Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 47 of 199
Found at i:13699063 original size:170 final size:170
Alignment explanation
Indices: 13698762--13699072 Score: 480
Period size: 170 Copynumber: 1.8 Consensus size: 170
13698752 AAAGTAGATT
* * *
13698762 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
1 GAAGATAGCAAATCTTGTCTTCCTGTACTAGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
*
13698827 TCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAGGCCTTGTCTTCCTCTATTGGCAGCGAAGT
66 TCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAGGCCTTGTCTTCCTCTATTGACAGCGAAGT
13698892 AGATCGAAGATAGCATATATTGTCTTCCTGTACTAGCAGC
131 AGATCGAAGATAGCATATATTGTCTTCCTGTACTAGCAGC
* *
13698932 GAAGATAGCAAATCTTGTTTTCCTGTATTAGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
1 GAAGATAGCAAATCTTGTCTTCCTGTACTAGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
* * * * * * *
13698997 TCCTGTATTGGCAGCGAAGTAGATTGAATATAGCAGATCC-TGTCTTTCTGTATTGACAGTGAAG
66 TCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAG-GCCTTGTCTTCCTCTATTGACAGCGAAG
*
13699061 TAGATTGAAGAT
130 TAGATCGAAGAT
13699073 TTAAGATCTT
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
170 124 0.98
171 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (170 bp):
GAAGATAGCAAATCTTGTCTTCCTGTACTAGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
TCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAGGCCTTGTCTTCCTCTATTGACAGCGAAGT
AGATCGAAGATAGCATATATTGTCTTCCTGTACTAGCAGC
Found at i:13699258 original size:44 final size:44
Alignment explanation
Indices: 13699210--13699381 Score: 107
Period size: 44 Copynumber: 3.9 Consensus size: 44
13699200 AAGATTGTAG
13699210 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAACAA
1 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAACAA
* * ** * *
13699254 ATCCTATCTTCCC-AAGGCACTAG-GGAAGCAGATTTAA-GCCACCA
1 ATCCTGTC-TCCCTAA-GCAGTAGTGG-AGCAGATCGAAGGCAACAA
* * * * * * ****** *
13699298 ATCCTTTTTCCCTGAGCAGCAGTGGAGTAGGTCGAATATTGTAG
1 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAACAA
* *
13699342 ATCATGTATCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
1 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
13699382 GCGAATCTTA
Statistics
Matches: 89, Mismatches: 33, Indels: 12
0.66 0.25 0.09
Matches are distributed among these distances:
43 16 0.18
44 54 0.61
45 19 0.21
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (44 bp):
ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAACAA
Found at i:13699394 original size:132 final size:132
Alignment explanation
Indices: 13699053--13699394 Score: 438
Period size: 132 Copynumber: 2.6 Consensus size: 132
13699043 TCTGTATTGA
* * * *
13699053 CAGTGAAGTAGATTGAAGATT-TAAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAA-G-
1 CAGTGGAGTAGGTCGAAGATTGT-AGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGC
* * * * *
13699115 ATGATAAATCTTATCTTGCTAAGGTAATAGGGAAGCAAATTTAAGCCACCAGTCCTATCTCCCTG
65 A-G-CAAATCTTATCTTCCCAAGGCAATAGGGAAGCAAATTTAAGCCACCAATCCTATCTCCCTG
*
13699180 AGTAG
128 AGCAG
* * *
13699185 CGGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
1 CAGTGGAGTAGGTCGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
* * * * * *
13699250 ACAAATCCTATCTTCCCAAGGCACTAGGGAAGCAGATTTAAGCCACCAATCCTTTTTCCCTGAGC
66 GCAAATCTTATCTTCCCAAGGCAATAGGGAAGCAAATTTAAGCCACCAATCCTATCTCCCTGAGC
13699315 AG
131 AG
* *
13699317 CAGTGGAGTAGGTCGAATATTGTAGATCATGTATCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
1 CAGTGGAGTAGGTCGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
*
13699382 GCGAATCTTATCT
66 GCAAATCTTATCT
13699395 CCTTGGTGTT
Statistics
Matches: 183, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
132 180 0.98
133 2 0.01
134 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
CAGTGGAGTAGGTCGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
GCAAATCTTATCTTCCCAAGGCAATAGGGAAGCAAATTTAAGCCACCAATCCTATCTCCCTGAGC
AG
Found at i:13699569 original size:44 final size:45
Alignment explanation
Indices: 13699476--13699569 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 45
13699466 AGATCAAGAC
* *
13699476 TGAAGATAACCAACCTTATCTCATTGAAGTTACAGTGGAGCCGGT
1 TGAAGATAACCAACCTTATCTCATTGAAGTTACAGTGGAGCAGGG
* * * *
13699521 TGAAGAT-ATCAATCTTATCTC-TCTGAAGTTGCAGTGGAGTAGGG
1 TGAAGATAACCAACCTTATCTCAT-TGAAGTTACAGTGGAGCAGGG
13699565 TGAAG
1 TGAAG
13699570 GAAGTGAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 34 0.81
45 7 0.17
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (45 bp):
TGAAGATAACCAACCTTATCTCATTGAAGTTACAGTGGAGCAGGG
Found at i:13699930 original size:22 final size:23
Alignment explanation
Indices: 13699902--13699946 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13699892 ATGCAATCTT
13699902 AGATATGATATT-CAATCTTAGA
1 AGATATGATATTGCAATCTTAGA
* *
13699924 AGATATGATTTTGTAATCTTAGA
1 AGATATGATATTGCAATCTTAGA
13699947 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (23 bp):
AGATATGATATTGCAATCTTAGA
Found at i:13700636 original size:9 final size:9
Alignment explanation
Indices: 13700616--13700653 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
13700606 AATATGTATA
13700616 TTTATATTTT
1 TTTAT-TTTT
13700626 TTTATTTTT
1 TTTATTTTT
13700635 TTTATTTTT
1 TTTATTTTT
13700644 TTTATTTTT
1 TTTATTTTT
13700653 T
1 T
13700654 ATAATTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTATTTTT
Found at i:13700693 original size:23 final size:22
Alignment explanation
Indices: 13700664--13700707 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
13700654 ATAATTCACA
*
13700664 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
13700687 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
13700708 TTTATAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:13700728 original size:9 final size:9
Alignment explanation
Indices: 13700693--13700730 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
13700683 TATGTACATA
13700693 TATATATTT
1 TATATATTT
13700702 T-TATATTT
1 TATATATTT
**
13700710 TATAGCTTT
1 TATATATTT
13700719 TATATATTT
1 TATATATTT
13700728 TAT
1 TAT
13700731 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (9 bp):
TATATATTT
Found at i:13702782 original size:20 final size:18
Alignment explanation
Indices: 13702744--13702791 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
13702734 GACCAATATT
*
13702744 ATATTATTTTTCTTGTCAA
1 ATATT-TTTTTATTGTCAA
*
13702763 CAGTATTTTTTTATTTTCAA
1 -A-TATTTTTTTATTGTCAA
13702783 ATATTTTTT
1 ATATTTTTT
13702792 AAATTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 12 0.48
21 4 0.16
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (18 bp):
ATATTTTTTTATTGTCAA
Found at i:13703914 original size:32 final size:32
Alignment explanation
Indices: 13703868--13703938 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
13703858 TCTAAATTTC
* ** *
13703868 TAATCAATCCTAATTTCTTTGAGGGTTTGTAT
1 TAATCAATACTAATTTCTTCAAGGATTTGTAT
*
13703900 TAATCAATATTAATTTCTTCAAGGATTTGTAT
1 TAATCAATACTAATTTCTTCAAGGATTTGTAT
13703932 TAATCAA
1 TAATCAA
13703939 CCTCTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (32 bp):
TAATCAATACTAATTTCTTCAAGGATTTGTAT
Found at i:13705257 original size:38 final size:38
Alignment explanation
Indices: 13705175--13705269 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
13705165 ATACAGAAAT
* * * *
13705175 AGTAGACATGCTTAACATGTAATCAATTCAATAGTAGC
1 AGTAAACATGCTTAACATGTAATCAATTAAACAATAGC
* *
13705213 AATAAACATGCTTAACATGTATTCAATTAAACAATCA-C
1 AGTAAACATGCTTAACATGTAATCAATTAAACAAT-AGC
*
13705251 AGTAAACATGCTTCACATG
1 AGTAAACATGCTTAACATG
13705270 CTTTCAGTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 47 0.98
39 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (38 bp):
AGTAAACATGCTTAACATGTAATCAATTAAACAATAGC
Found at i:13711174 original size:18 final size:19
Alignment explanation
Indices: 13711140--13711175 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13711130 ATCTCATGCC
*
13711140 ACAGTTCAAATAAAACATT
1 ACAGTTCAAACAAAACATT
13711159 ACAGTTC-AACAAAACAT
1 ACAGTTCAAACAAAACAT
13711176 AAATTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (19 bp):
ACAGTTCAAACAAAACATT
Found at i:13711835 original size:38 final size:38
Alignment explanation
Indices: 13711784--13711926 Score: 175
Period size: 38 Copynumber: 3.8 Consensus size: 38
13711774 AAAAACAATG
* *
13711784 GACATGCTTAACATGTAATCAGTTCAAC-GATAGCATTA
1 GACATGCTTAACATGTATTCAGTTCAACAG-TAGCAGTA
*
13711822 GACATGCTTAACATGTATTCAGTTCAACAGTCGCAGTA
1 GACATGCTTAACATGTATTCAGTTCAACAGTAGCAGTA
*
13711860 GACATGCTTAACATGTATTCAGGTCAACAGTCA-CAGTA
1 GACATGCTTAACATGTATTCAGTTCAACAGT-AGCAGTA
* * *
13711898 GGCATGCTTCACATGCT-TTCAGGTCAACA
1 GACATGCTTAACATG-TATTCAGTTCAACA
13711927 ATTGCAGTGT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
38 93 0.98
39 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (38 bp):
GACATGCTTAACATGTATTCAGTTCAACAGTAGCAGTA
Found at i:13722834 original size:44 final size:44
Alignment explanation
Indices: 13722733--13722834 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
13722723 AGAACCTACT
13722733 TTTGGCTGTGGATTACACAACAACTAACCACAGATGGAATCTATC
1 TTTGGCTGTGGA-TACACAACAACTAACCACAGATGGAATCTATC
* *** * * * *
13722778 TCTAATTATGGATACACAACAAGTACCCACAGATGGAATCTGTC
1 TTTGGCTGTGGATACACAACAACTAACCACAGATGGAATCTATC
13722822 TTTGGCTGTGGAT
1 TTTGGCTGTGGAT
13722835 GTACAGCAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
44 37 0.84
45 7 0.16
