Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 92 of 433
Found at i:27687045 original size:28 final size:28
Alignment explanation
Indices: 27686997--27687153 Score: 89
Period size: 28 Copynumber: 5.6 Consensus size: 28
27686987 ATAATTTTTA
* *
27686997 AAATTATATATAATAAT-AAATAATAAGAT
1 AAATAATATAT-ATAATAAAATAAGAA-AT
27687026 AACAT-A-ATATATAATAAAATAAGAAAT
1 AA-ATAATATATATAATAAAATAAGAAAT
* **
27687053 GAATAATATATATAATAAAATGATTTAATAT
1 AAATAATATATATAATAAAAT-A-AGAA-AT
* *
27687084 ATAATAAAATATATAATAAAAT---ATAT
1 A-AATAATATATATAATAAAATAAGAAAT
* * *
27687110 AAATAATATA-ACAA-ATAATACATAAAT
1 AAATAATATATATAATAAAATA-AGAAAT
27687137 AAA-AATATATATAATAA
1 AAATAATATATATAATAA
27687154 TTTTTTAAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 29
0.71 0.09 0.20
Matches are distributed among these distances:
23 4 0.04
24 3 0.03
25 8 0.08
26 11 0.11
27 19 0.19
28 27 0.27
29 4 0.04
30 4 0.04
31 2 0.02
32 19 0.19
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (28 bp):
AAATAATATATATAATAAAATAAGAAAT
Found at i:27687046 original size:12 final size:12
Alignment explanation
Indices: 27687031--27687111 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
27687021 AAGATAACAT
27687031 AATATATAATAA
1 AATATATAATAA
*
27687043 AATAAGAAATGAATAA
1 AAT---ATAT-AATAA
*
27687059 TATATATAATAA
1 AATATATAATAA
27687071 AATGAT-T--T-A
1 AAT-ATATAATAA
27687080 A-TATATAATAA
1 AATATATAATAA
27687091 AATATATAATAA
1 AATATATAATAA
27687103 AATATATAA
1 AATATATAA
27687112 ATAATATAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 2 0.04
10 2 0.04
11 2 0.04
12 30 0.55
13 5 0.09
15 3 0.05
16 7 0.13
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (12 bp):
AATATATAATAA
Found at i:27687217 original size:31 final size:30
Alignment explanation
Indices: 27687165--27687238 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
27687155 TTTTTAAATG
*
27687165 TATAAATAATGTTTATAATAAAAATAAATGATA
1 TATAAAAAAT-TTTATAAT--AAATAAATGATA
* *
27687198 TATAAAACATTTTA-AATAAATAAATTATA
1 TATAAAAAATTTTATAATAAATAAATGATA
27687227 TATAAAAAATTT
1 TATAAAAAATTT
27687239 AAAAAGGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 22 0.59
31 3 0.08
32 4 0.11
33 8 0.22
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (30 bp):
TATAAAAAATTTTATAATAAATAAATGATA
Found at i:27687236 original size:14 final size:14
Alignment explanation
Indices: 27687190--27687237 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
27687180 TAATAAAAAT
*
27687190 AAATGATATATAAA
1 AAATTATATATAAA
* * *
27687204 ACATTTTAAATAAA
1 AAATTATATATAAA
27687218 TAAATTATATATAAA
1 -AAATTATATATAAA
27687233 AAATT
1 AAATT
27687238 TAAAAAGGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
AAATTATATATAAA
Found at i:27688832 original size:90 final size:90
Alignment explanation
Indices: 27688679--27689812 Score: 1604
Period size: 90 Copynumber: 12.6 Consensus size: 90
27688669 GCCATGTTAA
* * * * *
27688679 TATCTTTGAGCTGTTCCCCGTCAAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTCGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
*
27688744 GTAAACACACAAATGTCAGATCTGC
66 GTAAACACACGAATGTCAGATCTGC
* * * * *
27688769 TATCTTCGATCTGTTCCCCGTCTAATATAGAGACACCAAATCAGTCATCTTCGATCTGTTTCGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* * *
27688834 GTAAACACATGAATCTCAGATCTAC
66 GTAAACACACGAATGTCAGATCTGC
* * *
27688859 TATCTTCGATCTACTCCCCGTCTAATATAGAAACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
27688924 ATAAACACACGAATGTCAGATTTGC
66 GTAAACACACGAATGTCAGATCTGC
* *
27688949 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACACAAAATCTGTCATCTTCGATCTGCTTCGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
27689014 GTAAACACACGAATGTTAGATCTTC
66 GTAAACACACGAATGTCAGATCTGC
* * * * * *
27689039 TATCTTTGATCTGCTCTCTGTCCAATACAGAGACGCCAAATATGTCATCTTCGATCTGCTTCAAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
27689104 GTAAACACACGAATGTCAGATCTGC
66 GTAAACACACGAATGTCAGATCTGC
* * * *
27689129 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCAATCTGCTTCAAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
27689194 GTAAACACATGAATGTCAGATTTGC
66 GTAAACACACGAATGTCAGATCTGC
* ** * ** *
27689219 TATCTTTGATCTGCTCCTTGTCTAATACAGACA-GCCAAATCTGTCATCTTCGATCTATTTCGAC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
*
27689283 GTAAACACACAAATGTCAGATCTGC
66 GTAAACACACGAATGTCAGATCTGC
* *
27689308 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTCAAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
27689373 GTAAACACACAAATGTTAGATCTGC
66 GTAAACACACGAATGTCAGATCTGC
* *
27689398 TATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
27689463 GTAAACACACAAATGTTAGATCTGC
66 GTAAACACACGAATGTCAGATCTGC
* * * * **
27689488 TATCTTCAATCTGCTCCCCGTCTAATATAGAGATGCCAAATCTGTCATTTTTTATCTGCTTCGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
27689553 GTAAACACATGAATGTCAGATTTGC
66 GTAAACACACGAATGTCAGATCTGC
* *
27689578 TATCTTCGATCTGCTCCCCGTCTAATACAGGGACGCCAAATCTGTCATCTTCGATCTGCTTTGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
* *
27689643 GTAAACACATGAATGTCAGATCTGT
66 GTAAACACACGAATGTCAGATCTGC
** * * * *
27689668 TATCTTCGATCTGCTCCCCGTCTTTTACAAAGACGCCAAATCTGTCATCTTTGATCTACTTCTAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
*
27689733 GTAAACACAGGAATGTCAGATCTGC
66 GTAAACACACGAATGTCAGATCTGC
* * *
27689758 TATCTTCGATCTGCTCGCCTTCTAATATAGAGACGCCAAATCTGTCATCTTCGAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGAT
27689813 TTGTTCCCCA
Statistics
Matches: 929, Mismatches: 114, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
89 76 0.08
90 853 0.92
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (90 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGAT
GTAAACACACGAATGTCAGATCTGC
Found at i:27689801 original size:45 final size:44
Alignment explanation
Indices: 27689752--27689850 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
27689742 GGAATGTCAG
* * *
27689752 ATCTGCTATCTTCGATCTGCTCGCCTTCTAATATAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCATC-AATACAGAGACGCCAA
* * *
27689797 ATCTG-TCATCTTCGATTTGTTCCCCATCAATACAGAGATGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCCCCATCAATACAGAGACGCCAA
27689841 ATCTGCTATC
1 ATCTGCTATC
27689851 AGTGATCTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
44 23 0.50
45 23 0.50
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCCCCATCAATACAGAGACGCCAA
Found at i:27689847 original size:539 final size:539
Alignment explanation
Indices: 27688679--27689850 Score: 1578
Period size: 539 Copynumber: 2.2 Consensus size: 539
27688669 GCCATGTTAA
* * * * * * * ** * *
27688679 TATCTTTGAGCTGTTCCCCGTCAAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTCGAT
1 TATCTTCGATCTGCTCCCTGTCTAATACAGACA-GCCAAATCTGTCATCTTCGATCTATTTCCAC
* * * * *
27688744 GTAAACACACAAATGTCAGATCTGCTATCTTCGATCTGTTCCCCGTCTAATATAGAGACACCAAA
65 ATAAACACACAAATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAA
* * **
27688809 TCAGTCATCTTCGATCTGTTTCGATGTAAACACATGAATCTCAGATCTACTATCTTCGATCTACT
130 TCAGTCATCTTCGATCTGCTTCAATGTAAACACACAAATCTCAGATCTACTATCTTCGATCTACT
* *
27688874 CCCCGTCTAATATAGAAACGCCAAATCTGTCATCTTCGATCTGCTTCGATATAAACACACGAATG
195 CCCCGTCTAATACAGAAACGCCAAATCTGTCATCTTCGATCTGCTTCGATATAAACACACAAATG
* *
27688939 TCAGATTTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACAAAATCTGTCATCTTCGAT
260 TCAGATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACACAAAATCTGTCATCTTCGAT
* * * *
27689004 CTGCTTCGATGTAAACACACGAATGTTAGATCTTCTATCTTTGATCTGCTCTCTGTCCAATACAG
325 CTGCTTCGATGTAAACACACGAATGTCAGATCTTCTATCTTCGATCTGCTCCCCGTCCAATACAG
27689069 AGACGCCAAATATGTCATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCT
390 AGACGCCAAATATGTCATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCT
* * *
27689134 TCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCAATCTGCTTCAATGTAAA
455 TCGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTATCATCTTCAATCTACTTCAATGTAAA
* *
27689199 CACATGAATGTCAGATTTGC
520 CACAGGAATGTCAGATCTGC
* * * *
27689219 TATCTTTGATCTGCTCCTTGTCTAATACAGACAGCCAAATCTGTCATCTTCGATCTATTTCGACG
1 TATCTTCGATCTGCTCCCTGTCTAATACAGACAGCCAAATCTGTCATCTTCGATCTATTTCCACA
* * *
27689284 TAAACACACAAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
66 TAAACACACAAATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAAT
* * * * *
27689349 CTGTCATTTTCGATCTGCTTCAATGTAAACACACAAATGTTAGATCTGCTATCTTCGATCTACTC
131 CAGTCATCTTCGATCTGCTTCAATGTAAACACACAAATCTCAGATCTACTATCTTCGATCTACTC
* * *
27689414 CCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACAAATGT
196 CCCGTCTAATACAGAAACGCCAAATCTGTCATCTTCGATCTGCTTCGATATAAACACACAAATGT
* * ** * * **
27689479 TAGATCTGCTATCTTCAATCTGCTCCCCGTCTAATATAGAGATGCCAAATCTGTCATTTTTTATC
261 CAGATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACACAAAATCTGTCATCTTCGATC
* *
27689544 TGCTTCGATGTAAACACATGAATGTCAGAT-TTGCTATCTTCGATCTGCTCCCCGTCTAATACAG
326 TGCTTCGATGTAAACACACGAATGTCAGATCTT-CTATCTTCGATCTGCTCCCCGTCCAATACAG
* * ** * *
27689608 GGACGCCAAATCTGTCATCTTCGATCTGCTTTGATGTAAACACATGAATGTCAGATCTGTTATCT
390 AGACGCCAAATATGTCATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCT
** * ** *
27689673 TCGATCTGCTCCCCGTCTTTTACAAAGACGCCAAATCTGTCATCTTTGATCTACTTCTATGTAAA
455 TCGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTATCATCTTCAATCTACTTCAATGTAAA
27689738 CACAGGAATGTCAGATCTGC
520 CACAGGAATGTCAGATCTGC
* *
27689758 TATCTTCGATCTGCTCGCCT-TCTAATATAGAGACGCCAAATCTGTCATCTTCGAT-T-TGTTCC
1 TATCTTCGATCTGCTC-CCTGTCTAATACAGACA-GCCAAATCTGTCATCTTCGATCTAT-TTCC
* * * * *
27689820 CCATCAATACAGAGATGCCAAATCTGCTATC
63 ACATAAACACACAAATGCCAAATCTGCTATC
27689851 AGTGATCTAC
Statistics
Matches: 555, Mismatches: 73, Indels: 9
0.87 0.11 0.01
Matches are distributed among these distances:
538 3 0.01
539 502 0.90
540 50 0.09
