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 88 of 172
Found at i:25081487 original size:37 final size:37
Alignment explanation
Indices: 25081436--25081506 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
25081426 TCATTTTGAA
25081436 CATTTTCATACACATATCAAATAACCATATACTTAAT
1 CATTTTCATACACATATCAAATAACCATATACTTAAT
*
25081473 CATTTTCATTCACATATCAAATAACCATATACTT
1 CATTTTCATACACATATCAAATAACCATATACTT
25081507 GTAATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.37
Consensus pattern (37 bp):
CATTTTCATACACATATCAAATAACCATATACTTAAT
Found at i:25084018 original size:23 final size:22
Alignment explanation
Indices: 25083980--25084033 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
25083970 TTTTCTTGTA
* *
25083980 TGTTTATTTCCTGTTTTCATTT
1 TGTTTATTTTCGGTTTTCATTT
*
25084002 TAGTTTATTTTCGGTTTTTATTT
1 T-GTTTATTTTCGGTTTTCATTT
25084025 T-TTTATTTT
1 TGTTTATTTT
25084034 TAGTTTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 1 0.04
23 19 0.68
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.72
Consensus pattern (22 bp):
TGTTTATTTTCGGTTTTCATTT
Found at i:25088482 original size:21 final size:21
Alignment explanation
Indices: 25088455--25088504 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
25088445 GCGTATAGGT
*
25088455 TAGCCACACGGGAGTGTGGGA
1 TAGCCACACGAGAGTGTGGGA
* * *
25088476 TATCCACACGAGCGTGTGGGG
1 TAGCCACACGAGAGTGTGGGA
25088497 TAGCCACA
1 TAGCCACA
25088505 TGGGCTGGCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (21 bp):
TAGCCACACGAGAGTGTGGGA
Found at i:25091925 original size:125 final size:126
Alignment explanation
Indices: 25091679--25091946 Score: 364
Period size: 125 Copynumber: 2.1 Consensus size: 126
25091669 TGTCAAATAA
* * * *
25091679 GAACTACTGTAGAAAAAGAGCATCCACGTGGAAGCTTTTTTTATCAATTTTACTGACAGTGCCTC
1 GAACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTTTTTCATCAATTTTACTGACAGCGCATC
*
25091744 CTGCTTGAAGCGTTTTTGACACATTTGTTTAGAACCCTCTTCTCAAAATTATTTTTT-CAG
66 CTGCTTGAAGCGTTTTTGACACATTTGTTCAGAACCCTCTTCTCAAAATTATTTTTTCCAG
* * *
25091804 GAACTACTATAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGT-AATTTTACTGACAGCGCAT
1 GAACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTTTTTCA-TCAATTTTACTGACAGCGCAT
* * * *
25091868 TCTGCTTGAAGCGTTTTTTACATTATCTT-TTCAGAACCGTCTTCTCAAAATTA-TTTTTCCAG
65 CCTGCTTGAAGCGTTTTTGACA-CAT-TTGTTCAGAACCCTCTTCTCAAAATTATTTTTTCCAG
*
25091930 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
25091947 AAGACAAAAG
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
125 80 0.64
126 43 0.34
127 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTTTTTCATCAATTTTACTGACAGCGCATC
CTGCTTGAAGCGTTTTTGACACATTTGTTCAGAACCCTCTTCTCAAAATTATTTTTTCCAG
Found at i:25092053 original size:30 final size:29
Alignment explanation
Indices: 25092005--25092120 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 29
25091995 TACAAAATTA
*
25092005 TTTTTTAAAAA-ACTAAACCATAATTTAAT
1 TTTTTTAAAAACCCTAAACC-TAATTTAAT
*
25092034 TTTCTTAAAAACCCTAAACCCTAATTTAATT
1 TTTTTTAAAAACCCTAAA-CCTAATTTAA-T
* *
25092065 AATTTATTTAAAACCCCAAAACCTAATTTAAT
1 --TTT-TTTAAAAACCCTAAACCTAATTTAAT
25092097 TATTTTTAAAAAAACCCTAAACCT
1 T-TTTTT--AAAAACCCTAAACCT
25092121 TAAACCTACC
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
29 10 0.14
30 17 0.24
31 5 0.07
32 14 0.20
33 13 0.18
34 12 0.17
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (29 bp):
TTTTTTAAAAACCCTAAACCTAATTTAAT
Found at i:25092076 original size:34 final size:33
Alignment explanation
Indices: 25092000--25092119 Score: 119
Period size: 33 Copynumber: 3.8 Consensus size: 33
25091990 CTAAATACAA
* *
25092000 AATT-ATTTTTTAAAAA-ACTAAACCATAATTT
1 AATTAATTTTTTAAAAACCCTAAACCCTAATTT
*
25092031 AA-T--TTTCTTAAAAACCCTAAACCCTAATTT
1 AATTAATTTTTTAAAAACCCTAAACCCTAATTT
* *
25092061 AATTAATTTATTT-AAAACCCCAAAACCTAATTT
1 AATTAATTT-TTTAAAAACCCTAAACCCTAATTT
*
25092094 AATT-ATTTTTAAAAAAACCCTAAACC
1 AATTAATTTTT-TAAAAACCCTAAACC
25092120 TTAAACCTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
29 10 0.14
30 16 0.22
31 5 0.07
32 4 0.05
33 36 0.49
34 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (33 bp):
AATTAATTTTTTAAAAACCCTAAACCCTAATTT
Found at i:25092166 original size:47 final size:44
Alignment explanation
Indices: 25092094--25092184 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 44
25092084 AACCTAATTT
*
25092094 AATTATTTTTAAAAAAACCCTAAACCTTAAACCTACCAAAAACCCTA
1 AATTATTTTTAAAAAAACCCTAAACCCTAAACC-A--AAAAACCCTA
*
25092141 AATTA-TTTT-AACAAACCCTTAAAACCCTAAACCAAAAAACCCTA
1 AATTATTTTTAAAAAAACCC-T-AAACCCTAAACCAAAAAACCCTA
25092185 GGGACTAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
44 10 0.25
45 8 0.20
46 6 0.15
47 16 0.40
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.24
Consensus pattern (44 bp):
AATTATTTTTAAAAAAACCCTAAACCCTAAACCAAAAAACCCTA
Found at i:25120820 original size:19 final size:20
Alignment explanation
Indices: 25120781--25120819 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
25120771 ATTGTAGAAT
25120781 TTTATTTCTACTAGAAAAAA
1 TTTATTTCTACTAGAAAAAA
25120801 TTTATTTCTACTAGAAAAA
1 TTTATTTCTACTAGAAAAA
25120820 TGAACTCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTATTTCTACTAGAAAAAA
Found at i:25123379 original size:14 final size:14
Alignment explanation
Indices: 25123360--25123389 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25123350 TGATTGATTT
25123360 TAATCTAAATTAAC
1 TAATCTAAATTAAC
*
25123374 TAATCTAATTTAAC
1 TAATCTAAATTAAC
25123388 TA
1 TA
25123390 CAAACGCAAT
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:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:25127655 original size:27 final size:26
Alignment explanation
Indices: 25127611--25127680 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
25127601 AAAGAAACTA
*
25127611 AAAATAAAATAAACAAATAAACAAAAT
1 AAAATAAAATAAAGAAATAAA-AAAAT
* *
25127638 AATAA-AAGATAAAGAAATAAAGAAAT
1 AA-AATAAAATAAAGAAATAAAAAAAT
25127664 AAAATAAAATAAAGAAA
1 AAAATAAAATAAAGAAA
25127681 AGGAAAGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.05
26 17 0.46
27 16 0.43
28 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (26 bp):
AAAATAAAATAAAGAAATAAAAAAAT
Found at i:25134383 original size:20 final size:19
Alignment explanation
Indices: 25134343--25134391 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
25134333 GAAAAATTAG
*
25134343 AAAACAAAAAATGAAGCTA
1 AAAACAAAAAATAAAGCTA
25134362 AAAACAAAAAA-AAAGCAATA
1 AAAACAAAAAATAAAGC--TA
*
25134382 AAAATAAAAA
1 AAAACAAAAA
25134392 TGGCTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (19 bp):
AAAACAAAAAATAAAGCTA
Found at i:25134634 original size:14 final size:14
Alignment explanation
Indices: 25134615--25134644 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25134605 TGATTGTTTT
25134615 TAATCTAAATTAAC
1 TAATCTAAATTAAC
*
25134629 TAATCTAATTTAAC
1 TAATCTAAATTAAC
25134643 TA
1 TA
25134645 CGAACGCAAT
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:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:25144294 original size:34 final size:34
Alignment explanation
Indices: 25144245--25144343 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
25144235 CATTACCTAT
**
25144245 ACTTT-TTATTATTACAACTTTGCCTTCAAGG-CA
1 ACTTTGTT-TTATTACAACTTTAACTTCAAGGTCA
*
25144278 AGCTTTGTTTTATTACAACTTTAACTTCAAGGTTA
1 A-CTTTGTTTTATTACAACTTTAACTTCAAGGTCA
* * *
25144313 ACTTTGTTCTATTACAGCTTTATCTTCAAGG
1 ACTTTGTTTTATTACAACTTTAACTTCAAGG
25144344 AGAGCTTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.02
34 52 0.91
35 4 0.07
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.44
Consensus pattern (34 bp):
ACTTTGTTTTATTACAACTTTAACTTCAAGGTCA
Found at i:25146141 original size:35 final size:35
Alignment explanation
Indices: 25146095--25146210 Score: 160
Period size: 35 Copynumber: 3.3 Consensus size: 35
25146085 GTTCTATTAC
*
25146095 AGCTTTGCCTTCAAGGTAAGCTCAGATTATCAAAA
1 AGCTTTGCCTTCAAGGTAAGCTCGGATTATCAAAA
* * *
25146130 AGCTTTGCCTTCAATGCAAGCTCGGATTATAAAAA
1 AGCTTTGCCTTCAAGGTAAGCTCGGATTATCAAAA
* * * *
25146165 ATCTTTGCCTTCAAGGTGAGCTTGGTTTATCAAAA
1 AGCTTTGCCTTCAAGGTAAGCTCGGATTATCAAAA
25146200 AGCTTTGCCTT
1 AGCTTTGCCTT
25146211 TAAAACAAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (35 bp):
AGCTTTGCCTTCAAGGTAAGCTCGGATTATCAAAA
Found at i:25149028 original size:12 final size:12
Alignment explanation
Indices: 25149013--25149043 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25149003 GTTTTTGGCA
*
25149013 TTGTTGGCATTG
1 TTGTCGGCATTG
25149025 TTGTCGGCATTG
1 TTGTCGGCATTG
25149037 TTGTCGG
1 TTGTCGG
25149044 GGACTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.13, G:0.35, T:0.45
Consensus pattern (12 bp):
TTGTCGGCATTG
Found at i:25176037 original size:45 final size:45
Alignment explanation
Indices: 25175959--25176572 Score: 783
Period size: 45 Copynumber: 13.7 Consensus size: 45
25175949 TCAGGGCTTC
* * * *
25175959 GATCTACTTCACTACCAGTACAGGCAGAAAAGATCTGCTATCTTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* * *
25176004 GATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* * * *