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
TTTGGCTGTGGATACACAACAACTAACCACAGATGGAATCTATC
Found at i:13727618 original size:64 final size:64
Alignment explanation
Indices: 13727517--13727649 Score: 223
Period size: 64 Copynumber: 2.1 Consensus size: 64
13727507 TAAAAGCCCT
*
13727517 CAAATATGCATTTAAAAACTCCAATAGTTTTAGTCAAAATATGCCAAT-CAAATAAGATAAAATA
1 CAAATATGCATTTAAAAACTCCAATAGTTTTAGTCAAAATATGCC-ATCCAAATAAGATAAAACA
* *
13727581 CAAATATGTATTTAAAAACTCTAATAGTTTTAGTCAAAATATGCCATCCAAATAAGATAAAACA
1 CAAATATGCATTTAAAAACTCCAATAGTTTTAGTCAAAATATGCCATCCAAATAAGATAAAACA
13727645 CAAAT
1 CAAAT
13727650 GGCTTGCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
63 2 0.03
64 63 0.97
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.29
Consensus pattern (64 bp):
CAAATATGCATTTAAAAACTCCAATAGTTTTAGTCAAAATATGCCATCCAAATAAGATAAAACA
Found at i:13746075 original size:2 final size:2
Alignment explanation
Indices: 13746070--13746130 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
13746060 TTTTATAATC
* * * * * *
13746070 TA TA TA TA TA TA TG TA TA TA TC TA TT TT TT TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
13746112 TG TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
13746131 TTTTTCTAAC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (2 bp):
TA
Found at i:13746108 original size:24 final size:24
Alignment explanation
Indices: 13746070--13746130 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
13746060 TTTTATAATC
* *
13746070 TATATATATATATGTATATATCTA
1 TATATTTATATATGTATATATATA
* * *
13746094 TTTTTTTATATATGTATATGTATA
1 TATATTTATATATGTATATATATA
13746118 TATATTTATATAT
1 TATATTTATATAT
13746131 TTTTTCTAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (24 bp):
TATATTTATATATGTATATATATA
Found at i:13753062 original size:21 final size:21
Alignment explanation
Indices: 13753022--13753063 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13753012 ACGTGATGTG
*
13753022 AAAAAATGAAGAAATGAAAAT
1 AAAAAATGAAGAAATAAAAAT
13753043 AAAAAATGAA-AAAGTAAAAAT
1 AAAAAATGAAGAAA-TAAAAAT
13753064 GGAAAGGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAAAATGAAGAAATAAAAAT
Found at i:13754397 original size:44 final size:44
Alignment explanation
Indices: 13754347--13754498 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 44
13754337 AATAGCAGAT
*
13754347 CTTGTCTTCCTGTATCAGTAGCGAAGTAGATAGAAGATACCAGC
1 CTTGTCTTCCTGTATCAGCAGCGAAGTAGATAGAAGATACCAGC
* * * * * * * * *
13754391 CTTGTCTTCTTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTTCCTGTATCAGCAGCGAAGTAGATAGAAGATACCAG-C
* ** * *
13754435 CTTGTCTTCCTATATTGGCAGCGAAGTGGATCGAAGATACCAGC
1 CTTGTCTTCCTGTATCAGCAGCGAAGTAGATAGAAGATACCAGC
* *
13754479 CTTGTCTCCCTG-AGCAGCAG
1 CTTGTCTTCCTGTATCAGCAG
13754499 TGGAGTAGGT
Statistics
Matches: 78, Mismatches: 28, Indels: 5
0.70 0.25 0.05
Matches are distributed among these distances:
43 27 0.35
44 31 0.40
45 20 0.26
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (44 bp):
CTTGTCTTCCTGTATCAGCAGCGAAGTAGATAGAAGATACCAGC
Found at i:13754411 original size:88 final size:88
Alignment explanation
Indices: 13754307--13754544 Score: 352
Period size: 88 Copynumber: 2.7 Consensus size: 88
13754297 CTCAGCTTTA
* *
13754307 TCTCTCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATCAGTAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATCAGTAGCGAA
13754372 GTAGATAGAAGATACCAGCCTTG
66 GTAGATAGAAGATACCAGCCTTG
* * * ** *
13754395 TCTTCTTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATCAGTAGCGAA
* *
13754460 GTGGATCGAAGATACCAGCCTTG
66 GTAGATAGAAGATACCAGCCTTG
* *
13754483 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGCCTTCCTGTA-CTAGTAGC
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATC-AGTAGC
13754545 AAAGCAAATC
Statistics
Matches: 131, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 131 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATCAGTAGCGAA
GTAGATAGAAGATACCAGCCTTG
Found at i:13754971 original size:49 final size:49
Alignment explanation
Indices: 13754921--13755075 Score: 150
Period size: 49 Copynumber: 3.1 Consensus size: 49
13754911 TTACAACGGT
*
13754921 GAATCTTGTTTCCCGACATTGCAATTAAAAAGATTGAGGCCACAGCGGT
1 GAATCTTGTTTCCCGACATTGCAATTAAAAAGATTGAGGCCACAGCGGC
** * * ** * ** * * * *
13754970 GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTAC-GACGAC
1 GAATCTTGTTTCC-CGACATTGCAATTAAAAAGATTGAGGCCACAG-CGGC
*
13755020 GAATCTTGTTTCCCGACATTGCAATTAAAAAGATTGAGGCCACAACGGC
1 GAATCTTGTTTCCCGACATTGCAATTAAAAAGATTGAGGCCACAGCGGC
13755069 GAATCTT
1 GAATCTT
13755076 ACTTCCTTGG
Statistics
Matches: 75, Mismatches: 28, Indels: 6
0.69 0.26 0.06
Matches are distributed among these distances:
49 42 0.56
50 33 0.44
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (49 bp):
GAATCTTGTTTCCCGACATTGCAATTAAAAAGATTGAGGCCACAGCGGC
Found at i:13755024 original size:50 final size:50
Alignment explanation
Indices: 13754970--13755125 Score: 170
Period size: 50 Copynumber: 3.1 Consensus size: 50
13754960 CCACAGCGGT
*
13754970 GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGAC
1 GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGC
** * * ** * ** * * * *
13755020 GAATCTTGTTTCC-CGACATTGCAATTAAAAAGATTGAGGCCACAACGGC
1 GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGC
*
13755069 GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGT
1 GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGC
13755119 GAATCTT
1 GAATCTT
13755126 GTCTTCCCGA
Statistics
Matches: 77, Mismatches: 28, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
49 35 0.45
50 42 0.55
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (50 bp):
GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGC
Found at i:13755024 original size:99 final size:99
Alignment explanation
Indices: 13754771--13755148 Score: 538
Period size: 99 Copynumber: 3.9 Consensus size: 99
13754761 ATATTGAAGT
* *
13754771 CACAACGGCGAATCTTACTTCCTTGGCGATGTAGTGGAACAGATTGAAGCTACTACGGTGAATCT
1 CACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAACAGATTGAAGCTACGACGGTGAATCT
* *
13754836 TGTTTCCCGACATTGCAATT-AATAGATTGAAG-
66 TGTTTCCCGACATTGCAATTAAAAAGATTGAGGC
* * * * *
13754868 C-C-A---C-AATCTTACTTCCCTGGCGATGTAGTGGAACAAATTGAAGTTACAACGGTGAATCT
1 CACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAACAGATTGAAGCTACGACGGTGAATCT
13754927 TGTTTCCCGACATTGCAATTAAAAAGATTGAGGC
66 TGTTTCCCGACATTGCAATTAAAAAGATTGAGGC
* * * **
13754961 CACAGCGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGACGAATCT
1 CACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAACAGATTGAAGCTACGACGGTGAATCT
13755026 TGTTTCCCGACATTGCAATTAAAAAGATTGAGGC
66 TGTTTCCCGACATTGCAATTAAAAAGATTGAGGC
*
13755060 CACAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGTGAATCT
1 CACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAACAGATTGAAGCTACGACGGTGAATCT
* *
13755125 TGTCTTCCCGACATTACAGTTAAA
66 TGT-TTCCCGACATTGCAATTAAA
13755149 TAGAAGAACC
Statistics
Matches: 250, Mismatches: 22, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
91 71 0.28
92 11 0.04
93 1 0.00
94 1 0.00
95 1 0.00
96 1 0.00
97 1 0.00
99 145 0.58
100 18 0.07
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (99 bp):
CACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAACAGATTGAAGCTACGACGGTGAATCT
TGTTTCCCGACATTGCAATTAAAAAGATTGAGGC
Found at i:13756895 original size:33 final size:32
Alignment explanation
Indices: 13756858--13756920 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
13756848 AACAGTCCTT
* *
13756858 TTACAATAAAATGGGCCCAAAACCCAAACCCAA
1 TTACAACAAAATAGGCCC-AAACCCAAACCCAA
*
13756891 TTACAACAAAATAGGCCCAAACCCAGACCC
1 TTACAACAAAATAGGCCCAAACCCAAACCC
13756921 GATTTTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.46, C:0.33, G:0.10, T:0.11
Consensus pattern (32 bp):
TTACAACAAAATAGGCCCAAACCCAAACCCAA
Found at i:13758122 original size:2 final size:2
Alignment explanation
Indices: 13758117--13758183 Score: 62
Period size: 2 Copynumber: 33.5 Consensus size: 2
13758107 TTTTATAATC
* * * * *
13758117 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TC TA TT TT TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
13758159 TA TG TA TA TG TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13758184 TTTTTTCTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (2 bp):
TA
Found at i:13758596 original size:27 final size:26
Alignment explanation
Indices: 13758550--13758600 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
13758540 ATGTCATTGA
*
13758550 TTATTTTTTTATGTACATTAGTTTCGT
1 TTATTTATTTATGTACATTA-TTTCGT
* *
13758577 TTATTTATTTATTTATATTATTTC
1 TTATTTATTTATGTACATTATTTC
13758601 TATACCATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (26 bp):
TTATTTATTTATGTACATTATTTCGT
Found at i:13763782 original size:11 final size:11
Alignment explanation
Indices: 13763766--13763791 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13763756 AAAAATTAAA
13763766 AAAACTATTTT
1 AAAACTATTTT
13763777 AAAACTATTTT
1 AAAACTATTTT
13763788 AAAA
1 AAAA
13763792 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAACTATTTT
Found at i:13763814 original size:39 final size:39
Alignment explanation
Indices: 13763756--13763893 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 39
13763746 AATTTATTTT
13763756 AAAAATTAAAAAAACTATTTTAAAACTATTTTAAAATTAA
1 AAAAATTAAAAAAACTATTTTAAAA-TATTTTAAAATTAA
* *
13763796 AAAAATTAAAAAAA-TATTTTTAAAAAATTTTAAATTTTAA
