Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 83 of 290
Found at i:25360951 original size:71 final size:72
Alignment explanation
Indices: 25360832--25360970 Score: 253
Period size: 71 Copynumber: 1.9 Consensus size: 72
25360822 TTGATACATT
*
25360832 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
25360897 TTGGATA
66 TTGGATA
*
25360904 TATGTGGTGTAATATTATGCAC-TAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
25360968 TTG
66 TTG
25360971 AATAATATTA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 43 0.66
72 22 0.34
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (72 bp):
TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
TTGGATA
Found at i:25361184 original size:14 final size:14
Alignment explanation
Indices: 25361165--25361192 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25361155 ACAATTTATT
25361165 AATATATATTAATA
1 AATATATATTAATA
25361179 AATATATATTAATA
1 AATATATATTAATA
25361193 TATGTAAAAA
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:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:25361297 original size:14 final size:15
Alignment explanation
Indices: 25361275--25361351 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
25361265 TTACCAAACA
25361275 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
25361289 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
25361304 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
25361324 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
25361338 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
25361352 ACTGCCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:25361316 original size:20 final size:20
Alignment explanation
Indices: 25361291--25361330 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25361281 AATATTTTCC
*
25361291 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
25361311 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
25361331 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:25361336 original size:34 final size:35
Alignment explanation
Indices: 25361279--25361345 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
25361269 CAAACACCAG
*
25361279 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
25361314 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
25361346 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:25361352 original size:14 final size:14
Alignment explanation
Indices: 25361314--25361353 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25361304 ACAGAAAAGT
*
25361314 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
25361328 AAATCATTTTACGG
1 AAAACATTTTACAG
25361342 AAAACATTTTAC
1 AAAACATTTTAC
25361354 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:25378212 original size:22 final size:22
Alignment explanation
Indices: 25378172--25378226 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
25378162 ACTTATCAAA
25378172 TATTATCC-T-AAAATACTACC
1 TATTATCCTTAAAAATACTACC
*
25378192 TATTGATCCTTAAAAAT-CTACT
1 TATT-ATCCTTAAAAATACTACC
*
25378214 TATTATTCTTAAA
1 TATTATCCTTAAA
25378227 GAAACAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.13
21 12 0.40
22 9 0.30
23 5 0.17
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (22 bp):
TATTATCCTTAAAAATACTACC
Found at i:25382928 original size:6 final size:6
Alignment explanation
Indices: 25382917--25382956 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
25382907 AAATTTTGGG
25382917 AAAAAT AAAAAT AAAAAT AAAAAT AGAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
25382957 TCTATTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:25383438 original size:10 final size:9
Alignment explanation
Indices: 25383420--25383601 Score: 86
Period size: 10 Copynumber: 19.0 Consensus size: 9
25383410 ATAAATGAAG
25383420 TTTTT-TAA
1 TTTTTATAA
25383428 TATTTTATAA
1 T-TTTTATAA
25383438 TATTTTAATAA
1 T-TTTT-ATAA
*
25383449 TTTTAATAA
1 TTTTTATAA
25383458 TTTATTATAA
1 TTT-TTATAA
*
25383468 GTTTTATAA
1 TTTTTATAA
25383477 GTTTTTATGAA
1 -TTTTTAT-AA
*
25383488 -TTTTATATT
1 TTTTTATA-A
25383497 TTTTTATAA
1 TTTTTATAA
**
25383506 -TTTTATTG
1 TTTTTATAA
**
25383514 TTGTTGTAATTT
1 TT-TT-T-ATAA
*
25383526 TTTTTGTAA
1 TTTTTATAA
25383535 TTTATTAT-A
1 TTT-TTATAA
*
25383544 TTTTTATGAG
1 TTTTTAT-AA
25383554 TTTTTATAA
1 TTTTTATAA
25383563 TATTTTATTAA
1 T-TTTTA-TAA
25383574 TATTTT-TAA
1 T-TTTTATAA
*
25383583 GTTTTATAA
1 TTTTTATAA
*
25383592 GTTTATATAA
1 -TTTTTATAA
25383602 AATTGAAAAT
Statistics
Matches: 137, Mismatches: 18, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
8 16 0.12
9 40 0.29
10 57 0.42
11 19 0.14
12 5 0.04
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:25383451 original size:9 final size:9
Alignment explanation
Indices: 25383422--25383510 Score: 58
Period size: 9 Copynumber: 9.6 Consensus size: 9
25383412 AAATGAAGTT
*
25383422 TTTTAATAT
1 TTTTAATAA
25383431 TTTATAAT-A
1 TTT-TAATAA
25383440 TTTTAATAA
1 TTTTAATAA
25383449 TTTTAATAA
1 TTTTAATAA
*
25383458 TTTATTATAA
1 TTT-TAATAA
25383468 GTTTT-ATAA
1 -TTTTAATAA
*
25383477 GTTTTTATGAA
1 -TTTTAAT-AA
*
25383488 TTTT-ATATT
1 TTTTAATA-A
*
25383497 TTTTTATAA
1 TTTTAATAA
25383506 TTTTA
1 TTTTA
25383511 TTGTTGTTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
8 5 0.07
9 38 0.57
10 19 0.28
11 5 0.07
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTAATAA
Found at i:25383451 original size:19 final size:17
Alignment explanation
Indices: 25383429--25383511 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 17
25383419 GTTTTTTAAT
25383429 ATTTTATAATATTTTAATA
1 ATTTTATAAT-TTTT-ATA
25383448 ATTTTAATAATTTATTATA
1 ATTTT-ATAATTT-TTATA
25383467 AGTTTTATAAGTTTTTATGA
1 A-TTTTATAA-TTTTTAT-A
*
25383487 ATTTTATATTTTTTTATA
1 ATTTTATA-ATTTTTATA
25383505 ATTTTAT
1 ATTTTAT
25383512 TGTTGTTGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
18 8 0.14
19 33 0.58
20 16 0.28
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
ATTTTATAATTTTTATA
Found at i:25383588 original size:39 final size:39
Alignment explanation
Indices: 25383420--25383601 Score: 135
Period size: 39 Copynumber: 4.7 Consensus size: 39
25383410 ATAAATGAAG
* *
25383420 TTTTTTAATA-TTTTATAA-TATTT-TAATAATTTTAATAA
1 TTTTTT-ATAGTTTTATAAGTTTTTATAAT-ATTTTATTAA
* * *
25383458 TTTATTATAAGTTTTATAAGTTTTTATGA-ATTTTA-TAT
1 TTTTTTAT-AGTTTTATAAGTTTTTATAATATTTTATTAA
* * * * * *
25383496 TTTTTTATAATTTTAT-TGTTGTTGTAATTTTTTTTGTAA
1 TTTTTTATAGTTTTATAAGTTTTTATAATATTTTAT-TAA
* * *
25383535 TTTATTATATTTTTATGAGTTTTTATAATATTTTATTAA
1 TTTTTTATAGTTTTATAAGTTTTTATAATATTTTATTAA
*
25383574 TATTTTTA-AGTTTTATAAGTTTATATAA
1 T-TTTTTATAGTTTTATAAGTTTTTATAA
25383602 AATTGAAAAT
Statistics
Matches: 111, Mismatches: 24, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
36 7 0.06
37 13 0.12
38 15 0.14
39 51 0.46
40 23 0.21
41 2 0.02
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (39 bp):
TTTTTTATAGTTTTATAAGTTTTTATAATATTTTATTAA
Found at i:25383789 original size:15 final size:16
Alignment explanation
Indices: 25383769--25383801 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25383759 ATATTTAATT
25383769 ATTCAAATATT-GATA
1 ATTCAAATATTGGATA
*
25383784 ATTCAATTATTGGATA
1 ATTCAAATATTGGATA
25383800 AT
1 AT
25383802 AAAGATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (16 bp):
ATTCAAATATTGGATA
Found at i:25390158 original size:38 final size:38
Alignment explanation
Indices: 25390100--25390345 Score: 197
Period size: 38 Copynumber: 6.0 Consensus size: 38
25390090 ATTGATTCAT
* *
25390100 TAACGTGGTGCTAAGAGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
* * * *
25390138 TAATGTTGTGCTAAGTGGATATGCCACGATTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGATTA-A-ACA-TG
* *
25390179 ATTATTAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
1 -----TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
* * *
25390222 TAACGTGGTGCTAAGTGGATATGCTACGGTTACATTTATTGATTCAT-
1 TAACGTGGTGCTAAGTGGATATACCAC-G----A-TTA---A-ACATG
25390269 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
* * *
25390307 TAACGTGGTGCTAACTGGATATGCCACGATTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
25390345 T
1 T
25390346 TAATTTGAAA
Statistics
Matches: 166, Mismatches: 23, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
37 3 0.02
38 88 0.53
39 2 0.01
40 2 0.01
41 5 0.03
42 1 0.01
43 2 0.01
44 5 0.03
45 1 0.01
46 28 0.17
47 26 0.16
48 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
Found at i:25390308 original size:85 final size:85
Alignment explanation
Indices: 25390048--25390334 Score: 477
Period size: 85 Copynumber: 3.4 Consensus size: 85
25390038 ACATATTGAT
*
25390048 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
25390113 AGAGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* * * *
25390133 ACATGTAATGTTGTGCTAAGTGGATATGCCACGATTACATATATTGATT-ATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
25390197 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
25390217 ACATGTAACGTGGTGCTAAGTGGATATGCTACGGTTACATTTATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
25390282 AGTGGATATACCACGATTAA
66 AGTGGATATACCACGGTTAA
*
25390302 ACATGTAACGTGGTGCTAACTGGATATGCCACG
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACG
25390335 ATTATACATG
Statistics
Matches: 186, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
84 77 0.41
85 109 0.59
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:25390368 original size:169 final size:169
Alignment explanation
Indices: 25390048--25390369 Score: 493
Period size: 169 Copynumber: 1.9 Consensus size: 169
25390038 ACATATTGAT
25390048 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
* * * * *
25390113 AGAGGATATACCACGGTTAAACATGTAATGTTGTGCTAAGTGGATATGCCACGATTACATATATT
66 AGAGGATATACCACGATTAAACATGTAACGTGGTGCTAACTGGATATGCCACGATTACACATATT
* * * *
25390178 GATTATTAACATGGTGCTAAGTGGATATACCACGGTTAA
131 AATTATGAAAATGGCGCTAAGTGGATATACCACGGTTAA
* * *
25390217 ACATGTAACGTGGTGCTAAGTGGATATGCTACGGTTACATTTATTGATTCATTAACGTGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
* * *
25390282 AGTGGATATACCACGATTAAACATGTAACGTGGTGCTAACTGGATATGCCACGATTATACATGTT
66 AGAGGATATACCACGATTAAACATGTAACGTGGTGCTAACTGGATATGCCACGATTACACATATT
25390347 AATT-TGAAAATTGGCGCTAAGTG
131 AATTATGAAAA-TGGCGCTAAGTG
25390370 CGTATGCCAC
Statistics
Matches: 137, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
168 4 0.03