25176049 GATCTAATTCACTGCCAGTACAGGCAGAAAAGATCTGCTATCTTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* *
25176094 GATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* *
25176139 GATCTATTTCACTGCCAGTACAGGAAGACAAGATCTGCTATCTTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* * *
25176184 GATCTACTTCACTGCCAATACAGGAAGACAAGGTCTGTTATCTTC
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* * * *
25176229 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTC
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
*
25176274 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTC
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* *
25176319 GATCTACTTCGCTAACCATATA-A-GAAGACAAGATCTGCTATCTTT
1 GATCTACTTCACT-GCCA-ATACAGGAAGACAAGATCTGCTATCTTT
** *
25176364 GATCTACTTTGCTGCCAATATAGGAAGACAAGATCTGCTAT-TTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* * * ** *
25176408 CGATCTACTTCGCTGCCAATAAAAGAAGACAAGATCTATTATCTTC
1 -GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* * * *
25176454 GATCTACTTCACTACCCATATAGGAAGACGAGATCTGCTATCTTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
* * *
25176499 AATCTACTT--C-G-CAATATAGGAAGACAAGATCTGCTATATTT
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
25176540 GATCTACTTCACTGCCAATACAGGAAGACAAGA
1 GATCTACTTCACTGCCAATACAGGAAGACAAGA
25176573 CCTGTTCTTT
Statistics
Matches: 495, Mismatches: 64, Indels: 20
0.85 0.11 0.03
Matches are distributed among these distances:
41 35 0.07
43 5 0.01
44 8 0.02
45 438 0.88
46 6 0.01
47 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (45 bp):
GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTT
Found at i:25183481 original size:14 final size:14
Alignment explanation
Indices: 25183462--25183496 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
25183452 CGATTTATTA
25183462 ATAAATTATTAAAT
1 ATAAATTATTAAAT
25183476 ATAAATTATTAAAT
1 ATAAATTATTAAAT
25183490 ATAAATT
1 ATAAATT
25183497 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAAATTATTAAAT
Found at i:25189258 original size:43 final size:43
Alignment explanation
Indices: 25189200--25189445 Score: 173
Period size: 43 Copynumber: 5.8 Consensus size: 43
25189190 TAAATTCAGT
*
25189200 GATACGG-GGAATCAGCACATAGCAATCCCTTTCACAATTAAG
1 GATACGGTGGAATCAGCACATAGCAACCCCTTTCACAATTAAG
* * * * *
25189242 GATTCGGTGGAATCAGCACTTAGTAACCACCTTT-A-TATTCAG
1 GATACGGTGGAATCAGCACATAGCAACC-CCTTTCACAATTAAG
* * * * *
25189284 TGATACGG-GAAATCAACACTTAGCAACCCCATTCACAATTAAA
1 -GATACGGTGGAATCAGCACATAGCAACCCCTTTCACAATTAAG
* * * * *
25189327 AATACGGTGGATTCAGCACATAGCTACCACCTTT-A-TATTCAAT
1 GATACGGTGGAATCAGCACATAGCAACC-CCTTTCACAATT-AAG
* * * * * *
25189370 GCTACGG-GGAATCAACACTTAGCAACCCCTTTCATAGTTAAA
1 GATACGGTGGAATCAGCACATAGCAACCCCTTTCACAATTAAG
* * *
25189412 AATACGGTGGGATCAGCACTTAGCAACCACCTTT
1 GATACGGTGGAATCAGCACATAGCAACC-CCTTT
25189446 AGAGTCAATA
Statistics
Matches: 156, Mismatches: 36, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
41 9 0.06
42 62 0.40
43 71 0.46
44 14 0.09
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
GATACGGTGGAATCAGCACATAGCAACCCCTTTCACAATTAAG
Found at i:25189308 original size:85 final size:85
Alignment explanation
Indices: 25189162--25189486 Score: 391
Period size: 85 Copynumber: 3.8 Consensus size: 85
25189152 ATCCGTTACT
* * * * * * * *
25189162 CGGTGGATTCAGCACTTAGCAACTACC-ATAAATTCAGTGATACGGGGAATCAGCACATAGCAAT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
** *
25189226 CCCTTTCACAATTAAGGATT
66 CCCTTTCACAATTAAAAATA
* * *
25189246 CGGTGGAATCAGCACTTAGTAACCACCTTTATATTCAGTGATACGGGAAATCAACACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
*
25189311 CCCATTCACAATTAAAAATA
66 CCCTTTCACAATTAAAAATA
* * * *
25189331 CGGTGGATTCAGCACATAGCTACCACCTTTATATTCAATGCTACGGGGAATCAACACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
* *
25189396 CCCTTTCATAGTTAAAAATA
66 CCCTTTCACAATTAAAAATA
* * * * * * *
25189416 CGGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCGGGCAATCAGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
25189481 CCCTTT
66 CCCTTT
25189487 TTATTCAATG
Statistics
Matches: 206, Mismatches: 34, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
84 24 0.12
85 182 0.88
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
CCCTTTCACAATTAAAAATA
Found at i:25189332 original size:42 final size:40
Alignment explanation
Indices: 25189201--25189485 Score: 165
Period size: 43 Copynumber: 6.8 Consensus size: 40
25189191 AAATTCAGTG
* * **
25189201 ATACGGGGAATCAGCACATAGCAATCCCTTTCACAATTAAGG
1 ATACGGGGAATCAGCACTTAGCAA-CCCCTTCA-AATTAAAA
* * * * ***
25189243 ATTCGGTGGAATCAGCACTTAGTAACCACCTTTATATTCAGTG
1 ATACGG-GGAATCAGCACTTAGCAACC-CCTTCAAATT-AAAA
* *
25189286 ATACGGGAAATCAACACTTAGCAACCCCATTCACAATTAAAA
1 ATACGGGGAATCAGCACTTAGCAACCCC-TTCA-AATTAAAA
* * * * * **
25189328 ATACGGTGGATTCAGCACATAGCTACCACCTTTATATTCAATG
1 ATACGG-GGAATCAGCACTTAGCAACC-CCTTCAAATT-AAAA
* * *
25189371 CTACGGGGAATCAACACTTAGCAACCCCTTTCATAGTTAAAA
1 ATACGGGGAATCAGCACTTAGCAACCCC-TTCA-AATTAAAA
* * * * *
25189413 ATACGGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATA
1 ATACGG-GGAATCAGCACTTAGCAACC-CCTTCA-AATTAAAA
* *
25189456 ATTCGGGCAATCAGCACTTAGCAACCCCTT
1 ATACGGGGAATCAGCACTTAGCAACCCCTT
25189486 TTTATTCAAT
Statistics
Matches: 185, Mismatches: 46, Indels: 25
0.72 0.18 0.10
Matches are distributed among these distances:
41 8 0.04
42 84 0.45
43 89 0.48
44 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
ATACGGGGAATCAGCACTTAGCAACCCCTTCAAATTAAAA
Found at i:25191209 original size:88 final size:88
Alignment explanation
Indices: 25191060--25191227 Score: 327
Period size: 88 Copynumber: 1.9 Consensus size: 88
25191050 TTCCCGCATC
*
25191060 TAACCATTTCATCATTTCCTTTCTCACAAATTCTTGCATAATAGGATTGAGCCTCCTTTTCCCAT
1 TAACCATTTCATCATTTCCTTTCACACAAATTCTTGCATAATAGGATTGAGCCTCCTTTTCCCAT
25191125 CAATCCGAGCTCTTTTAGAAGAA
66 CAATCCGAGCTCTTTTAGAAGAA
25191148 TAACCATTTCATCATTTCCTTTCACACAAATTCTTGCATAATAGGATTGAGCCTCCTTTTCCCAT
1 TAACCATTTCATCATTTCCTTTCACACAAATTCTTGCATAATAGGATTGAGCCTCCTTTTCCCAT
25191213 CAATCCGAGCTCTTT
66 CAATCCGAGCTCTTT
25191228 CACCTTCTTC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.37
Consensus pattern (88 bp):
TAACCATTTCATCATTTCCTTTCACACAAATTCTTGCATAATAGGATTGAGCCTCCTTTTCCCAT
CAATCCGAGCTCTTTTAGAAGAA
Found at i:25191254 original size:30 final size:30
Alignment explanation
Indices: 25191220--25191280 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
25191210 CATCAATCCG
25191220 AGCTCTTTCACCTTCTTCTAAAATGATTTT
1 AGCTCTTTCACCTTCTTCTAAAATGATTTT
25191250 AGCTCTTTCACCTTCTTCTAAAATGATTTT
1 AGCTCTTTCACCTTCTTCTAAAATGATTTT
25191280 A
1 A
25191281 TGTATGCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.46
Consensus pattern (30 bp):
AGCTCTTTCACCTTCTTCTAAAATGATTTT
Found at i:25192869 original size:12 final size:12
Alignment explanation
Indices: 25192852--25192878 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25192842 ACCCTTGAGA
25192852 TTGGTTGGGTCT
1 TTGGTTGGGTCT
25192864 TTGGTTGGGTCT
1 TTGGTTGGGTCT
25192876 TTG
1 TTG
25192879 CTATAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.41, T:0.52
Consensus pattern (12 bp):
TTGGTTGGGTCT
Found at i:25195743 original size:14 final size:14
Alignment explanation
Indices: 25195724--25195751 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25195714 CCAATTTATT
25195724 AATGAATTATTAAA
1 AATGAATTATTAAA
25195738 AATGAATTATTAAA
1 AATGAATTATTAAA
25195752 TATAATTTTA
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:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:25197401 original size:19 final size:19
Alignment explanation
Indices: 25197377--25197416 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
25197367 TTCTTCTCGA
25197377 AAATGATGATGACCACAGT
1 AAATGATGATGACCACAGT
25197396 AAATGATGATGACCACAGT
1 AAATGATGATGACCACAGT
25197415 AA
1 AA
25197417 CATGCTATAA
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:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (19 bp):
AAATGATGATGACCACAGT
Found at i:25203177 original size:52 final size:50
Alignment explanation
Indices: 25203062--25203179 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
25203052 TAATAAAGTT
* *
25203062 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGCATGCATCATAAATAATGAC
* * *
25203112 ATGCATTATGTAACTCCCATGTTAGTTTAAGCCTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGCATGCATCA-TAAA-TAATGAC
* *
25203164 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
25203180 ATTTGTTCAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 23 0.40
51 12 0.21
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGCATGCATCATAAATAATGAC
Found at i:25207109 original size:13 final size:13
Alignment explanation
Indices: 25207091--25207116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25207081 ACAATATATT
25207091 TATTAATTAAAAA
1 TATTAATTAAAAA
25207104 TATTAATTAAAAA
1 TATTAATTAAAAA
25207117 AAGCTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:25210526 original size:15 final size:15
Alignment explanation
Indices: 25210506--25210535 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25210496 TAATTAGAAG
*
25210506 TCCTTAATTTTAGTT