1 AAAAATTAAAAAAACTA-TTTTAAAATATTTTAAA-ATTAA
* *
13763836 AAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAA--AA
1 AAAAATTAAAAAAACTATTTTAAAA-TATTTTAAAATTAA
* *
13763874 ATAAAAATAAAAAAATTATT
1 A-AAAATTAAAAAAACTATT
13763894 ATAGGCCCGG
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
38 3 0.04
39 25 0.29
40 47 0.55
41 10 0.12
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (39 bp):
AAAAATTAAAAAAACTATTTTAAAATATTTTAAAATTAA
Found at i:13763837 original size:16 final size:17
Alignment explanation
Indices: 13763813--13763845 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13763803 AAAAAAATAT
*
13763813 TTTTAAAAAATTTTAAA
1 TTTTAAAAAAATTTAAA
13763830 TTTT-AAAAAATTTAAA
1 TTTTAAAAAAATTTAAA
13763846 AAAAGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAAAAATTTAAA
Found at i:13763859 original size:23 final size:24
Alignment explanation
Indices: 13763829--13763874 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
13763819 AAAATTTTAA
13763829 ATTTTAAAA-AATTTAAAAAAAGT
1 ATTTTAAAAGAATTTAAAAAAAGT
*
13763852 ATTTTAAAAGTATTTTAAAAAAA
1 ATTTTAAAAG-AATTTAAAAAAA
13763875 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTTTAAAAGAATTTAAAAAAAGT
Found at i:13768224 original size:199 final size:199
Alignment explanation
Indices: 13768001--13768386 Score: 569
Period size: 199 Copynumber: 1.9 Consensus size: 199
13767991 AGTGGAGCAG
* *
13768001 ATTGAAGCTGCAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGAAGCTACAACG
1 ATTGAAGCCGCAACGGCGAATCTTACTCCACTGGCAGTATAGTGGAACAGATTGAAGCTACAACG
13768066 ACGAATCTTGTTTCCCCAACATTGCAATT-AAAAGATTGAAGCCGCAACAGCGAATCTTACTTTC
66 ACGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACAGCGAATCTTAC-TTC
* * ** **
13768130 C-TGGTGGTGTAGTGGAGTAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAACATTGCAATT
130 CTTGGTGGTATAGTGAAACAGATTGAAGCTACGACGGCAAATCTTG-TTCCCCAACATTGCAATT
13768194 AAAAAT
194 AAAAAT
* * * * * *
13768200 ATTGAAGCCGCAACGGCGAATCTTACTTCACTGGCGGTGTAGTGGAGCAGATTGAAGCTACGATG
1 ATTGAAGCCGCAACGGCGAATCTTACTCCACTGGCAGTATAGTGGAACAGATTGAAGCTACAACG
** *
13768265 GTGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
66 ACGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACAGCGAATCTTACTTCC
* *
13768330 TTTGTGGTATAGTGAAACAGATTGAAGCTACGACGGCAAATCTTGTTCCCCGACATT
131 TTGGTGGTATAGTGAAACAGATTGAAGCTACGACGGCAAATCTTGTTCCCCAACATT
13768387 CTAGTTAAAC
Statistics
Matches: 166, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
199 99 0.60
200 67 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (199 bp):
ATTGAAGCCGCAACGGCGAATCTTACTCCACTGGCAGTATAGTGGAACAGATTGAAGCTACAACG
ACGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACAGCGAATCTTACTTCC
TTGGTGGTATAGTGAAACAGATTGAAGCTACGACGGCAAATCTTGTTCCCCAACATTGCAATTAA
AAAT
Found at i:13768252 original size:100 final size:99
Alignment explanation
Indices: 13767999--13768403 Score: 537
Period size: 100 Copynumber: 4.1 Consensus size: 99
13767989 GCAGTGGAGC
* * * *
13767999 AGATTGAAGCTGCAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCCGCAACGGCGAATCTTACT-TCCTGGCGGTATAGTGGAACAGATTGAAGCTACGA
*
13768064 CGACGAATCTTGTTTCCCCAACATTGCAATT-AAA
65 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * **
13768098 AGATTGAAGCCGCAACAGCGAATCTTACTTTCCTGGTGGTGTAGTGGAGTAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTAC-TTCCTGGCGGTATAGTGGAACAGATTGAAGCTACGA
*
13768163 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
65 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * *
13768198 ATATTGAAGCCGCAACGGCGAATCTTACTTCACTGGCGGTGTAGTGGAGCAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTC-CTGGCGGTATAGTGGAACAGATTGAAGCTACGA
* *
13768263 TGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
65 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * *
13768298 AGATTGAAGCCGCAACGGCGAATCTTACTTCCTTTGTGGTATAGTGAAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCC-TGGCGGTATAGTGGAACAGATTGAAGCTACGA
* * * *
13768363 CGGCAAATCTTG-TTCCCCGACATT-CTAGTTAAAC
65 CGGCGAATCTTGTTTCCCCAACATTGC-AATTAAAA
13768397 AGATTGA
1 AGATTGA
13768404 GGATATCAGG
Statistics
Matches: 273, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
98 1 0.00
99 111 0.41
100 161 0.59
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (99 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTTCCTGGCGGTATAGTGGAACAGATTGAAGCTACGAC
GGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:13768321 original size:50 final size:50
Alignment explanation
Indices: 13768049--13768323 Score: 158
Period size: 50 Copynumber: 5.5 Consensus size: 50
13768039 ATAGTGGAAC
* *
13768049 AGATTGAAGCTACAACGACGAATCTTGTTTCCCCAACATTGCAATT-AAA
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * ****** * * ** **
13768098 AGATTGAAGCCGCAACAGCGAATCTTACTTT-CCTGGTGGTGTAGTGGAGT
1 AGATTGAAGCCACAACGGCGAATCTT-GTTTCCCCAACATTGCAATTAAAA
* * *
13768148 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * ** * *** ** * * ** **
13768198 ATATTGAAGCCGCAACGGCGAATCTTACTTCACTGGCGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * *
13768248 AGATTGAAGCTACGATGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
*
13768298 AGATTGAAGCCGCAACGGCGAATCTT
1 AGATTGAAGCCACAACGGCGAATCTT
13768324 ACTTCCTTTG
Statistics
Matches: 145, Mismatches: 78, Indels: 5
0.64 0.34 0.02
Matches are distributed among these distances:
49 31 0.21
50 114 0.79
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:13768679 original size:44 final size:44
Alignment explanation
Indices: 13768629--13768735 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
13768619 GATCGCATCT
* * * * *
13768629 AGTCTTATCTCCCTGAAGTGGCAGTGGAGCAGACTGAGTAAGAA
1 AGTCTTATCTCCCTGAAATGACAGTGGAGCAGACTAAATAAAAA
* *
13768673 AGTCTTATC-CTCCTGAAATTACAGTGGGGCAGACTAAATAAAAA
1 AGTCTTATCTC-CCTGAAATGACAGTGGAGCAGACTAAATAAAAA
* * *
13768717 AATCCTATCTCCCTAAAAT
1 AGTCTTATCTCCCTGAAAT
13768736 TGTAGTGGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
43 1 0.02
44 49 0.96
45 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAATGACAGTGGAGCAGACTAAATAAAAA
Found at i:13770805 original size:16 final size:16
Alignment explanation
Indices: 13770784--13770814 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13770774 TCTTTTGCTC
13770784 AAATTTAAAAATAGAA
1 AAATTTAAAAATAGAA
*
13770800 AAATTTCAAAATAGA
1 AAATTTAAAAATAGA
13770815 TATAATACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (16 bp):
AAATTTAAAAATAGAA
Found at i:13771955 original size:525 final size:526
Alignment explanation
Indices: 13770964--13771965 Score: 1579
Period size: 525 Copynumber: 1.9 Consensus size: 526
13770954 TGTCCTAATG
* *
13770964 CATTGGATGTGACGTGTTGATTTCTCGAGACAAAGATTTTTTTAAAAAAATTAATAAAGGAAATG
1 CATTGGATGTGACGTATTGATTTCTCGAGACAAAGATTTTTTTAAAAAAATTAATAAAGGAAATA
13771029 TTCAACGTTTAGGATTTTGAGAAATTGTGCCCTAATTATTGGGCTGCAATTTCTTCATAAATCTC
66 TTCAACGTTTAGGATTTTGAGAAATTGTGCCCTAATTATTGGGCTGCAATTTCTTCATAAATCTC
* * *
13771094 AAACAATTGAATGTTTTTTTAAAAATTTTTATTACATGAATCTTTTGGACAAACTCATTTTTGAA
131 AAACAATTGAATGTTCTTTT-AAAATTTTTATTACATCAATCTTTTGGACAAACTCATTTTTAAA
* * * *
13771159 GAAATAAAATATCGTTCCCTAACGCATTGGGTGTGATAGTTTTTCTCCGAAATGAGAGTCTTAAT
195 GAAATAAAATATCGTGCACTAACGCATTGGGTGTGACAGTTTTTCTCCAAAATGAGAGTCTTAAT
* *
13771224 GAATAACTTGATTTAATTAAGGATCGTATTTTTCAACTCTTGACATCAAGACATTTATTAATCAA
260 CAATAACTTGATTTAATTAAGGATCGTATTTTTCAACTCTTGACATCAAGACATTAATTAATCAA
* *
13771289 CTTGGTACCAATTTTTGGGCGTTACGGGGGTGCTAATCCTTCCTCGTACGTAACTGACTCCCGAA
325 CTTGGTACCAATTTTTGGGCGTTACGGGAGTGCTAATCCTTCCTCGTACGTAACTGACTCCCAAA
* *
13771354 CCCGTTTTTCTAAAACTCGTAGACCAAAGTCGTTTTTAGGTGATCCAATCACACCTTAATAAAAG
390 CCCGTTTTTCTAAAACTCGTAGACCAAAGTCGTTTTTAGGTGATCCAATCACACATCAATAAAAG
13771419 ATTGGTGGCGACT-CCAATTTTCATCGACAACTTTTTTTTTTCAAAAAATAAAAATGAAAATGGT
455 ATTGGTGGCGACTCCCAATTTTCATCGACAACTTTTTTTTTTCAAAAAATAAAAATGAAAATGGT
13771483 TTCGACA
520 TTCGACA
** * ** *
13771490 CATTGGATGTGACGTATTGATTTCTCGAGATGAATA-TTTTTTCCAAAAATTAATGAAGGAAATA
1 CATTGGATGTGACGTATTGATTTCTCGAGACAAAGATTTTTTTAAAAAAATTAATAAAGGAAATA
** *
13771554 TTCGAA-GTTTAGGATTTTGAGAAATTGTGCCCTAATGTATTGGGCTGCGGTTTCTTCATAAATT
66 TTC-AACGTTTAGGATTTTGAGAAATTGTGCCCTAAT-TATTGGGCTGCAATTTCTTCATAAATC
*
13771618 TTAAACAATTGAATGTTCTTTT-AAA-TTTTATTACA-CAAGTCTTTTGGACAAACTCATTTTTA
129 TCAAACAATTGAATGTTCTTTTAAAATTTTTATTACATCAA-TCTTTTGGACAAACTCATTTTTA
* *
13771680 AAGGAATAAAATATCGTGCACTAACGCATTGGGTGTGACATTTTTTCTCCAAAATGAGAGAGTCT
193 AAGAAATAAAATATCGTGCACTAACGCATTGGGTGTGACAGTTTTTCTCCAAAAT--GAGAGTCT
* * **
13771745 TAATCAATAACTTGATTTAATTAAGGATCGTATTTTT-AACTTTTGGCATTTAGACATTAATTAA
256 TAATCAATAACTTGATTTAATTAAGGATCGTATTTTTCAACTCTTGACATCAAGACATTAATTAA
13771809 TCAACTTGGTACCAATTTTTGGGCGTTA-GGGAAGTGCTAATCCTTCCTCGTACGTAACTGACTC
321 TCAACTTGGTACCAATTTTTGGGCGTTACGGG-AGTGCTAATCCTTCCTCGTACGTAACTGACTC
* *
13771873 CCAAACCCGTTTTTTCTAAGACTCGTAGACCAAAGTCGTTTTTAGGTGATCCAATCAGACATCAA
385 CCAAACCCG-TTTTTCTAAAACTCGTAGACCAAAGTCGTTTTTAGGTGATCCAATCACACATCAA
13771938 TAAAAGATTGGTGGCGACTCCCAATTTT
449 TAAAAGATTGGTGGCGACTCCCAATTTT
13771966 TCGTTTTTAA
Statistics
Matches: 435, Mismatches: 33, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
522 2 0.00
523 84 0.19
524 92 0.21
525 171 0.39
526 86 0.20
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (526 bp):
CATTGGATGTGACGTATTGATTTCTCGAGACAAAGATTTTTTTAAAAAAATTAATAAAGGAAATA
TTCAACGTTTAGGATTTTGAGAAATTGTGCCCTAATTATTGGGCTGCAATTTCTTCATAAATCTC
AAACAATTGAATGTTCTTTTAAAATTTTTATTACATCAATCTTTTGGACAAACTCATTTTTAAAG