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (539 bp):
TATCTTCGATCTGCTCCCTGTCTAATACAGACAGCCAAATCTGTCATCTTCGATCTATTTCCACA
TAAACACACAAATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAAT
CAGTCATCTTCGATCTGCTTCAATGTAAACACACAAATCTCAGATCTACTATCTTCGATCTACTC
CCCGTCTAATACAGAAACGCCAAATCTGTCATCTTCGATCTGCTTCGATATAAACACACAAATGT
CAGATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACACAAAATCTGTCATCTTCGATC
TGCTTCGATGTAAACACACGAATGTCAGATCTTCTATCTTCGATCTGCTCCCCGTCCAATACAGA
GACGCCAAATATGTCATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTT
CGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTATCATCTTCAATCTACTTCAATGTAAAC
ACAGGAATGTCAGATCTGC
Found at i:27692331 original size:14 final size:14
Alignment explanation
Indices: 27692314--27692348 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27692304 TAATGTTAGT
* *
27692314 AAAAGAAGAAAAAG
1 AAAAGAAAAAAAAA
27692328 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
27692342 AAAAGAA
1 AAAAGAA
27692349 TGCTCATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:27693656 original size:29 final size:29
Alignment explanation
Indices: 27693623--27693783 Score: 241
Period size: 29 Copynumber: 5.6 Consensus size: 29
27693613 GTGACGAGAT
27693623 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
27693652 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
27693681 TGGCACTAAGTGTGTGTGCTAGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
27693710 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
27693739 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
27693768 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
27693784 AGTTCGGAGG
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 119 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:27701176 original size:40 final size:40
Alignment explanation
Indices: 27701094--27701342 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
27701084 AACATTGGAA
27701094 ATATATCCGGGCTAAGACCCGAAGGCA-TCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
27701133 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
27701173 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
27701213 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
27701253 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
27701292 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
27701333 CTATATCCGG
1 ATATATCCGG
27701343 TTAAATCCCG
Statistics
Matches: 190, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.15
40 161 0.85
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:27708352 original size:17 final size:18
Alignment explanation
Indices: 27708310--27708358 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
27708300 AGTTGAAAAG
27708310 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
27708329 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
27708346 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
27708359 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:27709242 original size:40 final size:40
Alignment explanation
Indices: 27709176--27709326 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
27709166 AAATTGAATG
* * *
27709176 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
27709215 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
27709255 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
27709295 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
27709327 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27709340 original size:40 final size:40
Alignment explanation
Indices: 27709212--27709342 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
27709202 TATGCTGGAA
* * * *
27709212 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
27709252 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
27709292 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
27709332 ATTATATCCGG
1 ATTATATCCGG
27709343 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:27712707 original size:53 final size:53
Alignment explanation
Indices: 27712627--27712732 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
27712617 GATAAGATTG
27712627 AACGGAATGAAATTTCATTCATTTTATCGAATGTTTAAAATTTTCCTATGTTT
1 AACGGAATGAAATTTCATTCATTTTATCGAATGTTTAAAATTTTCCTATGTTT
*
27712680 AACGGAATGAAATTTCGTTCATTTTATCGAATGTTTAAAATTTTCCTATGTTT
1 AACGGAATGAAATTTCATTCATTTTATCGAATGTTTAAAATTTTCCTATGTTT
27712733 TTTTAATAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (53 bp):
AACGGAATGAAATTTCATTCATTTTATCGAATGTTTAAAATTTTCCTATGTTT
Found at i:27712711 original size:24 final size:23
Alignment explanation
Indices: 27712631--27712712 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 23
27712621 AGATTGAACG
27712631 GAATGAAATTTCATTCATTTTATC
1 GAATGAAATTTC-TTCATTTTATC
* *
27712655 GAATGTTTAAAATTT-TCCTATGTTTAAC
1 GAATG----AAATTTCTTC-AT-TTTATC
27712683 GGAATGAAATTTCGTTCATTTTATC
1 -GAATGAAATTTC-TTCATTTTATC
27712708 GAATG
1 GAATG
27712713 TTTAAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
24 10 0.22
25 11 0.24
26 4 0.09
27 4 0.09
28 11 0.24
29 5 0.11
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (23 bp):
GAATGAAATTTCTTCATTTTATC
Found at i:27713249 original size:22 final size:24
Alignment explanation
Indices: 27713204--27713251 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
27713194 TAATCTTTAA
27713204 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
27713228 TATAT-ATT-TATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
27713250 TA
1 TA
27713252 GCATTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 3 0.13
24 5 0.22
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:27721614 original size:25 final size:25
Alignment explanation
Indices: 27721581--27721632 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
27721571 TTGGAAATGA
27721581 ATGAGATTATGGACTAAATTAGAAT
1 ATGAGATTATGGACTAAATTAGAAT
27721606 ATGAGATTATGGACTAAATTAGAAT
1 ATGAGATTATGGACTAAATTAGAAT
27721631 AT
1 AT
27721633 ATAGCCGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (25 bp):
ATGAGATTATGGACTAAATTAGAAT
Found at i:27722159 original size:42 final size:43
Alignment explanation
Indices: 27722064--27722159 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
27722054 AAGAAATCTG
*
27722064 AGCTCGTTGAGTAGTCCGAGTTCATGATATATGTAAGAATCCA
1 AGCTCGTTGAGTAGTCCAAGTTCATGATATATGTAAGAATCCA
* * * * * *
27722107 AACTTGTTGAGTGGTCCAAGTTCGTGATCA-ATGT-GGCATCCA
1 AGCTCGTTGAGTAGTCCAAGTTCATGAT-ATATGTAAGAATCCA
27722149 AGCTCGTTGAG
1 AGCTCGTTGAG
27722160 ATGTCCGAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
42 15 0.35
43 27 0.63
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
AGCTCGTTGAGTAGTCCAAGTTCATGATATATGTAAGAATCCA
Found at i:27726408 original size:29 final size:28
Alignment explanation
Indices: 27726374--27726476 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
27726364 TACTCGATCA
* *
27726374 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * *
27726403 CGCACACATAGTGCCATACAATTTGAGCT
1 CGCACACTTAGTGCCATA-TATTTAAGCT
* *
27726432 CGCACACTCAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCCATATATTT-AAGCT
*
27726461 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27726477 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 4 0.07
29 57 0.93
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:27734166 original size:29 final size:28
Alignment explanation
Indices: 27734134--27734206 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
27734124 ATTTAAGCCC
* *
27734134 GCACACATAGTGGCATACAATTT-GAGCTT
1 GCACAC-TAGTGCCATA-AATTTCCAGCTT
*
27734163 GCACACTCAGTGCCATATATTTCCAGCTT
1 GCACACT-AGTGCCATAAATTTCCAGCTT
27734192 GCACACTTAGTGCCA
1 GCACAC-TAGTGCCA
27734207 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.13
29 32 0.84
30 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (28 bp):
GCACACTAGTGCCATAAATTTCCAGCTT
Found at i:27736477 original size:23 final size:24
Alignment explanation
Indices: 27736451--27736501 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
27736441 ATTTGCAATA
27736451 ATTG-ACTAGCCTTTTT-TGTAAAT
1 ATTGAACTAG-CTTTTTCTGTAAAT
*
27736474 ATTGAAATTAGCTTTTTCTGTAAAT
1 ATTG-AACTAGCTTTTTCTGTAAAT
27736499 ATT
1 ATT
27736502 TTAAAATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 6 0.25
25 14 0.58
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (24 bp):
ATTGAACTAGCTTTTTCTGTAAAT
Found at i:27763933 original size:29 final size:29
Alignment explanation
Indices: 27763899--27763974 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
27763889 TAATCGATCA
* * *
27763899 CGCACACTTAGTGCCATGTGATTTGAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
* *
27763928 CGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATATAATTTAAGCT
27763957 CGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
27763975 CTTTTCGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAATTTAAGCT
Found at i:27763990 original size:29 final size:28
Alignment explanation
Indices: 27763900--27764001 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 28
27763890 AATCGATCAC
* *
27763900 GCACACTTAGTGCCATGTGATTTGAGCTC
1 GCACACTTAGTGCCATAT-ATTTGAGCTT
* *
27763929 GCACACATAGTGCCATATAATTTAAG-TT
1 GCACACTTAGTGCCATAT-ATTTGAGCTT
27763957 CGCACACTTAGTGCCATACT-TTTCGAGCTT
1 -GCACACTTAGTGCCATA-TATTT-GAGCTT
*
27763987 GCACACTTAGCGCCA
1 GCACACTTAGTGCCA
27764002 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
28 4 0.07
29 54 0.89
30 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (28 bp):
GCACACTTAGTGCCATATATTTGAGCTT
Found at i:27765237 original size:42 final size:42
Alignment explanation
Indices: 27765178--27765262 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
27765168 CCCTTGCTTC
27765178 TATTCGGCCAAGACTACCAAAGGATGAACAACTATTTTCTTT
