
8459379 TTTTATGATTTTTATAAAA
1 TTTTACGATTTTTATAAAA
* * **
8459398 TTTTAC-ATTTTTTTTATT
1 TTTTACGATTTTTATAAAA
8459416 TTTTACGATTTTTATAAAA
1 TTTTACGATTTTTATAAAA
8459435 AATCTAATTT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTACGATTTTTATAAAA
Found at i:8459688 original size:4 final size:4
Alignment explanation
Indices: 8459671--8459708 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
8459661 GTTAATGAAT
*
8459671 AACA AACA AGCA AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AACA AACA AACA AA
8459709 TAATAAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.74, C:0.24, G:0.03, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:8460380 original size:6 final size:7
Alignment explanation
Indices: 8460359--8460384 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8460349 CAGTTCAATT
8460359 AAATAAA
1 AAATAAA
8460366 AAATAAA
1 AAATAAA
8460373 AAATAAA
1 AAATAAA
8460380 AAATA
1 AAATA
8460385 TTAAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:8460586 original size:9 final size:9
Alignment explanation
Indices: 8460515--8460584 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
8460505 TTTTATGATT
8460515 TTTTTATAA
1 TTTTTATAA
8460524 TTTTTATAA
1 TTTTTATAA
*
8460533 GTTTATATCAA
1 -TTTTTAT-AA
* *
8460544 TTTTAATAC
1 TTTTTATAA
* * **
8460553 TTCTAATTT
1 TTTTTATAA
8460562 TTTTTATAA
1 TTTTTATAA
8460571 TTTTTATGAA
1 TTTTTAT-AA
8460581 TTTT
1 TTTT
8460585 ATAGAGTTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
9 28 0.60
10 17 0.36
11 2 0.04
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:8465043 original size:19 final size:19
Alignment explanation
Indices: 8465002--8465049 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8464992 GTTCTATATG
* *
8465002 GTATCGATACCCCTGCTTG
1 GTATCGATACCCCTGCCTA
*
8465021 GTATCGATACCCTTGCCTA
1 GTATCGATACCCCTGCCTA
*
8465040 GTATCAATAC
1 GTATCGATAC
8465050 TTGATCCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (19 bp):
GTATCGATACCCCTGCCTA
Found at i:8468644 original size:4 final size:4
Alignment explanation
Indices: 8468635--8468664 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
8468625 TTTTGGCCGT
8468635 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
8468665 CATCCCTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:8473512 original size:45 final size:45
Alignment explanation
Indices: 8473447--8473577 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
8473437 GCTATACGCC
*
8473447 TAAAAATGAGTAAGATCATAGCTGAAAGATGTTATGACATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* *
8473492 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCGTCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* * * * *
8473537 TAAAAATGAATAAGACCATAGCTAAAAAACGTTATGCCATC
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATC
8473578 TTTTGATAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.24
Consensus pattern (45 bp):
TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
Found at i:8480836 original size:21 final size:21
Alignment explanation
Indices: 8480794--8480836 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
8480784 TATAAATATT
8480794 TTTAACTCAAATACATAAAAA
1 TTTAACTCAAATACATAAAAA
8480815 TTTAA-TCACAAT-CATAACAAA
1 TTTAACTCA-AATACATAA-AAA
8480836 T
1 T
8480837 CAACTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTAACTCAAATACATAAAAA
Found at i:8484195 original size:35 final size:35
Alignment explanation
Indices: 8484138--8484396 Score: 333
Period size: 35 Copynumber: 7.4 Consensus size: 35
8484128 CATCGTCAAC
* *
8484138 CCAACC-ATAACACGCCAATGCTCATAAGAGCTAAT
1 CCAACCGA-AACACGCCAGTGCTCATAAGAGCTAGT
* * *
8484173 TCAATCGAAACACGCCAGTGCTCATAAGAGTTAGT
1 CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
*
8484208 CCAACCGAAACACGCCAGTGCTCATAAGAGTTAGT
1 CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
*
8484243 CCAACCGAAACACGCCAGTGCTCATAAGAGTTAGT
1 CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
8484278 CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
1 CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
* * * *
8484313 CCAACCGTAACA-GAGCAATGCTCATAAGAGCTAAT
1 CCAACCGAAACACG-CCAGTGCTCATAAGAGCTAGT
* * * *
8484348 CCAATCGTAACACGCCAATGCTCATAAGAGCTAAT
1 CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
* *
8484383 CTAACTGAAACACG
1 CCAACCGAAACACG
8484397 TCAAACAGAG
Statistics
Matches: 203, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
34 1 0.00
35 200 0.99
36 2 0.01
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (35 bp):
CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
Found at i:8491079 original size:69 final size:69
Alignment explanation
Indices: 8490968--8491108 Score: 219
Period size: 69 Copynumber: 2.0 Consensus size: 69
8490958 GATTTTTCAA
* * * *
8490968 AATCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTGTATCTCGTGAT
1 AATCAGAACAAGAGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGAT
8491033 TTAC
66 TTAC
* * *
8491037 AATCAGAACAAGAGAACCTGAATTCATTCTGATCTTGTCTCACAAAATTTATTATATCTCATGAT
1 AATCAGAACAAGAGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGAT
8491102 TTAC
66 TTAC
8491106 AAT
1 AAT
8491109 TCCATTACTT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (69 bp):
AATCAGAACAAGAGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGAT
TTAC
Found at i:8493158 original size:36 final size:37
Alignment explanation
Indices: 8493109--8493188 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
8493099 AGTACACAAG