AAATAAAATATCGTGCACTAACGCATTGGGTGTGACAGTTTTTCTCCAAAATGAGAGTCTTAATC
AATAACTTGATTTAATTAAGGATCGTATTTTTCAACTCTTGACATCAAGACATTAATTAATCAAC
TTGGTACCAATTTTTGGGCGTTACGGGAGTGCTAATCCTTCCTCGTACGTAACTGACTCCCAAAC
CCGTTTTTCTAAAACTCGTAGACCAAAGTCGTTTTTAGGTGATCCAATCACACATCAATAAAAGA
TTGGTGGCGACTCCCAATTTTCATCGACAACTTTTTTTTTTCAAAAAATAAAAATGAAAATGGTT
TCGACA
Found at i:13772429 original size:27 final size:28
Alignment explanation
Indices: 13772399--13772460 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
13772389 ATTATTAAAA
*
13772399 ATAATATT-ACTACTTTTTATAAATTTT
1 ATAATATTAAATACTTTTTATAAATTTT
* *
13772426 ATAATTTTAAATATTTTTTATAAATTTT
1 ATAATATTAAATACTTTTTATAAATTTT
13772454 -TAATATT
1 ATAATATT
13772461 TTTTTATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
ATAATATTAAATACTTTTTATAAATTTT
Found at i:13772446 original size:19 final size:20
Alignment explanation
Indices: 13772422--13772464 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
13772412 TTTTTATAAA
13772422 TTTTAT-AATTTTAAATATT
1 TTTTATAAATTTTAAATATT
*
13772441 TTTTATAAATTTTTAATATT
1 TTTTATAAATTTTAAATATT
13772461 TTTT
1 TTTT
13772465 TATCTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATAAATTTTAAATATT
Found at i:13773239 original size:3 final size:3
Alignment explanation
Indices: 13773231--13773274 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
13773221 TTAAATAGAG
13773231 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13773275 GTTTAAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13774962 original size:10 final size:10
Alignment explanation
Indices: 13774947--13774971 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13774937 TGCATGCATG
13774947 CAATTATTTC
1 CAATTATTTC
13774957 CAATTATTTC
1 CAATTATTTC
13774967 CAATT
1 CAATT
13774972 TCAGATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (10 bp):
CAATTATTTC
Found at i:13777191 original size:28 final size:27
Alignment explanation
Indices: 13777154--13777219 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
13777144 TTTTCAAAAA
13777154 TTTAAAATTTAGTTATTATATTTTTAT
1 TTTAAAATTTAGTTATTATATTTTTAT
* * *
13777181 TTTAAGAATTTATTTTTTTTATTTTTAAAT
1 TTTAA-AATTTAGTTATTATATTTTT--AT
13777211 TTTAAAATT
1 TTTAAAATT
13777220 CATGTTTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.15
28 17 0.52
29 4 0.12
30 7 0.21
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTAAAATTTAGTTATTATATTTTTAT
Found at i:13778730 original size:22 final size:24
Alignment explanation
Indices: 13778705--13778760 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
13778695 TGAAATTAGA
13778705 AAAATAAATTAAA-AATTTTGT-C
1 AAAATAAATTAAATAATTTTGTGC
* * *
13778727 AAAATAAGTAAAATAATTTTTTGC
1 AAAATAAATTAAATAATTTTGTGC
13778751 AAAA-AAATTA
1 AAAATAAATTA
13778761 TGTAAGTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 11 0.41
23 11 0.41
24 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (24 bp):
AAAATAAATTAAATAATTTTGTGC
Found at i:13779307 original size:14 final size:14
Alignment explanation
Indices: 13779282--13779319 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
13779272 TTCAATTCAA
*
13779282 TTCTCAACTTATTG
1 TTCTCAATTTATTG
*
13779296 TTCTCGATTTATTG
1 TTCTCAATTTATTG
13779310 TTCTCAATTT
1 TTCTCAATTT
13779320 TTTATTCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (14 bp):
TTCTCAATTTATTG
Found at i:13779327 original size:14 final size:14
Alignment explanation
Indices: 13779281--13779332 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
13779271 ATTCAATTCA
*
13779281 ATTCTCAACTTATT
1 ATTCTCAATTTATT
* *
13779295 GTTCTCGATTTATT
1 ATTCTCAATTTATT
* *
13779309 GTTCTCAATTTTTT
1 ATTCTCAATTTATT
*
13779323 ATTCTAAATT
1 ATTCTCAATT
13779333 CCCAATTCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTCTCAATTTATT
Found at i:13786710 original size:16 final size:15
Alignment explanation
Indices: 13786685--13786714 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13786675 ATTCAATTAA
13786685 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
13786700 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
13786715 ATGAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:13793318 original size:20 final size:19
Alignment explanation
Indices: 13793295--13793340 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
13793285 GAGCACATGT
13793295 GTGCAATCAGAGGCACCAAA
1 GTGCAAT-AGAGGCACCAAA
*
13793315 GTGCAAATAGAGGCATCAAA
1 GTGC-AATAGAGGCACCAAA
13793335 GTGCAA
1 GTGCAA
13793341 ATCTCATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (19 bp):
GTGCAATAGAGGCACCAAA
Found at i:13793341 original size:20 final size:20
Alignment explanation
Indices: 13793303--13793342 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13793293 GTGTGCAATC
13793303 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
*
13793323 AGAGGCATCAAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
13793343 CTCATACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.12
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAT
Found at i:13797741 original size:10 final size:10
Alignment explanation
Indices: 13797691--13797743 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
13797681 CAAACACCTG
13797691 AAAATAAATA
1 AAAATAAATA
13797701 AAAA-AAATA
1 AAAATAAATA
13797710 AAGAATAAA-A
1 AA-AATAAATA
*
13797720 ATTAATTAAATA
1 A--AAATAAATA
13797732 AAAATAAATA
1 AAAATAAATA
13797742 AA
1 AA
13797744 CAAAATCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
9 7 0.19
10 18 0.50
11 8 0.22
12 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (10 bp):
AAAATAAATA
Found at i:13804242 original size:50 final size:51
Alignment explanation
Indices: 13804181--13804364 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 51
13804171 TATCATTCGA
* * *
13804181 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTCCGGT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCC-GT
* *
13804232 T-CACGTAGTAGCCTGCACCTAGTATTACACACGTGACCAAAACCTTCCGT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGT
** * ** * **
13804282 TACATATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CAA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCCGT
* *
13804333 TACACGTAGTAGTCTGCACTTAGTACTACACA
1 TACACGTAGTAGCCTGCACATAGTACTACACA
13804365 TGTGTTTATA
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 36 0.32
51 74 0.67
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGT
Found at i:13812758 original size:14 final size:16
Alignment explanation
Indices: 13812739--13812772 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
13812729 ATCTGCTCTC
13812739 GAAAAAAAA-AGAA-A
1 GAAAAAAAAGAGAAGA
13812753 GAAAAAAAAGAGAAGA
1 GAAAAAAAAGAGAAGA
13812769 GAAA
1 GAAA
13812773 TAAGGGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAGAGAAGA
Found at i:13812760 original size:15 final size:16
Alignment explanation
Indices: 13812740--13812772 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13812730 TCTGCTCTCG
13812740 AAAAAAAAAGAA-AGA
1 AAAAAAAAAGAAGAGA
*
13812755 AAAAAAAGAGAAGAGA
1 AAAAAAAAAGAAGAGA
13812771 AA
1 AA
13812773 TAAGGGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAGAGA
Found at i:13821627 original size:51 final size:50
Alignment explanation
Indices: 13821510--13821645 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 50
13821500 TATCATTCGA
* * * * * *
13821510 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACATGTAACCAAACCTTCCGG
* * *
13821560 TTCACGTAGTAGCCTGCACCTAGTATTACACATGTAACCAAAACCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACATGTAACC-AAACCTTCCGG
* **
13821611 TACACATAGTAGCCTGCAGTTAGTACTACACATGT
1 TACACGTAGTAGCCTGCACATAGTACTACACATGT
13821646 GTTTATAGGC
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 32 0.45
51 39 0.55
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACATGTAACCAAACCTTCCGG
Found at i:13825651 original size:15 final size:16
Alignment explanation
Indices: 13825631--13825660 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13825621 TCTAGAAAGA
13825631 GAAGAAG-GGGGATTT
1 GAAGAAGAGGGGATTT
13825646 GAAGAAGAGGGGATT
1 GAAGAAGAGGGGATT
13825661 ACCTCATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.47, T:0.17
Consensus pattern (16 bp):
GAAGAAGAGGGGATTT
Found at i:13826352 original size:23 final size:23
Alignment explanation
Indices: 13826322--13826368 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13826312 AACATATTGG
13826322 GTTTTGAGCCAAATCTTCTTTTA
1 GTTTTGAGCCAAATCTTCTTTTA
13826345 GTTTTGAGCCAAATCTTCTTTTA
1 GTTTTGAGCCAAATCTTCTTTTA
13826368 G
1 G
13826369 GTTTACTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (23 bp):
GTTTTGAGCCAAATCTTCTTTTA
Found at i:13830167 original size:17 final size:17
Alignment explanation
Indices: 13830145--13830181 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13830135 TAGGGTGTCG
13830145 TTGGGCAAAATATGCTT
1 TTGGGCAAAATATGCTT
13830162 TTGGGCAAAATATGCTT
1 TTGGGCAAAATATGCTT
13830179 TTG
1 TTG
13830182 TTAGTCTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (17 bp):
TTGGGCAAAATATGCTT
Found at i:13832643 original size:50 final size:50
Alignment explanation
Indices: 13832568--13832765 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 50
13832558 TTTCTTGTAC
* * * **
13832568 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGA
* * ** * *
13832618 TGCCCATGTTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGA
* * *
