Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 34 of 163
Found at i:8984500 original size:71 final size:71
Alignment explanation
Indices: 8984360--8984512 Score: 204
Period size: 71 Copynumber: 2.2 Consensus size: 71
8984350 TTTTATAAAT
* * *
8984360 ATAAATAAATATAAAATAATATTAATTTTATTTTATTATTCATTTATTTATTATTTGTTGTATGA
1 ATAAATAAATATAAAATAATATTAATTTTATTTTATTATTCATTTATTTATTATTTGATATATAA
8984425 AAATAA
66 AAATAA
* * *
8984431 ATAAATAAATGTAAAATAATATTAATTTTGTTTTATTATTTATTTA-TTATT-TTATGA-ATATA
1 ATAAATAAATATAAAATAATATTAATTTTATTTTATTATTCATTTATTTATTATT-TGATATAT-
8984493 AATAAATAA
64 AA-AAATAA
8984502 ATAAATAAATA
1 ATAAATAAATA
8984513 ACAAACTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
69 5 0.07
70 8 0.11
71 59 0.82
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (71 bp):
ATAAATAAATATAAAATAATATTAATTTTATTTTATTATTCATTTATTTATTATTTGATATATAA
AAATAA
Found at i:8988032 original size:43 final size:43
Alignment explanation
Indices: 8987948--8988030 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
8987938 AGATATTTTT
8987948 TTTAATTTAGAGTTTTTTTTAAGAAGTGAAAATTAATTTTGGG
1 TTTAATTTAGAGTTTTTTTTAAGAAGTGAAAATTAATTTTGGG
*
8987991 TTTAGTTTATGAGTTTTTTTTAAAGAA-TG-AAATTATATTT
1 TTTAATTTA-GAGTTTTTTTT-AAGAAGTGAAAATTA-ATTT
8988031 GGATAAGGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
43 14 0.39
44 17 0.47
45 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.52
Consensus pattern (43 bp):
TTTAATTTAGAGTTTTTTTTAAGAAGTGAAAATTAATTTTGGG
Found at i:8988224 original size:18 final size:18
Alignment explanation
Indices: 8988201--8988238 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8988191 TAATATAATT
8988201 TTATTCG-GTTTATTCAAA
1 TTATTCGAG-TTATTCAAA
*
8988219 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCAAA
8988237 TT
1 TT
8988239 CAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:8989267 original size:10 final size:11
Alignment explanation
Indices: 8989253--8989281 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
8989243 AAAAAAATAA
8989253 AAAATTAAATT
1 AAAATTAAATT
8989264 -AAATTAAATT
1 AAAATTAAATT
8989274 AAAATTAA
1 AAAATTAA
8989282 TATTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:8994683 original size:5 final size:5
Alignment explanation
Indices: 8994658--8994697 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
8994648 AAGAAAGGTA
* * *
8994658 ATTTT AATTA ATTTT AATTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
8994698 GTTAGTAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:8997102 original size:24 final size:21
Alignment explanation
Indices: 8997074--8997117 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8997064 ACTTACTTAC
8997074 TTAC-TACTAACAAAATAAAA
1 TTACTTACTAACAAAATAAAA
8997094 TTACTTACTAACAAAATAAAA
1 TTACTTACTAACAAAATAAAA
8997115 TTA
1 TTA
8997118 AATTAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (21 bp):
TTACTTACTAACAAAATAAAA
Found at i:8997234 original size:30 final size:32
Alignment explanation
Indices: 8997198--8997262 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
8997188 AACATTAAAT
*
8997198 AACAAATCAA-TTAAAA-ATTAAAT-TAAACAA
1 AACAAAT-AACTTAAAATAATAAATATAAACAA
8997228 AACAAATAACTTAAAATAATAAATACTAAACAA
1 AACAAATAACTTAAAATAATAAATA-TAAACAA
8997261 AA
1 AA
8997263 TATAACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.07
30 13 0.43
31 6 0.20
33 9 0.30
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (32 bp):
AACAAATAACTTAAAATAATAAATATAAACAA
Found at i:8997710 original size:24 final size:25
Alignment explanation
Indices: 8997679--8997737 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 25
8997669 CAAGTGGCAA
8997679 AAAACCCT-AAGATGCCGCCACTTC
1 AAAACCCTAAAGATGCCGCCACTTC
*
8997703 AAAACCCTCAAAAGGTGCCGCCACTTC
1 AAAACCCT--AAAGATGCCGCCACTTC
8997730 AAAACCCT
1 AAAACCCT
8997738 CAATCTGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 8 0.26
27 23 0.74
ACGTcount: A:0.36, C:0.37, G:0.12, T:0.15
Consensus pattern (25 bp):
AAAACCCTAAAGATGCCGCCACTTC
Found at i:9023397 original size:31 final size:31
Alignment explanation
Indices: 9023362--9023446 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
9023352 TTGTGCAAGA
* *
9023362 TATGAATATGTAAATATGAATGTTTACAGGG
1 TATGAATATGCAAATATGAATGATTACAGGG
*
9023393 TATGAATATGCAAATACGAATGATTACAGGG
1 TATGAATATGCAAATATGAATGATTACAGGG
* *
9023424 TATGGATATGCAAATATAAATGA
1 TATGAATATGCAAATATGAATGA
9023447 CTGATGCCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (31 bp):
TATGAATATGCAAATATGAATGATTACAGGG
Found at i:9028467 original size:17 final size:17
Alignment explanation
Indices: 9028445--9028481 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
9028435 ATTTTGGTTA
9028445 CGGCTTATCTCATTAAT
1 CGGCTTATCTCATTAAT
*
9028462 CGGCTTATCTTATTAAT
1 CGGCTTATCTCATTAAT
9028479 CGG
1 CGG
9028482 ATGCCTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (17 bp):
CGGCTTATCTCATTAAT
Found at i:9031339 original size:16 final size:16
Alignment explanation
Indices: 9031318--9031349 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9031308 TCAATTTTTT
9031318 TCATTGGAAATAACTA
1 TCATTGGAAATAACTA
9031334 TCATTGGAAATAACTA
1 TCATTGGAAATAACTA
9031350 ACTACCTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (16 bp):
TCATTGGAAATAACTA
Found at i:9035056 original size:29 final size:30
Alignment explanation
Indices: 9035024--9035082 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
9035014 TTTTCATCAT
9035024 TAAAACTTAA-TTTGTCATATTTTAATTAC
1 TAAAACTTAACTTTGTCATATTTTAATTAC
* * *
9035053 TAAAATTTAACTTTTTTTATATTTTAATTA
1 TAAAACTTAAC-TTTGTCATATTTTAATTA
9035083 TTGATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
31 16 0.64
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (30 bp):
TAAAACTTAACTTTGTCATATTTTAATTAC
Found at i:9035237 original size:17 final size:18
Alignment explanation
Indices: 9035210--9035247 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9035200 GTCCACATAA
9035210 TTTTAACTATTTTTTATT
1 TTTTAACTATTTTTTATT
*
9035228 TTTTAA-TATTTTTTCTT
1 TTTTAACTATTTTTTATT
9035245 TTT
1 TTT
9035248 CTTTTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTAACTATTTTTTATT
Found at i:9037659 original size:16 final size:16
Alignment explanation
Indices: 9037638--9037677 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
9037628 AGGGAACTTA
9037638 TTAGAGTTCTAGTTAT
1 TTAGAGTTCTAGTTAT
9037654 TTAGAGTTCTAGTTAT
1 TTAGAGTTCTAGTTAT
9037670 TTAGAGTT
1 TTAGAGTT
9037678 ACCAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (16 bp):
TTAGAGTTCTAGTTAT
Found at i:9045170 original size:126 final size:126
Alignment explanation
Indices: 9044918--9045446 Score: 634
Period size: 126 Copynumber: 4.2 Consensus size: 126
9044908 TTTGGTCCAT
* * ** *
9044918 TTTCATCAACCATATCACCATCACCATCTCTGGATGCAATTTGATCTGCCTCGTAGC-TACCATT
1 TTTCATCAACCATATCACCATCACCATCTCTGGAAGCATTTTGATCTTTCTCATAGCGT-CCATT
* *
9044982 ATG-T--CCTTCAACCGATAAGTCCTCACCGTGCTCCTCACTATGAGAATCAATAGACCTAC
65 ATGTTGGCCTTCTACCGATAAGTTCTCACCGTGCTCCTCACTATGAGAATCAATAGACCTAC
* *
9045041 TTTCATCAACCATATCACCATCACCATCTCTGGAAGTATTTTGATCTTTCTCGTAGCGTCCATTA
1 TTTCATCAACCATATCACCATCACCATCTCTGGAAGCATTTTGATCTTTCTCATAGCGTCCATTA
* *
9045106 CGTTGGCCTTCTACCGATAAGTTCTCACCGTGCTCCTCTCTATGAGAATCAATAGACCTAC
66 TGTTGGCCTTCTACCGATAAGTTCTCACCGTGCTCCTCACTATGAGAATCAATAGACCTAC
* * *
9045167 TTTCATCAACCATATCACCATCACCATCTCTGGAAGTATTTTGATCTTTCCCATACCGTCCATTA
1 TTTCATCAACCATATCACCATCACCATCTCTGGAAGCATTTTGATCTTTCTCATAGCGTCCATTA
** ** * * *
9045232 TGTTGGCCTTCTACCGATAAGTTCTCACCGTGCTCCTTGCTACAAGAATCAGTAGATCTAT
66 TGTTGGCCTTCTACCGATAAGTTCTCACCGTGCTCCTCACTATGAGAATCAATAGACCTAC
* * * * * * **
9045293 TTTCATCAAGCATATCGCCATCACTATCTCTGGATGCATTTTGTTCCTTCTCATAGCAACCATTA
1 TTTCATCAACCATATCACCATCACCATCTCTGGAAGCATTTTGATCTTTCTCATAGCGTCCATTA
* * * * *** ** * * *
9045358 TGTCGCCCTTCTACCGATAAGTGCTGATTTTGCTCCTCACTATGAGAGCCAGTAGATCTAT
66 TGTTGGCCTTCTACCGATAAGTTCTCACCGTGCTCCTCACTATGAGAATCAATAGACCTAC
* *
9045419 TTTCATCAAGCATTTCACCATCACCATC
1 TTTCATCAACCATATCACCATCACCATC
9045447 ACTATCTCTC
Statistics
Matches: 355, Mismatches: 47, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
123 59 0.17
124 2 0.01
126 294 0.83
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (126 bp):
TTTCATCAACCATATCACCATCACCATCTCTGGAAGCATTTTGATCTTTCTCATAGCGTCCATTA
TGTTGGCCTTCTACCGATAAGTTCTCACCGTGCTCCTCACTATGAGAATCAATAGACCTAC
Found at i:9047506 original size:21 final size:23
Alignment explanation
Indices: 9047457--9047506 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
9047447 GACTTAGTGA
* *
9047457 ATAAAATGTTATAACACGATAAT
1 ATAAAATGTAATAAAACGATAAT
9047480 AT-AAATG-AATAAAACG-TAAT
1 ATAAAATGTAATAAAACGATAAT