** *
8493109 TAATCCACACG-AAACACGTCAAACGCTCATAAGAGC
1 TAATCCACACGAAAACACACCAAACGCTCAGAAGAGC
* *
8493145 TAATCCA-ATCGAAAACACACCAAATGCTCCGAAGAGC
1 TAATCCACA-CGAAAACACACCAAACGCTCAGAAGAGC
8493182 TAATCCA
1 TAATCCA
8493189 TCTATAAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.03
36 9 0.24
37 27 0.73
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.15
Consensus pattern (37 bp):
TAATCCACACGAAAACACACCAAACGCTCAGAAGAGC
Found at i:8493180 original size:37 final size:37
Alignment explanation
Indices: 8493139--8493242 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
8493129 AAACGCTCAT
8493139 AAGAGCTAATCCAATCGAAAACACACCAAATGCTCCG
1 AAGAGCTAATCCAATCGAAAACACACCAAATGCTCCG
* * *
8493176 AAGAGCTAATCC-ATCTATAAACACGCCAGATGCTCCG
1 AAGAGCTAATCCAATCGA-AAACACACCAAATGCTCCG
* *
8493213 AAGAGCTAAT-TAATTCGTAAACACACCAAA
1 AAGAGCTAATCCAA-TCGAAAACACACCAAA
8493243 ACAGGGAGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
36 4 0.07
37 50 0.89
38 2 0.04
ACGTcount: A:0.42, C:0.27, G:0.13, T:0.17
Consensus pattern (37 bp):
AAGAGCTAATCCAATCGAAAACACACCAAATGCTCCG
Found at i:8496865 original size:30 final size:30
Alignment explanation
Indices: 8496808--8496865 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
8496798 AACAAACTTC
* **
8496808 TGTTCATGTTCATTTATTTATTTTTAAGCT
1 TGTTCATGTTCATTTATGTATCATTAAGCT
8496838 TGTTCATGTTCAGTTTATGT-TCATTAAG
1 TGTTCATGTTCA-TTTATGTATCATTAAG
8496866 AATTTCAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (30 bp):
TGTTCATGTTCATTTATGTATCATTAAGCT
Found at i:8497681 original size:13 final size:13
Alignment explanation
Indices: 8497634--8497685 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
8497624 TTTAATATTA
8497634 AAATATTTTAAAAT
1 AAAT-TTTTAAAAT
** *
8497648 ACTTTTTTAAAAA
1 AAATTTTTAAAAT
8497661 AAGTATTTTTAAAAT
1 AA--ATTTTTAAAAT
8497676 AAATTTTTAA
1 AAATTTTTAA
8497686 TGTTTTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 17 0.57
14 2 0.07
15 11 0.37
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
AAATTTTTAAAAT
Found at i:8502117 original size:2 final size:2
Alignment explanation
Indices: 8502110--8502137 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8502100 CAACCGTTAC
8502110 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
8502138 GTAACGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8502665 original size:22 final size:22
Alignment explanation
Indices: 8502639--8502681 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8502629 AAAAAGGGAA
*
8502639 AAATATGGTTCCATTTTTTTAT
1 AAATATGGTTCCATTCTTTTAT
8502661 AAATATGGTTCCATTCTTTTA
1 AAATATGGTTCCATTCTTTTA
8502682 CTTTACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (22 bp):
AAATATGGTTCCATTCTTTTAT
Found at i:8505100 original size:37 final size:37
Alignment explanation
Indices: 8505059--8505149 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
8505049 CAAACAACAT
* * *
8505059 TAATATCAAGAAAATAACCCTTTGAATCAATCTTAAA
1 TAATATCAAGAAAACAAACCTTTGAATCAATCTCAAA
* *
8505096 TAATATTAAGAAAACAAACTTTTGAATCAATCTCAAA
1 TAATATCAAGAAAACAAACCTTTGAATCAATCTCAAA
8505133 TAATATCAAGAAAACAA
1 TAATATCAAGAAAACAA
8505150 CTCTCCAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.27
Consensus pattern (37 bp):
TAATATCAAGAAAACAAACCTTTGAATCAATCTCAAA
Found at i:8507719 original size:2 final size:2
Alignment explanation
Indices: 8507714--8507742 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8507704 TTATTTAAAA
8507714 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8507743 TTAGAGCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8511589 original size:2 final size:2
Alignment explanation
Indices: 8511582--8511607 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8511572 TGACTATGCT
8511582 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
8511608 AACTTTTAAC
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:8511929 original size:97 final size:95
Alignment explanation
Indices: 8511810--8512126 Score: 394
Period size: 96 Copynumber: 3.3 Consensus size: 95
8511800 AACAACTACC
*
8511810 TTTATTTGA-TTTTTCCTTAAAAACCCTAAATACTAAACTCCAATCTATTTTTTTCAAAATTTAT
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAAC-CCAATCTATTTTTTT-AAAATTTAT
8511874 AATTAATTTATTCAAGTAACCCTAAACCTTAA
64 AATTAATTTATTCAAGTAACCCTAAACCTTAA
* * * *
8511906 TTTATTTGATTTTTTCCTTAAAAACCCTAAACCCTAAACACTAATCAATTTTTTTAAAATTTAAA
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAAC-CCAATCTATTTTTTTAAAATTTATA
* * *
8511971 ATTAATTTACTCAAGTAACCCTAATCCCTAA
65 ATTAATTTATTCAAGTAACCCTAAACCTTAA
* * * *
8512002 TTTATTTGATTTTTTTCCTTAAAAATCATAAACGCTAAACCCTAATCTA-ATTTTTAAAATTTAT
1 TTTATTTGA-TTTTTTCCTTAAAAACCCTAAACACTAAACCC-AATCTATTTTTTTAAAATTTAT
*
8512066 AATTAATTTAATT-AAGAAACCCTAAACCCTT-A
64 AATTAATTT-ATTCAAGTAACCCTAAA-CCTTAA
* *
8512098 TTTATTT-AATTTTT-CTTTAAAACCCTAAA
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAA
8512127 ATCTAAAACC
Statistics
Matches: 192, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
93 12 0.06
94 5 0.03
95 1 0.01
96 97 0.51
97 77 0.40
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.42
Consensus pattern (95 bp):
TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCAATCTATTTTTTTAAAATTTATAA
TTAATTTATTCAAGTAACCCTAAACCTTAA
Found at i:8513683 original size:125 final size:125
Alignment explanation
Indices: 8513507--8513804 Score: 390
Period size: 125 Copynumber: 2.4 Consensus size: 125
8513497 GATAAAATCA
* * * * **
8513507 AAGCAGGATGCTTTATCAGAAGAATTTCT-AAAGTCGCGCCCACGTCTACGCGCTTTTGCTACAG
