Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 131 of 438
Found at i:38963442 original size:45 final size:43
Alignment explanation
Indices: 38963261--38963449 Score: 129
Period size: 45 Copynumber: 4.3 Consensus size: 43
38963251 CTGCAATCTT
* * * *
38963261 AGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTC
1 AGGGAGATAAGATCTT-TAGTCTCAATCTGC-TCCTTGCTACCTC
*
38963306 AGGAAGATAAGACTCATTT--T-TCAA-CTTGCTCTCTTGCTACCTC
1 AGGGAGATAAGA-TC-TTTAGTCTCAATC-TGCTC-CTTGCTACCTC
* * * * * * *
38963349 AGAGAGATAAG-GC-TTAGTGGTAAGATCTGCTCCGTTGCAACTTT
1 AGGGAGATAAGATCTTTAGT-CTCA-ATCTGCTCC-TTGCTACCTC
38963393 AGGGAGATAAGATCTTTAAGTCTCAATCTGCTTCCTTGCTACCTC
1 AGGGAGATAAGATCTTT-AGTCTCAATCTGC-TCCTTGCTACCTC
38963438 AGGGAGATAAGA
1 AGGGAGATAAGA
38963450 CTACTATCGC
Statistics
Matches: 111, Mismatches: 18, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
39 2 0.02
41 2 0.02
42 3 0.03
43 29 0.26
44 24 0.22
45 37 0.33
46 9 0.08
47 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
AGGGAGATAAGATCTTTAGTCTCAATCTGCTCCTTGCTACCTC
Found at i:38963560 original size:133 final size:133
Alignment explanation
Indices: 38963391--38963713 Score: 470
Period size: 133 Copynumber: 2.4 Consensus size: 133
38963381 CGTTGCAACT
** * * *
38963391 TTAGGGAGATAAGATCT-TTAAGTCTCAATCTGCTTCCTTGCTACCTCAGGGAGATAAGACTACT
1 TTAGGGAGATAAGATCTGCAAATTC-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACT
* * * *
38963455 ATCGCCAATCTGCTCCATTGTCGATACATGGAGATAAGATTTACTATTTTTAATCTGCTCCACTA
65 ATCGCCAATCTGCTCCATTGCCGATACATAGAGATAAGATTCACTATCTTTAATCTGCTCCACTA
38963520 CTAC
130 CTAC
* *
38963524 TTAGGGAGATGAA-ATCTGCAAATTCCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTATT
1 TTAGGGAGAT-AAGATCTGCAAATTCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACT
* * *
38963588 ATCGCCAGTCTGCTCCATTGCCGATACATAGAGATAAGATTCACTATCTTTGATTTGCTCCACTA
65 ATCGCCAATCTGCTCCATTGCCGATACATAGAGATAAGATTCACTATCTTTAATCTGCTCCACTA
*
38963653 CTGC
130 CTAC
*
38963657 TTAGGGAGATAAGATCTGTAAATTCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
1 TTAGGGAGATAAGATCTGCAAATTCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
38963714 AACTCATTCT
Statistics
Matches: 170, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
132 2 0.01
133 162 0.95
134 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (133 bp):
TTAGGGAGATAAGATCTGCAAATTCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACTA
TCGCCAATCTGCTCCATTGCCGATACATAGAGATAAGATTCACTATCTTTAATCTGCTCCACTAC
TAC
Found at i:38963842 original size:45 final size:44
Alignment explanation
Indices: 38963793--38963891 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
38963783 CCAATACATA
* * ** *
38963793 GAGATAAGAT-TCACCATATTCGATCTGCTCTGCTGCAACTTCAGG
1 GAGATAAGATCTCA--ATATTCAATCTACTCCACTGCAACCTCAGG
*
38963838 GAGATAAGATCGTCAATCTTCAATCTACTCCACTGCAACCTCAGG
1 GAGATAAGATC-TCAATATTCAATCTACTCCACTGCAACCTCAGG
38963883 GAGATAAGA
1 GAGATAAGA
38963892 CTTGTTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 43 0.93
47 3 0.07
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
GAGATAAGATCTCAATATTCAATCTACTCCACTGCAACCTCAGG
Found at i:38964172 original size:64 final size:64
Alignment explanation
Indices: 38964071--38964265 Score: 336
Period size: 64 Copynumber: 3.0 Consensus size: 64
38964061 TTCATGTATC
* * *
38964071 ATGCTTATGCCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
*
38964135 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTA
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
**
38964199 ATGCTTATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCACCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
38964263 ATG
1 ATG
38964266 AATGATATAT
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 124 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
Found at i:38965409 original size:10 final size:10
Alignment explanation
Indices: 38965394--38965443 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
38965384 CTTTGATTGA
38965394 TTCTTTTTTT
1 TTCTTTTTTT
38965404 TTC---TTTT
1 TTCTTTTTTT
*
38965411 TTCTTTTTAT
1 TTCTTTTTTT
38965421 TTCTTTTTTT
1 TTCTTTTTTT
**
38965431 TTGATTTTTT
1 TTCTTTTTTT
38965441 TTC
1 TTC
38965444 AAGGTCTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
7 7 0.22
10 25 0.78
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:38965416 original size:17 final size:17
Alignment explanation
Indices: 38965394--38965429 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
38965384 CTTTGATTGA
*
38965394 TTCTTTTTTTTTCTTTT
1 TTCTTTTTATTTCTTTT
38965411 TTCTTTTTATTTCTTTT
1 TTCTTTTTATTTCTTTT
38965428 TT
1 TT
38965430 TTTGATTTTT
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:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (17 bp):
TTCTTTTTATTTCTTTT
Found at i:38978782 original size:13 final size:12
Alignment explanation
Indices: 38978764--38978793 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
38978754 AAATCTACTA
38978764 AAAAATAAACAAT
1 AAAAATAAA-AAT
38978777 AAAAATAAAAAT
1 AAAAATAAAAAT
38978789 AAAAA
1 AAAAA
38978794 GTAGTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:38978792 original size:5 final size:6
Alignment explanation
Indices: 38978764--38978793 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
38978754 AAATCTACTA
38978764 AAAAAT AAACAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAA
38978794 GTAGTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:38980595 original size:29 final size:29
Alignment explanation
Indices: 38980562--38980663 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
38980552 TGACGAGATC
38980562 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
38980591 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
38980620 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
38980649 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
38980664 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:38992557 original size:21 final size:19
Alignment explanation
Indices: 38992531--38992580 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
38992521 AGCTTATTGC
38992531 TCAACACAGGGCTACTGTAGT
1 TCAACACAGGGCTAC-GT-GT
* *
38992552 TCAACACAAGGTTACGTGT
1 TCAACACAGGGCTACGTGT
38992571 TGCAACACAG
1 T-CAACACAG
38992581 ACCTTGCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 9 0.36
21 13 0.52
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (19 bp):
TCAACACAGGGCTACGTGT
Found at i:38993229 original size:288 final size:286
Alignment explanation
Indices: 38992715--38993235 Score: 988
Period size: 288 Copynumber: 1.8 Consensus size: 286
38992705 CCTTTTGCAC
38992715 ATTATTTTATTAACTTTTAATCTTAACCTACTAATACCGAAAATATAATAATTAATTATAAAATG
1 ATTATTTTATTAACTTTTAATCTTAACCTACTAATACCGAAAATATAATAATTAATTATAAAATG
*
38992780 CCTAGAAAACATCGTTAAATGCGGAATGACATAAAATAACTACTATATGACGACAAGTCAATCCC
66 CCTAGAAAACATCGTTAAATGCGGAATGACATAAAATAACTACTATATGACGACAAGACAATCCC
*
38992845 CTCTTGCCTCGACACACATATGCGGAGCCATGGTCAAGAAAAAATGCATAAAGAAAATATAACCA
131 CTCTTGCCTCGACACACATATACGGAGCCATGGTCAAGAAAAAATGCATAAAGAAAATATAACCA
38992910 AAAAAGAGACAGTGAACCTGGAAACCCAATTTAATCATACCCAAATTAATCCAACCTAAGGCCCA
196 AAAAAGAGACAGTGAACCTGGAAACCCAATTTAATCATACCCAAATTAATCCAACCTAAGGCCCA
38992975 TCAACACTCAAAAATTTGTTAAAAAT
261 TCAACACTCAAAAATTTGTTAAAAAT
38993001 ATTATTTTATTAACTTTTAATCTTAACCTACTAATACCGAAAATATAATAATTAATTATAAAATG
1 ATTATTTTATTAACTTTTAATCTTAACCTACTAATACCGAAAATATAATAATTAATTATAAAATG
*
38993066 CCTAGAAAACATCGTTAAATGTGGAATGACATAAAATAACTACTATAAGTGACGACAAGACAATC
66 CCTAGAAAACATCGTTAAATGCGGAATGACATAAAATAACTACTAT-A-TGACGACAAGACAATC
*
38993131 CCCTCTTGCCTCGACACACATATACGGAGCCATGGTTAAGAAAAAATGCATAAAGAAAATATAAC
129 CCCTCTTGCCTCGACACACATATACGGAGCCATGGTCAAGAAAAAATGCATAAAGAAAATATAAC
38993196 CAAAAAAGAGACAGTGAACCTGGAAACCCAATTTAATCAT
194 CAAAAAAGAGACAGTGAACCTGGAAACCCAATTTAATCAT
38993236 TTAGTAGAAA
Statistics
Matches: 229, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
286 110 0.48
287 1 0.00
288 118 0.52
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (286 bp):
ATTATTTTATTAACTTTTAATCTTAACCTACTAATACCGAAAATATAATAATTAATTATAAAATG
CCTAGAAAACATCGTTAAATGCGGAATGACATAAAATAACTACTATATGACGACAAGACAATCCC
CTCTTGCCTCGACACACATATACGGAGCCATGGTCAAGAAAAAATGCATAAAGAAAATATAACCA
AAAAAGAGACAGTGAACCTGGAAACCCAATTTAATCATACCCAAATTAATCCAACCTAAGGCCCA
TCAACACTCAAAAATTTGTTAAAAAT
Found at i:38993633 original size:24 final size:22
Alignment explanation
Indices: 38993599--38993651 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 22
38993589 TTAATAAGGA
*
38993599 TTATTATATAATTAATTAAGGTT
1 TTATTAAATAATTAATTAA-GTT
38993622 TTAATTAAATAATTAATTAAGTT
1 TT-ATTAAATAATTAATTAAGTT
38993645 TTATTAA
1 TTATTAA
38993652 TTTTAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 16 0.57
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (22 bp):
TTATTAAATAATTAATTAAGTT
Found at i:38994089 original size:18 final size:18
Alignment explanation
Indices: 38994066--38994125 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
38994056 TGTAGAAGGA
38994066 TGAAATTGAAATCAATTT
1 TGAAATTGAAATCAATTT
*
38994084 TGAAATTGAGATCAATTT
1 TGAAATTGAAATCAATTT
* * *
38994102 CGAAATTGAAGCTCAAATT
1 TGAAATTGAA-ATCAATTT
38994121 TGAAA
1 TGAAA
38994126 GTTATGGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
18 25 0.71
19 10 0.29
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (18 bp):
TGAAATTGAAATCAATTT
Found at i:38995088 original size:132 final size:132
Alignment explanation
Indices: 38994851--38995106 Score: 359
Period size: 132 Copynumber: 1.9 Consensus size: 132
38994841 GGATGACACA
* * * *