9047500 ATAAAAT
1 ATAAAAT
9047507 AAACAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 5 0.21
23 2 0.08
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (23 bp):
ATAAAATGTAATAAAACGATAAT
Found at i:9050256 original size:6 final size:6
Alignment explanation
Indices: 9050247--9050280 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9050237 TTGATGACCG
* *
9050247 GCAATA GCAATA GCAACA GCAACA GCAACA GCAA
1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAA
9050281 GTAAAGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.18, T:0.06
Consensus pattern (6 bp):
GCAACA
Found at i:9056197 original size:33 final size:33
Alignment explanation
Indices: 9056151--9056224 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
9056141 AAATTTCAAT
* *
9056151 AAATAA-AAAATATATAA-AATTATTAAATATTA
1 AAATAATAAAATATA-AATAATTATTAAAAAATA
* * *
9056183 AAATAATATAATATAAATATTTTTTAAAAAATA
1 AAATAATAAAATATAAATAATTATTAAAAAATA
9056216 AAATAATAA
1 AAATAATAA
9056225 TATGAACAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (33 bp):
AAATAATAAAATATAAATAATTATTAAAAAATA
Found at i:9060846 original size:11 final size:12
Alignment explanation
Indices: 9060804--9060856 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
9060794 ACTTACTTGA
9060804 AAAAAAATATTT
1 AAAAAAATATTT
** * *
9060816 TTAAAAGTATTC
1 AAAAAAATATTT
*
9060828 ATAAAAAT-TTT
1 AAAAAAATATTT
9060839 AAAAAAATATTT
1 AAAAAAATATTT
9060851 AAAAAA
1 AAAAAA
9060857 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (12 bp):
AAAAAAATATTT
Found at i:9066490 original size:21 final size:21
Alignment explanation
Indices: 9066457--9066521 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
9066447 AATAGACGAT
* *
9066457 AATAAAAATAAAAATAATAAA
1 AATAAGAAGAAAAATAATAAA
*
9066478 AATAAGAAGAAAAATCCATTAAA
1 AATAAGAAGAAAAAT--AATAAA
9066501 AA-AAGAGAGAAAAAATAATAA
1 AATAAGA-AG-AAAAATAATAA
9066522 GCTGATAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
21 13 0.36
22 8 0.22
23 9 0.25
24 6 0.17
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (21 bp):
AATAAGAAGAAAAATAATAAA
Found at i:9066491 original size:22 final size:21
Alignment explanation
Indices: 9066466--9066521 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
9066456 TAATAAAAAT
9066466 AAAAATAATAAAAATAAGA-AG
1 AAAAATAATAAAAA-AAGAGAG
*
9066487 AAAAATCCATTAAAAAAAGAGAG
1 AAAAAT--AATAAAAAAAGAGAG
9066510 AAAAAATAATAA
1 -AAAAATAATAA
9066522 GCTGATAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 6 0.21
22 8 0.28
23 9 0.31
24 6 0.21
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAATAATAAAAAAAGAGAG
Found at i:9067244 original size:5 final size:5
Alignment explanation
Indices: 9067230--9067260 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9067220 TACACACTCT
*
9067230 GAGGA AAGGA GAGGA GAGGA GAGGA GAGGA G
1 GAGGA GAGGA GAGGA GAGGA GAGGA GAGGA G
9067261 GCTCTGTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
GAGGA
Found at i:9073458 original size:2 final size:2
Alignment explanation
Indices: 9073451--9073484 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9073441 TTTAGTCTTA
9073451 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
9073485 GTCCTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9078000 original size:48 final size:48
Alignment explanation
Indices: 9077929--9078039 Score: 177
Period size: 48 Copynumber: 2.3 Consensus size: 48
9077919 TTAACAATAT
9077929 AAATAATGAATGACATGCCATACATAAAAGCACAAACTCTAAGAGTGA
1 AAATAATGAATGACATGCCATACATAAAAGCACAAACTCTAAGAGTGA
* * *
9077977 AAATAATGAATGACATGCCATACATAAAAGTACCAACTCTAAGAGTGC
1 AAATAATGAATGACATGCCATACATAAAAGCACAAACTCTAAGAGTGA
* *
9078025 AAATAGTGAAAGACA
1 AAATAATGAATGACA
9078040 AATATACTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (48 bp):
AAATAATGAATGACATGCCATACATAAAAGCACAAACTCTAAGAGTGA
Found at i:9084872 original size:22 final size:21
Alignment explanation
Indices: 9084832--9084873 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9084822 ACTTTTATTA
*
9084832 TTTTAAATATAAAATATTTAT
1 TTTTAAATATAAAAAATTTAT
*
9084853 TTTTATATCATAAAAAATTTA
1 TTTTAAAT-ATAAAAAATTTA
9084874 AATTAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTAAATATAAAAAATTTAT
Found at i:9086211 original size:12 final size:11
Alignment explanation
Indices: 9086196--9086229 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
9086186 AAAAGAGTTG
9086196 AAAAAATAAAA
1 AAAAAATAAAA
9086207 CAAAAAATGAAAA
1 -AAAAAAT-AAAA
9086220 AAAAAATAAA
1 AAAAAATAAA
9086230 GAAATAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 14 0.67
13 4 0.19
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:9097017 original size:75 final size:75
Alignment explanation
Indices: 9096924--9097132 Score: 364
Period size: 75 Copynumber: 2.8 Consensus size: 75
9096914 CTGGGTATAT
* * * * * *
9096924 TTCGGATCGCCTACCTACGACCTGATTGAATCCTACTAGTAAGATACATGTAGGTCTTACAGTGG
1 TTCGGATCGTCTACCTACGACCTGGTTGGATCCTACTAGTAGGATGCATGCAGGTCTTACAGTGG
9096989 GGGTTCGCCA
66 GGGTTCGCCA
9096999 TTCGGATCGTCTACCTACGACCTGGTTGGATCCTACTAGTAGGATGCATGCAGGTCTTACAGTGG
1 TTCGGATCGTCTACCTACGACCTGGTTGGATCCTACTAGTAGGATGCATGCAGGTCTTACAGTGG
9097064 GGGTTCGCCA
66 GGGTTCGCCA
9097074 TTCGGATCGTCTACCTACGACCTGGTTGGATCCTACTAGTAGGATGCATGCAGGTCTTA
1 TTCGGATCGTCTACCTACGACCTGGTTGGATCCTACTAGTAGGATGCATGCAGGTCTTA
9097133 TATGGACTTC
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 128 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (75 bp):
TTCGGATCGTCTACCTACGACCTGGTTGGATCCTACTAGTAGGATGCATGCAGGTCTTACAGTGG
GGGTTCGCCA
Found at i:9099199 original size:17 final size:19
Alignment explanation
Indices: 9099164--9099199 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9099154 TCAAACACCA
9099164 TTTTACAATATTCATTTTT
1 TTTTACAATATTCATTTTT
*
9099183 TTTTA-AATTTTCATTTT
1 TTTTACAATATTCATTTT
9099200 AGATTATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTACAATATTCATTTTT
Found at i:9103111 original size:4 final size:4
Alignment explanation
Indices: 9103102--9103178 Score: 64
Period size: 4 Copynumber: 19.2 Consensus size: 4
9103092 TCTTTGAATA
* * * * *
9103102 TATG TATG TATG TATG TATG TATG CATG CATG CATA TATT TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
9103150 CATG TCTG TATG TCTG TATT TATC TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
9103179 TTTACTTGCA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:9107918 original size:12 final size:12
Alignment explanation
Indices: 9107897--9107927 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9107887 ACGAACCTCC
9107897 CCATCCCCATCT
1 CCATCCCCATCT
*
9107909 CCATCTCCATCT
1 CCATCCCCATCT
9107921 CCATCCC
1 CCATCCC
9107928 AATACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.58, G:0.00, T:0.26
Consensus pattern (12 bp):
CCATCCCCATCT
Found at i:9114899 original size:21 final size:21
Alignment explanation
Indices: 9114872--9114921 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
9114862 GTAAGGAGCC
*
9114872 CAACTCAACAAGTGAGCAGCA
1 CAACTCAACAAGTGAGCAACA
*
9114893 CATCTCAACAAGTGAGCAACA
1 CAACTCAACAAGTGAGCAACA
9114914 CAACTCAA
1 CAACTCAA
9114922 TTGCAAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.44, C:0.30, G:0.14, T:0.12
Consensus pattern (21 bp):
CAACTCAACAAGTGAGCAACA
Found at i:9114974 original size:18 final size:18
Alignment explanation
Indices: 9114936--9114975 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9114926 AAATGGATGT
* * *
9114936 TGCCTCAACTCAAGAATC
1 TGCCTCAAATCAACAACC
9114954 TGCCTCAAATCAACAACC
1 TGCCTCAAATCAACAACC
9114972 TGCC
1 TGCC
9114976 CCCTAACAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.38, G:0.10, T:0.20
Consensus pattern (18 bp):
TGCCTCAAATCAACAACC
Found at i:9116071 original size:3 final size:3
Alignment explanation
Indices: 9116063--9116111 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
9116053 AATCTCTATT
9116063 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TCTC TTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC
9116107 TTC TT
1 TTC TT
9116112 AAACCCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 3 0.07
3 39 0.91
4 1 0.02
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9121529 original size:14 final size:14
Alignment explanation
Indices: 9121512--9121539 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9121502 ATAAAATTTA
9121512 ACATATAGATTATG
1 ACATATAGATTATG
9121526 ACATATAGATTATG
1 ACATATAGATTATG
9121540 TTTGAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ACATATAGATTATG
Found at i:9121772 original size:29 final size:29
Alignment explanation
Indices: 9121740--9121800 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
