Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 91 of 172
Found at i:26374378 original size:16 final size:16
Alignment explanation
Indices: 26374354--26374400 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
26374344 AATACAAATA
*
26374354 TTTAGTTTTATATT-TT
1 TTTAATTTTA-ATTGTT
26374370 TTTAATTTTAATTGTT
1 TTTAATTTTAATTGTT
26374386 TTTAAAATTTTAATT
1 TTT--AATTTTAATT
26374401 ACAATTCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 3 0.11
16 14 0.52
18 10 0.37
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TTTAATTTTAATTGTT
Found at i:26382317 original size:20 final size:19
Alignment explanation
Indices: 26382258--26382317 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
26382248 AACTCTTAAA
*
26382258 AAGTTGTATTTTTGAAAAC
1 AAGTTGTTTTTTTGAAAAC
*
26382277 ACAGTT-TGTTATTTG-AAAC
1 A-AGTTGT-TTTTTTGAAAAC
26382296 AAGTTGTTTTTTTAGAAAAC
1 AAGTTGTTTTTTT-GAAAAC
26382316 AA
1 AA
26382318 TCGTTGTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 9 0.27
19 9 0.27
20 15 0.45
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (19 bp):
AAGTTGTTTTTTTGAAAAC
Found at i:26382879 original size:31 final size:31
Alignment explanation
Indices: 26382820--26382880 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
26382810 CCACATATAG
* *
26382820 CCCACACGACCTACCTAACCTGCCCGTGTGT
1 CCCACACGACCTACCCAAACTGCCCGTGTGT
* * *
26382851 CCCACACGGCCTACCCAAATTGCTCGTGTG
1 CCCACACGACCTACCCAAACTGCCCGTGTG
26382881 ATCGCACATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.20, C:0.43, G:0.18, T:0.20
Consensus pattern (31 bp):
CCCACACGACCTACCCAAACTGCCCGTGTGT
Found at i:26390922 original size:18 final size:15
Alignment explanation
Indices: 26390872--26390914 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 15
26390862 TTTAATATAT
26390872 ATTATAAAATAAAAA
1 ATTATAAAATAAAAA
26390887 ATTATAAAGACTCAAAAA
1 ATTATAAA-A-T-AAAAA
26390905 ATTATAAAAT
1 ATTATAAAAT
26390915 TGAGAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 2 0.08
17 2 0.08
18 13 0.52
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (15 bp):
ATTATAAAATAAAAA
Found at i:26394920 original size:44 final size:44
Alignment explanation
Indices: 26394796--26394926 Score: 176
Period size: 44 Copynumber: 3.0 Consensus size: 44
26394786 GACTATACGC
* * *
26394796 ATAAAATGAGTAAAACCATAGCTGAAAGATGCTAT-GACGTCATG
1 ATAAAATGAGTAAGACCATATCTGAAAGATGCTATGGA-ATCATG
26394840 ATAAAATGAGTAAGACCATAGT-TGAAAGATGCTATGGAATCATG
1 ATAAAATGAGTAAGACCATA-TCTGAAAGATGCTATGGAATCATG
* * *
26394884 ATAAAATGAGTAAGACCATATCTAAAAGATGATATGGCATCAT
1 ATAAAATGAGTAAGACCATATCTGAAAGATGCTATGGAATCAT
26394927 ATGAAAGCAC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.01
44 75 0.96
45 2 0.03
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (44 bp):
ATAAAATGAGTAAGACCATATCTGAAAGATGCTATGGAATCATG
Found at i:26398446 original size:28 final size:27
Alignment explanation
Indices: 26398415--26398483 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
26398405 AGCAGCAGCG
* *
26398415 AAGACACATTAAAA-ATTGGTATTAAGCT
1 AAGACACATTAAAACA-T-GCATTAAACT
*
26398443 AAGACATATTAATAACATGCATTAAACT
1 AAGACACATTAA-AACATGCATTAAACT
26398471 AAGACACATTAAA
1 AAGACACATTAAA
26398484 CACTACAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.03
28 30 0.86
29 3 0.09
30 1 0.03
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (27 bp):
AAGACACATTAAAACATGCATTAAACT
Found at i:26400887 original size:18 final size:18
Alignment explanation
Indices: 26400866--26400972 Score: 85
Period size: 18 Copynumber: 5.8 Consensus size: 18
26400856 TTCAATTTGC
26400866 TTTTCTTTCTCACA-CTCT
1 TTTTCTTTCTCA-ATCTCT
*
26400884 TTTTCTTTTTCAATCTCGT
1 TTTTCTTTCTCAATCTC-T
* *
26400903 TTTGCTTTCTCTCACTCTCT
1 TTTTC-TT-TCTCAATCTCT
* *
26400923 TTTTCTTTTTCAATTTCT
1 TTTTCTTTCTCAATCTCT
*
26400941 TTTTCTTTCATC--TCTTT
1 TTTTCTTTC-TCAATCTCT
26400958 TTTTCTTCTCTCAAT
1 TTTTCTT-TCTCAAT
26400973 TTTGTTTAGG
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
17 13 0.19
18 32 0.46
19 10 0.14
20 7 0.10
21 8 0.11
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTCTTTCTCAATCTCT
Found at i:26400925 original size:39 final size:39
Alignment explanation
Indices: 26400873--26400954 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
26400863 TGCTTTTCTT
26400873 TCTCACACTCTTTTTCTTTTTCAATCTCGTTTTGCTTTC-
1 TCTCACACTCTTTTTCTTTTTCAATCTC-TTTTGCTTTCA
* * *
26400912 TCTCACTCTCTTTTTCTTTTTCAATTTCTTTTTCTTTCA
1 TCTCACACTCTTTTTCTTTTTCAATCTCTTTTGCTTTCA
26400951 TCTC
1 TCTC
26400955 TTTTTTTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
38 9 0.23
39 30 0.77
ACGTcount: A:0.10, C:0.28, G:0.02, T:0.60
Consensus pattern (39 bp):
TCTCACACTCTTTTTCTTTTTCAATCTCTTTTGCTTTCA
Found at i:26402961 original size:11 final size:11
Alignment explanation
Indices: 26402945--26402978 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
26402935 AGAACGTCCT
26402945 TTGAAGCTTCC
1 TTGAAGCTTCC
*
26402956 TTGAAGGTTCC
1 TTGAAGCTTCC
*
26402967 TTGAAGTTTCC
1 TTGAAGCTTCC
26402978 T
1 T
26402979 AGCATGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (11 bp):
TTGAAGCTTCC
Found at i:26405368 original size:27 final size:27
Alignment explanation
Indices: 26405331--26405395 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
26405321 AAAAATTATA
26405331 ATATATATATGT-ACA-TATAAGAAAAAT
1 ATATATATATGTGA-ATTATAA-AAAAAT
*
26405358 ATATATGTATGTGAATTATAAAAAAAT
1 ATATATATATGTGAATTATAAAAAAAT
*
26405385 AAAATATATAT
1 -ATATATATAT
26405396 AAATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (27 bp):
ATATATATATGTGAATTATAAAAAAAT
Found at i:26406124 original size:21 final size:20
Alignment explanation
Indices: 26406098--26406171 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 20
26406088 AATCATATCT
*
26406098 TCTAAGATTGCATTTATCAAA
1 TCTAAGATTGCA-TTATCATA
26406119 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCAT-TATCATA
*
26406140 TCTAAGATTACA-TATCATA
1 TCTAAGATTGCATTATCATA
26406159 TCTAAGATTGCAT
1 TCTAAGATTGCAT
26406172 ATCCTTGAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.38
20 1 0.02
21 29 0.60
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCATTATCATA
Found at i:26406156 original size:19 final size:19
Alignment explanation
Indices: 26406098--26406174 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
26406088 AATCATATCT
* *
26406098 TCTAAGATTGCATTTATCAAA
1 TCTAAGATTACA--TATCATA
*
26406119 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
26406140 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
26406159 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
26406175 CTTGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 24 0.49
21 24 0.49
23 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:26409304 original size:14 final size:15
Alignment explanation
Indices: 26409262--26409308 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
26409252 TATTTGCATG
26409262 TTTAAGGCTTAGGG-
1 TTTAAGGCTTAGGGT
* *
26409276 TTTAGGTGTTTAGGGT
1 TTTAAG-GCTTAGGGT
26409292 TTTAAGG-TTAGGGT
1 TTTAAGGCTTAGGGT
26409306 TTT
1 TTT
26409309 TGTTAAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 15 0.54
15 8 0.29
16 5 0.18
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.47
Consensus pattern (15 bp):
TTTAAGGCTTAGGGT
Found at i:26409394 original size:28 final size:27
Alignment explanation
Indices: 26409341--26409482 Score: 140
Period size: 28 Copynumber: 4.9 Consensus size: 27
26409331 ATTTGTTTAG
*
26409341 GGTTTATGATTTTGGAGAAAATAAATTAA
1 GGTTTATGATTTT--AAAAAATAAATTAA
*
26409370 GGTTTATGAATTTTAAAAAATAAATTAG
1 GGTTTATG-ATTTTAAAAAATAAATTAA
*
26409398 GGTTTATGGTTTTAAAAAATAAATTAAATTA
1 GGTTTATGATTTTAAAAAATAAATT--A--A
* *
26409429 GGGTTTATGTTTTTAAAAAATAAATTAC
1 -GGTTTATGATTTTAAAAAATAAATTAA
* *
26409457 GGTTTAGGGATTTTTAAAAATAAATT
1 GGTTTA-TGATTTTAAAAAATAAATT
26409483 TGTGTTTAGG
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
27 22 0.23
28 36 0.37
29 9 0.09
30 6 0.06
32 24 0.25
ACGTcount: A:0.42, C:0.01, G:0.16, T:0.41
Consensus pattern (27 bp):
GGTTTATGATTTTAAAAAATAAATTAA
Found at i:26409431 original size:32 final size:32
Alignment explanation
Indices: 26409390--26409455 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
26409380 TTTTAAAAAA
26409390 TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
1 TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
*
26409422 TAAATTAGGGTTTATGTTTTTAAAAAATAAAT
1 TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
26409454 TA
1 TA
26409456 CGGTTTAGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (32 bp):
TAAATTAGGGTTTATGGTTTTAAAAAATAAAT
Found at i:26409434 original size:60 final size:60
Alignment explanation
Indices: 26409362--26409482 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
26409352 TTGGAGAAAA
* *
26409362 TAAATTAAGGTTTATGAATTTTAAAAAATAAATTAGGGTTTATGG-TTTTAAAAAATAAAT
1 TAAATTAAGGTTTATG-ATTTTAAAAAATAAATTACGGTTTAGGGATTTTAAAAAATAAAT
* * *
26409422 TAAATTAGGGTTTATGTTTTTAAAAAATAAATTACGGTTTAGGGATTTTTAAAAATAAAT
1 TAAATTAAGGTTTATGATTTTAAAAAATAAATTACGGTTTAGGGATTTTAAAAAATAAAT
26409482 T
1 T
26409483 TGTGTTTAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 25 0.45
60 30 0.55
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (60 bp):
TAAATTAAGGTTTATGATTTTAAAAAATAAATTACGGTTTAGGGATTTTAAAAAATAAAT
Found at i:26409490 original size:87 final size:90
Alignment explanation
Indices: 26409337--26409499 Score: 224
Period size: 87 Copynumber: 1.8 Consensus size: 90
26409327 TTTTATTTGT
* *
