Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 74 of 136
Found at i:24269283 original size:23 final size:23
Alignment explanation
Indices: 24269222--24269283 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
24269212 TTTTTTGCCA
*
24269222 TAAAATATATAATTAATAAAAATAC
1 TAAAATATAT--TAAATAAAAATAC
*
24269247 TAAAATGT-TGTAAATAAAATATAC
1 TAAAATATAT-TAAATAAAA-ATAC
24269271 -AAAATATATTAAA
1 TAAAATATATTAAA
24269284 AATACACAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 18 0.58
24 6 0.19
25 7 0.23
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (23 bp):
TAAAATATATTAAATAAAAATAC
Found at i:24269356 original size:20 final size:20
Alignment explanation
Indices: 24269316--24269424 Score: 91
Period size: 19 Copynumber: 5.6 Consensus size: 20
24269306 AAATTAAACA
* *
24269316 AAATTTTGATA-TCTTTTAG
1 AAATTTTGGTATTCTATTAG
*
24269335 AAATTTTGGTATTCAATTAG
1 AAATTTTGGTATTCTATTAG
* *
24269355 AAATATTGGTA-TCTATTAA
1 AAATTTTGGTATTCTATTAG
* *
24269374 AAATATTGGTATT-TGGTTAG
1 AAATTTTGGTATTCT-ATTAG
* *
24269394 AGATTTTGATATT-TATTAG
1 AAATTTTGGTATTCTATTAG
*
24269413 AAATTTTAGTAT
1 AAATTTTGGTAT
24269425 ATTATTGGTC
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
19 41 0.57
20 31 0.43
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.48
Consensus pattern (20 bp):
AAATTTTGGTATTCTATTAG
Found at i:24269411 original size:39 final size:39
Alignment explanation
Indices: 24269316--24269416 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
24269306 AAATTAAACA
*
24269316 AAATTTTGATATCTT-TTAGAAATTTTGGTATTCAATTAG
1 AAATTTTGATAT-TTATTAGAAATATTGGTATTCAATTAG
* * * * ***
24269355 AAATATTGGTATCTATTAAAAATATTGGTATTTGGTTAG
1 AAATTTTGATATTTATTAGAAATATTGGTATTCAATTAG
*
24269394 AGATTTTGATATTTATTAGAAAT
1 AAATTTTGATATTTATTAGAAAT
24269417 TTTAGTATAT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
38 1 0.02
39 47 0.98
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.47
Consensus pattern (39 bp):
AAATTTTGATATTTATTAGAAATATTGGTATTCAATTAG
Found at i:24269515 original size:20 final size:21
Alignment explanation
Indices: 24269479--24269535 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
24269469 TTGATACCAT
* *
24269479 GATTA-AAATATTGGTATTTA
1 GATTAGAAATTTTAGTATTTA
*
24269499 G-TTATAAATTTTAGTA-TTA
1 GATTAGAAATTTTAGTATTTA
*
24269518 GATTAGAAATTTTCGTAT
1 GATTAGAAATTTTAGTAT
24269536 CCCAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (21 bp):
GATTAGAAATTTTAGTATTTA
Found at i:24280424 original size:18 final size:17
Alignment explanation
Indices: 24280398--24280436 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24280388 ATTTTCCTTC
24280398 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
24280415 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
24280433 CACA
1 CACA
24280437 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:24283234 original size:24 final size:24
Alignment explanation
Indices: 24283165--24283256 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 24
24283155 NNNNNNNNTA
*
24283165 TATATTTTCATATT-TTATAATTTTT
1 TATATTTTCAT-TTATT-TAATTATT
24283190 TATCTATTTTC-TTTA-TT-ATTATT
1 TA--TATTTTCATTTATTTAATTATT
* *
24283213 TTTTTTTTCATTTATTTAATTATT
1 TATATTTTCATTTATTTAATTATT
* *
24283237 TATATGTCCATTTATTTAAT
1 TATATTTTCATTTATTTAAT
24283257 GTTTTAGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
21 6 0.11
22 4 0.07
23 8 0.15
24 23 0.43
25 5 0.09
26 1 0.02
27 7 0.13
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (24 bp):
TATATTTTCATTTATTTAATTATT
Found at i:24287138 original size:9 final size:9
Alignment explanation
Indices: 24287124--24287176 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
24287114 GTTCAGACTC
*
24287124 AAAAAAAAT
1 AAAAAATAT
24287133 AAAAAATAT
1 AAAAAATAT
*
24287142 CAAAAATAT
1 AAAAAATAT
*
24287151 CAAAAATAT
1 AAAAAATAT
*
24287160 CAAAAAAAAT
1 -AAAAAATAT
*
24287170 CAAAAAT
1 AAAAAAT
24287177 CAAAAATCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
9 30 0.81
10 7 0.19
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAATAT
Found at i:24287155 original size:18 final size:19
Alignment explanation
Indices: 24287122--24287176 Score: 85
Period size: 18 Copynumber: 2.9 Consensus size: 19
24287112 GAGTTCAGAC
*
24287122 TCAAAAAAAATAAAAAATA
1 TCAAAAAAAATCAAAAATA
*
24287141 TC-AAAAATATCAAAAATA
1 TCAAAAAAAATCAAAAATA
24287159 TCAAAAAAAATCAAAAAT
1 TCAAAAAAAATCAAAAAT
24287177 CAAAAATCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (19 bp):
TCAAAAAAAATCAAAAATA
Found at i:24287219 original size:13 final size:13
Alignment explanation
Indices: 24287203--24287235 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
24287193 AAAAAAGGGG
24287203 AGAAAAAA-AAAGA
1 AGAAAAAAGAAA-A
24287216 AGAAAAAAGAAAA
1 AGAAAAAAGAAAA
24287229 AGAAAAA
1 AGAAAAA
24287236 GGAGAGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAGAAAA
Found at i:24289325 original size:46 final size:46
Alignment explanation
Indices: 24289263--24289634 Score: 500
Period size: 46 Copynumber: 8.1 Consensus size: 46
24289253 ACAGATCAAT
* ***
24289263 GAAGATAGCAGATCTTATCTTCTTGTACCCGGCAGCGAAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
*
24289309 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
*
24289355 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
* * *
24289401 GAAGATAGCAGATCTTATCTTCCTATATTTAGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
*
24289447 GAAGATAGCAGATCTTATCTTCCTGTATTTAGCAGC-AGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGA-AGGAGATC
* * * *
24289493 GAGGATAGCAGATCTTGTCTTCCTGTAATTGGCAG-TAGAGG-GATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGA-AGGAGATC
*
24289538 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGC-AGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGA-AGGAGATC
* ** * * *
24289584 GAAGATAACAGATCTTATCTTTTTGTACTTGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
24289630 GAAGA
1 GAAGA
24289635 CACAAACCTC
Statistics
Matches: 299, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
45 42 0.14
46 256 0.86
47 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (46 bp):
GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
Found at i:24289792 original size:132 final size:132
Alignment explanation
Indices: 24289643--24291191 Score: 2464
Period size: 132 Copynumber: 11.7 Consensus size: 132
24289633 GACACAAACC
* * *
24289643 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* *
24289708 CAGATCGAAGATGGTGAATCTTATCTTCCTAATACAGTGGAGAAGCAGATTTAAGCGATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
24289773 TA
131 TA
* *
24289775 TCACCCTAAACAATAGTGGAGTAGGTCGAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* *
24289840 CAGATCGAAGATGGTGAATCTTATCTTCCTAATACAGTGGAGAAGCAGATTTAAGCGATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
24289905 TA
131 TA
* *
24289907 TCACCCTAAACAATAGTGGAGTAGGTCGAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
24289972 CAGATCGAAGATGGTGAATCTTATCTTCCTAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
24290037 AA
131 TA
* *
24290039 TCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
24290104 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
24290169 TA
131 TA
* *
24290171 TCACCCTAAACAATAGTGGAGTAGGTCGAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
24290236 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
24290301 AA
131 TA
* * *
24290303 TCTCCCTAAGCAGTAGTGGAGTAGGTCGAACATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* *
24290368 CAAATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCATATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
24290433 TA
131 TA
* *
24290435 TCACCCTAAACAGTAGTGGAATAGGTCGAAGATTGCAGATTCTGTAACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
24290500 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCATATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
24290565 TA
131 TA
* *
24290567 TCACCCTAAACAGTAGTGGAATAGGTCGAAGATTGCAGATTCTGTAACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
24290632 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
24290697 AA
131 TA
* * *
24290699 TCTCCCTAAGCAGTAATGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
24290764 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGGCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
24290829 TA
131 TA
* * * *
24290831 TCACCCTAAGCAGTAGTGGAGTCGGTCGAAGATTACAGATTCTGCCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
24290896 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGGCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
24290961 TA
131 TA
* * * * ** * *
24290963 TCACCCTAAGCAGTAGTGGAGTCGGTCGAAGATTACAGATAC-AACGA-GC-AA--AG-AGGGGC
1 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTC-ACCCTAAGCAGTAGTGG-
* * * * * *
24291022 AGCTGTAATTAGCCATATGGTGAATCTTATCTTCTCAATACAGTGGAGAAGCAAATTTAAGCCAT
64 AGCAG--A-TCG-AAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCAT
24291087 TAGTCCTA
125 TAGTCCTA
* * *
24291095 TCTCCCTAAGA-AGTAGTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAGCAGTAGTGGA
1 TCACCCTAA-ACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
* * *
24291159 GCAGATCAAAGACGGTGAATCTTATATTCCCAA
65 GCAGATCGAAGATGGTGAATCTTATCTTCCCAA
24291192 GATAGTAGGG
Statistics
Matches: 1330, Mismatches: 74, Indels: 26
0.93 0.05 0.02
Matches are distributed among these distances:
127 4 0.00
128 6 0.00
130 3 0.00
131 4 0.00
132 1297 0.98
133 3 0.00
134 3 0.00
136 6 0.00
137 4 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
TA
Found at i:24295064 original size:73 final size:74
Alignment explanation
Indices: 24294883--24295122 Score: 220
Period size: 73 Copynumber: 3.3 Consensus size: 74
24294873 ATGCCAAAAT
* * ** * *
24294883 ACAAAGCCAAATGGATTATAATGCCAAAATCCGAACCTTATGCCTTGCTTTCTCTTGTTTCCCCC
1 ACAAAGCCAAATGGATTATAAAGCCAAAATCCAAAGATTATGCCTTGCTGTCTCTTGTTTCCCCA
24294948 ATCAACCAA
66 ATCAACCAA
* * * * *
24294957 ACAAAGCCGAAT-GACTTATAAAGCCAGAACCCAAAGATTTTG-CTTCGGTGTCTCTTGTTT-CC
1 ACAAAGCCAAATGGA-TTATAAAGCCAAAATCCAAAGATTATGCCTT-GCTGTCTCTTGTTTCCC
24295019 CAATCAACCAA
64 CAATCAACCAA
* * * * * * **
24295030 ACAAAGCCAAATGGATTATGACGCCAAAATCCAAAGCTT-TCGCCTTGCTTTCACTTATTTTTCC
1 ACAAAGCCAAATGGATTATAAAGCCAAAATCCAAAGATTAT-GCCTTGCTGTCTCTTGTTTCCCC
**
24295094 -ATCAGGCAA
65 AATCAACCAA
*
24295103 ACAAAGCCAAATGAATTATA
1 ACAAAGCCAAATGGATTATA
24295123 GAAGTACATT
Statistics
Matches: 134, Mismatches: 26, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
72 1 0.01
73 83 0.62
74 50 0.37
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (74 bp):