1 AAGCAAGATGCTTTATCAGAAGAATTTGTGAAA-TCACGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
8513571 TAGGT-CTTG-CAAAAATAATTTCGCA-TTGACGTTTCTGAGCAAATAGTATAAAAAATACTTC
65 TAGGTCCTAGAAAAAAAAAATTT-G-AGTTGACGTTTCTGAGCAAATAGTAT-AAAAACACTTC
* * *
8513632 AAGCAAGATGCTTTATGAAAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTATAGT
1 AAGCAAGATGCTTTATCAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
*
8513697 AGGTCCTAGAAAAAAAAAATTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
66 AGGTCCTAGAAAAAAAAAATTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACACTTC
8513757 AAGCAAGATGCTTTATCAGAAGAATTTGTGAAATCACG-CCTACGTGGA
1 AAGCAAGATGCTTTATCAGAAGAATTTGTGAAATCACGCCCT-CGTGGA
8513805 TGCACTTATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
124 3 0.02
125 108 0.71
126 31 0.20
127 10 0.07
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (125 bp):
AAGCAAGATGCTTTATCAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAAAAAAATTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACACTTC
Found at i:8513935 original size:51 final size:50
Alignment explanation
Indices: 8513874--8513973 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
8513864 AATTATTTAA
8513874 AAATAGGGATTTAAGAGAAATTT-AAGAGAAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-G-AAATTGAGAGCAAATTGAGATT
* * *
8513925 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGAAATTGAGAGCAAATTGAGA
8513974 GGAATTTGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.91
52 1 0.02
53 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:8513947 original size:11 final size:11
Alignment explanation
Indices: 8513933--8513982 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
8513923 TTAAATATGG
8513933 ATTTGAGAGAA
1 ATTTGAGAGAA
*
8513944 ATTTG-GAAGGA
1 ATTTGAG-AGAA
8513955 ATTTGAGAGCAA
1 ATTTGAGAG-AA
*
8513967 A-TTGAGAGGA
1 ATTTGAGAGAA
8513977 ATTTGA
1 ATTTGA
8513983 TAAAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.09
11 26 0.81
12 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:8513958 original size:22 final size:22
Alignment explanation
Indices: 8513933--8513982 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8513923 TTAAATATGG
8513933 ATTTGAGAG-AAATTTG-GAAGGA
1 ATTTGAGAGCAAA-TTGAG-AGGA
8513955 ATTTGAGAGCAAATTGAGAGGA
1 ATTTGAGAGCAAATTGAGAGGA
8513977 ATTTGA
1 ATTTGA
8513983 TAAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (22 bp):
ATTTGAGAGCAAATTGAGAGGA
Found at i:8514414 original size:17 final size:18
Alignment explanation
Indices: 8514394--8514427 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8514384 AAAGTATTAA
*
8514394 AAATTA-TAGAAATTATT
1 AAATTATTAAAAATTATT
8514411 AAATTATTAAAAATTAT
1 AAATTATTAAAAATTAT
8514428 GTTTAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATTATTAAAAATTATT
Found at i:8514426 original size:10 final size:10
Alignment explanation
Indices: 8514388--8514427 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
8514378 ATTTATAAAG
8514388 TATTAAAAAT
1 TATTAAAAAT
*
8514398 TA-TAGAAAT
1 TATTAAAAAT
8514407 TATT--AAAT
1 TATTAAAAAT
8514415 TATTAAAAAT
1 TATTAAAAAT
8514425 TAT
1 TAT
8514428 GTTTAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.31
9 8 0.31
10 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:8515534 original size:21 final size:20
Alignment explanation
Indices: 8515506--8515559 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
8515496 AACAGCGGTG
8515506 GCGGTGAGATTAATTACTATA
1 GCGGTGAGATTAA-TACTATA
* * *
8515527 GTGGTGAGATTGGATACTGTA
1 GCGGTGAGATT-AATACTATA
8515548 GCGGTGAGATTA
1 GCGGTGAGATTA
8515560 GAAACAGTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.31
Consensus pattern (20 bp):
GCGGTGAGATTAATACTATA
Found at i:8522346 original size:7 final size:7
Alignment explanation
Indices: 8522334--8522363 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
8522324 ATGCTTGTGA
8522334 TATATGG
1 TATATGG
8522341 TATATGG
1 TATATGG
8522348 TATATGG
1 TATATGG
8522355 TATATGG
1 TATATGG
8522362 TA
1 TA
8522364 CTAAACCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (7 bp):
TATATGG
Found at i:8528679 original size:23 final size:25
Alignment explanation
Indices: 8528653--8528705 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
8528643 ATGTAACGGG
* *
8528653 AAGCTTATCCGAG-CTATAAC-AGT
1 AAGCTCATACGAGCCTATAACGAGT
8528676 AAGCTCATACGAGCCTATAACGAGT
1 AAGCTCATACGAGCCTATAACGAGT
8528701 -AGCTC
1 AAGCTC
8528706 CGAAGAGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 12 0.46
25 3 0.12
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (25 bp):
AAGCTCATACGAGCCTATAACGAGT
Found at i:8528750 original size:25 final size:25
Alignment explanation
Indices: 8528722--8528780 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
8528712 GTCATTAATC
*
8528722 GGGAATCTCCAGATAGCCATGTATT
1 GGGAAGCTCCAGATAGCCATGTATT
*
8528747 GGGAAGCTCCAGATAGCCATGTATC
1 GGGAAGCTCCAGATAGCCATGTATT
*
8528772 GAGAAGCTC
1 GGGAAGCTC
8528781 ACAAAGAGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (25 bp):
GGGAAGCTCCAGATAGCCATGTATT
Found at i:8529278 original size:6 final size:6
Alignment explanation
Indices: 8529267--8529307 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
8529257 ATTTAATAAA
*
8529267 ATTCAC ATTCAC ATTCAC ATTCA- ATTCA- ATTTA- ATTCAC AT
1 ATTCAC ATTCAC ATTCAC ATTCAC ATTCAC ATTCAC ATTCAC AT
8529308 ATTAGGCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 13 0.41
6 19 0.59
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (6 bp):
ATTCAC