26409337 TTAGGGTTTATGATTTTGGAGAAAATAAATTAAGGTTTATGAATTTTAAAAAATAAATTAGGGTT
1 TTAGGGTTTATGATTTTGGAAAAAATAAATTAAGGTTTAGGAATTTTAAAAAATAAATTAGGGTT
*
26409402 TA-TGGTTTTAAAAAATAAATTAAA
66 TAGGGGTTTTAAAAAATAAATTAAA
* * * * * *
26409426 TTAGGGTTTATG-TTTT-TAAAAAATAAATTACGGTTTAGGGATTTTTAAAAATAAATTTGTGTT
1 TTAGGGTTTATGATTTTGGAAAAAATAAATTAAGGTTTAGGAATTTTAAAAAATAAATTAGGGTT
26409489 TAGGGGTTTTA
66 TAGGGGTTTTA
26409500 GGGTTTTAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 41 0.64
88 11 0.17
89 12 0.19
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (90 bp):
TTAGGGTTTATGATTTTGGAAAAAATAAATTAAGGTTTAGGAATTTTAAAAAATAAATTAGGGTT
TAGGGGTTTTAAAAAATAAATTAAA
Found at i:26409498 original size:28 final size:29
Alignment explanation
Indices: 26409358--26409498 Score: 96
Period size: 28 Copynumber: 4.9 Consensus size: 29
26409348 GATTTTGGAG
* * **
26409358 AAAATAAATTAAGGTTTA-TGAATTTTAA
1 AAAATAAATTACGGTTTAGGGGTTTTTAA
* * *
26409386 AAAATAAATTAGGGTTTA-TGGTTTTAAAAA
1 AAAATAAATTACGGTTTAGGGGTTTT--TAA
* *
26409416 ATAAATTAAATTAGGGTTTA--TGTTTTTAA
1 A-AAA-TAAATTACGGTTTAGGGGTTTTTAA
*
26409445 AAAATAAATTACGGTTTAGGGATTTTT-A
1 AAAATAAATTACGGTTTAGGGGTTTTTAA
*
26409473 AAAATAAATT-TGTGTTTAGGGGTTTT
1 AAAATAAATTACG-GTTTAGGGGTTTT
26409499 AGGGTTTTAG
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
27 14 0.15
28 48 0.51
29 8 0.08
30 3 0.03
31 8 0.08
32 14 0.15
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (29 bp):
AAAATAAATTACGGTTTAGGGGTTTTTAA
Found at i:26409808 original size:126 final size:125
Alignment explanation
Indices: 26409578--26410002 Score: 573
Period size: 126 Copynumber: 3.4 Consensus size: 125
26409568 TTTTTGTTCA
* * * * *
26409578 GTCAACAAAAGTACTAAAAAAAGCTCCCA-GTTGGACACTATTTTTCTACCATAGTTTCTAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACG-TAGACACTCTTTTTCTACAATAGTTTCT-AAAA
26409642 AATAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
64 AATAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
* * *
26409704 GTTAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACGCTCTTTTTCTACAATAGTTTTTGAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACACTCTTTTTCTACAATAGTTTCT-AAAAA
* * * *
26409769 ATAATTTTGAGAAGATGATTCTGAAAAAACAGGGTAAAAAACGTTTCAAGCAAGATGCATT
65 ATAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
* * * ** * * *
26409830 GTCAGCAAAAGTACTGAAAAAAGCTCTCACTTGGATGCTCTTTTTCTATAGTAGTATCTAAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACACTCTTTTTCTACAATAGTTTCTAAAAAA
* * * * *
26409895 TGATTTAGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAATCCTTCAAGCAGGATGCACT
66 TAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
* *
26409955 GTCAGCAAAAGTACTGAAAAAAGCTTCCACCTAGACACTCTTTTTCTA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACACTCTTTTTCTA
26410003 TAGTACATCC
Statistics
Matches: 261, Mismatches: 37, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
125 99 0.38
126 161 0.62
127 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (125 bp):
GTCAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACACTCTTTTTCTACAATAGTTTCTAAAAAA
TAATTTTGAGAAGATGATTCTGAAAAAATAGGGTAAAAAATGCTTCAAGCAAGATGCACT
Found at i:26410120 original size:25 final size:25
Alignment explanation
Indices: 26410084--26410146 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
26410074 GAGAAACTAG
26410084 AGAAGTTCAGAAGAATAAAAATTGA
1 AGAAGTTCAGAAGAATAAAAATTGA
* * *
26410109 AGAAGTTTAGAAGAATATAAATTTA
1 AGAAGTTCAGAAGAATAAAAATTGA
*
26410134 AGAAGTTGAGAAG
1 AGAAGTTCAGAAG
26410147 GTATAAGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.24
Consensus pattern (25 bp):
AGAAGTTCAGAAGAATAAAAATTGA
Found at i:26413315 original size:61 final size:60
Alignment explanation
Indices: 26413165--26413344 Score: 233
Period size: 62 Copynumber: 3.0 Consensus size: 60
26413155 TCTATTGCCT
* * * *
26413165 TATTCAAAAGAACTTTTATTTTATTAAGTAGGACAAAATATAAAAATAATTTATTATTAAAA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTT-GTA-CAAAA
* *
26413227 TATTCAAAATAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAATA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAA-A
*
26413288 TATTCAAAACAACTTTTATTTTATTAAAT--GA-AACAATA-AAAAATAGTTTGTACAAAA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAA-AATATAAAAATAATTTGTACAAAA
26413345 AAATTAAAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
57 1 0.01
58 19 0.18
59 6 0.06
60 3 0.03
61 30 0.28
62 49 0.45
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.37
Consensus pattern (60 bp):
TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAAA
Found at i:26416186 original size:12 final size:12
Alignment explanation
Indices: 26416169--26416201 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
26416159 CGGCCCGACC
26416169 ATATTAATTTTT
1 ATATTAATTTTT
26416181 ATATT-ATTTTT
1 ATATTAATTTTT
26416192 ATA-TAATTTT
1 ATATTAATTTT
26416202 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:26416356 original size:30 final size:30
Alignment explanation
Indices: 26416322--26416385 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
26416312 ACTTAATAAG
*
26416322 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
26416352 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
26416382 -AAAT
1 CAAAT
26416386 AAAATAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:26416432 original size:14 final size:14
Alignment explanation
Indices: 26416409--26416445 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26416399 TACAATATCC
*
26416409 AAATAATAACAACA
1 AAATAGTAACAACA
26416423 AAATAGTAACAACA
1 AAATAGTAACAACA
*
26416437 TAATAGTAA
1 AAATAGTAA
26416446 AATTATAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:26419522 original size:16 final size:16
Alignment explanation
Indices: 26419483--26419527 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
26419473 TTGAAATATT
*
26419483 ATAGAGTTGTAATGTA
1 ATAGAGTTGTAATGGA
*
26419499 AT-GAAGTTTTAATGGA
1 ATAG-AGTTGTAATGGA
26419515 ATAGAGTTGTAAT
1 ATAGAGTTGTAAT
26419528 TAGTAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (16 bp):
ATAGAGTTGTAATGGA
Found at i:26419742 original size:26 final size:28
Alignment explanation
Indices: 26419705--26419756 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
26419695 TATATTGAAC
*
26419705 TTTAATAGTATTGTT-AT-TAAATATAA
1 TTTAATAATATTGTTAATATAAATATAA
*
26419731 TTTAATAATATTTTTAATATAAATAT
1 TTTAATAATATTGTTAATATAAATAT
26419757 TTTTATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 2 0.09
28 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (28 bp):
TTTAATAATATTGTTAATATAAATATAA
Found at i:26419767 original size:43 final size:43
Alignment explanation
Indices: 26419719--26419801 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
26419709 ATAGTATTGT
*
26419719 TATTAAATATAATTTAATAATATTTTTAATA-T-AAATATTTTTA
1 TATTAAAT-TAATTTAA-AAGATTTTTAATATTAAAATATTTTTA
* *
26419762 TATTAAATTATTTTAAAAGATTTTTTATATTAAAATATTT
1 TATTAAATTAATTTAAAAGATTTTTAATATTAAAATATTT
26419802 AACATATTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 11 0.31
42 8 0.23
43 16 0.46
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (43 bp):
TATTAAATTAATTTAAAAGATTTTTAATATTAAAATATTTTTA
Found at i:26419773 original size:16 final size:15
Alignment explanation
Indices: 26419737--26419775 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
26419727 ATAATTTAAT
26419737 AATATTTTTAATATA
1 AATATTTTTAATATA
26419752 AATATTTTT-ATATTA
1 AATATTTTTAATA-TA
26419767 AATTATTTT
1 AA-TATTTT
26419776 AAAAGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.59
16 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATATTTTTAATATA
Found at i:26419867 original size:34 final size:34
Alignment explanation
Indices: 26419827--26419891 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
26419817 AATTAATTTA
*
26419827 ATATTTTAAATTAAATTATAATAAAATATTTAAC
1 ATATTTTAAATTAAATTATAATAAAAGATTTAAC
* *
26419861 ATATTTTATATTAAATTATATTAAAAGATTT
1 ATATTTTAAATTAAATTATAATAAAAGATTT
26419892 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (34 bp):
ATATTTTAAATTAAATTATAATAAAAGATTTAAC
Found at i:26421845 original size:12 final size:12
Alignment explanation
Indices: 26421828--26421857 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
26421818 ATAGGCATAG
26421828 CCTTTGCGCTTA
1 CCTTTGCGCTTA
26421840 CCTTTGCGCTTA
1 CCTTTGCGCTTA
26421852 CACTTT
1 C-CTTT
26421858 AAGCTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.10, C:0.33, G:0.13, T:0.43
Consensus pattern (12 bp):
CCTTTGCGCTTA
Found at i:26427368 original size:53 final size:53
Alignment explanation
Indices: 26427308--26427413 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
26427298 TGTTGTGCAC
*
26427308 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATTAGAAAATCT
1 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
26427361 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
1 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
26427414 TGGTTTAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (53 bp):
ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
Found at i:26428621 original size:22 final size:22
Alignment explanation
Indices: 26428593--26428634 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
26428583 TAGCGAACAA
26428593 ATATATA-AAAAT-AAATAAAT
1 ATATATATAAAATAAAATAAAT
26428613 ATATATATAAAATAAAATAAAT
1 ATATATATAAAATAAAATAAAT
26428635 TGAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
ATATATATAAAATAAAATAAAT