169 133 0.97
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (169 bp):
ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGAGGATATACCACGATTAAACATGTAACGTGGTGCTAACTGGATATGCCACGATTACACATATT
AATTATGAAAATGGCGCTAAGTGGATATACCACGGTTAA
Found at i:25393623 original size:15 final size:15
Alignment explanation
Indices: 25393583--25393623 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
25393573 CTGTAAATGA
25393583 GATTTCCTTATCATG
1 GATTTCCTTATCATG
** *
25393598 GATTTTTTTATCTTG
1 GATTTCCTTATCATG
25393613 GATTTCCTTAT
1 GATTTCCTTAT
25393624 TCTGTGCTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (15 bp):
GATTTCCTTATCATG
Found at i:25395737 original size:69 final size:67
Alignment explanation
Indices: 25395470--25395738 Score: 218
Period size: 69 Copynumber: 3.9 Consensus size: 67
25395460 GATTATCAAG
* * * * * * *
25395470 AATATGACAGCTGGGAGCTTTGTTCTCACTAACAGTTTTGGAGGTTGCTGCTCTTCGCCTATG-A
1 AATATGATAGCTAGGAGCTTTGCTCTC-GTAACTGTTTTGGAGGTTACGGCTCTTCG-CT-TGCA
*
25395534 ACTTT
63 ACCTT
* * * ** *
25395539 AATATGATAGCTGGGAGCTTTGCTCTCAGTAAGTATTTTGGAGGTTACGGCTCTTTACCTGCGAA
1 AATATGATAGCTAGGAGCTTTGCTCTC-GTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGC-AA
25395604 CCTT
64 CCTT
* * * * * *
25395608 AATATGACA-TTTGGAGCATTTGCTCTTCCTAACTGTTTTGGAGGTTATGGCTCTTTGCTTGCAA
1 AATATGATAGCTAGGAGC-TTTGCTC-TCGTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGC-A
25395672 ACCTT
63 ACCTT
* * * * *
25395677 AATATGATAGCTAGAAGCTGTGCTCTCGGTAATTGTTTTAGAGGTTGCGGCTCTTCGCTTGC
1 AATATGATAGCTAGGAGCTTTGCTCTC-GTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGC
25395739 GAAGATTAAT
Statistics
Matches: 161, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
67 2 0.01
68 9 0.06
69 143 0.89
70 7 0.04
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (67 bp):
AATATGATAGCTAGGAGCTTTGCTCTCGTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGCAACC
TT
Found at i:25401603 original size:41 final size:41
Alignment explanation
Indices: 25401558--25401688 Score: 145
Period size: 41 Copynumber: 3.2 Consensus size: 41
25401548 TGCTTAAACA
* * * *
25401558 AGCTGTGGGTTGGGACATTAGCTAACGATGTTGCTCACACG
1 AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
*
25401599 AGCTGTGGGTGGGGATATTAACTAACAATGCTGCTCACACG
1 AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
** ** * * * *
25401640 AGCTGTGGGTCAGGATGTTAGCTAACAATGCTACTCAAACA
1 AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
25401681 AGCTGTGG
1 AGCTGTGG
25401689 AGAATTCACA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (41 bp):
AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
Found at i:25402898 original size:144 final size:144
Alignment explanation
Indices: 25402636--25402923 Score: 531
Period size: 144 Copynumber: 2.0 Consensus size: 144
25402626 CCATGAGGAA
25402636 TGAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTG
1 TGAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTG
* *
25402701 CTGGCTTAATCCCCTTCGCACACTGCCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGT
66 CTGGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGT
25402766 AGTCCGCCCAGTTG
131 AGTCCGCCCAGTTG
25402780 TGAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTG
1 TGAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTG
* * *
25402845 CTGGCTTAATCCCCTTCGTACAATACCGATCCAAAGCTGCATCAGAATTGTCCTAGCCTCTACGT
66 CTGGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGT
25402910 AGTCCGCCCAGTTG
131 AGTCCGCCCAGTTG
25402924 CGAACGAATG
Statistics
Matches: 139, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 139 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (144 bp):
TGAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTG
CTGGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGT
AGTCCGCCCAGTTG
Found at i:25407937 original size:39 final size:39
Alignment explanation
Indices: 25407883--25407962 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
25407873 TGTAGGAAAG
25407883 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
1 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
25407922 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
1 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
25407961 TT
1 TT
25407963 GGATTTTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (39 bp):
TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
Found at i:25408370 original size:12 final size:12
Alignment explanation
Indices: 25408353--25408378 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25408343 GAATGGGAAT
25408353 ATGTGATTTTGA
1 ATGTGATTTTGA
25408365 ATGTGATTTTGA
1 ATGTGATTTTGA
25408377 AT
1 AT
25408379 ATATATGAAT
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:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
ATGTGATTTTGA
Found at i:25412720 original size:59 final size:57
Alignment explanation
Indices: 25412628--25412739 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 57
25412618 TTTTATTATA
* *
25412628 TATAAATATATAATATATGCATGCTTTGATTGGTTTAGTGCATGTTGTAGTTTTGTATG
1 TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATG-T-TAGTTTTGTATG
25412687 TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTAGTTTTG
1 TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTAGTTTTG
25412740 GAAAATTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 8 0.16
58 1 0.02
59 42 0.82
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (57 bp):
TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTAGTTTTGTATG
Found at i:25412757 original size:59 final size:60
Alignment explanation
Indices: 25412626--25412764 Score: 171
Period size: 59 Copynumber: 2.3 Consensus size: 60
25412616 TATTTTATTA
* * *
25412626 TATATAAATATATAATATATGCATGCTTTGATTGGTTTAGTGCATGTTGTAGTTTTGTATG
1 TATAT-AATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTGTAGTTTTGAATG
25412687 TATA-AATATATAATATATACATGCTTTGATTGGTTTAATGCATG-T-TAGTTTTGGAAAAT-
1 TATATAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTGTAGTTTT-G--AATG
25412746 TATATAA-ATATATATATAT
1 TATATAATATATA-ATATAT
25412765 GATTATCTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
57 7 0.10
58 2 0.03
59 47 0.67
60 10 0.14
61 4 0.06
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (60 bp):
TATATAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTGTAGTTTTGAATG
Found at i:25413106 original size:17 final size:17
Alignment explanation
Indices: 25413080--25413124 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
25413070 GTCAAAAGAT
*
25413080 TAATTCATTGTTTGACA
1 TAATTTATTGTTTGACA
25413097 TAATTTATTGTTTGACA
1 TAATTTATTGTTTGACA
25413114 TAATTTATTGT
1 TAATTTATTGT
25413125 CAATGTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (17 bp):
TAATTTATTGTTTGACA
Found at i:25417694 original size:23 final size:23
Alignment explanation
Indices: 25417668--25417719 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
25417658 TGTACAATTG
*
25417668 TATATGTGTAGTTAATTGTATA-A
1 TATATATGTAGTTAATT-TATATA
*
25417691 TATATATTTAGTTAATTTATATA
1 TATATATGTAGTTAATTTATATA
25417714 TATATA
1 TATATA
25417720 AGTGAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (23 bp):
TATATATGTAGTTAATTTATATA
Found at i:25419256 original size:48 final size:48
Alignment explanation
Indices: 25419204--25419302 Score: 110
Period size: 48 Copynumber: 2.1 Consensus size: 48
25419194 TGACTACTAC
* *
25419204 TGAATAATAAAGATCAATT-AATCACTACTGAAAAATATTGACTGTTAT
1 TGAATAATAAAGATAAATTGAATCA-TACTGAAAAATATTGACTGATAT
* ** * * *
25419252 TGAATCATATTGATAAATTGATTGATATTGAAAAATATTGACTGATAT
1 TGAATAATAAAGATAAATTGAATCATACTGAAAAATATTGACTGATAT
25419300 TGA
1 TGA
25419303 GCTTGGAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 39 0.93
49 3 0.07
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (48 bp):
TGAATAATAAAGATAAATTGAATCATACTGAAAAATATTGACTGATAT
Found at i:25419279 original size:18 final size:19
Alignment explanation
Indices: 25419258--25419302 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
25419248 TTATTGAATC
* *
25419258 ATATTGATAA-ATTGATTG
1 ATATTGAAAATATTGACTG
25419276 ATATTGAAAAATATTGACTG
1 ATATTG-AAAATATTGACTG
25419296 ATATTGA
1 ATATTGA
25419303 GCTTGGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (19 bp):
ATATTGAAAATATTGACTG
Found at i:25427847 original size:28 final size:28
Alignment explanation
Indices: 25427807--25427863 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25427797 TTGCTCCACC
25427807 CAAAGTAAAAACATTCCTACTTGTAAAG
1 CAAAGTAAAAACATTCCTACTTGTAAAG
25427835 CAAAGTAAAAACATTCCTACTTGTAAAG
1 CAAAGTAAAAACATTCCTACTTGTAAAG
25427863 C
1 C
25427864 TAACTTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.25
Consensus pattern (28 bp):
CAAAGTAAAAACATTCCTACTTGTAAAG
Found at i:25432572 original size:8 final size:8
Alignment explanation
Indices: 25432559--25432588 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25432549 GAAGCCTGTA
25432559 ACATATGC
1 ACATATGC
*
25432567 ACATATGT
1 ACATATGC
25432575 ACATATGC
1 ACATATGC
25432583 ACATAT
1 ACATAT
25432589 AACATCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (8 bp):
ACATATGC
Found at i:25434511 original size:29 final size:29
Alignment explanation
Indices: 25434469--25434524 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
25434459 ACATATTTAG
25434469 GTTTATCTACTAATATAAGTTATCTTTTC
1 GTTTATCTACTAATATAAGTTATCTTTTC
25434498 GTTTATCTACTAATATAAGTTATCTTT
1 GTTTATCTACTAATATAAGTTATCTTT
25434525 CCGTATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (29 bp):
GTTTATCTACTAATATAAGTTATCTTTTC
Found at i:25435676 original size:19 final size:19
Alignment explanation
Indices: 25435652--25435691 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25435642 CGTGGTGTGC
*
25435652 TTAGTTTTCTTGTGGCTTT
1 TTAGTTTACTTGTGGCTTT
* *
25435671 TTAGTTTACTTTTTGCTTT
1 TTAGTTTACTTGTGGCTTT
25435690 TT
1 TT
25435692 CGCCTTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.15, T:0.68
Consensus pattern (19 bp):
TTAGTTTACTTGTGGCTTT
Found at i:25436092 original size:28 final size:28
Alignment explanation
Indices: 25436035--25436092 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
25436025 TCATAACTCC
* *
25436035 TATCATAAAAAATGAAAAAGAATTAAAA
1 TATCATAAAAAATGAAAAAAAAGTAAAA
* * *
25436063 TATCATTAAAAATTAAAAAAAAGTATAA
1 TATCATAAAAAATGAAAAAAAAGTAAAA
25436091 TA
1 TA
25436093 AGAATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (28 bp):