ACAAAGCCAAATGGATTATAAAGCCAAAATCCAAAGATTATGCCTTGCTGTCTCTTGTTTCCCCA
ATCAACCAA
Found at i:24301275 original size:21 final size:21
Alignment explanation
Indices: 24301251--24301290 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24301241 AAATAGATGG
24301251 AGAAAAG-AAGAAAAAAAATGA
1 AGAAAAGTAA-AAAAAAAATGA
*
24301272 AGAAATGTAAAAAAAAAAT
1 AGAAAAGTAAAAAAAAAAT
24301291 AGGGTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
AGAAAAGTAAAAAAAAAATGA
Found at i:24306357 original size:15 final size:15
Alignment explanation
Indices: 24306337--24306366 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24306327 ATCAACACCT
24306337 TACTACGACTAACCA
1 TACTACGACTAACCA
24306352 TACTACGACTAACCA
1 TACTACGACTAACCA
24306367 GTTGGTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
TACTACGACTAACCA
Found at i:24309047 original size:23 final size:20
Alignment explanation
Indices: 24309019--24309070 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
24309009 CGGCCTATTT
*
24309019 TTTTAATAAACACCAAAAAATTA
1 TTTTAA-AAACA--AAAAAAGTA
*
24309042 TTTTAAAAATAAAAAAAGTA
1 TTTTAAAAACAAAAAAAGTA
24309062 TTTTAAAAA
1 TTTTAAAAA
24309071 TATTTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 17 0.63
22 4 0.15
23 6 0.22
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAGTA
Found at i:24309057 original size:19 final size:20
Alignment explanation
Indices: 24309033--24309072 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24309023 AATAAACACC
*
24309033 AAAAAATTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
24309053 AAAAAAGTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
24309073 TTTGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAAGTATTTTAAAAATA
Found at i:24315755 original size:207 final size:207
Alignment explanation
Indices: 24315384--24315798 Score: 678
Period size: 207 Copynumber: 2.0 Consensus size: 207
24315374 ATCCTCGGGT
* *
24315384 CAATAGACTTTGGTGCAAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAACGAAAGTTTTGTTTG
1 CAATAGACTTTGGTGCAAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTG
24315449 TATACCACAAAAGGCTCTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCAC
66 TATACCACAAAAGGC-CTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCAC
24315514 CCTTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCAT
130 CCTTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCAT
24315579 TTGGTATTTGTCC
195 TTGGTATTTGTCC
24315592 CAATAGACTTT-GT-CAAAGTGCTGTATGCTTTTCTTAAAAAGCGAAAAAGAATAG-AAGTTTTG
1 CAATAGACTTTGGTGC-AAGTGCTGTATGCTTTTCTTAAAAA--GAAAAAGAA-AGAAAGTTTTG
* *
24315654 TTTGTATACCACAAAAGG-C-TCGTCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCTGGTTCT
62 TTTGTATACCACAAAAGGCCTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCT
* *
24315717 CACCCTTTTGATCCTTCCGGGAAGCATCAGAATCTGGTGATACACTTCTTGCATTGCTAGGATCA
127 CACCC-TTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCA
*
24315782 GCGTTTGGTATTTGTCC
191 GCATTTGGTATTTGTCC
24315799 GGTAGATTTT
Statistics
Matches: 195, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
206 48 0.25
207 101 0.52
208 11 0.06
209 34 0.17
210 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (207 bp):
CAATAGACTTTGGTGCAAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTG
TATACCACAAAAGGCCTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACC
CTTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATT
TGGTATTTGTCC
Found at i:24318963 original size:17 final size:17
Alignment explanation
Indices: 24318925--24318964 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24318915 TTAAAAAAAA
24318925 CTGA-ACATACCCGTGT
1 CTGACACATACCCGTGT
**
24318941 AGGACACATACCCGTGT
1 CTGACACATACCCGTGT
24318958 CTGACAC
1 CTGACAC
24318965 GCAACCATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.20
Consensus pattern (17 bp):
CTGACACATACCCGTGT
Found at i:24336748 original size:17 final size:19
Alignment explanation
Indices: 24336726--24336769 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
24336716 GATAACTAAG
*
24336726 ATAAATAAA-A-TAGAATA
1 ATAAATAAATATTAGAACA
24336743 ATAAATCAAATATTAGAACA
1 ATAAAT-AAATATTAGAACA
24336763 ATAAATA
1 ATAAATA
24336770 CGAAAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 3 0.13
19 2 0.09
20 12 0.52
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (19 bp):
ATAAATAAATATTAGAACA
Found at i:24336753 original size:22 final size:22
Alignment explanation
Indices: 24336697--24336754 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
24336687 ATCCAAGTCA
* *
24336697 AATAAAACAATTAAAACTAGAT
1 AATAAATCAAATAAAACTAGAT
24336719 AACTAAGAT-AAATAAAA-TAGAAT
1 AA-TAA-ATCAAATAAAACTAG-AT
24336742 AATAAATCAAATA
1 AATAAATCAAATA
24336755 TTAGAACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 2 0.07
22 13 0.43
23 14 0.47
24 1 0.03
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (22 bp):
AATAAATCAAATAAAACTAGAT
Found at i:24337209 original size:21 final size:20
Alignment explanation
Indices: 24337172--24337211 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24337162 TCCTTTAACT
*
24337172 TAACAGAAAACTTAAACCAAA
1 TAACA-AAAACTAAAACCAAA
24337193 TAACAAAAACCTAAAACCA
1 TAACAAAAA-CTAAAACCA
24337212 GAAACAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.23, G:0.03, T:0.12
Consensus pattern (20 bp):
TAACAAAAACTAAAACCAAA
Found at i:24344389 original size:45 final size:46
Alignment explanation
Indices: 24344294--24344391 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
24344284 TGTGTATATC
* * *
24344294 TATTTTCTTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAA
1 TATTTTGTTTTAACTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
24344340 TATTTTGTTTTAACTAGGAGATTAGATGCT-AAGTTTAAGAGATAA
1 TATTTTGTTTTAACTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
24344385 TATTTTG
1 TATTTTG
24344392 GTTTCTATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 21 0.43
46 28 0.57
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.43
Consensus pattern (46 bp):
TATTTTGTTTTAACTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
Found at i:24349266 original size:45 final size:46
Alignment explanation
Indices: 24349186--24349281 Score: 167
Period size: 45 Copynumber: 2.1 Consensus size: 46
24349176 NNNNNNNNNN
* *
24349186 TTTTCTTTTAATTAGGAGATTTAGATGCTAAGTTTAGGAGATAATA
1 TTTTGTTTTAATTAGGAGATTTAGATGCTAAGTTTAAGAGATAATA
24349232 TTTTGTTTTAATTAGGAGA-TTAGATGCTAAGTTTAAGAGATAATA
1 TTTTGTTTTAATTAGGAGATTTAGATGCTAAGTTTAAGAGATAATA
24349277 TTTTG
1 TTTTG
24349282 GTTTCTATCT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 30 0.62
46 18 0.38
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (46 bp):
TTTTGTTTTAATTAGGAGATTTAGATGCTAAGTTTAAGAGATAATA
Found at i:24350101 original size:21 final size:21
Alignment explanation
Indices: 24350075--24350114 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24350065 AAATTTTAAA
*
24350075 TTTTAAAAAATTTAAAAATAT
1 TTTTAAAAAAATTAAAAATAT
24350096 TTTTAAAAAAATTAAAAAT
1 TTTTAAAAAAATTAAAAAT
24350115 CATTAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAAAATTAAAAATAT
Found at i:24350333 original size:107 final size:108
Alignment explanation
Indices: 24350205--24350422 Score: 429
Period size: 107 Copynumber: 2.0 Consensus size: 108
24350195 TCTACATGAC
24350205 AATCTATGTATATGTCTAACAAAGTTAATAAAAAATCTATTTTAAGGTGATTTGATATAAAATAC
1 AATCTATGTATATGTCTAACAAAGTTAATAAAAAATCTATTTTAAGGTGATTTGATATAAAATAC
24350270 AATTCAAAAACTAAAAAAAAGAGAAAATTAAATGAAAAATTAA
66 AATTCAAAAACTAAAAAAAAGAGAAAATTAAATGAAAAATTAA
24350313 AATCTATGTATAT-TCTAACAAAGTTAATAAAAAATCTATTTTAAGGTGATTTGATATAAAATAC
1 AATCTATGTATATGTCTAACAAAGTTAATAAAAAATCTATTTTAAGGTGATTTGATATAAAATAC
24350377 AATTCAAAAACTAAAAAAAAGAGAAAATTAAATGAAAAATTAA
66 AATTCAAAAACTAAAAAAAAGAGAAAATTAAATGAAAAATTAA
24350420 AAT
1 AAT
24350423 ATATTTTTAA
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 97 0.88
108 13 0.12
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (108 bp):
AATCTATGTATATGTCTAACAAAGTTAATAAAAAATCTATTTTAAGGTGATTTGATATAAAATAC
AATTCAAAAACTAAAAAAAAGAGAAAATTAAATGAAAAATTAA
Found at i:24360668 original size:24 final size:24
Alignment explanation
Indices: 24360635--24360682 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
24360625 GCAAGTATCC
*
24360635 CTTAGGTTGGTAGATCGAGTTCCT
1 CTTAGATTGGTAGATCGAGTTCCT
*
24360659 CTTAGATTGGTAGTTCGAGTTCCT
1 CTTAGATTGGTAGATCGAGTTCCT
24360683 TACATGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (24 bp):
CTTAGATTGGTAGATCGAGTTCCT
Found at i:24361714 original size:30 final size:30
Alignment explanation
Indices: 24361678--24361750 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
24361668 CATTTCCCAC
*
24361678 CAAAATTTTACTTTCACATTTACTTTTTCT
1 CAAAATTTTACTCTCACATTTACTTTTTCT
*
24361708 CAAAATTTTACTCTCCCATTTACTTTTTCT
1 CAAAATTTTACTCTCACATTTACTTTTTCT
24361738 CAAAATTTTACTC
1 CAAAATTTTACTC
24361751 CCCAAAACCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.49
Consensus pattern (30 bp):
CAAAATTTTACTCTCACATTTACTTTTTCT
Found at i:24361953 original size:22 final size:20
Alignment explanation
Indices: 24361928--24361967 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24361918 TCCCTCAAAT
24361928 TTTTATTCCCCAAAACTTTTTA
1 TTTTA-TCCCC-AAACTTTTTA
*
24361950 TTTTATCTCCAAACTTTT
1 TTTTATCCCCAAACTTTT
24361968 ACTTGTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTATCCCCAAACTTTTTA
Found at i:24365243 original size:7 final size:7
Alignment explanation
Indices: 24365231--24365256 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24365221 TCACTTTAAA
24365231 AATTTAT
1 AATTTAT
24365238 AATTTAT
1 AATTTAT
24365245 AATTTAT
1 AATTTAT
24365252 AATTT
1 AATTT
24365257 TTCGTCAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:24370354 original size:21 final size:21
Alignment explanation
Indices: 24370321--24370390 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
24370311 TTGAGCTTCA
* *
24370321 GTTTAACCATTATGGGTTTTC
1 GTTTAGCCCTTATGGGTTTTC
** * * *
24370342 GTTTAGCTTTTATGAGCTTCC
1 GTTTAGCCCTTATGGGTTTTC
* *
24370363 GTTCAACCCTTATGGGTTTTC
1 GTTTAGCCCTTATGGGTTTTC
24370384 GTTTAGC
1 GTTTAGC
24370391 ACTTGTGTAC
Statistics
Matches: 34, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.19, G:0.20, T:0.46
Consensus pattern (21 bp):
GTTTAGCCCTTATGGGTTTTC
Found at i:24370383 original size:42 final size:43
Alignment explanation
Indices: 24370268--24370390 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 43
24370258 AGTTAACTCA
* * * * ** *
24370268 TATGAGTTTCTGTTTAACCCTAATAGGTTTTAATTCAGCTCTT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTT
*