9121730 TTTAATAATA
* *
9121740 ATTA-TATCAAGAATGTTATTAAATTATAT
1 ATTATTATCAA-AATATGATTAAATTATAT
* *
9121769 ATTATTATTAAAATATGATTAAATTATTT
1 ATTATTATCAAAATATGATTAAATTATAT
9121798 ATT
1 ATT
9121801 TTTTATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTATTATCAAAATATGATTAAATTATAT
Found at i:9122027 original size:16 final size:16
Alignment explanation
Indices: 9122006--9122041 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9121996 TGAAATACTG
9122006 ATTACAGCTCTATTAC
1 ATTACAGCTCTATTAC
* *
9122022 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTAC
9122038 ATTA
1 ATTA
9122042 TAGCGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTAC
Found at i:9126685 original size:11 final size:11
Alignment explanation
Indices: 9126669--9126729 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
9126659 CAATGGGATA
*
9126669 TAAATTTATTT
1 TAAATTTAATT
9126680 TAAATTTAAATT
1 TAAATTT-AATT
* **
9126692 TACATAAAATT
1 TAAATTTAATT
9126703 TAAATTT-ATT
1 TAAATTTAATT
9126713 ATAAATTTAAATT
1 -TAAATTT-AATT
9126726 TAAA
1 TAAA
9126730 AATTAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 3 0.08
11 22 0.56
12 11 0.28
13 3 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:9126689 original size:6 final size:6
Alignment explanation
Indices: 9126669--9126729 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
9126659 CAATGGGATA
* * *
9126669 TAAATT T-ATTT TAAATT TAAATT TACA-T AAAATT TAAATT T--ATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
9126713 ATAAATT TAAATT TAAA
1 -TAAATT TAAATT TAAA
9126730 AATTAAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
4 3 0.07
5 8 0.18
6 30 0.68
7 3 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:9126691 original size:17 final size:17
Alignment explanation
Indices: 9126669--9126727 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
9126659 CAATGGGATA
9126669 TAAATTTATTTTAAATT
1 TAAATTTATTTTAAATT
** *
9126686 TAAATTTACATAAAATT
1 TAAATTTATTTTAAATT
*
9126703 TAAATTTATTATAAATT
1 TAAATTTATTTTAAATT
9126720 TAAATTTA
1 TAAATTTA
9126728 AAAATTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:9127539 original size:13 final size:13
Alignment explanation
Indices: 9127523--9127559 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
9127513 ATTAATGTTA
9127523 AATATTAATAAAT
1 AATATTAATAAAT
9127536 AATATTAATAAAT
1 AATATTAATAAAT
*
9127549 AA-ATAAATAAA
1 AATATTAATAAA
9127560 GGAAATCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATTAATAAAT
Found at i:9127858 original size:20 final size:20
Alignment explanation
Indices: 9127821--9127861 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9127811 TTTTAAAAGG
*
9127821 AAAATAAAAGGGATTGTTTT
1 AAAATAAAAGGGAGTGTTTT
9127841 AAAA-AAAAGGGAAGTGTTTT
1 AAAATAAAAGGG-AGTGTTTT
9127861 A
1 A
9127862 GAAAGTTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (20 bp):
AAAATAAAAGGGAGTGTTTT
Found at i:9128777 original size:28 final size:29
Alignment explanation
Indices: 9128727--9128970 Score: 191
Period size: 29 Copynumber: 8.5 Consensus size: 29
9128717 TTGACCCTCG
*
9128727 AAAATTACATTTTAACCTCAAAACTTCCA
1 AAAATTACATTTTAACCCCAAAACTTCCA
*
9128756 AAAATTACA-TTTGACCCCAAAACTTCCA
1 AAAATTACATTTTAACCCCAAAACTTCCA
*
9128784 AAAATTATATTTTTAACCCCAAAAC-T--A
1 AAAATTACA-TTTTAACCCCAAAACTTCCA
* **
9128811 GAAAATTACATTTT-GCCCCCGAACTTCC-
1 -AAAATTACATTTTAACCCCAAAACTTCCA
* * * *
9128839 AAAATTCCATTTTTGACCTCGAAACTTCCA
1 AAAATTACA-TTTTAACCCCAAAACTTCCA
** * *
9128869 AAAATGGCATTTTTACCCTC-AAACTTCTA
1 AAAATTACATTTTAACCC-CAAAACTTCCA
* *
9128898 AAAATTATATTTTTAACCCCGAAA-TTCCA
1 AAAATTACA-TTTTAACCCCAAAACTTCCA
* * *
9128927 AAAATTCCATTTTTAACCCCGATACTTCC-
1 AAAATTACA-TTTTAACCCCAAAACTTCCA
9128956 AAAATTACCATTTTA
1 AAAATTA-CATTTTA
9128971 CCCTCGGATG
Statistics
Matches: 174, Mismatches: 27, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
26 7 0.04
27 14 0.08
28 37 0.21
29 78 0.45
30 38 0.22
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCAAAACTTCCA
Found at i:9128970 original size:58 final size:58
Alignment explanation
Indices: 9128727--9129091 Score: 179
Period size: 58 Copynumber: 6.3 Consensus size: 58
9128717 TTGACCCTCG
* * * *
9128727 AAAATTA-CATTTTAACCTCAAAACTTCCAAAAATTACA--TTTGACCCCAAAACTTCC
1 AAAATTACCATTTTAACCCCGAAA-TTCCAAAAATTACATTTTTGACCCCGATACTTCC
* * * *
9128783 AAAAATTA-TATTTTTAACCCC-AAA-ACTAGAAAATTACA-TTTTGCCCCCGA-ACTTCC
1 -AAAATTACCA-TTTTAACCCCGAAATTCCA-AAAATTACATTTTTGACCCCGATACTTCC
* * ** * *
9128839 AAAATT-CCATTTTTGACCTCGAAACTTCCAAAAATGGCATTTTT-ACCCTC-AAACTTCTA
1 AAAATTACCA-TTTTAACCCCGAAA-TTCCAAAAATTACATTTTTGACCC-CGATACTTC-C
* * *
9128898 AAAATTA-TATTTTTAACCCCGAAATTCCAAAAATTCCATTTTTAACCCCGATACTTCC
1 AAAATTACCA-TTTTAACCCCGAAATTCCAAAAATTACATTTTTGACCCCGATACTTCC
** * * * * * **
9128956 AAAATTACCATTTT-ACCCTCGGATGTTTC-AAAATTCCGTTTTTGATCTCGATTTTTCC
1 AAAATTACCATTTTAACCC-C-GAAATTCCAAAAATTACATTTTTGACCCCGATACTTCC
* * * * **
9129014 AAAAATTACCATTTTACCCCCG-AATAT-CTAAAATGT-CATTTTTAACCCCAAATTTTTCC
1 -AAAATTACCATTTTAACCCCGAAAT-TCCAAAAAT-TACATTTTTGACCCC-GATACTTCC
*
9129073 AAAATTACCATTTTTACCC
1 AAAATTACCATTTTAACCC
9129092 TCAAGAGTCC
Statistics
Matches: 243, Mismatches: 42, Indels: 45
0.74 0.13 0.14
Matches are distributed among these distances:
55 18 0.07
56 18 0.07
57 37 0.15
58 107 0.44
59 60 0.25
60 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTAACCCCGAAATTCCAAAAATTACATTTTTGACCCCGATACTTCC
Found at i:9128987 original size:29 final size:29
Alignment explanation
Indices: 9128922--9129119 Score: 92
Period size: 29 Copynumber: 6.8 Consensus size: 29
9128912 AACCCCGAAA
**
9128922 TTCCAAAAATT-CCATTTTTAACCC-CGATAC
1 TTCC-AAAATTACCA-TTTT-ACCCTCGATGT
9128952 TTCCAAAATTACCATTTTACCCTCGGATGT
1 TTCCAAAATTACCATTTTACCCTC-GATGT
* * *
9128982 TT-CAAAATT-CCGTTTTTGA-TCTCGATTT
1 TTCCAAAATTACC-ATTTT-ACCCTCGATGT
* *
9129010 TTCCAAAAATTACCATTTTACCCCCGA-AT
1 TTCC-AAAATTACCATTTTACCCTCGATGT
* * * *
9129039 ATCTAAAATGT--CATTTTTAACCC-CAAATTT
1 TTCCAAAAT-TACCA-TTTT-ACCCTC-GATGT
* *
9129069 TTCCAAAATTACCATTTTTACCCTC-AAGA
1 TTCCAAAATTACCA-TTTTACCCTCGATGT
*
9129098 GTCCAAAATTACCATTTTACCC
1 TTCCAAAATTACCATTTTACCC
9129120 CCAAATATCC
Statistics
Matches: 132, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
27 2 0.02
28 30 0.23
29 51 0.39
30 39 0.30
31 10 0.08
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (29 bp):
TTCCAAAATTACCATTTTACCCTCGATGT
Found at i:9129130 original size:28 final size:29
Alignment explanation
Indices: 9129015--9129133 Score: 113
Period size: 28 Copynumber: 4.1 Consensus size: 29
9129005 GATTTTTCCA
* *
9129015 AAAATTACCA-TTTTACCCCCGAATATCT
1 AAAATTACCATTTTTACCCCCAAATATCC
* *
9129043 AAAATGT--CATTTTTAACCCCAAATTTTTCC
1 AAAAT-TACCATTTTTACCCCCAAA--TATCC
* *
9129073 AAAATTACCATTTTTACCCTCAAGA-GTCC
1 AAAATTACCATTTTTACCCCCAA-ATATCC
9129102 AAAATTACCA-TTTTACCCCCAAATATCC
1 AAAATTACCATTTTTACCCCCAAATATCC
9129130 AAAA
1 AAAA
9129134 GGGTCCCATT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.04
28 34 0.46
29 15 0.20
30 8 0.11
31 13 0.18
32 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTTACCCCCAAATATCC
Found at i:9139769 original size:16 final size:18
Alignment explanation
Indices: 9139748--9139780 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
9139738 TGAAAATTGA
9139748 TATAAAT-TTAT-AAAAT
1 TATAAATATTATCAAAAT
9139764 TATAAATATTATCAAAA
1 TATAAATATTATCAAAA
9139781 ACATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAATATTATCAAAAT
Found at i:9139816 original size:16 final size:16
Alignment explanation
Indices: 9139795--9139829 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9139785 AAAAATTCTA
9139795 ATAAAGTATAAAAATT
1 ATAAAGTATAAAAATT
*
9139811 ATAAAGTATTAAAATT
1 ATAAAGTATAAAAATT
9139827 ATA
1 ATA
9139830 TAAAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAAAGTATAAAAATT
Found at i:9139864 original size:19 final size:20
Alignment explanation
Indices: 9139821--9139872 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
9139811 ATAAAGTATT
9139821 AAAATTATATAAAAATCATA
1 AAAATTATATAAAAATCATA
*
9139841 AAAATTAT-TAAAAATTATA
1 AAAATTATATAAAAATCATA
*
9139860 TAAATT-TATAAAA
1 AAAATTATATAAAA
9139873 CAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.03
19 20 0.69
20 8 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTATATAAAAATCATA
Found at i:9139892 original size:10 final size:10
Alignment explanation
Indices: 9139821--9139893 Score: 60
Period size: 10 Copynumber: 7.3 Consensus size: 10
9139811 ATAAAGTATT
9139821 AAAATTATATA
1 AAAATTATA-A
*
9139832 AAAATCAT-A
1 AAAATTATAA
*
9139841 AAAATTATTA
1 AAAATTATAA
*
9139851 AAAATTATAT
1 AAAATTATAA
*
9139861 AAATTTATAA
1 AAAATTATAA
*
9139871 AACAA-TAAAA
