Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 81 of 240
Found at i:25706596 original size:17 final size:18
Alignment explanation
Indices: 25706558--25706601 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
25706548 ATTATTGCTC
* *
25706558 TTATGTGTATTGTATTGC
1 TTATTTGTATTGTATTGA
25706576 TTATTTGTATT-TATTGA
1 TTATTTGTATTGTATTGA
25706593 TTATTTGTA
1 TTATTTGTA
25706602 GCTCATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (18 bp):
TTATTTGTATTGTATTGA
Found at i:25708588 original size:24 final size:24
Alignment explanation
Indices: 25708546--25708596 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
25708536 ACGACTCTTT
* *
25708546 TTACATTCATTCCATTCATCTGCA
1 TTACATTCATTACATTCATATGCA
25708570 TTACATTTCATTACA-TCATATGCA
1 TTACA-TTCATTACATTCATATGCA
25708594 TTA
1 TTA
25708597 AAGTCCACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (24 bp):
TTACATTCATTACATTCATATGCA
Found at i:25714221 original size:139 final size:137
Alignment explanation
Indices: 25713958--25714440 Score: 521
Period size: 139 Copynumber: 3.5 Consensus size: 137
25713948 ATATCAAACT
* * * * ** *
25713958 TTATATCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGGAGTTGCAAT
1 TTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAGT
* * * *
25714023 GTG-CGGATTAAAATGACAAATCCTATACCTCTAAAGTTGCAGTAGGTCGAACCAAATTCACCAA
66 G-GACGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
25714087 CGCCAAATC
130 -GCCAAATC
* * *
25714096 TTATCTCCCTGAAGTTGCAATAGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAGT
1 TTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAGT
* * * *
25714161 GGAACTGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAATAGTTTGGATCAAATTCACCAA
66 GG-ACGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACC-A
25714226 AGCC-AATCC
129 AGCCAAAT-C
* * * * *
25714235 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACTAATCCTATCTCTCTGAAA-TTGTAG
1 TTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCT-AAAGTTGCAG
* * *
25714299 TGGAGCGGATTAAAAT-AATGAATCCTATACCTCTGAAGTTACAGTAGGTCGGATTAAA-TCTAC
65 TGGA-CGGATTAAAATGAA-AAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTC-AC
* *
25714362 CATA-ACAAGTC
127 CA-AGCCAAATC
* * * * *
25714373 TTATATCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-CAGCCTTATCTCCCTAAAGTTGTAG
1 TTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC-TATCTCCCTAAAGTTGCAG
25714437 TGGA
65 TGGA
25714441 GCAGGTTGGA
Statistics
Matches: 292, Mismatches: 41, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
137 7 0.02
138 119 0.41
139 161 0.55
140 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (137 bp):
TTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAGT
GGACGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAAG
CCAAATC
Found at i:25714285 original size:44 final size:44
Alignment explanation
Indices: 25714092--25714538 Score: 194
Period size: 44 Copynumber: 9.9 Consensus size: 44
25714082 ACCAACGCCA
* * * *
25714092 AATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
* * * * **
25714136 AATCCTATCTCCCTAAAGTTGCAGTGGAACTGATTAAA-ATGAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACT
* * *
25714180 AATCCTATAC-CTCTGAAGTTGCAATAGTTTGGATCAAATTCACCAAAGC--C-
1 AATCCTAT-CTCCCTGAAGTTGC---AG--TGGAGCAGATT----AAAGCTACT
*
25714230 AATCCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACT
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
* * * * * *
25714275 AATCCTATCTCTCTGAAATTGTAGTGGAGCGGATTAAA-ATAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
* * * * *
25714318 GAATCCTATAC-CTCTGAAGTTACAGTAGG-TCGGATTAAATCTACCAT
1 -AATCCTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGCTA-C-T
* * * * *
25714365 AACAAGTCTTATATCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-
1 ---AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
* * * * * ** * *
25714412 CAGCCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGGAGATACC
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
* * *
25714457 AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
* * * * *
25714501 AAACCTA-CTTCCCTGAGGATGCTGTGGAGTAGATTAAA
1 AATCCTATC-TCCCTGAAGTTGCAGTGGAGCAGATTAAA
25714539 ACAATGAATC
Statistics
Matches: 298, Mismatches: 74, Indels: 62
0.69 0.17 0.14
Matches are distributed among these distances:
42 5 0.02
43 5 0.02
44 200 0.67
45 13 0.04
46 8 0.03
47 3 0.01
48 2 0.01
49 13 0.04
50 32 0.11
51 14 0.05
53 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
Found at i:25714839 original size:21 final size:18
Alignment explanation
Indices: 25714815--25714861 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
25714805 CAAATAACTA
25714815 AAACCCAAGTCCAAACATAAT
1 AAACCCAA--CCAAA-ATAAT
*
25714836 AAACCTAACCAAAATAAT
1 AAACCCAACCAAAATAAT
25714854 AAACCCAA
1 AAACCCAA
25714862 ATGGCCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.50
19 5 0.21
21 7 0.29
ACGTcount: A:0.57, C:0.28, G:0.02, T:0.13
Consensus pattern (18 bp):
AAACCCAACCAAAATAAT
Found at i:25716473 original size:16 final size:17
Alignment explanation
Indices: 25716452--25716497 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
25716442 TTTTTATATG
25716452 TTATTTTAAAATTTG-T
1 TTATTTTAAAATTTGTT
*
25716468 TTATTTT-TAATTTGTT
1 TTATTTTAAAATTTGTT
25716484 TTATTTTAAAATTT
1 TTATTTTAAAATTT
25716498 CTCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTTAAAATTTGTT
Found at i:25716560 original size:26 final size:26
Alignment explanation
Indices: 25716531--25716691 Score: 84
Period size: 26 Copynumber: 6.3 Consensus size: 26
25716521 TTTTATATGA
25716531 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAACTTGCTTTGTAAATTAT
* * * *
25716557 TTATTTTAAAATTTCTCT-TATA-TAT
1 TTATTTT-AACTTGCTTTGTAAATTAT
** * * *
25716582 ATTACATTAA---ACTTT-TATATGAT
1 -TTATTTTAACTTGCTTTGTAAATTAT
25716605 T-ATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAACTTGCTTTGTAAATTAT
* * * *
25716630 TTATGTTGAGTTGCTTTGTATATTATT
1 TTATTTTAACTTGCTTTGTAAATTA-T
* ** * *
25716657 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAACTTGCTTTGTAAATTAT
25716683 TTATTTTAA
1 TTATTTTAA
25716692 AATTATCCTA
Statistics
Matches: 101, Mismatches: 25, Indels: 18
0.70 0.17 0.12
Matches are distributed among these distances:
21 5 0.05
22 8 0.08
23 2 0.02
24 4 0.04
25 12 0.12
26 43 0.43
27 27 0.27
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (26 bp):
TTATTTTAACTTGCTTTGTAAATTAT
Found at i:25716561 original size:73 final size:73
Alignment explanation
Indices: 25716483--25716633 Score: 302
Period size: 73 Copynumber: 2.1 Consensus size: 73
25716473 TTTAATTTGT
25716483 TTTATTTTAAAATTTCTCTTATATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTT
1 TTTATTTTAAAATTTCTCTTATATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTT
25716548 GTAAATTA
66 GTAAATTA
25716556 TTTATTTTAAAATTTCTCTTATATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTT
1 TTTATTTTAAAATTTCTCTTATATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTT
25716621 GTAAATTA
66 GTAAATTA
25716629 TTTAT
1 TTTAT
25716634 GTTGAGTTGC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (73 bp):
TTTATTTTAAAATTTCTCTTATATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTT
GTAAATTA
Found at i:25716694 original size:15 final size:17
Alignment explanation
Indices: 25716662--25716696 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
25716652 TTATTTTATT
25716662 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
25716679 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
25716694 TTA
1 TTA
25716697 TCCTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Found at i:25716876 original size:12 final size:12
Alignment explanation
Indices: 25716843--25716877 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
25716833 ATTTAAATTT
25716843 TTTATATATATTA
1 TTTATAT-TATTA
25716856 TTATATATTATTA
1 TT-TATATTATTA
25716869 TTTATATTA
1 TTTATATTA
25716878 AAATTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.33
13 9 0.43
14 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:25716937 original size:35 final size:34
Alignment explanation
Indices: 25716846--25716942 Score: 101
Period size: 35 Copynumber: 2.8 Consensus size: 34
25716836 TAAATTTTTT
* *
25716846 ATATATATTA-TTATATATTA-TTATTTATATTA
1 ATATATATTATTTATATATTACTTATTTAGACTA
* *
25716878 AAAT-TATCATTTCATATGTATTACTTATTTAGACTA
1 ATATATATTATTT-ATA--TATTACTTATTTAGACTA
25716914 ATATATATTATTTAGTATATTACTTATTT
1 ATATATATTATTTA-TATATTACTTATTT
25716943 GATTTCCTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
31 4 0.08
32 5 0.10
33 3 0.06
35 17 0.33
36 14 0.27
37 9 0.17
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (34 bp):
ATATATATTATTTATATATTACTTATTTAGACTA
Found at i:25717309 original size:17 final size:18
Alignment explanation
Indices: 25717271--25717314 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
25717261 ATTATTACTC
* *
25717271 TTATGTGTATTGTATTGC
1 TTATTTGTATTGTATTGA
25717289 TTATTTGTATT-TATTGA
1 TTATTTGTATTGTATTGA
25717306 TTATTTGTA
1 TTATTTGTA
25717315 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (18 bp):
TTATTTGTATTGTATTGA
Found at i:25720092 original size:27 final size:27
Alignment explanation
Indices: 25720028--25720092 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
25720018 AATTTAAATT
*
25720028 TATTATTATATTTTTTGAAAATATTTA
1 TATTATTATATATTTTGAAAATATTTA
25720055 TATATACTTATATATTTT-AAATATATATTA
1 TAT-TA-TTATATATTTTGAAA-ATAT-TTA
25720085 T-TTATTAT
1 TATTATTAT
25720093 CAACAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 7 0.21
28 7 0.21
29 15 0.45
30 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTATTATATATTTTGAAAATATTTA
Found at i:25723455 original size:3 final size:3
Alignment explanation
Indices: 25723440--25723489 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
25723430 AATTAAAAAG
* *
25723440 ATA ATA ATG ATA ATA ATA ATA TTA ATA ATA AT- ATGA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA
25723486 ATA A
1 ATA A
25723490 ACAATCTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25723457 original size:12 final size:11
Alignment explanation
Indices: 25723440--25723489 Score: 66
Period size: 12 Copynumber: 4.4 Consensus size: 11
25723430 AATTAAAAAG
25723440 ATAATAATGATA
1 ATAATAAT-ATA
25723452 ATAATAATATTA
1 ATAATAATA-TA
25723464 ATAATAATATGA
1 ATAATAATAT-A
25723476 ATAATAA-ATA
1 ATAATAATATA
25723486 ATAA
1 ATAA
25723490 ACAATCTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 27 0.75
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (11 bp):
ATAATAATATA
Found at i:25723533 original size:18 final size:18
Alignment explanation
Indices: 25723506--25723540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25723496 TAGAGTTTGA
*
25723506 AAATATATAAAAAGATAG
1 AAATAAATAAAAAGATAG
*
25723524 AAATAAATAAAACGATA
1 AAATAAATAAAAAGATA
25723541 TAATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAGATAG
Found at i:25725181 original size:44 final size:45
Alignment explanation
Indices: 25725026--25725319 Score: 177
Period size: 44 Copynumber: 6.5 Consensus size: 45
25725016 ACCCGCTTCG
** *
25725026 CTGCAACTTCAAGGGA-ATAAGA-TTCGCTATCTTCAATCTACTCCA
1 CTGCAACTTC-AGGGAGATAAGAGTT-AATATCTTCAATCTGCTCCA
* * * * **
25725071 CTGCAACTTTAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTATTCCA
1 CTGCAACTTCAGGGAGATAAGA-GT-TAA----TATCTTCAATCTGCTCCA
* ** *
25725122 CTACAACTTTTGGGAGATAATA-TTAATATCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAGTTAATATCTTCAATCTGCTCCA
* * * * * *
25725166 CTACATCTTTAGGGAGATAAGA-TTAATAACTT-TATCCTGCTCTA
1 CTGCAACTTCAGGGAGATAAGAGTTAATATCTTCAAT-CTGCTCCA
* * * ** * *
25725210 CTGTATCTTCAGGGAGATAA-AGTTTATGGCTTTAATCTGCTCTA
1 CTGCAACTTCAGGGAGATAAGAGTTAATATCTTCAATCTGCTCCA
* * * ** *
25725254 CTGCAGCTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAGTTAATATCTTCAATCTGCTCCA
25725299 CTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAG
25725320 GCTTGCTATG
Statistics
Matches: 198, Mismatches: 39, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
43 3 0.02
44 103 0.52
45 52 0.26
47 1 0.01
48 4 0.02
49 1 0.01
51 34 0.17
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGAGTTAATATCTTCAATCTGCTCCA
Found at i:25726211 original size:50 final size:50
Alignment explanation
Indices: 25726099--25726347 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
25726089 ATTTGGGTAA
* *
25726099 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC---A-A-CATG
* * *
25726155 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATG
* * * *
25726205 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATG
* * * *
25726255 AGAGGTCCCCTATAAGACCATGCCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATG
** *
25726305 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25726348 TGTTATTATC
Statistics
Matches: 169, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
50 94 0.56
51 34 0.20
52 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATG
Found at i:25726289 original size:100 final size:103
Alignment explanation
Indices: 25726099--25726348 Score: 326
Period size: 100 Copynumber: 2.4 Consensus size: 103
25726089 ATTTGGGTAA
* *
25726099 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTGAGATCATGAGAGGTCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* * * * *
25726164 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
63 ATATAAGACCATGCCTGGGACATGGCATGGGCACCAACATG
* * * *
25726205 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATA
25726267 TAAGACCATGCCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGCCTGGGACATGGCATGGGCACCAACATG
* *
25726305 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
25726349 GTTATTATCA
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
100 48 0.38
101 36 0.28
103 3 0.02
105 2 0.02
106 38 0.30
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATA
TAAGACCATGCCTGGGACATGGCATGGGCACCAACATG
Found at i:25727829 original size:41 final size:44
Alignment explanation
Indices: 25727690--25728294 Score: 322
Period size: 44 Copynumber: 13.5 Consensus size: 44
25727680 AATATGTTCC
* * *
25727690 ACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGCTCT
* * *
25727735 ACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCT
* * *
25727779 ACTGCAACTTTAGGGAGATAA-AGTT-T-ACTAT-GATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACT-TCAATCTGCTCT
* * * * * *
25727820 ACTGCAACTTCAGAGAGATAAGATCTATAATTTATAACTGCAATATGTTCC
1 ACTGCAACTTCAGGGAGATAAGA-C------TTGTAACTTCAATCTGCTCT
* * * * * * *
25727871 ACTGCAACTTTAGGGAAATAAGA-TTCGCTATCTTTAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGCTCT
* * *
25727916 ACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC-CC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCT
* * * * *
25727959 ACTGCAACTTTAGGGAGATAAAACTTGTAACTTCAATTTGTTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCT
** * * * * * *
25728003 GTTGCAACTTCAGGGAAATAAGA-TTCACTATCTTCAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGACTT--GTAACTTCAATCTGCTCT
* * *
25728048 GCTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTAC-
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCT-CT
* *
25728092 ACTGCAACTTTAGGGAGATAAG-GTT-T-A-TT-ATGATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA--ATCTGCTCT
* * * * * *
25728133 ACTGCAACTTTAGAGAGATAAGATCTATTATTTATAGCTTTAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGA-C---T-TGTA-A-CTTCAATCTGCTCT
* * * ** *
25728184 ACTGCAACTTCAAGGAAATAAGA-TTCGCTATCTTCAGGCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGCTCT
* * * * *
25728229 ACTGCAACTTCAGGGAGATAAGACTAGTACCTTCAACCTACTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCT
*
25728273 ACTGCAACATCAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
25728295 GTTTGATATG
Statistics
Matches: 432, Mismatches: 89, Indels: 79
0.72 0.15 0.13
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 57 0.13
42 4 0.01
43 46 0.11
44 127 0.29
45 119 0.28
46 9 0.02
47 3 0.01
48 1 0.00
49 2 0.00
50 2 0.00
51 55 0.13
52 2 0.00
53 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCT
Found at i:25727839 original size:85 final size:87
Alignment explanation
Indices: 25727687--25727980 Score: 287
Period size: 89 Copynumber: 3.3 Consensus size: 87
25727677 TTTAATATGT
* * *
25727687 TCCACTGCAACTTCAGGGAAAT-AAGATTCGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGAA
1 TCCACTGCAACTTTAGGGAGATAAAGATT--CTATCTTGAGTCTGCTCTACTGCAACTTCAGG-A
25727751 GATAAGACTTGTAACTTCAACCTGC
63 GATAAGACTTGTAACTTCAACCTGC
25727776 TCCACTGCAACTTTAGGGAGATAAAG-TT-TA-CTATGA-TCTGCTCTACTGCAACTTCAGAGAG
1 TCCACTGCAACTTTAGGGAGATAAAGATTCTATCT-TGAGTCTGCTCTACTGCAACTTCAG-GAG
* * ** *
25727837 ATAAGATCTATAATTTATAACTGCAATATGT
64 ATAAGA-C------TTGTAACTTCAACCTGC
* * * * *
25727868 TCCACTGCAACTTTAGGGAAAT-AAGATTCGCTATCTTTAGTCTACTCCACTGTAACTTCAGGGA
1 TCCACTGCAACTTTAGGGAGATAAAGATT--CTATCTTGAGTCTGCTCTACTGCAACTTCA-GGA