Found at i:8529304 original size:10 final size:11
Alignment explanation
Indices: 8529266--8529307 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
8529256 AATTTAATAA
8529266 AATTCACATTC
1 AATTCACATTC
8529277 ACATTCACATTC
1 A-ATTCACATTC
*
8529289 AATTCA-ATTT
1 AATTCACATTC
8529299 AATTCACAT
1 AATTCACAT
8529308 ATTAGGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTCACATTC
Found at i:8531642 original size:45 final size:46
Alignment explanation
Indices: 8531553--8531664 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 46
8531543 TCTGTATTAG
* * *
8531553 CTTTGAATTTTTTGGAACACATACTCATCTTTGAATTCTTTGAATT
1 CTTTGAATTTTTTGGAACACATACACATATTTGAACTCTTTGAATT
* *
8531599 TTTTGAATTTTTTGGAACACATACACATATTCTG-CCT-TTTGAATT
1 CTTTGAATTTTTTGGAACACATACACATATT-TGAACTCTTTGAATT
*
8531644 CTTTGAATTTTTTGGAGCACA
1 CTTTGAATTTTTTGGAACACA
8531665 AATAGTCATC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
45 27 0.47
46 29 0.50
47 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (46 bp):
CTTTGAATTTTTTGGAACACATACACATATTTGAACTCTTTGAATT
Found at i:8538101 original size:16 final size:16
Alignment explanation
Indices: 8538059--8538111 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
8538049 ATGGAAAGAA
8538059 AATTTTT-T-TCTTTC
1 AATTTTTCTATCTTTC
*
8538073 TATTTTTCTATCTCTTC
1 AATTTTTCTATCT-TTC
8538090 AATTTTTC-ATCTTTC
1 AATTTTTCTATCTTTC
*
8538105 TATTTTT
1 AATTTTT
8538112 TCCATTCTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 6 0.18
15 10 0.30
16 7 0.21
17 10 0.30
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTTTTCTATCTTTC
Found at i:8538113 original size:16 final size:16
Alignment explanation
Indices: 8538067--8538111 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
8538057 AAAATTTTTT
8538067 TCTTTCTATTTTTCTA
1 TCTTTCTATTTTTCTA
*
8538083 TCTCTTCAATTTTTC-A
1 TCT-TTCTATTTTTCTA
8538099 TCTTTCTATTTTT
1 TCTTTCTATTTTT
8538112 TCCATTCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
17 10 0.38
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (16 bp):
TCTTTCTATTTTTCTA
Found at i:8538386 original size:14 final size:14
Alignment explanation
Indices: 8538364--8538397 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8538354 ATTCCCCAAA
*
8538364 AGCGTGTCCACGTC
1 AGCGCGTCCACGTC
*
8538378 AGCGCGTCCATGTC
1 AGCGCGTCCACGTC
8538392 AGCGCG
1 AGCGCG
8538398 ATGTCAGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.35, G:0.32, T:0.18
Consensus pattern (14 bp):
AGCGCGTCCACGTC
Found at i:8538720 original size:27 final size:27
Alignment explanation
Indices: 8538663--8538736 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 27
8538653 CAAATTCCTA
** *
8538663 TTTAAAAAAGCTTTAATTTTTTAATTATT
1 TTTAAAAAATTTTTAA-ATTTTAA-TATT
*
8538692 TTTAAAAAATTTTTAAATTTT-ATTTT
1 TTTAAAAAATTTTTAAATTTTAATATT
*
8538718 TTTAAAATTATTTTTAAAT
1 TTTAAAA-AATTTTTAAAT
8538737 CGTAAAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 10 0.26
27 11 0.28
28 4 0.10
29 14 0.36
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (27 bp):
TTTAAAAAATTTTTAAATTTTAATATT
Found at i:8539951 original size:18 final size:18
Alignment explanation
Indices: 8539928--8539970 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8539918 TGCCAGGTGC
* *
8539928 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
8539946 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
8539964 GTTTCCT
1 GTATCCT
8539971 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:8540240 original size:21 final size:21
Alignment explanation
Indices: 8540216--8540260 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8540206 ATCCCCTACT
* * *
8540216 GGAGGAACCAGAATCCCCGCC
1 GGAGCAACCACAACCCCCGCC
8540237 GGAGCAACCACAACCCCCGCC
1 GGAGCAACCACAACCCCCGCC
8540258 GGA
1 GGA
8540261 AGCTGGACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.42, G:0.27, T:0.02
Consensus pattern (21 bp):
GGAGCAACCACAACCCCCGCC
Found at i:8540421 original size:34 final size:35
Alignment explanation
Indices: 8540377--8540444 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
8540367 ATTTTGAATA
* *
8540377 TTTTAATATTATTTGATGTAATAAAATATAAATTC
1 TTTTAATATTATTTCATGTAATAAAATAAAAATTC
8540412 TTTT-ATATTATTTCATGTAATAAAATAAAAATT
1 TTTTAATATTATTTCATGTAATAAAATAAAAATT
8540445 TACTTTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (35 bp):
TTTTAATATTATTTCATGTAATAAAATAAAAATTC
Found at i:8541500 original size:126 final size:126
Alignment explanation
Indices: 8541336--8541626 Score: 546
Period size: 126 Copynumber: 2.3 Consensus size: 126
8541326 CCAAACATAC
8541336 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTGGTACTATTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTGGTACTATTGCTGACAAAGCATCCT
**
8541401 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
66 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTCCCAAGA
*
8541462 GTTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTGGTACTATTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTGGTACTATTGCTGACAAAGCATCCT
*
8541527 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTCCCAGGA
66 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTCCCAAGA
8541588 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
8541627 AAATTAACAA
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 160 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTGGTACTATTGCTGACAAAGCATCCT
ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTCCCAAGA
Found at i:8541708 original size:7 final size:7
Alignment explanation