1 TATTCGGCCAAGACTACCAAAGGATGAACAACTATTTTCTTT
27765220 TATTCGGCCAAGACTACCAAAGGATGAACAACTATTTTCTTT
1 TATTCGGCCAAGACTACCAAAGGATGAACAACTATTTTCTTT
27765262 T
1 T
27765263 CTTTCTTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
TATTCGGCCAAGACTACCAAAGGATGAACAACTATTTTCTTT
Found at i:27772025 original size:28 final size:29
Alignment explanation
Indices: 27771994--27772095 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
27771984 TAATCGATCA
* *
27771994 CGCACACTTAGTGCCATGTGATTT-AGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
* *
27772022 CGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATATAATTTAAGCT
27772051 CGCACACTTAGTGCCATACT--TTTCAAGCT
1 CGCACACTTAGTGCCATA-TAATTT-AAGCT
*
27772080 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27772096 ATCTTGTCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 24 0.38
29 39 0.61
30 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAATTTAAGCT
Found at i:27781613 original size:40 final size:40
Alignment explanation
Indices: 27781563--27781753 Score: 136
Period size: 39 Copynumber: 4.8 Consensus size: 40
27781553 GCTACTCGTT
* * * ***
27781563 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
* *
27781603 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
* * * * * * *
27781643 CAATTGCCTTCGGG-CTTAGCCTGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
* * * * * * *
27781682 CCATTGCCTTTGGG-CTTAGCCCGGATATCACAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
* * *
27781721 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAA
27781754 TTCGCACATT
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 85 0.65
40 45 0.35
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
Found at i:27781680 original size:39 final size:39
Alignment explanation
Indices: 27781599--27781761 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
27781589 TATGGTAACC
* *
27781599 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
27781639 CGCACAATTGCCTTCGGGCTTAGCCTGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
27781678 CGCACCATTGCCTTTGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
27781717 CACACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
27781756 CGCACA
1 CGCACA
27781762 TTCATACACA
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 91 0.84
40 17 0.16
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:27800400 original size:38 final size:38
Alignment explanation
Indices: 27800358--27800433 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
27800348 CTCATTCAAA
27800358 ATACATTCTATTCAATTTAGTCCAAAATTCATATTATG
1 ATACATTCTATTCAATTTAGTCCAAAATTCATATTATG
27800396 ATACATTCTATTCAATTTAGTCCAAAATTCATATTATG
1 ATACATTCTATTCAATTTAGTCCAAAATTCATATTATG
27800434 GCAATTTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (38 bp):
ATACATTCTATTCAATTTAGTCCAAAATTCATATTATG
Found at i:27801462 original size:19 final size:20
Alignment explanation
Indices: 27801422--27801459 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27801412 AAAAAAGAGA
27801422 AAAAAATCATTATTTTTTTC
1 AAAAAATCATTATTTTTTTC
27801442 AAAAAATCATTATTTTTT
1 AAAAAATCATTATTTTTT
27801460 CAACCTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAAAATCATTATTTTTTTC
Found at i:27805953 original size:24 final size:20
Alignment explanation
Indices: 27805903--27805951 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
27805893 AACATATTCA
27805903 AAATGCATGAATCAAATTTT
1 AAATGCATGAATCAAATTTT
27805923 AAATGCATGAATCAAATTTT
1 AAATGCATGAATCAAATTTT
27805943 AAATGCATG
1 AAATGCATG
27805952 CACTTATGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (20 bp):
AAATGCATGAATCAAATTTT
Found at i:27815468 original size:30 final size:25
Alignment explanation
Indices: 27815434--27815504 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 25
27815424 TTTTCCATAG
27815434 TTTTAGGGTTAGGTTTTCTTTTCTTTTCAT
1 TTTTA-GGTTAGGTTTTC---TCTTTTC-T
*
27815464 TTTTAGATTAGGTTTTCTCTTTTCT
1 TTTTAGGTTAGGTTTTCTCTTTTCT
*
27815489 TTTTAGGTTAGATTTT
1 TTTTAGGTTAGGTTTT
27815505 AGTTTTGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 15 0.39
26 7 0.18
29 11 0.29
30 5 0.13
ACGTcount: A:0.13, C:0.08, G:0.15, T:0.63
Consensus pattern (25 bp):
TTTTAGGTTAGGTTTTCTCTTTTCT
Found at i:27820397 original size:20 final size:20
Alignment explanation
Indices: 27820372--27820412 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27820362 TCATGTACAT
27820372 ACTTGTACCATCTCATATCA
1 ACTTGTACCATCTCATATCA
* *
27820392 ACTTGTATCATCTCGTATCA
1 ACTTGTACCATCTCATATCA
27820412 A
1 A
27820413 TCTCATACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (20 bp):
ACTTGTACCATCTCATATCA
Found at i:27821222 original size:32 final size:34
Alignment explanation
Indices: 27821186--27821250 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
27821176 TAACAGTGGT
*
27821186 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
27821218 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
27821251 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:27823129 original size:26 final size:26
Alignment explanation
Indices: 27823098--27823205 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
27823088 TGAAATTCCC
27823098 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
27823124 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
27823150 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27823176 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
27823202 ATCA
1 ATCA
27823206 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 3 0.04
26 71 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27830164 original size:26 final size:26
Alignment explanation
Indices: 27830133--27830240 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
27830123 TGAAATTCCC
*
27830133 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
27830159 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
27830185 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27830211 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
27830237 ATCA
1 ATCA
27830241 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 3 0.04
26 70 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27832462 original size:27 final size:27
Alignment explanation
Indices: 27832431--27832496 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
27832421 CATTATACCT
* *
27832431 ATATATGTGTGGGTTTTGTTATATATA
1 ATATATGCGTGGGGTTTGTTATATATA
27832458 ATATATGCGTGGGGTTTGTTATATATAAA
1 ATATATGCGTGGGGTTTGTTATATAT--A
27832487 ATATATGCGT
1 ATATATGCGT
27832497 CTATGGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 24 0.69
29 11 0.31
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (27 bp):
ATATATGCGTGGGGTTTGTTATATATA
Found at i:27832482 original size:29 final size:27
Alignment explanation
Indices: 27832431--27832496 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 27
27832421 CATTATACCT
* * *
27832431 ATATATGTGTGGGTTTTGTTATATATA
1 ATATATGCGTGGGGTTTGTTATATAAA
27832458 ATATATGCGTGGGGTTTGTTATATATAAA
1 ATATATGCGTGGGGTTTG-T-TATATAAA
27832487 ATATATGCGT
1 ATATATGCGT
27832497 CTATGGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 16 0.47
28 1 0.03
29 17 0.50
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (27 bp):
ATATATGCGTGGGGTTTGTTATATAAA
Found at i:27832515 original size:34 final size:34
Alignment explanation
Indices: 27832477--27832553 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
27832467 TGGGGTTTGT
* * **
27832477 TATATATAAAATATATGCGTCTATGGTTTTATTA
1 TATATATAAAATATATACGTCTAGGGTCATATTA
* * *
27832511 TATATACAATATATATACGTGTAGGGTCATATTA
1 TATATATAAAATATATACGTCTAGGGTCATATTA
27832545 TATAATATA
1 TAT-ATATA
27832554 TACATGTGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (34 bp):
TATATATAAAATATATACGTCTAGGGTCATATTA
Found at i:27833398 original size:17 final size:17
Alignment explanation
Indices: 27833371--27833422 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
27833361 TACGATGTGG
*
27833371 TATGAATGAACTGTTA-
1 TATGCATGAACTGTTAT
* *
27833387 TATTGTATGAACTTTTAT
1 TA-TGCATGAACTGTTAT
27833405 TATGCATGAACTGTTAT
1 TATGCATGAACTGTTAT
27833422 T
1 T
27833423 TTATGCGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 2 0.07
17 26 0.87
18 2 0.07
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (17 bp):
TATGCATGAACTGTTAT
Found at i:27833449 original size:17 final size:17
Alignment explanation
Indices: 27833411--27833473 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
27833401 TTATTATGCA
27833411 TGAACTGTTATTTTATG
1 TGAACTGTTATTTTATG
*
27833428 CGAACTGTCTATTTTAT-
1 TGAACTGT-TATTTTATG
* * *
27833445 TGAACCGTTTAATTCATG
1 TGAACTG-TTATTTTATG
27833463 TGAACTGTTAT
1 TGAACTGTTAT
27833474 CTTGTGTGAG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 21 0.58
18 15 0.42
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (17 bp):
TGAACTGTTATTTTATG
Found at i:27834847 original size:24 final size:22
Alignment explanation
Indices: 27834804--27834861 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 22
27834794 AATTCAAAAG
27834804 AGCTTACTG-TTAGCTTAATAA
1 AGCTTACTGTTTAGCTTAATAA
*
27834825 AGCTTACTGTTTCCAGCTTAATAG
1 AGCTTACTGTTT--AGCTTAATAA
27834849 AGCTTACTGTTTA
1 AGCTTACTGTTTA
27834862 TCAGCTCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 9 0.27
22 3 0.09
24 21 0.64
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (22 bp):
AGCTTACTGTTTAGCTTAATAA
Found at i:27836995 original size:39 final size:39
Alignment explanation
Indices: 27836914--27837076 Score: 247
Period size: 39 Copynumber: 4.2 Consensus size: 39
27836904 TATGGTAACC
* *
27836914 CGCACAAATGCCTTTGGGACTT-GACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAG-CCCGGATATCACAACT
* *
27836954 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