24370311 T-TGAGCTTCAGTTTAACCATTATGGGTTTTCGTTTAGCT-TT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTT
* *
24370352 TATGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTTAGC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGC
24370391 ACTTGTGTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.04
42 64 0.94
43 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.46
Consensus pattern (43 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTT
Found at i:24375615 original size:20 final size:19
Alignment explanation
Indices: 24375590--24375634 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
24375580 ATGTTTTGAA
*
24375590 AAAATTACAAAATAATCTTT
1 AAAATT-CAAAATAATCATT
* *
24375610 AAAATTCCAAATATTCATT
1 AAAATTCAAAATAATCATT
24375629 AAAATT
1 AAAATT
24375635 TCTAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATCATT
Found at i:24380319 original size:425 final size:422
Alignment explanation
Indices: 24379472--24380681 Score: 1701
Period size: 428 Copynumber: 2.8 Consensus size: 422
24379462 TGAATTGCAC
*
24379472 CACTGCCGCTTCCCCAACAACAATCGCTGCCACCAACTCCCTCCCATCGGAAACTTGCAGCAGCT
1 CACTGCCGCTTCCCCAACAACAACCGCTGCCACCAACTCCCTCCCATCGGAAACTTGCAGCAGCT
* * * *
24379537 CAGCAGCATCTGCAATGGGTAAGCGCAGTCTTGTCATTTTGTTTTTCATATCTCATTACCCTGTC
66 CAGCAGCATCTGCAATGGATAAACGCAGTCCTGTCATTTTGTTTTTCGTAT-TCATTA-CC-GT-
*
24379602 TCTCCAATTCCAATACGCCCAAACCGGTCAACCCAATGTTTCTTTGGTTGTGCTTTCTTTTCTCG
127 GCTCCAATTCCAATACGCCCAAACCGGTCAACCCAATGTTTCTTTGGTTGTGCTTTCTTTTCTCG
*
24379667 TCCTACCTACTTTCAAACTTCTCTTACTGGCTTTGTTTATCAAACCAACTTCTATCCACACTTCA
192 TCCTACTTACTTTCAAACTTCTCTTACTGGCTTTGTTTATCAAACCAACTTCTATCCACACTTCA
* * *
24379732 -AAACATTAGAAAAAGTTGGAGTCATTTTAGCTGCTGCTGCATTTTGTCACGCCATAGCAACCCC
257 GAAACATTAGAAAAAGTTGGAGTCCTTGTAGCTGCTGCTGCATTTTGTCACGCCATAGCAATCCC
* * *** *
24379796 CTTCCCCTTGGAACTTAAATGCGTCGTCTTTGTTGTGTTTATATTCTTCTTACTCCTCACCGCCT
322 CTT-CCCTTGGAGCTTAAATGCATCGTCTTTACCGTGTTTATACTCTTCTTACTCCTCACCGCCT
* ** **
24379861 TCATATACTTTGTTGATTTTCAATCACCACCACCACATA
386 TCACATACTTTAATGACATTCAAT--CCACCACCACATA
* * * * * * *
24379900 CATTGCCACTTCCTCAACAACAACCGCTGCCACCGACTCCCTCCCGTAAGG-AACTTGTAGCAGC
1 CACTGCCGCTTCCCCAACAACAACCGCTGCCACCAACTCCCTCCCAT-CGGAAACTTGCAGCAGC
* *
24379964 TCAGCAGCATCTGCAATGGATAAACGCAATCCTGTTATTTTGTTTTTCGTATTCGATTACCGTGC
65 TCAGCAGCATCTGCAATGGATAAACGCAGTCCTGTCATTTTGTTTTTCGTATTC-ATTACCGTGC
*
24380029 TCCAATTCCAATACGTCCAAACCGGTCAACCCAATGTTTCTTTGGTTGTGCTTTCTTTTCTCGTC
129 TCCAATTCCAATACGCCCAAACCGGTCAACCCAATGTTTCTTTGGTTGTGCTTTCTTTTCTCGTC
24380094 CTACTTACTTTCAAACTTCTCTTACTGGCTTTGTTTATCAAACCAACTTCTATCCACACTTCAGA
194 CTACTTACTTTCAAACTTCTCTTACTGGCTTTGTTTATCAAACCAACTTCTATCCACACTTCAGA
*
24380159 AACATTAGAAAAAGTTGGAGTCCTTGTAG-TAGTTGCTGCATTTTGTCACGCCATAGCAATCCCC
259 AACATTAGAAAAAGTTGGAGTCCTTGTAGCT-GCTGCTGCATTTTGTCACGCCATAGCAATCCCC
24380223 TTCCCTTGGAGCTTAAATGCATCGTCTTTACCGTGTTTATACTCTTCTTACTCCTTCTCACCGCC
323 TTCCCTTGGAGCTTAAATGCATCGTCTTTACCGTGTTTATACTCTTCTTACT-C--CTCACCGCC
24380288 TTCACATACTTTAATGACATTCAATCACCACCACCACATA
385 TTCACATACTTTAATGACATTCAAT--CCACCACCACATA
* *
24380328 CACCGCCGCTTCCCCAACAACAACCACTGCCACCAACTCCCTCCCATCGGAAACTTGCAGCAGCT
1 CACTGCCGCTTCCCCAACAACAACCGCTGCCACCAACTCCCTCCCATCGGAAACTTGCAGCAGCT
* * * *
24380393 CAACAGCATCTGCAATGGATAAACGCAGTCCTGTCATTTTGTTTTTCGTATCCCATTATCATGCT
66 CAGCAGCATCTGCAATGGATAAACGCAGTCCTGTCATTTTGTTTTTCGTAT-TCATTACCGTGCT
* * * *
24380458 CCAATTCCAATACGCCCAAACTGATCAAAATCAATCCAATGTTTCTTTGATTGTGCTTTCCTTTC
130 CCAATTCCAATACGCCCAAACCGGTC--AA-C---CCAATGTTTCTTTGGTTGTGCTTTCTTTTC
* * * * * *
24380523 TCGTCCTAATTACTTTCAATCTTTTCTTACTGGTTTTGTTTAT-AAACCAATTTCTACCCGA-AC
189 TCGTCCTACTTACTTTCAAACTTCTCTTACTGGCTTTGTTTATCAAACCAACTTCTATCC-ACAC
* * *
24380586 TTCAGAAACATTAGAAAAAGTTGGGGTCCTTGTAGCTGCTACTGCATTTTGTCACACCATAGCAA
253 TTCAGAAACATTAGAAAAAGTTGGAGTCCTTGTAGCTGCTGCTGCATTTTGTCACGCCATAGCAA
*
24380651 TCCCCTTCCCTTTGGAGCTTAAATACATCGT
318 TCCCCTTCCC-TTGGAGCTTAAATGCATCGT
24380682 GAAAATTACA
Statistics
Matches: 701, Mismatches: 63, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
425 172 0.25
426 64 0.09
427 6 0.01
428 280 0.40
429 3 0.00
430 2 0.00
431 1 0.00
433 85 0.12
434 88 0.13
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (422 bp):
CACTGCCGCTTCCCCAACAACAACCGCTGCCACCAACTCCCTCCCATCGGAAACTTGCAGCAGCT
CAGCAGCATCTGCAATGGATAAACGCAGTCCTGTCATTTTGTTTTTCGTATTCATTACCGTGCTC
CAATTCCAATACGCCCAAACCGGTCAACCCAATGTTTCTTTGGTTGTGCTTTCTTTTCTCGTCCT
ACTTACTTTCAAACTTCTCTTACTGGCTTTGTTTATCAAACCAACTTCTATCCACACTTCAGAAA
CATTAGAAAAAGTTGGAGTCCTTGTAGCTGCTGCTGCATTTTGTCACGCCATAGCAATCCCCTTC
CCTTGGAGCTTAAATGCATCGTCTTTACCGTGTTTATACTCTTCTTACTCCTCACCGCCTTCACA
TACTTTAATGACATTCAATCCACCACCACATA
Found at i:24383947 original size:3 final size:3
Alignment explanation
Indices: 24383941--24383973 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
24383931 GCCGCCGCCG
*
24383941 CCA CCA CCA CCA CCA CCA CCA CCA CCA TCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
24383974 GCTCTCCCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.64, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:24385212 original size:20 final size:20
Alignment explanation
Indices: 24385183--24385221 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24385173 ATCATCTACC
*
24385183 TTTATTTATTTGTAATTATT
1 TTTATCTATTTGTAATTATT
*
24385203 TTTATCTATTTTTAATTAT
1 TTTATCTATTTGTAATTAT
24385222 AAATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTATCTATTTGTAATTATT
Found at i:24392734 original size:5 final size:6
Alignment explanation
Indices: 24392718--24392744 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24392708 AAAATGAAAA
24392718 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
24392745 CAAAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:24395094 original size:107 final size:105
Alignment explanation
Indices: 24394894--24395101 Score: 317
Period size: 107 Copynumber: 2.0 Consensus size: 105
24394884 ATAATATTGA
* * * *
24394894 TTGAAAGTTAAGAAGATATTTAGCTATTTGATCGAACGAGAAATGGAAACCCAGCACGTTAGGGT
1 TTGAAAGTTAAAAAGATATTTAGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAGGGC
24394959 ACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCTCGTT
66 ACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCTCGTT
* *
24394999 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGG
1 TTGAAAG-TTAAAAA-GATATTTAGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAGG
* * *
24395064 GCACGTTTTCTCGATTTTTCAAACGCAAAATATTGCCT
64 GCACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCT
24395102 TATTTAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 7 0.08
106 6 0.07
107 79 0.86
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (105 bp):
TTGAAAGTTAAAAAGATATTTAGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAGGGC
ACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCTCGTT
Found at i:24397490 original size:44 final size:44
Alignment explanation
Indices: 24397387--24397847 Score: 501
Period size: 44 Copynumber: 10.7 Consensus size: 44
24397377 TTTCTTCTGT
** * *
24397387 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* *
24397427 CTGCTCCACTACTGCTTAGGGAGATAAGATATACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
*
24397471 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* *
24397515 CTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* *
24397559 CTGCTCCACTACTGCTTAGAGAGATAGGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* * ***** ** *
24397603 TTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* * * * * * * *
24397646 TTTCTTCACTACTGCTTAAGAAGATAAGAT-TCGCCGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTCGAC
* * *
24397690 CTACTCTACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
* *
24397734 CTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
** * *
24397778 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
24397818 CTGCTCCACTACTGCTTAGGGAGATAAGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGAT
24397848 TCGCCGTCTT
Statistics
Matches: 359, Mismatches: 54, Indels: 15
0.84 0.13 0.04
Matches are distributed among these distances:
40 62 0.17
41 1 0.00
42 2 0.01
43 33 0.09
44 260 0.72
45 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
Found at i:24397703 original size:175 final size:172
Alignment explanation
Indices: 24397471--24397863 Score: 522
Period size: 175 Copynumber: 2.3 Consensus size: 172
24397461 CATCTTTGAC
* * * * * * *
24397471 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACCATCTTTGACCTGCT-TCACTACTGCTTAG
1 CTGCTCCACTACTGCTTAAGAAGATAAGATTC-GCCGTCTTCGATCTACTCT-ACTACTGCTTAG
*
24397534 GGAGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGAGAGATAGGATCTACCATCTT
64 GGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGAGAGATAGGATCTACCATCTT
* * *
24397599 CGACTTGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAAT
129 CGACCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAT-GC---AAT
* * *
24397646 TTTCTTCACTACTGCTTAAGAAGATAAGATTCGCCGTCTTCGATCTACTCTACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAAGAAGATAAGATTCGCCGTCTTCGATCTACTCTACTACTGCTTAGGG
* * * *
24397711 AGATAAGATCTACCATCTTTGACCTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCG
66 AGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGAGAGATAGGATCTACCATCTTCG
*
24397776 ACCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT
131 ACCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAAT
* *
24397818 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGTCTTCGATCT
1 CTGCTCCACTACTGCTTAAGAAGATAAGATTCGCCGTCTTCGATCT
24397864 GTTCTCTGGG
Statistics
Matches: 191, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
172 43 0.23
175 142 0.74
176 6 0.03
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (172 bp):
CTGCTCCACTACTGCTTAAGAAGATAAGATTCGCCGTCTTCGATCTACTCTACTACTGCTTAGGG
AGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGAGAGATAGGATCTACCATCTTCG
ACCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAAT
Found at i:24397703 original size:219 final size:215
Alignment explanation
Indices: 24397386--24397843 Score: 640
Period size: 219 Copynumber: 2.1 Consensus size: 215
24397376 GTTTCTTCTG
* * * * * * *
24397386 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAT-GC---GATCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAATTTTCTTCACTACTGCTTAAG
* * *
24397447 GAGATAAGATATACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTT
65 AAGATAAGATATACCATCTTCGACCTACTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTT
24397512 GACCTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTTA
130 GACCTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTTA
* *
24397577 GAGAGATAGGATCTACCATCTTCGA
195 GAGAGATAAGA-CT-CCA--TGCGA
24397602 -CTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTTCTTCACTACTGCTTAAG
1 TC-TGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTTCTTCACTACTGCTTAAG
* * * *
24397666 AAGATAAGAT-TCGCCGTCTTCGATCTACTCTACTACTGCTTAGGGAGATAAGATCTACCATCTT
65 AAGATAAGATAT-ACCATCTTCGACCTACTCCACTACTGCTTAGGGAGATAAGATCTACCATCTT
24397730 TGACCTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTT
129 TGACCTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTT
* **
24397795 AGGGAGATAAGACTTGATGCGA
194 AGAGAGATAAGACTCCATGCGA
24397817 TCTGCTCCACTACTGCTTAGGGAGATA
1 TCTGCTCCACTACTGCTTAGGGAGATA
24397844 AGATTCGCCG
Statistics
Matches: 216, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
215 33 0.15
216 31 0.14
217 1 0.00
218 3 0.01
219 148 0.69
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (215 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTTCTTCACTACTGCTTAAGA
AGATAAGATATACCATCTTCGACCTACTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTG
ACCTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
AGAGATAAGACTCCATGCGA
Found at i:24399119 original size:13 final size:13
Alignment explanation
Indices: 24399103--24399129 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24399093 TCCATTTTAC
24399103 TTTTCATTTTTCA
1 TTTTCATTTTTCA
24399116 TTTTCATTTTTCA
1 TTTTCATTTTTCA
24399129 T
1 T
24399130 CTCTCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:24400171 original size:19 final size:19
Alignment explanation
Indices: 24400147--24400186 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24400137 AGAGGCATTC
24400147 ACGTCATTGATATCTGAGG
1 ACGTCATTGATATCTGAGG
24400166 ACGTCATTGATATCTGAGG
1 ACGTCATTGATATCTGAGG
24400185 AC
1 AC
24400187 CCATAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (19 bp):
ACGTCATTGATATCTGAGG
Found at i:24402723 original size:107 final size:107
Alignment explanation
Indices: 24402523--24402838 Score: 528
Period size: 107 Copynumber: 3.0 Consensus size: 107
24402513 ATAATATTGA
* * *
24402523 TTGAAAG-TTAAGAA-GATATTTAGCTATTTGGTCGAACGAGAAATGGAAACCCAGCACGTTAGG
1 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
*
24402586 GTACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
66 GCACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
24402628 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
1 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
24402693 GCACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
66 GCACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
* *
24402735 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACTAGAAATCGAAACCCAGTACGTTAGG
1 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
* * *
24402800 GCACGTTTTCTCGAATTTTCCAAACGCGAAATATTGCCT
66 GCACGTTCTCTCGAA-TTTCCAAACGCAAAACATTGCCT
24402839 TATTTAAAAT
Statistics
Matches: 199, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
105 7 0.04
106 6 0.03
107 165 0.83
108 21 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (107 bp):
TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
GCACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
Found at i:24404151 original size:2 final size:2
Alignment explanation
Indices: 24404146--24404172 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24404136 TATATATATA
24404146 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
24404173 ATACATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:24406621 original size:59 final size:59
Alignment explanation
Indices: 24406556--24406741 Score: 180
Period size: 59 Copynumber: 3.1 Consensus size: 59
24406546 GGGGGGAATT
* * *
24406556 ATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATC
* * ** * * * * *
24406615 ATATATTATGATTTTAGTAAATTTATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-AATC
1 ATATATTTTAATTAAAATATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGTATC
* *
24406676 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATC
24406735 ATATATT
1 ATATATT
24406742 ATGATTTNNN
Statistics
Matches: 98, Mismatches: 21, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
58 7 0.07
59 40 0.41
60 13 0.13
61 32 0.33
62 6 0.06
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (59 bp):
ATATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATC
Found at i:24407014 original size:16 final size:16
Alignment explanation
Indices: 24406989--24407026 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
24406979 TTGAATTACT
*
24406989 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
24407005 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
24407021 ATTACA
1 ATTACA
24407027 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:24408566 original size:25 final size:26
Alignment explanation
Indices: 24408538--24408605 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
24408528 AAATTTTTGG
24408538 ATTTTCTAATATTTTTAGTTTTTT-T
1 ATTTTCTAATATTTTTAGTTTTTTAT
* *
24408563 ATTTTATTGAAT-TTTTTATTTTTTTAT
1 ATTTT-CT-AATATTTTTAGTTTTTTAT
* *
24408590 ATTTTGTATTATTTTT
1 ATTTTCTAATATTTTT
24408606 TTACTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
25 7 0.20
26 19 0.54
27 9 0.26
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (26 bp):
ATTTTCTAATATTTTTAGTTTTTTAT
Found at i:24408589 original size:8 final size:8
Alignment explanation
Indices: 24408549--24408634 Score: 55
Period size: 8 Copynumber: 10.0 Consensus size: 8
24408539 TTTTCTAATA
24408549 TTTTTAGTT
1 TTTTTA-TT
24408558 TTTTTATT
1 TTTTTATT
* *
24408566 TTATTGAAT
1 TT-TTTATT
24408575 TTTTTATTT
1 TTTTTA-TT
24408584 TTTTATATT
1 TTTT-TATT
24408593 TTGTATTATT
1 TT-T-TTATT
*
24408603 TTTTTACT
1 TTTTTATT
*
24408611 TTTATATT
1 TTTTTATT
* *
24408619 GTTATATT
1 TTTTTATT
*
24408627 TTTATATT
1 TTTTTATT
24408635 ATTATATATC
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
8 31 0.49
9 22 0.35
10 9 0.14
11 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.74
Consensus pattern (8 bp):
TTTTTATT
Found at i:24408593 original size:17 final size:17
Alignment explanation
Indices: 24408557--24408634 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
24408547 TATTTTTAGT
*
24408557 TTTTTTATTTTATTGA-A
1 TTTTTTATTTT-TTTATA
24408574 TTTTTTATTTTTTTATA
1 TTTTTTATTTTTTTATA
* *
24408591 TTTTGTATTATTTTTTTA
1 TTTTTTATT-TTTTTATA
* * *
24408609 -CTTTTATATTGTTATA
1 TTTTTTATTTTTTTATA
24408625 TTTTTATATT
1 TTTTT-TATT
24408635 ATTATATATC
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
16 9 0.19
17 28 0.60
18 10 0.21
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTTATTTTTTTATA
Found at i:24408594 original size:16 final size:16
Alignment explanation
Indices: 24408575--24408641 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
24408565 TTTATTGAAT
*
24408575 TTTTTATTTTTTTATA
1 TTTTTATATTTTTATA
*
24408591 TTTTGTATTATTTTTTTA
1 TTTT-TA-TATTTTTATA
* *
24408609 CTTTTATATTGTTATA
1 TTTTTATATTTTTATA
*
24408625 TTTTTATATTATTATA
1 TTTTTATATTTTTATA
24408641 T
1 T
24408642 ATCTTTAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
16 27 0.64
17 4 0.10
18 11 0.26
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTATATTTTTATA
Found at i:24408603 original size:27 final size:25
Alignment explanation
Indices: 24408544--24408613 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 25
24408534 TTGGATTTTC
24408544 TAATATTTTTAGTTTTTTTATTTTAT
1 TAAT-TTTTTAGTTTTTTTATTTTAT
*
24408570 TGAATTTTTTATTTTTTTATATTTTGTAT
1 T-AATTTTTTAGTTTTTT-TA-TTT-TAT
* *
24408599 TATTTTTTTACTTTT
1 TAATTTTTTAGTTTT
24408614 ATATTGTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 13 0.35
27 5 0.14
28 15 0.41
29 4 0.11
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (25 bp):
TAATTTTTTAGTTTTTTTATTTTAT
Found at i:24408613 original size:19 final size:20
Alignment explanation
Indices: 24408578--24408641 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
24408568 ATTGAATTTT
*
24408578 TTATTTTTTTATATTTTGTA
1 TTATTTTTTTATATTTTATA
*
24408598 TTATTTTTTTACT-TTTATATTG
1 TTATTTTTTTA-TATTT-TA-TA
*
24408620 TTATATTTTTATATTATTATA
1 TTATTTTTTTATATT-TTATA
24408641 T
1 T
24408642 ATCTTTAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
20 14 0.40
21 5 0.14
22 15 0.43
23 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTTTTTTATATTTTATA
Found at i:24408639 original size:24 final size:25
Alignment explanation
Indices: 24408575--24408641 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
24408565 TTTATTGAAT
* *
24408575 TTTTTATTTTTTTATATTTTGTATTA
1 TTTTTA-TATTTTATATTGTGTATTA
*
24408601 TTTTTTTACTTTTATATTGT-TA-TA
1 TTTTTATA-TTTTATATTGTGTATTA
24408625 TTTTTATATTATTATAT
1 TTTTTATATT-TTATAT
24408642 ATCTTTAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 2 0.06
24 15 0.43
25 3 0.09
26 15 0.43
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTTTATATTTTATATTGTGTATTA
Found at i:24414156 original size:17 final size:16
Alignment explanation
Indices: 24414111--24414167 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
24414101 ATCAAAGTTG
* *
24414111 TAAAAATAATATAGTAT
1 TAAAAATAATAAAAT-T
*
24414128 TAAAAAT-TTAAAATCT
1 TAAAAATAATAAAAT-T
24414144 TAAAAATAATAAAATT
1 TAAAAATAATAAAATT
24414160 ATAAAAAT
1 -TAAAAAT
24414168 TCAAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAAATAATAAAATT
Found at i:24414165 original size:33 final size:33
Alignment explanation
Indices: 24414111--24414173 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
24414101 ATCAAAGTTG
* *
24414111 TAAAAATAATATAGTATTAAAAATTTAAAATCT
1 TAAAAATAATAAAGTATTAAAAATTCAAAATCT
*
24414144 TAAAAATAATAAAAT-TATAAAAATTCAAAA
1 TAAAAATAATAAAGTAT-TAAAAATTCAAAA
24414174 ATAATGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (33 bp):
TAAAAATAATAAAGTATTAAAAATTCAAAATCT
Found at i:24417375 original size:13 final size:13
Alignment explanation
Indices: 24417350--24417397 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
24417340 TTTTTTAAAA
24417350 TTTAAAAATATATT
1 TTTAAAAA-ATATT
24417364 TTTAAAAAATATT
1 TTTAAAAAATATT
24417377 TTT--AAAAT-TT
1 TTTAAAAAATATT
24417387 TTTAAAAAATA
1 TTTAAAAAATA
24417398 ATAATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.16
11 5 0.16
12 5 0.16
13 8 0.26
14 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAAAATATT
Found at i:24417405 original size:24 final size:23
Alignment explanation
Indices: 24417362--24417406 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24417352 TAAAAATATA
**
24417362 TTTTTAAAAAATATTTTTAAAAT
1 TTTTTAAAAAATATAATTAAAAT