1 TCCTTAATTATAGTT
25210521 TCCTTAATTATAGTT
1 TCCTTAATTATAGTT
25210536 CTCATTCTTA
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:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (15 bp):
TCCTTAATTATAGTT
Found at i:25211290 original size:29 final size:29
Alignment explanation
Indices: 25211247--25211309 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
25211237 GAATTCATGA
* *
25211247 TTAGAAGCTCCCTTCAACGAGTTCCAAGG
1 TTAGGAGCTCCCTTCAAAGAGTTCCAAGG
* *
25211276 TTAGGAGCTCTCTTCAAAGAGTTCTAAGG
1 TTAGGAGCTCCCTTCAAAGAGTTCCAAGG
25211305 TTAGG
1 TTAGG
25211310 TTCTTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (29 bp):
TTAGGAGCTCCCTTCAAAGAGTTCCAAGG
Found at i:25219275 original size:58 final size:58
Alignment explanation
Indices: 25219206--25219324 Score: 159
Period size: 58 Copynumber: 2.1 Consensus size: 58
25219196 TTCGTCATGA
* * *
25219206 CTTCATTAATCATTATTACGCAATAACCCTTTTAACAATAGGAGTTCA-AGCCTTGGAC
1 CTTCATCAATCATTATTACGCAATAACACTTTTAACAATAGAAGTTCATA-CCTTGGAC
* ** *
25219264 CTTCATCAATCATTATTATGCAATAACACTTTTAGTAGTAGAAGTTCATACCTTGGAC
1 CTTCATCAATCATTATTACGCAATAACACTTTTAACAATAGAAGTTCATACCTTGGAC
25219322 CTT
1 CTT
25219325 AATATTTATA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
58 52 0.98
59 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (58 bp):
CTTCATCAATCATTATTACGCAATAACACTTTTAACAATAGAAGTTCATACCTTGGAC
Found at i:25226154 original size:27 final size:28
Alignment explanation
Indices: 25226084--25226161 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
25226074 GCTAGTTTGA
* * *
25226084 ATATATAATCGATTTTGCCACCTAAATG
1 ATATATGATCGACTCTGCCACCTAAATG
25226112 ATATATGATCGACTCTGCCACCTAAATG
1 ATATATGATCGACTCTGCCACCTAAATG
* * *
25226140 -TATATGGTCGGCTCTGCTACCT
1 ATATATGATCGACTCTGCCACCT
25226162 GGGTATTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 19 0.43
28 25 0.57
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (28 bp):
ATATATGATCGACTCTGCCACCTAAATG
Found at i:25232032 original size:24 final size:26
Alignment explanation
Indices: 25232000--25232055 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
25231990 TAATAAAAAG
*
25232000 TTTTTTTTAATT-AAAAAAC-TTAAC
1 TTTTTTTTAATTAAAAAAACGTGAAC
*
25232024 TTTTTTTTACTTAAAAAAACGTGAAC
1 TTTTTTTTAATTAAAAAAACGTGAAC
25232050 TTTTTT
1 TTTTTT
25232056 AATCTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 11 0.39
25 7 0.25
26 10 0.36
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (26 bp):
TTTTTTTTAATTAAAAAAACGTGAAC
Found at i:25236446 original size:25 final size:25
Alignment explanation
Indices: 25236418--25236486 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 25
25236408 CCCGATATAT
25236418 GGCTCTTTGGAGCTTCCTAATTAAA
1 GGCTCTTTGGAGCTTCCTAATTAAA
* * * *
25236443 GGCTCTTTCATGAACTTCCTGATTAAT
1 GGCTCTTT--GGAGCTTCCTAATTAAA
**
25236470 GGCTCTCCGGAGCTTCC
1 GGCTCTTTGGAGCTTCC
25236487 CGATATTGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
25 15 0.44
27 19 0.56
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (25 bp):
GGCTCTTTGGAGCTTCCTAATTAAA
Found at i:25241044 original size:22 final size:22
Alignment explanation
Indices: 25241018--25241085 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 22
25241008 GAAAACATTT
25241018 AAAAATAATAATTTTAAAAAAATA
1 AAAAAT-AT-ATTTTAAAAAAATA
*
25241042 AAAAATATATTTAAAAAAAATA
1 AAAAATATATTTTAAAAAAATA
*
25241064 AAAAATATCTTTTAAAAAAATA
1 AAAAATATATTTTAAAAAAATA
25241086 TCTTCAATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 33 0.80
23 2 0.05
24 6 0.15
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATATATTTTAAAAAAATA
Found at i:25251510 original size:73 final size:74
Alignment explanation
Indices: 25251421--25251566 Score: 240
Period size: 73 Copynumber: 2.0 Consensus size: 74
25251411 GGCAAACTTA
* *
25251421 AAAATTATTACGATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGGC-AAAGAAATAAAAC
1 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGCCAAAAGAAATAAAAC
25251485 ATAACATTG
66 ATAACATTG
* **
25251494 AAAATTATTACCATCACCATGATAGTGCTTAGAAGAAACCAAGAAATAGCCAAAAGAAATAATGC
1 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGCCAAAAGAAATAAAAC
25251559 ATAACATT
66 ATAACATT
25251567 ACCACTGATG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 48 0.72
74 19 0.28
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (74 bp):
AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGCCAAAAGAAATAAAAC
ATAACATTG
Found at i:25252388 original size:2 final size:2
Alignment explanation
Indices: 25252383--25252411 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25252373 AGAGAAGAAA
25252383 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
25252412 ATGAGCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25254379 original size:22 final size:24
Alignment explanation
Indices: 25254336--25254379 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
25254326 ATTATATTGT
*
25254336 TAAATTGATATTTATAAATATTTA
1 TAAATTGATATTTAGAAATATTTA
*
25254360 TAAATT-A-ATTTAGAATTATT
1 TAAATTGATATTTAGAAATATT
25254380 AATTATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
TAAATTGATATTTAGAAATATTTA
Found at i:25254535 original size:18 final size:19
Alignment explanation
Indices: 25254491--25254535 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25254481 AAAAAATTCT
*
25254491 TAATTATTTTTATTTGTTA
1 TAATTATTTTTATTTGTCA
*
25254510 TAAGTATTTTTATTT-TCA
1 TAATTATTTTTATTTGTCA
*
25254528 TATTTATT
1 TAATTATT
25254536 AACCAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TAATTATTTTTATTTGTCA
Found at i:25258445 original size:25 final size:25
Alignment explanation
Indices: 25258411--25258461 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25258401 CTTAAAGGAC
25258411 ACTTTCAGTTTAATACATACTTACT
1 ACTTTCAGTTTAATACATACTTACT
25258436 ACTTTCAGTTTAATACATACTTACT
1 ACTTTCAGTTTAATACATACTTACT
25258461 A
1 A
25258462 TTTGATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (25 bp):
ACTTTCAGTTTAATACATACTTACT
Found at i:25259995 original size:36 final size:36
Alignment explanation
Indices: 25259942--25260014 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
25259932 CACTTTCCAT
*
25259942 TTTGCCTCATTGGCAACACTTTCAAAACT-TGTTGGG
1 TTTGCCTCATTGACAACACTTTCAAAA-TATGTTGGG
*
25259978 TTTGCCTTATTGACAACACTTTCAAAATATGTTGGG
1 TTTGCCTCATTGACAACACTTTCAAAATATGTTGGG
25260014 T
1 T
25260015 CACAATATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (36 bp):
TTTGCCTCATTGACAACACTTTCAAAATATGTTGGG
Found at i:25262549 original size:48 final size:46
Alignment explanation
Indices: 25262483--25262572 Score: 128
Period size: 48 Copynumber: 1.9 Consensus size: 46
25262473 ATATTTATCA
* *
25262483 AGATAAATATTAGATTAAATTTAAA-ATTAAATCTTATTAAAATAATGT
1 AGATAAACATTAAATTAAA-TTAAATATTAAA--TTATTAAAATAATGT
25262531 AGATAAACATTAAATTAAATTAAATATTAAATTATTAAAATA
1 AGATAAACATTAAATTAAATTAAATATTAAATTATTAAAATA
25262573 TTATTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 11 0.28
47 5 0.13
48 23 0.59
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (46 bp):
AGATAAACATTAAATTAAATTAAATATTAAATTATTAAAATAATGT
Found at i:25263144 original size:11 final size:11
Alignment explanation
Indices: 25263130--25263159 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
25263120 TATTATTTTT
25263130 TATTTTTAAAA
1 TATTTTTAAAA
25263141 TATTTTTAAAA
1 TATTTTTAAAA
25263152 TACTTTTT
1 TA-TTTTT
25263160 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:25269545 original size:18 final size:17
Alignment explanation
Indices: 25269518--25269571 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
25269508 AGTGAATGAA
*
25269518 AAAGTGAATTTGATATTG
1 AAAGTAAATTTGA-ATTG
*
25269536 AAAGTAAATTTTGAAATG
1 AAAGTAAA-TTTGAATTG
*
25269554 AAAGTAAGTTTGAATTG
1 AAAGTAAATTTGAATTG
25269571 A
1 A
25269572 GAACTGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 9 0.29
18 17 0.55
19 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.35
Consensus pattern (17 bp):
AAAGTAAATTTGAATTG
Found at i:25269567 original size:17 final size:18
Alignment explanation
Indices: 25269534--25269567 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25269524 AATTTGATAT
*
25269534 TGAAAGTAAATTTTGAAA
1 TGAAAGTAAAGTTTGAAA
25269552 TGAAAGT-AAGTTTGAA
1 TGAAAGTAAAGTTTGAA
25269568 TTGAGAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (18 bp):
TGAAAGTAAAGTTTGAAA
Found at i:25269784 original size:38 final size:36
Alignment explanation
Indices: 25269663--25269786 Score: 97
Period size: 38 Copynumber: 3.2 Consensus size: 36
25269653 TGACCTCGAG
*
25269663 TCGATGAGACACTAGGTGTCACTATTTTACTTCAGA-TAGAT
1 TCGATGAGACACTGGGTGTCAC---TTTACTTC-GACT--AT
* * * *
25269704 TCGATGAGATACTGGGTGTCACTTTACTTTGGCTAGG
1 TCGATGAGACACTGGGTGTCACTTTACTTCGACTA-T
* *
25269741 CCGATGAGACACTGGGTGTCAACTTTGCTTCGAACTAT
1 TCGATGAGACACTGGGTGTC-ACTTTACTTCG-ACTAT
25269779 TCGATGAG
1 TCGATGAG
25269787 GCACCCAGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
36 1 0.01
37 19 0.28
38 24 0.36
39 3 0.04
41 20 0.30
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (36 bp):
TCGATGAGACACTGGGTGTCACTTTACTTCGACTAT
Found at i:25278436 original size:34 final size:34