27836993 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
27837032 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
27837071 CGCACA
1 CGCACA
27837077 TTCATACACA
Statistics
Matches: 113, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
39 96 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:27838575 original size:19 final size:19
Alignment explanation
Indices: 27838551--27838593 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
27838541 TACTACTAGG
27838551 TCCTTTCTAGTGAAATTTA
1 TCCTTTCTAGTGAAATTTA
27838570 TCCTTTCTAGTGAAATTTA
1 TCCTTTCTAGTGAAATTTA
27838589 -CCTTT
1 TCCTTT
27838594 ATAACTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (19 bp):
TCCTTTCTAGTGAAATTTA
Found at i:27843254 original size:16 final size:14
Alignment explanation
Indices: 27843223--27843256 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
27843213 TTTAAATATT
27843223 AATTAATTATTTTA
1 AATTAATTATTTTA
27843237 AATTAATTTATATTTA
1 AATTAA-TTAT-TTTA
27843253 AATT
1 AATT
27843257 TCAATTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 4 0.22
16 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTAATTATTTTA
Found at i:27843262 original size:18 final size:18
Alignment explanation
Indices: 27843206--27843263 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
27843196 TTAAAGTTTT
27843206 TTTATTATTTAAATATTAA
1 TTTATTATTTAAAT-TTAA
*
27843225 TTAATTATTTTAAA-TTAA
1 TTTATTA-TTTAAATTTAA
27843243 TTTA-TATTTAAATTTCAA
1 TTTATTATTTAAATTT-AA
27843261 TTT
1 TTT
27843264 CAATTAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 6 0.18
17 4 0.12
18 12 0.35
19 6 0.18
20 6 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTATTTAAATTTAA
Found at i:27850914 original size:29 final size:29
Alignment explanation
Indices: 27850881--27851012 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
27850871 GTGACGAGAT
27850881 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
27850910 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
27850939 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
27850968 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
27850997 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
27851013 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:27854023 original size:29 final size:30
Alignment explanation
Indices: 27853980--27854037 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
27853970 GTATCGAGGG
*
27853980 ATTGGCGATTTTATCGCA-TATTATATATT
1 ATTGGCGATTGTATCGCACTATTATATATT
*
27854009 ATTGGCGATTGTATCGCACTATTTTATAT
1 ATTGGCGATTGTATCGCACTATTATATAT
27854038 CCGGCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (30 bp):
ATTGGCGATTGTATCGCACTATTATATATT
Found at i:27860097 original size:14 final size:14
Alignment explanation
Indices: 27860080--27860109 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
27860070 AATTGTAGAA
27860080 TGTTTTTATTAATG
1 TGTTTTTATTAATG
27860094 TGTTTTTATTAATG
1 TGTTTTTATTAATG
27860108 TG
1 TG
27860110 ATGATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (14 bp):
TGTTTTTATTAATG
Found at i:27860474 original size:49 final size:49
Alignment explanation
Indices: 27860412--27860684 Score: 224
Period size: 49 Copynumber: 5.6 Consensus size: 49
27860402 TGTGTGTGCT
* *
27860412 AGTGTAAGACCTGTCTGGGACATGGCATTGGCACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCACTGATAGATGAGAGCC
* * * * *
27860461 AGTGAAAGACCTGTCTGGGACATGGTATCGGC-CTCA-AGAT-ATGCAAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCACTGATAGATGA-G--AGCC
* * * *
27860510 AGTGTAAGACTTGTCTAGGACATGGCATCGACACAGATA-AGTAAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCACTGATAGA-TGAGAGCC
* * * * *
27860559 AGTGTAAGACCTGTCTGGGACATGGCATCAGC-TTCGAT-GTATGAAAGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCACT-GATAG-ATGAGAGCC
*
27860608 AGTGTAAGACCTGTCTAGGACATGGCAT-TG-ACT--TAGATGTGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCACTGATAGA--TGAGAGCC
* *
27860655 AGTGTAAGACCATGTTTAGAACATGGCATC
1 AGTGTAAGACC-TGTCTAGGACATGGCATC
27860685 AACATCGTAC
Statistics
Matches: 179, Mismatches: 29, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
45 2 0.01
46 2 0.01
47 22 0.12
48 20 0.11
49 125 0.70
50 4 0.02
51 3 0.02
52 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGGCACTGATAGATGAGAGCC
Found at i:27860578 original size:98 final size:97
Alignment explanation
Indices: 27860409--27860685 Score: 335
Period size: 98 Copynumber: 2.8 Consensus size: 97
27860399 TGATGTGTGT
* * * *
27860409 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGGCACTGATAGATGAGAGCCAGTGAAAGACCTG
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATTGACACAGATAG-TGAGAGCCAGTGTAAGACCTG
* * *
27860474 TCTGGGACATGGTATCGGCCTC-AAGATATGCAA
65 TCTGGGACATGGCATCAGCCTCGAAG-TATGAAA
* * *
27860507 GCTAGTGTAAGACTTGTCTAGGACATGGCATCGACACAGATAAGTAAGAGCCAGTGTAAGACCTG
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATTGACACAGAT-AGTGAGAGCCAGTGTAAGACCTG
* *
27860572 TCTGGGACATGGCATCAGCTTCGATGTATGAAA
65 TCTGGGACATGGCATCAGCCTCGAAGTATGAAA
**
27860605 G-TCAGTGTAAGACCTGTCTAGGACATGGCATTGACTTAGAT-GTGAGAGCCAGTGTAAGACCAT
1 GCT-AGTGTAAGACCTGTCTAGGACATGGCATTGACACAGATAGTGAGAGCCAGTGTAAGACC-T
* * *
27860668 GTTTAGAACATGGCATCA
64 GTCTGGGACATGGCATCA
27860686 ACATCGTACC
Statistics
Matches: 155, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
96 19 0.12
97 17 0.11
98 115 0.74
99 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (97 bp):
GCTAGTGTAAGACCTGTCTAGGACATGGCATTGACACAGATAGTGAGAGCCAGTGTAAGACCTGT
CTGGGACATGGCATCAGCCTCGAAGTATGAAA
Found at i:27869114 original size:17 final size:17
Alignment explanation
Indices: 27869075--27869114 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
27869065 TCCTTTATTA
27869075 CGTTTTTAAGATTCATT
1 CGTTTTTAAGATTCATT
*
27869092 CATTTTTAAGATTCATT
1 CGTTTTTAAGATTCATT
*
27869109 TGTTTT
1 CGTTTT
27869115 CCTTTTCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (17 bp):
CGTTTTTAAGATTCATT
Found at i:27870735 original size:11 final size:11
Alignment explanation
Indices: 27870719--27870743 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27870709 TAGGAGACCG
27870719 AAATGAGCCAA
1 AAATGAGCCAA
27870730 AAATGAGCCAA
1 AAATGAGCCAA
27870741 AAA
1 AAA
27870744 GGGACAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (11 bp):
AAATGAGCCAA
Found at i:27873940 original size:28 final size:28
Alignment explanation
Indices: 27873894--27873962 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
27873884 TTTAAAACCC
*
27873894 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
27873921 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
27873949 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
27873963 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:27875613 original size:20 final size:20
Alignment explanation
Indices: 27875590--27875627 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27875580 CACATCCAAA
*
27875590 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
27875610 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
27875628 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:27878124 original size:66 final size:68
Alignment explanation
Indices: 27878046--27878232 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
27878036 TAGTACCACT
*
27878046 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
27878108 CACG
65 CACG
27878112 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
27878177 ATCACG
63 ATCACG
27878183 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
27878233 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:27878157 original size:71 final size:71
Alignment explanation
Indices: 27878069--27878232 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27878059 CGATTTGTCT
27878069 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27878134 CTTTCA
66 CTTTCA
27878140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27878205 CTTTCA
66 CTTTCA
27878211 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
27878233 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:27878270 original size:71 final size:70
Alignment explanation
Indices: 27878069--27878266 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
27878059 CGATTTGTCT
* * * *
27878069 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27878134 CTTTCA
65 CTTTCA
* * * *
27878140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27878205 CTTTCA
65 CTTTCA
* *
27878211 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
27878267 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:27885662 original size:66 final size:68
Alignment explanation
Indices: 27885584--27885770 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
27885574 TAGTACCACT
*
27885584 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
27885646 CACG
65 CACG
27885650 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
27885715 ATCACG
63 ATCACG
27885721 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
27885771 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:27885695 original size:71 final size:71
Alignment explanation
Indices: 27885607--27885770 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27885597 CGATTTGTCT
27885607 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27885672 CTTTCA
66 CTTTCA
27885678 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27885743 CTTTCA
66 CTTTCA
27885749 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
27885771 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:27885808 original size:71 final size:70
Alignment explanation
Indices: 27885607--27885804 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
27885597 CGATTTGTCT
* * * *
27885607 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27885672 CTTTCA