24417385 TTTTTAAAAAATAATAATTAAA
1 TTTTTAAAAAAT-ATAATTAAA
24417407 TGCTGACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTTAAAAAATATAATTAAAAT
Found at i:24417407 original size:23 final size:23
Alignment explanation
Indices: 24417333--24417407 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 23
24417323 TGTCATCATT
**
24417333 TAATT-AATTTTTTAAAATTTAA
1 TAATTAAATTTTTTAAAAAATAA
* *
24417355 -AAATATA-TTTTTAAAAAAT-A
1 TAATTAAATTTTTTAAAAAATAA
**
24417375 TTTTTAAAATTTTTTAAAAAATAA
1 TAATT-AAATTTTTTAAAAAATAA
24417399 TAATTAAAT
1 TAATTAAAT
24417408 GCTGACATGT
Statistics
Matches: 38, Mismatches: 10, Indels: 9
0.67 0.18 0.16
Matches are distributed among these distances:
20 1 0.03
21 14 0.37
22 3 0.08
23 16 0.42
24 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAAATTTTTTAAAAAATAA
Found at i:24419117 original size:14 final size:14
Alignment explanation
Indices: 24419093--24419128 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
24419083 CTATATAAGG
24419093 TTTTCAATTTAAAAA
1 TTTT-AATTTAAAAA
24419108 TTTTAATTTAAAAA
1 TTTTAATTTAAAAA
*
24419122 TTATAAT
1 TTTTAAT
24419129 AATTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAATTTAAAAA
Found at i:24419121 original size:15 final size:15
Alignment explanation
Indices: 24419093--24419123 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
24419083 CTATATAAGG
24419093 TTTTCAATTTAAAAA
1 TTTTCAATTTAAAAA
24419108 TTTT-AATTTAAAAA
1 TTTTCAATTTAAAAA
24419122 TT
1 TT
24419124 ATAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTCAATTTAAAAA
Found at i:24419134 original size:22 final size:21
Alignment explanation
Indices: 24419098--24419155 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
24419088 TAAGGTTTTC
*
24419098 AATTTAAAAATTTTAAT-TTAAA
1 AATTTAATAA-TTTAATATT-AA
24419120 AATTATAATAATTT-ATATTAA
1 AATT-TAATAATTTAATATTAA
*
24419141 AATTTATTAATTTAA
1 AATTTAATAATTTAA
24419156 CATATAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 8 0.26
21 9 0.29
22 9 0.29
23 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTTAATAATTTAATATTAA
Found at i:24430587 original size:14 final size:14
Alignment explanation
Indices: 24430569--24430609 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
24430559 TAAATTTTTT
24430569 AAATTTAATTCGAA
1 AAATTTAATTCGAA
* *
24430583 CAATTTAATTCAAA
1 AAATTTAATTCGAA
*
24430597 AAATTTCATTCGA
1 AAATTTAATTCGA
24430610 TTCAACTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATTTAATTCGAA
Found at i:24437931 original size:23 final size:21
Alignment explanation
Indices: 24437892--24437947 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 21
24437882 AATTGCATTT
24437892 TTGTTTTTATTGCTTCTCTAC
1 TTGTTTTTATTGCTTCTCTAC
*
24437913 TTGTTTTTCGATTGTTTCTCTAC
1 TTGTTTTT--ATTGCTTCTCTAC
*
24437936 TTTTTTTTATTG
1 TTGTTTTTATTG
24437948 GTTTTTATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 12 0.39
23 19 0.61
ACGTcount: A:0.09, C:0.14, G:0.11, T:0.66
Consensus pattern (21 bp):
TTGTTTTTATTGCTTCTCTAC
Found at i:24459661 original size:98 final size:98
Alignment explanation
Indices: 24459494--24459684 Score: 382
Period size: 98 Copynumber: 1.9 Consensus size: 98
24459484 TTTTAGTTAT
24459494 ATTTAAACTAAAGAATTAAATTTTAATGATAAATGATATTAATTAATAAATATAATAAAGTAATT
1 ATTTAAACTAAAGAATTAAATTTTAATGATAAATGATATTAATTAATAAATATAATAAAGTAATT
24459559 TTTTAAATTTACATTTTATTTTTTAAAAACAGG
66 TTTTAAATTTACATTTTATTTTTTAAAAACAGG
24459592 ATTTAAACTAAAGAATTAAATTTTAATGATAAATGATATTAATTAATAAATATAATAAAGTAATT
1 ATTTAAACTAAAGAATTAAATTTTAATGATAAATGATATTAATTAATAAATATAATAAAGTAATT
24459657 TTTTAAATTTACATTTTATTTTTTAAAA
66 TTTTAAATTTACATTTTATTTTTTAAAA
24459685 CAAGAAAATA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (98 bp):
ATTTAAACTAAAGAATTAAATTTTAATGATAAATGATATTAATTAATAAATATAATAAAGTAATT
TTTTAAATTTACATTTTATTTTTTAAAAACAGG
Found at i:24461513 original size:19 final size:19
Alignment explanation
Indices: 24461500--24461536 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24461490 AATATGTTAT
*
24461500 AAATTACATAATATATAAA
1 AAATAACATAATATATAAA
24461519 AAATAACATAATATATAA
1 AAATAACATAATATATAA
24461537 TATTATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATAACATAATATATAAA
Found at i:24463643 original size:10 final size:10
Alignment explanation
Indices: 24463628--24463653 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24463618 TTCAAATTTT
24463628 AAAATTTAAA
1 AAAATTTAAA
24463638 AAAATTTAAA
1 AAAATTTAAA
24463648 AAAATT
1 AAAATT
24463654 ATTTAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:24463887 original size:65 final size:65
Alignment explanation
Indices: 24463818--24464013 Score: 166
Period size: 65 Copynumber: 3.1 Consensus size: 65
24463808 CCAGACTTAA
24463818 ACCTTATTCAAACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTT
1 ACCTTATTCAAACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTT
* *** * * * ** *
24463883 ACCTTAAGTT-AAA-ATTTTATAAATAAATTTT-TTTTA-AAACCT-ACAAACCA--GACTTA-A
1 ACCTT-A-TTCAAACATTTCATTTTTTAGTTTTATTTTATAAA--TAAAAAATTATTTA-TTATA
24463940 -----
61 CGCTT
24463940 ACCTTATTCAAACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTT
1 ACCTTATTCAAACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTT
24464005 ACCTTATTC
1 ACCTTATTC
24464014 CTTAGTCCTC
Statistics
Matches: 93, Mismatches: 20, Indels: 36
0.62 0.13 0.24
Matches are distributed among these distances:
55 2 0.02
56 4 0.04
57 18 0.19
58 10 0.11
59 6 0.06
60 2 0.02
62 2 0.02
63 6 0.06
64 10 0.11
65 27 0.29
66 4 0.04
67 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (65 bp):
ACCTTATTCAAACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTT
Found at i:24463915 original size:123 final size:123
Alignment explanation
Indices: 24463763--24464010 Score: 489
Period size: 122 Copynumber: 2.0 Consensus size: 123
24463753 AAATTATTTA
24463763 TTAAGTTAAAAGTTTTATAAATAAATTTTTTTTAAAACCTACAAACCAGACTTAAACCTTATTCA
1 TTAAGTTAAAAGTTTTATAAATAAATTTTTTTTAAAACCTACAAACCAGACTTAAACCTTATTCA
24463828 AACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTTACC
66 AACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTTACC
24463886 TTAAGTTAAAA-TTTTATAAATAAATTTTTTTTAAAACCTACAAACCAGACTTAAACCTTATTCA
1 TTAAGTTAAAAGTTTTATAAATAAATTTTTTTTAAAACCTACAAACCAGACTTAAACCTTATTCA
24463950 AACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTTACC
66 AACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTTACC
24464008 TTA
1 TTA
24464011 TTCCTTAGTC
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 114 0.91
123 11 0.09
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (123 bp):
TTAAGTTAAAAGTTTTATAAATAAATTTTTTTTAAAACCTACAAACCAGACTTAAACCTTATTCA
AACATTTCATTTTTTAGTTTTATTTTATAAATAAAAAATTATTTATTATACGCTTACC
Found at i:24483568 original size:32 final size:32
Alignment explanation
Indices: 24483527--24483618 Score: 175
Period size: 32 Copynumber: 2.9 Consensus size: 32
24483517 GATATTAACA
*
24483527 AATATGTAAAACTCATATCAAGCAAGAGTGTT
1 AATATGTAAAACTCACATCAAGCAAGAGTGTT
24483559 AATATGTAAAACTCACATCAAGCAAGAGTGTT
1 AATATGTAAAACTCACATCAAGCAAGAGTGTT
24483591 AATATGTAAAACTCACATCAAGCAAGAG
1 AATATGTAAAACTCACATCAAGCAAGAG
24483619 GACTTTTATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (32 bp):
AATATGTAAAACTCACATCAAGCAAGAGTGTT
Found at i:24488239 original size:21 final size:21
Alignment explanation
Indices: 24488215--24488255 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24488205 TTTTTTTCTA
24488215 TTTTTGAAT-AAATTTTAAATG
1 TTTTT-AATGAAATTTTAAATG
24488236 TTTTTAATGAAATTTTAAAT
1 TTTTTAATGAAATTTTAAAT
24488256 TATTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTTTAATGAAATTTTAAATG
Found at i:24492485 original size:12 final size:12
Alignment explanation
Indices: 24492460--24492500 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
24492450 TCATTTCTTG
24492460 TTTTCATTTCCA
1 TTTTCATTTCCA
* *
24492472 TTTCCATTTTCA
1 TTTTCATTTCCA
*
24492484 TTTTCATTTCTA
1 TTTTCATTTCCA
24492496 TTTTC
1 TTTTC
24492501 GTTTTCATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTCATTTCCA
Found at i:24492505 original size:18 final size:18
Alignment explanation
Indices: 24492449--24492509 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
24492439 TGTAAATGAA
*
24492449 TTCATTTCTTGTTTTCATT
1 TTCATTTC-TATTTTCATT
* *
24492468 TCCATTTCCATTTTCATT
1 TTCATTTCTATTTTCATT
*
24492486 TTCATTTCTATTTTCGTT
1 TTCATTTCTATTTTCATT
24492504 TTCATT
1 TTCATT
24492510 CAACACGTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
18 29 0.81
19 7 0.19
ACGTcount: A:0.13, C:0.20, G:0.03, T:0.64
Consensus pattern (18 bp):
TTCATTTCTATTTTCATT
Found at i:24499153 original size:23 final size:23
Alignment explanation
Indices: 24499123--24499168 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24499113 GTGTGAATTG
24499123 TGTTAAGGAAAAGTAAGACAAAC
1 TGTTAAGGAAAAGTAAGACAAAC
24499146 TGTTAAGGAAAAGTAAGACAAAC
1 TGTTAAGGAAAAGTAAGACAAAC
24499169 ATAGAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.22, T:0.17
Consensus pattern (23 bp):
TGTTAAGGAAAAGTAAGACAAAC
Found at i:24499179 original size:23 final size:22
Alignment explanation
Indices: 24499130--24499183 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
24499120 TTGTGTTAAG
*
24499130 GAAAAGTAAGACAAACTGTTAAG
1 GAAAAGTAAGACAAACTG-TAAA
24499153 GAAAAGTAAGACAAACATAG-AAA
1 GAAAAGTAAGACAAAC-T-GTAAA
24499176 GAAAAGTA
1 GAAAAGTA
24499184 CCAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 26 0.93
24 1 0.04
25 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.13
Consensus pattern (22 bp):
GAAAAGTAAGACAAACTGTAAA
Found at i:24499369 original size:21 final size:21
Alignment explanation
Indices: 24499327--24499369 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
24499317 AATTAGTGAC
*
24499327 AAATATTCTATATTATGCTTA
1 AAATATTCTATATTATACTTA
24499348 AAATATT-TATATTATACATTA
1 AAATATTCTATATTATAC-TTA
24499369 A
1 A
24499370 TGCATCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATATTCTATATTATACTTA
Found at i:24509990 original size:287 final size:288
Alignment explanation
Indices: 24509643--24510227 Score: 1129
Period size: 287 Copynumber: 2.0 Consensus size: 288
24509633 AAAATCAAGG
*
24509643 CTTTAAAT-AATTAGTAATAAAGTTTTACGAGCTACATTAAAAATAAAATAAAAATAAAAATAAG
1 CTTTCAATCAATTAGTAATAAAGTTTTACGAGCTACATTAAAAATAAAATAAAAATAAAAATAAG
24509707 ATGTATACATCATTAATATATAAAATAATAATTCTAAATAAAAAATAAACAAATATTATATTCAT
66 ATGTATACATCATTAATATATAAAATAATAATTCTAAATAAAAAATAAACAAATATTATATTCAT
24509772 ATTGTAGGTCATCAATCTCACCAACCAGATAAAATTATTAGAAAAGAACAGTCCATCCGCAATAA
131 ATTGTAGGTCATCAATCTCACCAACCAGATAAAATTATTAGAAAAGAACAGTCCATCCGCAATAA