1 AA-AATTATAA
*
9139881 AAAATCATAA
1 AAAATTATAA
9139891 AAA
1 AAA
9139894 CTTGAACTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 10 0.20
10 31 0.63
11 8 0.16
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTATAA
Found at i:9139893 original size:9 final size:9
Alignment explanation
Indices: 9139702--9139872 Score: 97
Period size: 9 Copynumber: 18.9 Consensus size: 9
9139692 TCAAAAATCT
9139702 TTATAAAAA
1 TTATAAAAA
*
9139711 -TATAAATA
1 TTATAAAAA
*
9139719 TTAT-TAAA
1 TTATAAAAA
9139727 -TATGAAAAA
1 TTAT-AAAAA
*
9139736 -TATGAAAA
1 TTATAAAAA
*
9139744 TTGATATAAA
1 TT-ATAAAAA
9139754 TT-TATAAAA
1 TTATA-AAAA
*
9139763 TTATAAATA
1 TTATAAAAA
9139772 TTATCAAAAA
1 TTAT-AAAAA
*
9139782 -CATAAAAA
1 TTATAAAAA
*
9139790 TTCTAATAAA
1 TTATAA-AAA
*
9139800 GTATAAAAA
1 TTATAAAAA
9139809 TTAT--AAA
1 TTATAAAAA
* *
9139816 GTATTAAAAT
1 TTA-TAAAAA
9139826 TATATAAAAA
1 T-TATAAAAA
*
9139836 TCATAAAAA
1 TTATAAAAA
9139845 TTATTAAAAA
1 TTA-TAAAAA
*
9139855 TTATATAAAT
1 TTATA-AAAA
9139865 TTATAAAA
1 TTATAAAA
9139873 CAATAAAAAA
Statistics
Matches: 123, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
7 8 0.07
8 21 0.17
9 47 0.38
10 45 0.37
11 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:9140297 original size:9 final size:9
Alignment explanation
Indices: 9140283--9140334 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
9140273 TTTCTTTTTC
9140283 TTTTATATT
1 TTTTATATT
*
9140292 TTTTATAAAT
1 TTTTAT-ATT
*
9140302 TTATATATT
1 TTTTATATT
*
9140311 TTTAATATAT
1 TTTTATAT-T
*
9140321 TTTTATAAT
1 TTTTATATT
9140330 TTTTA
1 TTTTA
9140335 ACAAGTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATATT
Found at i:9140318 original size:11 final size:11
Alignment explanation
Indices: 9140304--9140335 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9140294 TTATAAATTT
9140304 ATATATTTTTA
1 ATATATTTTTA
9140315 ATATATTTTT-
1 ATATATTTTTA
9140325 ATA-ATTTTTA
1 ATATATTTTTA
9140335 A
1 A
9140336 CAAGTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.30
10 4 0.20
11 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:9140343 original size:19 final size:21
Alignment explanation
Indices: 9140301--9140345 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9140291 TTTTTATAAA
* *
9140301 TTTATATATTTTTAATATATT
1 TTTATATATTTTTAACATAGT
9140322 TTTATA-ATTTTTAACA-AGT
1 TTTATATATTTTTAACATAGT
9140341 TTTAT
1 TTTAT
9140346 TGTTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 9 0.41
21 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATATATTTTTAACATAGT
Found at i:9140363 original size:20 final size:21
Alignment explanation
Indices: 9140329--9140376 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
9140319 ATTTTTATAA
* *
9140329 TTTTTAACAAGTTTTATTGTT
1 TTTTTAACAAGTTTTAATATT
*
9140350 TTTTTAAGAA-TTTTAATATT
1 TTTTTAACAAGTTTTAATATT
9140370 TTTTTAA
1 TTTTTAA
9140377 TTTGAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTTAACAAGTTTTAATATT
Found at i:9140371 original size:19 final size:17
Alignment explanation
Indices: 9140283--9140373 Score: 58
Period size: 21 Copynumber: 4.8 Consensus size: 17
9140273 TTTCTTTTTC
9140283 TTTTATATTTTTTATAAA
1 TTTTATATTTTTTA-AAA
9140301 -TTTATATATTTTTAATATA
1 TTTTATAT-TTTTTAA-A-A
*
9140320 TTTTTATAATTTTTAACAA
1 -TTTTATATTTTTTAA-AA
*
9140339 GTTTTATTGTTTTTTTAAGAA
1 -TTTTA-T-ATTTTTTAA-AA
9140360 TTTTAATATTTTTT
1 TTTT-ATATTTTTT
9140374 TAATTTGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
17 8 0.14
18 7 0.12
19 13 0.22
20 14 0.24
21 16 0.28
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTATATTTTTTAAAA
Found at i:9140410 original size:10 final size:9
Alignment explanation
Indices: 9140392--9140511 Score: 79
Period size: 9 Copynumber: 13.0 Consensus size: 9
9140382 AATATTTTGA
9140392 ATAAGTTTTT
1 ATAA-TTTTT
9140402 ATTAA-TTTT
1 A-TAATTTTT
9140411 ATAATTTATT
1 ATAATTT-TT
*
9140421 A-CATTTTT
1 ATAATTTTT
9140429 AT-ATTTTT
1 ATAATTTTT
9140437 ATAATATTTT
1 ATAAT-TTTT
9140447 ATAA-TTTT
1 ATAATTTTT
*
9140455 AGTAAGTTTAT
1 A-TAA-TTTTT
*
9140466 ATCAATTTTA
1 AT-AATTTTT
*
9140476 ATATTTTTTT
1 ATA-ATTTTT
9140486 ATAATTTTT
1 ATAATTTTT
* *
9140495 TTTATTTTT
1 ATAATTTTT
9140504 A-AATTTTT
1 ATAATTTTT
9140512 TATGAGAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
8 25 0.28
9 29 0.33
10 25 0.28
11 9 0.10
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:9140454 original size:26 final size:27
Alignment explanation
Indices: 9140398--9140466 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
9140388 TTGAATAAGT
*
9140398 TTTTATTAATTTTATAATTTATTACAT
1 TTTTATTAATTTTATAATTTATTACAA
* *
9140425 TTTTA-TATTTTTATAATATT-TTATAA
1 TTTTATTAATTTTATAAT-TTATTACAA
* *
9140451 TTTTAGTAAGTTTATA
1 TTTTATTAATTTTATA
9140467 TCAATTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTATTAATTTTATAATTTATTACAA
Found at i:9140493 original size:8 final size:8
Alignment explanation
Indices: 9140398--9140466 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
9140388 TTGAATAAGT
9140398 TTTTATTAA
1 TTTTA-TAA
9140407 TTTTATAA
1 TTTTATAA
9140415 -TTTATTACA
1 TTTTA-TA-A
*
9140424 TTTTTATAT
1 -TTTTATAA
9140433 TTTTATAATA
1 TTTTAT-A-A
9140443 TTTTATAA
1 TTTTATAA
9140451 TTTTAGTAA
1 TTTTA-TAA
*
9140460 GTTTATA
1 TTTTATA
9140467 TCAATTTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
7 4 0.08
8 19 0.38
9 15 0.30
10 8 0.16
11 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:9140493 original size:19 final size:19
Alignment explanation
Indices: 9140290--9140493 Score: 73
Period size: 19 Copynumber: 10.7 Consensus size: 19
9140280 TTCTTTTATA
*
9140290 TTTTTTATAAATTT-ATAT
1 TTTTTTATAATTTTAATAT
* * *
9140308 ATTTTTAATATATTTTTATAA
1 -TTTTTTATA-ATTTTAATAT
* * * *
9140329 TTTTTAACAAGTTTTATTGT
1 TTTTTTATAA-TTTTAATAT
*
9140349 TTTTTTAAGAATTTTAATA-
1 TTTTTT-ATAATTTTAATAT
*
9140368 TTTTTT-TAATTTGAA-AT
1 TTTTTTATAATTTTAATAT
**
9140385 ATTTTGAATAAGTTTT--TAT
1 -TTTTTTATAA-TTTTAATAT
* * *
9140404 TAATTTTATAA-TTTATTAC
1 T-TTTTTATAATTTTAATAT
* * *
9140423 ATTTTTAT-ATTTTTATAA
1 TTTTTTATAATTTTAATAT
* * *
9140441 TATTTTATAATTTTAGTAA
1 TTTTTTATAATTTTAATAT
* *
9140460 GTTTATATCAATTTTAATAT
1 TTTTTTAT-AATTTTAATAT
9140480 TTTTTTATAATTTT
1 TTTTTTATAATTTT
9140494 TTTTATTTTT
Statistics
Matches: 133, Mismatches: 37, Indels: 30
0.67 0.19 0.15
Matches are distributed among these distances:
16 1 0.01
17 11 0.08
18 22 0.17
19 47 0.35
20 46 0.35
21 6 0.05
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTTATAATTTTAATAT
Found at i:9141908 original size:59 final size:59
Alignment explanation
Indices: 9141824--9142047 Score: 215
Period size: 58 Copynumber: 3.8 Consensus size: 59
9141814 AAAAAATTAG
*
9141824 GGTGTTGGCCATCACATGGCTGACACCCCCTGTT-TCAAAAAAAACTTTCAAAATTTTTT
1 GGTGTTGGCCATCAAATGGCTGACACCCCCTGTTCTCAAAAAAAA-TTTCAAAATTTTTT
* * * * *
9141883 GGTGTTGGCCATCAAATGG-TCGACACTCCCTTTTCTCGAAACAAAATTT--ACATTTTTG
1 GGTGTTGGCCATCAAATGGCT-GACACCCCCTGTTCTC-AAAAAAAATTTCAAAATTTTTT
* *** * * * *
9141941 GGTGTTGGACATTGCATGGCCGACACCTCTTGTT-TCAGAAAAAAAAATTCAAAATTTTTT
1 GGTGTTGGCCATCAAATGGCTGACACCCCCTGTTCTC--AAAAAAAATTTCAAAATTTTTT
* * *
9142001 GGTATTGGCCATCAAATGGCTGACACCCCCTTTTCTCGAAAAAAATT
1 GGTGTTGGCCATCAAATGGCTGACACCCCCTGTTCTCAAAAAAAATT
9142048 ACATTTTTGG
Statistics
Matches: 127, Mismatches: 30, Indels: 16
0.73 0.17 0.09
Matches are distributed among these distances:
57 2 0.02
58 42 0.33
59 37 0.29
60 37 0.29
61 9 0.07
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (59 bp):
GGTGTTGGCCATCAAATGGCTGACACCCCCTGTTCTCAAAAAAAATTTCAAAATTTTTT
Found at i:9142020 original size:60 final size:60
Alignment explanation
Indices: 9141824--9142045 Score: 206
Period size: 60 Copynumber: 3.8 Consensus size: 60
9141814 AAAAAATTAG
* * * **
9141824 GGTGTTGGCCATCACATGGCTGACACCCCCTGTTTCA-AAAAAAACTTTCAAAATTTTTT
1 GGTGTTGGCCATCAAATGGCCGACACCCCTTGTTTCAGAAAAAAAAATTCAAAATTTTTT
* * * * *
9141883 GGTGTTGGCCATCAAATGGTCGACACTCCCTT-TTCTC-G-AAACAAAATT-TACATTTTTG
1 GGTGTTGGCCATCAAATGGCCGACAC-CCCTTGTT-TCAGAAAAAAAAATTCAAAATTTTTT
* *** *
9141941 GGTGTTGGACATTGCATGGCCGACACCTCTTGTTTCAGAAAAAAAAATTCAAAATTTTTT
1 GGTGTTGGCCATCAAATGGCCGACACCCCTTGTTTCAGAAAAAAAAATTCAAAATTTTTT
* *
9142001 GGTATTGGCCATCAAATGGCTGACACCCCCTT-TTCTC-GAAAAAAA
1 GGTGTTGGCCATCAAATGGCCGACA-CCCCTTGTT-TCAGAAAAAAA
9142046 TTACATTTTT
Statistics
Matches: 127, Mismatches: 27, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
57 6 0.05
58 31 0.24
59 41 0.32
60 42 0.33
61 7 0.06
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (60 bp):
GGTGTTGGCCATCAAATGGCCGACACCCCTTGTTTCAGAAAAAAAAATTCAAAATTTTTT
Found at i:9142032 original size:118 final size:115
Alignment explanation