65 CTTTCA
* * * *
27885678 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27885743 CTTTCA
65 CTTTCA
* *
27885749 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
27885805 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:27889073 original size:40 final size:40
Alignment explanation
Indices: 27888877--27889060 Score: 307
Period size: 40 Copynumber: 4.6 Consensus size: 40
27888867 CCAGCATGAT
* * * *
27888877 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
27888917 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
27888957 TGCTCCTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
27888997 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
27889037 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
27889061 TAACCACAAG
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 7 0.05
40 129 0.95
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:27889073 original size:80 final size:80
Alignment explanation
Indices: 27888909--27889085 Score: 270
Period size: 80 Copynumber: 2.2 Consensus size: 80
27888899 ATGCATCACT
27888909 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
1 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
* * *
27888974 TCCGGATACATCACT
66 TCCGGATAAACCACA
* *
27888989 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
27889054 -CCGGATATAACCACA
66 TCCGGATA-AACCACA
27889069 AGCAC-AATTGC-CTTCGG
1 AGCACGAA-TGCTCTTCGG
27889086 GTCTTAACCC
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
79 15 0.17
80 75 0.83
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (80 bp):
AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
TCCGGATAAACCACA
Found at i:27889103 original size:40 final size:40
Alignment explanation
Indices: 27888989--27889177 Score: 150
Period size: 40 Copynumber: 4.7 Consensus size: 40
27888979 ATACATCACT
* ** * * * *
27888989 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* **
27889029 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
27889069 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
27889110 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
27889149 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
27889178 GTATCATTCA
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:27889119 original size:120 final size:119
Alignment explanation
Indices: 27888877--27889174 Score: 309
Period size: 120 Copynumber: 2.5 Consensus size: 119
27888867 CCAGCATGAT
* *
27888877 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
* * * ** * *
27888942 CATCACTAGCACGAATGCTCCTCAGAACTTAGTCCGGATACATCACTAGCACGAA
65 AACCACAAGCACGAATGCTCCTCAGAACTTAACCCGGATACAACACTAGCACAAA
* *
27888997 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATA-
* * ** * *
27889062 AACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
65 AACCACAAGCACGAA-TGCTCCTCAGAACTTAACCCGGATACAAC-ACT-AGCACAAA
* * ** *
27889117 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
27889175 CGGGTATCAT
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
119 58 0.39
120 90 0.60
121 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (119 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAA
ACCACAAGCACGAATGCTCCTCAGAACTTAACCCGGATACAACACTAGCACAAA
Found at i:27891221 original size:49 final size:49
Alignment explanation
Indices: 27891152--27891414 Score: 400
Period size: 49 Copynumber: 5.4 Consensus size: 49
27891142 TTTACCACAT
*
27891152 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
27891201 ATATACATACACTTTCACATTCACCACATCGGCCGTTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
27891250 ATATACATATACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
27891299 ATATACATATACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
27891348 ATATACATACATTTTCGCACTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
27891397 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
27891415 GAATCTTGAT
Statistics
Matches: 198, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 198 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:27896208 original size:2 final size:2
Alignment explanation
Indices: 27896201--27896238 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
27896191 ACCAGAACAG
27896201 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
27896239 GTGGCAAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27896319 original size:27 final size:26
Alignment explanation
Indices: 27896271--27896322 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27896261 GCAAGGCTGC
*
27896271 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
27896297 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
27896323 TTGCAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:27898255 original size:20 final size:20
Alignment explanation
Indices: 27898230--27898281 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
27898220 AATTATATAT
*
27898230 ATAATAAATAATAAGATAAC
1 ATAATAAATAATAAAATAAC
* *
27898250 ATAATATATAATAAAATAAG
1 ATAATAAATAATAAAATAAC
*
27898270 A-AATGAATAATA
1 ATAATAAATAATA
27898282 TATATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
ATAATAAATAATAAAATAAC
Found at i:27898267 original size:12 final size:12
Alignment explanation
Indices: 27898252--27898334 Score: 61
Period size: 12 Copynumber: 7.0 Consensus size: 12
27898242 AAGATAACAT
27898252 AATATATAATAA
1 AATATATAATAA
*
27898264 AATAAGAAATGAATAA
1 AAT---ATAT-AATAA
*
27898280 TATATATAATAA
1 AATATATAATAA
27898292 AATGAT-T--T-A
1 AAT-ATATAATAA
27898301 A-TATATAATAA
1 AATATATAATAA
27898312 AATATATAATAA
1 AATATATAATAA
27898324 AATATA-AATAA
1 AATATATAATAA
27898335 TATAACAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 21
0.70 0.05 0.26
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 2 0.04
10 2 0.04
11 7 0.12
12 27 0.47
13 5 0.09
15 3 0.05
16 7 0.12
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (12 bp):
AATATATAATAA
Found at i:27898284 original size:28 final size:27
Alignment explanation
Indices: 27898224--27898294 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
27898214 TTTTAAAATT
* *
27898224 ATATATATAAT-AAATAATAAGATAAC
1 ATATATATAATAAAATAAGAAGATAAA
27898250 ATAATATATAATAAAATAAGAA-ATGAATA
1 AT-ATATATAATAAAATAAGAAGAT-AA-A
27898279 ATATATATAATAAAAT
1 ATATATATAATAAAAT
27898295 GATTTAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 2 0.05
27 11 0.28
28 24 0.62
29 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
ATATATATAATAAAATAAGAAGATAAA
Found at i:27898371 original size:26 final size:26
Alignment explanation
Indices: 27898305--27898373 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 26
27898295 GATTTAATAT
* *
27898305 ATAATAAA-ATATATAATAAAATATAA
1 ATAA-AAATATATATAATAATACATAA
* *
27898331 AT-AATATA-ACA-AATAATACATAA
1 ATAAAAATATATATAATAATACATAA
27898354 ATAAAAATATATATAATAAT
1 ATAAAAATATATATAATAAT
27898374 TTTTTAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
23 12 0.36
24 9 0.27
25 4 0.12
26 8 0.24
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (26 bp):
ATAAAAATATATATAATAATACATAA
Found at i:27898436 original size:31 final size:29
Alignment explanation
Indices: 27898384--27898456 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
27898374 TTTTTAAATG
27898384 TATAAATAATGTTTATAATAAAAATAAATGATA
1 TATAAA-AAT-TTTATAAT--AAATAAATGATA
*
27898417 TATAAAACATTTTA-AATAAATAAATTATA
1 TATAAAA-ATTTTATAATAAATAAATGATA
27898446 TATAAAAATTT
1 TATAAAAATTT
27898457 AAAAAGGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 4 0.11
29 18 0.47
31 3 0.08
32 5 0.13
33 8 0.21
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (29 bp):
TATAAAAATTTTATAATAAATAAATGATA
Found at i:27898652 original size:30 final size:30
Alignment explanation
Indices: 27898618--27898674 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
27898608 ATAATAGCCA
* *
27898618 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
27898648 TTAGGGCCAAATTAAAATAAAAATAAA
1 TTAGGACCAAATTAAAACAAAAATAAA
27898675 TGAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:27901397 original size:27 final size:27
Alignment explanation
Indices: 27901338--27901507 Score: 148
Period size: 27 Copynumber: 6.3 Consensus size: 27
27901328 AAAAACAGTC
* * * *
27901338 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGGTA
*
27901365 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * *
27901392 AATTTACACTACAATGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* **
27901419 ATTTTACA-AATTGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
*
27901446 ATTTTACA-AATCAAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * *
27901473 ATTTTACA-AATCGAGGGTGTTTCGGTT
1 ATTTTACACTA-CAAGGGTATTTCGGTA
27901500 ATTTTACA
1 ATTTTACA
27901508 AATCGAGGGT
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 121 0.99
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:27901479 original size:81 final size:81
Alignment explanation
Indices: 27901352--27901825 Score: 392
Period size: 81 Copynumber: 5.9 Consensus size: 81
27901342 TACCCTACAG
* * * * * * * *
27901352 GGGTATGTCGGTCATTTTAC-ACTACAAGGGTATTTCAGTAAATTTAC-ACTACAATGGTATTTC
1 GGGTATTTCGGTAATTTTACAAAT-CAAGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTC
*
27901415 GATAATTTTACAAATTGA
64 GATAATTTTACAAATCGA
* *
27901433 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGG
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA
*
27901498 TTATTTTACAAATCGA
66 TAATTTTACAAATCGA
* * * ** * * * *
27901514 GGGTGTTTCGATAATTTTATAAATTGAGGGTGTTTTGGTAATTTCACAAATCGAGAGTATTTC-A
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA
27901578 GTAATTTTACAAATCGA
66 -TAATTTTACAAATCGA
* * ** * *
27901595 GGGTATTTCAGTAATTTCAC-AATTGATGGTATTTCGATAATTTTACAAATCG-GGGATATTTCG
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGG-TATTTCG