Alignment explanation
Indices: 25278359--25278439 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
25278349 CTGTACTATG
* *
25278359 ATGGGCTAAAGCCCTAATGCTTACTGTTACCGAA
1 ATGGGCTAAGGCCCTAATACTTACTGTTACCGAA
*
25278393 ATGGGCTAAGGCCCTAATACTTACTGTTACTGAA
1 ATGGGCTAAGGCCCTAATACTTACTGTTACCGAA
25278427 ATGGGCTAAGGCC
1 ATGGGCTAAGGCC
25278440 TAAACTGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (34 bp):
ATGGGCTAAGGCCCTAATACTTACTGTTACCGAA
Found at i:25283436 original size:25 final size:25
Alignment explanation
Indices: 25283383--25283451 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
25283373 GACTCACCAT
* * *
25283383 AGCTCGTATGAGTTTACCGATTTGT
1 AGCTCGTAGGAGCTTACCGATTTGC
25283408 AGCTCGTAGGAGCTTACCGATATT-C
1 AGCTCGTAGGAGCTTACCGAT-TTGC
* *
25283433 AGCTCGGAGGAACTTACCG
1 AGCTCGTAGGAGCTTACCG
25283452 TTTATCGCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (25 bp):
AGCTCGTAGGAGCTTACCGATTTGC
Found at i:25285278 original size:46 final size:46
Alignment explanation
Indices: 25285225--25285318 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
25285215 CATGTTGATA
25285225 ACCAAGTTGATGGCATTGATGAAGATTTAGAATTTTACAAATATCC
1 ACCAAGTTGATGGCATTGATGAAGATTTAGAATTTTACAAATATCC
25285271 ACCAAGTTGATGGCATTGATGAAGATTTAGAATTTTACAAATATCC
1 ACCAAGTTGATGGCATTGATGAAGATTTAGAATTTTACAAATATCC
25285317 AC
1 AC
25285319 GAATCAAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (46 bp):
ACCAAGTTGATGGCATTGATGAAGATTTAGAATTTTACAAATATCC
Found at i:25285589 original size:47 final size:45
Alignment explanation
Indices: 25285538--25285663 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 45
25285528 CATCATATTT
*
25285538 TAATTAATTTAAGTTAATTAAGAGATAAATAATAATTATATTATCAC
1 TAATTAA-TTAAATTAATTAA-AGATAAATAATAATTATATTATCAC
* * * *
25285585 TAATTAAATTAAAATAATTAAATGATAATAAAAATAATTATTTTATCTC
1 TAATT-AATTAAATTAATTAAA-GAT-A-AATAATAATTATATTATCAC
*
25285634 TAATTAATTAAATGAA-TAATAGATAAATAA
1 TAATTAATTAAATTAATTAA-AGATAAATAA
25285664 CAAATAAAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
45 4 0.06
46 2 0.03
47 25 0.38
48 13 0.20
49 22 0.33
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (45 bp):
TAATTAATTAAATTAATTAAAGATAAATAATAATTATATTATCAC
Found at i:25285614 original size:14 final size:14
Alignment explanation
Indices: 25285566--25285615 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
25285556 TAAGAGATAA
*
25285566 ATAATAATTATATT
1 ATAATAATTAAATT
*
25285580 ATCACTAATTAAATT
1 AT-AATAATTAAATT
* *
25285595 AAAATAATTAAATG
1 ATAATAATTAAATT
25285609 ATAATAA
1 ATAATAA
25285616 AAATAATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (14 bp):
ATAATAATTAAATT
Found at i:25288523 original size:13 final size:13
Alignment explanation
Indices: 25288507--25288534 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25288497 CCTATATATA
25288507 AAAGCTATCCCTC
1 AAAGCTATCCCTC
25288520 AAAGCTATCCCTC
1 AAAGCTATCCCTC
25288533 AA
1 AA
25288535 CAAATTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.21
Consensus pattern (13 bp):
AAAGCTATCCCTC
Found at i:25293339 original size:124 final size:124
Alignment explanation
Indices: 25293119--25293344 Score: 389
Period size: 124 Copynumber: 1.8 Consensus size: 124
25293109 TAATTTCGAG
* *
25293119 TTGACTTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTCGAGAAGAATTTGTG
1 TTGACTTTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTCGAGAAGAATTTGTG
*
25293184 AAATAGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTT
66 AAATAGCGGCCTCATGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTT
*
25293243 TTGACTTTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACTTTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTCGAGAAGAATTTGTG
* * *
25293308 AAATCGTGGCCTCATGGGCGCGCTTTTGCTACAGTAG
66 AAATAGCGGCCTCATGGACGCGCTTTTGCTACAGTAG
25293345 CATGTTTGGG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 95 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (124 bp):
TTGACTTTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTCGAGAAGAATTTGTG
AAATAGCGGCCTCATGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTT
Found at i:25293890 original size:19 final size:19
Alignment explanation
Indices: 25293866--25293972 Score: 109
Period size: 19 Copynumber: 5.7 Consensus size: 19
25293856 TCAAATTATA
*
25293866 TAAAATTATTAATGGTTAG
1 TAAAATTATAAATGGTTAG
25293885 TAAAATTATCAAAT--TATA-
1 TAAAATTAT-AAATGGT-TAG
*
25293903 TAAAATTATTAATGGTTAG
1 TAAAATTATAAATGGTTAG
25293922 TAAAATTATCAAAT--TATA-
1 TAAAATTAT-AAATGGT-TAG
25293940 TAAAATTATAAATGGTTAG
1 TAAAATTATAAATGGTTAG
25293959 TAAAATTATCAAAT
1 TAAAATTAT-AAAT
25293973 TATATAAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 21
0.76 0.03 0.21
Matches are distributed among these distances:
17 7 0.09
18 24 0.32
19 33 0.45
20 10 0.14
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (19 bp):
TAAAATTATAAATGGTTAG
Found at i:25293892 original size:37 final size:37
Alignment explanation
Indices: 25293849--25293983 Score: 261
Period size: 37 Copynumber: 3.6 Consensus size: 37
25293839 AGCGGGTTAC
25293849 AAAATTATCAAATTATATAAAATTATTAATGGTTAGT
1 AAAATTATCAAATTATATAAAATTATTAATGGTTAGT
25293886 AAAATTATCAAATTATATAAAATTATTAATGGTTAGT
1 AAAATTATCAAATTATATAAAATTATTAATGGTTAGT
*
25293923 AAAATTATCAAATTATATAAAATTATAAATGGTTAGT
1 AAAATTATCAAATTATATAAAATTATTAATGGTTAGT
25293960 AAAATTATCAAATTATATAAAATT
1 AAAATTATCAAATTATATAAAATT
25293984 GGGTTTGGGT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (37 bp):
AAAATTATCAAATTATATAAAATTATTAATGGTTAGT
Found at i:25294027 original size:29 final size:28
Alignment explanation
Indices: 25293988--25294171 Score: 225
Period size: 29 Copynumber: 6.6 Consensus size: 28
25293978 AAAATTGGGT
*
25293988 TTGGGTGAGGGTTAGGGTTTTTAATTGAA
1 TTGGGTTAGGGTTAGGGTTTTTAATT-AA
25294017 TTGGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTGGGTTAGGGTTAGGGTTTTTAATT-AA
* *
25294046 TTAGGTTAGGGTTACGGTTTTTAATTGAA
1 TTGGGTTAGGGTTAGGGTTTTTAATT-AA
25294075 TTGGGTTAGGGTTAGGGTTTTTAATTAA
1 TTGGGTTAGGGTTAGGGTTTTTAATTAA
* * *
25294103 GTTTGGTCAAGGTTAGGGTTTTTAATTAA
1 -TTGGGTTAGGGTTAGGGTTTTTAATTAA
25294132 ----GTTA-GGTTAGGGTTTTTAATTAAA
1 TTGGGTTAGGGTTAGGGTTTTTAATT-AA
*
25294156 TTTGGTTAGGGTTAGG
1 TTGGGTTAGGGTTAGG
25294172 AATAATCTTC
Statistics
Matches: 137, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
23 17 0.12
24 5 0.04
28 6 0.04
29 109 0.80
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.45
Consensus pattern (28 bp):
TTGGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:25294085 original size:58 final size:58
Alignment explanation
Indices: 25293995--25294171 Score: 267
Period size: 58 Copynumber: 3.2 Consensus size: 58
25293985 GGTTTGGGTG
*
25293995 AGGGTTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTAAATTTGGTT
* * *
25294053 AGGGTTACGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTTGGTC
1 AGGGTTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTAAATTTGGTT
*
25294111 AAGGTTAGGGTTTTTAATT-AA----GTTA-GGTTAGGGTTTTTAATTAAATTTGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTAAATTTGGTT
25294163 AGGGTTAGG
1 AGGGTTAGG
25294172 AATAATCTTC
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
52 33 0.30
53 4 0.04
57 2 0.02
58 71 0.65
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.45
Consensus pattern (58 bp):
AGGGTTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTAAATTTGGTT
Found at i:25294162 original size:23 final size:23
Alignment explanation
Indices: 25294112--25294168 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
25294102 AGTTTGGTCA
*
25294112 AGGTTAGGGTTTTTAATTAAGTT
1 AGGTTAGGGTTTTTAATTAAATT
25294135 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
25294158 TGGTTAGGGTT
1 AGGTTAGGGTT
25294169 AGGAATAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:25295379 original size:7 final size:7
Alignment explanation
Indices: 25295367--25295392 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25295357 TATACATAAT
25295367 AATACTA
1 AATACTA
25295374 AATACTA
1 AATACTA
25295381 AATACTA
1 AATACTA
25295388 AATAC
1 AATAC
25295393 CAATCAACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:25296601 original size:22 final size:22
Alignment explanation
Indices: 25296573--25296617 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
25296563 GGATTTGAGG
25296573 GAATTTTGGAAGGAAATTAAGA
1 GAATTTTGGAAGGAAATTAAGA
*
25296595 GAATTTTGGAAGGAAATTGAGA
1 GAATTTTGGAAGGAAATTAAGA
25296617 G
1 G
25296618 GAAATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (22 bp):
GAATTTTGGAAGGAAATTAAGA
Found at i:25296608 original size:73 final size:73
Alignment explanation
Indices: 25296531--25296697 Score: 282
Period size: 73 Copynumber: 2.3 Consensus size: 73
25296521 TATTTTAAAA
*
25296531 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGGGAATTTTGGAAGGAAATTAAGAG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
25296596 AATTTTGG
66 AATTTTGG
* *
25296604 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
25296669 AATTTTGG
66 AATTTTGG
**
25296677 AAAAAAATTGAGAGG-AATTGA
1 AAGGAAATTGAGAGGAAATTGA