TATCATAAAAAATGAAAAAAAAGTAAAA
Found at i:25436449 original size:14 final size:14
Alignment explanation
Indices: 25436430--25436459 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25436420 ATACTTAAGT
25436430 TATAATTTTGTAAC
1 TATAATTTTGTAAC
25436444 TATAATTTTGTAAC
1 TATAATTTTGTAAC
25436458 TA
1 TA
25436460 ATGTTAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TATAATTTTGTAAC
Found at i:25436577 original size:19 final size:19
Alignment explanation
Indices: 25436540--25436580 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25436530 TTAAAATCTA
*
25436540 ATTAAATAAAAATATTAAT
1 ATTAAATAAAAATAATAAT
25436559 ATTAAATAAAACA-AATAAT
1 ATTAAATAAAA-ATAATAAT
25436578 ATT
1 ATT
25436581 TCCCTCCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAAATAAAAATAATAAT
Found at i:25438037 original size:19 final size:18
Alignment explanation
Indices: 25438008--25438076 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 18
25437998 TTAATATTTT
25438008 TTTTATA-ATTTTTGAGTA
1 TTTTATATATTTTTGA-TA
25438026 TTTTATATATTTTT-ATAAA
1 TTTTATATATTTTTGAT--A
25438045 TTTTA-ATACTTTTTGA-A
1 TTTTATATA-TTTTTGATA
*
25438062 TTTTTATGTATTTTT
1 -TTTTATATATTTTT
25438077 TCATTTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
17 2 0.05
18 21 0.49
19 19 0.44
20 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTATATATTTTTGATA
Found at i:25438291 original size:31 final size:31
Alignment explanation
Indices: 25438231--25438299 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
25438221 GGTATAATGG
* *
25438231 CTAAAATTGATAACTTATCTAACAAAAGTGA
1 CTAAAATTGACAACTAATCTAACAAAAGTGA
* * * *
25438262 TTAAAGTTGACAACTAATCTAAGAGAAGTGA
1 CTAAAATTGACAACTAATCTAACAAAAGTGA
25438293 CTAAAAT
1 CTAAAAT
25438300 AACAAATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.28
Consensus pattern (31 bp):
CTAAAATTGACAACTAATCTAACAAAAGTGA
Found at i:25443055 original size:26 final size:25
Alignment explanation
Indices: 25443026--25443115 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 25
25443016 AACTCGAAAT
25443026 CTAAAACCTAAAACTTAATATAAACC
1 CTAAAACC-AAAACTTAATATAAACC
** * *
25443052 CTAATTCCTAAACTCAATCATAAACC
1 CTAAAACCAAAACTTAAT-ATAAACC
* * * *
25443078 TTATAAACCCAAAC-TCATATAAACT
1 CTA-AAACCAAAACTTAATATAAACC
*
25443103 CTAAATCCAAAAC
1 CTAAAACCAAAAC
25443116 CTAAAACGTG
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
24 8 0.17
25 16 0.33
26 17 0.35
27 7 0.15
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (25 bp):
CTAAAACCAAAACTTAATATAAACC
Found at i:25459103 original size:28 final size:28
Alignment explanation
Indices: 25459039--25459103 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
25459029 TCGCCAAATT
25459039 CAAAGTAAACTACAATATGATATGGTGA
1 CAAAGTAAACTACAATATGATATGGTGA
**
25459067 -AATTTAAACTCACAATATGATATGGT-A
1 CAAAGTAAACT-ACAATATGATATGGTGA
*
25459094 CAAAGCAAAC
1 CAAAGTAAAC
25459104 CAATTTTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (28 bp):
CAAAGTAAACTACAATATGATATGGTGA
Found at i:25460288 original size:40 final size:40
Alignment explanation
Indices: 25460243--25460384 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
25460233 GACAAATCAC
* *
25460243 CTATATATGGCACTTAGTGTGCGATTCGATAAAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
* *
25460283 CTATATATGGCACTTAGTGCGCGAGATCGAGATAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGA
* * * * *
25460324 CTATAGATGGCACTTAGTGTACAATTTGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
* * *
25460364 CCATGTATGACACTTAGTGTG
1 CTATATATGGCACTTAGTGTG
25460385 TGAGATATCA
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
40 52 0.61
41 33 0.39
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
Found at i:25460334 original size:41 final size:40
Alignment explanation
Indices: 25460243--25460342 Score: 146
Period size: 41 Copynumber: 2.5 Consensus size: 40
25460233 GACAAATCAC
* * *
25460243 CTATATATGGCACTTAGTGTGCGATTCGATAAAGCTTCGA
1 CTATATATGGCACTTAGTGCGCGAATCGAGAAAGCTTCGA
*
25460283 CTATATATGGCACTTAGTGCGCGAGATCGAGATAGCTTCGA
1 CTATATATGGCACTTAGTGCGCGA-ATCGAGAAAGCTTCGA
*
25460324 CTATAGATGGCACTTAGTG
1 CTATATATGGCACTTAGTG
25460343 TACAATTTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 23 0.43
41 31 0.57
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGCGCGAATCGAGAAAGCTTCGA
Found at i:25461853 original size:24 final size:24
Alignment explanation
Indices: 25461809--25461854 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25461799 AATTGATTAA
**
25461809 GATTGAATGATGATGGCAAGTAAT
1 GATTGAATGATGATGAAAAGTAAT
25461833 GATTGAATGTATGA-GAAAAGTA
1 GATTGAATG-ATGATGAAAAGTA
25461855 TGTTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.28
Consensus pattern (24 bp):
GATTGAATGATGATGAAAAGTAAT
Found at i:25467598 original size:16 final size:17
Alignment explanation
Indices: 25467571--25467602 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25467561 ACATTAGGGA
25467571 CAAATGTGTAAATTTTT
1 CAAATGTGTAAATTTTT
25467588 CAAAT-TGTAAATTTT
1 CAAATGTGTAAATTTT
25467603 AGGGTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (17 bp):
CAAATGTGTAAATTTTT
Found at i:25467888 original size:40 final size:39
Alignment explanation
Indices: 25467844--25467951 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 39
25467834 CAACAAATAA
*
25467844 GCTATATGTGGCAGTTAGTGTGCGATTCGACATAGCTTCG
1 GCTATATATGGCAGTTAGTGTGCGATT-GACATAGCTTCG
* * * *
25467884 GCTATATATGACACTTAGTGTGCGAGATTGAGATAGCTTTG
1 GCTATATATGGCAGTTAGTGTGC--GATTGACATAGCTTCG
*
25467925 GCTATATATGG-TGCTTAGTGTGCGATT
1 GCTATATATGGCAG-TTAGTGTGCGATT
25467952 TGGGATAGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 4 0.07
40 20 0.35
41 29 0.51
42 4 0.07
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (39 bp):
GCTATATATGGCAGTTAGTGTGCGATTGACATAGCTTCG
Found at i:25467930 original size:41 final size:41
Alignment explanation
Indices: 25467844--25467992 Score: 142
Period size: 40 Copynumber: 3.7 Consensus size: 41
25467834 CAACAAATAA
* * *
25467844 GCTATATGTGGCAGTTAGTGTGC--GATTCGACATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATT-GAGATAGCTTCG
* *
25467884 GCTATATATGACACTTAGTGTGCGAGATTGAGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
** * * *
25467925 GCTATATATGGTGCTTAGTGTGCGA-TTTGGGATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * * *
25467965 ACTATGTACGGCACTTAGTGTGTGAGAT
1 GCTATATATGGCACTTAGTGTGCGAGAT
25467993 ATCGAGTATT
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
40 50 0.57
41 33 0.38
42 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
Found at i:25470727 original size:25 final size:25
Alignment explanation
Indices: 25470699--25470749 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25470689 TTGTAAGTAA
25470699 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
25470724 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
25470749 T
1 T
25470750 TTAATTGTTT
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:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (25 bp):
TGATAGAATGTATGAGAAAATTATG
Found at i:25471397 original size:19 final size:19
Alignment explanation
Indices: 25471358--25471394 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
25471348 TTGTTTGATA
25471358 AAAATAAATATTAATTTTT
1 AAAATAAATATTAATTTTT
*
25471377 AAAAT-AATATTGATTTTT
1 AAAATAAATATTAATTTTT
25471395 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AAAATAAATATTAATTTTT
Found at i:25475882 original size:20 final size:20
Alignment explanation
Indices: 25475859--25475908 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
25475849 ATTACAAAAG
25475859 AATTTCAAAATAAATTT-T-AA
1 AATTTCAAAAT--ATTTATAAA
25475879 AA-TTCAAAATATTTATAAA
1 AATTTCAAAATATTTATAAA
25475898 AATTTCAAAAT
1 AATTTCAAAAT
25475909 TTATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 12 0.44
20 10 0.37
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTCAAAATATTTATAAA
Found at i:25477697 original size:16 final size:16
Alignment explanation
Indices: 25477678--25477726 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
25477668 ATAAATAAAT
* *
25477678 TATATAAATACAACAA
1 TATATAAAAAAAACAA
*
25477694 TATATAAAAAAAAGAA
1 TATATAAAAAAAACAA
*
25477710 TATATAAAAATAACAA
1 TATATAAAAAAAACAA
25477726 T
1 T
25477727 TGATATAGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (16 bp):
TATATAAAAAAAACAA
Found at i:25477827 original size:17 final size:18
Alignment explanation
Indices: 25477807--25477847 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
25477797 AATACCCCAA
* *
25477807 AATAATTTAAAATAAAT-
1 AATAATATAAAAAAAATG
25477824 AATAATATAAAAAAAATG
1 AATAATATAAAAAAAATG
25477842 AATAAT
1 AATAAT
25477848 GACTCCTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AATAATATAAAAAAAATG
Found at i:25479695 original size:89 final size:89
Alignment explanation
Indices: 25479602--25479890 Score: 268
Period size: 89 Copynumber: 3.3 Consensus size: 89
25479592 TCAGTTGGCT
* *
25479602 CCCTTGCTACCTCAGGATGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAAGGAGAT
1 CCCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAGGGAGAT
25479667 AAGGCTAGTGGCTAAAATCTGCTC
66 AAGGCTAGTGGCTAAAATCTGCTC
* * * * * * * * * *
25479691 CCCTT-TTACCTTAGGAAGATAAGATTCGCCATC-TTTGATCTGCTCCAC-TACT-GCTTAGGGA
1 CCCTTGCTACCTCAGGAAGATAAGACT-ACAATCATTAG-CCTGCTCC-CTTGCTACCTCAGGGA
* **** **
25479752 GATAAGATCTACAATCTTCAATCTGCT-
63 GATAAG-GCTAGTGGCTAAAATCTGCTC
* * * * *
25479779 CCCTTGTTACCTTAGTAAGATAAGACTACAATCATTAGCTTCCTCCCTTGCTACCTCAGGGAGAT
1 CCCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAGGGAGAT
25479844 AAGGCTAGTGGCTAAAATCTGC-C
66 AAGGCTAGTGGCTAAAATCTGCTC
*
25479867 CCC-TGCTACCTCGGGAAGATAAGA
1 CCCTTGCTACCTCAGGAAGATAAGA
25479891 TTCACCGCTT
Statistics
Matches: 150, Mismatches: 41, Indels: 20
0.71 0.19 0.09
Matches are distributed among these distances:
87 18 0.12
88 64 0.43
89 67 0.45
90 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (89 bp):
CCCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAGGGAGAT
AAGGCTAGTGGCTAAAATCTGCTC
Found at i:25479734 original size:45 final size:45
Alignment explanation
Indices: 25479682--25479811 Score: 124
Period size: 44 Copynumber: 2.9 Consensus size: 45
25479672 TAGTGGCTAA
* * *
25479682 AATCTGCTCCCCTTTTACCTTAGGAAGATAAGAT-TCGCCATCTTT
1 AATCTGCTCCCCTTTTACCTTAGGAAGATAAGATCT-ACAATCTTC
* * ** * *