13832668 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACCTCAATGA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GA
*
13832724 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCT
13832766 TTACCCAAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 77 0.65
53 2 0.02
56 39 0.33
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGA
Found at i:13832693 original size:100 final size:103
Alignment explanation
Indices: 13832568--13832754 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 103
13832558 TTTCTTGTAC
* * * ** * *
13832568 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GATGCCCATGTTAT
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAACTCAGATGCCAATGTCAT
13832630 GTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
66 GTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
*
13832668 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACCTCAATGATGCCAATGT
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAA-CTC-A-GATGCCAATGT
13832733 CATGTCCCAGACATGGTCTTAC
63 CATGTCCCAGACATGGTCTTAC
13832755 ATGGGATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 39 0.53
101 1 0.01
103 2 0.03
106 31 0.42
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (103 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAACTCAGATGCCAATGTCAT
GTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
Found at i:13837958 original size:25 final size:25
Alignment explanation
Indices: 13837930--13837980 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
13837920 TCATTCTCTT
13837930 TTCATTTC-TTGATAATC-ATATATCA
1 TTCATTTCATT-AT-ATCAATATATCA
13837955 TTCATTTCATTATATCAATATATCA
1 TTCATTTCATTATATCAATATATCA
13837980 T
1 T
13837981 GTACTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 3 0.12
25 19 0.79
26 2 0.08
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (25 bp):
TTCATTTCATTATATCAATATATCA
Found at i:13838272 original size:25 final size:26
Alignment explanation
Indices: 13838233--13838287 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
13838223 TATACGAGTA
*
13838233 TATAATCGAGAAGCTCATTTGAGCTG
1 TATAATCGAGAAGCTCATGTGAGCTG
*
13838259 TATAAT-GGGAAGCTCATGTGAGCTG
1 TATAATCGAGAAGCTCATGTGAGCTG
13838284 TATA
1 TATA
13838288 GCAGGAAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (26 bp):
TATAATCGAGAAGCTCATGTGAGCTG
Found at i:13838294 original size:25 final size:25
Alignment explanation
Indices: 13838242--13838300 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
13838232 ATATAATCGA
* **
13838242 GAAGCTCATTTGAGCTGTATAATGG
1 GAAGCTCATGTGAGCTGTATAACAG
*
13838267 GAAGCTCATGTGAGCTGTATAGCAG
1 GAAGCTCATGTGAGCTGTATAACAG
13838292 GAAGCTCAT
1 GAAGCTCAT
13838301 AAGAGTCGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (25 bp):
GAAGCTCATGTGAGCTGTATAACAG
Found at i:13838381 original size:25 final size:25
Alignment explanation
Indices: 13838289--13838528 Score: 93
Period size: 25 Copynumber: 9.7 Consensus size: 25
13838279 AGCTGTATAG
* * *
13838289 CAGGAAGCTCATAAGAGTC-GTAAT
1 CAGGAAGCTCATGAGAGCCAATAAT
* *
13838313 CGGGAAGCTCATGCGAGCCAAT-AT
1 CAGGAAGCTCATGAGAGCCAATAAT
* * *
13838337 CAAGAAGCTCCA-GAGCGCCATTAAT
1 CAGGAAGCT-CATGAGAGCCAATAAT
* *
13838362 CAGGAAGCTCATGAAAGCCAATTAT
1 CAGGAAGCTCATGAGAGCCAATAAT
** * * *
13838387 TGGGAAGCTC-TAAAGAGTCAATTAT
1 CAGGAAGCTCAT-GAGAGCCAATAAT
* *
13838412 CAGAAAGCTCAT-ACGAGCC-ATAAA
1 CAGGAAGCTCATGA-GAGCCAATAAT
** *
13838436 CAAAAAGCTCAAGAGAGCCATATAA-
1 CAGGAAGCTCATGAGAGCCA-ATAAT
* * * *
13838461 CGGGATGCTCATAAGAGCTAAATAA-
1 CAGGAAGCTCATGAGAGC-CAATAAT
* * *
13838486 C-GCGAAGCTCGTGAGAGCCTATTAT
1 CAG-GAAGCTCATGAGAGCCAATAAT
* * *
13838511 CGGGACGCTCATAAGAGC
1 CAGGAAGCTCATGAGAGC
13838529 TGTGGTGTGT
Statistics
Matches: 158, Mismatches: 44, Indels: 27
0.69 0.19 0.12
Matches are distributed among these distances:
24 57 0.36
25 94 0.59
26 7 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
CAGGAAGCTCATGAGAGCCAATAAT
Found at i:13839374 original size:19 final size:18
Alignment explanation
Indices: 13839350--13839394 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
13839340 CTTCGTCTCC
*
13839350 TTCTTTCTCCCTTTTCTTT
1 TTCTTTCTCCCTTTT-GTT
**
13839369 TTCTTTCTTTCTTTTGTT
1 TTCTTTCTCCCTTTTGTT
13839387 TTCTTTCT
1 TTCTTTCT
13839395 ATTTCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (18 bp):
TTCTTTCTCCCTTTTGTT
Found at i:13839381 original size:14 final size:14
Alignment explanation
Indices: 13839362--13839399 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13839352 CTTTCTCCCT
13839362 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
13839376 TTTCTTTTGT-TTTC
1 TTTCTTTT-TCTTTC
*
13839390 TTTCTATTTC
1 TTTCTTTTTC
13839400 ATTTTGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:13839414 original size:21 final size:20
Alignment explanation
Indices: 13839368--13839415 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
13839358 CCCTTTTCTT
*
13839368 TTTCTTTC--TTTCTTTTGT
1 TTTCTTTCTATTTCTTTTGC
13839386 TTTCTTTCTATTTCATTTTGC
1 TTTCTTTCTATTTC-TTTTGC
*
13839407 TTTGTTTCT
1 TTTCTTTCT
13839416 TTTTAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.04, C:0.17, G:0.06, T:0.73
Consensus pattern (20 bp):
TTTCTTTCTATTTCTTTTGC
Found at i:13839426 original size:35 final size:33
Alignment explanation
Indices: 13839362--13839432 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
13839352 CTTTCTCCCT
* *
13839362 TTTCTTTTTCTTTCTTTCTTTTGTTTTCTTTCTA
1 TTTCTTTTGCTTTCTTTCTTTTGTATTCTTT-TA
*
13839396 TTTCATTTTGCTTTGTTTCTTTT-TAATTCTTTTA
1 TTTC-TTTTGCTTTCTTTCTTTTGT-ATTCTTTTA
13839430 TTT
1 TTT
13839433 TGTTATTTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 10 0.31
35 22 0.69
ACGTcount: A:0.07, C:0.14, G:0.04, T:0.75
Consensus pattern (33 bp):
TTTCTTTTGCTTTCTTTCTTTTGTATTCTTTTA
Found at i:13839466 original size:18 final size:19
Alignment explanation
Indices: 13839445--13839493 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
13839435 TTATTTCGTT
13839445 TTATTATACATA-AATATA
1 TTATTATACATATAATATA
*
13839463 TTATTATATAATATAATATA
1 TTATTATA-CATATAATATA
13839483 TATATATATAC
1 T-TAT-TATAC
13839494 TTAACACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 8 0.32
19 3 0.12
20 7 0.28
21 3 0.12
22 4 0.16
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTATACATATAATATA
Found at i:13859668 original size:45 final size:43
Alignment explanation
Indices: 13859618--13859773 Score: 163
Period size: 44 Copynumber: 3.5 Consensus size: 43
13859608 TGAAGCTACA
*
13859618 ATCCCCCTGAAGTTGCAGTGGAACAGATTGAAGATGGAAAATCTT
1 ATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGA--GAAAATCTT
* *
13859663 ATCCCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAAT-TCT
1 ATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-GAAAATCT-T
* * ** *
13859707 ATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGA-AACCAATCCT
1 ATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAGAA--AATCTT
*
13859751 ATCTCCCTGAAGTTGCAGTGGAG
1 ATCCCCCTGAAGTTGCAGTGGAG
13859774 TGGATTAAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 61 0.64
45 32 0.34
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (43 bp):
ATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAGAAAATCTT
Found at i:13872279 original size:27 final size:27
Alignment explanation
Indices: 13872234--13872288 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13872224 ATTAATTTAT
*
13872234 GTAGGGGGAGGGGGAATATAGGGATAG
1 GTAGGGGGAGAGGGAATATAGGGATAG
*
13872261 GTAGGGGGAGAGGGTATATAGGGATAG
1 GTAGGGGGAGAGGGAATATAGGGATAG
13872288 G
1 G
13872289 AACGTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.55, T:0.16
Consensus pattern (27 bp):
GTAGGGGGAGAGGGAATATAGGGATAG
Found at i:13874718 original size:21 final size:22
Alignment explanation
Indices: 13874674--13874721 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13874664 TTTATATTTT
*
13874674 TTTTATAATAATTTAATTTTAA
1 TTTTATAATAATTTAATTTAAA
* *
13874696 TTTTATATTCATTT-ATTTAAA
1 TTTTATAATAATTTAATTTAAA
13874717 TTTTA
1 TTTTA
13874722 AAAAATCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTATAATAATTTAATTTAAA
Found at i:13875587 original size:40 final size:40
Alignment explanation
Indices: 13875532--13875609 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
13875522 GAAGTCAAGG
* * * * *
13875532 GACGTGTCAGCAAATCGCGTCCACGTCAGCGCGCTTTGCT
1 GACGTGGCAACAAATCACGTCCACGTAAGCGCGATTTGCT
13875572 GACGTGGCAACAAATCACGTCCACGTAAGCGCGATTTG
1 GACGTGGCAACAAATCACGTCCACGTAAGCGCGATTTG
13875610 TGTCCATGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (40 bp):
GACGTGGCAACAAATCACGTCCACGTAAGCGCGATTTGCT
Found at i:13876404 original size:21 final size:22
Alignment explanation
Indices: 13876364--13876406 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
13876354 CCCTAAAAAT
* *
13876364 CCTAAAAATCCTAAACCCTAAC
1 CCTAAAAATCCAAAAACCTAAC
13876386 CCTAAAAA-CCAAAAACCTAAC
1 CCTAAAAATCCAAAAACCTAAC
13876407 GTGGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (22 bp):
CCTAAAAATCCAAAAACCTAAC
Found at i:13896963 original size:25 final size:25
Alignment explanation
Indices: 13896913--13896965 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
13896903 GTTACTGGAG
* * * *
13896913 GTTGTTAGCTATTTTCTTGTTTTTA
1 GTTGTTAGCTACTTCCTTATTCTTA
13896938 GTTGTTAGCTACTTCCTTATTCTTA
1 GTTGTTAGCTACTTCCTTATTCTTA
13896963 GTT
1 GTT
13896966 AAGTAGTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.58
Consensus pattern (25 bp):
GTTGTTAGCTACTTCCTTATTCTTA
Found at i:13897649 original size:22 final size:21