25296698 GAGGAAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 6 0.07
73 83 0.93
ACGTcount: A:0.44, C:0.01, G:0.28, T:0.27
Consensus pattern (73 bp):
AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
AATTTTGG
Found at i:25296665 original size:22 final size:22
Alignment explanation
Indices: 25296640--25296695 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
25296630 AAATATGGAT
**
25296640 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAAAAA
25296662 TTGAGAGAATTTTGGAAAAAAA
1 TTGAGAGAATTTTGGAAAAAAA
25296684 TTGAGAGGAATT
1 TTGAGA-GAATT
25296696 GAGAGGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAAAAA
Found at i:25297190 original size:30 final size:30
Alignment explanation
Indices: 25297148--25297220 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
25297138 TATTTATATA
* *
25297148 AATTAAAGATTAAAGATTTATTTGGATAC-
1 AATTAAAAATTAAAGACTTATTTGGATACT
* *
25297177 AAGTTAAAAATTAATGGCTTATTTGGATACT
1 AA-TTAAAAATTAAAGACTTATTTGGATACT
*
25297208 AATTAAAATTTAA
1 AATTAAAAATTAA
25297221 GGGCTTGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.05
30 33 0.89
31 2 0.05
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.38
Consensus pattern (30 bp):
AATTAAAAATTAAAGACTTATTTGGATACT
Found at i:25297226 original size:30 final size:30
Alignment explanation
Indices: 25297165--25297226 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
25297155 GATTAAAGAT
*
25297165 TTATTTGGATACAAGTTAAAAATTAATGGC
1 TTATTTGGATACAAGTTAAAAATTAAGGGC
*
25297195 TTATTTGGATACTAA-TTAAAATTTAAGGGC
1 TTATTTGGATAC-AAGTTAAAAATTAAGGGC
25297225 TT
1 TT
25297227 GTTTAAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.40
Consensus pattern (30 bp):
TTATTTGGATACAAGTTAAAAATTAAGGGC
Found at i:25302537 original size:20 final size:20
Alignment explanation
Indices: 25302512--25302564 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
25302502 AAAAAGTTAA
25302512 AAAAATTCAAAATAAATTTC
1 AAAAATTCAAAATAAATTTC
*
25302532 AAAAATTCAAAAT-AATTTT
1 AAAAATTCAAAATAAATTTC
* *
25302551 TAAAATACAAAATA
1 AAAAATTCAAAATA
25302565 TTTATAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATTCAAAATAAATTTC
Found at i:25302575 original size:19 final size:19
Alignment explanation
Indices: 25302513--25302575 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
25302503 AAAAGTTAAA
*
25302513 AAAATTCAAAATAAATTTCA-
1 AAAATACAAAAT-AATTT-AT
* *
25302533 AAAATTCAAAATAATTTTT
1 AAAATACAAAATAATTTAT
25302552 AAAATACAAAAT-ATTTAT
1 AAAATACAAAATAATTTAT
25302570 AGAAAT
1 A-AAAT
25302576 TCCAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 6 0.16
19 20 0.53
20 12 0.32
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATACAAAATAATTTAT
Found at i:25305508 original size:7 final size:7
Alignment explanation
Indices: 25305498--25305530 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
25305488 TTGGGGTAGA
25305498 TGGGAGG
1 TGGGAGG
25305505 TGGGAGG
1 TGGGAGG
25305512 TGGGAGG
1 TGGGAGG
25305519 TGGGAGG
1 TGGGAGG
*
25305526 GGGGA
1 TGGGA
25305531 TGGAAAGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.73, T:0.12
Consensus pattern (7 bp):
TGGGAGG
Found at i:25310078 original size:43 final size:45
Alignment explanation
Indices: 25309973--25310095 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 45
25309963 ATCCGTAACT
*
25309973 CGGTGG-ATTCAGCACTTAGCAACCACC-TTAAATTC-AGTGATTA
1 CGGTGGAATT-AGCACTTAGCAACCACCTTTAAAGTCAAGTGATTA
* * *
25310016 CGG-GGAATCAGCACATAGCAACC-CCTTTCATAGTCAAG-GA-TA
1 CGGTGGAATTAGCACTTAGCAACCACCTTT-AAAGTCAAGTGATTA
25310058 CGGTGGAATTAGCACTTAGCAACCACCTTTAAAGTCAA
1 CGGTGGAATTAGCACTTAGCAACCACCTTTAAAGTCAA
25310096 TAATTTTGGG
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.03
42 22 0.33
43 36 0.54
44 7 0.10
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (45 bp):
CGGTGGAATTAGCACTTAGCAACCACCTTTAAAGTCAAGTGATTA
Found at i:25312820 original size:363 final size:362
Alignment explanation
Indices: 25312113--25312841 Score: 1212
Period size: 363 Copynumber: 2.0 Consensus size: 362
25312103 ACATTGGCTC
* *
25312113 AATATTGTTATGTTGAGCCCAATTTAGGTAGTAATTTCAGGCCCGTTGTTCTCAGCCTGTTTCGG
1 AATATTGTTATGTTGAGCCCAATTTAGGTAGTAATTTCAAGCCCGTTCTTCTCAGCCTGTTTCGG
25312178 CCCAATATTGTTACGCTGAGCGTGATCCACATAATTCATTAGGGTTTGGGTCTGCTCATGTTTCT
66 CCCAATATTGTTACGCTGAGCGTGATCCACATAATTCATTAGGGTTTGGGTCTGCTCATGTTTCT
25312243 TTCTTACCGTCTGCTCGTGCCTTTTCTTCTACCATTTTTTGGTGGTTCATTTTCCCGTGTCCCCT
131 TTCTTACCGTCTGCTCGTGCCTTTTCTTCTACCATTTTTTGGTGGTTCATTTTCCCGTGTCCCCT
* *
25312308 CATCTCCCCTTAATGTCTCTTCATCTCAACCTTTCAACTCTTTAGGGTCCATATCTAGTTTTGTT
196 CATCTCCCCCTAATGTCTCTTCATCTCAACCTTTCAACTCTTTAGGGTCCATATCTAGTTTTATT
* *
25312373 TCTAGAGTGCTATATGCAGATTACAACGGTTCTTATTCTCACGGAAACATTGTTGCGACGGTTGC
261 TCTAGAGTGCCATATGCAGATTACAACGGTTCTTACTCTCACGGAAACATTGTTGCGACGGTTGC
* *
25312438 TACTTGTCGAACAGTTATCGATTAGGCATGGTATCCT
326 TACTTATCGAACAGTTATCGATTAAGCATGGTATCCT
*
25312475 AATATTGTTATGTTGAGCCCAATTTAGGTAGTAATTTTCAAGCCCGTTCTTCTTAGCCTGTTTCG
1 AATATTGTTATGTTGAGCCCAATTTAGGTAGTAA-TTTCAAGCCCGTTCTTCTCAGCCTGTTTCG
**
25312540 GCCCAATATTGTTACGCTGAGCGTGATCCACATAATTCATTAGGGTTTGGGTCTGCTTGTGTTTC
65 GCCCAATATTGTTACGCTGAGCGTGATCCACATAATTCATTAGGGTTTGGGTCTGCTCATGTTTC
*
25312605 TTTCTTACCGTCTGCTCGTGCCTTTTCTTCTACCATTTTTTGGTGGGTT-ATTTTCCCGTGTCTC
130 TTTCTTACCGTCTGCTCGTGCCTTTTCTTCTACCATTTTTTGGT-GGTTCATTTTCCCGTGTCCC
* * **
25312669 CTCATCTCCCCCTAATGTCTCTTTATCTCCA-CTGCTT-AACTCTTTAGGGTCTGTATCTAGTTT
194 CTCATCTCCCCCTAATGTCTCTTCATCTCAACCT--TTCAACTCTTTAGGGTCCATATCTAGTTT
* * *
25312732 TATTTCTAGAGTGCCATATGCAGATTACAATGGTTTTTACTCTCACGGAAACATTGTTGCGATGG
257 TATTTCTAGAGTGCCATATGCAGATTACAACGGTTCTTACTCTCACGGAAACATTGTTGCGACGG
**
25312797 TTGCTACTTATCGAATGGTTATCGATTAAGCATGGTATCCT
322 TTGCTACTTATCGAACAGTTATCGATTAAGCATGGTATCCT
25312838 AATA
1 AATA
25312842 GTGGTGCTAT
Statistics
Matches: 342, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
362 36 0.11
363 300 0.88
364 6 0.02
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (362 bp):
AATATTGTTATGTTGAGCCCAATTTAGGTAGTAATTTCAAGCCCGTTCTTCTCAGCCTGTTTCGG
CCCAATATTGTTACGCTGAGCGTGATCCACATAATTCATTAGGGTTTGGGTCTGCTCATGTTTCT
TTCTTACCGTCTGCTCGTGCCTTTTCTTCTACCATTTTTTGGTGGTTCATTTTCCCGTGTCCCCT
CATCTCCCCCTAATGTCTCTTCATCTCAACCTTTCAACTCTTTAGGGTCCATATCTAGTTTTATT
TCTAGAGTGCCATATGCAGATTACAACGGTTCTTACTCTCACGGAAACATTGTTGCGACGGTTGC
TACTTATCGAACAGTTATCGATTAAGCATGGTATCCT
Found at i:25314168 original size:40 final size:40
Alignment explanation
Indices: 25314086--25314168 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
25314076 AATAATTGAA
* **
25314086 TGATTGCACATACGTGTCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAATACCCC
*
25314126 TGATTGCACATACGTG-CCTCTATTTGTACTTCAATACTCC
1 TGATTGCACATACGTGTCC-CTATTTGTACTTCAATACCCC
25314166 TGA
1 TGA
25314169 ACTCATTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGTCCCTATTTGTACTTCAATACCCC
Found at i:25314968 original size:42 final size:42
Alignment explanation
Indices: 25314881--25314977 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
25314871 ATGGTACAAG
* * ***
25314881 TTAGTGAGTTACATGGCCTAGTACATGGGCGTGTGGGGTAGC
1 TTAGAGAGTTACATGGCCTAGCACATGGGCGTGTGCCCTAGC
* *
25314923 TTAGAGAGTTACATGGCCTGGCACATGGGTGTGTGACCCTA-C
1 TTAGAGAGTTACATGGCCTAGCACATGGGCGTGTG-CCCTAGC
25314965 TTAGAGAGTTACA
1 TTAGAGAGTTACA
25314978 CAGGCGAAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (42 bp):
TTAGAGAGTTACATGGCCTAGCACATGGGCGTGTGCCCTAGC
Found at i:25347625 original size:18 final size:18
Alignment explanation
Indices: 25347602--25347637 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25347592 ACACAAATGG
*
25347602 AATCAATAATAACTTGAT
1 AATCAATAATAACATGAT
25347620 AATCAATAATAACATGAT
1 AATCAATAATAACATGAT
25347638 TGGCGAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
AATCAATAATAACATGAT
Found at i:25349814 original size:54 final size:54
Alignment explanation
Indices: 25349704--25349823 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
25349694 TTGCAAGTGG
* * *
25349704 GTTCACCAGTCTGTTTGGCGAGCTAGTGTTTTCCAGTTAAGTTGCAAATTGAAA
1 GTTCACCAGTCTATTTGGCGAGCTAGTGTTTACCAGTTAAGTTGCAAATAGAAA
* * * *
25349758 GTTCACTAGTCTATTTGGCGAGCTAGTGTTTACTAGTTGAGTTGCGAACTAG-AA
1 GTTCACCAGTCTATTTGGCGAGCTAGTGTTTACCAGTTAAGTTGC-AAATAGAAA
25349812 GTTCACCAGTCT
1 GTTCACCAGTCT
25349824 GTTTAGCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 53 0.93
55 4 0.07
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (54 bp):
GTTCACCAGTCTATTTGGCGAGCTAGTGTTTACCAGTTAAGTTGCAAATAGAAA
Found at i:25356102 original size:12 final size:12
Alignment explanation
Indices: 25356085--25356109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25356075 ATAGGCTTCC
25356085 AAAATGGAAATG
1 AAAATGGAAATG
25356097 AAAATGGAAATG
1 AAAATGGAAATG
25356109 A
1 A
25356110 TTCATTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:25360125 original size:27 final size:27
Alignment explanation
Indices: 25360067--25360129 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
25360057 TATTAGAGCT
* * *
25360067 CATCTTGCATGTCTTGAATCCATTTTG
1 CATCTTGCATGGCTTGAATCCATTCTA
*
25360094 TATCTTGCATGGCTTGAATCCATTCTA
1 CATCTTGCATGGCTTGAATCCATTCTA
25360121 CATCTTGCA