Indices: 8541696--8541725 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
8541686 TTTTACTTAA
8541696 AAACCCT
1 AAACCCT
8541703 AAACCCT
1 AAACCCT
8541710 AAACCCT
1 AAACCCT
8541717 AAACCCT
1 AAACCCT
8541724 AA
1 AA
8541726 TCTAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:8541916 original size:95 final size:95
Alignment explanation
Indices: 8541717--8541969 Score: 267
Period size: 95 Copynumber: 2.7 Consensus size: 95
8541707 CCTAAACCCT
* * * * *
8541717 AAACCCTAATCTAATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCTTGAACCCTAATTT
1 AAACCCTAATCTAA-TTTTTAAAATTTTATAATTAATTTACTTAAGTAACCCTAAAACCTAATTT
* * * * ***
8541782 ATTTGATTTTTCTTTAAAAATCCTTAACTTT
65 AATTGATTTTTCTTTAAAAAACATAAACACG
* * * *
8541813 AAACCCTAATCTGATTTTTAAAATTTTTTAATTAAATTACTTAAGTAACCCTAAATCCTAATTTA
1 AAACCCTAATCTAATTTTTAAAATTTTATAATTAATTTACTTAAGTAACCCTAAAACCTAATTTA
8541878 ATTGATTTTT-TCTTAAAAAACAATAAACACG
66 ATTGATTTTTCT-TTAAAAAAC-ATAAACACG
** * * **
8541909 AAA-CCTAATCTAATTTAAAAAATATTATAATTAATTTAATTAACAAACCCTAAAACCTAAT
1 AAACCCTAATCTAATTTTTAAAATTTTATAATTAATTTACTTAAGTAACCCTAAAACCTAAT
8541970 CCCTTATCGA
Statistics
Matches: 130, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
94 1 0.01
95 109 0.84
96 20 0.15
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (95 bp):
AAACCCTAATCTAATTTTTAAAATTTTATAATTAATTTACTTAAGTAACCCTAAAACCTAATTTA
ATTGATTTTTCTTTAAAAAACATAAACACG
Found at i:8541994 original size:70 final size:70
Alignment explanation
Indices: 8541907--8542046 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
8541897 ACAATAAACA
*
8541907 CGAAACCTAATCTAA-TTTAAAAAATATTATAATTAATTTAATTAACAAACCCTAAAACCTAATC
1 CGAAACCTAATCCAATTTTAAAAAAT-TTATAATTAATTTAATTAACAAACCCTAAAACCTAATC
8541971 CCTTAT
65 CCTTAT
* * *
8541977 CGAAATCTAATCCAATTTTAAAAAATTTATAATTAATTTAATTGACAAACCCTAAACCCTAATCC
1 CGAAACCTAATCCAATTTTAAAAAATTTATAATTAATTTAATTAACAAACCCTAAAACCTAATCC
8542042 CTTAT
66 CTTAT
8542047 TTCTTTAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 55 0.85
71 10 0.15
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (70 bp):
CGAAACCTAATCCAATTTTAAAAAATTTATAATTAATTTAATTAACAAACCCTAAAACCTAATCC
CTTAT
Found at i:8542323 original size:22 final size:21
Alignment explanation
Indices: 8542296--8542351 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 21
8542286 AATTTGCCCA
8542296 AAATATA-CATTTAATTTAAT
1 AAATATATCATTTAATTTAAT
*
8542316 TAATATAT--TTT-ATTTAAT
1 AAATATATCATTTAATTTAAT
*
8542334 AAATAAATGCATTTAATT
1 AAATATAT-CATTTAATT
8542352 AAAATTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
18 13 0.46
19 3 0.11
20 6 0.21
21 3 0.11
22 3 0.11
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATATATCATTTAATTTAAT
Found at i:8552143 original size:40 final size:40
Alignment explanation
Indices: 8552079--8552201 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 40
8552069 CGTTTGGATA
* *
8552079 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGC-TTTTAC
1 AAAAACACCGCTAAAAATCAAGCATTAGCGGCGCATTTT-C
* * *
8552119 AAAAAC-CCTGCTAAAGATCGAGCATTAGCGGCGCATTTTG
1 AAAAACACC-GCTAAAAATCAAGCATTAGCGGCGCATTTTC
8552159 AAAAACACCGCTAAAAAT-AAGCATTAGC-G-GCATTTTCC
1 AAAAACACCGCTAAAAATCAAGCATTAGCGGCGCATTTT-C
8552197 AAAAA
1 AAAAA
8552202 GCGCCGCAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
37 7 0.10
38 6 0.08
39 11 0.15
40 42 0.58
41 6 0.08
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (40 bp):
AAAAACACCGCTAAAAATCAAGCATTAGCGGCGCATTTTC
Found at i:8552306 original size:41 final size:41
Alignment explanation
Indices: 8552249--8552654 Score: 578
Period size: 41 Copynumber: 9.9 Consensus size: 41
8552239 AGAGTTTTTG
* * *
8552249 GGGCATTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
8552290 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * * *
8552331 TGGCCTTTAGCGGTGTTTTTGGAAAAGCACTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
8552372 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
8552413 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
8552454 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
8552495 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTA
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*** * * *
8552536 GTTTCTTTAGCGGCGTTCTTGGAAAAGCACCGCTAATACTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
** * *
8552577 GTACCTTTTGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
** *
8552618 GTACCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAT
8552655 AATTAAATCT
Statistics
Matches: 334, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 334 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:8555263 original size:24 final size:24
Alignment explanation
Indices: 8555218--8555265 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8555208 TAATTTACTT
* *
8555218 TAAAATAATTTTTAGCAGACAAAA
1 TAAAATAAATTTTAGCAAACAAAA
8555242 TAAAA-AAATTTTAGCATAACAAAA
1 TAAAATAAATTTTAGCA-AACAAAA
8555266 CGGTGTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (24 bp):
TAAAATAAATTTTAGCAAACAAAA
Found at i:8558101 original size:42 final size:43
Alignment explanation
Indices: 8558010--8558121 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
8558000 AATAATTTTT
* * *
8558010 TAAAGGTTATGTTTTTAGCGGCGTTTGTGACAAAAAGTGTCGC
1 TAAAGGTCATGTTTTTAGCGGCGTTTGTGACAAAAAGCGCCGC
**
8558053 TAAAGGTCATGTTTTTAGCGGCGTTTGTG-GGAAAAGCGCCGC
1 TAAAGGTCATGTTTTTAGCGGCGTTTGTGACAAAAAGCGCCGC
*
8558095 TAAAGGTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCAT-GTTTTTAGCGGCGTTT