25727932 GATAAGACTTGTAACTTCAACCTGC
63 GATAAGACTTGTAACTTCAACCTGC
25727957 -CCACTGCAACTTTAGGGAGATAAA
1 TCCACTGCAACTTTAGGGAGATAAA
25727981 ACTTGTAACT
Statistics
Matches: 168, Mismatches: 19, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
85 31 0.18
86 6 0.04
88 20 0.12
89 36 0.21
90 3 0.02
91 3 0.02
92 35 0.21
95 5 0.03
96 28 0.17
97 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (87 bp):
TCCACTGCAACTTTAGGGAGATAAAGATTCTATCTTGAGTCTGCTCTACTGCAACTTCAGGAGAT
AAGACTTGTAACTTCAACCTGC
Found at i:25728018 original size:132 final size:133
Alignment explanation
Indices: 25727854--25728112 Score: 412
Period size: 132 Copynumber: 2.0 Consensus size: 133
25727844 CTATAATTTA
* * *
25727854 TAACTGCAATATGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTACTCCACT
1 TAACTGCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCACT
* *
25727919 GTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC-CCACTGCAACTTTAGGGAGATAAAAC
66 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAAAAC
25727983 TTG
131 TTG
* * ** *
25727986 TAACTTCAATTTGTTCCGTTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCGCT
1 TAACTGCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCACT
*
25728051 GCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAA
66 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAA
25728113 GGTTTATTAT
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
132 93 0.81
133 22 0.19
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (133 bp):
TAACTGCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCACT
GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAAAAC
TTG
Found at i:25728074 original size:89 final size:88
Alignment explanation
Indices: 25727868--25728294 Score: 337
Period size: 89 Copynumber: 4.8 Consensus size: 88
25727858 TGCAATATGT
* * * * ** *
25727868 TCCACTGCAACTTTAGGGAAATAAGA-TTCGCTATCTTTAGTCTACTCCACTGTAACTTCAGGGA
1 TCCACTGCAACTTTAGGGAGATAAGACTT-G-TAACTTCAATCTGTTCCACTGCAACTTCAGGGA
* * * **
25727932 GATAAGACTT-GTAACTTCAACCTGC
64 AATAAGA-TTCCTATCTTCAGTCTGC
* * **
25727957 -CCACTGCAACTTTAGGGAGATAAAACTTGTAACTTCAATTTGTTCCGTTGCAACTTCAGGGAAA
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAATCTGTTCCACTGCAACTTCAGGGAAA
*
25728021 TAAGATTCACTATCTTCAGTCTAC
66 TAAGATTC-CTATCTTCAGTCTGC
* * * * * *
25728045 TCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAATCTGTTCCACTGCAACTTCAGGGAAA
* *
25728110 TAAGGTT--TAT-TATGA-TCTGC
66 TAAGATTCCTATCT-TCAGTCTGC
* * * *
25728130 TCTACTGCAACTTTAGAGAGATAAGATCTATTATTTATAGCTTTAATCTGTTCCACTGCAACTTC
1 TCCACTGCAACTTTAGGGAGATAAGA-C---T-TGTA-A-CTTCAATCTGTTCCACTGCAACTTC
* *
25728195 AAGGAAATAAGATTCGCTATCTTCAGGCTGC
59 AGGGAAATAAGATTC-CTATCTTCAGTCTGC
* * * * ** * *
25728226 TCCACTGCAACTTCAGGGAGATAAGACTAGTACCTTCAACCTACTCCACTGCAACATCAGGGAGA
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAATCTGTTCCACTGCAACTTCAGGGAAA
25728291 TAAG
66 TAAG
25728295 GTTTGATATG
Statistics
Matches: 264, Mismatches: 57, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
85 28 0.11
86 8 0.03
87 30 0.11
88 34 0.13
89 92 0.35
90 3 0.01
91 3 0.01
92 32 0.12
95 6 0.02
96 28 0.11
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (88 bp):
TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAATCTGTTCCACTGCAACTTCAGGGAAA
TAAGATTCCTATCTTCAGTCTGC
Found at i:25728206 original size:181 final size:181
Alignment explanation
Indices: 25727989--25728374 Score: 558
Period size: 181 Copynumber: 2.1 Consensus size: 181
25727979 AAACTTGTAA
* ** * * *
25727989 CTTCAATTTGTTCCGTTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCGCTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCACTATCTTCAGGCTACTCCACTGCA
* * * * *
25728054 ACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAAGGTTT-
66 ACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTACACTGCAACATCAGGGAGATAAGGTTTG
* * **
25728118 ATTATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATTATTTATAG
131 A-TATGATCTACTCTACTGCAACTTTAAAGAGATAAGATCTAGAATTTATAG
* * *
25728170 CTTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGGCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCACTATCTTCAGGCTACTCCACTGCA
* *
25728235 ACTTCAGGGAGATAAGACTAGTACCTTCAACCTACTCCACTGCAACATCAGGGAGATAAGGTTTG
66 ACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTACACTGCAACATCAGGGAGATAAGGTTTG
*
25728300 ATATGATCTACTCTATTGCAACTTTAAAGAGATAAGATCTAGAATTTATAG
131 ATATGATCTACTCTACTGCAACTTTAAAGAGATAAGATCTAGAATTTATAG
*
25728351 CTTCAATCTGTTCCACTACAACTT
1 CTTCAATCTGTTCCACTGCAACTT
25728375 TAGGGAGATA
Statistics
Matches: 181, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
181 180 0.99
182 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (181 bp):
CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCACTATCTTCAGGCTACTCCACTGCA
ACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTACACTGCAACATCAGGGAGATAAGGTTTG
ATATGATCTACTCTACTGCAACTTTAAAGAGATAAGATCTAGAATTTATAG
Found at i:25728265 original size:313 final size:314
Alignment explanation
Indices: 25727692--25728293 Score: 963
Period size: 313 Copynumber: 1.9 Consensus size: 314
25727682 TATGTTCCAC
* * *
25727692 TGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGAAGATAAG
1 TGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAG
*
25727757 ACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAAGTTTACTATGATCTGCTCTAC
66 ACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAAAGTTTACTATGATCTGCTCTAC
* *
25727822 TGCAACTTCAGAGAGATAAGATCTATAATTTATAACTGCAATATGTTCCACTGCAACTTTAGGGA
131 TGCAACTTCAGAGAGATAAGATCTATAATTTATAACTGCAATATGTTCCACTGCAACTTCAAGGA
* * * *