1 CATCTTGCA
25360130 AAGCATCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (27 bp):
CATCTTGCATGGCTTGAATCCATTCTA
Found at i:25360562 original size:34 final size:34
Alignment explanation
Indices: 25360524--25360633 Score: 96
Period size: 34 Copynumber: 3.2 Consensus size: 34
25360514 TAGTGAGAGT
25360524 TTGCATATAAACACAACACGCACATTGTCACAGC
1 TTGCATATAAACACAACACGCACATTGTCACAGC
** ** * * *
25360558 TTGCATATTTACACGGTC-CACACATTGACACAGT
1 TTGCATATAAACAC-AACACGCACATTGTCACAGC
* * * *
25360592 TTACATATAAACACAACATGCACATTATCACAGG
1 TTGCATATAAACACAACACGCACATTGTCACAGC
*
25360626 TAGCATAT
1 TTGCATAT
25360634 TTACACAATC
Statistics
Matches: 55, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
33 1 0.02
34 53 0.96
35 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (34 bp):
TTGCATATAAACACAACACGCACATTGTCACAGC
Found at i:25360632 original size:68 final size:68
Alignment explanation
Indices: 25360521--25360674 Score: 218
Period size: 68 Copynumber: 2.3 Consensus size: 68
25360511 TTATAGTGAG
* * **
25360521 AGTTTGCATATAAACACAACACGCACATTGTCACAGCTTGCATATTTACACGGTCCACACATTGA
1 AGTTTGCATATAAACACAACACGCACATTATCACAGCTAGCATATTTACACAATCCACACATTGA
*
25360586 CAC
66 AAC
* * *
25360589 AGTTTACATATAAACACAACATGCACATTATCACAGGTAGCATATTTACACAATCCACACATTGA
1 AGTTTGCATATAAACACAACACGCACATTATCACAGCTAGCATATTTACACAATCCACACATTGA
*
25360654 AAT
66 AAC
*
25360657 AGTTTGCATATGAACACA
1 AGTTTGCATATAAACACA
25360675 GTTAGCATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 75 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (68 bp):
AGTTTGCATATAAACACAACACGCACATTATCACAGCTAGCATATTTACACAATCCACACATTGA
AAC
Found at i:25360650 original size:34 final size:34
Alignment explanation
Indices: 25360544--25360651 Score: 80
Period size: 34 Copynumber: 3.2 Consensus size: 34
25360534 ACACAACACG
* * **
25360544 CACATTGTCACAGCTTGCATATTTACACGGTCCA
1 CACATTATCACAGCTAGCATATTTACACAATCCA
* **
25360578 CACATTGA-CACAGTTTA-CATATAAACACAA--CA
1 CACATT-ATCACAG-CTAGCATATTTACACAATCCA
*
25360610 TGCACATTATCACAGGTAGCATATTTACACAATCCA
1 --CACATTATCACAGCTAGCATATTTACACAATCCA
25360646 CACATT
1 CACATT
25360652 GAAATAGTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
32 2 0.04
33 3 0.05
34 48 0.86
35 1 0.02
36 2 0.04
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (34 bp):
CACATTATCACAGCTAGCATATTTACACAATCCA
Found at i:25360745 original size:17 final size:17
Alignment explanation
Indices: 25360662--25360745 Score: 78
Period size: 17 Copynumber: 4.9 Consensus size: 17
25360652 GAAATAGTTT
* *
25360662 GCATATGAACACAGTTA
1 GCATATAAACACAGCTA
* *
25360679 GCATATAAACATAGCTC
1 GCATATAAACACAGCTA
* * * * *
25360696 TCTTATAAATACAACTT
1 GCATATAAACACAGCTA
*
25360713 GCATATAAACAAAGCTA
1 GCATATAAACACAGCTA
25360730 GCATATAAACACAGCT
1 GCATATAAACACAGCT
25360746 CGTATATAAG
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (17 bp):
GCATATAAACACAGCTA
Found at i:25362930 original size:19 final size:19
Alignment explanation
Indices: 25362906--25362953 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
25362896 ATTAACAACA
25362906 CTTTTTCAGTGACACGACC
1 CTTTTTCAGTGACACGACC
25362925 CTTTTTCAGTGACACGACC
1 CTTTTTCAGTGACACGACC
25362944 CTTTTTCAGT
1 CTTTTTCAGT
25362954 CATCGAGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.38
Consensus pattern (19 bp):
CTTTTTCAGTGACACGACC
Found at i:25364969 original size:20 final size:20
Alignment explanation
Indices: 25364934--25364974 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25364924 TCAGCTCCAA
* *
25364934 TCAGCTCACTTGAGCTTAAT
1 TCAGCTCACTTAAGCTCAAT
*
25364954 TCAGCTCATTTAAGCTCAAT
1 TCAGCTCACTTAAGCTCAAT
25364974 T
1 T
25364975 TAAATTACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (20 bp):
TCAGCTCACTTAAGCTCAAT
Found at i:25366456 original size:24 final size:23
Alignment explanation
Indices: 25366429--25366481 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
25366419 TATATGAAGT
25366429 AAAAAAAAAAGAAATTC-AAGTTAA
1 AAAAAAAAAAGAAATTCGAA--TAA
* *
25366453 AAAAAAGAGAGAAATTCGAATAA
1 AAAAAAAAAAGAAATTCGAATAA
25366476 AAAAAA
1 AAAAAA
25366482 GAGTGAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 9 0.35
24 15 0.58
25 2 0.08
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (23 bp):
AAAAAAAAAAGAAATTCGAATAA
Found at i:25366476 original size:23 final size:23
Alignment explanation
Indices: 25366425--25366484 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
25366415 AAAATATATG
25366425 AAGTAAAAAAAA-A-AGAAATTC
1 AAGTAAAAAAAAGAGAGAAATTC
25366446 AAGTTAAAAAAAAGAGAGAAATTC
1 AAG-TAAAAAAAAGAGAGAAATTC
25366470 GAA-TAAAAAAAAGAG
1 -AAGTAAAAAAAAGAG
25366485 TGAAGTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.09
22 9 0.26
23 13 0.37
24 8 0.23
25 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.13
Consensus pattern (23 bp):
AAGTAAAAAAAAGAGAGAAATTC
Found at i:25367205 original size:40 final size:40
Alignment explanation
Indices: 25367150--25367244 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
25367140 GCGTTTGGAT
*
25367150 AAAAAACGCCACTAAAAATCAAGCATTAGCGGCACTTTTA
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTA
* * * ** *
25367190 AAAAAACGCCGCTAAAGATTAAGTATTAGCGGTGCTTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTA
*
25367230 TAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
25367245 TGCTTATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTA
Found at i:25367396 original size:41 final size:41
Alignment explanation
Indices: 25367331--25367482 Score: 171
Period size: 41 Copynumber: 3.7 Consensus size: 41
25367321 GGGCTTTATT
*
25367331 GGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGT-TTTAGC
1 GGCGTTTTTAAAAAAGCGCCGCTAATGCTC-GGGTCTTTAGC
** * * *
25367372 GGCGTTTTTAAAAAAATGCTGCTAATGATCGTGTCTTTAGC
1 GGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGTCTTTAGC
***
25367413 GGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGTCTTTAGC
1 GGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGTCTTTAGC
* ** *
25367454 GACGTTTTTAATGAAGCGTCGCTAATGCT
1 GGCGTTTTTAAAAAAGCGCCGCTAATGCT
25367483 TAGTGTTTCA
Statistics
Matches: 90, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 3 0.03
41 87 0.97
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
GGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGTCTTTAGC
Found at i:25371532 original size:16 final size:16
Alignment explanation
Indices: 25371511--25371541 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25371501 TGTAACCTAT
25371511 CTGATGTTTACAATAA
1 CTGATGTTTACAATAA
25371527 CTGATGTTTACAATA
1 CTGATGTTTACAATA
25371542 GTTTGGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
CTGATGTTTACAATAA
Found at i:25377484 original size:50 final size:50
Alignment explanation
Indices: 25377367--25377704 Score: 306
Period size: 50 Copynumber: 6.7 Consensus size: 50
25377357 GATAATAACA
* * * * * *
25377367 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGA-TGTTTCCTGTAC--
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGG
* * * * *
25377416 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* * * ** *
25377466 TTCCCATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
*
25377516 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATCTCGG
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGA-CTTCTCATCTCGG
* * *
25377566 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* ** * * *
25377616 TGCCAACACCATGCCCCAGACATGGTCTTACATGGGACCTCTTATAATCTCAACGA
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGA---CTTCTCATCT---CGG
* *
25377672 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAACGCCATATCCCAGACATGGTCTTACAT
25377705 TGGCTCACAT
Statistics
Matches: 242, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
49 40 0.17
50 162 0.67
51 2 0.01
53 7 0.03
56 31 0.13
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
Found at i:25377637 original size:150 final size:151
Alignment explanation
Indices: 25377366--25377704 Score: 378
Period size: 150 Copynumber: 2.2 Consensus size: 151
25377356 TGATAATAAC
** * * *
25377366 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGTACTGCCAATGCCATATC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTTTCATCTACTGCCAACGCCATATC
* ** ** * * ** *
25377431 CCAGATATGGTCTTACATGGGAGTTCTCATATTGGTTCCCATGCCATATCCCAGACATGGTCTTA
66 CCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACACCATACCCCAGACATGGTCTTA
* *
25377496 CGGGGGACCTC-TCATCT-CG
131 CAGGGGACCTCTTAATCTACG
* * * *
25377515 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCT-CGGTGCCAACGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTTTCATCTAC--TGCCAACGCCATA
* *
25377579 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACACCATGCCCCAGACATGGTCT
64 TCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACACCATACCCCAGACATGGTCT
*
25377644 TACATGGGACCTCTTATAATCTCAACG
129 TACAGGGGACCTC-T-TAATCT--ACG
*
25377671 ATGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAT
25377705 TGGCTCACAT
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
148 1 0.01
149 41 0.26
150 75 0.48
153 5 0.03
156 34 0.22