Indices: 9141823--9142061 Score: 345
Period size: 118 Copynumber: 2.1 Consensus size: 115
9141813 AAAAAAATTA
* * ** *
9141823 GGGTGTTGGCCATCACATGGCTGACACCCCCTGTTTCAAAAAAAACTTTCAAAATTTTTTGGTGT
1 GGGTGTTGGACATCACATGGCCGACACCCCCTGTTTCAAAAAAAAAATTCAAAATTTTTTGGTAT
*
9141888 TGGCCATCAAATGGTCGACACTCCCTTTTCTCGAAACAAAATTTACATTTTT
66 TGGCCATCAAATGGTCGACACCCCCTTTTCTCGAAA-AAAA-TTACATTTTT
** * *
9141940 GGGTGTTGGACATTGCATGGCCGACACCTCTTGTTTCAGAAAAAAAAATTCAAAATTTTTTGGTA
1 GGGTGTTGGACATCACATGGCCGACACCCCCTGTTTCA-AAAAAAAAATTCAAAATTTTTTGGTA
9142005 TTGGCCATCAAATGG-CTGACACCCCCTTTTCTCGAAAAAAATTACATTTTT
65 TTGGCCATCAAATGGTC-GACACCCCCTTTTCTCGAAAAAAATTACATTTTT
9142056 GGGTGT
1 GGGTGT
9142062 CGGCCATGCC
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
116 16 0.15
117 37 0.34
118 57 0.52
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (115 bp):
GGGTGTTGGACATCACATGGCCGACACCCCCTGTTTCAAAAAAAAAATTCAAAATTTTTTGGTAT
TGGCCATCAAATGGTCGACACCCCCTTTTCTCGAAAAAAATTACATTTTT
Found at i:9142190 original size:61 final size:61
Alignment explanation
Indices: 9142094--9142306 Score: 251
Period size: 62 Copynumber: 3.5 Consensus size: 61
9142084 AAAAATTATT
*
9142094 TTTTTTTGTGTTGGCCATCAAATGGCCAACAACCCCTTTTTCTCGAGAAAAAAATTTCAAAA
1 TTTTTTTGTGTTGGCCATCAAATGGCCGAC-ACCCCTTTTTCTCGAGAAAAAAATTTCAAAA
* *
9142156 TTTTTTCGTGTTGGCCATCAAATGGCTGACACCCCCTTTTT-TC--G-AAAAAATTTGC--AA
1 TTTTTTTGTGTTGGCCATCAAATGGCCGACA-CCCCTTTTTCTCGAGAAAAAAATTT-CAAAA
* * *** * *
9142213 -TTTTTAGATGTTGGCCATCAAATGGCTGACACCCCCAATTCTCGAGAAAAAAATTCCAAAT
1 TTTTTTTG-TGTTGGCCATCAAATGGCCGACACCCCTTTTTCTCGAGAAAAAAATTTCAAAA
9142274 TTTTTTTGTGTTGGCCATCAAATGGCCGACACC
1 TTTTTTTGTGTTGGCCATCAAATGGCCGACACC
9142307 AACTTCTCCT
Statistics
Matches: 130, Mismatches: 11, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
56 12 0.09
57 27 0.21
58 9 0.07
59 4 0.03
60 8 0.06
61 28 0.22
62 42 0.32
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (61 bp):
TTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCTTTTTCTCGAGAAAAAAATTTCAAAA
Found at i:9142688 original size:57 final size:59
Alignment explanation
Indices: 9142513--9142688 Score: 178
Period size: 60 Copynumber: 3.0 Consensus size: 59
9142503 ATATTTCTCT
* * * *
9142513 CAAAAAATTTTGAATTTTTTTCTCGAGAAAAGGAGGTGTCGGCCATTTGATGGCTAACAC
1 CAAAAAAATGTGAATTTTTTT-TCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACAC
* * * *** *
9142573 CAAAAAAATTTGAATTTTTTTTTCTGA-AACAGGGGGCGTCGGCCATGCAATGGTCAACAC
1 CAAAAAAATGTGAA-TTTTTTTTC-GAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACAC
* * *
9142633 C-CAAAAATGT-AATTTTTTTTCGAGAAAAGGGGGTGTTGACCATTTGATGGCCAACA
1 CAAAAAAATGTGAATTTTTTTTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACA
9142689 ATTTCTCATT
Statistics
Matches: 94, Mismatches: 19, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
56 2 0.02
57 33 0.35
58 2 0.02
59 7 0.07
60 41 0.44
61 9 0.10
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (59 bp):
CAAAAAAATGTGAATTTTTTTTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAACAC
Found at i:9145639 original size:17 final size:17
Alignment explanation
Indices: 9145619--9145668 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
9145609 ATGATTTAAC
9145619 AAAAAAAATTAAAATAT
1 AAAAAAAATTAAAATAT
*
9145636 -AAAAAATTATAAAAT-T
1 AAAAAAAAT-TAAAATAT
*
9145652 AAATAAAAACTAAAATA
1 AAA-AAAAATTAAAATA
9145669 ATTTTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
16 8 0.31
17 14 0.54
18 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAAATTAAAATAT
Found at i:9146082 original size:6 final size:6
Alignment explanation
Indices: 9146071--9146110 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
9146061 TAATGTTCGA
9146071 TTGATG TTGATG TTGATG TTGATG TTGATG TTGATG TTGA
1 TTGATG TTGATG TTGATG TTGATG TTGATG TTGATG TTGA
9146111 AGCTTTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TTGATG
Found at i:9147858 original size:35 final size:35
Alignment explanation
Indices: 9147812--9147883 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
9147802 ATCTCCTTAA
9147812 AATGAGAATGTTCAAAAGCTAGCATGATCAAGGAT
1 AATGAGAATGTTCAAAAGCTAGCATGATCAAGGAT
9147847 AATGAGAATGTTCAAAAGCTAGCATGATCAAGGAT
1 AATGAGAATGTTCAAAAGCTAGCATGATCAAGGAT
9147882 AA
1 AA
9147884 GGCTGCTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (35 bp):
AATGAGAATGTTCAAAAGCTAGCATGATCAAGGAT
Found at i:9157039 original size:127 final size:127
Alignment explanation
Indices: 9156845--9157091 Score: 311
Period size: 127 Copynumber: 1.9 Consensus size: 127
9156835 TAATATAGTG
** * * *
9156845 TTTATTACGAGCTAGCTTGACTTGATGGTGATCGACGACAGTGATTCTCTCTCGATTTTTTTCGT
1 TTTATTACGAGCTAGCTTGACTTGATAATGATCGACGACAGTGATTCTCTCTCAATTTCTTTAGT
9156910 TGGAGA-CAATGATTTCTTTTATCATTAATT-AGTTAGATAACATTCTTATTTATTACTAACA
66 TGGAGAGC-ATGATTTCTTTTATCATTAATTCAGTTAGATAACATTCTTATTTATTACTAACA
* * *
9156971 TTTATTATGAGCTAGCCTTGA-TCTGATAATGATCGACGACATTGGTTCTCTCTCAATTTCTTTA
1 TTTATTACGAGCTAG-CTTGACT-TGATAATGATCGACGACAGTGATTCTCTCTCAATTTCTTTA
* * * *
9157035 GTTGGATAGCATGGTTTCTTTTATCATTAGTTAGCCAGTTAGTTAACATTCTTATTT
64 GTTGGAGAGCATGATTTCTTTTATCATTAATT---CAGTTAGATAACATTCTTATTT
9157092 TATGTTGATT
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
126 15 0.15
127 66 0.65
128 1 0.01
131 20 0.20
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (127 bp):
TTTATTACGAGCTAGCTTGACTTGATAATGATCGACGACAGTGATTCTCTCTCAATTTCTTTAGT
TGGAGAGCATGATTTCTTTTATCATTAATTCAGTTAGATAACATTCTTATTTATTACTAACA
Found at i:9158168 original size:14 final size:15
Alignment explanation
Indices: 9158131--9158168 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9158121 TGTTATAAAT
*
9158131 TTATAATATTTTTTA
1 TTATATTATTTTTTA
*
9158146 TTATGTTATTTTTTA
1 TTATATTATTTTTTA
9158161 -TATATTAT
1 TTATATTAT
9158169 GTAATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATATTATTTTTTA
Found at i:9159401 original size:24 final size:24
Alignment explanation
Indices: 9159368--9159418 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
9159358 AGAAATAATC
* *
9159368 TTTCAGTTAAACTTTGTTTAATTG
1 TTTCAATTAAACTCTGTTTAATTG
*
9159392 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAATTG
9159416 TTT
1 TTT
9159419 GAGTCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAATTG
Found at i:9175271 original size:17 final size:17
Alignment explanation
Indices: 9175251--9175283 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9175241 GTAGTTCTGA
9175251 TGAGCTCGCATCTTTGC
1 TGAGCTCGCATCTTTGC
*
9175268 TGAGCTGGCATCTTTG
1 TGAGCTCGCATCTTTG
9175284 GGTGAGTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.27, T:0.36
Consensus pattern (17 bp):
TGAGCTCGCATCTTTGC
Found at i:9175494 original size:40 final size:40
Alignment explanation
Indices: 9175439--9175518 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
9175429 TTAGGCATAA
*
9175439 ATCATATATTGGTTCTTAACTTGTTTAATTTTTCTTATAG
1 ATCATATATTGGTTCTTAACTTGTTTAATTTTGCTTATAG
9175479 ATCATATATTGGTTCTTAACTTGTTTAATTTTGCTTATAG
1 ATCATATATTGGTTCTTAACTTGTTTAATTTTGCTTATAG
9175519 GTTAAGTCCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.54
Consensus pattern (40 bp):
ATCATATATTGGTTCTTAACTTGTTTAATTTTGCTTATAG
Found at i:9180692 original size:8 final size:8
Alignment explanation
Indices: 9180679--9180709 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9180669 ATGGTTTGCT
9180679 ATATATAC
1 ATATATAC
9180687 ATATATAC
1 ATATATAC
9180695 ATATATAC
1 ATATATAC
*
9180703 AAATATA
1 ATATATA
9180710 TAGTAAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (8 bp):
ATATATAC
Found at i:9181742 original size:20 final size:20
Alignment explanation
Indices: 9181717--9181757 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9181707 CTTGTTTATC
*
9181717 CTTGTATTCGCCTTTAAATA
1 CTTGTATTCGCCTCTAAATA
9181737 CTTGTATTCGCCTCTAAATA
1 CTTGTATTCGCCTCTAAATA
9181757 C
1 C
9181758 AAATGTTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (20 bp):
CTTGTATTCGCCTCTAAATA
Found at i:9184309 original size:17 final size:16
Alignment explanation
Indices: 9184255--9184308 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
9184245 TTTTTTTCGT
9184255 TTTTTTTCTATTTCA-
1 TTTTTTTCTATTTCAC
* *
9184270 TCTGTTTCT-TTTCAGC
1 TTTTTTTCTATTTCA-C
*
9184286 ATTTTTTCTATTTCAC
1 TTTTTTTCTATTTCAC
9184302 TTTTTTT
1 TTTTTTT
9184309 TAAATCTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 13 0.43
17 5 0.17
ACGTcount: A:0.11, C:0.17, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTTTTCTATTTCAC
Found at i:9185097 original size:20 final size:21
Alignment explanation
Indices: 9185061--9185104 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
9185051 TTTGTTTGGT
9185061 ATTTTACAAATTAT-AAAATA