25727887 AATAAGATTCGCTATCTTTAGTCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAA
196 AATAAGATTCGCTATCTTCAGGCTACTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAA
* * *
25727952 CCTGC-CCACTGCAACTTTAGGGAGATAAAACTTGTAACTTCAATTTGTTCCGT
261 CCTACTCCACTGCAACATCAGGGAGATAAAACTTGTAACTTCAATTTGTTCCGT
* * *
25728005 TGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCGCTGCAACTTTAGGGAGATAAG
1 TGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAG
* *
25728070 ACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAAGGTTTATTATGATCTGCTCTAC
66 ACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAAAGTTTACTATGATCTGCTCTAC
* * * ** *
25728135 TGCAACTTTAGAGAGATAAGATCTATTATTTATAGCTTTAATCTGTTCCACTGCAACTTCAAGGA
131 TGCAACTTCAGAGAGATAAGATCTATAATTTATAACTGCAATATGTTCCACTGCAACTTCAAGGA
* *
25728200 AATAAGATTCGCTATCTTCAGGCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTACCTTCAA
196 AATAAGATTCGCTATCTTCAGGCTACTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAA
25728265 CCTACTCCACTGCAACATCAGGGAGATAA
261 CCTACTCCACTGCAACATCAGGGAGATAA
25728294 GGTTTGATAT
Statistics
Matches: 262, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
313 241 0.92
314 21 0.08
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (314 bp):
TGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAG
ACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGATAAAGTTTACTATGATCTGCTCTAC
TGCAACTTCAGAGAGATAAGATCTATAATTTATAACTGCAATATGTTCCACTGCAACTTCAAGGA
AATAAGATTCGCTATCTTCAGGCTACTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAA
CCTACTCCACTGCAACATCAGGGAGATAAAACTTGTAACTTCAATTTGTTCCGT
Found at i:25732037 original size:3 final size:3
Alignment explanation
Indices: 25732022--25732071 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
25732012 AATTAAAAAG
* *
25732022 ATA ATA ATG ATA ATA ATA ATA TTA ATA ATA AT- ATGA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA
25732068 ATA A
1 ATA A
25732072 ACAATCTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25732039 original size:12 final size:11
Alignment explanation
Indices: 25732022--25732071 Score: 66
Period size: 12 Copynumber: 4.4 Consensus size: 11
25732012 AATTAAAAAG
25732022 ATAATAATGATA
1 ATAATAAT-ATA
25732034 ATAATAATATTA
1 ATAATAATA-TA
25732046 ATAATAATATGA
1 ATAATAATAT-A
25732058 ATAATAA-ATA
1 ATAATAATATA
25732068 ATAA
1 ATAA
25732072 ACAATCTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 27 0.75
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (11 bp):
ATAATAATATA
Found at i:25732115 original size:18 final size:18
Alignment explanation
Indices: 25732088--25732122 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25732078 TAGAGTTTGA
*
25732088 AAATATATAAAAAGATAG
1 AAATAAATAAAAAGATAG
*
25732106 AAATAAATAAAACGATA
1 AAATAAATAAAAAGATA
25732123 TAATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAGATAG
Found at i:25735467 original size:53 final size:52
Alignment explanation
Indices: 25735403--25735542 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 52
25735393 TTTTGTATAT
*
25735403 TGGTGCCGGCCATTGACAGGCCAGCACCTGAAAAAAAAAATTT-CC-CGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCACCA-C--AAAAAAAAAATTTCCCTCGTAAAGG
*
25735456 TGGTGCCGGCCATTGACAGGCCACCACAAAATAAAAATTTCCCTCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAAATTTCCCTCGTAAAGG
* * *
25735508 TAGTACCGGCTATTGACAGGCCACCACAAAAAAAA
1 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAA
25735543 TTTTAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
50 12 0.15
51 2 0.03
52 40 0.51
53 25 0.32
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (52 bp):
TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAAATTTCCCTCGTAAAGG
Found at i:25735899 original size:112 final size:113
Alignment explanation
Indices: 25735575--25736104 Score: 589
Period size: 114 Copynumber: 4.7 Consensus size: 113
25735565 TATCGACCTG
* * * *
25735575 TTTTTTTCTCGTAAAGGTGGTGTCAGCCATTCACAGGCCACCACCAAAAAATAAAAATATTTTTT
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCA-C-AAAAA-AAAATTATTTTTT
25735640 TAATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAT
63 TAATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAAT
** * * * * *
25735690 TTTTTTTTTCGTAAAGGTGGCGTCAGTCATAGACAGGCCACCACAAAAAAAATATTATTTTTTAA
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAA-ATTATTTTTT-T
* * * *
25735755 AATTTTTTCGTATATTGGTGCCAGCCATTGACAGGCTAGCACTCG-AAAT
64 AATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAAT
* * * *
25735804 TTTTTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCACCACTAAAAAAAATTGTTTTATTAA
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTTTAA
*
25735869 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAAA
66 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAAT
**** * * *
25735917 AAAATTTCCCTGTAAAGGTGGTGCCGACCATTGACAGGCCACCAC-----TAAATT-TTTTTTTA
1 TTTTTTTCCC-GTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTTTA
* * *
25735976 ATTTTTTCGTATACTAGTGCCTGCCATTGACAGGCCAGCACCTGAAAAT
65 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAAT
* * * * * *
25736025 TTTTTTTCCTGTAAAAGTGGTGTCGGCCATTGACAGGCCACCGC----CAAATTTTTTTTTTTAA
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTTTAA
*
25736086 TTTTTTCTTATACTGGTGC
66 TTTTTTCGTATACTGGTGC
25736105 GTGCTGGCCA
Statistics
Matches: 357, Mismatches: 51, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
107 30 0.08
108 61 0.17
109 31 0.09
112 44 0.12
113 31 0.09
114 122 0.34
115 38 0.11
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (113 bp):
TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTTTAA
TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAAT
Found at i:25736090 original size:60 final size:61
Alignment explanation
Indices: 25736026--25736158 Score: 137
Period size: 61 Copynumber: 2.2 Consensus size: 61
25736016 CCTGAAAATT
* ***
25736026 TTTTTTCCTGTAAAAGTG-GTG-TCGGCCATTGACAGGCCACCGCC-AAATTTTTTTTTTTAA
1 TTTTTTCCTATAAAAGTGCGTGCT-GGCCATTGACAGGCC-CCGCCAAAAAAGTTTTTTTTAA
* *** *
25736086 TTTTTTCTTATACTGGTGCGTGCTGGCCATTGATAGGCCCCGCCAAAAAAGTTTTTTTTAA
1 TTTTTTCCTATAAAAGTGCGTGCTGGCCATTGACAGGCCCCGCCAAAAAAGTTTTTTTTAA
*
25736147 TTTTTTCGTATA
1 TTTTTTCCTATA
25736159 TTGGTGCCGG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
60 18 0.30
61 41 0.68
62 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (61 bp):
TTTTTTCCTATAAAAGTGCGTGCTGGCCATTGACAGGCCCCGCCAAAAAAGTTTTTTTTAA
Found at i:25736118 original size:61 final size:61
Alignment explanation
Indices: 25736049--25736165 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
25736039 AAGTGGTGTC
*** *
25736049 GGCCATTGACAGGCCACCGCC-AAATTTTTTTTTTTAATTTTTTCTTATACTGGTGCGTGCT
1 GGCCATTGACAGGCC-CCGCCAAAAAAGTTTTTTTTAATTTTTTCGTATACTGGTGCGTGCT
* *
25736110 GGCCATTGATAGGCCCCGCCAAAAAAGTTTTTTTTAATTTTTTCGTATATTGGTGC
1 GGCCATTGACAGGCCCCGCCAAAAAAGTTTTTTTTAATTTTTTCGTATACTGGTGC
25736166 CGGCCATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 5 0.10
61 44 0.90
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (61 bp):
GGCCATTGACAGGCCCCGCCAAAAAAGTTTTTTTTAATTTTTTCGTATACTGGTGCGTGCT
Found at i:25736224 original size:52 final size:52
Alignment explanation
Indices: 25736160--25736305 Score: 188
Period size: 53 Copynumber: 2.8 Consensus size: 52
25736150 TTTCGTATAT
* * **
25736160 TGGTGCCGGCCATTAACAGGTTAGCACCCGAAAATTTTTTTTCCCGTAAAGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTCCCGTAAAGG
* * *
25736212 TGGTGCTAGCCATTGACAGGCCAGCACCCGAAATTTTTCTTTTCTCGTAAAGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCGAAAATTTT-TTTTCCCGTAAAGG
* *
25736265 TGGTGCCGGCCATTGACTGGCCAGCA-CC-AAAATTTTTTTTC
1 TGGTGCCAGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTC
25736306 TTTTTTTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 5 0.06
51 7 0.09
52 34 0.41
53 36 0.44
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (52 bp):
TGGTGCCAGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTCCCGTAAAGG
Found at i:25736302 original size:53 final size:52
Alignment explanation
Indices: 25736160--25736304 Score: 186
Period size: 52 Copynumber: 2.8 Consensus size: 52
25736150 TTTCGTATAT
* **
25736160 TGGTGCCGGCCATTAACAGGTTAGCACCCGAAAA-TTTTTTTTCCCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTTTTTTTCCCGTAAAGG
** * *
25736212 TGGTGCTAGCCATTGACAGGCCAGCACCCGAAATTTTTCTTTTCTCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTT-TTTTCCCGTAAAGG
*
25736265 TGGTGCCGGCCATTGACTGGCCAGCA-CCAAAATTTTTTTT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT
25736305 CTTTTTTTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
51 6 0.08
52 38 0.47
53 36 0.45
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (52 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCCCGTAAAGG
Found at i:25738671 original size:5 final size:5
Alignment explanation
Indices: 25738661--25738691 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
25738651 TGAGCATTTG
25738661 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
25738692 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:25739490 original size:30 final size:31
Alignment explanation
Indices: 25739445--25739504 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
25739435 AGAGGTGAGA
* *
25739445 TGGGAAGGGAATAAAAGTTTTAGGTGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
25739476 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
25739505 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:25739816 original size:9 final size:9
Alignment explanation
Indices: 25739799--25739829 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25739789 TCAAGTTGAT
25739799 TCGAATAAC
1 TCGAATAAC
*
25739808 TCGATTAAC
1 TCGAATAAC
25739817 TCGAATAAC
1 TCGAATAAC
25739826 TCGA
1 TCGA
25739830 TCCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:25741229 original size:91 final size:91
Alignment explanation
Indices: 25741039--25741245 Score: 245
Period size: 91 Copynumber: 2.3 Consensus size: 91
25741029 GACACTATAG
* * ** * * * *
25741039 TTTGTGGATGAACCGCTAGTGTTTGTTGGTTAATATATTGCCATTAGGTTGTGAATGCACATCGT
1 TTTGTGGATGAACCGCCAATGTTTGTAAGTTAATAAACTGCCAGTAGGTTGTGAATGCACAACGT
* *
25741104 ATTTGCATATAAAAGCTGTCTATAAG
66 ATTTGCAGATAAAAGCTGTCTATAAA
* * *
25741130 TTTATGGATGAACTGCCAATGTTTGTAAGTTAATAAACTGCTAGTAGGTTGTGAATGCACAACGT
1 TTTGTGGATGAACCGCCAATGTTTGTAAGTTAATAAACTGCCAGTAGGTTGTGAATGCACAACGT
*
25741195 ATTTGCAGATAAAAGTTGT-TACTAAA
66 ATTTGCAGATAAAAGCTGTCTA-TAAA
* * *
25741221 TTTGTGGATAAACCACCAGTGTTTG
1 TTTGTGGATGAACCGCCAATGTTTG
25741246 CAGTTCATTA
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 2 0.02
91 94 0.98
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (91 bp):
TTTGTGGATGAACCGCCAATGTTTGTAAGTTAATAAACTGCCAGTAGGTTGTGAATGCACAACGT
ATTTGCAGATAAAAGCTGTCTATAAA
Found at i:25741384 original size:38 final size:39
Alignment explanation
Indices: 25741337--25741441 Score: 115
Period size: 38 Copynumber: 2.7 Consensus size: 39
25741327 GTATATAAAT
* * *
25741337 AGTAAACATGCTTAACATGTATTCGGTT-TAACAGTAAC
1 AGTAGACATGCTTAACATGTATTCGGTTCCAACAATAAC
* *
25741375 AGTAGACATGCTTATCATGTATTC-ATTCCAACAATAAC
1 AGTAGACATGCTTAACATGTATTCGGTTCCAACAATAAC
* * * *
25741413 AATAGGCATGTTTAATATGTATTCGGTTC
1 AGTAGACATGCTTAACATGTATTCGGTTC
25741442 AATAGTTATG