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (151 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTTTCATCTACTGCCAACGCCATATC
CCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACACCATACCCCAGACATGGTCTTA
CAGGGGACCTCTTAATCTACG
Found at i:25380170 original size:23 final size:23
Alignment explanation
Indices: 25380123--25380173 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
25380113 ACCTACTTTC
* ** *
25380123 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCAGGATA
25380146 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
25380169 TTACA
1 TTACA
25380174 AAGTCCCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:25380508 original size:6 final size:6
Alignment explanation
Indices: 25380489--25380551 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
25380479 GTAAAGAGAC
* * *
25380489 AAAAGA AAAGGA AAAAG- AAAATA AAAATA AAAATGA AAAAGA AAAAG-
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA-GA AAAAGA AAAAGA
25380536 -AAAGA AAGAAGA AAAA
1 AAAAGA AA-AAGA AAAA
25380552 TCAAAAGAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 4 0.08
5 4 0.08
6 29 0.60
7 11 0.23
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:25385077 original size:25 final size:24
Alignment explanation
Indices: 25385049--25385127 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
25385039 AGCTCTTTAA
*
25385049 AGCCATATAACAGGAAGCTCATGTG
1 AGCCATATAAC-GGAAGCTCATGAG
* *
25385074 AGCCATGTAACGAGAAGCTCATAAG
1 AGCCATATAACG-GAAGCTCATGAG
* *
25385099 AGCCATA-ATCGGGAAGCTCATGCG
1 AGCCATATAAC-GGAAGCTCATGAG
25385123 AGCCA
1 AGCCA
25385128 ATATTGGGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 18 0.40
25 27 0.60
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (24 bp):
AGCCATATAACGGAAGCTCATGAG
Found at i:25385119 original size:24 final size:24
Alignment explanation
Indices: 25385061--25385198 Score: 82
Period size: 24 Copynumber: 5.7 Consensus size: 24
25385051 CCATATAACA
**
25385061 GGAAGCTCATGTGAGCCATGTAA-CG
1 GGAAGCTCATAAGAGCCA--TAATCG
*
25385086 AGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
** *
25385110 GGAAGCTCATGCGAGCCA-ATATTG
1 GGAAGCTCATAAGAGCCATA-ATCG
* *** *
25385134 GGTAGCTCCGGAGAGCCATTAATCA
1 GGAAGCTCATAAGAGCCA-TAATCG
* * * *
25385159 AGAAGCTTATACGAGCCATAAACG
1 GGAAGCTCATAAGAGCCATAATCG
*
25385183 TGAAGCTCATAAGAGC
1 GGAAGCTCATAAGAGC
25385199 TAAATAATGA
Statistics
Matches: 84, Mismatches: 25, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
23 4 0.05
24 51 0.61
25 28 0.33
26 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:25397830 original size:57 final size:57
Alignment explanation
Indices: 25397761--25397881 Score: 242
Period size: 57 Copynumber: 2.1 Consensus size: 57
25397751 ATGGTGGCCG
25397761 ATGATGGTGGTTGGCAATGGTCGGGGACAGCTTGACGGTGGCAACAACGAAGGCCTA
1 ATGATGGTGGTTGGCAATGGTCGGGGACAGCTTGACGGTGGCAACAACGAAGGCCTA
25397818 ATGATGGTGGTTGGCAATGGTCGGGGACAGCTTGACGGTGGCAACAACGAAGGCCTA
1 ATGATGGTGGTTGGCAATGGTCGGGGACAGCTTGACGGTGGCAACAACGAAGGCCTA
25397875 ATGATGG
1 ATGATGG
25397882 AAATGGTCAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.25, C:0.17, G:0.39, T:0.20
Consensus pattern (57 bp):
ATGATGGTGGTTGGCAATGGTCGGGGACAGCTTGACGGTGGCAACAACGAAGGCCTA
Found at i:25400933 original size:16 final size:16
Alignment explanation
Indices: 25400912--25400970 Score: 84
Period size: 16 Copynumber: 3.7 Consensus size: 16
25400902 AAATTTAAAC
25400912 ATTTTATTTAAATAAT
1 ATTTTATTTAAATAAT
25400928 ATTTTATTTAAATAAT
1 ATTTTATTTAAATAAT
* *
25400944 ATTTTAATTAAGATACT
1 ATTTTATTTAA-ATAAT
25400961 -TTTTATTTAA
1 ATTTTATTTAA
25400971 TAAATTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
16 35 0.90
17 4 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTTTATTTAAATAAT
Found at i:25400965 original size:32 final size:30
Alignment explanation
Indices: 25400904--25400984 Score: 85
Period size: 32 Copynumber: 2.7 Consensus size: 30
25400894 TTCATGTGAA
* *
25400904 ATTTAA-ACATTTTATTTAAATAATATTTT
1 ATTTAATAAATTTTAATTAAATAATATTTT
*
25400933 ATTTAAATAATATTTTAATTAAGATACT-TTTT
1 ATTT-AATAA-ATTTTAATTAA-ATAATATTTT
*
25400965 ATTTAATAAATTATAATTAA
1 ATTTAATAAATTTTAATTAA
25400985 TAAGCTTGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 4 0.09
30 12 0.27
31 6 0.14
32 18 0.41
33 4 0.09
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (30 bp):
ATTTAATAAATTTTAATTAAATAATATTTT
Found at i:25405569 original size:16 final size:17
Alignment explanation
Indices: 25405548--25405586 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
25405538 CATATGCCTA
25405548 AATATTTTGTTTTTG-T
1 AATATTTTGTTTTTGTT
25405564 AATATTTTGTTTTTGTT
1 AATATTTTGTTTTTGTT
25405581 AATATT
1 AATATT
25405587 CTTTGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (17 bp):
AATATTTTGTTTTTGTT
Found at i:25405629 original size:18 final size:18
Alignment explanation
Indices: 25405606--25405642 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25405596 ATAATATGAG
25405606 AATGTAGTAATAAATTCT
1 AATGTAGTAATAAATTCT
25405624 AATGTAGTAATAAATTCT
1 AATGTAGTAATAAATTCT
25405642 A
1 A
25405643 TCATTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (18 bp):
AATGTAGTAATAAATTCT
Found at i:25412301 original size:23 final size:23
Alignment explanation
Indices: 25412274--25412326 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
25412264 AGTGTTATTG
*
25412274 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25412297 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25412320 ATCAGTG
1 ATCAGTG
25412327 TTGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25415281 original size:35 final size:35
Alignment explanation
Indices: 25415242--25415317 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
25415232 GTTTCCCCAT
* *
25415242 AGGACTTGTATACCGT-TTACATGGTGTCACCTCGA
1 AGGACTTATATACCGTCAT-CATGGTGTCACCTCGA
** *
25415277 AGGACTTATATATTGTCATCATGGTGTCACCTTGA
1 AGGACTTATATACCGTCATCATGGTGTCACCTCGA
25415312 AGGACT
1 AGGACT
25415318 AGCCGATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (35 bp):
AGGACTTATATACCGTCATCATGGTGTCACCTCGA
Found at i:25436706 original size:17 final size:17
Alignment explanation
Indices: 25436675--25436707 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25436665 TGGTAGTATG
25436675 TTCTATATGTTTTGGGC
1 TTCTATATGTTTTGGGC
25436692 TTCTA-ATGTTGTTGGG
1 TTCTATATGTT-TTGGG
25436708 GAATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.12, C:0.09, G:0.27, T:0.52
Consensus pattern (17 bp):
TTCTATATGTTTTGGGC
Found at i:25438203 original size:26 final size:26
Alignment explanation
Indices: 25438174--25438227 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
25438164 TTTTTATATT
* * * *
25438174 TTTATATTTTTTATCATTTTTAAAGA
1 TTTAAATTTGTTATAATTTCTAAAGA
*
25438200 TTTAAATTTGTTATAATTTCTAATGA
1 TTTAAATTTGTTATAATTTCTAAAGA
25438226 TT
1 TT
25438228 CTTATAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (26 bp):
TTTAAATTTGTTATAATTTCTAAAGA
Found at i:25441826 original size:38 final size:38
Alignment explanation
Indices: 25441775--25441851 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
25441765 AAGACTGAAT
*
25441775 ATCCCCAGAAATATTTAGGTGTATGAGAATGAAACAAG
1 ATCCCCAGAAATATTGAGGTGTATGAGAATGAAACAAG
25441813 ATCCCCAGAAATATTGAGGTGTATGAGAATGAAACAAG
1 ATCCCCAGAAATATTGAGGTGTATGAGAATGAAACAAG
25441851 A
1 A
25441852 GGGCTCGAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (38 bp):
ATCCCCAGAAATATTGAGGTGTATGAGAATGAAACAAG
Found at i:25459951 original size:43 final size:43
Alignment explanation
Indices: 25459864--25459956 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
25459854 CTCTTTATCT
* * * *
25459864 AACAATTGAGATTGAATATGAAATAAAATAATCAAATACTAAA
1 AACAATTGAAATTGAATATGAAATAAAACAACCAAAAACTAAA
* *
25459907 AACAATTGAAATTGAATA-GAAATAAGACCACCAAAAACTCAAA
1 AACAATTGAAATTGAATATGAAATAAAACAACCAAAAACT-AAA
*
25459950 AATAATT
1 AACAATT
25459957 ATAATCAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 16 0.38
43 26 0.62
ACGTcount: A:0.58, C:0.11, G:0.09, T:0.23
Consensus pattern (43 bp):
AACAATTGAAATTGAATATGAAATAAAACAACCAAAAACTAAA
Found at i:25468061 original size:8 final size:8
Alignment explanation
Indices: 25468048--25468083 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
25468038 CAAGATACTC
25468048 ACTAAAAT
1 ACTAAAAT
25468056 ACTAAAAT
1 ACTAAAAT
*
25468064 ACTAAAAG
1 ACTAAAAT
25468072 ACTAAAAT
1 ACTAAAAT
25468080 ACTA
1 ACTA
25468084 GCACTGTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (8 bp):
ACTAAAAT
Found at i:25470637 original size:26 final size:28
Alignment explanation
Indices: 25470599--25470652 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
25470589 AAAGAACACC
*
25470599 TTGTGGCACAATG-TGAAAGGAAAGCCT
1 TTGTGGCAAAATGATGAAAGGAAAGCCT
* *
25470626 TTGTGG-AAAATGATGAAGGGATAGCCT
1 TTGTGGCAAAATGATGAAAGGAAAGCCT
25470653 CTATGGCGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.24
Consensus pattern (28 bp):
TTGTGGCAAAATGATGAAAGGAAAGCCT
Found at i:25472074 original size:28 final size:28
Alignment explanation
Indices: 25471967--25472073 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
25471957 GTAACAGTAC
* * *