38994851 GTCGTGTGTTCAACAAATTTAGGTTGTTTTTTAGTTCACACGGCCTGACGACACGACCGTGTGAC
1 GTCGTGTGTTCAACAAACTTAGGTTGTTTTTTAATTCACACGGCCTGACAACACGACCGTATGAC
** * ** * * * * *
38994916 ACTCGGTTGCATGGCATGTGATTTTTTCATGATTTGGGGACATAACTGTGTGATGGCACAGTGAA
66 ACTCAATTACATGGCATGCAATTGTTCCACGATTTGGGGACACAACTGGGTGATGGCACAGTGAA
38994981 CT
131 CT
* *
38994983 GTCGTGTGTTCAACAAACTTAGGTTGTTTTTTAATTCACACGGCCTGGCAACACGGCCGTATGAC
1 GTCGTGTGTTCAACAAACTTAGGTTGTTTTTTAATTCACACGGCCTGACAACACGACCGTATGAC
*
38995048 ACTCAATTACATGGCATGCAATTGTTCCACGATTTGGGGACACGACTGGGTGATGGCAC
66 ACTCAATTACATGGCATGCAATTGTTCCACGATTTGGGGACACAACTGGGTGATGGCAC
38995107 CACACAGCCT
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
132 107 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (132 bp):
GTCGTGTGTTCAACAAACTTAGGTTGTTTTTTAATTCACACGGCCTGACAACACGACCGTATGAC
ACTCAATTACATGGCATGCAATTGTTCCACGATTTGGGGACACAACTGGGTGATGGCACAGTGAA
CT
Found at i:38995323 original size:22 final size:24
Alignment explanation
Indices: 38995298--38995342 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
38995288 TTGTATATAC
38995298 ATTAAATT-AT-TGAATGTTATTG
1 ATTAAATTCATGTGAATGTTATTG
38995320 ATTAAATTGCATGTGAATGTTAT
1 ATTAAATT-CATGTGAATGTTAT
38995343 GGTTTACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (24 bp):
ATTAAATTCATGTGAATGTTATTG
Found at i:38999425 original size:28 final size:28
Alignment explanation
Indices: 38999356--38999456 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38999346 GACAAGATTG
* * * *
38999356 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
38999386 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38999414 GCACTAAGTGTGCGAG-CTGAATATATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
38999443 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38999457 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38999450 original size:29 final size:28
Alignment explanation
Indices: 38999385--38999456 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
38999375 AAAATTGTAC
*
38999385 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
38999413 AGCACTAAGTGTGCGAG-CTGAATATATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
38999442 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38999457 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:39007226 original size:28 final size:28
Alignment explanation
Indices: 39007157--39007257 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
39007147 GACAAGATTG
* * * *
39007157 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
39007187 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39007215 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
39007244 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39007258 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39007251 original size:29 final size:28
Alignment explanation
Indices: 39007186--39007257 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
39007176 AAAATTGTAC
*
39007186 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
39007214 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
39007243 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39007258 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:39011999 original size:10 final size:10
Alignment explanation
Indices: 39011984--39012010 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
39011974 TTAAAAATTA
39011984 CAACATGGAT
1 CAACATGGAT
39011994 CAACATGGAT
1 CAACATGGAT
39012004 CAACATG
1 CAACATG
39012011 CAAATCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (10 bp):
CAACATGGAT
Found at i:39015542 original size:19 final size:19
Alignment explanation
Indices: 39015518--39015558 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
39015508 ACAAACCAAT
39015518 CATCAACCCTATTACATGC
1 CATCAACCCTATTACATGC
39015537 CATCAACCCTATTACATGC
1 CATCAACCCTATTACATGC
39015556 CAT
1 CAT
39015559 TTATAACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.27
Consensus pattern (19 bp):
CATCAACCCTATTACATGC
Found at i:39016147 original size:41 final size:41
Alignment explanation
Indices: 39016102--39016206 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
39016092 AATCGGCAGG
*
39016102 AAGCCTGCTAGGC-TAAAGGCCTAAT-ATAATACACC-GACTCA
1 AAGCCTGCTAGGCATAAA-GCCTAATAAT-ATACACCAG-CACA
* *
39016143 AAGCCTGCTAAGCATAAAGCCTAATAATATACATCAGCACA
1 AAGCCTGCTAGGCATAAAGCCTAATAATATACACCAGCACA
*
39016184 AAGCCTGCTAGGCACAAAGCCTA
1 AAGCCTGCTAGGCATAAAGCCTA
39016207 TTAGGCACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 49 0.88
42 7 0.12
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTAATAATATACACCAGCACA
Found at i:39016200 original size:16 final size:16
Alignment explanation
Indices: 39016179--39016222 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
39016169 ATATACATCA
39016179 GCACAAAGCCTGCTAG
1 GCACAAAGCCTGCTAG
**
39016195 GCACAAAGCCTATTAG
1 GCACAAAGCCTGCTAG
*
39016211 GCACAAATCCTG
1 GCACAAAGCCTG
39016223 ATAATATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (16 bp):
GCACAAAGCCTGCTAG
Found at i:39027059 original size:27 final size:26
Alignment explanation
Indices: 39027015--39027066 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
39027005 TTGGCTGCAA
*
39027015 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
39027042 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
39027067 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:39035904 original size:21 final size:21
Alignment explanation
Indices: 39035878--39035919 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
39035868 GAATGAAAAG
39035878 AGAAATATCAAAGTTTGTAAT
1 AGAAATATCAAAGTTTGTAAT
39035899 AGAAATATCAAAGTTTGTAAT
1 AGAAATATCAAAGTTTGTAAT
39035920 GAAGTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
AGAAATATCAAAGTTTGTAAT
Found at i:39037589 original size:40 final size:40
Alignment explanation
Indices: 39037545--39037707 Score: 202
Period size: 40 Copynumber: 4.0 Consensus size: 40
39037535 ATTAGGGTTA
39037545 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCT
1 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCT
* *
39037585 ATGAGATTTCGTGTAAGACCATATCTGAGATATGGCATCGAT
1 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATC--T
* * * *
39037627 ATGAGATTTCGTGTAAGACCACT-GCTGGGTTATTGGCATTGAT
1 ATGAGATTACGTGTAAGACCA-TATCTGGGATA-TGGCA-T-CT
*
39037670 ATGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
39037708 TGGTACGGTA
Statistics
Matches: 106, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
40 37 0.35
41 1 0.01
42 34 0.32
43 33 0.31
44 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (40 bp):
ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCT
Found at i:39037696 original size:85 final size:82
Alignment explanation
Indices: 39037545--39037707 Score: 220
Period size: 85 Copynumber: 2.0 Consensus size: 82
39037535 ATTAGGGTTA
* * * *
39037545 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATGAGATTTCGTGTAAGACCATATC
1 ATGAGATTACGTGTAAGACCATAGCTGGGATATGGCATATATGAGATTACATGTAAGACCATATC
39037610 TGAGATATGGCATCGAT
66 TGAGATATGGCATCGAT
* *
39037627 ATGAGATTTCGTGTAAGACCACT-GCTGGGTTATTGGCATTGATATGAGATTACATGTAAGACCA
1 ATGAGATTACGTGTAAGACCA-TAGCTGGGATA-TGGCA-T-ATATGAGATTACATGTAAGACCA
*
39037691 TATCTGGGATATGGCAT
62 TATCTGAGATATGGCAT
39037708 TGGTACGGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
82 27 0.39
83 6 0.09
84 1 0.01
85 36 0.51
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (82 bp):
ATGAGATTACGTGTAAGACCATAGCTGGGATATGGCATATATGAGATTACATGTAAGACCATATC
TGAGATATGGCATCGAT
Found at i:39042456 original size:25 final size:25
Alignment explanation
Indices: 39042411--39042458 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
39042401 GCATCTTAAG
39042411 TTTTTTTTTTTATGATGAAAGAAGT
1 TTTTTTTTTTTATGATGAAAGAAGT
39042436 TTTTTTATTATTTA-GAT-AAAGAA
1 TTTTTT-TT-TTTATGATGAAAGAA
39042459 ATGGGAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 12 0.57
26 5 0.24
27 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (25 bp):
TTTTTTTTTTTATGATGAAAGAAGT
Found at i:39045596 original size:12 final size:12
Alignment explanation
Indices: 39045579--39045603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39045569 ACTTAATCAC
39045579 TTTAATATTAAA
1 TTTAATATTAAA
39045591 TTTAATATTAAA
1 TTTAATATTAAA
39045603 T
1 T
39045604 CTTATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:39045695 original size:25 final size:25
Alignment explanation
Indices: 39045641--39045695 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
39045631 TCAAGATAAA
*
39045641 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
39045666 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
39045690 TATTAA
1 T-TTAA
39045696 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:39048219 original size:48 final size:46
Alignment explanation
Indices: 39048060--39048270 Score: 169
Period size: 46 Copynumber: 4.5 Consensus size: 46
39048050 TATGTGAGCC
* * *
39048060 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TCATG-AG--TGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGA-GAAGAAAGCT
* * *
39048106 AGTGTAAGACATGTCTGGGAAATGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAAAGCT
* *
39048152 AGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGA-AGA-AAGCT
* * ** * *
39048200 AGTGTAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACATTG--AGAAGAAAGCT
* *
39048249 AGTGTAAGACCTGTCTAGGACA
1 AGTGTAAGACATGTCTGGGACA
39048271 CGATGTTGAC
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.02
44 3 0.02
45 1 0.01
46 64 0.47