* *
27901658 ATAATCTTACAAATAGA
65 ATAATTTTACAAATCGA
* * * * *** * ** *
27901675 TGGTGTTTCGTTAATTTCACAAATCGCTGATATTTTAGTAAATTTT-CAAAGCGAGGGTATTTC-
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGT-AATTTTACAAATCGAGGGTATTTCG
*
27901738 AGTAATTTCAC-AATCGA
65 A-TAATTTTACAAATCGA
* * * * *
27901755 TGGTATTTAGGTAATTTTACAAATC-GGAGGTATTCCGATAATTTTACAAATCGAGGGTATTTC-
1 GGGTATTTCGGTAATTTTACAAATCAAG-GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCG
27901818 AGTAATTT
65 A-TAATTT
27901826 CTCTTTATTA
Statistics
Matches: 319, Mismatches: 63, Indels: 23
0.79 0.16 0.06
Matches are distributed among these distances:
79 8 0.03
80 120 0.38
81 178 0.56
82 13 0.04
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA
TAATTTTACAAATCGA
Found at i:27901508 original size:27 final size:27
Alignment explanation
Indices: 27901407--27901825 Score: 425
Period size: 27 Copynumber: 15.6 Consensus size: 27
27901397 ACACTACAAT
* *
27901407 GGTATTTCGATAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
*
27901434 GGTATTTCGGTAATTTTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
27901461 GGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
27901488 GGTGTTTCGGTTATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * *
27901515 GGTGTTTCGATAATTTTATAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
27901542 GGTGTTTTGGTAATTTCACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
27901569 AGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * *
27901596 GGTATTTCAGTAATTTCAC-AATTGAT
1 GGTATTTCGGTAATTTTACAAATCGAG
*
27901622 GGTATTTCGATAATTTTACAAATCG-G
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * *
27901648 GGATATTTCGATAATCTTACAAATAGAT
1 GG-TATTTCGGTAATTTTACAAATCGAG
* * * **
27901676 GGTGTTTCGTTAATTTCACAAATCGCT
1 GGTATTTCGGTAATTTTACAAATCGAG
* ** *
27901703 GATATTTTAGTAAATTTT-CAAAGCGAG
1 GGTATTTCGGT-AATTTTACAAATCGAG
* * *
27901730 GGTATTTCAGTAATTTCAC-AATCGAT
1 GGTATTTCGGTAATTTTACAAATCGAG
*
27901756 GGTATTTAGGTAATTTTACAAATCG-G
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
27901782 AGGTATTCCGATAATTTTACAAATCGAG
1 -GGTATTTCGGTAATTTTACAAATCGAG
*
27901810 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
27901826 CTCTTTATTA
Statistics
Matches: 322, Mismatches: 62, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
26 49 0.15
27 265 0.82
28 8 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:27901695 original size:134 final size:133
Alignment explanation
Indices: 27901405--27901805 Score: 500
Period size: 134 Copynumber: 3.0 Consensus size: 133
27901395 TTACACTACA
* * * * * * *
27901405 ATGGTATTTCGATAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCG
1 ATGGTGTTTCGATAATTTCACAAATCGAGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
* * * * * *
27901470 GTAATTTTACAAATCGAGGGTGTTTCGGTTATTTTACAAATCGAGGGTGTTTCGATAATTTTATA
66 GTAATTTCAC-AATCGATGGTATTTCGGTAATTTTACAAATCG-GGGTATTTCGATAATTTTACA
*
27901535 AATTG
129 AATAG
* * *
27901540 AGGGTGTTTTGGTAATTTCACAAATCGAGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 ATGGTGTTTCGATAATTTCACAAATCGAGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
* * *
27901605 GTAATTTCACAATTGATGGTATTTCGATAATTTTACAAATCGGGGATATTTCGATAATCTTACAA
66 GTAATTTCACAATCGATGGTATTTCGGTAATTTTACAAATCGGGG-TATTTCGATAATTTTACAA
27901670 ATAG
130 ATAG
* * * *
27901674 ATGGTGTTTCGTTAATTTCACAAATCGCTGA-TATTTTAGTAAATTTT-CAAAGCGAGGGTATTT
1 ATGGTGTTTCGATAATTTCACAAATCG-AGAGTATTTCAGT-AATTTTACAAATCGAGGGTATTT
* *
27901737 CAGTAATTTCACAATCGATGGTATTTAGGTAATTTTACAAATCGGAGGTATTCCGATAATTTTAC
64 CAGTAATTTCACAATCGATGGTATTTCGGTAATTTTACAAATCGG-GGTATTTCGATAATTTTAC
27901802 AAAT
128 AAAT
27901806 CGAGGGTATT
Statistics
Matches: 231, Mismatches: 31, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
133 3 0.01
134 154 0.67
135 74 0.32
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (133 bp):
ATGGTGTTTCGATAATTTCACAAATCGAGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
GTAATTTCACAATCGATGGTATTTCGGTAATTTTACAAATCGGGGTATTTCGATAATTTTACAAA
TAG
Found at i:27902184 original size:28 final size:28
Alignment explanation
Indices: 27902125--27902233 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
27902115 ATCCACACTT
* * *
27902125 ATTCATTTGGCCCATTTAGGCCCAATCTC
1 ATTCATATGGCCCA-TCAGGCCCAATCAC
* *
27902154 ATTCACATGGCCCATCAGGCCCAAACAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
*
27902182 ATTCATATGGCCTATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
27902210 ATTCATATGGCCCATCAGGCCCAA
1 ATTCATATGGCCCATCAGGCCCAA
27902234 CTACTTCCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 59 0.83
29 12 0.17
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:27910056 original size:31 final size:31
Alignment explanation
Indices: 27910018--27910077 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
27910008 TTCATATTTC
*
27910018 ATATTTCATAACACTGGGCTGAAGCCTTTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTTTT
**
27910049 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTT
27910078 ACTGTAAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCGAAGCCTTTTT
Found at i:27910323 original size:24 final size:24
Alignment explanation
Indices: 27910271--27910415 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
27910261 GCTTTATCAT
*
27910271 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
27910296 ATAACTGGGGCAAAAGCCTTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
27910320 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
27910344 ATAACTGGGGCATAAGCCTTTTTTA
1 ATAACTGGGGCATAAGCC-CTTTTA
27910369 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
27910393 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27910416 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
24 74 0.69
25 34 0.31
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27910368 original size:49 final size:48
Alignment explanation
Indices: 27910271--27910415 Score: 211
Period size: 49 Copynumber: 3.0 Consensus size: 48
27910261 GCTTTATCAT
* *
27910271 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCTTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCTTTTTA
*
27910320 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCTTTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC-TTTTTA
* *
27910369 ATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCTTTTT
27910416 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
48 30 0.34
49 58 0.66
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCTTTTTA
Found at i:27910392 original size:73 final size:73
Alignment explanation
Indices: 27910271--27910416 Score: 231
Period size: 73 Copynumber: 2.0 Consensus size: 73
27910261 GCTTTATCAT
* * *
27910271 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCTTTTTAATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAG
27910336 CCCTTTTG
66 CCCTTTTG
* *
27910344 ATAACTGG-GGCATAAGCCTTTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAA
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAA
27910408 GCCCTTTTG
65 GCCCTTTTG
27910417 CACTTCCTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
72 4 0.06
73 63 0.94
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (73 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAG
CCCTTTTG
Found at i:27910490 original size:20 final size:20
Alignment explanation
Indices: 27910465--27910511 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
27910455 TTATGAATAC
27910465 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
27910485 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27910505 ACCATGT
1 ATCATGT
27910512 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27910587 original size:25 final size:25
Alignment explanation
Indices: 27910548--27910595 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
27910538 ATATTTAAAC
* *
27910548 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
27910573 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
27910596 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:27916964 original size:40 final size:41
Alignment explanation
Indices: 27916881--27916989 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 41
27916871 TCGAATGATG
*
27916881 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
* * **
27916921 TCCGGACTAAGAT-CCGAAGGCATTTGTG-TGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCAAA
*
27916961 TCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC
27916990 GAGCTATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
39 1 0.02
40 50 0.86
41 7 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
Found at i:27920748 original size:31 final size:31
Alignment explanation
Indices: 27920710--27920769 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
27920700 TTCATATTTC
27920710 ATATTTCATAACACTGGGCCAAAGCCTTTTT
1 ATATTTCATAACACTGGGCCAAAGCCTTTTT
** *
27920741 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCAAAGCCTTT
27920770 ACTGTAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCAAAGCCTTTTT
Found at i:27921014 original size:24 final size:24
Alignment explanation
Indices: 27920963--27921131 Score: 259
Period size: 24 Copynumber: 7.0 Consensus size: 24
27920953 GCTTTATCAT
*
27920963 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
27920988 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
27921012 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
27921036 ATAGCTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
27921060 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
27921085 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
27921109 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27921132 GCACTTCCTC
Statistics
Matches: 134, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