24509837 AATATGCCTATATTAAAATAAAGGACATCAATTGGTTTTACACCATGCCATTGTCCTTGAAATTG
196 AATATGCCTATATTAAAATAAAGGACATCAATTGGTTTTACACCATGCCATTGTCCTTGAAATTG
*
24509902 TTGGGTACCAAACTTTCCACTTTTTCCT
261 TTGGATACCAAACTTTCCACTTTTTCCT
24509930 CTTTCAATCAATTAGTAAT-AAGTTTTACGAGCTACATTAAAAATAAAATAAAAATAAAAATAAG
1 CTTTCAATCAATTAGTAATAAAGTTTTACGAGCTACATTAAAAATAAAATAAAAATAAAAATAAG
24509994 ATGTATACATCATTAATATATAAAATAATAATTCTAAATAAAAAATAAACAAATATTATATTCAT
66 ATGTATACATCATTAATATATAAAATAATAATTCTAAATAAAAAATAAACAAATATTATATTCAT
24510059 ATTGTAGGTCATCAATCTCACCAACCAGATAAAATTATTAGAAAAGAACAGTCCATCCGCAATAA
131 ATTGTAGGTCATCAATCTCACCAACCAGATAAAATTATTAGAAAAGAACAGTCCATCCGCAATAA
24510124 AATATGCCTATATTAAAATAAAGGACATCAATTGGTTTTACACCATGCCATTGTCCTTGAAATTG
196 AATATGCCTATATTAAAATAAAGGACATCAATTGGTTTTACACCATGCCATTGTCCTTGAAATTG
*
24510189 TTGGATGCCAAACTTTCCACTTTTTCCT
261 TTGGATACCAAACTTTCCACTTTTTCCT
24510217 CTTTCAATCAA
1 CTTTCAATCAA
24510228 AATCTTTTTC
Statistics
Matches: 294, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
287 284 0.97
288 10 0.03
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (288 bp):
CTTTCAATCAATTAGTAATAAAGTTTTACGAGCTACATTAAAAATAAAATAAAAATAAAAATAAG
ATGTATACATCATTAATATATAAAATAATAATTCTAAATAAAAAATAAACAAATATTATATTCAT
ATTGTAGGTCATCAATCTCACCAACCAGATAAAATTATTAGAAAAGAACAGTCCATCCGCAATAA
AATATGCCTATATTAAAATAAAGGACATCAATTGGTTTTACACCATGCCATTGTCCTTGAAATTG
TTGGATACCAAACTTTCCACTTTTTCCT
Found at i:24511157 original size:13 final size:11
Alignment explanation
Indices: 24511118--24511160 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
24511108 TCTTTCAATA
*
24511118 TTCTCTCATAT
1 TTCTCTCAAAT
24511129 TTCTCTCAAAT
1 TTCTCTCAAAT
24511140 TTCTCTCAAAT
1 TTCTCTCAAAT
*
24511151 TCCTCTCAAA
1 TTCTCTCAAA
24511161 GCTCTCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:24511166 original size:22 final size:22
Alignment explanation
Indices: 24511119--24511167 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
24511109 CTTTCAATAT
* * **
24511119 TCTCTCATATTTCTCTCAAATT
1 TCTCTCAAATTCCTCTCAAAGC
24511141 TCTCTCAAATTCCTCTCAAAGC
1 TCTCTCAAATTCCTCTCAAAGC
24511163 TCTCT
1 TCTCT
24511168 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCTCAAATTCCTCTCAAAGC
Found at i:24511167 original size:11 final size:10
Alignment explanation
Indices: 24511112--24511160 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
24511102 CTTCAATCTT
24511112 TCAATATTCTC
1 TCAA-ATTCTC
*
24511123 TCATATTTCTC
1 TCA-AATTCTC
24511134 TCAAATTTCTC
1 TCAAA-TTCTC
24511145 TCAAATTCCTC
1 TCAAATT-CTC
24511156 TCAAA
1 TCAAA
24511161 GCTCTCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 3 0.09
11 29 0.88
12 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:24511574 original size:17 final size:17
Alignment explanation
Indices: 24511552--24511584 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24511542 GTGCGTTGAT
24511552 AGAGAGGTGGAGACCCA
1 AGAGAGGTGGAGACCCA
24511569 AGAGAGGTGGAGACCC
1 AGAGAGGTGGAGACCC
24511585 GAGACGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.42, T:0.06
Consensus pattern (17 bp):
AGAGAGGTGGAGACCCA
Found at i:24511588 original size:15 final size:16
Alignment explanation
Indices: 24511552--24511588 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
24511542 GTGCGTTGAT
24511552 AGAGAGGTGGAGACCC
1 AGAGAGGTGGAGACCC
24511568 AAGAGAGGTGGAGACCC
1 -AGAGAGGTGGAGACCC
24511585 -GAGA
1 AGAGA
24511589 CGCACACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
17 16 0.80
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.05
Consensus pattern (16 bp):
AGAGAGGTGGAGACCC
Found at i:24512348 original size:7 final size:7
Alignment explanation
Indices: 24512336--24512360 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24512326 TAGTCAATTC
24512336 GTATTTA
1 GTATTTA
24512343 GTATTTA
1 GTATTTA
24512350 GTATTTA
1 GTATTTA
24512357 GTAT
1 GTAT
24512361 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:24512910 original size:30 final size:30
Alignment explanation
Indices: 24512851--24512933 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
24512841 GACGACAATG
*
24512851 CAGGCCCATCAACAGTGCCCACACAATCAC
1 CAGGCCCATCAACAGCGCCCACACAATCAC
** * * *
24512881 TTGGCCCATCAACAGCGCTCATACGATCAC
1 CAGGCCCATCAACAGCGCCCACACAATCAC
* *
24512911 CAGGCCCAGCAACAGCACCCACA
1 CAGGCCCATCAACAGCGCCCACA
24512934 GCACAGCCTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.42, G:0.16, T:0.11
Consensus pattern (30 bp):
CAGGCCCATCAACAGCGCCCACACAATCAC
Found at i:24513313 original size:9 final size:9
Alignment explanation
Indices: 24513301--24513385 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
24513291 TTTGGTTAAA
*
24513301 AATTAACCT
1 AATTAACCG
*
24513310 AATTACCCG
1 AATTAACCG
24513319 AATTAACCG
1 AATTAACCG
*
24513328 AATTACCCG
1 AATTAACCG
24513337 AATTAACCG
1 AATTAACCG
* *
24513346 AATTACCCA
1 AATTAACCG
*
24513355 AATTAACTG
1 AATTAACCG
*
24513364 AATTACCCG
1 AATTAACCG
*
24513373 AATTAATCG
1 AATTAACCG
24513382 AATT
1 AATT
24513386 GAATCACTAC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:24513324 original size:18 final size:18
Alignment explanation
Indices: 24513301--24513385 Score: 134
Period size: 18 Copynumber: 4.7 Consensus size: 18
24513291 TTTGGTTAAA
*
24513301 AATTAACCTAATTACCCG
1 AATTAACCGAATTACCCG
24513319 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
24513337 AATTAACCGAATTACCCA
1 AATTAACCGAATTACCCG
*
24513355 AATTAACTGAATTACCCG
1 AATTAACCGAATTACCCG
*
24513373 AATTAATCGAATT
1 AATTAACCGAATT
24513386 GAATCACTAC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:24513729 original size:75 final size:75
Alignment explanation
Indices: 24513598--24513744 Score: 224
Period size: 75 Copynumber: 2.0 Consensus size: 75
24513588 AAAAAATTCT
* *
24513598 GTTAACCGACCGGTTTCGAACCGAATTAACCGTTAACCGAAAAATCAAAAAATAATTAACCGACT
1 GTTAACCGACCGATTTCGAACCGAATTAACCGTTAACCAAAAAATCAAAAAATAATTAACCGAC-
24513663 CCC-GACCAAA
65 CCCTGACCAAA
* * * *
24513673 GTTAGCCGACCGATTTCGAACCGAATTAATCGTTAACCAAAAAATCAAAAACTAATTAATCGACC
1 GTTAACCGACCGATTTCGAACCGAATTAACCGTTAACCAAAAAATCAAAAAATAATTAACCGACC
24513738 CCTGACC
66 CCTGACC
24513745 GAAAAAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 3 0.05
75 62 0.95
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (75 bp):
GTTAACCGACCGATTTCGAACCGAATTAACCGTTAACCAAAAAATCAAAAAATAATTAACCGACC
CCTGACCAAA
Found at i:24514271 original size:61 final size:60
Alignment explanation
Indices: 24514201--24514398 Score: 201
Period size: 61 Copynumber: 3.2 Consensus size: 60
24514191 TTTATATTTT
*
24514201 TAATAAAATAGAAATTCTTTTAAATAATGCAATATTTTGAATATTTCTATATTATTTCATG
1 TAATAAAATAGAAATTCTTTTAAATAAAGCAATATTTTGAATATTTCTATATTATTT-ATG
* * * *
24514262 TAATAAAATA-AAAGGTTGTTTTGAATAAAG-AA-ATTGT-AATCTACTTT-TACTTTTATATT-
1 TAATAAAATAGAAA--TTCTTTTAAATAAAGCAATATTTTGAA--TA-TTTCTA-TATTAT-TTA
*
24514321 TT
59 TG
*
24514323 TAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTGAATATTTCTATATTATTTGATG
1 TAATAAAATAGAAATTCTTTTAAATAAAGCAATATTTTGAATATTTCTATATTATTT-ATG
*
24514384 TAATAAAATATAAAT
1 TAATAAAATAGAAAT
24514399 AATACAACAT
Statistics
Matches: 110, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
59 4 0.04
60 27 0.25
61 48 0.44
62 27 0.25
63 4 0.04
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (60 bp):
TAATAAAATAGAAATTCTTTTAAATAAAGCAATATTTTGAATATTTCTATATTATTTATG
Found at i:24514329 original size:122 final size:122
Alignment explanation
Indices: 24514112--24514393 Score: 467
Period size: 122 Copynumber: 2.3 Consensus size: 122
24514102 TTGTACAAAC
* * ** *
24514112 ATTTTGAATATTTTTATATTATTTCATGTAATGAAATGGAAGGTTGTTTTGAATAAAGTAATTGT
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGAAATTGT
* *
24514177 AATTGTAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAATGCAAT
66 AATTCTAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
24514234 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGAAATTGT
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGAAATTGT
*
24514299 AA-TCTACTTTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
66 AATTCTA-ATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
*
24514356 ATTTTGAATATTTCTATATTATTTGATGTAATAAAATA
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATA
24514394 TAAATAATAC
Statistics
Matches: 150, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
121 3 0.02
122 147 0.98
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (122 bp):
ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGAAATTGT
AATTCTAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
Found at i:24517424 original size:126 final size:125
Alignment explanation
Indices: 24517199--24517485 Score: 484
Period size: 126 Copynumber: 2.3 Consensus size: 125
24517189 GCCAAATAGA
* * *
24517199 AACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAAAGCATCT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATCT
**
24517264 TGCTTAAAGTGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTCTTTCAGG
66 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATT-TTTCAGG
* * *
24517325 AACTACTGTAGCAAAAAAACGTTCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATCT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATCT
*
24517390 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTTTCAAAATTATTTTTCAGG
66 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTCAGG
24517450 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
24517486 TTTTAAATTA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 40 0.27
126 109 0.73
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (125 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATCT
TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTCAGG
Found at i:24517619 original size:104 final size:103
Alignment explanation
Indices: 24517501--24517871 Score: 436
Period size: 104 Copynumber: 3.7 Consensus size: 103
24517491 AATTAAACAA
* * * * *
24517501 TAATTTAATTAAGTAACCCTAAACCCCAAACCCTGATTTATTTAATTTTTTCCTTAAAAACCCTA
1 TAATTTACTCAAGTAACCCTAAACCCCAAGCCCTAATTTATTTGATTTTTTCCTTAAAAACCCTA
*
24517566 AACACTAAACCCTAATCGAATTTTTTTAAAATTTATAAT
66 AACACTAAACCCTAATCTAA-TTTTTTAAAATTTATAAT
*
24517605 TAATGTACTCAAGTAACCCTAAACCCCAAGCCCTAATTTATTTGATTTTTTCCTTAAAAACCCTA
1 TAATTTACTCAAGTAACCCTAAACCCCAAGCCCTAATTTATTTGATTTTTTCCTTAAAAACCCTA
*
24517670 AACGCTAAACCCTAATCTAATTTTTTAAAATTTTATAAT
66 AACACTAAACCCTAATCTAATTTTTTAAAA-TTTATAAT
* ** *
24517709 TAATTTACACAAG-----C--AACCTTAAGCCCTAATTTATTTGATTTTTTCCTTAAAAACCATA
1 TAATTTACTCAAGTAACCCTAAACCCCAAGCCCTAATTTATTTGATTTTTTCCTTAAAAACCCTA
* * ** *
24517767 AAAACGAAACCCTAATCTAATTTTAAAAAAATTATAAT