47 1 0.01
48 26 0.19
49 33 0.24
50 1 0.01
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAAAGCT
Found at i:39048250 original size:49 final size:48
Alignment explanation
Indices: 39048106--39048270 Score: 151
Period size: 49 Copynumber: 3.5 Consensus size: 48
39048096 CATGAGTGCC
* * * * *
39048106 AGTGTAAGACATGTCTGGGAAATGCATCGGCATTGAGACG--A-AAGCT
1 AGTGTAAGACCTGTCTGGGACATGCATCGACCTCGAGA-GATACAAGCT
* * *
39048152 AGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATATACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGCATCGACCTCGAGAGATACAAGCT
* * *
39048200 AGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CGATAGATGA-GAGCT
1 AGTGTAAGACCTGTCTGGGACAT-GCATCGAC-CTCGAGAGAT-ACAAGCT
*
39048249 AGTGTAAGACCTGTCTAGGACA
1 AGTGTAAGACCTGTCTGGGACA
39048271 CGATGTTGAC
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
46 35 0.35
47 1 0.01
48 26 0.26
49 37 0.37
50 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGCATCGACCTCGAGAGATACAAGCT
Found at i:39048451 original size:31 final size:31
Alignment explanation
Indices: 39048416--39048478 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
39048406 AAAGTGAGAA
39048416 AAGTTATGACCATGTGGTGAGTGGTACAGGT
1 AAGTTATGACCATGTGGTGAGTGGTACAGGT
39048447 AAGTTATGACCATGTGGTGAGTGGTACAGGT
1 AAGTTATGACCATGTGGTGAGTGGTACAGGT
39048478 A
1 A
39048479 CCTACTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.35, T:0.29
Consensus pattern (31 bp):
AAGTTATGACCATGTGGTGAGTGGTACAGGT
Found at i:39055673 original size:40 final size:40
Alignment explanation
Indices: 39055546--39055675 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
39055536 ATGCTGGAAA
* *
39055546 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
39055586 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
39055626 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
39055666 TTATATCCGG
1 TTATATCCGG
39055676 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:39061192 original size:15 final size:15
Alignment explanation
Indices: 39061168--39061199 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39061158 TATGCATGCA
*
39061168 AAATATAAAAGACAT
1 AAATACAAAAGACAT
39061183 AAATACAAAAGACAT
1 AAATACAAAAGACAT
39061198 AA
1 AA
39061200 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:39062133 original size:69 final size:67
Alignment explanation
Indices: 39061939--39062134 Score: 191
Period size: 69 Copynumber: 2.9 Consensus size: 67
39061929 AAGAGGTTTA
* * ** * *
39061939 AGGTGTAAGACCATAGCTCGATTATGGTGACCAATGA-AGT-CTGCAATGACATTAAACATAGGG
1 AGGTGTAAGACCATAGCTTGACTATGGCAACCAAT-ATAGTCCTCCAA-GAAATTAAACATAGGG
39062002 TTAT
64 TTAT
* * * * * **
39062006 ATGGTGTAAGACCACAGCTTGGCTATGGCAACCAGTATAGTCCACCGAGAAAGAAAACACT-GGG
1 A-GGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCCTCCAAGAAATTAAACA-TAGGG
39062070 ATTAT
64 -TTAT
*
39062075 GAGGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCCTCCAAGATATTAAACAT
1 -AGGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCCTCCAAGAAATTAAACAT
39062135 GAAACCTGAT
Statistics
Matches: 102, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
67 2 0.02
68 42 0.41
69 57 0.56
70 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (67 bp):
AGGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCCTCCAAGAAATTAAACATAGGGTT
AT
Found at i:39066950 original size:13 final size:13
Alignment explanation
Indices: 39066932--39066956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39066922 AACGAAAACA
39066932 GACACGGCCGTGC
1 GACACGGCCGTGC
39066945 GACACGGCCGTG
1 GACACGGCCGTG
39066957 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:39072878 original size:30 final size:31
Alignment explanation
Indices: 39072822--39072883 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
39072812 TAAGCACATG
39072822 ATGAAAAGAAGAATCCAACACTAGG-AATAA
1 ATGAAAAGAAGAATCCAACACTAGGAAATAA
* * *
39072852 ATGAAAGGAAGAATGCAAGTAC-AGGAAATAA
1 ATGAAAAGAAGAATCCAA-CACTAGGAAATAA
39072883 A
1 A
39072884 GAGTTCGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.56, C:0.10, G:0.21, T:0.13
Consensus pattern (31 bp):
ATGAAAAGAAGAATCCAACACTAGGAAATAA
Found at i:39089143 original size:39 final size:39
Alignment explanation
Indices: 39089012--39089202 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
39089002 GGATATAACG
* ** **
39089012 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
39089052 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
39089092 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
39089130 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
39089170 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
39089203 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:39089147 original size:78 final size:80
Alignment explanation
Indices: 39089052--39089202 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
39089042 GGTTATAGCG
* * * *
39089052 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
39089114 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
39089130 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
39089195 AGCCCGGA
66 AGCCCGGA
39089203 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:39098549 original size:40 final size:40
Alignment explanation
Indices: 39098383--39098550 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
39098373 CATTTGAATG
* * *
39098383 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
39098423 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
39098463 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
39098503 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
39098543 GTATCCGG
1 ATATCCGG
39098551 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:39106530 original size:40 final size:40
Alignment explanation
Indices: 39106364--39106531 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
39106354 CATTTGAATG
* * *
39106364 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
39106404 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
39106444 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
39106484 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
39106524 GTATCCGG
1 ATATCCGG
39106532 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:39109707 original size:47 final size:47
Alignment explanation
Indices: 39109653--39110081 Score: 669
Period size: 47 Copynumber: 9.1 Consensus size: 47
39109643 TTAGGATTTT
** *
39109653 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39109700 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
39109747 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39109794 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39109841 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
39109888 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCAAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39109935 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39109982 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
39110029 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39110076 ATGTGA
1 ATGTGA
39110082 AATATATATA
Statistics
Matches: 347, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 347 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39109755 original size:25 final size:25
Alignment explanation
Indices: 39109680--39109755 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
39109670 GTGTATATAT
39109680 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
39109705 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
39109727 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
39109752 GTGA
1 GTGA
39109756 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:39109834 original size:141 final size:141
Alignment explanation
Indices: 39109652--39110081 Score: 788
Period size: 141 Copynumber: 3.0 Consensus size: 141
39109642 TTTAGGATTT
** *
39109652 TATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
39109717 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
39109782 GCCGAATGGCC
131 GCCGAATGGCC
39109793 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
39109858 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
*
39109923 GCCAAATGGCC
131 GCCGAATGGCC
39109934 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
* *
39109999 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAA
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
*
39110064 GCCGAATGGTC
131 GCCGAATGGCC
*
39110075 AATGTGA
1 TATGTGA
39110082 AATATATATA
Statistics
Matches: 280, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 280 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:39109896 original size:25 final size:25
Alignment explanation
Indices: 39109821--39109896 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
39109811 ATGCATATAT
39109821 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
39109846 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
39109868 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
39109893 GTGA
1 GTGA
39109897 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:39110037 original size:25 final size:25
Alignment explanation
Indices: 39109962--39110037 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
39109952 ATGCATATAT
39109962 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
39109987 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
39110009 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
39110034 GTGA
1 GTGA
39110038 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:39110431 original size:37 final size:37