Alignment explanation
Indices: 13897624--13897675 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
13897614 TTTATTAAAT
13897624 AAAATA-AAATTATAAAAACTAA
1 AAAATATAAA-TA-AAAAACTAA
*
13897646 AAAATATAAATAGAAAACTAA
1 AAAATATAAATAAAAAACTAA
13897667 AAAATATAA
1 AAAATATAA
13897676 CATTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 17 0.61
22 8 0.29
23 3 0.11
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATATAAATAAAAAACTAA
Found at i:13897810 original size:20 final size:19
Alignment explanation
Indices: 13897777--13897815 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
13897767 GAAATTAAAA
13897777 TATTATTTCTTTTAATTTTT
1 TATTATTTCTTTT-ATTTTT
13897797 TATTATTT-TATTTATTTTT
1 TATTATTTCT-TTTATTTTT
13897816 GTTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
TATTATTTCTTTTATTTTT
Found at i:13898997 original size:12 final size:12
Alignment explanation
Indices: 13898958--13899001 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
13898948 CTTAACTCCC
*
13898958 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
13898970 ATTTTAAAAATA
1 TTTTTTAAAATA
13898982 TTTTTTAAAAT-
1 TTTTTTAAAATA
13898993 TTTTTTAAA
1 TTTTTTAAA
13899002 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:13899931 original size:21 final size:21
Alignment explanation
Indices: 13899907--13899955 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13899897 AGATGCCGTA
* *
13899907 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCACCG
*
13899928 CCGGAGGAACAACAACCACCG
1 CCGGAAGAACAACAACCACCG
13899949 CCGGAAG
1 CCGGAAG
13899956 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.35, C:0.37, G:0.27, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCACCG
Found at i:13900406 original size:138 final size:135
Alignment explanation
Indices: 13900171--13900471 Score: 347
Period size: 138 Copynumber: 2.2 Consensus size: 135
13900161 TTAATACCCT
* * *
13900171 TAAATTAAAAACCCTAACCTACTTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCC
1 TAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAAATTAAAAACCCTAACAC
* *
13900236 CCTTAACTTAAAAAACCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCATA
66 CCTAAACTTAAAAAACCTAACCCAATTAACTTAAAAACCCTAACC--ATTAAATTAAAAACCATA
**
13900301 ACCTCCC
129 ACCTAAC
* *
13900308 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCT-AA-TCTAATTTAATTAAAAACCCTA
1 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA---AATTAAAAACCCTA
* ** * * * *
13900371 A-ACCCTAAACTTAAAAACCCTAACCCCCTTGACTTAAAAACCCTAACCCTTAACTTAAAAACCC
62 ACACCCTAAACTTAAAAAACCTAACCCAATTAACTTAAAAACCCTAACCATTAAATTAAAAACCA
*
13900435 TAACCTAAT
127 TAACCTAAC
* * *
13900444 TTAATTAAAAACCCTAAACTAAATTAAT
1 TAAATTAAAAACCCTAACCTAATTTAAT
13900472 AATTTTACTT
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
135 22 0.16
136 26 0.19
137 6 0.04
138 72 0.51
139 14 0.10
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (135 bp):
TAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAAATTAAAAACCCTAACAC
CCTAAACTTAAAAAACCTAACCCAATTAACTTAAAAACCCTAACCATTAAATTAAAAACCATAAC
CTAAC
Found at i:13900465 original size:23 final size:23
Alignment explanation
Indices: 13900173--13900471 Score: 242
Period size: 23 Copynumber: 13.1 Consensus size: 23
13900163 AATACCCTTA
*
13900173 AATTAAAAACCCTAACCTACTTT
1 AATTAAAAACCCTAACCTAATTT
13900196 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
13900218 ACTTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
13900240 AACTTAAAAAACCTAACCTAA-TT
1 AA-TTAAAAACCCTAACCTAATTT
*
13900263 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
* *** *
13900287 AATTAAAAACCATAACCTCCCTA
1 AATTAAAAACCCTAACCTAATTT
13900310 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
* *
13900334 AATTAAAAATCCTAATCTAATTT
1 AATTAAAAACCCTAACCTAATTT
13900357 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *** *
13900379 ACTTAAAAACCCTAACCCCCTTG
1 AATTAAAAACCCTAACCTAATTT
* *
13900402 ACTTAAAAACCCTAACC---CTT
1 AATTAAAAACCCTAACCTAATTT
13900422 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
* *
13900446 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
13900469 AAT
1 AAT
13900472 AATTTTACTT
Statistics
Matches: 225, Mismatches: 33, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
20 6 0.03
21 19 0.08
22 25 0.11
23 138 0.61
24 29 0.13
25 8 0.04
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:13900471 original size:112 final size:113
Alignment explanation
Indices: 13900263--13900471 Score: 303
Period size: 112 Copynumber: 1.8 Consensus size: 113
13900253 TAACCTAATT
*
13900263 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCATAACCTCCCTAAACTTAAAAACCCTAACC
1 AACTTAAAAACCCTAACCCAATTAAATTAAAAACCATAA-C-CCCTAAACTTAAAAACCCTAACC
* * *
13900328 TAATTTAATTAAAAATCCTAATCTAATTTAATTAAAAACCCTAAACCCTA
64 TAATTTAATTAAAAACCCTAAACTAAATTAATTAAAAACCCTAAACCCTA
** * * * *
13900378 AACTTAAAAACCCTAACCCCCTTGACTTAAAAACCCTAA-CCCTTAACTTAAAAACCCTAACCTA
1 AACTTAAAAACCCTAACCCAATTAAATTAAAAACCATAACCCCTAAACTTAAAAACCCTAACCTA
13900442 ATTTAATTAAAAACCCTAAACTAAATTAAT
66 ATTTAATTAAAAACCCTAAACTAAATTAAT
13900472 AATTTTACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
112 51 0.61
115 33 0.39
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (113 bp):
AACTTAAAAACCCTAACCCAATTAAATTAAAAACCATAACCCCTAAACTTAAAAACCCTAACCTA
ATTTAATTAAAAACCCTAAACTAAATTAATTAAAAACCCTAAACCCTA
Found at i:13900674 original size:116 final size:115
Alignment explanation
Indices: 13900465--13900708 Score: 420
Period size: 116 Copynumber: 2.1 Consensus size: 115
13900455 CCCTAAACTA
* *
13900465 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAT-CTGGTACTAACAAT
13900530 TAATAATTTTATATAATTTGATAATTTTACTAA-TCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAACT-ATTAATACAATTTATC
13900581 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGAT-TGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTT-ATCTGGTACTAACAAT
13900645 TAATAATTTTATATAATTTGATAATTTTTACTAACTATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAA-TTTTACTAACTATTAATACAATTTATC
13900697 AATTAATAATTT
1 AATTAATAATTT
13900709 CACGAACTTC
Statistics
Matches: 123, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
115 37 0.30
116 84 0.68
117 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTATCTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAACTATTAATACAATTTATC
Found at i:13904007 original size:124 final size:124
Alignment explanation
Indices: 13903681--13904049 Score: 598
Period size: 123 Copynumber: 3.0 Consensus size: 124
13903671 CCCAAACATG
*
13903681 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
*
13903746 CTAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAA-AATTATTTCTTCCATAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAGAATTATTTCTTCCATAC
* * * *
13903804 CTACTGTAGCAAAAGTGCGTCCACGATGGTGCAATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
13903869 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAGAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAGAATTATTTCTTCCAT-AC
* *
13903929 CTACTGTAGCAAAAGCGTGTCCACTAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* ***
13903993 CTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCA
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAG-AATTATTTCTTCCA
13904050 GGACTTAAAA
Statistics
Matches: 227, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
123 100 0.44
124 83 0.37
125 44 0.19
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAGAATTATTTCTTCCATAC
Found at i:13905699 original size:49 final size:49
Alignment explanation
Indices: 13905630--13905744 Score: 131
Period size: 49 Copynumber: 2.3 Consensus size: 49
13905620 GGTGGTCATA
* * * * *
13905630 CGGTCATGAGTTGAAATATAACTAGGGCTCCTAGTTGACAGTAGTTATG
1 CGGTCATGGGTTCAAGTATAACTAGAGCCCCTAGTTGACAGTAGTTATG
* ** *
13905679 CGGTCATGGGTTCAAGTATAACTCGAGCCCCTAGTTGATGGTGGTTATG
1 CGGTCATGGGTTCAAGTATAACTAGAGCCCCTAGTTGACAGTAGTTATG
* *
13905728 TGATCATGGGTTCAAGT
1 CGGTCATGGGTTCAAGT
13905745 TAGAAAATGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (49 bp):
CGGTCATGGGTTCAAGTATAACTAGAGCCCCTAGTTGACAGTAGTTATG
Found at i:13909381 original size:19 final size:21
Alignment explanation
Indices: 13909357--13909401 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13909347 ACATCTTTTT
*
13909357 CAGAAGC-CCGAAG-GCTAAA
1 CAGAAGCACAGAAGTGCTAAA
*
13909376 CAGAAGCACATAAGTGCTAAA
1 CAGAAGCACAGAAGTGCTAAA
13909397 CAGAA
1 CAGAA
13909402 ATCCGTGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (21 bp):
CAGAAGCACAGAAGTGCTAAA
Found at i:13909479 original size:42 final size:42
Alignment explanation
Indices: 13909429--13909510 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
13909419 GGAAGCCCGT
13909429 AAGAGCTGAACGAAAACCCATTAAG-GTTAAACAGAAGCTCAA
1 AAGAGCTGAACGAAAACCCA-TAAGAGTTAAACAGAAGCTCAA
* *
13909471 AAGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTC
1 AAGAGCTGAACGAAAACCCATAAGAGTTAAACAGAAGCTC
13909511 GTGGAAGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (42 bp):
AAGAGCTGAACGAAAACCCATAAGAGTTAAACAGAAGCTCAA
Found at i:13919563 original size:23 final size:23
Alignment explanation
Indices: 13919531--13919585 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 23
13919521 ATTGAGCTAC
13919531 AACCGGATATGACGTACTCGAAAG
1 AACC-GATATGACGTACTCGAAAG
13919555 AACCGATATGACGTACTCGAAAG
1 AACCGATATGACGTACTCGAAAG
13919578 AACCGATA
1 AACCGATA