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
37 2 0.04
38 49 0.91
39 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (39 bp):
AGTAGACATGCTTAACATGTATTCGGTTCCAACAATAAC
Found at i:25746604 original size:27 final size:26
Alignment explanation
Indices: 25746573--25746623 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
25746563 ATTGTAAAAT
* *
25746573 TTAGGTACCATATTGGACAAAAAAAGC
1 TTAGGTACCAAATTAGA-AAAAAAAGC
25746600 TTAGGTACCAAATTAGAAAAAAAA
1 TTAGGTACCAAATTAGAAAAAAAA
25746624 TGTCAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.22
Consensus pattern (26 bp):
TTAGGTACCAAATTAGAAAAAAAAGC
Found at i:25746609 original size:57 final size:57
Alignment explanation
Indices: 25746455--25746620 Score: 154
Period size: 57 Copynumber: 2.9 Consensus size: 57
25746445 TTTTGACAAT
* * * *
25746455 TTTAGGTACCAAATTGGACAGAAAAAGCTTAGGTCCCAAATTATA-AAAAAGTGTCAAG
1 TTTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAA--ATAGAAAAAGTGTAAAA
* * * * * * * * *
25746513 TTCAAGTGCCACATTGAACCCCAAAAAAGCTTAGCTACCAAAATAGGAAAATTGTAAAA
1 TTTAGGTACCAAATTGGA--CAAAAAAAGCTTAGGTACCAAAATAGAAAAAGTGTAAAA
* *
25746572 TTTAGGTACCATATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAA
1 TTTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAAATAGAAAAA
25746621 AAATGTCAAG
Statistics
Matches: 83, Mismatches: 22, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
57 27 0.33
58 16 0.19
59 22 0.27
60 18 0.22
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (57 bp):
TTTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAAATAGAAAAAGTGTAAAA
Found at i:25748020 original size:30 final size:30
Alignment explanation
Indices: 25747984--25748098 Score: 135
Period size: 30 Copynumber: 3.8 Consensus size: 30
25747974 ACTTTTCTCA
*
25747984 ACTAGCCACACCTT-TTCCACCACCAACTCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
* *
25748014 ACTAGCCACTCCTT-TTCCACCACCAACTCC
1 ACTAGCCAC-ACTTGCTCCACCACCAACTCC
** *
25748044 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTTGCTCCACCACCAACTCC
*
25748074 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACTTGCTCCACCACCA
25748099 CTTGTACCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.04
30 70 0.96
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACTTGCTCCACCACCAACTCC
Found at i:25748635 original size:23 final size:23
Alignment explanation
Indices: 25748598--25748727 Score: 72
Period size: 23 Copynumber: 5.5 Consensus size: 23
25748588 CCTTTTTTGT
25748598 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
25748621 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
25748643 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
25748666 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
25748691 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
25748716 TATTATTTATAT
1 TATTATATATAT
25748728 ATATATTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 6 0.07
25 26 0.32
26 2 0.02
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:25748691 original size:25 final size:26
Alignment explanation
Indices: 25748663--25748814 Score: 100
Period size: 25 Copynumber: 6.0 Consensus size: 26
25748653 ATTTTAAATT
*
25748663 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
25748688 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* * **
25748713 TTATATTATTTATATATATATTTTTA
1 CTATATTATGTATATATATATTAATA
* * * *
25748739 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-GTATATATATAT-TAATA
* * *
25748765 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATATTAATA
* *
25748790 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATATTAATA
25748815 TTATCATGTA
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
24 4 0.04
25 65 0.64
26 24 0.24
27 8 0.08
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:25748759 original size:30 final size:29
Alignment explanation
Indices: 25748680--25748759 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
25748670 ACGTATATAT
* * *
25748680 ATATTATACTATTTTATGTATATATCTTTA
1 ATATTATATTA-TGTATATATATATCTTTA
* *
25748710 ATATTATATTATTTATATATATATTTTTA
1 ATATTATATTATGTATATATATATCTTTA
* *
25748739 CATGTTATCTTATGTATATAT
1 -ATATTATATTATGTATATAT
25748760 CTTAACTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 16 0.37
30 27 0.63
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (29 bp):
ATATTATATTATGTATATATATATCTTTA
Found at i:25748830 original size:23 final size:25
Alignment explanation
Indices: 25748764--25748833 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
25748754 ATATATCTTA
* *
25748764 ACTATATTATGTATGTATTTTTAAC
1 ACTATATCATGTATATATTTTTAAC
* * *
25748789 ACTATATTATGTACATATTTTTAAT
1 ACTATATCATGTATATATTTTTAAC
*
25748814 A-T-TATCATGTATTTATTTTT
1 ACTATATCATGTATATATTTTT
25748834 TTATATATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.38
24 1 0.03
25 23 0.59
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
ACTATATCATGTATATATTTTTAAC
Found at i:25748850 original size:20 final size:21
Alignment explanation
Indices: 25748791--25748850 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
25748781 TTTTTAACAC
25748791 TATATTATGTACATATTTTTAA
1 TATA-TATGTACATATTTTTAA
** *
25748813 TATTATCATGTATTTATTTTT-T
1 TA-TAT-ATGTACATATTTTTAA
25748835 TATATATGTACATATT
1 TATATATGTACATATT
25748851 GATGTAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 9 0.29
21 3 0.10
22 5 0.16
23 14 0.45
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TATATATGTACATATTTTTAA
Found at i:25748994 original size:16 final size:15
Alignment explanation
Indices: 25748970--25749017 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
25748960 TAATTATTAT