1 ATTTTACAAATTATAAAAATA
*
9185081 ATTTTA-AAATTTTTAAAAATA
1 ATTTTACAAA-TTATAAAAATA
9185102 ATT
1 ATT
9185105 AATATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 9 0.43
21 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTTACAAATTATAAAAATA
Found at i:9186837 original size:3 final size:3
Alignment explanation
Indices: 9186831--9186862 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
9186821 AATAATCCAA
9186831 AAT AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9186863 TAAATTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9186844 original size:19 final size:18
Alignment explanation
Indices: 9186810--9186845 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9186800 TAGTTACTAA
*
9186810 CAAAATAAATTAATAATC
1 CAAAATAAAATAATAATC
9186828 CAAAATAATAATAATAAT
1 CAAAATAA-AATAATAAT
9186846 AATAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (18 bp):
CAAAATAAAATAATAATC
Found at i:9187671 original size:23 final size:23
Alignment explanation
Indices: 9187641--9187764 Score: 101
Period size: 23 Copynumber: 5.4 Consensus size: 23
9187631 AGTGCTAGGC
9187641 AACAAAGAGCACACACAGTGCTA
1 AACAAAGAGCACACACAGTGCTA
* * *
9187664 AACAAAGAGTACACAAAGTACTA
1 AACAAAGAGCACACACAGTGCTA
* * *
9187687 ATCAGAGAGCACACACGGTGCTA
1 AACAAAGAGCACACACAGTGCTA
** * *
9187710 ATTAGAGAGCACGAGAC-GTGCTA
1 AACAAAGAGCAC-ACACAGTGCTA
*
9187733 AACAGAA-AGCACATA-AGTGCTA
1 AACA-AAGAGCACACACAGTGCTA
*
9187755 AACAGAGAGC
1 AACAAAGAGC
9187765 GCGCTAGTGT
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
21 1 0.01
22 15 0.19
23 61 0.75
24 4 0.05
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (23 bp):
AACAAAGAGCACACACAGTGCTA
Found at i:9192756 original size:20 final size:19
Alignment explanation
Indices: 9192731--9192771 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
9192721 ACAAAGAAGC
9192731 AAACAATTAAA-AAAAAGTTA
1 AAACAA-TAAATAAAAA-TTA
9192751 AAACAATAAATAAAAATTA
1 AAACAATAAATAAAAATTA
9192770 AA
1 AA
9192772 TAATGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (19 bp):
AAACAATAAATAAAAATTA
Found at i:9192765 original size:19 final size:20
Alignment explanation
Indices: 9192731--9192771 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
9192721 ACAAAGAAGC
*
9192731 AAACAATTAAAAAAAAGTTA
1 AAACAATTAAAAAAAAATTA
*
9192751 AAACAA-TAAATAAAAATTA
1 AAACAATTAAAAAAAAATTA
9192770 AA
1 AA
9192772 TAATGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (20 bp):
AAACAATTAAAAAAAAATTA
Found at i:9203335 original size:89 final size:87
Alignment explanation
Indices: 9203152--9203341 Score: 215
Period size: 89 Copynumber: 2.2 Consensus size: 87
9203142 TATTTGATAT
* * * *
9203152 TTGAATTTCACAA-TTTTTTTATATTGGGATTTGAGTTTTTTTTTCAAGTTAAGTCTTAAATTTA
1 TTGAATTTGACAATTTTTTTTATATTGAGATTTGAATTTTTTTTTCAAGTTAAGTCTTAAACTTA
* *
9203216 GTAATTATTCTAATATTGAGAT
66 GCAATTATTCTAATATTGAGAC
* * ** *
9203238 TTGGATTTGATAATTTTTTTTATATTGAGATTTGAATTTTTTTTGTCCAAGTTTGGTTTTAAACT
1 TTGAATTTGACAATTTTTTTTATATTGAGATTTGAATTTTTTTT-T-CAAGTTAAGTCTTAAACT
*
9203303 TGGCAATTATTCTTACAT-TTG-GAC
64 TAGCAATTATTC-TA-ATATTGAGAC
9203327 TTGAATTTGACAATT
1 TTGAATTTGACAATT
9203342 GTTTCCACGT
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
86 10 0.12
87 28 0.33
88 1 0.01
89 39 0.46
90 5 0.06
91 2 0.02
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (87 bp):
TTGAATTTGACAATTTTTTTTATATTGAGATTTGAATTTTTTTTTCAAGTTAAGTCTTAAACTTA
GCAATTATTCTAATATTGAGAC
Found at i:9206719 original size:4 final size:4
Alignment explanation
Indices: 9206712--9206752 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
9206702 CAAAATAAAT
*
9206712 ATTA ATTA ATTA ATTA ATTA ATTTA ATTA GATAA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA A-TTA ATTA -ATTA ATTA ATT
9206753 TTCTAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 26 0.79
5 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:9206750 original size:13 final size:13
Alignment explanation
Indices: 9206712--9206752 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9206702 CAAAATAAAT
9206712 ATTAATT-AATTA
1 ATTAATTAAATTA
*
9206724 ATTAATTAATTTA
1 ATTAATTAAATTA
9206737 ATTAGA-TAAATTA
1 ATTA-ATTAAATTA
9206750 ATT
1 ATT
9206753 TTCTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTAATTAAATTA
Found at i:9206759 original size:21 final size:20
Alignment explanation
Indices: 9206713--9206769 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
9206703 AAAATAAATA
*
9206713 TTAATTAATTAATTAATTAAT
1 TTAATTAATAAATTAATT-AT
9206734 TTAATTAGATAAATTAATT-T
1 TTAATTA-ATAAATTAATTAT
9206754 TCTAATTAAATAAATT
1 T-TAATT-AATAAATT
9206770 TCTCAATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.06
21 19 0.59
22 11 0.34
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATTAATAAATTAATTAT
Found at i:9208466 original size:28 final size:27
Alignment explanation
Indices: 9208435--9208522 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 27
9208425 AAAATAAGAC
*
9208435 TTTGGATGCCCGGGGGCAAAATGGTAAT
1 TTTGGAT-CTCGGGGGCAAAATGGTAAT
* * *
9208463 TTT-GAACTTTGGGGGTAAAATGGTAAT
1 TTTGGATC-TCGGGGGCAAAATGGTAAT
9208490 TTTGGACTCTC-GGGGCTAAAATGGTAAT
1 TTTGGA-TCTCGGGGGC-AAAATGGTAAT
9208518 TTTGG
1 TTTGG
9208523 GAAAATTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
26 1 0.02
27 25 0.51
28 22 0.45
29 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.33
Consensus pattern (27 bp):
TTTGGATCTCGGGGGCAAAATGGTAAT
Found at i:9208568 original size:58 final size:56
Alignment explanation
Indices: 9208447--9208696 Score: 179
Period size: 59 Copynumber: 4.3 Consensus size: 56
9208437 TGGATGCCCG
* * * * *
9208447 GGGGCAAAATGGTAATTTTG-AACTTTGGGGGT-AAAATGGTAATTTTGGAC-TCTC
1 GGGGTAAAATGGTAATTTTGAAAATTTGGGGTTAAAAATGAT-ATTTTGGACATTTC
* *
9208501 GGGGCTAAAATGGTAATTTTGGGAAAATTTGGGGTTAAAAATGATATTTTAGACATTTA
1 GGGG-TAAAATGGTAATTTT--GAAAATTTGGGGTTAAAAATGATATTTTGGACATTTC
* * * * * *
9208560 GGGGTAAAACGGTAATTTTTAGAAAAATCGGGATCAAAAATGAGATTTTTGGACA-TTC
1 GGGGTAAAATGGTAA-TTTT-GAAAATTTGGGGTTAAAAATGATA-TTTTGGACATTTC
* * * * *
9208618 GAGGGTAAAATGGTAATTTTTAAAGATTTCAGGGTCAAAAATGGA-ATTTTTGGAAATTTT
1 G-GGGTAAAATGGTAATTTTGAAA-ATTT-GGGGTTAAAAAT-GATA-TTTTGGACATTTC
9208678 GGGGTAAAAAT-GTAATTTT
1 GGGGT-AAAATGGTAATTTT
9208697 TGGAATTTTC
Statistics
Matches: 158, Mismatches: 24, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
54 4 0.03
55 14 0.09
57 4 0.03
58 56 0.35
59 70 0.44
60 10 0.06
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.34
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGAAAATTTGGGGTTAAAAATGATATTTTGGACATTTC
Found at i:9208637 original size:28 final size:27
Alignment explanation
Indices: 9208447--9208637 Score: 109
Period size: 27 Copynumber: 6.7 Consensus size: 27
9208437 TGGATGCCCG
* * * *
9208447 GGGGCAAAATGGTAATTTTGAACTTTG
1 GGGGTAAAATGGTAATTTTGGACATTC
9208474 GGGGTAAAATGGTAATTTTGGAC-TCTC
1 GGGGTAAAATGGTAATTTTGGACAT-TC
* *
9208501 GGGGCTAAAATGGTAATTTTGGGAAAATTT
1 GGGG-TAAAATGGTAATTTT-GG-ACATTC
* * *
9208531 GGGGTTAAAAATGAT-ATTTTAGACATTTA
1 GGGG-T-AAAATGGTAATTTTGGACA-TTC
* * * *
9208560 GGGGTAAAACGGTAATTTTTAGAAAAATC
1 GGGGTAAAATGGTAA-TTTT-GGACATTC
* *
9208589 GGGATCAAAAATGAG-ATTTTTGGACATTC
1 GGGGT--AAAATG-GTAATTTTGGACATTC
9208618 GAGGGTAAAATGGTAATTTT
1 G-GGGTAAAATGGTAATTTT
9208638 TAAAGATTTC
Statistics
Matches: 124, Mismatches: 25, Indels: 29
0.70 0.14 0.16
Matches are distributed among these distances:
26 1 0.01
27 33 0.27
28 30 0.24
29 24 0.19
30 21 0.17
31 14 0.11
32 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (27 bp):
GGGGTAAAATGGTAATTTTGGACATTC
Found at i:9208656 original size:59 final size:57
Alignment explanation
Indices: 9208479--9208727 Score: 190
Period size: 59 Copynumber: 4.2 Consensus size: 57
9208469 CTTTGGGGGT
* * *
9208479 AAAATGGTAA-TTTTGGAC-TCTCGGGGCTAAAATGGTAATTTTGGGAAAATTT-GGGGTTA
1 AAAATGG-AATTTTTGGACAT-TCGGGG-TAAAATGGTAATTTT--TAAAATTTCAGGGTCA
* * * **
9208538 AAAAT-G-ATATTTTAGACATTTAGGGGTAAAACGGTAATTTTTAGAAAAATC-GGGATCA
1 AAAATGGAAT-TTTTGGACA-TTCGGGGTAAAATGGTAATTTTTA-AAATTTCAGGG-TCA
9208596 AAAAT-GAGATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTAAAGATTTCAGGGTCA
1 AAAATGGA-ATTTTTGGACATTCG-GGGTAAAATGGTAATTTTTAAA-ATTTCAGGGTCA
* * * * *
9208655 AAAATGGAATTTTTGGAAATTTTGGGGTAAAAAT-GTAATTTTTGGAATTTTCATGGTCA
1 AAAATGGAATTTTTGGACA-TTCGGGGT-AAAATGGTAATTTTT-AAAATTTCAGGGTCA
9208714 AAAATGGAATTTTT
1 AAAATGGAATTTTT
9208728 AGAAGTTTGG
Statistics
Matches: 157, Mismatches: 17, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
56 2 0.01
57 7 0.04
58 35 0.22
59 95 0.61
60 18 0.11
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (57 bp):
AAAATGGAATTTTTGGACATTCGGGGTAAAATGGTAATTTTTAAAATTTCAGGGTCA