8558122 ATTTCTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 19 0.31
43 43 0.69
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGTTTTTAGCGGCGTTTGTGACAAAAAGCGCCGC
Found at i:8562415 original size:25 final size:25
Alignment explanation
Indices: 8562387--8562434 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8562377 AATTTTTGAA
*
8562387 ATTGATGATTATTTTGTG-TTTTTCC
1 ATTGATGA-TATGTTGTGATTTTTCC
8562412 ATTGATGATATGTTGTGATTTTT
1 ATTGATGATATGTTGTGATTTTT
8562435 GATGTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.58
Consensus pattern (25 bp):
ATTGATGATATGTTGTGATTTTTCC
Found at i:8562433 original size:24 final size:25
Alignment explanation
Indices: 8562387--8562433 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
8562377 AATTTTTGAA
* *
8562387 ATTGATGATTATTTTGTGTTTTTCC
1 ATTGATGATTATGTTGTGATTTTCC
8562412 ATTGATGA-TATGTTGTGATTTT
1 ATTGATGATTATGTTGTGATTTT
8562434 TGATGTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.57
Consensus pattern (25 bp):
ATTGATGATTATGTTGTGATTTTCC
Found at i:8563186 original size:65 final size:66
Alignment explanation
Indices: 8563101--8563275 Score: 173
Period size: 65 Copynumber: 2.7 Consensus size: 66
8563091 CGAATGCATA
* * * * *
8563101 ATACAAAT-TCTTTGAGTTGAACTTAATGTTGTAAATTGTATATATATATGTGGTTCGAAT-AAA
1 ATACAAGTGTCTTTGAGTTGAACTTAATGTTGTAAATTATATATATATAAGAGGTTCAAATGAAA
8563164 TG
66 -G
* * * *
8563166 ATGCAA-TGTCTTTGAATTGAA-TGTAATGTTATGAAA-TATATATATATAAGAGGTTCAAATGT
1 ATACAAGTGTCTTTGAGTTGAACT-TAATGTTGT-AAATTATATATATATAAGAGGTTCAAATGA
8563228 AAG
64 AAG
* *
8563231 ATACAAGTTTCTTTGAGCTGAACTTAATGTTAGT-AATTATATATA
1 ATACAAGTGTCTTTGAGTTGAACTTAATGTT-GTAAATTATATATA
8563276 ATTATACATG
Statistics
Matches: 89, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
64 2 0.02
65 53 0.60
66 32 0.36
67 2 0.02
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (66 bp):
ATACAAGTGTCTTTGAGTTGAACTTAATGTTGTAAATTATATATATATAAGAGGTTCAAATGAAA
G
Found at i:8563479 original size:81 final size:80
Alignment explanation
Indices: 8563343--8563509 Score: 298
Period size: 81 Copynumber: 2.1 Consensus size: 80
8563333 GAATCATGTA
* *
8563343 TATGTGGTTCGAATGTAAGGTTGCTATGAAGAATTGAATATAAAAGAATTCTTATTGAGATATAG
1 TATGTGGTTCGAATCTAAGGTTGCTATGAAGAATTGAATATAAAACAATTCTTATTGAGATATAG
8563408 TTATTGAGAAAGATT
66 TTATTGAGAAAGATT
*
8563423 TCATGTGGTTCGAATCTGAGGTTGCTATGAAGAATTGAATATAAAACAATTCTTATTGAGATATA
1 T-ATGTGGTTCGAATCTAAGGTTGCTATGAAGAATTGAATATAAAACAATTCTTATTGAGATATA
8563488 GTTATTGAGAAAGATT
65 GTTATTGAGAAAGATT
8563504 TATGTG
1 TATGTG
8563510 AATCATAAAG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
80 6 0.07
81 77 0.93
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (80 bp):
TATGTGGTTCGAATCTAAGGTTGCTATGAAGAATTGAATATAAAACAATTCTTATTGAGATATAG
TTATTGAGAAAGATT
Found at i:8563613 original size:41 final size:41
Alignment explanation
Indices: 8563568--8563670 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
8563558 GGCTCTGTGC
8563568 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACAT
* * **
8563609 CTAGCAGACTTAATGCTGGTGAAATATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACAT
* *
8563650 CTACCAAGCTTAATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
8563671 TTCTGAATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACAT
Found at i:8574382 original size:37 final size:38
Alignment explanation
Indices: 8574287--8574390 Score: 95
Period size: 40 Copynumber: 2.7 Consensus size: 38
8574277 ACACACCAGT
* **
8574287 TTGGCACCTAGTGCCTCATCGGATAATTCGAAGTAGAAAA
1 TTGGAACCTAGTGCCTCATCGGATAAACCGAAGT--AAAA
* * * *
8574327 TT-GACACCCAATGTCTCATCGGTTAAACCGAAGT-AAA
1 TTGGA-ACCTAGTGCCTCATCGGATAAACCGAAGTAAAA
*
8574364 TTGGAACCTAGTGCCTCATCGAATAAA
1 TTGGAACCTAGTGCCTCATCGGATAAA
8574391 TTCGAAGTGA
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
37 22 0.44
38 2 0.04
39 1 0.02
40 25 0.50
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (38 bp):
TTGGAACCTAGTGCCTCATCGGATAAACCGAAGTAAAA
Found at i:8584634 original size:30 final size:29
Alignment explanation
Indices: 8584575--8584649 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
8584565 GTTTTATTAT
8584575 AATTTTATAAT-ATATATACTTAATTCTTA
1 AATTTTATAATAATATATACTTAA-TCTTA
*
8584604 AGGTTTTATATTATAATATATA-TTAA-CTTA
1 A-ATTTTATA--ATAATATATACTTAATCTTA
8584634 AATTTTATAATAATAT
1 AATTTTATAATAATAT
8584650 TAGACCTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 7 0.17
29 8 0.20
30 12 0.30
32 6 0.15
33 7 0.17
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (29 bp):
AATTTTATAATAATATATACTTAATCTTA
Found at i:8590223 original size:20 final size:18
Alignment explanation
Indices: 8590176--8590224 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
8590166 GTAGATAAAC
8590176 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
8590193 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
8590213 ATTAAATTAATA
1 ATTAAATTAATA
8590225 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:8590904 original size:40 final size:41
Alignment explanation
Indices: 8590835--8590914 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
8590825 ACGACCACCT
8590835 AATTTAATTCCATATCAAATAAATTGACTCAATTAAATTAAC
1 AATTTAATTCCA-ATCAAATAAATTGACTCAATTAAATTAAC
*
8590877 AATTTAATTCC-ATCGAATAAATTGACTCAATTAAATTA
1 AATTTAATTCCAATCAAATAAATTGACTCAATTAAATTA
8590915 TTCCCAAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 26 0.70
42 11 0.30
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (41 bp):
AATTTAATTCCAATCAAATAAATTGACTCAATTAAATTAAC