13919586 AGAATTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (23 bp):
AACCGATATGACGTACTCGAAAG
Found at i:13920920 original size:22 final size:22
Alignment explanation
Indices: 13920895--13920940 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13920885 TAAGTAGGTT
*
13920895 ATGGCACTACAAATGTAAGACC
1 ATGGCAATACAAATGTAAGACC
* *
13920917 ATGGCAATGCATATGTAAGACC
1 ATGGCAATACAAATGTAAGACC
13920939 AT
1 AT
13920941 AGTTGGACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
ATGGCAATACAAATGTAAGACC
Found at i:13921610 original size:78 final size:78
Alignment explanation
Indices: 13921481--13921640 Score: 293
Period size: 78 Copynumber: 2.1 Consensus size: 78
13921471 ATGTTATGTC
13921481 ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
1 ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
*
13921546 TGAGTGCAGGTTA
66 TGAGTGAAGGTTA
* *
13921559 ATGTTGAGAACATGTTTTGGCTTGTATTGATTACTTGGTTGGGATATATTAGTGTATGTGAATGT
1 ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
13921624 TGAGTGAAGGTTA
66 TGAGTGAAGGTTA
13921637 ATGT
1 ATGT
13921641 CAAAATGGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.42
Consensus pattern (78 bp):
ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
TGAGTGAAGGTTA
Found at i:13923103 original size:144 final size:144
Alignment explanation
Indices: 13922843--13923131 Score: 524
Period size: 144 Copynumber: 2.0 Consensus size: 144
13922833 AGACATTTTT
*
13922843 TATCAACCCAATCTATAGAATTGGTTTTCAACCAGAGCATAAATTTGCACGAGCTTCGATCAAGA
1 TATCAACCCAATCTATAGAATTGGTTTTCAACCAGAGCATAAAATTGCACGAGCTTCGATCAAGA
* * *
13922908 ATTTGAAGGAAAGTTTCGATTTCAAGCTAGAGAAGATTTTCAAGATTGAAATATAGATATCTAAT
66 ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCAAGATTGAAATATAGATATCTAAT
13922973 GTCACTAAACCCTG
131 GTCACTAAACCCTG
13922987 TATCAACCCAATCTATAGAATTGGTTTTCAACCAGAGCATAAAATTGCACGAGCTTCGATCAAGA
1 TATCAACCCAATCTATAGAATTGGTTTTCAACCAGAGCATAAAATTGCACGAGCTTCGATCAAGA
* *
13923052 ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCGAGCTTGAAATATAGATATCTAAT
66 ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCAAGATTGAAATATAGATATCTAAT
13923117 GTCACTAAACCCTG
131 GTCACTAAACCCTG
13923131 T
1 T
13923132 TAGATATGAT
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 139 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (144 bp):
TATCAACCCAATCTATAGAATTGGTTTTCAACCAGAGCATAAAATTGCACGAGCTTCGATCAAGA
ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCAAGATTGAAATATAGATATCTAAT
GTCACTAAACCCTG
Found at i:13924572 original size:3 final size:3
Alignment explanation
Indices: 13924566--13924616 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
13924556 ATAAAGAAGA
13924566 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13924614 AAT
1 AAT
13924617 TGTAGTAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13925865 original size:4 final size:4
Alignment explanation
Indices: 13925856--13925883 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
13925846 GGACTTTGGG
13925856 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
13925884 CTGAAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:13931289 original size:5 final size:5
Alignment explanation
Indices: 13931281--13931306 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13931271 AAATCTTCAA
13931281 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
13931307 CTAATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:13933283 original size:42 final size:42
Alignment explanation
Indices: 13933207--13933359 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 42
13933197 GCACATAAGT
* * * ** **
13933207 GCTAAACGGAAACTCATAAGGGTTGAA-CGAAAGCTCCTAGGA
1 GCTAAACAGAAACCCATAAGGGTTAAACCG-AAGCTCAGAAAA
* *
13933249 GCTTAACAGAAACCTATAAGGGTTAAACCGAAGCTCAGAAAA
1 GCTAAACAGAAACCCATAAGGGTTAAACCGAAGCTCAGAAAA
* * *
13933291 GCTAAACTGAAACCCATTAGGGTTAAACTGAAGCTCA-AAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAACCGAAGCTCAGAAA-A
* * * *
13933333 GATGAACTGAAACCCAAAAGGGTTAAA
1 GCTAAACAGAAACCCATAAGGGTTAAA
13933360 TTGAAACTAA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
41 3 0.03
42 86 0.95
43 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (42 bp):
GCTAAACAGAAACCCATAAGGGTTAAACCGAAGCTCAGAAAA
Found at i:13933364 original size:21 final size:21
Alignment explanation
Indices: 13933293--13933366 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
13933283 TCAGAAAAGC
**
13933293 TAAACTGAAACCCATTAGGGT
1 TAAACTGAAACCCAAAAGGGT
* * * *
13933314 TAAACTGAAGCTCAAAAGAGA
1 TAAACTGAAACCCAAAAGGGT
*
13933335 TGAACTGAAACCCAAAAGGGT
1 TAAACTGAAACCCAAAAGGGT
*
13933356 TAAATTGAAAC
1 TAAACTGAAAC
13933367 TAATATGAGT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (21 bp):
TAAACTGAAACCCAAAAGGGT
Found at i:13944050 original size:20 final size:18
Alignment explanation
Indices: 13944025--13944063 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
13944015 TTATTTGGGG
13944025 ATGAAGGGTGAAAAGTAAAA
1 ATGAAGGG-GAAAA-TAAAA
13944045 ATGAAGGGGAAAATAAAA
1 ATGAAGGGGAAAATAAAA
13944063 A
1 A
13944064 GTTTTGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (18 bp):
ATGAAGGGGAAAATAAAA
Found at i:13944921 original size:22 final size:21
Alignment explanation
Indices: 13944854--13944923 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
13944844 TAGGATATGG
13944854 TATGTTATAAGATATGCTTTGA
1 TATGTTATAAGATATGC-TTGA
* ** * * *
13944876 TACGAAATATGGTATGATATGA
1 TATGTTATAAGATATGCT-TGA
13944898 TATGTTATAAGATATGCTTCGA
1 TATGTTATAAGATATGCTT-GA
13944920 TATG
1 TATG
13944924 GAATCTGATG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (21 bp):
TATGTTATAAGATATGCTTGA
Found at i:13946176 original size:85 final size:85
Alignment explanation
Indices: 13946026--13946183 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
13946016 AATATAACAT
* *
13946026 ACTTATGTTGTTGCAGGTATGTCACAGAATCATCTGAAATTGGATTCTAACCTAATATCTAACAT
1 ACTTATGTTGTTGCAGGTATGCCACAGAATCATCTGAAATTGGATTCTAACATAATATCTAACAT
*
13946091 TGTCTTACTTATTTTAAAAA
66 TATCTTACTTATTTTAAAAA
* * * * *
13946111 ACTTGTGTTGTTGCAGGTATGCCACA-AGATCAT-TCGAAATTGGATTCTGACATGATCTCTGAC
1 ACTTATGTTGTTGCAGGTATGCCACAGA-ATCATCT-GAAATTGGATTCTAACATAATATCTAAC
13946174 ATTATCTTAC
64 ATTATCTTAC
13946184 CTATGGTGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 2 0.03
85 61 0.97
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (85 bp):
ACTTATGTTGTTGCAGGTATGCCACAGAATCATCTGAAATTGGATTCTAACATAATATCTAACAT
TATCTTACTTATTTTAAAAA
Found at i:13947817 original size:77 final size:75
Alignment explanation
Indices: 13947736--13947995 Score: 216
Period size: 75 Copynumber: 3.6 Consensus size: 75
13947726 TCGTTTCTCA
*
13947736 TTTTTTGGTAAATTGTAAATAAGTATATATTATTGATGTAAAATGCAACAAAATACAATATAAAC
1 TTTTTTCGTAAATTGTAAATAAG-ATATATTATTGATGTAAAATGCAACAAAATA-AATATAAA-
13947801 AATTTTTTTTCAT
63 AATTTTTTTTCAT
* * *
13947814 TTTTTTCTTAGATTGTAAATAAG-TATATTATTGA-G---AATGCATACAATAGAATAAACTACA
1 TTTTTTCGTAAATTGTAAATAAGATATATTATTGATGTAAAATGCA-AC-A-A-AATAAA-TATA
*
13947874 AATAA-TTTTTTTAAT
61 AA-AATTTTTTTTCAT
* *
13947889 TTTTTTCGTAAATTGTAAATAAGTATATATTATTGATATATAAT---AC--AATAGAATAT----
1 TTTTTTCGTAAATTGTAAATAAG-ATATATTATTGATGTAAAATGCAACAAAATA-AATATAAAA
13947945 ATTTTTTTT-A-
64 ATTTTTTTTCAT
*
13947955 TTTTTT-GTAAACTGTAAATAA-ATATATTATTGATGTAAAAT
1 TTTTTTCGTAAATTGTAAATAAGATATATTATTGATGTAAAAT
13947996 ACAATAGAAC
Statistics
Matches: 156, Mismatches: 13, Indels: 41
0.74 0.06 0.20
Matches are distributed among these distances:
63 18 0.12
65 14 0.09
66 6 0.04
67 2 0.01
68 7 0.04
72 12 0.08
73 4 0.03
74 1 0.01
75 34 0.22
76 22 0.14
77 13 0.08
78 20 0.13
81 3 0.02
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (75 bp):
TTTTTTCGTAAATTGTAAATAAGATATATTATTGATGTAAAATGCAACAAAATAAATATAAAAAT
TTTTTTTCAT
Found at i:13952718 original size:10 final size:10
Alignment explanation
Indices: 13952703--13952734 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
13952693 TATGATTCTT
13952703 TTTGTGTGTG
1 TTTGTGTGTG
13952713 TTTGTGTGTG
1 TTTGTGTGTG
*
13952723 TGTGTGTGTG
1 TTTGTGTGTG
13952733 TT
1 TT
13952735 CCAGAGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.41, T:0.59
Consensus pattern (10 bp):
TTTGTGTGTG
Found at i:13958560 original size:4 final size:4
Alignment explanation
Indices: 13958551--13958581 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
13958541 GGATCGGAAA
*
13958551 TGTT TGTT TGTT TGTT TGTT TGTT TTTT TGT
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGT
13958582 GTGGCTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TGTT
Found at i:13962906 original size:16 final size:16
Alignment explanation
Indices: 13962882--13962917 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13962872 TATATATTTG
13962882 AAAAATTTTTCAAAGC
1 AAAAATTTTTCAAAGC
*
13962898 AAAACTTTTTCAAAGC
1 AAAAATTTTTCAAAGC
13962914 AAAA
1 AAAA
13962918 TAATAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAATTTTTCAAAGC
Found at i:13963030 original size:11 final size:10
Alignment explanation
Indices: 13963000--13963061 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
13962990 TTCTAGAAAA
13963000 TTTT-TAATT
1 TTTTATAATT
*
13963009 TTTTA-ACTT
1 TTTTATAATT
13963018 TTTTATATATT
1 TTTTATA-ATT
*
13963029 TTTTAGAATT
1 TTTTATAATT
* *
13963039 TTTTTTAAAT
1 TTTTATAATT
*
13963049 TTTTAGAATT
1 TTTTATAATT
13963059 TTT
1 TTT
13963062 AAAAAAAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
9 12 0.29
10 21 0.51
11 8 0.20