Found at i:26432181 original size:13 final size:15
Alignment explanation
Indices: 26432147--26432183 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
26432137 TAATTATCAC
26432147 TTAATTAATATTATAG
1 TTAATT-ATATTATAG
26432163 TTAATTATATTA-A-
1 TTAATTATATTATAG
26432176 TTAATTAT
1 TTAATTAT
26432184 TACTTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 6 0.29
16 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTAATTATATTATAG
Found at i:26435476 original size:15 final size:15
Alignment explanation
Indices: 26435456--26435507 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
26435446 GTTACAAAAC
26435456 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
26435471 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
26435490 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
26435505 ATT
1 ATT
26435508 AATATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:26435493 original size:19 final size:20
Alignment explanation
Indices: 26435469--26435515 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
26435459 TATTATTAAT
*
26435469 ATATTTATAATTATAATA-A
1 ATATTTATAATTAAAATATA
*
26435488 ATATTTATTATTAAAATATTA
1 ATATTTATAATTAAAATA-TA
26435509 ATATTTA
1 ATATTTA
26435516 ATATTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
21 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTATAATTAAAATATA
Found at i:26435571 original size:16 final size:16
Alignment explanation
Indices: 26435540--26435576 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
26435530 ATGTGAATAA
26435540 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
26435556 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
26435572 TATTA
1 TATTA
26435577 AATGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:26441560 original size:21 final size:21
Alignment explanation
Indices: 26441521--26441560 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26441511 ATGTTAGTAT
** *
26441521 TTTTTAATTATTGTGTTTTAA
1 TTTTTAATTAAAGTATTTTAA
26441542 TTTTTAATTAAAGTATTTT
1 TTTTTAATTAAAGTATTTT
26441561 TTGTGTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTTAATTAAAGTATTTTAA
Found at i:26450876 original size:20 final size:19
Alignment explanation
Indices: 26450850--26450924 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 19
26450840 TGTATGGGAT
26450850 TTGCACTTCGGTGCCTCTG
1 TTGCACTTCGGTGCCTCTG
26450869 TATGCACTTCGGTGCCTCTG
1 T-TGCACTTCGGTGCCTCTG
*
26450889 TGTACACTTCGGTGTCC-CTG
1 T-TGCACTTCGGTG-CCTCTG
*
26450909 TTCGCACTACGGTGCC
1 TT-GCACTTCGGTGCC
26450925 CCTATTTGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.08
20 43 0.88
21 2 0.04
ACGTcount: A:0.09, C:0.32, G:0.25, T:0.33
Consensus pattern (19 bp):
TTGCACTTCGGTGCCTCTG
Found at i:26452029 original size:36 final size:36
Alignment explanation
Indices: 26451982--26452061 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
26451972 TATAAGTTTT
26451982 GAAAGTTATGTTGGTTTGGTACATTTTGATGCCTTGC
1 GAAA-TTATGTTGGTTTGGTACATTTTGATGCCTTGC
26452019 GAAATTATGTTGGTTTGGTACATTTTGATGCCTTGC
1 GAAATTATGTTGGTTTGGTACATTTTGATGCCTTGC
26452055 GAAATTA
1 GAAATTA
26452062 GGTCGTTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 39 0.91
37 4 0.09
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (36 bp):
GAAATTATGTTGGTTTGGTACATTTTGATGCCTTGC
Found at i:26454994 original size:20 final size:18
Alignment explanation
Indices: 26454969--26455005 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
26454959 ACCTAACACA
26454969 AATTAAATTTAAATCATATT
1 AATTAAA-TTAAA-CATATT
26454989 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
26455006 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:26475029 original size:9 final size:9
Alignment explanation
Indices: 26475017--26475053 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
26475007 GTTATTTAGG
26475017 TTAATTAAT
1 TTAATTAAT
26475026 TTAATTAAT
1 TTAATTAAT
26475035 TTAATTAAT
1 TTAATTAAT
*
26475044 AT-ATTAAT
1 TTAATTAAT
26475052 TT
1 TT
26475054 TTATCAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATTAAT
Found at i:26476148 original size:31 final size:31
Alignment explanation
Indices: 26476110--26476179 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
26476100 AGAGTCAAGT
*
26476110 CTAAAATT-TCAAAATTCAAAAAGTACAGAGA
1 CTAAAATTGACAAAATT-AAAAAGTACAGAGA
* * * *
26476141 CTAAAATTGACCAACTTTAAAAGTACAGTGA
1 CTAAAATTGACAAAATTAAAAAGTACAGAGA
26476172 CTAAAATT
1 CTAAAATT
26476180 AATCAAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 28 0.85
32 5 0.15
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (31 bp):
CTAAAATTGACAAAATTAAAAAGTACAGAGA
Found at i:26476201 original size:29 final size:31
Alignment explanation
Indices: 26476128--26476205 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
26476118 TCAAAATTCA
* *
26476128 AAAAGTACAGA-GACTAAAATTGACCAACTTT
1 AAAAGTACA-ATGACTAAAATTAACCAACATT
* *
26476159 AAAAGTACAGTGACTAAAATTAATCAA-ATT
1 AAAAGTACAATGACTAAAATTAACCAACATT
26476189 -AAAGTACAATGACTAAA
1 AAAAGTACAATGACTAAA
26476206 CCCACAACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.39
30 2 0.05
31 23 0.56
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.23
Consensus pattern (31 bp):
AAAAGTACAATGACTAAAATTAACCAACATT
Found at i:26477850 original size:21 final size:22
Alignment explanation
Indices: 26477824--26477871 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
26477814 TTTTCGTGTT
26477824 AATTATTTTTTAAG-AAAAATA
1 AATTATTTTTTAAGAAAAAATA
26477845 AATTATTTTTTAAGAAAAAATA
1 AATTATTTTTTAAGAAAAAATA
26477867 AATTA
1 AATTA
26477872 AAGTAGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AATTATTTTTTAAGAAAAAATA
Found at i:26478169 original size:76 final size:77
Alignment explanation
Indices: 26478079--26478230 Score: 227
Period size: 77 Copynumber: 2.0 Consensus size: 77
26478069 CTTGTTATTA
* * * *
26478079 AAATTATATCAAATTA-T-ATTTTTCTGTACCAATCAAAATATTTTGTAAAATCTAACATTTTTT
1 AAATTATATCAAATTATTAATTGTT-AGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGT
26478142 TAGTAAAATTATC
65 TAGTAAAATTATC
*
26478155 AAATTATATCAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTATTAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
*
26478220 AGTCAAATTAT
66 AGTAAAATTAT
26478231 TAATTGTTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
76 16 0.24
77 47 0.69
78 5 0.07
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (77 bp):
AAATTATATCAAATTATTAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
AGTAAAATTATC
Found at i:26478269 original size:77 final size:77
Alignment explanation
Indices: 26478109--26478261 Score: 186
Period size: 77 Copynumber: 2.0 Consensus size: 77
26478099 TTTCTGTACC
* *
26478109 AATCAAAATATTTTGTAAAATCTAACATTTTTTTAGTAAAATTATCAAATTATATCAAATTATTA
1 AATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATCAAATTATATCAAATTATTA
* **
26478174 ATTGTTAGTACC
66 AATGTTAGTAAA
* * * * *
26478186 AGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTCAAATTAT-TAATTGT-T-AATTGTATT
1 AATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATCAAATTATATCAAAT-TATT
26478248 AAATGTTAGTAAA
65 AAATGTTAGTAAA
26478261 A
1 A
26478262 TTATCAAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
74 3 0.05
75 16 0.25
76 5 0.08
77 41 0.63
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (77 bp):
AATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATCAAATTATATCAAATTATTA
AATGTTAGTAAA
Found at i:26478343 original size:15 final size:15
Alignment explanation
Indices: 26478323--26478355 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26478313 GGGTTTTGGT
26478323 GTTTTTAAGTTAAAG
1 GTTTTTAAGTTAAAG
*
26478338 GTTTTTAAGTTAATG
1 GTTTTTAAGTTAAAG
26478353 GTT
1 GTT
26478356 AGGGTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
GTTTTTAAGTTAAAG
Found at i:26478363 original size:6 final size:6
Alignment explanation
Indices: 26478352--26478433 Score: 67
Period size: 6 Copynumber: 12.7 Consensus size: 6
26478342 TTAAGTTAAT
*
26478352 GGTTAG GGTTAG GGTTAG GGTTTTAAG GGTTAG GGTTAT GGTTAG GGTTTTTA-
1 GGTTAG GGTTAG GGTTAG GG--TT-AG GGTTAG GGTTAG GGTTAG GG---TTAG
* *
26478405 AGTTAAG GGTTAA GGTTAG GGTTAG GGTT
1 GGTT-AG GGTTAG GGTTAG GGTTAG GGTT
26478434 TTTGTTAGGG
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 2 0.03
6 45 0.73
7 5 0.08
8 3 0.05
9 7 0.11
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (6 bp):
GGTTAG
Found at i:26478377 original size:27 final size:26
Alignment explanation
Indices: 26478347--26478427 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 26
26478337 GGTTTTTAAG
*
26478347 TTAATGGTTAGGGTTAGGGTTAGGGTT
1 TTAA-GGTTAGGGTTAAGGTTAGGGTT
*
26478374 TTAAGGGTTAGGGTTATGGTTAGGGTTT
1 TTAA-GGTTAGGGTTAAGGTTAGGG-TT
26478402 TTAA-GTTAAGGGTTAAGGTTAGGGTT
1 TTAAGGTT-AGGGTTAAGGTTAGGGTT
26478428 AGGGTTTTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 5 0.10
27 38 0.78
28 6 0.12
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (26 bp):
TTAAGGTTAGGGTTAAGGTTAGGGTT
Found at i:26478389 original size:33 final size:32
Alignment explanation
Indices: 26478340--26478617 Score: 181
Period size: 33 Copynumber: 9.1 Consensus size: 32
26478330 AGTTAAAGGT
* *
26478340 TTTTAAGTTAATGGTTAGGGTTAGGGTTAGGG
1 TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
* *
26478372 --TT---TTAAGGGTTAGGGTTATGGTTAGGG
1 TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
26478399 TTTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
1 -TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
*