25479727 GATCTGCTCCACTACT-GCTTAGGGAGATAAGATCTACAATCTTC
1 AATCTGCTCCCCTTTTACCTTAGGAAGATAAGATCTACAATCTTC
*
25479771 AATCTGCT-CCCTTGTTACCTTAGTAAGATAAGA-CTACAATC
1 AATCTGCTCCCCTT-TTACCTTAGGAAGATAAGATCTACAATC
25479812 ATTAGCTTCC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
43 3 0.05
44 37 0.56
45 26 0.39
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
AATCTGCTCCCCTTTTACCTTAGGAAGATAAGATCTACAATCTTC
Found at i:25479784 original size:177 final size:176
Alignment explanation
Indices: 25479488--25479929 Score: 516
Period size: 177 Copynumber: 2.5 Consensus size: 176
25479478 TATCAGAGAA
* * *
25479488 ATAAGGCTTGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAAATAAGATTCACCGCTTTCGAT
1 ATAAGGCTAGTGGCTAAAATCTGC-CCCCTGCTACCTCAGGAAGATAAGATTCACCGCTTTCGAT
* * ** * * * * * * *
25479553 CT-GTCCCATTGTTATCTCAAGGAGACAAAATCTGA-AA-CATCAGT-TGGCTCCCTTGCTACCT
65 CTACT-CCACTACT-GCTTAGGGAGATAAGATCT-ACAATCTTCAATCT-GCTCCCTTGCTACCT
* *
25479614 CAGGATGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAAGGAG
126 CAGGAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAAGGAG
** * * *
25479665 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTTTTACCTTAGGAAGATAAGATTCGCCATCTTT-GA
1 ATAAGGCTAGTGGCTAAAATCTGC-CCCCTGCTACCTCAGGAAGATAAGATTCACC-GCTTTCGA
* * *
25479729 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGCTCCCTTGTTACCTTAG
64 TCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGCTCCCTTGCTACCTCAG
* * *
25479794 TAAGATAAGACTACAATCATTAGCTTCCTCCCTTGCTACCTCAGGGAG
129 GAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAAGGAG
* *
25479842 ATAAGGCTAGTGGCTAAAATCTGCCCCCTGCTACCTCGGGAAGATAAGATTCACCGCTTTCGATT
1 ATAAGGCTAGTGGCTAAAATCTGCCCCCTGCTACCTCAGGAAGATAAGATTCACCGCTTTCGATC
*
25479907 TACTCCACTTCTGCTTAGGGAGA
66 TACTCCACTACTGCTTAGGGAGA
25479930 CAAACTCTGA
Statistics
Matches: 226, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
175 5 0.02
176 66 0.29
177 149 0.66
178 6 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (176 bp):
ATAAGGCTAGTGGCTAAAATCTGCCCCCTGCTACCTCAGGAAGATAAGATTCACCGCTTTCGATC
TACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGCTCCCTTGCTACCTCAGGA
AGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAAGGAG
Found at i:25479844 original size:44 final size:45
Alignment explanation
Indices: 25479747--25479846 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 45
25479737 ACTACTGCTT
* * *
25479747 AGGGAGATAAGATCTACAATCTTCAATCTGCTCCCTTGTTACCTT
1 AGGGAGATAAGATCTACAATCTTCAATCTCCTCCCTTGCTACCTC
** *
25479792 AGTAAGATAAGA-CTACAATCATT--AGCTTCCTCCCTTGCTACCTC
1 AGGGAGATAAGATCTACAATC-TTCAATC-TCCTCCCTTGCTACCTC
25479836 AGGGAGATAAG
1 AGGGAGATAAG
25479847 GCTAGTGGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
43 2 0.04
44 31 0.69
45 12 0.27
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
AGGGAGATAAGATCTACAATCTTCAATCTCCTCCCTTGCTACCTC
Found at i:25492196 original size:21 final size:21
Alignment explanation
Indices: 25492170--25492219 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
25492160 AAATTAACAC
** * *
25492170 AAATGAAATGTAACAAGTTTA
1 AAATGAAATAAAAAAAGGTTA
25492191 AAATGATAATAAAAAAAGGTTA
1 AAATGA-AATAAAAAAAGGTTA
25492213 AAATGAA
1 AAATGAA
25492220 TAATATGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATGAAATAAAAAAAGGTTA
Found at i:25497968 original size:17 final size:17
Alignment explanation
Indices: 25497948--25497984 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
25497938 GGCAAAGTTT
*
25497948 TGTTTGGGGTGAAGTAA
1 TGTTTAGGGTGAAGTAA
25497965 TG-TTAGGGTGAAGTAA
1 TGTTTAGGGTGAAGTAA
25497981 TGTT
1 TGTT
25497985 AAGCATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (17 bp):
TGTTTAGGGTGAAGTAA
Found at i:25497975 original size:16 final size:16
Alignment explanation
Indices: 25497954--25497985 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25497944 GTTTTGTTTG
25497954 GGGTGAAGTAATGTTA
1 GGGTGAAGTAATGTTA
25497970 GGGTGAAGTAATGTTA
1 GGGTGAAGTAATGTTA
25497986 AGCATTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (16 bp):
GGGTGAAGTAATGTTA
Found at i:25501208 original size:24 final size:24
Alignment explanation
Indices: 25501152--25501208 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
25501142 TATTTTCATG
* *
25501152 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
25501176 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
25501200 ATTAGTATT
1 ATTATTATT
25501209 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:25501419 original size:11 final size:10
Alignment explanation
Indices: 25501401--25501458 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 10
25501391 GTATGTATTA
25501401 TATATATTTT
1 TATATATTTT
*
25501411 TACTATATTATG
1 TA-TATATT-TT
25501423 TATATATTATAT
1 TATATATT-T-T
*
25501435 TATATATATT
1 TATATATTTT
25501445 TATTATATTTT
1 TA-TATATTTT
25501456 TAT
1 TAT
25501459 GTATACATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 6 0.15
11 24 0.60
12 10 0.25
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (10 bp):
TATATATTTT
Found at i:25501426 original size:9 final size:8
Alignment explanation
Indices: 25501396--25501458 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
25501386 AATGTGTATG
25501396 TATTATAT
1 TATTATAT
25501404 ATATT-T-T
1 -TATTATAT
*
25501411 TACTATAT
1 TATTATAT
25501419 TATGTATA-
1 TAT-TATAT
25501427 TATTATAT
1 TATTATAT
25501435 TATATATATT
1 TAT-TATA-T
25501445 TATTATAT
1 TATTATAT
*
25501453 TTTTAT
1 TATTAT
25501459 GTATACATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
6 3 0.07
7 6 0.13
8 16 0.36
9 16 0.36
10 4 0.09
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:25501435 original size:16 final size:15
Alignment explanation
Indices: 25501396--25501450 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
25501386 AATGTGTATG
*
25501396 TATTATATATATT-TT
1 TATTATAT-TATTATA
*
25501411 TACTATATTATGTATA
1 TATTATATTAT-TATA
25501427 TATTATATTA-TATA
1 TATTATATTATTATA
25501441 TATT-TATTAT
1 TATTATATTAT
25501451 ATTTTTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 5 0.15
14 11 0.32
15 8 0.24
16 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTATATTATTATA
Found at i:25501450 original size:18 final size:18
Alignment explanation
Indices: 25501396--25501453 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
25501386 AATGTGTATG
25501396 TATTATATATATTT-TTA
1 TATTATATATATTTATTA
* *
25501413 CTA-TATTATGTATATATTA
1 -TATTA-TATATATTTATTA
25501432 TATTATATATATTTATTA
1 TATTATATATATTTATTA
25501450 TATT
1 TATT
25501454 TTTATGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.06
18 26 0.79
19 5 0.15
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATATATATTTATTA
Found at i:25514122 original size:44 final size:44
Alignment explanation
Indices: 25514056--25514714 Score: 838
Period size: 44 Copynumber: 15.2 Consensus size: 44
25514046 TCTTTGAAAC
*
25514056 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* ** *
25514100 ATATAACAGATTTGGCACCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
25514144 AGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATTAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * **
25514188 AGAT----GATTTGGCATCTCTGTAGCGACGGAGAGCAGATTAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25514228 AGAT----GATTTGGCATCTCTGTAGTGACGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25514268 AAATAACAGATTTGGCATCTCTGTAGCGGCGGAAAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
** * * * *
25514312 AGATAGTAGATTTGGAGTCTTTGTAGCAGCGGAGAGCAGATCAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
25514356 AGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
25514400 AGATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATTGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
25514444 AGATAACAGATTTGGCGTCTCCGTAACGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
25514488 AGATAACAGATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
25514532 AGAT----GATTTGGCATCTCTATAGCGGCGGAGAACAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25514572 AGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25514616 AGATAACTGATTTGGCTTCTCTGTAGCGACGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
25514660 AGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
25514704 AAATAACAGAT
1 AGATAACAGAT
25514715 CGGTGTTCCT
Statistics
Matches: 539, Mismatches: 68, Indels: 16
0.87 0.11 0.03
Matches are distributed among these distances:
40 108 0.20
44 431 0.80
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:25514656 original size:304 final size:300
Alignment explanation
Indices: 25514056--25514714 Score: 935
Period size: 304 Copynumber: 2.2 Consensus size: 300
25514046 TCTTTGAAAC
*
25514056 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAATATAACAGATTTGGCACCTC
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAAATAACAGATTTGGCACCTC
* * * *
25514121 TGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATT
66 CGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCCGTAACGGCGGAGAGCAGATC
* * *
25514186 AAAGATGATTTGGCATCTCTGTAGCGACGGAGAGCAGATTAAAGATGATTTGGCATCTCTGTAGT
131 AAAGATGATTTGGCATCTCTGTAGCGACGGAGAGCAGATCAAAGATGATTTGGCATCTCTATAGC
* * * * *
25514251 GACGGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTAGCGGCGGAAAGCAGATCGAAGAT
196 GACGGAGAACAAATCGAAAATAACAGATTTGGCATCTCTGTAGCAGCAGAAAGCAAATCGAAGAT
* *
25514316 AGTAGATTTGGAGTCTTTGTAGCAGCGGAGAGCAGATCAA
261 ACTAGATTTGGAGTCTCTGTAGCAGCGGAGAGCAGATCAA
* * **
25514356 AGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAAATAACAGATTTGGCACCTC
* * *
25514421 CGTAGCGGCGGAGAGCAGATTGAAGATAACAGATTTGGCGTCTCCGTAACGGCGGAGAGCAGATC
66 CGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCCGTAACGGCGGAGAGCAGATC
* * * * *
25514486 GAAGATAACAGATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTA
131 AAAGAT----GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCAAAGATGATTTGGCATCTCTA
* * * *
25514551 TAGCGGCGGAGAACAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAAATCGA
192 TAGCGACGGAGAACAAATCGAAAATAACAGATTTGGCATCTCTGTAGCAGCAGAAAGCAAATCGA
** *
25514616 AGATAACT-GATTTGGCTTCTCTGTAGC-GACGGAGAGCAGATCGA
257 AGAT-ACTAGATTTGGAGTCTCTGTAGCAG-CGGAGAGCAGATCAA
*
25514660 AGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAAATAACAGAT
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAAATAACAGAT
25514715 CGGTGTTCCT
Statistics