66 AACACTAAACCCTAATCTAATTTTTTAAAATTTATAAT
* * * * * * *
24517805 TAATTTAATTAAGAAACCCTAAACCCTAAGCTCTTATTTATTT-ATTTATTT-CTTTAAAACCCT
1 TAATTTACTCAAGTAACCCTAAACCCCAAGCCCTAATTTATTTGATTT-TTTCCTTAAAAACCCT
24517868 AAAC
65 AAAC
24517872 TCAAAAACCC
Statistics
Matches: 230, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
96 17 0.07
97 66 0.29
99 1 0.00
101 1 0.00
102 17 0.07
103 32 0.14
104 96 0.42
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (103 bp):
TAATTTACTCAAGTAACCCTAAACCCCAAGCCCTAATTTATTTGATTTTTTCCTTAAAAACCCTA
AACACTAAACCCTAATCTAATTTTTTAAAATTTATAAT
Found at i:24519833 original size:21 final size:21
Alignment explanation
Indices: 24519808--24519854 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24519798 GTTTCAAGGG
24519808 GGGAAA-TTAGGGATTTTAGGA
1 GGGAAAGTTAGGGATTTT-GGA
* *
24519829 GGGAAAGTTGGGGATTTTGGG
1 GGGAAAGTTAGGGATTTTGGA
24519850 GGGAA
1 GGGAA
24519855 GGGATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.26
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTTGGA
Found at i:24519992 original size:60 final size:60
Alignment explanation
Indices: 24519928--24520048 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
24519918 AACGTCGCTA
* *
24519928 AATGTTTTGTTATATAAAATAGTTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 AATGTTTTGCTATATAAAATAGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
*
24519988 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 AATGTTTTGCTATATAAAATAGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
24520048 A
1 A
24520049 TAAAATCGCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.30, C:0.03, G:0.14, T:0.53
Consensus pattern (60 bp):
AATGTTTTGCTATATAAAATAGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
Found at i:24520201 original size:114 final size:114
Alignment explanation
Indices: 24519988--24520215 Score: 312
Period size: 114 Copynumber: 2.0 Consensus size: 114
24519978 TGGCGTTTTT
*
24519988 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAA
1 AATGTTTTGCTATATAAAATGCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAA
* * * * * * * *
24520053 ATCGCCGCAAAAGGTAAGCAATAGTGGTGTTTTTATAAAAACGCCGCTA
66 AACACCACAAAAGCTAACCAATAGCGGCGATTTTATAAAAACGCCGCTA
24520102 AATGTTTTGCTATATAAAATGCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAA
1 AATGTTTTGCTATATAAAATGCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAA
* ** * ** *
24520167 AACACCACTATTGCTTACCTTTTGCGGCGATTTTATAAAAACGCCGCTA
66 AACACCACAAAAGCTAACCAATAGCGGCGATTTTATAAAAACGCCGCTA
24520216 TTGCTGACCT
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (114 bp):
AATGTTTTGCTATATAAAATGCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATAAA
AACACCACAAAAGCTAACCAATAGCGGCGATTTTATAAAAACGCCGCTA
Found at i:24520252 original size:40 final size:39
Alignment explanation
Indices: 24520147--24520255 Score: 155
Period size: 39 Copynumber: 2.8 Consensus size: 39
24520137 TAAAATTATT
* * * *
24520147 TTTTGTGGCGTTTTTATAAAAACACCACTATTGCTTACC
1 TTTTGCGGCGTTTTTATAAAAACGCCGCTATTGCTGACC
*
24520186 TTTTGCGGCGATTTTATAAAAACGCCGCTATTGCTGACC
1 TTTTGCGGCGTTTTTATAAAAACGCCGCTATTGCTGACC
*
24520225 TTTTGCGGCGTTTTTTATGAAAACGCCGCTA
1 TTTTGCGGCG-TTTTTATAAAAACGCCGCTA
24520256 AATGTTTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 44 0.71
40 18 0.29
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (39 bp):
TTTTGCGGCGTTTTTATAAAAACGCCGCTATTGCTGACC
Found at i:24520269 original size:154 final size:155
Alignment explanation
Indices: 24520082--24520362 Score: 492
Period size: 154 Copynumber: 1.8 Consensus size: 155
24520072 AATAGTGGTG
* *
24520082 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGCCTATTTTTTAAAGTAAAATTATT
1 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATT
24520147 TTTTGTGGCGTTTTTAT-AAAAACACCACTATTGCTTACCTTTTGCGGCGATTTTATAAAAACGC
66 TTTTGTGGCGTTTTTATAAAAAACACCACTATTGCTTACCTTTTGCGGCGATTTTATAAAAACGC
24520211 CGCTATTGCTGACCTTTTGCGGCGT
131 CGCTATTGCTGACCTTTTGCGGCGT
*
24520236 TTTTTATGAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATT
1 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATT
* * * *
24520301 TTTTGTGGCGTTTTTATAAAAAACGCCGCTGTTGCTTACCTTTTGCGGCGTTTTTATAAAAA
66 TTTTGTGGCGTTTTTATAAAAAACACCACTATTGCTTACCTTTTGCGGCGATTTTATAAAAA
24520363 AGCCACTAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
154 79 0.66
155 40 0.34
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (155 bp):
TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTAAAAGTAAAATTATT
TTTTGTGGCGTTTTTATAAAAAACACCACTATTGCTTACCTTTTGCGGCGATTTTATAAAAACGC
CGCTATTGCTGACCTTTTGCGGCGT
Found at i:24521092 original size:15 final size:15
Alignment explanation
Indices: 24521072--24521101 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24521062 CCCTAACTCG
*
24521072 ACCCTAAATCTCTAA
1 ACCCTAAATCACTAA
24521087 ACCCTAAATCACTAA
1 ACCCTAAATCACTAA
24521102 CTCTTAATCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCCTAAATCACTAA
Found at i:24521306 original size:89 final size:89
Alignment explanation
Indices: 24521134--24521307 Score: 224
Period size: 89 Copynumber: 2.0 Consensus size: 89
24521124 AACTAACCTC
* * *
24521134 TAAACCTTATTTAATATAAAAACTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCTGAC
1 TAAACATTACTTAATATAAAAACTAAAAAACACTAATTAATCTAAACCATAAACCCTAACCTGAC
* *
24521199 CCTAAATCCCTAACCCTTAACCCT
66 CCTAAATCCATAAACCTTAACCCT
* * ** *
24521223 TAAACATTACTTAATATATAAATTAAAATGCACTAATTAATCTAAACCCTAAACCCTAACCTGAC
1 TAAACATTACTTAATATAAAAACTAAAAAACACTAATTAATCTAAACCATAAACCCTAACCTGAC
* *
24521288 ACC-GAATCTATAAACCTTAA
66 -CCTAAATCCATAAACCTTAA
24521308 ATCCTTAACT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 70 0.97
90 2 0.03
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (89 bp):
TAAACATTACTTAATATAAAAACTAAAAAACACTAATTAATCTAAACCATAAACCCTAACCTGAC
CCTAAATCCATAAACCTTAACCCT
Found at i:24521335 original size:14 final size:14
Alignment explanation
Indices: 24521313--24521353 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
24521303 CTTAAATCCT
*
24521313 TAACTCTTAACCTC
1 TAACTCTTAACCCC
*
24521327 TAACCCTTAACCCC
1 TAACTCTTAACCCC
24521341 TAACTCTTAACCC
1 TAACTCTTAACCC
24521354 ATAAACCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (14 bp):
TAACTCTTAACCCC
Found at i:24521344 original size:21 final size:21
Alignment explanation
Indices: 24521310--24521353 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24521300 AACCTTAAAT
* *
24521310 CCTTAACTCTTAAC-CTCTAAC
1 CCTTAACCCCTAACTCT-TAAC
24521331 CCTTAACCCCTAACTCTTAAC
1 CCTTAACCCCTAACTCTTAAC
24521352 CC
1 CC
24521354 ATAAACCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (21 bp):
CCTTAACCCCTAACTCTTAAC
Found at i:24521405 original size:14 final size:15
Alignment explanation
Indices: 24521386--24521416 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24521376 TAAATCAGAG
24521386 TCCCTAA-TCCATAA
1 TCCCTAATTCCATAA
24521400 TCCCTAATTCCATAA
1 TCCCTAATTCCATAA
24521415 TC
1 TC
24521417 TATAAACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (15 bp):
TCCCTAATTCCATAA
Found at i:24527879 original size:3 final size:3
Alignment explanation
Indices: 24527873--24527927 Score: 65
Period size: 3 Copynumber: 17.3 Consensus size: 3
24527863 CTACTACTAC
* *
24527873 TAT TAT TAT TAT TAT TAT TAT TAT TAC TCT TATT TAT CTATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TA-T TAT TAT
24527921 TAT TAT T
1 TAT TAT T
24527928 CGTTTATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
3 37 0.82
4 7 0.16
5 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24527916 original size:8 final size:7
Alignment explanation
Indices: 24527873--24527977 Score: 53
Period size: 6 Copynumber: 14.9 Consensus size: 7
24527863 CTACTACTAC
24527873 TATTA-T
1 TATTATT
24527879 TATTA-T
1 TATTATT
24527885 TATTA-T
1 TATTATT
24527891 TATTATT
1 TATTATT
*
24527898 ACTCTTATT
1 --TATTATT
24527907 TATCTATT
1 TAT-TATT
24527915 TATTA-T
1 TATTATT
24527921 TATTATT
1 TATTATT
24527928 CGT-TTATT
1 --TATTATT
*
24527936 AATGTA-T
1 TAT-TATT
*
24527943 GATTATT
1 TATTATT
24527950 TATTGTATT
1 TA-T-TATT
*
24527959 TCTTATT
1 TATTATT
24527966 TATTA-T
1 TATTATT
24527972 TATTAT
1 TATTAT
24527978 CACCATGTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
6 31 0.39
7 20 0.25
8 16 0.20
9 12 0.15
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (7 bp):
TATTATT
Found at i:24529188 original size:45 final size:46
Alignment explanation
Indices: 24529137--24529226 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 46
24529127 TAATGAAGGC
24529137 AATATTCAATGTTTAGAATTTTGAGAAATTGTGT-CTAACGTATTT
1 AATATTCAATGTTTAGAATTTTGAGAAATTGTGTCCTAACGTATTT
24529182 AATATTCAATGTTTAGAATTTTGAGAAATTGTGTCCTAACGTATT
1 AATATTCAATGTTTAGAATTTTGAGAAATTGTGTCCTAACGTATT
24529227 GGGCTGCGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 34 0.77
46 10 0.23
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (46 bp):
AATATTCAATGTTTAGAATTTTGAGAAATTGTGTCCTAACGTATTT
Found at i:24533162 original size:16 final size:17
Alignment explanation
Indices: 24533130--24533164 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
24533120 ATTTCATGAA
24533130 AATAATAGTACATATAT
1 AATAATAGTACATATAT
*
24533147 AATAAT-GTATATATAT
1 AATAATAGTACATATAT
24533163 AA
1 AA
24533165 AAAATAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (17 bp):
AATAATAGTACATATAT
Found at i:24535598 original size:108 final size:108
Alignment explanation
Indices: 24535408--24535629 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 108
24535398 GGGGCACCTG
* * * * * *
24535408 TTTTCATCTTATTCATTTCGTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAT
1 TTTTCATCTTACTCATTTCGTATCTTAGCAAAATTTGCAATCTCGATTAATTTATCCATTTCGAG
* * * *
24535473 CTTTGCTCTCAATAAAATTCCATCTTGT-TCATTGTGATAATCT
66 ATTTGCTCTCAACAAAATTCCATATTATCT-ATTGTGATAATCT
24535516 TTTTCATCTTACTCATTTCGTAT-TCTAGCAAAATTTGCAATCTCGATTAATTTATCCATTTCGA
1 TTTTCATCTTACTCATTTCGTATCT-TAGCAAAATTTGCAATCTCGATTAATTTATCCATTTCGA
* *
24535580 GATTTGCTCTCAACAAAATTTCATATTATCTATTGTTATAATCT
65 GATTTGCTCTCAACAAAATTCCATATTATCTATTGTGATAATCT
24535624 TTTTCA
1 TTTTCA
24535630 AGCATTTTTC
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
107 1 0.01
108 98 0.98
109 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.48
Consensus pattern (108 bp):
TTTTCATCTTACTCATTTCGTATCTTAGCAAAATTTGCAATCTCGATTAATTTATCCATTTCGAG
ATTTGCTCTCAACAAAATTCCATATTATCTATTGTGATAATCT
Found at i:24536225 original size:44 final size:44
Alignment explanation
Indices: 24536175--24536474 Score: 225
Period size: 44 Copynumber: 6.8 Consensus size: 44
24536165 AAGCCACTAG
* * *