26478432 TTTT-TGTT-AGGGTT----TT--GG-T---G
1 TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
26478452 TTTTGAAGTTAAGGGTTTTTAA-GTTAAGGGTTAGGG
1 TTTT-AAGTTAAGGG---TTAAGGTT-AGGGTTAGGG
*
26478488 TTTTTAAGTTAAGGGTTAAGGTTATGGTTAGGG
1 -TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
26478521 TTTTTAAGTTAAGGGTT-A-G--A--GTTAGGG
1 -TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
* * * *
26478548 TTTTTAAATTAAGTGTTAAGGCTATGGTTAGGG
1 -TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
* * *
26478581 TTTTAAAGTTAAGGGTTAAAGCTAGGGCTAGGG
1 TTTT-AAGTTAAGGGTTAAGGTTAGGGTTAGGG
26478614 TTTT
1 TTTT
26478618 TGTTAGGGTT
Statistics
Matches: 201, Mismatches: 14, Indels: 61
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.02
22 3 0.01
23 5 0.02
24 2 0.01
26 4 0.02
27 45 0.22
28 1 0.00
29 4 0.02
30 10 0.05
31 5 0.02
32 11 0.05
33 88 0.44
34 3 0.01
36 11 0.05
37 4 0.02
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (32 bp):
TTTTAAGTTAAGGGTTAAGGTTAGGGTTAGGG
Found at i:26478416 original size:60 final size:60
Alignment explanation
Indices: 26478337--26478665 Score: 249
Period size: 60 Copynumber: 5.6 Consensus size: 60
26478327 TTAAGTTAAA
* * *
26478337 GGTTTTTAAGTTAATGGTTAGGGTTAGGGTTAGGGTTTTAAGGGTTAGGGTTATGGTTAG
1 GGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTAGGGTTTTAAGTGTTAGGGTTATGGTTAG
*
26478397 GGTTTTTAAGTTAAGGGTTA-AGGTTAGGGTTAGGGTTTT---TGTTAGGGTTTTGG-T--
1 GGTTTTTAAGTTAAGGGTTAGA-GTTAGGGTTAGGGTTTTAAGTGTTAGGGTTATGGTTAG
* *
26478451 -GTTTTGAAGTTAAGGGTTTTTA-AGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTTATG
1 GGTTTTTAAGTTAAGGG---TTAGAGTT-AGGGTTAGGG-TTTTAAG-T----GTTAGGGTTATG
26478514 GTTAG
56 GTTAG
****** * *
26478519 GGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTTTTAAATTAAGTGTTAAGGCTATGGTTAG
1 GGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTAGGGTTTTAAGTGTTAGGGTTATGGTTAG
* * * * *
26478579 GGTTTTAAAGTTAAGGGTTAAAGCTAGGGCTAGGGTTTT---TGTTAGGGTT-TTGTTA-
1 GGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTAGGGTTTTAAGTGTTAGGGTTATGGTTAG
* * *
26478634 --TTTTTAAGTTAAGAGTTAGGGTTATGGTTAGG
1 GGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTAGG
26478666 ATTAGGGTTT
Statistics
Matches: 215, Mismatches: 35, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
53 40 0.19
55 3 0.01
56 20 0.09
57 24 0.11
60 81 0.38
61 1 0.00
64 1 0.00
65 16 0.07
66 10 0.05
67 4 0.02
69 15 0.07
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (60 bp):
GGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTAGGGTTTTAAGTGTTAGGGTTATGGTTAG
Found at i:26478489 original size:21 final size:21
Alignment explanation
Indices: 26478463--26478510 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
26478453 TTTGAAGTTA
26478463 AGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTT
26478484 AGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTT
*
26478505 AAGGTT
1 AGGGTT
26478511 ATGGTTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (21 bp):
AGGGTTTTTAAGTTAAGGGTT
Found at i:26478502 original size:15 final size:15
Alignment explanation
Indices: 26478451--26478483 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26478441 GGGTTTTGGT
26478451 GTTTTGAAGTTAAGG
1 GTTTTGAAGTTAAGG
*
26478466 GTTTTTAAGTTAAGG
1 GTTTTGAAGTTAAGG
26478481 GTT
1 GTT
26478484 AGGGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (15 bp):
GTTTTGAAGTTAAGG
Found at i:26478965 original size:21 final size:20
Alignment explanation
Indices: 26478932--26478986 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
26478922 AGCTTTTGGT
* *
26478932 CGGGGTTGTGGTTGCTCCGG
1 CGGGGTTCTGGTTCCTCCGG
26478952 CGGGGATTCTGGTTCCTCCGG
1 CGGGG-TTCTGGTTCCTCCGG
**
26478973 TAGGGTATCTGGTT
1 CGGGGT-TCTGGTT
26478987 GTCAGTGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.05, C:0.20, G:0.42, T:0.33
Consensus pattern (20 bp):
CGGGGTTCTGGTTCCTCCGG
Found at i:26479269 original size:18 final size:18
Alignment explanation
Indices: 26479228--26479270 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
26479218 GATTGGGAAA
* * *
26479228 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
26479246 AAGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
26479264 AGGATAC
1 AGGATAC
26479271 GCACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:26481145 original size:11 final size:12
Alignment explanation
Indices: 26481131--26481193 Score: 59
Period size: 11 Copynumber: 5.7 Consensus size: 12
26481121 TTAAATATGG
26481131 ATTTGAGA-GAA
1 ATTTGAGAGGAA
26481142 ATTTG-GAAGGAA
1 ATTTGAG-AGGAA
26481154 A-TTGAGA--ACA
1 ATTTGAGAGGA-A
26481164 ATTTGAGAGGAA
1 ATTTGAGAGGAA
26481176 A-TTGAGAGGAA
1 ATTTGAGAGGAA
26481187 A-TTGAGA
1 ATTTGAGA
26481194 AAATAATTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
9 1 0.02
10 3 0.07
11 33 0.73
12 7 0.16
13 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:26481158 original size:22 final size:22
Alignment explanation
Indices: 26481133--26481193 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
26481123 AAATATGGAT
26481133 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
26481155 TTGAGA-ACAATTTGAGAGGAAA
1 TTGAGAGA-AATTTGAGAGGAAA
26481177 TTGAGAGGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
26481194 AAATAATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.03
22 30 0.86
23 3 0.09
24 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:26481168 original size:33 final size:33
Alignment explanation
Indices: 26481131--26481194 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
26481121 TTAAATATGG
26481131 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAACA
1 ATTTGAGAGGAAA-TTGAG-AGGAAATTGAGAACA
26481164 ATTTGAGAGGAAATTGAGAGGAAATTGAGAA
1 ATTTGAGAGGAAATTGAGAGGAAATTGAGAA
26481195 AATAATTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.30, T:0.23
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAGGAAATTGAGAACA
Found at i:26481962 original size:24 final size:25
Alignment explanation
Indices: 26481912--26481962 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
26481902 TTGATATATA
*
26481912 TTTTTTAATTTGGTAGTTAGATCTT
1 TTTTTTAATTTGGTACTTAGATCTT
26481937 TTTTTTAATTTGGTACTTA-AT-TT
1 TTTTTTAATTTGGTACTTAGATCTT
26481960 TTT
1 TTT
26481963 AGGTCCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.20
24 2 0.08
25 18 0.72
ACGTcount: A:0.20, C:0.04, G:0.12, T:0.65
Consensus pattern (25 bp):
TTTTTTAATTTGGTACTTAGATCTT
Found at i:26482337 original size:9 final size:9
Alignment explanation
Indices: 26482312--26482396 Score: 63
Period size: 9 Copynumber: 9.7 Consensus size: 9
26482302 ATTAGCAATT
26482312 AATTTTTTA
1 AATTTTTTA
*
26482321 AATATTTTA
1 AATTTTTTA
*
26482330 TATTTTTTTA
1 -AATTTTTTA
*
26482340 AGAATTTTTA
1 A-ATTTTTTA
26482350 AATTTTTTA
1 AATTTTTTA
*
26482359 AA----ATA
1 AATTTTTTA
26482364 AATTTTTTGA
1 AATTTTTT-A
*
26482374 ATTTTTTTA
1 AATTTTTTA
26482383 AA-TTTTTA
1 AATTTTTTA
26482391 AATTTT
1 AATTTT
26482397 AAACATTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.07
8 8 0.14
9 24 0.41
10 22 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
AATTTTTTA
Found at i:26482379 original size:10 final size:10
Alignment explanation
Indices: 26482314--26482389 Score: 57
Period size: 10 Copynumber: 7.4 Consensus size: 10
26482304 TAGCAATTAA
26482314 TTTTTTAAA-
1 TTTTTTAAAT
* *
26482323 TATTTTATAT
1 TTTTTTAAAT
26482333 TTTTTTAAGA-
1 TTTTTTAA-AT
*
26482343 ATTTTTAAAT
1 TTTTTTAAAT
*
26482353 TTTTTAAAAT
1 TTTTTTAAAT
*
26482363 AAATTTTTTGAAT
1 ---TTTTTTAAAT
26482376 TTTTTTAAAT
1 TTTTTTAAAT
26482386 TTTT
1 TTTT
26482390 AAATTTTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
9 8 0.16
10 34 0.67
11 1 0.02
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:26483767 original size:30 final size:30
Alignment explanation
Indices: 26483731--26483798 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 30
26483721 ACTTGTTTTA
26483731 TTGTTAATTTAGTTATTATTTTAAAGGCAT
1 TTGTTAATTTAGTTATTATTTTAAAGGCAT
* *
26483761 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTAGTTATTATTTTAAAGGCAT
26483791 TTGCTTAA
1 TTG-TTAA
26483799 GTTGTATCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.54
Consensus pattern (30 bp):
TTGTTAATTTAGTTATTATTTTAAAGGCAT
Found at i:26483885 original size:25 final size:24
Alignment explanation
Indices: 26483839--26483884 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
26483829 ACATATTTTT
26483839 TAAAATTTATTTTCAATTTTTTGG
1 TAAAATTTATTTTCAATTTTTTGG
26483863 TAAATATTTATTTT-AATTTTTT
1 TAAA-ATTTATTTTCAATTTTTT
26483885 TAGTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (24 bp):
TAAAATTTATTTTCAATTTTTTGG
Found at i:26490247 original size:17 final size:18
Alignment explanation
Indices: 26490227--26490261 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
26490217 CAAATGTTTC
26490227 CCATTTC-TCCATTTATA
1 CCATTTCATCCATTTATA
26490244 CCATTTCTATCCATTTAT
1 CCATTTC-ATCCATTTAT
26490262 GTTCATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
CCATTTCATCCATTTATA
Found at i:26491577 original size:21 final size:22
Alignment explanation
Indices: 26491533--26491585 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
26491523 ATGGGTAGAT
26491533 AGTG-TTGAGTTTCAAAAACGA
1 AGTGATTGAGTTTCAAAAACGA
*
26491554 AGT-ATTGAGTTTGAAAATAC-A
1 AGTGATTGAGTTTCAAAA-ACGA
26491575 AGTGA-TGAGTT
1 AGTGATTGAGTT
26491586 GACTTTGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (22 bp):
AGTGATTGAGTTTCAAAAACGA
Found at i:26492047 original size:21 final size:22