Alignment explanation
Indices: 39110286--39110430 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
39110276 GGAAATATAT
*
39110286 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39110323 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
39110360 TCCGGGTAAGGCCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
39110397 TCTGGGTAAGACCTGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
39110431 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:39115665 original size:24 final size:24
Alignment explanation
Indices: 39115633--39115695 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
39115623 AATCTCAAAT
39115633 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
39115657 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
39115681 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
39115696 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:39123527 original size:24 final size:24
Alignment explanation
Indices: 39123495--39123557 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
39123485 AATCTCAAAT
39123495 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
39123519 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
39123543 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
39123558 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:39126854 original size:40 final size:40
Alignment explanation
Indices: 39126799--39126996 Score: 337
Period size: 40 Copynumber: 5.0 Consensus size: 40
39126789 ATTTATTGAT
39126799 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
39126839 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
39126879 ATTTGTGCTAGTGACTACATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
39126919 ATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
* *
39126959 ATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
39126997 TACTTGGGTT
Statistics
Matches: 151, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.09
40 135 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:39131594 original size:16 final size:16
Alignment explanation
Indices: 39131573--39131606 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
39131563 CAATGCTTTC
39131573 TTTACATAGGGAGAGT
1 TTTACATAGGGAGAGT
39131589 TTTACATAGGGAGAGT
1 TTTACATAGGGAGAGT
39131605 TT
1 TT
39131607 AGAGAGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (16 bp):
TTTACATAGGGAGAGT
Found at i:39132181 original size:19 final size:19
Alignment explanation
Indices: 39132137--39132173 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39132127 GGCTCCCAGG
*
39132137 CCCAATTTACAATCTTAGA
1 CCCAATTTACAATATTAGA
*
39132156 CCCAATTTACGATATTAG
1 CCCAATTTACAATATTAG
39132174 GTCCAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (19 bp):
CCCAATTTACAATATTAGA
Found at i:39136807 original size:30 final size:30
Alignment explanation
Indices: 39136773--39136838 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
39136763 TGTAGCATGA
39136773 CCGTGTGTCACACACGGCTAAGACACACGC
1 CCGTGTGTCACACACGGCTAAGACACACGC
39136803 CCGTGTGTCACACACGGCTAAGACACACGC
1 CCGTGTGTCACACACGGCTAAGACACACGC
39136833 CCGTGT
1 CCGTGT
39136839 CTCTGCCCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.15
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCTAAGACACACGC
Found at i:39137863 original size:47 final size:47
Alignment explanation
Indices: 39137765--39137892 Score: 123
Period size: 47 Copynumber: 2.7 Consensus size: 47
39137755 AATCGATAAG
** * * *
39137765 TACCTATACCATGACCCACAACCAAATCAAGGTAACTTATTCGGGAG
1 TACCTATACCATGACCCGTAACCAAATCAAGGTAACTCATTCGGAAA
* * *
39137812 TACCTATACCATGGCCCGTAACCAAATCAAGGTAACTCCTCTC-TAAA
1 TACCTATACCATGACCCGTAACCAAATCAAGGTAACTCAT-TCGGAAA
* ** * *
39137859 TACCTACACCATTTCCCGTAGCCAAATTAAGGTA
1 TACCTATACCATGACCCGTAACCAAATCAAGGTA
39137893 TTACTCACAC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 65 0.97
48 2 0.03
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGACCCGTAACCAAATCAAGGTAACTCATTCGGAAA
Found at i:39143396 original size:12 final size:13
Alignment explanation
Indices: 39143368--39143400 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
39143358 TTATTTCTTT
39143368 TTCTCCATCTACC
1 TTCTCCATCTACC
*
39143381 TTCTCC-TCTTCC
1 TTCTCCATCTACC
39143393 TTCTCCAT
1 TTCTCCAT
39143401 AGTCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:39144500 original size:28 final size:28
Alignment explanation
Indices: 39144468--39144532 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
39144458 ATTTACTAGA
*
39144468 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
39144496 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
39144524 ATACCCCTA
1 ATACCCCTA
39144533 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:39144696 original size:27 final size:28
Alignment explanation
Indices: 39144638--39144727 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
39144628 AGGAAGCGTC
* *
39144638 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
39144666 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
39144693 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
39144722 CTGGTG
1 CTGGTG
39144728 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:39144738 original size:29 final size:28
Alignment explanation
Indices: 39144648--39144738 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
39144638 CTGGTGGCTA
* * * *
39144648 TGCCATAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
39144676 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
39144703 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
39144732 TGTCACA
1 TGCCACA
39144739 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.45
28 13 0.25
29 15 0.29
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:39144746 original size:55 final size:56
Alignment explanation
Indices: 39144638--39144752 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
39144628 AGGAAGCGTC
* * * *
39144638 CTGGTGGCTATGCCATAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
39144693 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
39144749 CTGG
1 CTGG
39144753 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:39145212 original size:19 final size:19
Alignment explanation
Indices: 39145188--39145226 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
39145178 TTTTAATTAT
* *
39145188 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
39145207 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
39145226 T
1 T
39145227 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:39150507 original size:38 final size:39
Alignment explanation
Indices: 39150407--39150657 Score: 309
Period size: 38 Copynumber: 6.5 Consensus size: 39
39150397 AAGCCAAGTA
* * *
39150407 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAATG
* *
39150445 CCTTCGGGACATAGCCCGGATATAGTAACTCACACAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
*
39150484 CCTTC-GGACTTAGCCCGGATATAGTAACTCACA-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
*
39150521 CCTTCGGGACTTAGCCCGGATATA-TAACTCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
* *
39150559 CCTTCGGAACTTAGCCCGGATATAATAACTCGCACAAAT-
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
* *
39150598 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAATG
39150639 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39150658 TTATCATCCA
Statistics
Matches: 190, Mismatches: 13, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
37 17 0.09
38 85 0.45
39 59 0.31
40 6 0.03
41 23 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
Found at i:39158631 original size:39 final size:40
Alignment explanation
Indices: 39158549--39158729 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
39158539 GACTCGCTCA
** ** *
39158549 AATGCCTTC-GGACGAAGCCCGG-TTATAGCGACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCACG
* *
39158588 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACG
* *
39158627 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACG
* * * *
39158666 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCACG
*
39158706 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39158730 CATCATTCGA
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
38 24 0.21
39 30 0.26
40 53 0.46
41 9 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACG
Found at i:39158646 original size:78 final size:79
Alignment explanation
Indices: 39158549--39158729 Score: 197
Period size: 78 Copynumber: 2.3 Consensus size: 79
39158539 GACTCGCTCA
* ** * * *
39158549 AATGCCTTCGGACGAAGCCCGG-TTATAGCGACTCGCACGAATGCCTTCGGGA-CTTAACCCGGG
1 AATGCCTTCGGGCTTAGCCCGGATT-TAGCAACTCGCACGAATGCCTTC-GGATCCTAACCCGGA
*
39158612 TTTAGTAACTT-GCAC
64 TATAGTAACTTAGCAC
** **
39158627 AATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGATTTAGCAACTCGCACGAATGCCTTCGGATCCTAACCCGGATA
*
39158692 TAGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
39158706 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
39158730 CATCATTCGA
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
77 3 0.03
78 55 0.64
79 17 0.20
80 11 0.13
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGATTTAGCAACTCGCACGAATGCCTTCGGATCCTAACCCGGATA
TAGTAACTTAGCAC
Found at i:39177572 original size:23 final size:23
Alignment explanation
Indices: 39177542--39177586 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
39177532 TGAATAGTAA
39177542 TTGTTATAAATTATCTAAAAATT
1 TTGTTATAAATTATCTAAAAATT
39177565 TTGTTATAAATTATCTAAAAAT
1 TTGTTATAAATTATCTAAAAAT
39177587 GTTCTAAAAG