Matches: 317, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
300 124 0.39
303 1 0.00
304 190 0.60
305 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (300 bp):
AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAAATAACAGATTTGGCACCTC
CGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCCGTAACGGCGGAGAGCAGATC
AAAGATGATTTGGCATCTCTGTAGCGACGGAGAGCAGATCAAAGATGATTTGGCATCTCTATAGC
GACGGAGAACAAATCGAAAATAACAGATTTGGCATCTCTGTAGCAGCAGAAAGCAAATCGAAGAT
ACTAGATTTGGAGTCTCTGTAGCAGCGGAGAGCAGATCAA
Found at i:25518799 original size:39 final size:39
Alignment explanation
Indices: 25518755--25519025 Score: 474
Period size: 39 Copynumber: 7.0 Consensus size: 39
25518745 ATTATATTAT
* *
25518755 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25518794 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
25518833 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
25518872 CAGCACGAAGCCTGCGGGACTTT-GGCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25518910 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
25518949 CAGCACGAAGCCTGCGGG-CTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
25518987 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
25519026 AGTGTCTTGC
Statistics
Matches: 222, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 73 0.33
39 149 0.67
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:25518938 original size:77 final size:77
Alignment explanation
Indices: 25518755--25519025 Score: 472
Period size: 77 Copynumber: 3.5 Consensus size: 77
25518745 ATTATATTAT
* *
25518755 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGG-
25518820 CCGGATACATTTC
65 CCGGATACATTTC
25518833 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
*
25518898 CGGATATATTTC
66 CGGATACATTTC
* *
25518910 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTCCAGCACGAAGCCTGCGGG-CTTTAGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTT-GG
25518974 CCGGATACATTTC
65 CCGGATACATTTC
25518987 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
25519026 AGTGTCTTGC
Statistics
Matches: 185, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
76 4 0.02
77 119 0.64
78 62 0.34
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (77 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
CGGATACATTTC
Found at i:25518960 original size:116 final size:116
Alignment explanation
Indices: 25518755--25519025 Score: 472
Period size: 116 Copynumber: 2.3 Consensus size: 116
25518745 ATTATATTAT
* * *
25518755 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
25518820 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
66 CCGGATACATTTCCAGCACGAAGCCTGCGGG-CTTTAGCCCGGATACATTTC
* *
25518872 CAGCACGAAGCCTGCGGGACTTT-GGCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
*
25518936 CCGGATATATTTCCAGCACGAAGCCTGCGGGCTTTAGCCCGGATACATTTC
66 CCGGATACATTTCCAGCACGAAGCCTGCGGGCTTTAGCCCGGATACATTTC
25518987 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
25519026 AGTGTCTTGC
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
115 43 0.30
116 80 0.55
117 22 0.15
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (116 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
CCGGATACATTTCCAGCACGAAGCCTGCGGGCTTTAGCCCGGATACATTTC
Found at i:25524662 original size:39 final size:39
Alignment explanation
Indices: 25524618--25524812 Score: 327
Period size: 39 Copynumber: 5.0 Consensus size: 39
25524608 ATTATATTAT
* *
25524618 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25524657 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25524696 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25524735 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25524774 CAGCACGAAGCCTGCGGGACTTTATCCCGGAATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGG-ATACATTT
25524813 TCAGTGTCTT
Statistics
Matches: 148, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 141 0.95
40 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:25528158 original size:22 final size:22
Alignment explanation
Indices: 25528104--25528146 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25528094 ATCAAAAGAA
*
25528104 TGAAAT-AAT-ATAAAACAATT
1 TGAAATAAATAATGAAACAATT
25528124 TGAAATAAATAATGAAACAATT
1 TGAAATAAATAATGAAACAATT
25528146 T
1 T
25528147 TGACTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (22 bp):
TGAAATAAATAATGAAACAATT
Found at i:25528372 original size:32 final size:32
Alignment explanation
Indices: 25528333--25528406 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 32
25528323 AATAATATAG
25528333 AAAAAAATA-TTAA-AGTAAATAATATACATAA
1 AAAAAAATATTTAATA-TAAATAATATACATAA
* *
25528364 AATAAAAATATTTTAATATAAATAATATATATGA
1 AA-AAAAATA-TTTAATATAAATAATATACATAA
25528398 AAAAAAATA
1 AAAAAAATA
25528407 ATGTATAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 2 0.05
32 7 0.19
33 7 0.19
34 20 0.54
35 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (32 bp):
AAAAAAATATTTAATATAAATAATATACATAA
Found at i:25530322 original size:15 final size:15
Alignment explanation
Indices: 25530271--25530325 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
25530261 AGATTGGAAA
* *
25530271 GAAAATTAGAATGAT
1 GAAAAATAGAAGGAT
*
25530286 GAAAAATTGAAGAGAT
1 GAAAAATAGAAG-GAT
25530302 GAAAAACTAGAAGGAT
1 GAAAAA-TAGAAGGAT
25530318 GAAAAATA
1 GAAAAATA
25530326 CATAAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 11 0.32
16 18 0.53
17 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.18
Consensus pattern (15 bp):
GAAAAATAGAAGGAT
Found at i:25534301 original size:49 final size:48
Alignment explanation
Indices: 25534204--25534310 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 48
25534194 ACTAACATAT
*
25534204 CCTACCAGTGGCCCAACATACACGCCACTCTGGTTAGAAACCAACATG
1 CCTACCAGTGGCCCAACATACACGCCACTCTAGTTAGAAACCAACATG
* * * * * * *
25534252 CCCTACTAGTGGCCCATCATACACTCCTAC-CTATTTAGCAACTAGCATG
1 -CCTACCAGTGGCCCAACATACACGCC-ACTCTAGTTAGAAACCAACATG
25534301 CCTACCAGTG
1 CCTACCAGTG
25534311 ATCTGTCGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
48 9 0.19
49 37 0.77
50 2 0.04
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (48 bp):
CCTACCAGTGGCCCAACATACACGCCACTCTAGTTAGAAACCAACATG
Found at i:25562687 original size:22 final size:21
Alignment explanation
Indices: 25562646--25562699 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
25562636 ATATTATCAT
*
25562646 AACAGTTCAGATAAAATATAG
1 AACAGATCAGATAAAATATAG
*
25562667 AGCAGATCAGATACAAATATAG
1 AACAGATCAGATA-AAATATAG
25562689 AACAGATCAGA
1 AACAGATCAGA
25562700 ATCAGATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.19
Consensus pattern (21 bp):
AACAGATCAGATAAAATATAG
Found at i:25567059 original size:25 final size:25
Alignment explanation
Indices: 25567030--25567080 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
25567020 ATTCCAAATT
* *
25567030 GGATGAGATTGAAAAGTAATATTAG
1 GGATGAGACTGAAAAGTAAAATTAG
*
25567055 GGATGAGACTGAAGAGTAAAATTAG
1 GGATGAGACTGAAAAGTAAAATTAG
25567080 G
1 G
25567081 AGTTCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (25 bp):
GGATGAGACTGAAAAGTAAAATTAG
Found at i:25568259 original size:8 final size:8
Alignment explanation
Indices: 25568248--25568283 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
25568238 AATTTTTTAG
25568248 ATTTTAAA
1 ATTTTAAA
25568256 ATTTTAAA
1 ATTTTAAA
*
25568264 AATTTAAA
1 ATTTTAAA
25568272 ATTATTAAA
1 ATT-TTAAA
25568281 ATT
1 ATT
25568284 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:25576971 original size:24 final size:22
Alignment explanation
Indices: 25576944--25576996 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
25576934 GTAACACTAG
25576944 TTATCATATTATTAAATTAATATA
1 TTATCATATTA-TAAATT-ATATA
** * *
25576968 TTATGTTATTATATATTTTATA
1 TTATCATATTATAAATTATATA
25576990 TTATCAT
1 TTATCAT
25576997 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 9 0.39
23 5 0.22
24 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATCATATTATAAATTATATA
Found at i:25577344 original size:44 final size:44
Alignment explanation
Indices: 25577281--25577369 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
25577271 TGACTGTTCA
*
25577281 ACTATAAATTCAAGTTTTTTTAAGTTTGGGTTAGATTAATCTCG
1 ACTATAAATTCAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
*
25577325 ACTATAAATTTAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
1 ACTATAAATTCAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
25577369 A
1 A
25577370 ACTCGAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (44 bp):
ACTATAAATTCAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
Found at i:25579855 original size:14 final size:12
Alignment explanation
Indices: 25579823--25579857 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
25579813 AACAAAATGG
25579823 AATTTAAAAAAA
1 AATTTAAAAAAA
25579835 AATTTAAAAAAA
1 AATTTAAAAAAA
25579847 ACATGTTAAAA
1 A-AT-TTAAAA
25579858 TAATAGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.62
13 2 0.10
14 6 0.29
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (12 bp):
AATTTAAAAAAA
Found at i:25582855 original size:28 final size:30
Alignment explanation
Indices: 25582794--25582856 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
25582784 TCCTCCATTT
*
25582794 TTTTATTTCTATTAAAAATGCCCGTTATAA
1 TTTTCTTTCTATTAAAAATGCCCGTTATAA
25582824 --TTCTTTCT-TTAAAAATGTCCC-TT-TAA
1 TTTTCTTTCTATTAAAAATG-CCCGTTATAA
25582850 TTTTCTT
1 TTTTCTT
25582857 GATTTCACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
26 3 0.10
27 11 0.38
28 15 0.52
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTCTTTCTATTAAAAATGCCCGTTATAA
Found at i:25583202 original size:18 final size:18
Alignment explanation
Indices: 25583175--25583212 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25583165 CAAAAGCAAC
25583175 TTTCTCGATGCTATTAAA
1 TTTCTCGATGCTATTAAA
*
25583193 TTTCTTGATGCTATTAAA
1 TTTCTCGATGCTATTAAA
25583211 TT
1 TT
25583213 GTAGCTTGAA
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:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTCTCGATGCTATTAAA
Found at i:25587141 original size:27 final size:27
Alignment explanation
Indices: 25587054--25587142 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
25587044 TATTACCTAC
25587054 TTTAAATT-TTTT-TATATGTAATTTATT
1 TTTAAATTATTTTCTATAT-T-ATTTATT
* * *
25587081 TTTAAATTATTTTGTATATTGTTGATT
1 TTTAAATTATTTTCTATATTATTTATT