Alignment explanation
Indices: 26492005--26492051 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
26491995 ATGACGATGT
26492005 CAATGCAATACTTTTTCAAAAA
1 CAATGCAATACTTTTTCAAAAA
26492027 CAATGC-ATA-TTTTTCAGAAAA
1 CAATGCAATACTTTTTCA-AAAA
26492048 CAAT
1 CAAT
26492052 TCCTACCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 11 0.46
22 6 0.25
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (22 bp):
CAATGCAATACTTTTTCAAAAA
Found at i:26498020 original size:15 final size:15
Alignment explanation
Indices: 26497999--26498050 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
26497989 AGTTTCGTCA
26497999 CTATAGTTTCAGAAT
1 CTATAGTTTCAGAAT
*
26498014 TTATAGTTTTCAGAAT
1 CTATAG-TTTCAGAAT
* *
26498030 CTAGAGTTTCACAAT
1 CTATAGTTTCAGAAT
26498045 CTATAG
1 CTATAG
26498051 ACAATTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
CTATAGTTTCAGAAT
Found at i:26505628 original size:31 final size:32
Alignment explanation
Indices: 26505574--26505641 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 32
26505564 TAGTTAATGT
* *
26505574 AAAATTTTATTTTAACCTCTCTAAAAATGAAA
1 AAAATTTTAATTGAACCTCTCTAAAAATGAAA
* *
26505606 AAAATTTTAATTGAA-CTCTCTAAAAATTATA
1 AAAATTTTAATTGAACCTCTCTAAAAATGAAA
26505637 AAAAT
1 AAAAT
26505642 CTAAACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (32 bp):
AAAATTTTAATTGAACCTCTCTAAAAATGAAA
Found at i:26515513 original size:17 final size:17
Alignment explanation
Indices: 26515487--26515521 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26515477 ATTATTTTTT
26515487 AGTTATATTTTAA-TTA
1 AGTTATATTTTAAGTTA
26515503 AGTTGATATTTTAAGTTA
1 AGTT-ATATTTTAAGTTA
26515521 A
1 A
26515522 TTCATGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 9 0.53
18 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
AGTTATATTTTAAGTTA
Found at i:26519499 original size:242 final size:240
Alignment explanation
Indices: 26519076--26519557 Score: 937
Period size: 242 Copynumber: 2.0 Consensus size: 240
26519066 CACATAGGTA
26519076 GATTTTATCAAGAGTGTTCTTATAATTATAACACTTTAACATTTATGTTATGGATTTATTAAGAG
1 GATTTTATCAAGAGTGTTCTTATAATTATAACACTTTAACATTTATGTTATGGATTTATTAAGAG
26519141 TATAGTACTCATCATTTCCCTATTATTACGGGTACCTAGCACTTTTCACTCTTGAATGATATTAT
66 TATAGTACTCATCATTTCCCTATTATTACGGGTACCTAGCACTTTTCACTCTTGAATGATATTAT
26519206 ATTTCTTTTATAGTGCTAGTAGTCACATATTGATGATGTACTTTGTTTCATTGGACTCAAGACTT
131 ATTTCTTTTATAGTGCTAGTAGTCACATATTGATGATGTACTTTGTTTCATTGGACTCAAGACTT
26519271 GACGTTATATCAAGCATTGAGTTGAGTTTTCTTCATGGGTGACTC
196 GACGTTATATCAAGCATTGAGTTGAGTTTTCTTCATGGGTGACTC
26519316 GATTTTATCAAGAGTGTTCTTATAATTATAACACTTTAACATATTTATGTTATGGATTTATTAAG
1 GATTTTATCAAGAGTGTTCTTATAATTATAACACTTTAAC--ATTTATGTTATGGATTTATTAAG
*
26519381 AGTATAGTACTCATCATTTCCCTATTATTACGGGTACCTAGCACTTTTCACTCTTGGATGATATT
64 AGTATAGTACTCATCATTTCCCTATTATTACGGGTACCTAGCACTTTTCACTCTTGAATGATATT
26519446 ATATTTCTTTTATAGTGCTAGTAGTCACATATTGATGATGTACTTTGTTTCATTGGACTCAAGAC
129 ATATTTCTTTTATAGTGCTAGTAGTCACATATTGATGATGTACTTTGTTTCATTGGACTCAAGAC
26519511 TTGACGTTATATCAAGCATTGAGTTGAGTTTTCTTCATGGGTGACTC
194 TTGACGTTATATCAAGCATTGAGTTGAGTTTTCTTCATGGGTGACTC
26519558 AAATATTAAG
Statistics
Matches: 239, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
240 40 0.17
242 199 0.83
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (240 bp):
GATTTTATCAAGAGTGTTCTTATAATTATAACACTTTAACATTTATGTTATGGATTTATTAAGAG
TATAGTACTCATCATTTCCCTATTATTACGGGTACCTAGCACTTTTCACTCTTGAATGATATTAT
ATTTCTTTTATAGTGCTAGTAGTCACATATTGATGATGTACTTTGTTTCATTGGACTCAAGACTT
GACGTTATATCAAGCATTGAGTTGAGTTTTCTTCATGGGTGACTC
Found at i:26521553 original size:27 final size:27
Alignment explanation
Indices: 26521523--26521574 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
26521513 AGAGTTAGTG
26521523 GATTATTAGGCAATTATTAGGTTTCTC
1 GATTATTAGGCAATTATTAGGTTTCTC
26521550 GATTATTAGGCAATTATTAGGTTTC
1 GATTATTAGGCAATTATTAGGTTTC
26521575 ATTGTATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (27 bp):
GATTATTAGGCAATTATTAGGTTTCTC
Found at i:26524758 original size:62 final size:62
Alignment explanation
Indices: 26524672--26524805 Score: 252
Period size: 62 Copynumber: 2.2 Consensus size: 62
26524662 AAACTTCAGC
*
26524672 TAAAAAAT-ATATATATTCTCATAACATACACTGTAATAAATGTATTTATTAAATTGTCATA
1 TAAAAATTAATATATATTCTCATAACATACACTGTAATAAATGTATTTATTAAATTGTCATA
26524733 TAAAAATTAATATATATTCTCATAACATACACTGTAATAAATGTATTTATTAAATTGTCATA
1 TAAAAATTAATATATATTCTCATAACATACACTGTAATAAATGTATTTATTAAATTGTCATA
26524795 TAAAAATTAAT
1 TAAAAATTAAT
26524806 TTTTGCTTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 7 0.10
62 64 0.90
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (62 bp):
TAAAAATTAATATATATTCTCATAACATACACTGTAATAAATGTATTTATTAAATTGTCATA
Found at i:26526852 original size:167 final size:167
Alignment explanation
Indices: 26526576--26526913 Score: 667
Period size: 167 Copynumber: 2.0 Consensus size: 167
26526566 TACTTAAATG
*
26526576 TTAAAACGCCTATTGGACCGAGTTGTTAGGAATTTCGCTTTTGTAAAATCTTGATTTTTAGTATT
1 TTAAAACGCCTATTGGACCGAGTTGTTAGGAATTTCGCTTTCGTAAAATCTTGATTTTTAGTATT
26526641 GTAACTAGAGAAACTAGATACCTAAGAGGTTTTCCATTTAGAGTTTAACTCGGTTCGACTCCAAT
66 GTAACTAGAGAAACTAGATACCTAAGAGGTTTTCCATTTAGAGTTTAACTCGGTTCGACTCCAAT
26526706 ATAATAGGAGGTTAATGTGACTACTAGATACCGAGTC
131 ATAATAGGAGGTTAATGTGACTACTAGATACCGAGTC
26526743 TTAAAACGCCTATTGGACCGAGTTGTTAGGAATTTCGCTTTCGTAAAATCTTGATTTTTAGTATT
1 TTAAAACGCCTATTGGACCGAGTTGTTAGGAATTTCGCTTTCGTAAAATCTTGATTTTTAGTATT
26526808 GTAACTAGAGAAACTAGATACCTAAGAGGTTTTCCATTTAGAGTTTAACTCGGTTCGACTCCAAT
66 GTAACTAGAGAAACTAGATACCTAAGAGGTTTTCCATTTAGAGTTTAACTCGGTTCGACTCCAAT
26526873 ATAATAGGAGGTTAATGTGACTACTAGATACCGAGTC
131 ATAATAGGAGGTTAATGTGACTACTAGATACCGAGTC
26526910 TTAA
1 TTAA
26526914 GAGAAAACAA
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 170 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (167 bp):
TTAAAACGCCTATTGGACCGAGTTGTTAGGAATTTCGCTTTCGTAAAATCTTGATTTTTAGTATT
GTAACTAGAGAAACTAGATACCTAAGAGGTTTTCCATTTAGAGTTTAACTCGGTTCGACTCCAAT
ATAATAGGAGGTTAATGTGACTACTAGATACCGAGTC
Found at i:26538032 original size:12 final size:12
Alignment explanation
Indices: 26538017--26538042 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26538007 ATAAGTAAAT
26538017 AATATTAAATAA
1 AATATTAAATAA
26538029 AATATTAAATAA
1 AATATTAAATAA
26538041 AA
1 AA
26538043 CTGATTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATATTAAATAA
Found at i:26539792 original size:50 final size:50
Alignment explanation
Indices: 26539637--26539796 Score: 137
Period size: 50 Copynumber: 3.2 Consensus size: 50
26539627 CGCTGTTACG
*
26539637 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGTCGTCGTA
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTA
* ** ** * * * * * * *
26539687 GCTTCAATATGATCCACTGC-ATCGCCAGGGAAGTACA-ATGCACCATCG-C
1 GCTTCAATCTTTTTAATTGCAAT-GTCAGGGAAGCA-AGATTCGCCGTCGTA
* *
26539736 GACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTA
1 G-CTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTA
26539787 GCTTCAATCT
1 GCTTCAATCT
26539797 GTTCCTCTGT
Statistics
Matches: 77, Mismatches: 27, Indels: 12
0.66 0.23 0.10
Matches are distributed among these distances:
49 4 0.05
50 69 0.90
51 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTA
Found at i:26540074 original size:43 final size:43
Alignment explanation
Indices: 26539873--26540177 Score: 283
Period size: 43 Copynumber: 7.0 Consensus size: 43
26539863 AGATCTATTT
* * * *
26539873 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
1 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCA
* * *
26539917 TCTTCGATCCACTTCCTACCAATATAAGAAGACAGGACCTGCTA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGC-A
* * * * * * *
26539961 TCTTCAATCTACTTTACTGCCAACACAGGAAGACAAGATCTGCTT
1 TCTTCGATCCAC-TTCCTACCAATATAGGAAGACAAGATCTGC-A
* * *
26540006 TCTTCGATCTACTCTGCC-ACCAATATGGGAA-AGCAAGATCTACA
1 TCTTCGATCCACT-T-CCTACCAATATAGGAAGA-CAAGATCTGCA
*
26540050 TCTTCGATCCACTTCCTACCAATATAAGAAGACAAGATCTGCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCA
* *
26540093 TCTTCGATCCACTTCCTACCAATATAGGAAGATAAGACCTGCTA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGC-A
* * * * *
26540137 TCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTG
1 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTG
26540178 TTTTAATGAC
Statistics
Matches: 213, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.01
43 82 0.38
44 73 0.34
45 55 0.26
46 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
TCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCA
Found at i:26540080 original size:133 final size:131
Alignment explanation
Indices: 26539862--26540151 Score: 386
Period size: 133 Copynumber: 2.2 Consensus size: 131
26539852 TTAGAGAGAT
** * *
26539862 AAGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACATCTTCGATCC
* * *
26539927 ACTTCCTACCAATATAAGAAGACAGGACCTGCTATCTTCAATCTACTTTACTGCCAACACAGGAA
66 ACTTCCTACCAATATAAGAAGACAAGACCTGC-ATCTTCAATCCAC-TTACTACCAACACAGGAA
26539992 GAC
129 GAC
26539995 AAGATCTGCTTTCTTCGATCTAC-TCTGCCACCAATATGGGAA-AGCAAGATCTACATCTTCGAT
1 AAGATCTGCTTTCTTCGATCTACTTC-GCCACCAATATGGGAAGA-CAAGATCTACATCTTCGAT
* * * * *
26540058 CCACTTCCTACCAATATAAGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAA
64 CCACTTCCTACCAATATAAGAAGACAAGACCTGCATCTTCAATCCACTTACTACCAACACAGGAA
*
26540123 GAT
129 GAC
* * *
26540126 AAGACCTGCTATCTTTGATCTACTTC
1 AAGATCTGCTTTCTTCGATCTACTTC
26540152 ACGCCAATAC
Statistics
Matches: 138, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