25471967 AGTGTGGGCCTTACCCCAAAACAATAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAT
* *
25471995 AATGTGGGCCTTAGCCTAATACAATAAT
1 AGTGTGGGCCTTAGCCCAATACAATAAT
** * *
25472023 AGTGAAGGTCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAATAAT
25472051 AGTGTGGGCCTTAGCCCAATACA
1 AGTGTGGGCCTTAGCCCAATACA
25472074 GAACCAGTAC
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAATAAT
Found at i:25473226 original size:19 final size:19
Alignment explanation
Indices: 25473202--25473240 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25473192 TACTCCATTG
25473202 CGCAACCCAAGACTTGAAC
1 CGCAACCCAAGACTTGAAC
25473221 CGCAACCCAAGACTTGAAC
1 CGCAACCCAAGACTTGAAC
25473240 C
1 C
25473241 TCATACCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.38, G:0.15, T:0.10
Consensus pattern (19 bp):
CGCAACCCAAGACTTGAAC
Found at i:25475399 original size:118 final size:118
Alignment explanation
Indices: 25475269--25475501 Score: 385
Period size: 118 Copynumber: 2.0 Consensus size: 118
25475259 AAACATTTAT
* * *
25475269 ACATTATGCCATGACATGGATGAACCTAAATAATCTTATTTTTTGATACCCCTAAAGTTTTACAT
1 ACATTATACCATGACATGAATGAACCTAAAAAATCTTATTTTTTGATACCCCTAAAGTTTTACAT
*
25475334 TTTATTCAATTTAGTCATTAAAATCGAAATAACCATATCTTTCAATTTTGTAC
66 TTTATTCAATTTAGTCATTAAAATCGAAATAACCATATCATTCAATTTTGTAC
* * *
25475387 ACATTATACCATGACATGAATGAGCCTAAAAAATCTTATTTTTTGATACCTCTAAATTTTTACAT
1 ACATTATACCATGACATGAATGAACCTAAAAAATCTTATTTTTTGATACCCCTAAAGTTTTACAT
* *
25475452 TTTATTCAATTTAGTCATTGATATCGAAATAACCATATCATTCAATTTTG
66 TTTATTCAATTTAGTCATTAAAATCGAAATAACCATATCATTCAATTTTG
25475502 AGCCTTGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 106 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (118 bp):
ACATTATACCATGACATGAATGAACCTAAAAAATCTTATTTTTTGATACCCCTAAAGTTTTACAT
TTTATTCAATTTAGTCATTAAAATCGAAATAACCATATCATTCAATTTTGTAC
Found at i:25500119 original size:39 final size:39
Alignment explanation
Indices: 25500073--25500197 Score: 151
Period size: 39 Copynumber: 3.2 Consensus size: 39
25500063 TAGATAACTA
* * *
25500073 TTGTACTTCGGTACCCCTGTTCGCACATATGTGCCCCTG
1 TTGTACTTCAGTACCCCTGTTCGCACATACGTGCCCTTG
* ** * * *
25500112 TTATACTTCAGTATACTTGCTCGCACATACATGCCCTTG
1 TTGTACTTCAGTACCCCTGTTCGCACATACGTGCCCTTG
* *
25500151 TTGTACTTCAGTACCCTTGTTCGCATATACGTGCCCTTG
1 TTGTACTTCAGTACCCCTGTTCGCACATACGTGCCCTTG
25500190 TTGTACTT
1 TTGTACTT
25500198 TGGTACTCCT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.38
Consensus pattern (39 bp):
TTGTACTTCAGTACCCCTGTTCGCACATACGTGCCCTTG
Found at i:25507052 original size:27 final size:28
Alignment explanation
Indices: 25507020--25507087 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 28
25507010 AAAGTTTCAA
*
25507020 ATGTATAATTG-CACTAAATCAAAGTTG
1 ATGTATAATTGACACTAAATCAAAGTTC
* *
25507047 ATGTATCAAATTGTACATTCAATCAAAGTTC
1 ATGTAT--AATTG-ACACTAAATCAAAGTTC
25507078 ATGTATAATT
1 ATGTATAATT
25507088 ATGAGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 6 0.18
29 9 0.26
31 19 0.56
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (28 bp):
ATGTATAATTGACACTAAATCAAAGTTC
Found at i:25507901 original size:149 final size:151
Alignment explanation
Indices: 25507708--25507979 Score: 379
Period size: 150 Copynumber: 1.8 Consensus size: 151
25507698 CATTATTTTT
* * * *
25507708 TTCTTTTTTTAACAATGAGAAAAAAATGGTTAAATTCCAATTTTAA-CTCCTTTACTTTTTTATG
1 TTCTTTTTTTAACAATGAGAAAAAAATGGCTAAATTCCAATTTTAACCT-CTCTACTATTTCATG
* * *
25507772 ATTATAT-AAAATGGTTAAATTTCAGTTTTAATCCCTATAATTCACTCAAATTTGATATAGAGCC
65 ATTATATAAAAATGATTAAATTTCAATTTTAATCCCTATAATTCACTCAAATTTAATATAGAGCC
25507836 TTCCTTAAAAGATACTTGTCCC
130 TTCCTTAAAAGATACTTGTCCC
* * * * *
25507858 TTCTTTTTTTTACAATGAGGAAAAGA-GGCTAAATTTCAGTTTTAACCTCTCTACTATTTCATGA
1 TTCTTTTTTTAACAATGAGAAAAAAATGGCTAAATTCCAATTTTAACCTCTCTACTATTTCATGA
* * *
25507922 TTATATAAAAATGATTAAATTTTAATTTTAATCCCTATATTTCACTTAAATTTAATAT
66 TTATATAAAAATGATTAAATTTCAATTTTAATCCCTATAATTCACTCAAATTTAATAT
25507980 TCAATTTCTA
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
149 35 0.33
150 70 0.67
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (151 bp):
TTCTTTTTTTAACAATGAGAAAAAAATGGCTAAATTCCAATTTTAACCTCTCTACTATTTCATGA
TTATATAAAAATGATTAAATTTCAATTTTAATCCCTATAATTCACTCAAATTTAATATAGAGCCT
TCCTTAAAAGATACTTGTCCC
Found at i:25508317 original size:169 final size:167
Alignment explanation
Indices: 25508033--25508355 Score: 461
Period size: 169 Copynumber: 1.9 Consensus size: 167
25508023 ATCTTTTCTT
* * *
25508033 TTCTTTTCTTTTGACATGAAAAAATAATGTCTAAATTTCAATTTTAATCTCTACCTTTCTGAAAT
1 TTCTTTTCTTTTGACATGAAAAAATAATGGCTAAATTTCAATTATAATCTCTACATTTCTGAAAT
* * * *
25508098 TATATGAGAATGGTTAAATTTGATTTTTGATCCCTATATTACTCTCAAATTTGAGATTAAATCCC
66 TATATAAGAATGGTAAAATTTCATTTTTGATCCCTATATTACGCTCAAATTTGAGATTAAATCCC
25508163 TATACTTTAATTTTGACATAATTTAGACACCTATCCA
131 TATACTTTAATTTTGACATAATTTAGACACCTATCCA
* * *
25508200 TTCTTTTCTTTTGGGCATGAGAAAATAATGGCTAAA-TTCAATTATAATCCATCTACATTT-TTA
1 TTCTTTTCTTTT-GACATGAAAAAATAATGGCTAAATTTCAATTATAAT-C-TCTACATTTCTGA
* * *
25508263 AGATTATATAATAATGGTAAAATTTCATTTTTGATCCCTATATTTCGCTCAAATTTGAGATTTAA
63 A-ATTATATAAGAATGGTAAAATTTCATTTTTGATCCCTATATTACGCTCAAATTTGAGATTAAA
* *
25508328 TCTCTATACTTTAATTTTGATATAATTT
127 TCCCTATACTTTAATTTTGACATAATTT
25508356 GGATTAAAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
167 23 0.17
168 24 0.18
169 90 0.66
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (167 bp):
TTCTTTTCTTTTGACATGAAAAAATAATGGCTAAATTTCAATTATAATCTCTACATTTCTGAAAT
TATATAAGAATGGTAAAATTTCATTTTTGATCCCTATATTACGCTCAAATTTGAGATTAAATCCC
TATACTTTAATTTTGACATAATTTAGACACCTATCCA
Found at i:25510656 original size:11 final size:11
Alignment explanation
Indices: 25510642--25510666 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25510632 TATTTTTTAG
25510642 ATTATGACATC
1 ATTATGACATC
25510653 ATTATGACATC
1 ATTATGACATC
25510664 ATT
1 ATT
25510667 TATGCCACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTATGACATC
Found at i:25510965 original size:15 final size:14
Alignment explanation
Indices: 25510947--25510994 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
25510937 TGTGATTATG
25510947 GTTTGATTAATTAAA
1 GTTTGATTAATT-AA
*
25510962 GTTTAATTAAATTAA
1 GTTTGATT-AATTAA
*
25510977 TTTTGATTAATTAA
1 GTTTGATTAATTAA
25510991 GTTT
1 GTTT
25510995 ACACAAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 15 0.54
16 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
GTTTGATTAATTAA
Found at i:25519600 original size:9 final size:9
Alignment explanation
Indices: 25519586--25519616 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25519576 GTTAAACGAA
25519586 TCGAGTTAT
1 TCGAGTTAT
*
25519595 TCGAGTTAA
1 TCGAGTTAT
25519604 TCGAGTTAT
1 TCGAGTTAT
25519613 TCGA
1 TCGA
25519617 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:25520239 original size:9 final size:9
Alignment explanation
Indices: 25520225--25520253 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
25520215 AATTTCACAT
25520225 TTTATATTA
1 TTTATATTA
25520234 TTTATATTA
1 TTTATATTA
25520243 TTTATATTA
1 TTTATATTA
25520252 TT
1 TT
25520254 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:25523114 original size:19 final size:19
Alignment explanation
Indices: 25523090--25523128 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
25523080 ATAATTTTAA
*
25523090 ATTTTTATAGAAATTTTTTT
1 ATTTTTAAAG-AATTTTTTT
25523110 ATTTTTAAAGAATTTTTTT
1 ATTTTTAAAGAATTTTTTT
25523129 GCTAATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTAAAGAATTTTTTT
Found at i:25524938 original size:15 final size:15
Alignment explanation
Indices: 25524918--25524953 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25524908 AAATTAAAAC
25524918 AAAAATGAATATTGT
1 AAAAATGAATATTGT
* *
25524933 ACAAATGAATGTTGT
1 AAAAATGAATATTGT
25524948 AAAAAT
1 AAAAAT
25524954 CTTGATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:25532472 original size:16 final size:16
Alignment explanation
Indices: 25532453--25532506 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
25532443 GTTTGGTTTA
*
25532453 CTGTAATAGAATAGGG
1 CTGTAATAGAATAGAG
*
25532469 CTGTAATTA-AATAAAG
1 CTGTAA-TAGAATAGAG
* *
25532485 TTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
25532501 CTGTAA
1 CTGTAA
25532507 ACAATAATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 27 0.90
17 2 0.07
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.30
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:25535819 original size:17 final size:17
Alignment explanation
Indices: 25535793--25535828 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25535783 CTTCAATACT
25535793 AATTTCAATAATAGTAA
1 AATTTCAATAATAGTAA
*
25535810 AATTTTAATAATAGTAA
1 AATTTCAATAATAGTAA
25535827 AA
1 AA
25535829 CAAAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (17 bp):
AATTTCAATAATAGTAA
Found at i:25536083 original size:15 final size:16
Alignment explanation
Indices: 25536063--25536092 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25536053 ATCACCCAAA
25536063 AAAGAAAA-AAAATAG
1 AAAGAAAAGAAAATAG
25536078 AAAGAAAAGAAAATA
1 AAAGAAAAGAAAATA
25536093 ATGTGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAGAAAAGAAAATAG
Done.