** *
25587108 TCAAAATTTTTTTCCT-TATTATTTATT
1 TTTAAATTATTTT-CTATATTATTTATT
25587135 TTTAAATT
1 TTTAAATT
25587143 CATTCATTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
27 38 0.78
28 6 0.12
29 5 0.10
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTAAATTATTTTCTATATTATTTATT
Found at i:25588515 original size:16 final size:16
Alignment explanation
Indices: 25588494--25588528 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25588484 AACATAAAGA
*
25588494 TTTATTATTAATTATT
1 TTTATTATTAATAATT
*
25588510 TTTATTGTTAATAATT
1 TTTATTATTAATAATT
25588526 TTT
1 TTT
25588529 TAGTATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTATTATTAATAATT
Found at i:25592214 original size:30 final size:30
Alignment explanation
Indices: 25592173--25592241 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
25592163 CTAGTCTTTG
*
25592173 CCACCACCAACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
25592203 CCACCATCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
25592233 CCACCACCA
1 CCACCACCA
25592242 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.28, C:0.49, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:25592747 original size:23 final size:24
Alignment explanation
Indices: 25592721--25592847 Score: 95
Period size: 23 Copynumber: 5.5 Consensus size: 24
25592711 CTTTTTTTGT
*
25592721 TATTAT-TATATTTCTTAATATTA
1 TATTATATATATTTCTTAATACTA
* *
25592744 TATTATATATA-TTCTT-TTAATA
1 TATTATATATATTTCTTAATACTA
* *
25592766 TATTA-AGTATA-TTCTAAATTCTA
1 TATTATA-TATATTTCTTAATACTA
** * *
25592789 TATTACGTATATATATT-ATACTA
1 TATTATATATATTTCTTAATACTA
* * *
25592812 TTTTATGTATATATCTTAATACTA
1 TATTATATATATTTCTTAATACTA
25592836 TATTATATATAT
1 TATTATATATAT
25592848 ATATATTTTA
Statistics
Matches: 82, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.01
22 17 0.21
23 42 0.51
24 22 0.27
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.54
Consensus pattern (24 bp):
TATTATATATATTTCTTAATACTA
Found at i:25592849 original size:49 final size:49
Alignment explanation
Indices: 25592721--25592925 Score: 140
Period size: 47 Copynumber: 4.3 Consensus size: 49
25592711 CTTTTTTTGT
* * * *
25592721 TATTAT-TATATTTCTTAATATTATATTATATATAT-TCT-TT-TAATA
1 TATTATGTATATATCTTAATACTATATTATATATATATATATTATACTA
* * * **
25592766 TATTAAGTATAT-TCTAAATTCTATA-T-TACGTATATATATTATACTA
1 TATTATGTATATATCTTAATACTATATTATATATATATATATTATACTA
* *
25592812 TTTTATGTATATATCTTAATACTATATTATATATATATATATTTTACATGTTA
1 TATTATGTATATATCTTAATACTATATTATATATATATATATTATAC----TA
* * * * * * *
25592865 TCTTATGTATATATTTTAAT--TATATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATCTTAATACTATATTATATATATATATATTATACTA
*
25592912 TATTATGTACATAT
1 TATTATGTATATAT
25592926 TTTTAATATT
Statistics
Matches: 124, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
43 5 0.04
44 3 0.02
45 17 0.14
46 19 0.15
47 25 0.20
48 1 0.01
49 15 0.12
51 19 0.15
53 20 0.16
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (49 bp):
TATTATGTATATATCTTAATACTATATTATATATATATATATTATACTA
Found at i:25592920 original size:47 final size:47
Alignment explanation
Indices: 25592740--25592954 Score: 131
Period size: 47 Copynumber: 4.5 Consensus size: 47
25592730 ATTTCTTAAT
* * *
25592740 ATTATATTA--TATATATTCTTTTA-A-TATATTAAGTATAT-TCTAA
1 ATTATATTATGTATATATT-TTTTACACTATATTATGTATATATTTTA
* * * * *
25592783 ATTCTATATTACGTATATA--TATTATACTATTTTATGTATATATCTTA
1 A-T-TATATTATGTATATATTTTTTACACTATATTATGTATATATTTTA
* * *
25592830 ATACTATATTATATATATATATATTTTACATGTTATCTTATGTATATATTTTA
1 AT--TATATTATGTATATAT-T-TTTTACA--CTATATTATGTATATATTTTA
* *
25592883 ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTA
1 ATTATATTATGTATATATTTTTTACACTATATTATGTATATA-TTTTA
* * *
25592931 A-TATTATCACGTATTTATTTTTTA
1 ATTA-TATTATGTATATATTTTTTA
25592955 TATATGTACA
Statistics
Matches: 137, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
43 1 0.01
44 5 0.04
45 8 0.06
46 13 0.09
47 40 0.29
48 23 0.17
49 7 0.05
50 1 0.01
51 19 0.14
53 20 0.15
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (47 bp):
ATTATATTATGTATATATTTTTTACACTATATTATGTATATATTTTA
Found at i:25592936 original size:20 final size:20
Alignment explanation
Indices: 25592911--25592969 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
25592901 TTTTTACACT
25592911 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
25592931 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
25592954 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
25592970 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:25593103 original size:16 final size:15
Alignment explanation
Indices: 25593079--25593113 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
25593069 TAATTATTAT
25593079 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
25593095 TATTTTAATATTTTA
1 TATTCTAATATTTTA
25593110 TATT
1 TATT
25593114 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:25595031 original size:13 final size:14
Alignment explanation
Indices: 25595013--25595045 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
25595003 CGCGTGGGCC
25595013 GAAAAACAGAT-AA
1 GAAAAACAGATAAA
25595026 GAAAAACAGATAAA
1 GAAAAACAGATAAA
25595040 GAAAAA
1 GAAAAA
25595046 GAATGAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (14 bp):
GAAAAACAGATAAA
Found at i:25605189 original size:76 final size:74
Alignment explanation
Indices: 25605048--25605491 Score: 581
Period size: 76 Copynumber: 6.0 Consensus size: 74
25605038 AGCCTTGACT
* * * *
25605048 GACATGTTGAGGTTTTTTCAATTTCTGCCTTTC-AAGAATCAACTCATACTGCAAGAAGTGAGTT
1 GACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTT
25605112 GAGCCTCAA
66 GAGCCTCAA
25605121 GACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATTCAACTCATACTGCAAGAAGTGAG
1 GACACGTTGAGGTATTTTCAATTTCTGTCTTTC-AAAAAA-TCAACTCATACTGCAAGAAGTGAG
25605186 TTGAGCCTCAA
64 TTGAGCCTCAA
*
25605197 GACACGTTGCGGTATTTTCAATTTCTGTCTTTCAAAAAAGTTCAACTCATACTGCAAGAAGTGAG
1 GACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAA--TCAACTCATACTGCAAGAAGTGAG
25605262 TTGAGCCTCAA
64 TTGAGCCTCAA
* ** * *
25605273 GATACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAATCAACTCATGTTGCGAGAGGTGAGTT
1 GACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTT
25605338 GAGCCTCAA
66 GAGCCTCAA
* * * ** *
25605347 GACACGCTGAGGTAATTTCAATTTCTGTCTTTCAAAATAATCAACTCATATTGTGAGAGGTGAGT
1 GACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAA-AATCAACTCATACTGCAAGAAGTGAGT
*
25605412 TGAGCCTCAG
65 TGAGCCTCAA
* * * * * * *
25605422 GACACGCTGAGGTAATTTT-GATCTCTGT-TTTC-AGAAATCAACTCATATTACAAGAGGTGAGT
1 GACACGTTGAGGT-ATTTTCAATTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGT
*
25605484 AGAGCCTC
65 TGAGCCTC
25605492 GGATCACATG
Statistics
Matches: 340, Mismatches: 25, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
72 31 0.09
73 32 0.09
74 69 0.20
75 64 0.19
76 144 0.42
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (74 bp):
GACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTT
GAGCCTCAA
Found at i:25605274 original size:152 final size:148
Alignment explanation
Indices: 25605002--25605491 Score: 610
Period size: 150 Copynumber: 3.3 Consensus size: 148
25604992 ATTTCTACGG
* * * * * * * * *
25605002 TTCAAAAAAACAGCTCATATTACGAGAGGTGAGCTGAGCCTTGACTGACATGTTGAGGTTTTTTC
1 TTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTTC
* *
25605067 AATTTCTGCCTTTC-AAGAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGA
64 AATTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGA
25605131 GGTATTTTCAATTTCTGTCT
129 GGTATTTTCAATTTCTGTCT
* * *
25605151 TTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGCGGTATTTTC
1 TTC-AAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
25605216 AATTTCTGTCTTTCAAAAAAGTTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGATACGTT
64 AATTTCTGTCTTTCAAAAAA--TCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTT
25605281 GAGGTATTTTCAATTTCTGTCT
127 GAGGTATTTTCAATTTCTGTCT
* * * *
25605303 TTCAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
1 TTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
* ** * * *
25605368 TTTCTGTCTTTCAAAATAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 TTTCTGTCTTTCAAAA-AATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAG
* *
25605433 GTAATTTT-GATCTCTGT-T
130 GT-ATTTTCAATTTCTGTCT
* * *
25605451 TTC-AGAAATCAACTCATATTACAAGAGGTGAGTAGAGCCTC
1 TTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
25605492 GGATCACATG
Statistics
Matches: 298, Mismatches: 36, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
147 33 0.11
148 4 0.01
149 80 0.27
150 82 0.28
151 32 0.11
152 67 0.22
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (148 bp):
TTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGG
TATTTTCAATTTCTGTCT
Found at i:25605523 original size:149 final size:148
Alignment explanation
Indices: 25605002--25605516 Score: 592
Period size: 149 Copynumber: 3.4 Consensus size: 148
25604992 ATTTCTACGG
* * * * * * * * *
25605002 TTCAAAAAAACAGCTCATATTACGAGAGGTGAGCTGAGCCTTGACTGACATGTTGAGGTTTTTTC
1 TTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCC-TCA-AGACACGTCGAGGTATTTTC
* *
25605067 AATTTCTGCCTTTC-AAGAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGA
64 AATTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGA
25605131 GGTATTTTCAATTTCTGTCT
129 GGTATTTTCAATTTCTGTCT
* * * * *
25605151 TTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGCGGTATTTTC
1 TTC-AAAAAA-TCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTC
*
25605216 AATTTCTGTCTTTCAAAAAAGTTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGATACGTT
64 AATTTCTGTCTTTCAAAAAA--TCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTT
25605281 GAGGTATTTTCAATTTCTGTCT
127 GAGGTATTTTCAATTTCTGTCT
* * * *
25605303 TTCAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACG-CTGAGGTAATTTCA
1 TTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGACACGTC-GAGGTATTTTCA
* ** * * *
25605367 ATTTCTGTCTTTCAAAATAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
65 ATTTCTGTCTTTCAAAA-AATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGA
* *
25605432 GGTAATTTT-GATCTCTGT-T
129 GGT-ATTTTCAATTTCTGTCT
* * *
25605451 TTC-AGAAATCAACTCATATTACAAGAGGTGAGTAGAGCCTC-GGATCACATGTCGAGGTATTTT
1 TTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGA-CAC--GTCGAGGTATTTT
25605514 CAA
63 CAA
25605517 AATCTGTTTT