131 36 0.26
132 16 0.12
133 86 0.62
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (131 bp):
AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACATCTTCGATCC
ACTTCCTACCAATATAAGAAGACAAGACCTGCATCTTCAATCCACTTACTACCAACACAGGAAGA
C
Found at i:26540871 original size:108 final size:108
Alignment explanation
Indices: 26540682--26540883 Score: 273
Period size: 108 Copynumber: 1.9 Consensus size: 108
26540672 AAAAATGCTT
* * * *
26540682 GAAAAAGATTATCAATATGGACAAGATGAAATTTTGTTGAGAGTAAAGCTTTAAACAAACAAATC
1 GAAAAAGATTATCAATATGGACAAGATGAAATTTTATTGAGAGCAAAACTCTAAACAAACAAATC
* *
26540747 AATCGAGGTAGCAAATTTTGCTAAGATACGAGATGAATAAGAC
66 AATCAAGATAGCAAATTTTGCTAAGATACGAGATGAATAAGAC
* **
26540790 GAAAAAGATTATCACA-ATGGATAAGAT-AGAATTTTATTGAGAGCAAAACTCTAAATGAACAAA
1 GAAAAAGATTATCA-ATATGGACAAGATGA-AATTTTATTGAGAGCAAAACTCTAAACAAACAAA
* *
26540853 TTAGTCAAGATAGCAAATTTTGCTAAGATAC
64 TCAATCAAGATAGCAAATTTTGCTAAGATAC
26540884 AAAAATGACT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 79 0.98
109 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (108 bp):
GAAAAAGATTATCAATATGGACAAGATGAAATTTTATTGAGAGCAAAACTCTAAACAAACAAATC
AATCAAGATAGCAAATTTTGCTAAGATACGAGATGAATAAGAC
Found at i:26553858 original size:14 final size:14
Alignment explanation
Indices: 26553839--26553877 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
26553829 ATGTCATAAC
26553839 TTATTTAAATTGAT
1 TTATTTAAATTGAT
26553853 TTATTTAAATTGAT
1 TTATTTAAATTGAT
26553867 TTATTTAAATT
1 TTATTTAAATT
26553878 TTGGTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TTATTTAAATTGAT
Found at i:26556042 original size:18 final size:18
Alignment explanation
Indices: 26556019--26556056 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
26556009 TCGCAAACGT
26556019 TAGGGGCATTTGTAGAAA
1 TAGGGGCATTTGTAGAAA
*
26556037 TAGGGGCATTTTTAGAAA
1 TAGGGGCATTTGTAGAAA
26556055 TA
1 TA
26556057 AACGCCGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (18 bp):
TAGGGGCATTTGTAGAAA
Found at i:26556122 original size:43 final size:43
Alignment explanation
Indices: 26556056--26556304 Score: 306
Period size: 43 Copynumber: 5.8 Consensus size: 43
26556046 TTTTAGAAAT
*
26556056 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
26556099 AAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTT-GCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
*
26556141 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * *
26556184 AAACGCCACTATAGATCAAGACATTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
26556227 AAACACCGCTATAGCT-TGATACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGCGGCGCTTTTCCCAC
* * * * *
26556270 AAATGCCGCTGTAGAACA-AACCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTT
26556305 CTCGCAAAAA
Statistics
Matches: 178, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 55 0.31
43 123 0.69
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:26556184 original size:85 final size:85
Alignment explanation
Indices: 26556056--26556297 Score: 301
Period size: 85 Copynumber: 2.8 Consensus size: 85
26556046 TTTTAGAAAT
* *
26556056 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCA-GAC
*
26556121 CTTTAGCAGCGC-TTTTGCAC
65 CTTTAGCAGCGCTTTTTCCAC
*
26556141 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCACTATAGATCAAGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATC-AGAC
* *
26556206 ATTTAGCGGCGCTTTTTCCAC
65 CTTTAGCAGCGCTTTTTCCAC
* * * * * * * *
26556227 AAACACCGCTATAGCT-TGATACCTTTAGCGGCGC-TTTTCCTACAAATGCCGCTGTAGAACAAA
1 AAACGCCGCTATAGATCAG-GACCTTTAGCGGCGCTTTTTCC-ACAAACGCCGCTATAGATCAGA
26556290 CCTTTAGC
64 CCTTTAGC
26556298 GACGCTTCTC
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
85 86 0.63
86 51 0.37
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGACC
TTTAGCAGCGCTTTTTCCAC
Found at i:26556240 original size:128 final size:128
Alignment explanation
Indices: 26556056--26556304 Score: 331
Period size: 128 Copynumber: 1.9 Consensus size: 128
26556046 TTTTAGAAAT
* * * *
26556056 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAG-GA
1 AAACGCCACTATAGATCAAGACATTTAGCGGCGCTTTTCCCACAAACACCGCTATAGAT-AGAGA
* * * *
26556120 CCTTTAGCAGCGCTTTTGC-ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
65 CCTTTAGCAGCGCTTTTCCTACAAACGCCGCTATAGAACA-AACCTTTAGCGACGCTTTTTCCAC
* * * *
26556184 AAACGCCACTATAGATCAAGACATTTAGCGGCGCTTTTTCCACAAACACCGCTATAGCTTGATAC
1 AAACGCCACTATAGATCAAGACATTTAGCGGCGCTTTTCCCACAAACACCGCTATAGATAGAGAC
* * *
26556249 CTTTAGCGGCGCTTTTCCTACAAATGCCGCTGTAGAACAAACCTTTAGCGACGCTT
66 CTTTAGCAGCGCTTTTCCTACAAACGCCGCTATAGAACAAACCTTTAGCGACGCTT
26556305 CTCGCAAAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
127 1 0.01
128 86 0.83
129 17 0.16
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (128 bp):
AAACGCCACTATAGATCAAGACATTTAGCGGCGCTTTTCCCACAAACACCGCTATAGATAGAGAC
CTTTAGCAGCGCTTTTCCTACAAACGCCGCTATAGAACAAACCTTTAGCGACGCTTTTTCCAC
Found at i:26560685 original size:11 final size:11
Alignment explanation
Indices: 26560665--26560712 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
26560655 TTTTTACAAT
26560665 TTTTATATTAAA
1 TTTTA-ATTAAA
26560677 TTTTAATTAAA
1 TTTTAATTAAA
*
26560688 TATTTCATATAAA
1 T-TTTAAT-TAAA
*
26560701 TTTTAAATAAA
1 TTTTAATTAAA
26560712 T
1 T
26560713 AATTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 12 0.39
12 14 0.45
13 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAATTAAA
Found at i:26560701 original size:24 final size:22
Alignment explanation
Indices: 26560673--26560738 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
26560663 ATTTTTATAT
*
26560673 TAAATTTTAATTAAATATTTCATA
1 TAAATTTTAAATAAATATTT--TA
*
26560697 TAAATTTTAAATAAATAATTTTT
1 TAAATTTTAAATAAAT-ATTTTA
*
26560720 TAAATTTTAAGT-AATATTT
1 TAAATTTTAAATAAATATTT
26560739 AAAAGAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 12 0.32
24 15 0.39
25 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAATTTTAAATAAATATTTTA
Found at i:26561204 original size:7 final size:7
Alignment explanation
Indices: 26561194--26561240 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
26561184 ATAAAACATA
26561194 AACCCCT
1 AACCCCT
26561201 AACCCCT
1 AACCCCT
*
26561208 AACCCTT
1 AACCCCT
**
26561215 AACCTTT
1 AACCCCT
26561222 AACCCCT
1 AACCCCT
*
26561229 AGCCCCT
1 AACCCCT
26561236 AACCC
1 AACCC
26561241 TTAAACCCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.28, C:0.51, G:0.02, T:0.19
Consensus pattern (7 bp):
AACCCCT
Found at i:26561218 original size:21 final size:21
Alignment explanation
Indices: 26561195--26561249 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
26561185 TAAAACATAA
* *
26561195 ACCCCTAACCCCTAACCCTTA
1 ACCCTTAACCCCTAACCCCTA
* *
26561216 ACCTTTAACCCCTAGCCCCTA
1 ACCCTTAACCCCTAACCCCTA
26561237 ACCCTTAAACCCC
1 ACCCTTAA-CCCC
26561250 AGCCTTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (21 bp):
ACCCTTAACCCCTAACCCCTA
Found at i:26562375 original size:41 final size:40
Alignment explanation
Indices: 26562275--26562486 Score: 275
Period size: 41 Copynumber: 5.2 Consensus size: 40
26562265 TAAATTATTT
* * *
26562275 TAAATCCCTAAGCATTAGCGGCGCTTTTTAGAAAACACCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTTCA-AAAACGCCGC
* *
26562316 TAAA-CCCCGAGCACTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTT-TCAAAAACGCCGC
* *
26562356 TATAA-CCCTAAGCATTAGCGGCACTTTTCCAAAAACGCCGC
1 TA-AATCCCTGAGCATTAGCGGCGCTTTT-CAAAAACGCCGC
*
26562397 TAAATCCCTGAGCATTAGCGGCGCTTTTCCAAAAATGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTT-CAAAAACGCCGC
*
26562438 TAAATCCCTGAGCATTAGCGGCGCTTTATTAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTT-TCAAAAACGCCGC
26562479 TAAATCCC
1 TAAATCCC
26562487 CGAAAGCTCA
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
40 33 0.22
41 118 0.78
42 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (40 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTTCAAAAACGCCGC
Found at i:26562611 original size:40 final size:39
Alignment explanation
Indices: 26562537--26562651 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 39
26562527 CGCTTTCTGG
* * * *
26562537 AAAA-CGCCGCTAATGCTTATTTTTAGCGGCGTTTTCCA
1 AAAAGCGCCGCTAATGCTGATCTTTAGCAGTGTTTTCCA
* * *
26562575 TAATGCGCTGCTAATGCTAGATCTTTAGCAGTGTTTTCCA
1 AAAAGCGCCGCTAATGCT-GATCTTTAGCAGTGTTTTCCA
*
26562615 AAAAGCGCCGCTAATGCTTGATCTTTAGCATTGTTTT
1 AAAAGCGCCGCTAATGC-TGATCTTTAGCAGTGTTTT
26562652 TTATCCAAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.03
39 12 0.19
40 48 0.76
41 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTGATCTTTAGCAGTGTTTTCCA
Found at i:26562675 original size:12 final size:12
Alignment explanation
Indices: 26562658--26562683 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26562648 TTTTTTATCC
26562658 AAACGCCGCTAA
1 AAACGCCGCTAA
26562670 AAACGCCGCTAA
1 AAACGCCGCTAA
26562682 AA
1 AA
26562684 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:26563498 original size:19 final size:18
Alignment explanation
Indices: 26563461--26563501 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
26563451 AATAATTAGT
26563461 TAATAATAGTAAAAATAA
1 TAATAATAGTAAAAATAA
26563479 TAATAATTAG-AAAAATTAA
1 TAATAA-TAGTAAAAA-TAA
26563498 TAAT
1 TAAT
26563502 GGTATTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
TAATAATAGTAAAAATAA
Found at i:26564769 original size:33 final size:31
Alignment explanation
Indices: 26564685--26564771 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 31
26564675 AAGGTATGTG
* *