24536175 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGATTGTAGA
* * *****
24536219 TCCTATCTCCCTAAGCAGTAG-GGAAGCAGATTGAGGCCACCAG-
1 TCCTATCTCCCTAAGCAGCAGTGG-AGCAGATTGAAGATTGTAGA
*
24536262 TCCTATCTCCCTAAGCAGCAGTGGAGTAGATTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGATTGTAGA
* * * **
24536306 TCCTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGCGAA
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGATTGTAG-A
* * *****
24536350 TCTTATCTTCCC-AAGGCAGTAG-GGAAGCAGATTGAAGCCACCAG-
1 TCCTATC-TCCCTAA-GCAGCAGTGG-AGCAGATTGAAGATTGTAGA
* * ** *
24536394 TCCTATTTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGATTGTAGA
* * * *
24536438 TCCTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGA
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGA
24536475 CGGCGAATCT
Statistics
Matches: 192, Mismatches: 53, Indels: 22
0.72 0.20 0.08
Matches are distributed among these distances:
43 58 0.30
44 112 0.58
45 21 0.11
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGATTGTAGA
Found at i:24536246 original size:87 final size:87
Alignment explanation
Indices: 24536148--24536336 Score: 308
Period size: 87 Copynumber: 2.2 Consensus size: 87
24536138 TTCCCAAGGT
* * *
24536148 AGTAGGGAAGCAGATTAAAGCCACTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAT
1 AGTAGGGAAGCAGATTAAAGCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGATTGAAGAT
24536213 TGTAGATCCTATCTCCCTAAGC
66 TGTAGATCCTATCTCCCTAAGC
* *
24536235 AGTAGGGAAGCAGATTGAGGCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGATTGAAGAT
1 AGTAGGGAAGCAGATTAAAGCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGATTGAAGAT
*
24536300 TGTAGATCCTATCTTCCTAAGC
66 TGTAGATCCTATCTCCCTAAGC
24536322 AGTAGTGG-AGCAGAT
1 AGTAG-GGAAGCAGAT
24536337 CGAAGATGGC
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 93 0.98
88 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (87 bp):
AGTAGGGAAGCAGATTAAAGCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGATTGAAGAT
TGTAGATCCTATCTCCCTAAGC
Found at i:24536411 original size:132 final size:132
Alignment explanation
Indices: 24536233--24536709 Score: 686
Period size: 132 Copynumber: 3.6 Consensus size: 132
24536223 ATCTCCCTAA
* * *
24536233 GCAGTAGGGAAGCAGATTGAGGCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGATTGAAG
1 GCAGTAGGGAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGATTGAAG
* * *
24536298 ATTGTAGATCCTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCA
66 ATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
24536363 AG
131 AG
* * * *
24536365 GCAGTAGGGAAGCAGATTGAAGCCACCAGTCCTATTTCCCTGAGCAGCAGTGGAATAGGTTGAAG
1 GCAGTAGGGAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGATTGAAG
* *
24536430 ATTGTAGATCCTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
66 ATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
*
24536495 AT
131 AG
* * * * *
24536497 GTAGTAGGGAAGCAGATTGAAACCACCAGTCCTATCTCTCTGAGCAGCAATAGAGTAGGTTGAAG
1 GCAGTAGGGAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGATTGAAG
* * *
24536562 ATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGAAAATCAAAGACGGCGAATCTTATCTTCCCA
66 ATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
24536627 AG
131 AG
* * * * * *
24536629 GTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCTCTGAGTAGCAATGAAGTAGGA-TGAA
1 GCAGTAGGGAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGCAATGGAGTA-GATTGAA
*
24536693 GATTGTAGATCTTGTCT
65 GATTGTAGATCCTGTCT
24536710 TCCTGTACTG
Statistics
Matches: 312, Mismatches: 32, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
132 311 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
GCAGTAGGGAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGATTGAAG
ATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
AG
Found at i:24537048 original size:44 final size:46
Alignment explanation
Indices: 24536886--24537055 Score: 159
Period size: 45 Copynumber: 3.7 Consensus size: 46
24536876 ATATCAAACA
*** *
24536886 TTATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAAAAAAAGATACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAG--ACTGAAGAA-A-ACAAGTC
* *
24536936 TTATCTCCCTGAAGTTGTAGTGGAGC-AGACTGAAGAAAACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAGACTGAAGAAAACAAGTC
* * * * * *
24536981 TTATTTCCCTGAAGTCGCCGTGGAGCAAG-TTGAAG-CAACGAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAGACTGAAGAAAACAAGTC
*
24537025 TTATCTCCCTGACGTTGCAGTGGAGC-AGACT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAGACT
24537056 AAAACCATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
43 2 0.02
44 29 0.29
45 33 0.33
46 3 0.03
47 5 0.05
49 2 0.02
50 25 0.25
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (46 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAGACTGAAGAAAACAAGTC
Found at i:24538611 original size:3 final size:3
Alignment explanation
Indices: 24538605--24538653 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
24538595 CTACTACTAC
* *
24538605 TAT TAT TAT TAT TAT TAT TAC TCT TATT TAT CTATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TA-T TAT TAT TAT TAT
24538653 T
1 T
24538654 CGTTTATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 31 0.79
4 7 0.18
5 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24540262 original size:14 final size:14
Alignment explanation
Indices: 24540239--24540268 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24540229 AGGAGCAGGG
24540239 GGGAAAGCAAGAAA
1 GGGAAAGCAAGAAA
*
24540253 GGGAAGGCAAGAAA
1 GGGAAAGCAAGAAA
24540267 GG
1 GG
24540269 AACCAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.43, T:0.00
Consensus pattern (14 bp):
GGGAAAGCAAGAAA
Found at i:24542274 original size:13 final size:13
Alignment explanation
Indices: 24542256--24542285 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24542246 TGAAAAAATC
*
24542256 AAATATAGTGTTA
1 AAATATAGTGGTA
24542269 AAATATAGTGGTA
1 AAATATAGTGGTA
24542282 AAAT
1 AAAT
24542286 TACATTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (13 bp):
AAATATAGTGGTA
Found at i:24543968 original size:21 final size:22
Alignment explanation
Indices: 24543942--24543982 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24543932 TGCTAAGTTC
24543942 ATATTTGTGTTTA-AATTATCA
1 ATATTTGTGTTTATAATTATCA
* *
24543963 ATATTTTTTTTTATAATTAT
1 ATATTTGTGTTTATAATTAT
24543983 GATAAGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
ATATTTGTGTTTATAATTATCA
Found at i:24550764 original size:7 final size:7
Alignment explanation
Indices: 24550744--24550777 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
24550734 AAAAATGTAC
24550744 ATATAAA
1 ATATAAA
24550751 TATATAAA
1 -ATATAAA
24550759 ATATAAA
1 ATATAAA
24550766 ATATAAA
1 ATATAAA
24550773 ATATA
1 ATATA
24550778 CGTACATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATAAA
Found at i:24550774 original size:23 final size:24
Alignment explanation
Indices: 24550721--24550777 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
24550711 ATATTGAAGT
* *
24550721 TATAAAATATATAAAAAATGTACA
1 TATAAAATATATAAAAAATGAAAA
*
24550745 TAT-AAATATATAAAATAT-AAAA
1 TATAAAATATATAAAAAATGAAAA
24550767 TATAAAATATA
1 TATAAAATATA
24550778 CGTACATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.17
23 21 0.72
24 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
TATAAAATATATAAAAAATGAAAA
Found at i:24551902 original size:114 final size:115
Alignment explanation
Indices: 24551699--24551934 Score: 339
Period size: 114 Copynumber: 2.1 Consensus size: 115
24551689 CTCATTCCAG
* * * * *
24551699 TCCACTGTGTCTCATTGCTTCTATCCACTCTACTGCACTTCAGAGAGATATGAGTTGTAGCTTTA
1 TCCACTGTGTCTCATTGCTTCAATCCACTCTACTGCACTTCAGAAAGATATGACTTGTAACTTCA
* *
24551764 ATCTTCTTCGCAGCAACTTCAGGGGGA-AAGATTTATGGTTTTAGTCTAC
66 AACTTCTTCGCAACAACTTCAGGGGGACAAGATTTATGGTTTTAGTCTAC
* * *
24551813 TCCACTGTGTCTCGTTGCTTCAATCCACTTTACTGCACTTCAGAAAGGTATGACTTGTAACTTCA
1 TCCACTGTGTCTCATTGCTTCAATCCACTCTACTGCACTTCAGAAAGATATGACTTGTAACTTCA
* * * *
24551878 AACTTCTTCGCAACAACTTTAGGGGGACGAGATTTGTGGTTTTAGTCTGC
66 AACTTCTTCGCAACAACTTCAGGGGGACAAGATTTATGGTTTTAGTCTAC
24551928 TCCACTG
1 TCCACTG
24551935 CAACGTCAGG
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
114 81 0.76
115 26 0.24
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (115 bp):
TCCACTGTGTCTCATTGCTTCAATCCACTCTACTGCACTTCAGAAAGATATGACTTGTAACTTCA
AACTTCTTCGCAACAACTTCAGGGGGACAAGATTTATGGTTTTAGTCTAC
Found at i:24557532 original size:69 final size:70
Alignment explanation
Indices: 24557419--24557557 Score: 217
Period size: 69 Copynumber: 2.0 Consensus size: 70
24557409 ATCTTGGATT
* * *
24557419 AAAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAA
1 AAAAAAAGGGATCATGCCCAGTAAATTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAA
24557484 ACTTG
66 ACTTG
* * *
24557489 AAAAAAA-GGATCATGCCCAGTAAATTAGGATACAATCTCTTCTTAATTCCTGAGATCGTTTAAA
1 AAAAAAAGGGATCATGCCCAGTAAATTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAA
24557553 ACTTG
66 ACTTG
24557558 GGTTTGAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 56 0.89
70 7 0.11
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (70 bp):
AAAAAAAGGGATCATGCCCAGTAAATTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAA
ACTTG
Found at i:24557980 original size:20 final size:21
Alignment explanation
Indices: 24557957--24558007 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
24557947 AAAGTATGTG
*
24557957 TATATATATAAATTATAAG-A
1 TATATATATAAAATATAAGCA
*
24557977 TATA-ATAAAAAAATATAAGCA
1 TATATAT-ATAAAATATAAGCA
*
24557998 TGTATATATA
1 TATATATATA
24558008 TTTATGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.08
20 14 0.58
21 6 0.25
22 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
TATATATATAAAATATAAGCA
Found at i:24559503 original size:22 final size:22
Alignment explanation
Indices: 24559438--24559493 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
24559428 AGAGATTTGT
24559438 AGATATATATAATAAGATATAA
1 AGATATATATAATAAGATATAA
* * *
24559460 ATAGATACATAATAAGATATAA
1 AGATATATATAATAAGATATAA
24559482 AGATATATATAA
1 AGATATATATAA
24559494 ATAGTTATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
AGATATATATAATAAGATATAA
Found at i:24561084 original size:7 final size:7
Alignment explanation
Indices: 24561064--24561097 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
24561054 AAAAATGTAC
24561064 ATATAAA
1 ATATAAA
24561071 TATATAAA
1 -ATATAAA
24561079 ATATAAA
1 ATATAAA
24561086 ATATAAA
1 ATATAAA
24561093 ATATA
1 ATATA
24561098 CGTACATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATAAA
Done.