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:13963053 original size:20 final size:20
Alignment explanation
Indices: 13963000--13963061 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
13962990 TTCTAGAAAA
*
13963000 TTTTTAATTTTTTA-ACTTT
1 TTTTTAATTTTTTAGAATTT
*
13963019 TTTATATATTTTTTAGAATTT
1 TTTTTA-ATTTTTTAGAATTT
*
13963040 TTTTTAAATTTTTAGAATTT
1 TTTTTAATTTTTTAGAATTT
13963060 TT
1 TT
13963062 AAAAAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 5 0.14
20 23 0.62
21 9 0.24
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTTAATTTTTTAGAATTT
Found at i:13969777 original size:12 final size:12
Alignment explanation
Indices: 13969760--13969789 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13969750 GTCACATGGG
13969760 CGTGTGGCTGGC
1 CGTGTGGCTGGC
*
13969772 CGTGTGGTTGGC
1 CGTGTGGCTGGC
13969784 CGTGTG
1 CGTGTG
13969790 CGAGAGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.50, T:0.30
Consensus pattern (12 bp):
CGTGTGGCTGGC
Found at i:13979883 original size:19 final size:19
Alignment explanation
Indices: 13979846--13979883 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13979836 AGAAAAATGG
*
13979846 TGGAAGCAATGAAAGAATA
1 TGGAAGCAATGAAACAATA
13979865 TGGAA-CAATGAATACAATA
1 TGGAAGCAATGAA-ACAATA
13979884 ATTTAGAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.18
Consensus pattern (19 bp):
TGGAAGCAATGAAACAATA
Found at i:13984057 original size:27 final size:27
Alignment explanation
Indices: 13984019--13984073 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13984009 TTAAGAGTCC
*
13984019 ATTCGTAATATTTGCTAGTACTTTGCA
1 ATTCGTAATATTTGATAGTACTTTGCA
13984046 ATTCGTAATATTTGATAGTACTTTGCA
1 ATTCGTAATATTTGATAGTACTTTGCA
13984073 A
1 A
13984074 AGGTATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (27 bp):
ATTCGTAATATTTGATAGTACTTTGCA
Found at i:13985879 original size:15 final size:15
Alignment explanation
Indices: 13985859--13985901 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
13985849 TCTTATACAC
* *
13985859 TGAAACTTTAGATTG
1 TGAAACTATAGATTA
*
13985874 TGAAACTATAGACTA
1 TGAAACTATAGATTA
13985889 TGAAACTATAGAT
1 TGAAACTATAGAT
13985902 AGGAAACTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (15 bp):
TGAAACTATAGATTA
Found at i:13985909 original size:14 final size:14
Alignment explanation
Indices: 13985860--13985909 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
13985850 CTTATACACT
* *
13985860 GAAACTTTAGATTG
1 GAAACTATAGATAG
*
13985874 TGAAACTATAGACTAT
1 -GAAACTATAGA-TAG
13985890 GAAACTATAGATAG
1 GAAACTATAGATAG
13985904 GAAACT
1 GAAACT
13985910 GTGACTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 8 0.27
15 21 0.70
16 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (14 bp):
GAAACTATAGATAG
Found at i:13987595 original size:30 final size:30
Alignment explanation
Indices: 13987561--13987619 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
13987551 TACGAGATTT
13987561 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
13987591 GGGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
13987620 TAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:13988107 original size:23 final size:23
Alignment explanation
Indices: 13988077--13988266 Score: 236
Period size: 23 Copynumber: 8.3 Consensus size: 23
13988067 GTGTTATTGA
* *
13988077 TCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTACGGCTACATT
*
13988100 TCAATGGTAGCTACGGCTACATT
1 TCAGTGGTAGCTACGGCTACATT
* * * *
13988123 TTAGTGGTAGCTACAGCTACGTA
1 TCAGTGGTAGCTACGGCTACATT
*
13988146 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTACGGCTACATT
*
13988169 TCAATGGTAGCTACGGCTACATT
1 TCAGTGGTAGCTACGGCTACATT
*
13988192 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTACGGCTACATT
* *
13988215 TTAGTGGTAGCTACGGCTACATA
1 TCAGTGGTAGCTACGGCTACATT
** * *
13988238 TCAACGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTACGGCTACATT
13988261 TCAGTG
1 TCAGTG
13988267 TGGCACTTAT
Statistics
Matches: 141, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 141 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTACGGCTACATT
Found at i:13988187 original size:69 final size:69
Alignment explanation
Indices: 13988076--13988266 Score: 274
Period size: 69 Copynumber: 2.8 Consensus size: 69
13988066 AGTGTTATTG
* *
13988076 ATCAGTGGTAGCTTCAGCTACATTTCAATGGTAGCTACGGCTACATTTTAGTGGTAGCTACAGCT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACATTTCAGTGGTAGCTACAGCT
*
13988141 ACGT
66 ACAT
* *
13988145 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACATTTCAGTGGTAGCTTCGGCT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACATTTCAGTGGTAGCTACAGCT
13988210 ACAT
66 ACAT
* * * * * * *
13988214 TTTAGTGGTAGCTACGGCTACATATCAACGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACATTTCAGTG
13988267 TGGCACTTAT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 110 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (69 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACATTTCAGTGGTAGCTACAGCT
ACAT
Found at i:13995084 original size:8 final size:8
Alignment explanation
Indices: 13995071--13995097 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13995061 TTTCTTTACA
13995071 AATTTCAT
1 AATTTCAT
13995079 AATTTCAT
1 AATTTCAT
13995087 AATTTCAT
1 AATTTCAT
13995095 AAT
1 AAT
13995098 CTAATCCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTCAT
Found at i:13996588 original size:19 final size:19
Alignment explanation
Indices: 13996561--13996598 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13996551 CCATTAATTG
*
13996561 TTTATACTTTTCTATTCTA
1 TTTAAACTTTTCTATTCTA
13996580 TTTAAACTTTTCTATTCTA
1 TTTAAACTTTTCTATTCTA
13996599 ATAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAAACTTTTCTATTCTA
Found at i:13999478 original size:2 final size:2
Alignment explanation
Indices: 13999471--13999500 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13999461 NNNNNNNNNN
13999471 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13999501 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:13999505 original size:2 final size:2
Alignment explanation
Indices: 13999500--13999543 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13999490 ACACACACAC
13999500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13999542 AT
1 AT
13999544 CATTAACAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14001268 original size:2 final size:2
Alignment explanation
Indices: 14001261--14001293 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14001251 TACAAGAAGA
14001261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14001294 AATTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14009292 original size:17 final size:17
Alignment explanation
Indices: 14009270--14009308 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14009260 AATTTAGATG
*
14009270 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
14009287 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
14009304 TAAAA
1 TAAAA
14009309 ATGGAGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:14010549 original size:9 final size:9
Alignment explanation
Indices: 14010520--14010556 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14010510 TGAGTTTTCA
14010520 AATTCGAAT
1 AATTCGAAT
*
14010529 AACTCGAAT
1 AATTCGAAT
14010538 AATTCGAAT
1 AATTCGAAT
*
14010547 AATTCAAAT
1 AATTCGAAT
14010556 A
1 A
14010557 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14014938 original size:38 final size:38
Alignment explanation
Indices: 14014886--14014994 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 38
14014876 GCCTAATCGA
* *
14014886 CACAGAGCCCAAATATCATCGGCACAAAGCCTGCTAGG
1 CACAAAGCCTAAATATCATCGGCACAAAGCCTGCTAGG
* * **
14014924 CACAAAGCCTAAATACCATCAGCACAAAGTTTGCTAGG
1 CACAAAGCCTAAATATCATCGGCACAAAGCCTGCTAGG
*
14014962 CACAAAG-CTCGAATATCA-CTGGCACAAAGCCTG
1 CACAAAGCCT-AAATATCATC-GGCACAAAGCCTG
14014995 AATTAACATT
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
37 3 0.05
38 55 0.95
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.16
Consensus pattern (38 bp):
CACAAAGCCTAAATATCATCGGCACAAAGCCTGCTAGG
Found at i:14020539 original size:39 final size:39
Alignment explanation
Indices: 14020496--14020574 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
14020486 ATATGTGGTG
14020496 TATGGTTGTCATGTGAATGTATAATTTGTGAATTGGTAT
1 TATGGTTGTCATGTGAATGTATAATTTGTGAATTGGTAT
14020535 TATGGTTGTCATGTGAATGTATAATTTGTGAATTGGTAT
1 TATGGTTGTCATGTGAATGTATAATTTGTGAATTGGTAT
14020574 T
1 T
14020575 TTGGGGTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (39 bp):
TATGGTTGTCATGTGAATGTATAATTTGTGAATTGGTAT
Found at i:14030288 original size:38 final size:38
Alignment explanation
Indices: 14030235--14030380 Score: 114
Period size: 38 Copynumber: 3.7 Consensus size: 38
14030225 GATACAATTA
* * * * *
14030235 CACCAGCATAAAGCCTACTCGGCACAGAGGCCAAATAT
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCCAAATAT
* * *
14030273 CACCGGCACAAAGCCTGCTAGGTACAAATCCCAAATAT
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCCAAATAT
14030311 CACCGGCACAAAGCCTGAATATCACTA-GCACAAAGCCCAAATAT
1 CACCGGCACAAAGCC------T-ACTAGGCACAAAGCCCAAATAT
* * * *
14030355 CACTGACGCAAAGCCTGCTAGGCACA
1 CACCGGCACAAAGCCTACTAGGCACA
14030381 GAGTCTGCAT
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
37 3 0.04
38 51 0.60
44 28 0.33
45 3 0.04
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.14
Consensus pattern (38 bp):
CACCGGCACAAAGCCTACTAGGCACAAAGCCCAAATAT
Done.