26564685 TATATATATAATATATATGTATAGGGGTTTTGT
1 TATATATATAATA-ATATATAT-GGGATTTTGT
*
26564718 TATTTATAT-ATAATATATATGGGATTTGGTGT
1 TATATATATAATAATATATATGGGATTT--TGT
26564750 TATATATATAATAATATATATG
1 TATATATATAATAATATATATG
26564772 TGTGCATGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 6 0.13
31 7 0.15
32 14 0.30
33 20 0.43
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (31 bp):
TATATATATAATAATATATATGGGATTTTGT
Found at i:26564769 original size:35 final size:34
Alignment explanation
Indices: 26564685--26564834 Score: 107
Period size: 34 Copynumber: 4.5 Consensus size: 34
26564675 AAGGTATGTG
* *
26564685 TATATATATAATATATATGTATAGGGGTTT--TGT
1 TATATATATAATATATATATAT-GGGATTTGGTGT
*
26564718 TATTTATAT-ATA-ATATATATGGGATTTGGTGT
1 TATATATATAATATATATATATGGGATTTGGTGT
*
26564750 TATATATATAATA-ATATATATGTGTGCA-TGGGTGT
1 TATATATATAATATATATATATG-G-G-ATTTGGTGT
* * * * * *
26564785 TATATATAAAATTTATATTTACGTGCA-TGGGTGT
1 TATATATATAATATATATATATG-GGATTTGGTGT
*
26564819 TATATGTATAATATAT
1 TATATATATAATATAT
26564835 TTGTGTGGGT
Statistics
Matches: 97, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
30 6 0.06
31 7 0.07
32 14 0.14
33 20 0.21
34 22 0.23
35 18 0.19
36 10 0.10
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (34 bp):
TATATATATAATATATATATATGGGATTTGGTGT
Found at i:26570876 original size:18 final size:19
Alignment explanation
Indices: 26570853--26570890 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
26570843 TACGGAGCTT
26570853 CGTAATAGACCGC-AGGAG
1 CGTAATAGACCGCAAGGAG
26570871 CGTAATAGACCGCAAGGAG
1 CGTAATAGACCGCAAGGAG
26570890 C
1 C
26570891 CTTGCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.34, C:0.24, G:0.32, T:0.11
Consensus pattern (19 bp):
CGTAATAGACCGCAAGGAG
Found at i:26576203 original size:3 final size:3
Alignment explanation
Indices: 26576195--26576241 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
26576185 TCATGCTTAA
26576195 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
26576242 AAATAAAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:26585044 original size:79 final size:79
Alignment explanation
Indices: 26584944--26585102 Score: 273
Period size: 79 Copynumber: 2.0 Consensus size: 79
26584934 GCATTGTTTA
* *
26584944 AAACACATCCAAGAGATAAAAAACTATCTTATTTATACTTCACCTTTAGTACCAATTTTGAGGCT
1 AAACACATCCAAGAGATAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGCCT
26585009 TTTGACACTTCTTG
66 TTTGACACTTCTTG
* * *
26585023 AAACACATCCTAGAGCTAAAAAACTATCCTATTTATACTTCACCTTTAGTACCGATTTTGAGCCT
1 AAACACATCCAAGAGATAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGCCT
26585088 TTTGACACTTCTTG
66 TTTGACACTTCTTG
26585102 A
1 A
26585103 TGAACCGCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (79 bp):
AAACACATCCAAGAGATAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGCCT
TTTGACACTTCTTG
Found at i:26598975 original size:29 final size:28
Alignment explanation
Indices: 26598943--26599124 Score: 114
Period size: 29 Copynumber: 6.3 Consensus size: 28
26598933 GTCATAATCG
**
26598943 TCCCTTTTCATGTTCAATGGTCGAAACCA
1 TCCCTTTTCATGTTC-ATGGTCGTCACCA
* * *
26598972 TCCCTTTTCATATTTGATTGTCGTCACCA
1 TCCCTTTTCAT-GTTCATGGTCGTCACCA
*
26599001 TCTCTTTTCATAGTTCATGGTCGTCACCA
1 TCCCTTTTCAT-GTTCATGGTCGTCACCA
* ** * *** *
26599030 TCCATTTTCATAATCGATAG-CCAAAGCTA
1 TCCCTTTTCATGTTC-ATGGTCGTCA-CCA
* *
26599059 TCCCTTTTCATATTCGATGGTCGTCCCCA
1 TCCCTTTTCATGTTC-ATGGTCGTCACCA
* * * *
26599088 TCCCTTTTAATAGTTGACGGTCATCACCA
1 TCCCTTTTCAT-GTTCATGGTCGTCACCA
26599117 TCCCTTTT
1 TCCCTTTT
26599125 TATAATCGAT
Statistics
Matches: 116, Mismatches: 32, Indels: 10
0.73 0.20 0.06
Matches are distributed among these distances:
28 4 0.03
29 107 0.92
30 5 0.04
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (28 bp):
TCCCTTTTCATGTTCATGGTCGTCACCA
Found at i:26599082 original size:87 final size:87
Alignment explanation
Indices: 26598971--26599156 Score: 248
Period size: 87 Copynumber: 2.1 Consensus size: 87
26598961 GGTCGAAACC
* * * * * *
26598971 ATCCCTTTTCATATTTGATTGTCGTCACCATCTCTTTTCATAGTTCATGGTCGTCACCATCCATT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTAATAGTTCACGGTCATCACCATCCATT
26599036 TTCATAATCGATAGCCAAAGCT
66 TTCATAATCGATAGCCAAAGCT
* * *
26599058 ATCCCTTTTCATATTCGATGGTCGTCCCCATCCCTTTTAATAGTTGACGGTCATCACCATCCCTT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTAATAGTTCACGGTCATCACCATCCATT
* * *
26599123 TTTATAATCGATAGCCGAAGTT
66 TTCATAATCGATAGCCAAAGCT
26599145 A-CCCATTTTCAT
1 ATCCC-TTTTCAT
26599157 TGGTCGATGA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 3 0.03
87 83 0.97
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTAATAGTTCACGGTCATCACCATCCATT
TTCATAATCGATAGCCAAAGCT
Found at i:26599120 original size:58 final size:58
Alignment explanation
Indices: 26598943--26599134 Score: 172
Period size: 58 Copynumber: 3.3 Consensus size: 58
26598933 GTCATAATCG
* * ** * * *
26598943 TCCCTTTTCATGTTCAATGGTCGAAACCATCCCTTTTCATATTTGATTGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATTGATAGTCATCACCA
* * * * * *
26599001 TCTCTTTTCATAGTTC-ATGGTCGTCACCATCCATTTTCATAATCGATAGCCA-AAGCTA
1 TCCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATTGATAGTCATCA-CCA
* * * **
26599059 TCCCTTTTCATATTCGATGGTCGTCCCCATCCCTTTTAATAGTTGACGGTCATCACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATTGATAGTCATCACCA
* *
26599117 TCCCTTTTTATAATCGAT
1 TCCCTTTTCATATTCGAT
26599135 AGCCGAAGTT
Statistics
Matches: 105, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
57 4 0.04
58 97 0.92
59 4 0.04
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.39
Consensus pattern (58 bp):
TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATTGATAGTCATCACCA
Found at i:26602166 original size:27 final size:27
Alignment explanation
Indices: 26602136--26602376 Score: 272
Period size: 27 Copynumber: 8.9 Consensus size: 27
26602126 GTAAATAACT
26602136 GAAATACCCTCGAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
*
26602163 GAAATACCCTCGAAGGGTAAAATAACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* * * **
26602190 AAAATACCCTTGAAGGATAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGACC
*
26602217 AAAATACCC-CTGAAGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGACC
* * *
26602244 AAAATACCCTCGACA-GGTACAATGACT
1 GAAATACCCTCGA-AGGGTAAAATGACC
26602271 GAAATACCCTCGAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* * *
26602298 AAAATACCTTTGAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* ** *
26602325 GAAATACCCCCGAAGGGTAAAAAAATC
1 GAAATACCCTCGAAGGGTAAAATGACC
*
26602352 GAAATACCC-CCATAGGGTAAAATGA
1 GAAATACCCTCGA-AGGGTAAAATGA
26602377 GTATTATACC
Statistics
Matches: 180, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 175 0.97
28 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACC
Found at i:26602386 original size:81 final size:80
Alignment explanation
Indices: 26602124--26602394 Score: 289
Period size: 81 Copynumber: 3.4 Consensus size: 80
26602114 TGCGATTCAT
* *
26602124 GGGT-AAATAACTGAAATA-CCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATA
1 GGGTAAAATGACTAAAATACCCCT-GAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATA
* *
26602187 ACCAAAATACCCTTGAA
65 A-CGAAATACCCTCGAA
* * * * *
26602204 GGATAAAATGATTAAAATACCCCTGAAGGGTAAAATGACCAAAATACCCTCGACA-GGTACAATG
1 GGGTAAAATGACTAAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGA-AGGGTAAAATA
26602268 ACTGAAATACCCTCGAA
65 AC-GAAATACCCTCGAA
* ** * *
26602285 GGGTAAAATGACCAAAATACCTTTGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAAAAA
1 GGGTAAAATGACTAAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATAA
*
26602350 TCGAAATACCC-CCATA
66 -CGAAATACCCTCGA-A
* **
26602366 GGGTAAAATGAGTATTATACCCCTAGAAG
1 GGGTAAAATGACTAAAATACCCCT-GAAG
26602395 TTGAAATGAG
Statistics
Matches: 157, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
80 7 0.04
81 140 0.89
82 10 0.06
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (80 bp):
GGGTAAAATGACTAAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATAA
CGAAATACCCTCGAA
Found at i:26602582 original size:26 final size:26
Alignment explanation
Indices: 26602539--26602628 Score: 108
Period size: 26 Copynumber: 3.4 Consensus size: 26
26602529 TGTACTGGTG
* *
26602539 GCTTTGCTACATATACTGTTATTGGCA
1 GCTTTGCTACGT-CACTGTTATTGGCA
* * *
26602566 GCTTTACTACGTCACTGTTACTGGTA
1 GCTTTGCTACGTCACTGTTATTGGCA
* *
26602592 GCTTTGCTATGTCACTATTATTGGCA
1 GCTTTGCTACGTCACTGTTATTGGCA
26602618 GCTTTGCTACG
1 GCTTTGCTACG
26602629 ATATTGGTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 42 0.81
27 10 0.19
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (26 bp):
GCTTTGCTACGTCACTGTTATTGGCA
Found at i:26602619 original size:52 final size:51
Alignment explanation
Indices: 26602527--26602628 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
26602517 GGGGAAATAT
* *
26602527 ACTGTACTGGTGGCTTTGCTACATATACTGTTATTGGCAGCTTTACTACGTC
1 ACTGTACTGGTAGCTTTGCTA-ATATACTATTATTGGCAGCTTTACTACGTC
* *
26602579 ACTGTTACTGGTAGCTTTGCT-ATGTCACTATTATTGGCAGCTTTGCTACG
1 ACTG-TACTGGTAGCTTTGCTAATAT-ACTATTATTGGCAGCTTTACTACG
26602629 ATATTGGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 3 0.07
52 26 0.59
53 15 0.34
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.39
Consensus pattern (51 bp):
ACTGTACTGGTAGCTTTGCTAATATACTATTATTGGCAGCTTTACTACGTC
Found at i:26602803 original size:30 final size:28
Alignment explanation
Indices: 26602733--26602804 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