Statistics
Matches: 316, Mismatches: 38, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
146 2 0.01
147 36 0.11
148 4 0.01
149 93 0.29
150 82 0.26
151 32 0.10
152 67 0.21
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (148 bp):
TTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTCAA
TTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGG
TATTTTCAATTTCTGTCT
Found at i:25605602 original size:87 final size:88
Alignment explanation
Indices: 25605447--25605613 Score: 203
Period size: 87 Copynumber: 1.9 Consensus size: 88
25605437 TTTTGATCTC
* * *
25605447 TGTTTTCAGAAATCAACTCATATTACAAGAGGTGAGTAGAGCCTCGGATCACATGTCGAGGTATT
1 TGTTTTCAAAAATCAACTCATATTACAAGAAGTGAGTAGAGCCTCGGATCACATGTCGAGCTATT
25605512 TTCAAAATCTGTTTTACAAATTT
66 TTCAAAATCTGTTTTACAAATTT
* * * * * * *
25605535 TGTTTT-AAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTAT
1 TGTTTTCAAAAATCAACTCATATTACAAGAAGTGAGTAGAGCCTCGGATCACATGTC-GAGCTAT
**
25605598 TTTCAATTTCTGTTTT
65 TTTCAAAATCTGTTTT
25605614 TAATGTCTAG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
86 1 0.02
87 59 0.89
88 6 0.09
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (88 bp):
TGTTTTCAAAAATCAACTCATATTACAAGAAGTGAGTAGAGCCTCGGATCACATGTCGAGCTATT
TTCAAAATCTGTTTTACAAATTT
Found at i:25606857 original size:23 final size:23
Alignment explanation
Indices: 25606820--25606949 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
25606810 CTTTTTTTGT
*
25606820 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
25606843 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
25606865 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
25606888 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
25606913 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
25606938 TATTATTTATAT
1 TATTATATATAT
25606950 ATATATTTTT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:25606925 original size:27 final size:26
Alignment explanation
Indices: 25606885--25607036 Score: 95
Period size: 25 Copynumber: 6.0 Consensus size: 26
25606875 ATTCTAAATT
*
25606885 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
25606910 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
25606935 CTATATTATTTATATATATATTTTTACATG
1 CTATATTATGTATATATATA---TTA-ATA
* *
25606965 TTATCTTATGTATATAT-T-TTAAT-
1 CTATATTATGTATATATATATTAATA
* * * *
25606988 -TATATTATGTATGTAT-TTTTTACA
1 CTATATTATGTATATATATATTAATA
* *
25607012 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATATTAATA
25607037 TTATCACGTA
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
22 15 0.15
23 3 0.03
24 4 0.04
25 58 0.58
29 4 0.04
30 16 0.16
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:25607039 original size:20 final size:20
Alignment explanation
Indices: 25607014--25607072 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
25607004 TTTTTACACT
25607014 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
25607034 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
25607057 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
25607073 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:25607211 original size:16 final size:15
Alignment explanation
Indices: 25607187--25607221 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
25607177 TAATTATTAT
25607187 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
25607203 TATTTTAATATTTTA
1 TATTCTAATATTTTA
25607218 TATT
1 TATT
25607222 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:25608988 original size:3 final size:3
Alignment explanation
Indices: 25608980--25609006 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25608970 CTTATATAGA
25608980 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
25609007 AGATAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25612066 original size:94 final size:91
Alignment explanation
Indices: 25611937--25612141 Score: 257
Period size: 94 Copynumber: 2.2 Consensus size: 91
25611927 AACGGAAGCC
* * *
25611937 AATATTCAGAACAAACAAATCTAAAACTTTCTTTTAGAAAATATTCTACTTCACTATTAGACTTT
1 AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGAC-TT
* *
25612002 CTTTTAAAATATTTTTTTCATTCTTGATA
65 CTTCTAAAATA--TTTTTCATTCCTGATA
* * * * * *
25612031 AATATTTAGAACAAATAAATATGAATCTTTTTTTTAGAAAATAGTCTATTTCACTTTTAGACTTC
1 AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGACTTC
*
25612096 TTCTAAAATATTTTTCATTCCTGTTA
66 TTCTAAAATATTTTTCATTCCTGATA
* *
25612122 AACATTGAGAACAAATAAAT
1 AATATTCAGAACAAATAAAT
25612142 CTAAGCTTCA
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 32 0.33
93 12 0.12
94 53 0.55
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (91 bp):
AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGACTTC
TTCTAAAATATTTTTCATTCCTGATA
Found at i:25632798 original size:3 final size:3
Alignment explanation
Indices: 25632790--25632824 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
25632780 AACATTTGGC
* *
25632790 TAT TAT TAT TAT TAT TAC TAT TAT AAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
25632825 ACTTTTACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:25644721 original size:45 final size:44
Alignment explanation
Indices: 25644638--25645061 Score: 184
Period size: 44 Copynumber: 9.4 Consensus size: 44
25644628 TCTAAAATTA
* * * *
25644638 CAGTAGAGTAGGTTGAAGACACAAGTCTTATCTT-CCTGAAGTTG
1 CAGTAGAGCAGATTGAAGATACAAATCTTAT-TTCCCTGAAGTTG
* *
25644682 CAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 CAGTAGAGCAGATTGAAGATA-CAAATCTTATTTCCCTGAAGTTG
* * * * * *
25644727 CTA-TAGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAATTTG
1 C-AGTAGAGCAGATTG-A---A-G-ATACA-A-ATCTTATTTCCCTGAAGTTG
* * * * * * *
25644779 CAATAGAGCAGA-TCAA-A-ACAAACCTTATCTCTCTGAAATTA
1 CAGTAGAGCAGATTGAAGATACAAATCTTATTTCCCTGAAGTTG
* * * * *
25644820 CAATAGAGTAGGTTGAAGACACAAATCTTATTTCCCTAAAGTTG
1 CAGTAGAGCAGATTGAAGATACAAATCTTATTTCCCTGAAGTTG
* *
25644864 CAGTAGAGCAGACTGAAGATAGAGAATCTTATTTCCCTGAAGTTG
1 CAGTAGAGCAGATTGAAGATACA-AATCTTATTTCCCTGAAGTTG
* * * * * * *
25644909 CAGTGGAACAGATTGAAGCTATAATTACAGACCTTATCTCTCTAAAGTTG
1 CAGTAGAGCAGATTGAAG-----A-TACAAATCTTATTTCCCTGAAGTTG
* * * ** * *
25644959 CAGTAGAGCAGA-TCAA-A-ACAAACCTTATCTCTGTAAATTTG
1 CAGTAGAGCAGATTGAAGATACAAATCTTATTTCCCTGAAGTTG
* * * * *
25645000 CAGTAGAGCAGGTT-AAAATTACAAGTCTTATCTCCCTAAAGTTG
1 CAGTAGAGCAGATTGAAGA-TACAAATCTTATTTCCCTGAAGTTG
*
25645044 CAGT-GCAACAGATTGAAG
1 CAGTAG-AGCAGATTGAAG
25645062 CTATAAATAA
Statistics
Matches: 291, Mismatches: 61, Indels: 55
0.71 0.15 0.14
Matches are distributed among these distances:
41 60 0.21
42 6 0.02
43 5 0.02
44 83 0.29
45 66 0.23
46 2 0.01
47 1 0.00
49 4 0.01
50 30 0.10
51 9 0.03
52 25 0.09
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (44 bp):
CAGTAGAGCAGATTGAAGATACAAATCTTATTTCCCTGAAGTTG
Found at i:25644794 original size:182 final size:181
Alignment explanation
Indices: 25644469--25645048 Score: 814
Period size: 182 Copynumber: 3.2 Consensus size: 181
25644459 GCAAGATTGG
* * * * *
25644469 TGAAGACACAAGTCTTATCTACTTGAAGTTGCAGCGGAGCAAACTGAAGATAGAAAATCTTATTT
1 TGAAGACACAAGTCTTATCTTCCTAAAGTTGCAGTGGAGCAGACTGAAGATAG-AAATCTTATTT
*
25644534 CCCTAAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTGAAATTAT-
65 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCT-AAATT-TG
*
25644598 -AGTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTACAGTAGAGTAGGT
128 CAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAAATTACAGTAGAGTAGGT
*
25644651 TGAAGACACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
1 TGAAGACACAAGTCTTATCTTCCTAAAGTTGCAGTGGAGCAGACTGAAGATAG-AAATCTTATTT
* *
25644716 CCCTGAAGTTGCTA-TAGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAATTTGC
65 CCCTGAAGTTGC-AGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGC
* * *
25644780 AATAGAGCAGATCAAAACAAACCTTATCTCTCTGAAATTACAATAGAGTAGGT
129 AGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAAATTACAGTAGAGTAGGT
* *
25644833 TGAAGACACAAATCTTAT-TTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGAGAATCTTATT
1 TGAAGACACAAGTCTTATCTT-CCTAAAGTTGCAGTGGAGCAGACTGAAGATAGA-AATCTTATT
* * *
25644897 TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT-AAT-TACAGACCTTATCTCTCTAAAGTTGC
64 TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGC
* * * *
25644960 AGTAGAGCAGATCAAAACAAACCTTATCTCTGTAAATTTGCAGTAGAGCAGGT
129 AGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAAATTACAGTAGAGTAGGT
* * *
25645013 T-AAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTG
1 TGAAGA-CACAAGTCTTATCTTCCTAAAGTTGCAGTG
25645049 CAACAGATTG
Statistics
Matches: 358, Mismatches: 32, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
179 3 0.01
180 94 0.26
181 13 0.04
182 247 0.69
183 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (181 bp):
TGAAGACACAAGTCTTATCTTCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGAAATCTTATTTC
CCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGCAG
TAGAGCAGATCAAAACAAACCTTATCTCTCTAAAATTACAGTAGAGTAGGT
Found at i:25644871 original size:44 final size:45
Alignment explanation
Indices: 25644833--25644926 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
25644823 TAGAGTAGGT
25644833 TGAAGACACA-AATCTTATTTCCCTAAAGTTGCAGTAGAGCAGAC
1 TGAAGACACAGAATCTTATTTCCCTAAAGTTGCAGTAGAGCAGAC
* * * * * *
25644877 TGAAGATAGAGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
1 TGAAGACACAGAATCTTATTTCCCTAAAGTTGCAGTAGAGCAGAC
25644922 TGAAG
1 TGAAG
25644927 CTATAATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 8 0.19
45 35 0.81
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (45 bp):
TGAAGACACAGAATCTTATTTCCCTAAAGTTGCAGTAGAGCAGAC
Found at i:25645040 original size:85 final size:85
Alignment explanation
Indices: 25644760--25645047 Score: 240
Period size: 85 Copynumber: 3.3 Consensus size: 85
25644750 AATAAATAGA
* * * * *
25644760 TCTTATCTCTCTAAATTTGCAATAGAGCAGATCAAAACAAACCTTATCTCTCTGAAATTACAATA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCT-AAATTGCAGTA
* * * *
25644825 GAGTAGGTTGAAGA-CACAAA
65 GAGCAGGTTGAAAATTACAAG
* * * * * * *
25644845 TCTTATTTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGAGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGA-TCAA-A-ACA-AACCTTATCTCTCT-AAATTGC
* * *
25644910 AGTGGAACAGATTGAAGCTATAATTAC-AG
61 AGTAGAGCAGGTTG-A---A-AATTACAAG
* * *
25644939 ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTGTAAATTTGCAGT
1 -TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAA-TTGCAGT
25645004 AGAGCAGGTT-AAAATTACAAG
64 AGAGCAGGTTGAAAATTACAAG
25645025 TCTTATCTCCCTAAAGTTGCAGT
1 TCTTATCTCCCTAAAGTTGCAGT
25645048 GCAACAGATT
Statistics
Matches: 156, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
85 54 0.35
86 6 0.04
87 1 0.01
88 2 0.01
89 27 0.17
90 3 0.02
91 24 0.15
92 2 0.01
93 2 0.01
94 5 0.03
95 30 0.19
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (85 bp):
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATTGCAGTAG
AGCAGGTTGAAAATTACAAG
Found at i:25645045 original size:44 final size:41
Alignment explanation
Indices: 25644939--25645047 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
25644929 ATAATTACAG
*
25644939 ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAA
1 ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAAACAA
* * *
25644980 ACCTTATCTCTGTAAATTTGCAGTAGAGCAGGTTAAAATTACAA
1 ACCTTATCTCTCTAAAGTTGCAGTAGAGCA-GATAAAA--ACAA
** *
25645024 GTCTTATCTCCCTAAAGTTGCAGT
1 ACCTTATCTCTCTAAAGTTGCAGT
25645048 GCAACAGATT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
41 28 0.50
42 5 0.09
44 23 0.41
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (41 bp):
ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATAAAAACAA
Found at i:25645138 original size:137 final size:133
Alignment explanation
Indices: 25644890--25645154 Score: 325
Period size: 137 Copynumber: 2.0 Consensus size: 133
25644880 AGATAGAGAA
* * * *
25644890 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAATTACAGACCTTATCTCTCTAAA
1 TCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGAAGCTATAATAACAGACCTTATCTCTCTAAA
* * * *
25644955 GTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTGTAAATTTGCAGTAGAGCAGGTTAAAATT
66 GTTGCAATAAAGCAGATCAAAACAAACCTTATCTCTG-AAAGTTGCAGTAGAGC-GATTAAAATT
25645020 ACAAG
129 ACAAG
* *
25645025 TCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTG
1 TCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGAAGCTAT-AAT-AACAGACCTTATCTCTCTA
* * ** * *
25645090 AAGTTGTAATAAAGTAGATCTTAGCAAACCTTATCTCCTCG-AAGTTGCAGTGGAGCGATTAAAA
64 AAGTTGCAATAAAGCAGATCAAAACAAACCTTATCT-CT-GAAAGTTGCAGTAGAGCGATTAAAA
25645154 T
127 T
25645155 GATGGGTCTT
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
135 38 0.35
136 11 0.10
137 58 0.53
138 2 0.02
139 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (133 bp):
TCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGAAGCTATAATAACAGACCTTATCTCTCTAAA
GTTGCAATAAAGCAGATCAAAACAAACCTTATCTCTGAAAGTTGCAGTAGAGCGATTAAAATTAC
AAG
Found at i:25646698 original size:3 final size:3
Alignment explanation
Indices: 25646690--25646993 Score: 83
Period size: 3 Copynumber: 99.3 Consensus size: 3
25646680 CTAACACCAC
* * * * *
25646690 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAC TAC TAC CACT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * *
25646735 CTAT CTAT TAT TAT TA- TCT TAT T-T AAAA TAT TGT TAT TAT TAT TAT
1 -TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * *
25646781 CT-C TAT TAT TTT TAT TAT GGTAT T-T TAT TAT TAT GT-T TAT TAT TAG
1 -TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * *
25646827 TAT TAG TAT TAAT TAT AAT TAT TAT TAC CAT TA- TATT TAT TAC TAA
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * * *
25646873 TAT TAG TAT AAT TAT T-T TCTT TAG TAC TAT TAC TGT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
25646917 TAT T-T GTCT TAT TAAT GTAC TGT TAT TAT T-T CCTACT TAAC TAT TAT
1 TAT TAT -TAT TAT T-AT -TAT TAT TAT TAT TAT --TA-T T-AT TAT TAT
* *
25646964 TAT TAT TAT T-T TAC TAT TAT AAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25646994 TACCTTTACC
Statistics
Matches: 218, Mismatches: 54, Indels: 58
0.66 0.16 0.18
Matches are distributed among these distances:
2 17 0.08
3 174 0.80
4 21 0.10
5 5 0.02
6 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:25646981 original size:20 final size:20
Alignment explanation
Indices: 25646956--25646994 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25646946 TTCCTACTTA
*
25646956 ACTATTATTATTATTATTTT
1 ACTATTATAATTATTATTTT
25646976 ACTATTATAATTATTATTT
1 ACTATTATAATTATTATTT
25646995 ACCTTTACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ACTATTATAATTATTATTTT
Found at i:25661826 original size:33 final size:33
Alignment explanation
Indices: 25661788--25661853 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
25661778 ATAGTTGGCA
25661788 TGTCATAGGATTGTTTGTGTATGGGTTATACTT
1 TGTCATAGGATTGTTTGTGTATGGGTTATACTT
25661821 TGTCATAGGATTGTTTGTGTATGGGTTATACTT
1 TGTCATAGGATTGTTTGTGTATGGGTTATACTT
25661854 CGGTTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.06, G:0.27, T:0.48
Consensus pattern (33 bp):
TGTCATAGGATTGTTTGTGTATGGGTTATACTT
Found at i:25662191 original size:9 final size:9
Alignment explanation
Indices: 25662177--25662253 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
25662167 ATAAGTATAA
25662177 AATTAACCG
1 AATTAACCG
*
25662186 AATTAACCA
1 AATTAACCG
*
25662195 AATTAATCG
1 AATTAACCG
**
25662204 AATTAACTA
1 AATTAACCG
*
25662213 AATTACCCG
1 AATTAACCG
* *
25662222 AATTACCCA
1 AATTAACCG
25662231 AATTAACCG
1 AATTAACCG
25662240 AATTAACCG
1 AATTAACCG
25662249 AATTA
1 AATTA
25662254 TTTGTATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:25662199 original size:18 final size:18
Alignment explanation
Indices: 25662176--25662253 Score: 111
Period size: 18 Copynumber: 4.3 Consensus size: 18
25662166 AATAAGTATA
25662176 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
* *
25662194 AAATTAATCGAATTAACT
1 AAATTAACCGAATTAACC
* *
25662212 AAATTACCCGAATTACCC
1 AAATTAACCGAATTAACC
25662230 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
*
25662248 GAATTA
1 AAATTA
25662254 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:25664316 original size:12 final size:12
Alignment explanation
Indices: 25664293--25664324 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
25664283 AATATATTGT
25664293 ATATATTTTAGGC
1 ATATA-TTTAGGC
25664306 ATATATTTAGGC
1 ATATATTTAGGC
25664318 ATATATT
1 ATATATT
25664325 ATATATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (12 bp):
ATATATTTAGGC
Found at i:25664343 original size:31 final size:31
Alignment explanation
Indices: 25664305--25664367 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
25664295 ATATTTTAGG
*
25664305 CATATATTTAGGCATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
25664336 CATATATTTAGGAATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
25664367 C
1 C
25664368 TATTCTCACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (31 bp):
CATATATTTAGGAATATATTATATATCTTTC
Found at i:25665475 original size:28 final size:28
Alignment explanation
Indices: 25665436--25665504 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
25665426 TTATTTATTA
* * *
25665436 TTTAGAATTTTTATGCATTTTTTGATTAT
1 TTTATAATTTTTATGCAGTTTTT-AATAT
* *
25665465 TTTA-ATTTTTTATGTAGTTTTTAATAT
1 TTTATAATTTTTATGCAGTTTTTAATAT
25665492 TTTATAATTTTTA
1 TTTATAATTTTTA
25665505 AAAATTTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 8 0.24
28 22 0.65
29 4 0.12
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.65
Consensus pattern (28 bp):
TTTATAATTTTTATGCAGTTTTTAATAT
Found at i:25665792 original size:19 final size:19
Alignment explanation
Indices: 25665752--25665793 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
25665742 TGAATAATTT
*
25665752 AAAATAAAAATTTTAAAGA
1 AAAATAAAAATTTAAAAGA
*
25665771 AAAAT-AAAATATTAAAATA
1 AAAATAAAAAT-TTAAAAGA
25665790 AAAA
1 AAAA
25665794 AATATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATTTAAAAGA
Found at i:25665797 original size:16 final size:16
Alignment explanation
Indices: 25665757--25665823 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
25665747 AATTTAAAAT
* *
25665757 AAAAATTTTAAAGAAAA
1 AAAAATATTAAA-ATAA
25665774 ATAAAATATTAAAATAA
1 A-AAAATATTAAAATAA
*
25665791 AAAAATATT-AAGTGAA
1 AAAAATATTAAAAT-AA
*
25665807 AAAAAT-TTAAAAGAA
1 AAAAATATTAAAATAA
25665822 AA
1 AA
25665824 TTGAAATGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.21
16 18 0.43
17 5 0.12
18 10 0.24
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAAATATTAAAATAA
Found at i:25665959 original size:30 final size:30
Alignment explanation
Indices: 25665919--25665996 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
25665909 GTTTTAGTTT
*
25665919 TTTATTTTTCATTTTAAC-TTTTCTCTTCTTC
1 TTTATTTTTCATTTTAACGTTTT-ACTT-TTC
*
25665950 TTT-TTTTTCATTTTAACGTTTTAGTTTTC
1 TTTATTTTTCATTTTAACGTTTTACTTTTC
25665979 TTTATATTTTCATTTTAA
1 TTTAT-TTTTCATTTTAA
25665997 ATTAAGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 6 0.14
30 17 0.40
31 19 0.45
ACGTcount: A:0.17, C:0.13, G:0.03, T:0.68
Consensus pattern (30 bp):
TTTATTTTTCATTTTAACGTTTTACTTTTC
Found at i:25665992 original size:31 final size:30
Alignment explanation
Indices: 25665909--25665996 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
25665899 ATGCAACAAT
25665909 GTTTTAG-TTT-TTTATTTTTCATTTTAAC
1 GTTTTAGTTTTCTTTATTTTTCATTTTAAC
**
25665937 -TTTTCTCTTCTTCTTT-TTTTTCATTTTAAC
1 GTTTT-AGTT-TTCTTTATTTTTCATTTTAAC
25665967 GTTTTAGTTTTCTTTATATTTTCATTTTAA
1 GTTTTAGTTTTCTTTAT-TTTTCATTTTAA
25665997 ATTAAGAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 4 0.08
29 7 0.14
30 19 0.39
31 19 0.39
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (30 bp):
GTTTTAGTTTTCTTTATTTTTCATTTTAAC
Found at i:25675579 original size:23 final size:23
Alignment explanation
Indices: 25675549--25675596 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
25675539 ACATATGGTT
25675549 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
25675572 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
25675595 TT
1 TT
25675597 CTTTAGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (23 bp):
TTTCATTGAAATTCTTTGAATCA
Found at i:25676389 original size:29 final size:31
Alignment explanation
Indices: 25676351--25676410 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
25676341 ATGTAATTTT
*
25676351 ATTATTTTAA-TATTTATAATTTTTA-AAGG
1 ATTATATTAATTATTTATAATTTTTAGAAGG
* *
25676380 ATTATATTAATTTTTTATTATTTTTAGAAGG
1 ATTATATTAATTATTTATAATTTTTAGAAGG
25676411 TAAAAGTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.35
30 13 0.50
31 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (31 bp):
ATTATATTAATTATTTATAATTTTTAGAAGG
Done.