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:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
TTGTTATAAATTATCTAAAAATT
Found at i:39186005 original size:18 final size:17
Alignment explanation
Indices: 39185978--39186011 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
39185968 TTAATTTTGT
39185978 TAAAAAAATTTTAAAACA
1 TAAAAAAA-TTTAAAACA
*
39185996 TAAAATAATTTAAAAC
1 TAAAAAAATTTAAAAC
39186012 TTTAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAAATTTAAAACA
Found at i:39186017 original size:18 final size:18
Alignment explanation
Indices: 39185977--39186019 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
39185967 GTTAATTTTG
39185977 TTAAAAAAATTTTAAAAC
1 TTAAAAAAATTTTAAAAC
* *
39185995 ATAAAATAA-TTTAAAAC
1 TTAAAAAAATTTTAAAAC
39186012 TTTAAAAA
1 -TTAAAAA
39186020 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAAAATTTTAAAAC
Found at i:39190093 original size:43 final size:43
Alignment explanation
Indices: 39190040--39190228 Score: 276
Period size: 43 Copynumber: 4.4 Consensus size: 43
39190030 TATCCCTGAT
* * * *
39190040 ATGGTCTTACATGTTATCAC-ATATCAATGCCATTGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATA-CAATACCAATGTCCCAGAC
* *
39190083 AGGGTCTTACACG-AATCA-ATATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACA-ATACAATACCAATGTCCCAGAC
39190125 ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
39190168 ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
*
39190211 ATAGTCTTACACGTAATC
1 ATGGTCTTACACGTAATC
39190229 GCAACTCGAT
Statistics
Matches: 135, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.25
43 100 0.74
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
Found at i:39190162 original size:85 final size:86
Alignment explanation
Indices: 39190021--39190228 Score: 280
Period size: 85 Copynumber: 2.4 Consensus size: 86
39190011 ATAAGCTCAA
* * * * * * *
39190021 ACAATGCC-ATATCCCTGATATGGTCTTACATGTTATCACATATCAATGCCATTGTCCCAGACAG
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCAATACCAATGTCCCAGACAG
39190085 GGTCTTACACG-AATCA-ATAT
66 GGTCTTACACGTAATCACA-AT
39190105 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACAATACCAATGTCCCAGACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CAATACCAATGTCCCAGACA
*
39190169 TGGTCTTACACGTAATCACAAT
65 GGGTCTTACACGTAATCACAAT
* *
39190191 ACAATACCAATGTCCCAGACATAGTCTTACACGTAATC
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
39190229 GCAACTCGAT
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
84 10 0.09
85 56 0.51
86 43 0.39
87 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (86 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCAATACCAATGTCCCAGACAG
GGTCTTACACGTAATCACAAT
Found at i:39191713 original size:40 final size:39
Alignment explanation
Indices: 39191664--39191871 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 39
39191654 TCTTCGGAAT
* *
39191664 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
39191703 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
39191743 TTAGCCCGGATATAACAACTCGCATGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCA-CAATGCCTTCGGGTC
*
39191783 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* * *
39191823 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
39191863 TTAGCCCGG
1 TTAGCCCGG
39191872 GTATCATTCA
Statistics
Matches: 143, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 137 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:39191791 original size:80 final size:80
Alignment explanation
Indices: 39191664--39191871 Score: 258
Period size: 80 Copynumber: 2.6 Consensus size: 80
39191654 TCTTCGGAAT
* * * * * * *** *
39191664 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
39191728 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
39191743 TTAGCCCGGATATAA-CAACTCGCATGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
1 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
*
39191807 CGAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* *
39191823 TTAGCCCGGATATAATCATTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGG
39191872 GTATCATTCA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 5 0.05
80 104 0.95
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
AAATGCCTTCGGGTC
Found at i:39196455 original size:42 final size:43
Alignment explanation
Indices: 39196351--39196464 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
39196341 CAATGTCATT
* *
39196351 TCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATA
1 TCCCAGATATGGTCTTACACGTAATCTCATATCGATGCCAATA
* * *
39196394 GCCCAGCTATGGTCTTACACG-AAGTCTCATATTGATGCC-ATA
1 TCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGCCAATA
*
39196436 TCCCAGATATGGTCCTACACGTAATCTCA
1 TCCCAGATATGGTCTTACACGTAATCTCA
39196465 GTAACTCTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACACGTAATCTCATATCGATGCCAATA
Found at i:39199255 original size:25 final size:26
Alignment explanation
Indices: 39199227--39199279 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
39199217 GGTGCAAGTT
39199227 ATATC-GATTTGGCTTCGGGCCATGC
1 ATATCAGATTTGGCTTCGGGCCATGC
*
39199252 ATATCAGATGATTTGGCTTCGGGTCATG
1 ATATC--A-GATTTGGCTTCGGGCCATG
39199280 ATAATTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
29 18 0.78
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (26 bp):
ATATCAGATTTGGCTTCGGGCCATGC
Found at i:39200765 original size:6 final size:6
Alignment explanation
Indices: 39200747--39200835 Score: 51
Period size: 6 Copynumber: 14.3 Consensus size: 6
39200737 AAGAAACATT
* * *
39200747 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACGGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
39200796 ATCAGA ATCA-A TATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
39200836 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
5 5 0.08
6 47 0.73
7 9 0.14
8 2 0.03
9 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:39200823 original size:31 final size:31
Alignment explanation
Indices: 39200731--39200835 Score: 99
Period size: 31 Copynumber: 3.4 Consensus size: 31
39200721 TAACCTATTA
* * *
39200731 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAATATCAGGTAAC-AGAAT
* * *
39200761 CAGAATCAGAATCAGA-ATTAGGTGACGGAAT
1 CAGAATCAGAATCA-ATATCAGGTAACAGAAT
39200792 CAGAATCAGAATCAATATCAGGTAACAGAAT
1 CAGAATCAGAATCAATATCAGGTAACAGAAT
*
39200823 CAAAAATCAGAAT
1 C-AGAATCAGAAT
39200836 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
30 16 0.27
31 32 0.53
32 12 0.20
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAATATCAGGTAACAGAAT
Found at i:39201272 original size:27 final size:26
Alignment explanation
Indices: 39201242--39201304 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
39201232 AGGGGCAAAA
39201242 TGGTAATTTTACCCCACAAAGGTATCT
1 TGGTAATTTTACCCCACAAAGGTAT-T
* * **
39201269 TGGTAATTCTACCCTACAGGGGTATT
1 TGGTAATTTTACCCCACAAAGGTATT
39201295 TCGGTAATTT
1 T-GGTAATTT
39201305 CACAAATCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (26 bp):
TGGTAATTTTACCCCACAAAGGTATT
Found at i:39201343 original size:54 final size:54
Alignment explanation
Indices: 39201285--39201412 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 54
39201275 TTCTACCCTA
* *
39201285 CAGGGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTCACAAATCGA-AGGTATTTGGGTAATTTTACAAAC
* * * *** **
39201339 CAGGGGTATTTTGGTCATTTTATTGATCGAAGGTATTTGGGTAATTTTGTAAAC
1 CAGGGGTATTTCGGTAATTTCACAAATCGAAGGTATTTGGGTAATTTTACAAAC
* *
39201393 CAAGGGTATTTCAGTAATTT
1 CAGGGGTATTTCGGTAATTT
39201413 TGTAAATCGA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTCGGTAATTTCACAAATCGAAGGTATTTGGGTAATTTTACAAAC
Found at i:39201359 original size:27 final size:27
Alignment explanation
Indices: 39201285--39201360 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
39201275 TTCTACCCTA
* * *
39201285 CAGGGGTATTTCGGTAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
39201312 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
39201339 CAGGGGTATTTTGGTCATTTTA
1 CAGGGGTATTTTGGTAATTTTA
39201361 TTGATCGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:39201400 original size:27 final size:27
Alignment explanation
Indices: 39201288--39201427 Score: 102
Period size: 27 Copynumber: 5.2 Consensus size: 27
39201278 TACCCTACAG
* * * *
39201288 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTATAAACCAA
* * *
39201315 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTATAAACCAA
* * * * *
39201342 GGGTATTTTGGTCATTTTATTGATCGAA
1 GGGTATTTCGGTAATTTTA-TAAACCAA
* *
39201370 -GGTATTTGGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTATAAACCAA
* * * *
39201396 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTCGGTAATTTTATAAACCAA
39201423 GGGTA
1 GGGTA
39201428 AAATGGTAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 5 0.05
27 84 0.91
28 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAACCAA
Found at i:39201422 original size:54 final size:54
Alignment explanation
Indices: 39201288--39201427 Score: 129
Period size: 54 Copynumber: 2.6 Consensus size: 54
39201278 TACCCTACAG
* * * * * *
39201288 GGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTATAAATCGA-AGGTATTTGGGTAATTTTACAAACCAA
** * ** **
39201342 GGGTATTTTGGTCATTTTATTGATCGAAGGTATTTGGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTATAAATCGAAGGTATTTGGGTAATTTTACAAACCAA
* *
39201396 GGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTCAGTAATTTTATAAATCGAAGGTA
39201428 AAATGGTAAT
Statistics
Matches: 67, Mismatches: 18, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTATAAATCGAAGGTATTTGGGTAATTTTACAAACCAA