24 98 0.73
25 36 0.27
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27921112 original size:49 final size:49
Alignment explanation
Indices: 27920983--27921131 Score: 255
Period size: 49 Copynumber: 3.1 Consensus size: 49
27920973 GCCTAGCCTC
*
27920983 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
* *
27921031 TTTTGATAGCTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
*
27921080 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
27921129 TTT
1 TTT
27921132 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
48 45 0.48
49 49 0.52
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (49 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
Found at i:27921206 original size:20 final size:20
Alignment explanation
Indices: 27921181--27921247 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
27921171 TTATGAATAC
*
27921181 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
27921201 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27921221 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27921241 ACCATGT
1 ATCATGT
27921248 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27921326 original size:25 final size:25
Alignment explanation
Indices: 27921284--27921331 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27921274 ATATTTAAAC
* * *
27921284 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27921309 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
27921332 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:27928000 original size:44 final size:42
Alignment explanation
Indices: 27927933--27928047 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 42
27927923 TTTAGATATG
* * * * * *
27927933 TGATTTCGTGTAACACCACGTCTGGGACGTTGGCATCG-ATT
1 TGATTTTGTGTAAGACCATGTCTGGAACATTGACATCGTATT
27927974 TGAGATTTATGTGTAAGACCATGTCTGGAACATTGACATCGTATT
1 T--GATTT-TGTGTAAGACCATGTCTGGAACATTGACATCGTATT
*
27928019 TGATTTTGTGTAAGACCCTGTCTGGAACA
1 TGATTTTGTGTAAGACCATGTCTGGAACA
27928048 GTGTAATGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 22 0.35
43 10 0.16
44 26 0.41
45 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCATGTCTGGAACATTGACATCGTATT
Found at i:27932837 original size:33 final size:34
Alignment explanation
Indices: 27932792--27932864 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 34
27932782 GAAAATATGC
*
27932792 TATATGTGCAAATGAATTGGGAATATGTGAAATG
1 TATATGTGCAAATGAATTGGGAATACGTGAAATG
27932826 TATATG-GCAAATGAATTGGGAATACGTGAAATG
1 TATATGTGCAAATGAATTGGGAATACGTGAAATG
27932859 TATATG
1 TATATG
27932865 AACTATGTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 32 0.84
34 6 0.16
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (34 bp):
TATATGTGCAAATGAATTGGGAATACGTGAAATG
Found at i:27935461 original size:16 final size:17
Alignment explanation
Indices: 27935440--27935475 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
27935430 AACGCCCCAA
27935440 AAAAATCCCGAAA-CCC
1 AAAAATCCCGAAATCCC
*
27935456 AAAAATCCTGAAATCCC
1 AAAAATCCCGAAATCCC
27935473 AAA
1 AAA
27935476 CTTATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.53, C:0.31, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAAATCCCGAAATCCC
Found at i:27936120 original size:29 final size:27
Alignment explanation
Indices: 27936055--27936121 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
27936045 CTCTGCCTTT
*
27936055 TTTTCTTTTTCTTCTACCTTGTGCTGA
1 TTTTCTTTTTCCTCTACCTTGTGCTGA
*
27936082 ATTTCATTTTTCCTCTACCTCAT-TGCTGA
1 TTTTC-TTTTTCCTCTACCT--TGTGCTGA
27936111 CTTTTCTTTTT
1 -TTTTCTTTTT
27936122 TTTTTCCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.12
28 13 0.39
29 11 0.33
30 5 0.15
ACGTcount: A:0.10, C:0.24, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTTCTTTTTCCTCTACCTTGTGCTGA
Found at i:27937058 original size:29 final size:29
Alignment explanation
Indices: 27936962--27937069 Score: 89
Period size: 29 Copynumber: 3.8 Consensus size: 29
27936952 ATAATGTAAT
* * *
27936962 TTGGGCCTAAATGGGCCATATGAATGTGA
1 TTGGGCCCAGATGGGCCATATGAATGAGA
** *
27936991 GTTGGGCCTTGA-GGGCCATAAGAAT-ATGAA
1 -TTGGGCCCAGATGGGCCATATGAATGA-G-A
* *
27937021 CTAGG-CCAGATGGGCCATATGAATGAGA
1 TTGGGCCCAGATGGGCCATATGAATGAGA
27937049 TTGGGCCCAG-TGGGCCATATG
1 TTGGGCCCAGATGGGCCATATG
27937070 CATGTATGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
28 18 0.29
29 33 0.53
30 11 0.18
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (29 bp):
TTGGGCCCAGATGGGCCATATGAATGAGA
Found at i:27941376 original size:29 final size:29
Alignment explanation
Indices: 27941339--27941421 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 29
27941329 GCATGAGTAT
27941339 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
* * * *
27941368 AATGTGATTTGGGCCTAAAGGGGCATATG
1 AATGTGATTTGGGCCTAATGGGCCACATA
* *
27941397 AATGTGAGTTGGGCCTAGTGGGCCA
1 AATGTGATTTGGGCCTAATGGGCCA
27941422 AAAGAATATG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCACATA
Found at i:27945829 original size:19 final size:19
Alignment explanation
Indices: 27945797--27945834 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27945787 ACTTGGGTTG
*
27945797 AGAATTGGCCAAATGGGCC
1 AGAATAGGCCAAATGGGCC
*
27945816 AGAATAGGCTAAATGGGCC
1 AGAATAGGCCAAATGGGCC
27945835 TGATGGTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (19 bp):
AGAATAGGCCAAATGGGCC
Found at i:27945955 original size:29 final size:30
Alignment explanation
Indices: 27945916--27945988 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
27945906 GCATGAGCAT
* *
27945916 AATGTGGTTTGGGCCTAATG-GGCCACATA
1 AATGTGATTTGGGCCTAAAGCGGCCACATA
* *
27945945 AATGTGATTTGGGCCTAAAGCGGCCATATG
1 AATGTGATTTGGGCCTAAAGCGGCCACATA
*
27945975 AATGTGAGTTGGGC
1 AATGTGATTTGGGC
27945989 TTAGTGGGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (30 bp):
AATGTGATTTGGGCCTAAAGCGGCCACATA
Found at i:27948195 original size:48 final size:47
Alignment explanation
Indices: 27948120--27948275 Score: 213
Period size: 48 Copynumber: 3.3 Consensus size: 47
27948110 TCCCTGAAGT
27948120 CAAATCAAGGTAACTTATCCTTGGAGTACCTATACCATGGCCCGTAGC
1 CAAATCAAGGTAACTTATCCTT-GAGTACCTATACCATGGCCCGTAGC
* * *
27948168 CAAATCAAGGTAGCTTATCCCCTGAGTACCTATACCATGGCCCATAGC
1 CAAATCAAGGTAACTTAT-CCTTGAGTACCTATACCATGGCCCGTAGC
* * * * *
27948216 CAAATCAAGGTAACTCATCTTTGAAATACCTATACCATGGCCCGAAGG
1 CAAATCAAGGTAACTTATCCTTG-AGTACCTATACCATGGCCCGTAGC
27948264 CAAATCAAGGTA
1 CAAATCAAGGTA
27948276 TAATTCGCAC
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 3 0.03
48 89 0.94
49 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (47 bp):
CAAATCAAGGTAACTTATCCTTGAGTACCTATACCATGGCCCGTAGC
Found at i:27949942 original size:11 final size:11
Alignment explanation
Indices: 27949899--27949946 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
27949889 GTTTTGCTGC
*
27949899 TATTTTGCTAC
1 TATTTTGCTAT
*
27949910 CATTTTGCTAT
1 TATTTTGCTAT
*
27949921 TATAATT-CTAT
1 TAT-TTTGCTAT
27949932 TATTTTGCTAT
1 TATTTTGCTAT
27949943 TATT
1 TATT
27949947 AGTTGGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
10 2 0.07
11 26 0.87
12 2 0.07
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.58
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:27950392 original size:2 final size:2
Alignment explanation
Indices: 27950385--27950428 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
27950375 TCAAGTAAAC
* * *
27950385 AT AT AT AT AT AT AT AT AT AT AT AC GT AT AT CT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27950426 AT A
1 AT A
27950429 CTACGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27955358 original size:43 final size:43
Alignment explanation
Indices: 27955205--27955359 Score: 126
Period size: 44 Copynumber: 3.7 Consensus size: 43
27955195 ATAGGATTCT
* * *
27955205 GATATGTGATTTCATGTAAGACCACGTCTGGGACGGTGGCATC
1 GATATATGATTACATGTAAGACCACGTCTGGGACAGTGGCATC
* * * ** * *
27955248 GATTTGTGATTTACGTGTAAGACCATATTTGGGACATTGGCATC
1 GATATATGA-TTACATGTAAGACCACGTCTGGGACAGTGGCATC
* * *
27955292 G---TAT-A-T-CGTGTAACACC-CTGTCTGGGACAGTGACATC
1 GATATATGATTACATGTAAGACCAC-GTCTGGGACAGTGGCATC
27955329 GATATATGATTACATGTAAGACCACGTCTGG
1 GATATATGATTACATGTAAGACCACGTCTGG
27955360 AACGTTGGCG
Statistics
Matches: 86, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
37 25 0.29
38 1 0.01
40 4 0.05
41 3 0.03
42 1 0.01
43 23 0.27
44 29 0.34
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
GATATATGATTACATGTAAGACCACGTCTGGGACAGTGGCATC
Found at i:27963717 original size:48 final size:48
Alignment explanation
Indices: 27963661--27963783 Score: 165
Period size: 48 Copynumber: 2.6 Consensus size: 48
27963651 GTACGAAAAG
* *
27963661 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCCCGGAA
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCGAAA
* * *
27963709 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTGAAA
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCGAAA
* * * *
27963757 TACCAATACAATGGCTCGAAGCAAAAT
1 TACCTATACCATGGCCCGAAGCCAAAT
27963784 ATAGCTATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.20
Consensus pattern (48 bp):
TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCGAAA
Found at i:27967240 original size:44 final size:42
Alignment explanation
Indices: 27967183--27967297 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 42
27967173 TTTAGATATG
* *
27967183 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-AAT
1 TGATTTTGTGTAAGACCACGTCTGGAACATTGGCATCGTAAT
* *
27967224 TGAGTTTTATGTGTAAGACCATGTCTGGAACATTGGCATCGTATT
1 TGA--TTT-TGTGTAAGACCACGTCTGGAACATTGGCATCGTAAT
27967269 TGATTTTGTGTAAGACC-CTGTCTGGAACA
1 TGATTTTGTGTAAGACCAC-GTCTGGAACA
27967298 GTGTAATGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
41 3 0.05
42 21 0.33
43 6 0.09
44 29 0.45
45 5 0.08