Found at i:9208668 original size:30 final size:30
Alignment explanation
Indices: 9208624--9208727 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
9208614 ATTCGAGGGT
9208624 AAAATGGTAATTTTT-AAAGATTTCAGGGTCA
1 AAAATGG-AATTTTTGAAA-ATTTCAGGGTCA
* **
9208655 AAAATGGAATTTTTGGAAATTTTGGGGT-A
1 AAAATGGAATTTTTGAAAATTTCAGGGTCA
* * * *
9208684 AAAATGTAATTTTTGGAATTTTCATGGTCA
1 AAAATGGAATTTTTGAAAATTTCAGGGTCA
9208714 AAAATGGAATTTTT
1 AAAATGGAATTTTT
9208728 AGAAGTTTGG
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
29 24 0.39
30 29 0.47
31 9 0.15
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (30 bp):
AAAATGGAATTTTTGAAAATTTCAGGGTCA
Found at i:9208701 original size:29 final size:29
Alignment explanation
Indices: 9208452--9208786 Score: 140
Period size: 29 Copynumber: 11.5 Consensus size: 29
9208442 GCCCGGGGGC
* *
9208452 AAAATGGTAA-TTTT-GAACTTTGGGGGT-
1 AAAAT-GTAATTTTTGGAAATTTCGGGGTA
* *
9208479 AAAATGGTAA-TTTTGG-ACTCTCGGGGCT-
1 AAAAT-GTAATTTTTGGAAATTTCGGGG-TA
*
9208507 AAAATGGTAATTTTGGGAAAATTT-GGGGTTA
1 AAAAT-GTAATTTTTGG-AAATTTCGGGG-TA
* * *
9208538 AAAATG--ATATTTTAGACATTTAGGGGTA
1 AAAATGTAAT-TTTTGGAAATTTCGGGGTA
** * ** *
9208566 AAACGGTAATTTTTAGAAAAATCGGGATCA
1 AAAATGTAATTTTTGGAAATTTCGGGGT-A
*
9208596 AAAATG-AGATTTTTGGACA-TTCGAGGGT-
1 AAAATGTA-ATTTTTGGAAATTTCG-GGGTA
* *
9208624 AAAATGGTAATTTTT-AAAGATTTCAGGGTCA
1 AAAAT-GTAATTTTTGGAA-ATTTCGGGGT-A
* *
9208655 AAAATGGAATTTTTGGAAATTTTGGGGTA
1 AAAATGTAATTTTTGGAAATTTCGGGGTA
* **
9208684 AAAATGTAATTTTTGGAATTTTCATGGTCA
1 AAAATGTAATTTTTGGAAATTTCGGGGT-A
* * * *
9208714 AAAATGGAATTTTTAGAAGTTT-GGGAATA
1 AAAATGTAATTTTTGGAAATTTCGGG-GTA
** * * *
9208743 AAAATACAATATTTGGTAGTTTCGGGGTTA
1 AAAATGTAATTTTTGGAAATTTCGGGG-TA
*
9208773 AAAATGGAATTTTT
1 AAAATGTAATTTTT
9208787 TGAAGTTCGA
Statistics
Matches: 235, Mismatches: 49, Indels: 45
0.71 0.15 0.14
Matches are distributed among these distances:
27 22 0.09
28 31 0.13
29 85 0.36
30 82 0.35
31 15 0.06
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAATTTCGGGGTA
Found at i:9208745 original size:59 final size:58
Alignment explanation
Indices: 9208644--9208793 Score: 174
Period size: 59 Copynumber: 2.6 Consensus size: 58
9208634 TTTTTAAAGA
* * * ** * *
9208644 TTTCAGGGTCAAAAATGGAATTTTTGGAAATTTTGGGGTAAAAATGTAATTTTTGGAAT
1 TTTCAGGGTCAAAAATGGAATTTTTAG-AAGTTTGGGATAAAAATACAATATTTGGAAG
* *
9208703 TTTCATGGTCAAAAATGGAATTTTTAGAAGTTTGGGAATAAAAATACAATATTTGGTAG
1 TTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTGGG-ATAAAAATACAATATTTGGAAG
* * *
9208762 TTTCGGGGTTAAAAATGGAATTTTTTGAAGTT
1 TTTCAGGGTCAAAAATGGAATTTTTAGAAGTT
9208794 CGAGGGGTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
58 8 0.10
59 69 0.90
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.39
Consensus pattern (58 bp):
TTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTGGGATAAAAATACAATATTTGGAAG
Found at i:9208795 original size:29 final size:29
Alignment explanation
Indices: 9208595--9208795 Score: 108
Period size: 30 Copynumber: 6.8 Consensus size: 29
9208585 AATCGGGATC
9208595 AAAAAT-GAGATTTTTGGACA-TTCGAGGG-T
1 AAAAATGGA-ATTTTTGGA-AGTTCG-GGGTT
* * *
9208624 -AAAATGGTAATTTTT-AAAGATTTCAGGGTC
1 AAAAATGG-AATTTTTGGAAG--TTCGGGGTT
* *
9208654 AAAAATGGAATTTTTGGAAATTTTGGGG-T
1 AAAAATGGAATTTTTGG-AAGTTCGGGGTT
* * ** *
9208683 AAAAATGTAATTTTTGGAATTTTCATGGTC
1 AAAAATGGAATTTTTGGAA-GTTCGGGGTT
* * **
9208713 AAAAATGGAATTTTTAGAAGTTTGGGAAT
1 AAAAATGGAATTTTTGGAAGTTCGGGGTT
** * *
9208742 AAAAATACAATATTTGGTAGTTTCGGGGTT
1 AAAAATGGAATTTTTGGAAG-TTCGGGGTT
*
9208772 AAAAATGGAATTTTTTGAAGTTCG
1 AAAAATGGAATTTTTGGAAGTTCG
9208796 AGGGGTCAAA
Statistics
Matches: 125, Mismatches: 35, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
27 1 0.01
28 8 0.06
29 53 0.42
30 54 0.43
31 7 0.06
32 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTCGGGGTT
Found at i:9210794 original size:27 final size:27
Alignment explanation
Indices: 9210741--9210801 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
9210731 TGATTTTAAG
* * **
9210741 TTTAAAACTATTTTAAATGTATTTAAA
1 TTTAAAACAAATTTAAATGTAAATAAA
*
9210768 TTTAAAACAAATTTAAATTTAAATAAA
1 TTTAAAACAAATTTAAATGTAAATAAA
9210795 TTTAAAA
1 TTTAAAA
9210802 TCAATTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (27 bp):
TTTAAAACAAATTTAAATGTAAATAAA
Found at i:9210802 original size:17 final size:17
Alignment explanation
Indices: 9210761--9210800 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
9210751 TTTTAAATGT
9210761 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
9210778 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
9210794 ATTTAAA
1 ATTTAAA
9210801 ATCAATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:9210807 original size:27 final size:27
Alignment explanation
Indices: 9210764--9210816 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9210754 TAAATGTATT
* *
9210764 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
9210791 TAAATTTAAAATC-AATTCAAACTTAA
1 TAAATTTAAAA-CAAATTCAAACTTAA
9210817 TTTAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:9213266 original size:25 final size:25
Alignment explanation
Indices: 9213238--9213287 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9213228 AGTTATGTAA
9213238 TGCTAATTTAACCTTCAACTACCTT
1 TGCTAATTTAACCTTCAACTACCTT
9213263 TGCTAATTTAACCTTCAACTACCTT
1 TGCTAATTTAACCTTCAACTACCTT
9213288 AGAATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
TGCTAATTTAACCTTCAACTACCTT
Found at i:9216890 original size:44 final size:42
Alignment explanation
Indices: 9216840--9216928 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 42
9216830 CGATGTTAAG
* *
9216840 TCTCACTCTGCGTGTTCCTTTGAAAGCAT-AAGATTTTATGAGCA
1 TCTCACTCTACGTGCTCC-TTGAAAGCATGAA-ATTTTATGAG-A
* *
9216884 TCTCACTCTACGTGCTCCTTGAGAGCATGAAATTTTGTGAGA
1 TCTCACTCTACGTGCTCCTTGAAAGCATGAAATTTTATGAGA
9216926 TCT
1 TCT
9216929 GTGATATGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 4 0.10
43 18 0.45
44 18 0.45
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (42 bp):
TCTCACTCTACGTGCTCCTTGAAAGCATGAAATTTTATGAGA
Found at i:9219089 original size:2 final size:2
Alignment explanation
Indices: 9219078--9219106 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9219068 ACTATACTTC
9219078 AT AT -T 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
9219107 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9231091 original size:26 final size:26
Alignment explanation
Indices: 9231046--9231096 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9231036 GGGCTTTATT
*
9231046 CTTGTAGACTAAAAAGCTAAAATTAA
1 CTTGTAGAATAAAAAGCTAAAATTAA
9231072 CTTGTAGAATAAGAAA-CTAAAATTA
1 CTTGTAGAATAA-AAAGCTAAAATTA
9231097 TGTACTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (26 bp):
CTTGTAGAATAAAAAGCTAAAATTAA
Found at i:9252392 original size:3 final size:3
Alignment explanation
Indices: 9252380--9252409 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9252370 AGCCATAATA
*
9252380 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9252410 GAATTAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:9253986 original size:37 final size:38
Alignment explanation
Indices: 9253914--9253988 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
9253904 GCTAGTACAA
9253914 TTATGTATAAATTACACAGTTAAATGAGTTCTTTTAAG
1 TTATGTATAAATTACACAGTTAAATGAGTTCTTTTAAG
9253952 TTATGTATAAATTACACAGTT-AATGAGTTCTTTTAAG
1 TTATGTATAAATTACACAGTTAAATGAGTTCTTTTAAG
9253989 CATAAATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 16 0.43
38 21 0.57
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (38 bp):
TTATGTATAAATTACACAGTTAAATGAGTTCTTTTAAG
Found at i:9258686 original size:86 final size:86
Alignment explanation
Indices: 9258588--9258748 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 86
9258578 TTAAGGGTGT
* * * * * * *
9258588 AAAAAACAATTAAGC-CCTTGCTTTTATTTTGCACTCACTTGAATACTTGAAT-TTTCAAAATGT
1 AAAAAAAAATTAAGCTAC-TGCTTTCAGTTTGCACTCAATTGAACACTTG-ATCTTTCAAAATGC
*
9258651 ATTAAAAAGATCTTTAAAATTAA
64 ATAAAAAAGATCTTTAAAATTAA
*
9258674 AAAAAAAAATTAAGCTACTGCTTTCAGTTTGCACTCAATTGAGCACTTGATCTTTCAAAATGCAT
1 AAAAAAAAATTAAGCTACTGCTTTCAGTTTGCACTCAATTGAACACTTGATCTTTCAAAATGCAT
9258739 AAAAAAGATC
66 AAAAAAGATC
9258749 CTCAAACTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.03
86 61 0.95
87 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.34
Consensus pattern (86 bp):
AAAAAAAAATTAAGCTACTGCTTTCAGTTTGCACTCAATTGAACACTTGATCTTTCAAAATGCAT
AAAAAAGATCTTTAAAATTAA
Found at i:9261462 original size:58 final size:56
Alignment explanation
Indices: 9261393--9261554 Score: 188
Period size: 58 Copynumber: 2.8 Consensus size: 56
9261383 AATTTTAATG