26602723 TAATGCATTG
26602733 CACTAATTACTGTATTAGGCTAAGGCCCC
1 CACT-ATTACTGTATTAGGCTAAGGCCCC
* *
26602762 CACTGTTACTGTATTGGGCTAAGGCCCAC
1 CACTATTACTGTATTAGGCTAAGGCCC-C
26602791 ACACTATTACTGTA
1 -CACTATTACTGTA
26602805 GAGGGCTCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.55
29 5 0.13
30 12 0.32
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (28 bp):
CACTATTACTGTATTAGGCTAAGGCCCC
Found at i:26604902 original size:14 final size:14
Alignment explanation
Indices: 26604883--26604910 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26604873 TAAAGTTATA
26604883 TTTAATAATTCATT
1 TTTAATAATTCATT
26604897 TTTAATAATTCATT
1 TTTAATAATTCATT
26604911 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:26605368 original size:15 final size:14
Alignment explanation
Indices: 26605350--26605385 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
26605340 CACTTTTTCA
26605350 ATCATCTCTCATCTC
1 ATCATCTCTCA-CTC
26605365 ATCATCTCTCACTC
1 ATCATCTCTCACTC
26605379 ATTCATC
1 A-TCATC
26605386 ATTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (14 bp):
ATCATCTCTCACTC
Found at i:26605379 original size:19 final size:19
Alignment explanation
Indices: 26605357--26605394 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
26605347 TCAATCATCT
26605357 CTCATCTCATCA-TCTCTCA
1 CTCAT-TCATCATTCTCTCA
26605376 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
26605395 ACTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:26609194 original size:47 final size:47
Alignment explanation
Indices: 26609143--26609410 Score: 398
Period size: 47 Copynumber: 5.7 Consensus size: 47
26609133 TTAGGATTCT
* * *
26609143 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
26609190 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
26609237 ATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
26609282 ATGTGATGAATGTGAAAGTGTATATATTTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
26609329 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
26609376 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
26609411 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 45 0.22
46 1 0.00
47 158 0.77
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:26609274 original size:92 final size:92
Alignment explanation
Indices: 26609143--26609410 Score: 387
Period size: 92 Copynumber: 2.9 Consensus size: 92
26609133 TTAGGATTCT
* *
26609143 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATAT--GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
26609207 GTGTATATATGTGATAAGGCCTAATGGCCG
63 GTGTATATATGTGATAAGGCCTAATGGCCG
26609237 ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
26609302 TATATATTTGATAAGGCCTAATGGCCG
66 TATATATGTGATAAGGCCTAATGGCCG
* * * * *
26609329 ATGTGATGAATGTGAAAGTGTATATATG-TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 ATGTGATGAATGTGAAAGTGTATATATGAT-A-A-GGCCTAATGGCCGATGTGATGAATGTGAAA
*
26609393 GTGTATAAATGTGATAAG
63 GTGTATATATGTGATAAG
26609411 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
91 1 0.01
92 93 0.58
93 2 0.01
94 64 0.40
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (92 bp):
ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCG
Found at i:26609287 original size:139 final size:139
Alignment explanation
Indices: 26609143--26609399 Score: 399
Period size: 139 Copynumber: 1.8 Consensus size: 139
26609133 TTAGGATTCT
*
26609143 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
26609207 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGC
65 GTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATGATAAGGC
26609272 CTAATGGCCG
130 CTAATGGCCG
* **
26609282 ATGTGATGAATGTGAAAGTGTATATATTTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
26609347 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 TGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
26609400 AATGTGATAA
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
138 1 0.01
139 105 0.99
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (139 bp):
ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATGATAAGGCC
TAATGGCCG
Found at i:26609585 original size:37 final size:37
Alignment explanation
Indices: 26609529--26609607 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26609519 CCTAGCTCTA
* * *
26609529 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
26609566 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
26609603 AAGAC
1 AAGAC
26609608 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:26610909 original size:16 final size:17
Alignment explanation
Indices: 26610890--26610922 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26610880 ATTCATTCCC
26610890 AAATGGTTT-CATTTCT
1 AAATGGTTTCCATTTCT
*
26610906 AAATGTTTTCCATTTCT
1 AAATGGTTTCCATTTCT
26610923 CCCTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (17 bp):
AAATGGTTTCCATTTCT
Found at i:26611794 original size:34 final size:34
Alignment explanation
Indices: 26611751--26611869 Score: 148
Period size: 34 Copynumber: 3.5 Consensus size: 34
26611741 ACTACGTGCA
* * *
26611751 TTGGTGTGGTGTAGTTATCGTTCTCTCAAGCCAT
1 TTGGTGTGGTGTAGTTATCGCTCTATCGAGCCAT
* *
26611785 TTGGTGTGGTGTAATTATCGCTCTATCGAGTCAT
1 TTGGTGTGGTGTAGTTATCGCTCTATCGAGCCAT
* * * * *
26611819 TTGGTGTGGTGTACTTCTTGCTCTATTGAGCTAT
1 TTGGTGTGGTGTAGTTATCGCTCTATCGAGCCAT
26611853 TTGGTGTGGTGTAGTTA
1 TTGGTGTGGTGTAGTTA
26611870 CTCGTGTATC
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 72 1.00
ACGTcount: A:0.14, C:0.13, G:0.29, T:0.44
Consensus pattern (34 bp):
TTGGTGTGGTGTAGTTATCGCTCTATCGAGCCAT
Found at i:26612976 original size:17 final size:15
Alignment explanation
Indices: 26612949--26613012 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 15
26612939 AAGTGATGAG
26612949 ATAAA-AATAAATAA
1 ATAAATAATAAATAA
*
26612963 ATAACGATAATAAATGA
1 ATAA--ATAATAAATAA
26612980 ATAAATAA-AAATAA
1 ATAAATAATAAATAA
*
26612994 A-AAATGAACTAAATCA
1 ATAAAT-AA-TAAATAA
26613010 ATA
1 ATA
26613013 GATCAATCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
13 4 0.10
14 12 0.30
15 4 0.10
16 7 0.17
17 13 0.32
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (15 bp):
ATAAATAATAAATAA
Found at i:26612982 original size:21 final size:20
Alignment explanation
Indices: 26612947--26613007 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
26612937 ATAAGTGATG
*
26612947 AGATAAAAATAAATAAATAA
1 AGATAAAAATGAATAAATAA
*
26612967 CGATAATAAATGAATAAATAA
1 AGATAA-AAATGAATAAATAA
*
26612988 AAATAAAAAATGAACTAAAT
1 AGAT-AAAAATGAA-TAAAT
26613008 CAATAGATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.15
21 22 0.65
22 7 0.21
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (20 bp):
AGATAAAAATGAATAAATAA
Found at i:26612994 original size:18 final size:18
Alignment explanation
Indices: 26612931--26612994 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
26612921 ACGACAAACC
* *
26612931 ATAAAAATAAGTG-ATGAG
1 ATAAAAATAAATGAAT-AA
*
26612949 ATAAAAATAAATAAAT-A
1 ATAAAAATAAATGAATAA
** *
26612966 ACGATAATAAATGAATAA
1 ATAAAAATAAATGAATAA
26612984 ATAAAAATAAA
1 ATAAAAATAAA
26612995 AAATGAACTA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
17 12 0.35
18 20 0.59
19 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (18 bp):
ATAAAAATAAATGAATAA
Found at i:26617273 original size:32 final size:30
Alignment explanation
Indices: 26617199--26617257 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
26617189 TTCAAAATCG
* * *
26617199 GGTTTACAAAAATGTGATATTTAAACAAAT
1 GGTTTACGAAAACGTGATATTTAAAAAAAT
26617229 GGTTTACGAAAACGTGATATTTAAAAAAA
1 GGTTTACGAAAACGTGATATTTAAAAAAA
26617258 CTTGAGTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (30 bp):
GGTTTACGAAAACGTGATATTTAAAAAAAT
Found at i:26617961 original size:22 final size:21
Alignment explanation
Indices: 26617893--26617966 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
26617883 CAACAAAGCT
*
26617893 GCCAGTAACCAGAATGGCTAATA
1 GCCA-TAAACAGAATGGCTAA-A
* * *
26617916 GCCATAAACAGGATAGCTTTAA
1 GCCATAAACAGAATGGC-TAAA
*
26617938 GCTATAAACAGAATGGCTACAA
1 GCCATAAACAGAATGGCTA-AA
26617960 GCCATAA
1 GCCATAA
26617967 GTACAGTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.82
23 6 0.15
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (21 bp):
GCCATAAACAGAATGGCTAAA
Found at i:26618012 original size:32 final size:31
Alignment explanation
Indices: 26617958--26618059 Score: 114
Period size: 32 Copynumber: 3.2 Consensus size: 31
26617948 GAATGGCTAC
* *
26617958 AAGCCATAAGTACAGTAATATGATTGGCACA
1 AAGCCATAAGTATAGTAATATGATCGGCACA
* *
26617989 AAGCCATAAGTAGTAGTAATATGACCAGCACA
1 AAGCCATAAGTA-TAGTAATATGATCGGCACA
* * * *
26618021 CAGCCATCAGTAATGGTAATATGATCGTCACA
1 AAGCCATAAGT-ATAGTAATATGATCGGCACA
26618053 AAGCCAT
1 AAGCCAT
26618060 CAATATCATC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 12 0.21
32 45 0.78
33 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (31 bp):
AAGCCATAAGTATAGTAATATGATCGGCACA
Found at i:26618241 original size:24 final size:24
Alignment explanation
Indices: 26618214--26618291 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
26618204 GCACATAATT
*
26618214 AGTCATACAAATCACAGACAAATC
1 AGTCATACAAATCACAGAAAAATC
* ** *
26618238 AGTCATACCAATCACAGGTAAATT
1 AGTCATACAAATCACAGAAAAATC
* **
26618262 ATTCATTTAAATCACAGAAAAATC
1 AGTCATACAAATCACAGAAAAATC
26618286 AGTCAT
1 AGTCAT
26618292 TTACACCTCG
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.24
Consensus pattern (24 bp):
AGTCATACAAATCACAGAAAAATC
Done.