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCACGTCTGGAACATTGGCATCGTAAT
Found at i:27969292 original size:124 final size:124
Alignment explanation
Indices: 27969070--27969294 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
27969060 GAATTATGTG
* * * * * * *
27969070 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
27969135 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATACTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
27969194 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
27969259 GCTAAGTCCCGAAGACG-TTATTACTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TACTAGAAATTATAT
27969295 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 3 0.03
124 84 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATACTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:27969415 original size:40 final size:40
Alignment explanation
Indices: 27969289--27969417 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
27969279 TTACTGGAAA
* *
27969289 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-GG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * *
27969328 CTACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
27969368 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
27969408 TTATATCCGG
1 TTATATCCGG
27969418 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 3 0.04
39 29 0.39
40 43 0.57
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:27976285 original size:39 final size:39
Alignment explanation
Indices: 27976201--27976353 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
27976191 TATGGTAACC
** * *
27976201 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
27976241 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
27976280 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
27976319 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
27976354 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:27976327 original size:78 final size:79
Alignment explanation
Indices: 27976170--27976352 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
27976160 TCGTTCAAAC
* * **
27976170 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
27976235 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
27976250 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
27976314 CAATTTGCACAATT
66 CAATTTGCACAATT
27976328 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
27976353 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:27984340 original size:38 final size:39
Alignment explanation
Indices: 27984227--27984369 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
27984217 CCGCACAAAG
*
27984227 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
27984267 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
27984306 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
27984344 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
27984370 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:27984348 original size:77 final size:79
Alignment explanation
Indices: 27984187--27984368 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
27984177 TCGTTCAAAC
* * **
27984187 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
27984252 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
27984267 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
27984330 CAATTTGCACAATT
66 CAATTTGCACAATT
27984344 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
27984369 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:27991718 original size:39 final size:39
Alignment explanation
Indices: 27991640--27991789 Score: 264
Period size: 39 Copynumber: 3.8 Consensus size: 39
27991630 TATGGTAGCC
* *
27991640 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
27991680 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
27991719 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
27991758 CGCACAATTGCCTTCGGGCTTAGCCCTGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
27991790 TACCCGAACA
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:27999092 original size:55 final size:56
Alignment explanation
Indices: 27998953--27999139 Score: 295
Period size: 56 Copynumber: 3.4 Consensus size: 56
27998943 CCAGACAGCA
* * * *
27998953 TCTTACTCGCACACATTTATCGGAGTCACATACCAATGCCAACGTATAAAACATGG
1 TCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACGTGG
* *
27999009 TCTTTCTCACACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACGT-G
1 TCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACGTGG
*
27999064 TCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGTGG
1 TCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACGTGG
*
27999120 TCTTACTCGCACGCATATAT
1 TCTTACTCGCACACATATAT
27999140 TGATGCCATG
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
55 52 0.43
56 68 0.57
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (56 bp):
TCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACGTGG
Found at i:28000767 original size:20 final size:20
Alignment explanation
Indices: 28000742--28000779 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28000732 GTCACATATA
28000742 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
28000762 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
28000780 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:28010014 original size:42 final size:43
Alignment explanation
Indices: 28009909--28010079 Score: 136
Period size: 42 Copynumber: 4.0 Consensus size: 43
28009899 ATCGTACAAT
* * * * * *
28009909 GCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATATC-AT
1 GCCAACATCCCAGACGTGGTCTTACACGAAATCACATATCGAA
* * *
28009951 GCC-ACTATCCTAGATAG-GGTCTTACACGAAATCAGATA-CGAA
1 GCCAAC-ATCCCAGA-CGTGGTCTTACACGAAATCACATATCGAA
* * * *
28009993 GCCAACATCCCAGACGTGGTCTTACACATAAAGCATA-AGTCGAT
1 GCCAACATCCCAGACGTGGTCTTACAC-GAAATCACATA-TCGAA
* *
28010037 GCCAACATCCCAGATGTGGTCTTACACGATATCACATATCGAA
1 GCCAACATCCCAGACGTGGTCTTACACGAAATCACATATCGAA
28010080 TCCTATGTCA
Statistics
Matches: 100, Mismatches: 20, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
41 4 0.04
42 48 0.48
43 18 0.18
44 30 0.30
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCAACATCCCAGACGTGGTCTTACACGAAATCACATATCGAA
Found at i:28010568 original size:9 final size:9
Alignment explanation
Indices: 28010554--28010581 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
28010544 CAAGCCCACA
28010554 TATTTCATT
1 TATTTCATT
28010563 TATTTCATT
1 TATTTCATT
28010572 TATTTCATT
1 TATTTCATT
28010581 T
1 T
28010582 TTTAGTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTCATT
Found at i:28013374 original size:29 final size:31
Alignment explanation
Indices: 28013331--28013393 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
28013321 AAGAAGGAGG
28013331 GATTTTTGCTCCA-TTT-TTGGTTTAGAAGA
1 GATTTTTGCTCCATTTTCTTGGTTTAGAAGA
* *
28013360 GATTTTTGCTTCATTTTCTTTGTTTAGAAGA
1 GATTTTTGCTCCATTTTCTTGGTTTAGAAGA
28013391 GAT
1 GAT
28013394 CTAGAAGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 12 0.40
30 3 0.10
31 15 0.50
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.51
Consensus pattern (31 bp):
GATTTTTGCTCCATTTTCTTGGTTTAGAAGA
Found at i:28014710 original size:40 final size:40
Alignment explanation
Indices: 28014548--28014728 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
28014538 CGAATGATGT
* * * *
28014548 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAAC
* * * * *
28014588 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAAC
*
28014628 CCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
* *
28014666 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AAC
** *
28014706 CCGGGCTTCGTCTCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
28014729 TGAATGAGTC
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 24 0.21
39 18 0.16
40 64 0.56
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
Found at i:28014712 original size:78 final size:80
Alignment explanation
Indices: 28014547--28014698 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 80
28014537 TCGAATGATG
* * *
28014547 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
28014612 GTGCGAGTTAATAAA
66 GTGCAAGTTAATAAA
* **
28014627 TCCGGGCTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
28014689 CGTGCAAGTT
65 CGTGCAAGTT
28014699 GCTATAACCG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 1 0.02
78 36 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCAAGTTAATAAA
Found at i:28021446 original size:27 final size:30
Alignment explanation
Indices: 28021414--28021474 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
28021404 AAGAAGGAGG
28021414 GATTTTT-TCCA-TTT-TTGGTTTAGAAGA
1 GATTTTTCTCCATTTTCTTGGTTTAGAAGA
* *
28021441 GATTTTTGCTTCATTTTCTTTGTTTAGAAGA
1 GATTTTT-CTCCATTTTCTTGGTTTAGAAGA
28021472 GAT
1 GAT
28021475 CTAGAAGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
29 3 0.11
30 3 0.11
31 15 0.54
ACGTcount: A:0.21, C:0.08, G:0.18, T:0.52
Consensus pattern (30 bp):
GATTTTTCTCCATTTTCTTGGTTTAGAAGA
Found at i:28022793 original size:78 final size:79
Alignment explanation
Indices: 28022628--28022779 Score: 184
Period size: 78 Copynumber: 1.9 Consensus size: 79
28022618 TCGAATGATG
* * * *
28022628 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCTGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
28022693 GTGCGAGTTAATAAA
65 GTCCAAGTTAATAAA
* *
28022708 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCAGG-TTAAG-TCCCGAAGGCATT
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCC-GGACTAAGAT-CCGAAGGCATT
28022770 CGTCCAAGTT
64 CGTCCAAGTT
28022780 GCTATAACCG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
77 1 0.02
78 32 0.52
79 19 0.31
80 10 0.16
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TCCAAGTTAATAAA
Done.