*
9261393 ATTATTATTAAATATAATTTAATAAAAATATTAATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATA-T-A-TAATTTAATAATATTTTTAACATA
* *
9261451 ATTATTATTAAATACAATTTAATACAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATA-AA-AATATATAATTTAATAATATTTTTAACATA
* *
9261509 ATTATTATTAAAATATGAA-TTAGTAAAAAT-TATAATAT-ATAATATT
1 ATTATTATT-AAATAT-AATTTAATAAAAATATATAATTTAATAATATT
9261555 AGAAAAATAA
Statistics
Matches: 93, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
55 8 0.09
56 7 0.08
57 15 0.16
58 44 0.47
59 13 0.14
60 6 0.06
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (56 bp):
ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAATATTTTTAACATA
Found at i:9265210 original size:59 final size:59
Alignment explanation
Indices: 9265138--9265324 Score: 329
Period size: 59 Copynumber: 3.2 Consensus size: 59
9265128 TATATATATA
9265138 TATAGGTACTGAGATTGAGAGTTCTGTGGCTATTGTCAATTGTGTGTGATAAAGAAAGC
1 TATAGGTACTGAGATTGAGAGTTCTGTGGCTATTGTCAATTGTGTGTGATAAAGAAAGC
*
9265197 TATAGGTACTGAGATTGAGAGTTCTGTGGCTATTGTTAATTGTGTGTGATAAAGAAAGC
1 TATAGGTACTGAGATTGAGAGTTCTGTGGCTATTGTCAATTGTGTGTGATAAAGAAAGC
* * *
9265256 TATAGGTACTGAGATTGAGAGTTTTGTGGCTACTATCAATTGTGTGTGATAAAGAAAGC
1 TATAGGTACTGAGATTGAGAGTTCTGTGGCTATTGTCAATTGTGTGTGATAAAGAAAGC
*
9265315 TATGGGTACT
1 TATAGGTACT
9265325 ATGACTTGAT
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 122 1.00
ACGTcount: A:0.29, C:0.08, G:0.28, T:0.35
Consensus pattern (59 bp):
TATAGGTACTGAGATTGAGAGTTCTGTGGCTATTGTCAATTGTGTGTGATAAAGAAAGC
Found at i:9267274 original size:16 final size:16
Alignment explanation
Indices: 9267253--9267283 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9267243 ATTTTGCTGC
9267253 ATAAGCATATAATAGA
1 ATAAGCATATAATAGA
*
9267269 ATAAGCCTATAATAG
1 ATAAGCATATAATAG
9267284 GCATTCCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
ATAAGCATATAATAGA
Found at i:9267846 original size:6 final size:7
Alignment explanation
Indices: 9267830--9267859 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9267820 TTGCAGGTTC
9267830 TTTTCAT
1 TTTTCAT
9267837 TTTTCAT
1 TTTTCAT
9267844 TTTTCA-
1 TTTTCAT
9267850 TTTTCAT
1 TTTTCAT
9267857 TTT
1 TTT
9267860 GGAGAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCAT
Found at i:9267853 original size:13 final size:14
Alignment explanation
Indices: 9267830--9267859 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9267820 TTGCAGGTTC
9267830 TTTTCATTTTTCAT
1 TTTTCATTTTTCAT
9267844 TTTTCA-TTTTCAT
1 TTTTCATTTTTCAT
9267857 TTT
1 TTT
9267860 GGAGAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCATTTTTCAT
Found at i:9267911 original size:57 final size:58
Alignment explanation
Indices: 9267833--9267964 Score: 171
Period size: 57 Copynumber: 2.3 Consensus size: 58
9267823 CAGGTTCTTT
** * *
9267833 TCATTT-TTCATTTTTCATTTTCATTTTGGAGAAAACTACATTCATTTCCAAATGA-TTC
1 TCATTTCTTCA-TTTTCATTTTCATTTTAAAGAAAACCACAATCATTTCCAAAT-ATTTC
*
9267891 -CATTTCTTCATTTTCATTTTCATTTTAAAGAAAACCATAATCATTTCCAAATATTTC
1 TCATTTCTTCATTTTCATTTTCATTTTAAAGAAAACCACAATCATTTCCAAATATTTC
*
9267948 TCATTTCTCCATTTTCA
1 TCATTTCTTCATTTTCA
9267965 CCATTTCTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
56 1 0.02
57 45 0.69
58 19 0.29
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.48
Consensus pattern (58 bp):
TCATTTCTTCATTTTCATTTTCATTTTAAAGAAAACCACAATCATTTCCAAATATTTC
Found at i:9292857 original size:8 final size:8
Alignment explanation
Indices: 9292844--9292871 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9292834 CATAAGGAAT
9292844 TGATTAGG
1 TGATTAGG
9292852 TGATTAGG
1 TGATTAGG
9292860 TGATTAGG
1 TGATTAGG
9292868 TGAT
1 TGAT
9292872 GGTACTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (8 bp):
TGATTAGG
Found at i:9293203 original size:41 final size:41
Alignment explanation
Indices: 9293158--9293239 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
9293148 GTTGGGAATG
*
9293158 GTCCTGTCCCCTTTGCAAGTTTCTTGCTTCTCTTTTCCTTT
1 GTCCTATCCCCTTTGCAAGTTTCTTGCTTCTCTTTTCCTTT
* *
9293199 GTCCTATCCCCTTTGCGAGTTTCTTGCTTCTGTTTTCCTTT
1 GTCCTATCCCCTTTGCAAGTTTCTTGCTTCTCTTTTCCTTT
9293240 TCTTGGCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.05, C:0.30, G:0.13, T:0.51
Consensus pattern (41 bp):
GTCCTATCCCCTTTGCAAGTTTCTTGCTTCTCTTTTCCTTT
Found at i:9294153 original size:19 final size:18
Alignment explanation
Indices: 9294124--9294160 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9294114 TCTTAAATGG
9294124 ACCCATTTTTTTAGCCAA
1 ACCCATTTTTTTAGCCAA
9294142 ACCCATTTTTTTAGCCAA
1 ACCCATTTTTTTAGCCAA
9294160 A
1 A
9294161 TGTTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.38
Consensus pattern (18 bp):
ACCCATTTTTTTAGCCAA
Found at i:9298259 original size:60 final size:60
Alignment explanation
Indices: 9298188--9298302 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 60
9298178 GACTTTCGAG
*
9298188 GGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGAAAGTTTAGAAAGTTTTGGA
1 GGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGAAAGTTTAGAAAGTTTTGGA
* * * * *
9298248 GGTAAAATGGTATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
1 GGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGAAAGTTTAGAAAGTT
9298303 CGAGGGTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (60 bp):
GGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGAAAGTTTAGAAAGTTTTGGA
Found at i:9298323 original size:60 final size:60
Alignment explanation
Indices: 9298181--9298326 Score: 163
Period size: 60 Copynumber: 2.4 Consensus size: 60
9298171 AATTTTGGAC
* *
9298181 TTTCGAGGGTAAAATGGTAA-TTTTTGGTAAAATCGGGGTCAAAAATGAAAGTTTAGAAAG
1 TTTCGAGGGTAAAAT-GCAATTTTTTGGTAAAATCGAGGTCAAAAATGAAAGTTTAGAAAG
* ** * * * *
9298241 TTTTG-GAGGTAAAATGGTATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAG
1 TTTCGAG-GGTAAAATGCAATTTTTTGGTAAAATCGAGGTCAAAAATGAAAGTTTAGAAAG
9298301 -TTCGAGGGTAAAATGACAATTTTTTG
1 TTTCGAGGGTAAAATG-CAATTTTTTG
9298327 AAGTTCAGGG
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
59 15 0.21
60 56 0.79
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (60 bp):
TTTCGAGGGTAAAATGCAATTTTTTGGTAAAATCGAGGTCAAAAATGAAAGTTTAGAAAG
Found at i:9299084 original size:21 final size:21
Alignment explanation
Indices: 9299056--9299096 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9299046 TCTTTTCTTT
9299056 TTTG-TTTTATTTTTTAAAAG
1 TTTGTTTTTATTTTTTAAAAG
*
9299076 TTTGATTTTTCTTTTTTAAAA
1 TTTG-TTTTTATTTTTTAAAA
9299097 AAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTGTTTTTATTTTTTAAAAG
Found at i:9299373 original size:28 final size:27
Alignment explanation
Indices: 9299310--9299374 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
9299300 CTGTTACCAC
9299310 TTTATTATTAACATTATTATTACTAAT
1 TTTATTATTAACATTATTATTACTAAT
* *
9299337 TATTGTTATTAATATTATTATTA-TCAAT
1 T-TTATTATTAACATTATTATTACT-AAT
9299365 ATTTATTATT
1 -TTTATTATT
9299375 GCTGGTACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.06
28 29 0.91
29 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTATTATTAACATTATTATTACTAAT
Found at i:9300021 original size:17 final size:17
Alignment explanation
Indices: 9299996--9300034 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9299986 GGACATTTTA
*
9299996 TTAAATTTAAACTAAAT
1 TTAAATTTAAAATAAAT
*
9300013 TTAATTTTAAAATAAAT
1 TTAAATTTAAAATAAAT
9300030 TTAAA
1 TTAAA
9300035 AGGGTTTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:9301839 original size:31 final size:29
Alignment explanation
Indices: 9301784--9301854 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
9301774 AAAGTTTGAA
*
9301784 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
9301813 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
9301844 TTAAATTTAAA
1 TTAAATTTAAA
9301855 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:9301851 original size:11 final size:11
Alignment explanation
Indices: 9301782--9301852 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
9301772 TTAAAGTTTG
*
9301782 AATTAATTTTA
1 AATTTATTTTA
*
9301793 AATTCATTTTTA
1 AATTTA-TTTTA
*
9301805 AATTTATCTTA
1 AATTTATTTTA
*
9301816 AATTTAAATTT-
1 AATTT-ATTTTA
*
9301827 -ACTTA-TTTA
1 AATTTATTTTA
9301836 AATTTATTTTA
1 AATTTATTTTA
9301847 AATTTA
1 AATTTA
9301853 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:9301863 original size:17 final size:17
Alignment explanation
Indices: 9301831--9301865 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9301821 AAATTTACTT
* *
9301831 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
9301848 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
9301865 A
1 A
9301866 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Done.