Found at i:39201475 original size:27 final size:27
Alignment explanation
Indices: 39201445--39201539 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
39201435 AATTCTATCT
*
39201445 TATTTCAGTAATTTTACAAATCGAGGA
1 TATTTCAGTAATTTTACAAATCGAGGG
** * *
39201472 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
39201499 TACTTT-GGTAATTTTACAAGTCGAGGG
1 TA-TTTCAGTAATTTTACAAATCGAGGG
39201526 TATTTCAGTAATTT
1 TATTTCAGTAATTT
39201540 GGTAAACTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 51 0.89
28 3 0.05
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:39202701 original size:567 final size:550
Alignment explanation
Indices: 39201644--39202764 Score: 1936
Period size: 567 Copynumber: 2.0 Consensus size: 550
39201634 TAGCCCAAAT
*
39201644 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAGCTTATC
1 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
* * *
39201709 CAATTGGGCCCACATGGCCCCTTTCGGCCCATCGCTGCCCGAAGTAGCCATCCTACAGCTAGAGT
66 CAATTGGGCCCACATGGCCCCTTTCGGCCCATCACGGCCCGAAGTAGCCATCCTACAACTAGAGT
39201774 AGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGACG
131 AGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGACG
*
39201839 CCCAACCCAAACGAGCACACCATAAAGTGAGAGGGATCAGCCAAGAAAGGTACCTTACTCTCCTC
196 CCCAACCCAAACGAGCACACCATAAAGTGAAAGGGATCAGCCAAGAAAGGTACCTTACTCTCCTC
*
39201904 ATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCC
261 ATAGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCC
*
39201969 CTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCTGCCCCCTGTTAGCAAAATAAATGCTC
326 CTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTC
* *
39202034 TTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTTAGATGCTCCATACGCTACTTGCCACTAA
391 TTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCACACGCTACTTGCCACTAA
*
39202099 GCCACAAGGCTTTTTTTGTCACAATTTCTCCAACAATATTCTTAAGGCCTACCTACTACACCCAG
456 GCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGCCTACCTACTACACCCAG
39202164 GGTTTGATTCACTTTAAACCAAAATTTTTG
521 GGTTTGATTCACTTTAAACCAAAATTTTTG
39202194 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
1 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAAC-T-T-
39202259 CAATTGGGCCCGTAGGCCCATTGGGCCCACATGGCCCCTTTCGGCCCATCACGGCCCGAAGTAGC
63 --A-T----CC--A-----ATTGGGCCCACATGGCCCCTTTCGGCCCATCACGGCCCGAAGTAGC
*
39202324 CATCCTACAACTAGAGTAGTGAGAAATACACACCTGATTGGAGACTGGAGTTAATCCACGCTCCG
114 CATCCTACAACTAGAGTAGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCG
*
39202389 AGCACTCTTAGCCGACGCCCAACCCAAACGAGCACGCCATAAAGTGAAAGGGATCAGCCAAGAAA
179 AGCACTCTTAGCCGACGCCCAACCCAAACGAGCACACCATAAAGTGAAAGGGATCAGCCAAGAAA
*
39202454 GGTATCTTACTCTCCTCATAGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGC
244 GGTACCTTACTCTCCTCATAGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGC
*
39202519 TTCCCGATGTGTGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGT
309 TTCCCGATGTGGGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGT
* *
39202584 TAGCTAAATAAATGCTCTTTGCTTGCCATAGGATTCGAACCCATTCCTCCCCTCAGATGCTCCAC
374 TAGCAAAATAAATGCTCTTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCAC
*
39202649 ATGCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGC
439 ACGCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGC
39202714 CTACCTACTACACCCAGGGTTTGATTCACTTTAAACCAAAATTTTTG
504 CTACCTACTACACCCAGGGTTTGATTCACTTTAAACCAAAATTTTTG
39202761 CTAG
1 CTAG
39202765 AGTCCAGGTT
Statistics
Matches: 537, Mismatches: 17, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
550 59 0.11
551 1 0.00
552 1 0.00
555 1 0.00
556 1 0.00
560 2 0.00
562 1 0.00
567 471 0.88
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (550 bp):
CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
CAATTGGGCCCACATGGCCCCTTTCGGCCCATCACGGCCCGAAGTAGCCATCCTACAACTAGAGT
AGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGACG
CCCAACCCAAACGAGCACACCATAAAGTGAAAGGGATCAGCCAAGAAAGGTACCTTACTCTCCTC
ATAGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTTCCCGATGTGGGATCC
CTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAAAATAAATGCTC
TTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCACACGCTACTTGCCACTAA
GCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGCCTACCTACTACACCCAG
GGTTTGATTCACTTTAAACCAAAATTTTTG
Found at i:39204045 original size:18 final size:17
Alignment explanation
Indices: 39204013--39204046 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39204003 GGCTTTAACC
*
39204013 CATTACAGAATTAGAAA
1 CATTACAGAACTAGAAA
39204030 CATTATCAGAACTAGAA
1 CATTA-CAGAACTAGAA
39204047 TCAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAACTAGAAA
Found at i:39204052 original size:6 final size:6
Alignment explanation
Indices: 39204034--39204099 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
39204024 TAGAAACATT
* * *
39204034 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACGGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
39204083 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
39204100 GTAACAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.90
7 2 0.04
8 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:39204111 original size:31 final size:31
Alignment explanation
Indices: 39204045--39204122 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
39204035 TCAGAACTAG
* * **
39204045 AATCAGAATCAGAATCAGAATTAGGTGACGG
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
*
39204076 AATCAGAATCAGAATCAGTATCAGGTAACAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
*
39204107 AATCAAAAATCAGAAT
1 AATC-AGAATCAGAAT
39204123 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 30 0.75
32 10 0.25
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAA
Found at i:39204560 original size:27 final size:27
Alignment explanation
Indices: 39204530--39204643 Score: 135
Period size: 26 Copynumber: 4.3 Consensus size: 27
39204520 GGGGCAAAAT
* * *
39204530 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
39204557 GGTAA-TTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
39204583 GAT-ATTTCTACCCTACAAGGGT-TTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
39204609 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
39204636 AGTAATTT
1 GGTAATTT
39204644 CACAAATTAG
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.01
26 41 0.56
27 31 0.42
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:39204752 original size:54 final size:54
Alignment explanation
Indices: 39204624--39204766 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
39204614 TTCTACCCTA
* * * *
39204624 CAAGGGTATTTCAGTAATTTCACAAAT-TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTGGGTAATTTTACAAAC
* ** ** **
39204678 CAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTGGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTGGGTAATTTTACAAAC
*
39204732 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
39204767 AAATGGTAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 70 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTGGGTAATTTTACAAAC
Found at i:39204753 original size:27 final size:27
Alignment explanation
Indices: 39204624--39204766 Score: 115
Period size: 27 Copynumber: 5.3 Consensus size: 27
39204614 TTCTACCCTA
* * *
39204624 CAAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * * * *
39204651 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * **
39204678 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * * *
39204705 CGAGGGTATTTGGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* *
39204732 CAAGGGTATTTCAGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
*
39204759 CGAGGGTA
1 CAAGGGTA
39204767 AAATGGTAAT
Statistics
Matches: 93, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:39204822 original size:27 final size:26
Alignment explanation
Indices: 39204792--39204878 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
39204782 TTTATTTCAA
*
39204792 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGGTATTT-GG
* *
39204819 TAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTA-TTTGG
* *
39204846 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTT-GG
39204873 TAATTT
1 TAATTT
39204879 GGTAAACTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
26 3 0.06
27 45 0.88
28 3 0.06
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
TAATTTTACAAATCGAGGGTATTTGG
Found at i:39206292 original size:17 final size:16
Alignment explanation
Indices: 39206266--39206299 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
39206256 ACAATATGAT
39206266 TGAGATGAATGATTTA
1 TGAGATGAATGATTTA
*
39206282 TGAGAATGAATGCTTTA
1 TGAG-ATGAATGATTTA
39206299 T
1 T
39206300 AGTTGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (16 bp):
TGAGATGAATGATTTA
Found at i:39215015 original size:40 final size:40
Alignment explanation
Indices: 39214938--39215319 Score: 642
Period size: 40 Copynumber: 9.6 Consensus size: 40
39214928 AGACCAAGTA
* * *
39214938 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
39214977 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
39215017 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
39215057 CTTTCGGGGCTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
39215097 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
39215137 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
39215177 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
39215217 CCTTCGGGACTTAGCCCTGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
39215257 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
39215297 CCTTCGGGACTTAGCCTGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
39215320 CATCCGAATA
Statistics
Matches: 326, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 14 0.04
40 312 0.96
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:39219809 original size:18 final size:18
Alignment explanation
Indices: 39219783--39219837 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
39219773 GGACTTGCAT
*
39219783 ACTGCTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
*
39219801 ACTGTTTACTGTTATTGC
1 ACTGTTTACTGTTACTGC
*
39219819 ACTGTTTACTGTTGCTGC
1 ACTGTTTACTGTTACTGC
39219837 A
1 A
39219838 ATGGGCCAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:39225556 original size:39 final size:39
Alignment explanation
Indices: 39225442--39225623 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
39225432 GCTACTCGTT
*
39225442 CAAATGCCTTCGGGATATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGCT-TAGCCCGGATT-TAGTAACTCGCA
* *
39225482 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCG-GGCTTAGCCCGGATTTAGTAACTCGCA
* * *
39225522 CCAATGCTTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
39225561 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
39225602 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGG-CTTAGCCC
39225624 AGACATCATT
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 35 0.30
40 71 0.60
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:39225613 original size:79 final size:79
Alignment explanation
Indices: 39225442--39225623 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 79
39225432 GCTACTCGTT
* *
39225442 CAAATGCCTTCGGGATATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
1 CAAA-GCCTTCGGGCT-TAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
* *
39225507 ATTTAGTAACTCGCAC
64 ATATAGTAACTAGCAC
* * **
39225523 CAATGCTTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCG-GATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
39225586 ATATGGTCACTTAGCA-
64 ATATAGTAAC-TAGCAC
39225602 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGG-CTTAGCCC
39225624 AGACATCATT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 58 0.68
80 21 0.25
81 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTAACTAGCAC
Found at i:39228540 original size:24 final size:25
Alignment explanation
Indices: 39228513--39228564 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
39228503 GCCTAGCCTC
* *
39228513 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGAGCAAAGCCCT
*
39228537 TTTTGATAAACTAGAGCAAAGCCCT
1 TTTTAATAAACTAGAGCAAAGCCCT
39228562 TTT
1 TTT
39228565 CGGTAAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGAGCAAAGCCCT
Found at i:39228548 original size:25 final size:25
Alignment explanation
Indices: 39228520--39228589 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
39228510 CTCTTTTAAT
*
39228520 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
39228545 AACTAGAGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
39228570 AATTGGGGCATAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
39228590 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 35 0.95
26 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:39229460 original size:27 final size:26
Alignment explanation
Indices: 39229399--39229462 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
39229389 GGGCATATTC
39229399 GTCATTTTACCATACAGGGGTATACG
1 GTCATTTTACCATACAGGGGTATACG
* * *
39229425 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGG-TATACG
*
39229452 GTCTTTTTACC
1 GTCATTTTACC
39229463 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.56
27 14 0.44
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
GTCATTTTACCATACAGGGGTATACG
Found at i:39229464 original size:26 final size:25
Alignment explanation
Indices: 39229399--39229474 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
39229389 GGGCATATTC
39229399 GTCATTTTACCATACAGGGGTATACG
1 GTCATTTTACC-TACAGGGGTATACG
* *
39229425 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTA-CCTACAGGGG-TATACG
* *
39229452 GTCTTTTTACCTATTAGGGGTAT
1 GTCATTTTACCTA-CAGGGGTAT
39229475 TTTAGTCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (25 bp):
GTCATTTTACCTACAGGGGTATACG
Found at i:39229546 original size:27 final size:27
Alignment explanation
Indices: 39229520--39229649 Score: 111
Period size: 27 Copynumber: 4.7 Consensus size: 27
39229510 ATCTACAAAC
*
39229520 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
39229547 CAATGGCATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
*
39229576 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
39229603 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
39229630 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
39229650 CACAAACCAG
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 55 0.68
28 7 0.09
29 17 0.21
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:39229621 original size:56 final size:55
Alignment explanation
Indices: 39229513--39229682 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 55
39229503 TTGGTAAATC
* * * *
39229513 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGCATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * * *
39229568 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** *** *
39229623 TACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGTTGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
39229677 TACAAA
1 TACAAA
39229683 CTAGGGGTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 45 0.47
55 14 0.15
56 36 0.38
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:39229692 original size:27 final size:26
Alignment explanation
Indices: 39229579--39229735 Score: 118
Period size: 27 Copynumber: 5.8 Consensus size: 26
39229569 AGAAAGTCAA
**
39229579 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAAT-AG
*
39229606 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAATAG
** * *
39229632 AGGGTATTTCAGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-TAG
**
39229660 TTGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAA-TAG
* **
39229687 GGGTATTTTGGTAATTCTACCCTATAG
1 GGGTATTTTGGTAATTTTA-CAAATAG
** *
39229714 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
39229736 TCGAGGGTAA
Statistics
Matches: 101, Mismatches: 25, Indels: 9
0.75 0.19 0.07
Matches are distributed among these distances:
26 3 0.03
27 95 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAG
Found at i:39229764 original size:27 final size:27
Alignment explanation
Indices: 39229734--39229820 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
39229724 GTAATTTCAC
*
39229734 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
39229761 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
39229788 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
39229815 AATCGA
1 AATCGA
39229821 ACGTACTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:39239604 original size:18 final size:18
Alignment explanation
Indices: 39239578--39239639 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
39239568 TGTGGGTAGG
39239578 CCGTGTGGTCACACACAC
1 CCGTGTGGTCACACACAC
*
39239596 CCATGTGGTCACACA-AGC
1 CCGTGTGGTCACACACA-C
*
39239614 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACAC
39239632 CCGTGTGG
1 CCGTGTGG
39239640 CTGGGGACAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
17 1 0.03
18 38 0.97
ACGTcount: A:0.19, C:0.35, G:0.27, T:0.18
Consensus pattern (18 bp):
CCGTGTGGTCACACACAC
Found at i:39249153 original size:18 final size:18
Alignment explanation
Indices: 39249132--39249168 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
39249122 ATAATACTGT
* *
39249132 ATATAAATATATATATAC
1 ATATAAATAAAAATATAC
39249150 ATATAAATAAAAATATAC
1 ATATAAATAAAAATATAC
39249168 A
1 A
39249169 CTAATATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATAAATAAAAATATAC
Found at i:39249250 original size:135 final size:141
Alignment explanation
Indices: 39249087--39249502 Score: 596
Period size: 148 Copynumber: 2.9 Consensus size: 141
39249077 GAGCAAATAT
* * *
39249087 AATATCATAATAATATTAAAATAAAGTAATTAAAAATAATACTGTATAT-AA-ATATAT-ATATA
1 AATATAATAAAAATATTAAAATAAAGTAA-TAAAAA-AATACTATATATAAATATATATCATATA
*
39249149 CATATA-AAT-AAAAA-TATACACTAATAT-TAATAATAATAATGATAATAGTAATAATATTGAA
64 CATATATAATAAAAAAGTATACACTAATATATAATAATAATAATGATAATAATAATAATATTGAA
39249210 ATAC-AAAAAGCA
129 ATACAAAAAAGCA
39249222 AATATAATAAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATATACATATAC
1 AATATAATAAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATAT-CATATAC
*
39249287 ATATATAATAAAAAAGTATACACTAATATATAATAATAATAATAATAATAATAATAATAATAATA
65 ATATATAATAAAAAAGTATACAC---TA-AT-AT-ATAATAATAATAATGATAATAATAATAATA
39249352 TTGAAATACAAAAAAGCA
124 TTGAAATACAAAAAAGCA
*
39249370 AATATAACAAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATATGCATATAC
1 AATATAATAAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATAT-CATATAC
* * *
39249435 ACATATAATAAAAAAGTATACACTAATATATAATAATAATAGTGATAATATTAATAATATTAGAA
65 ATATATAATAAAAAAGTATACACTAATATATAATAATAATAATGATAATAATAATAATATT-GAA
39249500 ATA
129 ATA
39249503 ATAATAATAT
Statistics
Matches: 254, Mismatches: 11, Indels: 24
0.88 0.04 0.08
Matches are distributed among these distances:
133 11 0.04
134 8 0.03
135 33 0.13
137 11 0.04
138 3 0.01
139 5 0.02
140 7 0.03
142 29 0.11
143 10 0.04
144 4 0.02
145 4 0.02
147 36 0.14
148 93 0.37
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (141 bp):
AATATAATAAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATATCATATACA
TATATAATAAAAAAGTATACACTAATATATAATAATAATAATGATAATAATAATAATATTGAAAT
ACAAAAAAGCA
Found at i:39249324 original size:3 final size:3
Alignment explanation
Indices: 39249310--39249351 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
39249300 AAGTATACAC
39249310 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
39249352 TTGAAATACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:39249491 original size:9 final size:9
Alignment explanation
Indices: 39249458--39249519 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
39249448 AAGTATACAC
*
39249458 TAATATATAA
1 TAATA-ATAT
*
39249468 TAATAATAG
1 TAATAATAT
*
39249477 TGATAATAT
1 TAATAATAT
39249486 TAATAATAT
1 TAATAATAT
*
39249495 TAGA-AATAA
1 TA-ATAATAT
39249504 TAATAATATT
1 TAATAATA-T
39249514 TAATAA
1 TAATAA
39249520 AGAAACGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 1 0.02
9 30 0.70
10 12 0.28
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (9 bp):
TAATAATAT
Found at i:39249512 original size:18 final size:18
Alignment explanation
Indices: 39249464--39249513 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
39249454 ACACTAATAT
*
39249464 ATAATAATAATAGTGATA
1 ATAATAATAATATTGATA
*
39249482 ATATTAATAATATTAGA-A
1 ATAATAATAATATT-GATA
39249500 ATAATAATAATATT
1 ATAATAATAATATT
39249514 TAATAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATAATAATAATATTGATA
Found at i:39251321 original size:64 final size:64
Alignment explanation
Indices: 39251190--39251309 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
39251180 TAAAAAATTG
* * *
39251190 AAAATACCTTAGTGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
39251254 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
39251310 TTTTTTGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (64 bp):
AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
Found at i:39251373 original size:77 final size:75
Alignment explanation
Indices: 39251254--39251403 Score: 237
Period size: 77 Copynumber: 2.0 Consensus size: 75
39251244 ATAGAAACTA
*
39251254 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTCTTGAA
39251319 AAACAGAAATTG
64 AAACAGAAATTG
* * * *
39251331 AAAATACCTCGGTGTGTGACCCGAGGCTCAGCTCACCTCTCGCAGTATGAGTTGATTCTTGAAAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAA
39251396 ACAGAAAT
66 ACAGAAAT
39251404 AAAAATATCA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
75 17 0.25
77 51 0.75
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (75 bp):
AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAA
ACAGAAATTG
Found at i:39257910 original size:40 final size:40
Alignment explanation
Indices: 39257865--39258031 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
39257855 CGGAATATAA
39257865 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
39257905 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
39257945 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
39257985 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39258024 CCGGATAT
1 CCGGATAT
39258032 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39258015 original size:80 final size:79
Alignment explanation
Indices: 39257865--39258031 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
39257855 CGGAATATAA
* *
39257865 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
39257930 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
39257945 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
39258007 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
39258024 CCGGATAT
1 CCGGATAT
39258032 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:39258879 original size:17 final size:19
Alignment explanation
Indices: 39258856--39258901 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
39258846 AAGAAGCATG
39258856 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
39258874 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
39258892 AATCATGCTC
1 AATCATGCTC
39258902 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:39265910 original size:40 final size:39
Alignment explanation
Indices: 39265865--39266028 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
39265855 CGGAATATAA
39265865 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAT-AC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
39265905 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAAT-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
39265945 CCGGATAT-A-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
39265982 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA-TACTAGCACAAATGCCTTCGGGTCTTAGC
39266021 CCGGATAT
1 CCGGATAT
39266029 CATTCAATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
37 31 0.30
38 1 0.01
39 15 0.14
40 58 0.55
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39266012 original size:77 final size:76
Alignment explanation
Indices: 39265881--39266028 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 76
39265871 ATAATCACGT
*
39265881 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
39265946 CGGATATAACTA
65 CGGATATAACTA
* * ** * *
39265958 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
39266021 CCGGATAT
64 CCGGATAT
39266029 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 17 0.27
77 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (76 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAACTA
Found at i:39266876 original size:17 final size:19
Alignment explanation
Indices: 39266853--39266898 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
39266843 AAGAAGCATG
39266853 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
39266871 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
39266889 AATCATGCTC
1 AATCATGCTC
39266899 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:39274909 original size:144 final size:142
Alignment explanation
Indices: 39274758--39275179 Score: 612
Period size: 144 Copynumber: 3.0 Consensus size: 142
39274748 ATAATAATGG
*
39274758 AATACAAAAAAGCAAATATAATAACATAATAATATTAAAATAAAGTAATTAAAAATAATACTGTA
1 AATACAAAAAAGCAAATATAATAA-ATAA-AATATTAAAATAAAGTAA-T-AAAA-AATACTATA
*
39274823 TATAAATATATATATATACATATATAAT-AAAAA-TATACACTAATAT-TAATAATAATAATGAT
61 TATAAATATATATATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATAATAAT
*
39274885 AATAGTAATAATATTAA
126 AATAATAATAATATTAA
*
39274902 AATAC-AAAAAGCAAATA-AA-ATA-AAAATATTAAAATAAAGTAATAAAAAATACTATATATAA
1 AATACAAAAAAGCAAATATAATAAATAAAATATTAAAATAAAGTAATAAAAAATACTATATATAA
39274963 ATATATATACATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATAATAATAAT
66 ATATATAT--ATATACATATATAATAAAAAAGTATACACT-A-ATAT-ATAATAATAATAATAAT
*
39275028 AATAATAATAATATTGA
126 AATAATAATAATATTAA
*
39275045 AATAAAAAAAAGCAAATATAAT--A-AAAATATTAAAATAAAGTAATAAAAAATACTATATATAA
1 AATACAAAAAAGCAAATATAATAAATAAAATATTAAAATAAAGTAATAAAAAATACTATATATAA
* *
39275107 ATATATACATATACACATATAATAAAAAAGTATACACTAATATATAATAATAATAATAATAATAA
66 ATATATATATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATAATAATAATAA
39275172 TAATAATA
131 TAATAATA
39275180 ATATTAATAT
Statistics
Matches: 259, Mismatches: 8, Indels: 27
0.88 0.03 0.09
Matches are distributed among these distances:
135 21 0.08
136 4 0.02
137 16 0.06
138 23 0.09
139 40 0.15
140 6 0.02
141 6 0.02
142 31 0.12
143 46 0.18
144 64 0.25
145 2 0.01
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (142 bp):
AATACAAAAAAGCAAATATAATAAATAAAATATTAAAATAAAGTAATAAAAAATACTATATATAA
ATATATATATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATAATAATAATAA
TAATAATATTAA
Found at i:39275016 original size:3 final size:3
Alignment explanation
Indices: 39275002--39275211 Score: 97
Period size: 3 Copynumber: 70.7 Consensus size: 3
39274992 AAGTATACAC
* *
39275002 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TGA -AA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * * *
39275047 TAA AAA AAA GCA -AA T-A TAA TAA AAA TAT TAA -AA TAA -AG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
39275091 -AA -AA TAC T-A TATA TAAA TATA TACA T-A TACA CATA TAA TAA -AA
1 TAA TAA TAA TAA TA-A T-AA TA-A TA-A TAA TA-A TA-A TAA TAA TAA
39275134 -AA GT-A TACA CTAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA -TAA TA-A -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
39275181 TAT TAA T-A TAT TAGA -AA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA
39275212 TTTAATAAAG
Statistics
Matches: 161, Mismatches: 24, Indels: 44
0.70 0.10 0.19
Matches are distributed among these distances:
2 22 0.14
3 115 0.71
4 21 0.13
5 3 0.02
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:39276891 original size:13 final size:13
Alignment explanation
Indices: 39276873--39276900 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39276863 GATTTTTGTT
39276873 GATAGGGGGAAAG
1 GATAGGGGGAAAG
39276886 GATAGGGGGAAAG
1 GATAGGGGGAAAG
39276899 GA
1 GA
39276901 GGTTTTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.54, T:0.07
Consensus pattern (13 bp):
GATAGGGGGAAAG
Found at i:39285507 original size:62 final size:62
Alignment explanation
Indices: 39285412--39285529 Score: 227
Period size: 62 Copynumber: 1.9 Consensus size: 62
39285402 ACATAACACT
*
39285412 CATTAAGCTCATTAATTGGTACACCATGTGCAAATATCTTCTAATCGTTAAGAATTATAACA
1 CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATTATAACA
39285474 CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATT
1 CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATT
39285530 CTAGGAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (62 bp):
CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATTATAACA
Done.