Found at i:8600891 original size:18 final size:17
Alignment explanation
Indices: 8600848--8600891 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
8600838 ATTTATGAAA
*
8600848 ATTATAAATTTATAAAG
1 ATTATAAATTTAAAAAG
* *
8600865 ACTACAAATTATAAAAAG
1 ATTATAAATT-TAAAAAG
8600883 ATTATAAAT
1 ATTATAAAT
8600892 AATTGAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (17 bp):
ATTATAAATTTAAAAAG
Found at i:8600943 original size:6 final size:6
Alignment explanation
Indices: 8600932--8600963 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
8600922 TTCTTAAACT
8600932 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
8600964 CTATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:8601176 original size:19 final size:19
Alignment explanation
Indices: 8601144--8601188 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
8601134 AAATATTTTA
*
8601144 ATAATTT-TTGATAAATTT
1 ATAATTTGTTAATAAATTT
*
8601162 ATAATTTGTTAATAATTTT
1 ATAATTTGTTAATAAATTT
8601181 ATAATTTG
1 ATAATTTG
8601189 ATAAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
ATAATTTGTTAATAAATTT
Found at i:8607204 original size:31 final size:31
Alignment explanation
Indices: 8607169--8607227 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8607159 TAGCTCAATG
8607169 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
1 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
* * *
8607200 ACTTAAATGAAAATTTTCGAATAGTTCA
1 ACTTAAATAAAAACTTTCAAATAGTTCA
8607228 ATTACCAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAGTTCAGTA
Found at i:8609344 original size:18 final size:19
Alignment explanation
Indices: 8609311--8609363 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
8609301 AAATATTTCC
* * *
8609311 ATTTATATAATGTTTATA-
1 ATTTATATATTTTTTAGAT
8609329 ATTTATATATTTTTTAGAT
1 ATTTATATATTTTTTAGAT
*
8609348 TTTGTATATATTTTTT
1 ATT-TATATATTTTTT
8609364 TGAATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 12 0.41
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTTATATATTTTTTAGAT
Found at i:8609363 original size:22 final size:20
Alignment explanation
Indices: 8609330--8609401 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
8609320 ATGTTTATAA
*
8609330 TTTATATATTTTTTAG-ATT
1 TTTATATATTTTTTTGAATT
8609349 TTGTATATATTTTTTTGAATT
1 TT-TATATATTTTTTTGAATT
* * **
8609370 TTTAAATATTTATTTCTATT
1 TTTATATATTTTTTTGAATT
8609390 TTTATA-ATTTTT
1 TTTATATATTTTT
8609402 AAGGTTTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 7 0.16
20 32 0.73
21 5 0.11
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTATATATTTTTTTGAATT
Found at i:8610159 original size:2 final size:2
Alignment explanation
Indices: 8610152--8610180 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8610142 TAGTCAGTAA
8610152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8610181 ATTAGAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8611724 original size:19 final size:19
Alignment explanation
Indices: 8611702--8611753 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
8611692 ATGCATCTCA
8611702 TGTGCCAGGATGCACTTTG
1 TGTGCCAGGATGCACTTTG
* ** *
8611721 TGTGCAAAATATGCGCTTTG
1 TGTGC-CAGGATGCACTTTG
*
8611741 TGCGCCAGGATGC
1 TGTGCCAGGATGC
8611754 GCTTCGAGCA
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (19 bp):
TGTGCCAGGATGCACTTTG
Found at i:8613712 original size:21 final size:20
Alignment explanation
Indices: 8613686--8613725 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
8613676 AATAGGCGTC
8613686 ACATGGCCATGTGGCTCAAAG
1 ACATGGCCATGTGGC-CAAAG
*
8613707 ACATGGCCGTGTGGCCAAA
1 ACATGGCCATGTGGCCAAA
8613726 CTGTGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.17
Consensus pattern (20 bp):
ACATGGCCATGTGGCCAAAG
Found at i:8620936 original size:27 final size:27
Alignment explanation
Indices: 8620898--8621228 Score: 410
Period size: 27 Copynumber: 12.3 Consensus size: 27
8620888 GATATAGGTT
* * *
8620898 AAATGACTGAAATACCCTCAGAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8620925 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8620952 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
8620979 AAATGACTGAAATACCCTCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8621006 AAATAACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
8621033 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * ** *
8621060 AAATAACTGAAATACCATCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8621087 AAATAACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8621114 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*** * *
8621141 AAATGAGTAAAATACCCCTATTGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8621168 AAATTACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
8621195 AAATGACCGAAATATCTTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
8621222 AAATGAC
1 AAATGAC
8621229 TGTTATACCC
Statistics
Matches: 264, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 264 1.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:8621241 original size:81 final size:81
Alignment explanation
Indices: 8620898--8621230 Score: 479
Period size: 81 Copynumber: 4.1 Consensus size: 81
8620888 GATATAGGTT
* * * * * *
8620898 AAATGACTGAAATACCCTCAGAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCGAA
1 AAATGACTGAAATACCCTCATAAGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACCGAA
*
8620963 ATACCCTCATAGGGTA
66 ATACCCCCATAGGGTA
8620979 AAATGACTGAAATACCCTCATAAGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACCGAA
1 AAATGACTGAAATACCCTCATAAGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACCGAA
8621044 ATACCCCCATAGGGTA
66 ATACCCCCATAGGGTA
* * * *
8621060 AAATAACTGAAATACCATCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAA
1 AAATGACTGAAATACCCTCATAAGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACCGAA
8621125 ATACCCCCATAGGGTA
66 ATACCCCCATAGGGTA
* * ** *
8621141 AAATGAGTAAAATACCC-CTATTGGGTAAAATTACCAAAATACCCCCATAGGGTAAAATGACCGA
1 AAATGACTGAAATACCCTC-ATAAGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACCGA
* **
8621205 AATATCTTCATAGGGTA
65 AATACCCCCATAGGGTA
8621222 AAATGACTG
1 AAATGACTG
8621231 TTATACCCCT
Statistics
Matches: 226, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 1 0.00
81 225 1.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.20
Consensus pattern (81 bp):
AAATGACTGAAATACCCTCATAAGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACCGAA
ATACCCCCATAGGGTA
Found at i:8629097 original size:16 final size:17
Alignment explanation
Indices: 8629067--8629099 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8629057 TTTTGGATTT
8629067 AATTGAATAGAGTGAAA
1 AATTGAATAGAGTGAAA
8629084 AATTGAAT-GAGTGAAA
1 AATTGAATAGAGTGAAA
8629100 TTTGATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
AATTGAATAGAGTGAAA
Found at i:8636747 original size:155 final size:156
Alignment explanation
Indices: 8636459--8636767 Score: 611
Period size: 155 Copynumber: 2.0 Consensus size: 156
8636449 GCTTAATCTA
8636459 GCTAGCCCAGGGACTAATTTTTAAAATTTCTAAAATTCTAGGGTTTCAACACGAATGTATATTGG
1 GCTAGCCCAGGGACTAATTTTTAAAATTTCTAAAATTCTAGGGTTTCAACACGAATGTATATTGG
8636524 TTTTTTTATATTTGATGGATGAAAATGAATATTTGATGATAGTTGAGCAACTTTTGTAAAGGAAT
66 TTTTTTTATATTTGATGGATGAAAATGAATATTTGATGATAGTTGAGCAACTTTTGTAAAGGAAT
8636589 TTCTGATGAATTTGTCATTTAAGTAG
131 TTCTGATGAATTTGTCATTTAAGTAG
8636615 GCTAG-CCAGGGACTAATTTTTAAAATTTCTAAAATTCTAGGGTTTCAACACGAATGTATATTGG
1 GCTAGCCCAGGGACTAATTTTTAAAATTTCTAAAATTCTAGGGTTTCAACACGAATGTATATTGG
8636679 TTTTTTTATATTTGATGGATGAAAATGAATATTTGATGATAGTTGAGCAACTTTTGTAAAGGAAT
66 TTTTTTTATATTTGATGGATGAAAATGAATATTTGATGATAGTTGAGCAACTTTTGTAAAGGAAT
8636744 TTCTGATGAATTTGTCATTTAAGT
131 TTCTGATGAATTTGTCATTTAAGT
8636768 CTTGAATTGA
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 148 0.97
156 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (156 bp):
GCTAGCCCAGGGACTAATTTTTAAAATTTCTAAAATTCTAGGGTTTCAACACGAATGTATATTGG
TTTTTTTATATTTGATGGATGAAAATGAATATTTGATGATAGTTGAGCAACTTTTGTAAAGGAAT
TTCTGATGAATTTGTCATTTAAGTAG
Found at i:8640207 original size:13 final size:13
Alignment explanation
Indices: 8640186--8640215 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8640176 TATTGTATAA
8640186 TTTTCTCTTTAGT
1 TTTTCTCTTTAGT
*
8640199 TTTTGTCTTTAGT
1 TTTTCTCTTTAGT
8640212 TTTT
1 TTTT
8640216 TTTCCCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.73
Consensus pattern (13 bp):
TTTTCTCTTTAGT
Found at i:8640236 original size:27 final size:26
Alignment explanation
Indices: 8640206--8640267 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
8640196 AGTTTTTGTC
*
8640206 TTTAGTTTTTTTTCCCATTTCTTAGGT-
1 TTTAGTTTTTATTCCCA-TTCTT-GGTA
* *
8640233 TTTAGATTTTATTCCCATTCTTGTTA
1 TTTAGTTTTTATTCCCATTCTTGGTA
8640259 TTTAGTTTT
1 TTTAGTTTT
8640268 GGGGAGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 13 0.43
27 15 0.50
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.63
Consensus pattern (26 bp):
TTTAGTTTTTATTCCCATTCTTGGTA
Found at i:8641829 original size:30 final size:30
Alignment explanation
Indices: 8641789--8641847 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
8641779 GAGGCATCCT
*
8641789 TTTTATCAGAGATCGCCACAAAGGCTTTCA
1 TTTTAACAGAGATCGCCACAAAGGCTTTCA
* * *
8641819 TTTTAACAGAGTTCGCCATAAAGGTTTTC
1 TTTTAACAGAGATCGCCACAAAGGCTTTC
8641848 TTACGGAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (30 bp):
TTTTAACAGAGATCGCCACAAAGGCTTTCA
Found at i:8645779 original size:12 final size:10
Alignment explanation
Indices: 8645745--8645776 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
8645735 ACAAGAAAGT
8645745 GAATGGAAGA
1 GAATGGAAGA
8645755 GAATGGAAGA
1 GAATGGAAGA
8645765 GAATGGAAGA
1 GAATGGAAGA
8645775 GA
1 GA
8645777 GAAAGATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.41, T:0.09
Consensus pattern (10 bp):
GAATGGAAGA
Found at i:8649193 original size:14 final size:14
Alignment explanation
Indices: 8649151--8649194 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8649141 TAAGGATGAA
*
8649151 TAAGATTTAGAATT
1 TAAGATTTAGAGTT
* *
8649165 TAATATTTAAAGTT
1 TAAGATTTAGAGTT
*
8649179 TAAGATTTAGTGTT
1 TAAGATTTAGAGTT
8649193 TA
1 TA
8649195 GGGATCTAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
TAAGATTTAGAGTT
Found at i:8652256 original size:21 final size:21
Alignment explanation
Indices: 8652232--8652276 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
8652222 GAAAAAAGAG
*
8652232 AAGAGAAAAAT-AAAAGTGAAA
1 AAGAAAAAAATGAAAA-TGAAA
8652253 AAGAAAAAAATGAAAATGAAA
1 AAGAAAAAAATGAAAATGAAA
8652274 AAG
1 AAG
8652277 GCGAAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (21 bp):
AAGAAAAAAATGAAAATGAAA
Found at i:8663671 original size:17 final size:18
Alignment explanation
Indices: 8663633--8663673 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
8663623 GAAAAATATT
*
8663633 TATATTAAATTAAATTTA
1 TATATTTAATTAAATTTA
*
8663651 -ATATTTAA-TAATTTTA
1 TATATTTAATTAAATTTA
8663667 TATATTT
1 TATATTT
8663674 TCATTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATTTAATTAAATTTA
Done.