*
25748970 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
25748986 TATTTTAATATTTTA
1 TATTTTAATATTTTA
25749001 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
25749017 T
1 T
25749018 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:25749005 original size:7 final size:8
Alignment explanation
Indices: 25748970--25749021 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
25748960 TAATTATTAT
*
25748970 TATTCTAA
1 TATTTTAA
*
25748978 TATTTTGA
1 TATTTTAA
25748986 TATTTTAA
1 TATTTTAA
25748994 TATTTT-A
1 TATTTTAA
25749001 TATTTTATA
1 TATTTTA-A
*
25749010 TATTTTAT
1 TATTTTAA
25749018 TATT
1 TATT
25749022 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:25751329 original size:22 final size:22
Alignment explanation
Indices: 25751304--25751349 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
25751294 GTGGTAATAT
25751304 AATAGCAAAATAACAACAAAAC
1 AATAGCAAAATAACAACAAAAC
* *
25751326 AATATCAAAATAATAACAAAAC
1 AATAGCAAAATAACAACAAAAC
25751348 AA
1 AA
25751350 CAGTGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.70, C:0.15, G:0.02, T:0.13
Consensus pattern (22 bp):
AATAGCAAAATAACAACAAAAC
Found at i:25752422 original size:59 final size:60
Alignment explanation
Indices: 25752350--25752463 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 60
25752340 GATATTTGAC
*
25752350 AAATTTAGGTACCAAATTGAAC-AAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTATA
1 AAATTTAGGTACCAAATTGAACAAAAAAAAAGCTTAGCTACCAAAATAGAAAAAATTATA
* * *
25752409 AAATTTAGGTACCAAATTGGACAAAAAAAAAGCTTAGGTACCAAATTAGAAAAAA
1 AAATTTAGGTACCAAATTGAACAAAAAAAAAGCTTAGCTACCAAAATAGAAAAAA
25752464 AATGCCAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 21 0.42
60 29 0.58
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.21
Consensus pattern (60 bp):
AAATTTAGGTACCAAATTGAACAAAAAAAAAGCTTAGCTACCAAAATAGAAAAAATTATA
Found at i:25752448 original size:29 final size:28
Alignment explanation
Indices: 25752354--25752465 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 28
25752344 TTTGACAAAT
25752354 TTAGGTACCAAATT-GAACAAAAAAAAGC
1 TTAGGTACCAAATTGGAA-AAAAAAAAGC
* * *
25752382 TTAGCTACCAAAATAGGAAAAATTATAAAA-T
1 TTAGGTACC-AAATTGGAAAAA--A-AAAAGC
25752413 TTAGGTACCAAATTGGACAAAAAAAAAGC
1 TTAGGTACCAAATTGGA-AAAAAAAAAGC
*
25752442 TTAGGTACCAAATTAGAAAAAAAA
1 TTAGGTACCAAATTGGAAAAAAAA
25752466 TGCCAAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
28 19 0.27
29 24 0.34
30 10 0.14
31 13 0.19
32 4 0.06
ACGTcount: A:0.54, C:0.12, G:0.13, T:0.21
Consensus pattern (28 bp):
TTAGGTACCAAATTGGAAAAAAAAAAGC
Found at i:25754348 original size:24 final size:24
Alignment explanation
Indices: 25754316--25754371 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
25754306 TCTTCTAGTT
25754316 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAATC
25754340 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAATC
25754364 AAACTCTG
1 AAACTCTG
25754372 ATTAGTCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.46
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAATC
Found at i:25755219 original size:5 final size:5
Alignment explanation
Indices: 25755209--25755244 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
25755199 TGAGCATTCG
25755209 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
25755245 AATTTTCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:25756278 original size:9 final size:9
Alignment explanation
Indices: 25756264--25756300 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25756254 TATAGTTTGA
25756264 TATTCGAAT
1 TATTCGAAT
25756273 TATTCGAAT
1 TATTCGAAT
*
25756282 TATTCGAGT
1 TATTCGAAT
25756291 TATTCGAAT
1 TATTCGAAT
25756300 T
1 T
25756301 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:25757447 original size:18 final size:19
Alignment explanation
Indices: 25757416--25757453 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
25757406 TCTTATATAT
*
25757416 ATAATTTATCTAAAAGTAA
1 ATAATTTATATAAAAGTAA
*
25757435 ATAA-TTATATAAAATTAA
1 ATAATTTATATAAAAGTAA
25757453 A
1 A
25757454 AAAATAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAATTTATATAAAAGTAA
Found at i:25757569 original size:30 final size:30
Alignment explanation
Indices: 25757501--25757570 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
25757491 TTCTAAATAC
25757501 TATTTATTAATATATAATTTTAATTTTAAT
1 TATTTATTAATATATAATTTTAATTTTAAT
* * * *
25757531 TTTGTTATTTA-ATATACTTATTATTTTTAAT
1 TAT-TTATTAATATATAATT-TTAATTTTAAT
25757562 TATTTATTA
1 TATTTATTA
25757571 TGTTATCAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (30 bp):
TATTTATTAATATATAATTTTAATTTTAAT
Found at i:25757570 original size:17 final size:18
Alignment explanation
Indices: 25757538--25757571 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25757528 AATTTTGTTA
25757538 TTTAATATACTTATTATT
1 TTTAATATACTTATTATT
*
25757556 TTTAAT-TATTTATTAT
1 TTTAATATACTTATTAT
25757572 GTTATCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAATATACTTATTATT
Found at i:25758676 original size:17 final size:17
Alignment explanation
Indices: 25758656--25758689 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25758646 TTTTTTATAT
25758656 ATATTTTTATTTTTAAA
1 ATATTTTTATTTTTAAA
25758673 ATATTTTTATTTTTAAA
1 ATATTTTTATTTTTAAA
25758690 TTTTAAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTTTATTTTTAAA
Found at i:25758693 original size:24 final size:23
Alignment explanation
Indices: 25758657--25758710 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
25758647 TTTTTATATA
*
25758657 TATTTTTATTTTTAAA-ATATTTT
1 TATTTTTAATTTTAAAGA-ATTTT
*
25758680 TATTTTTAAATTTTAAAGAGTTTT
1 TATTTTT-AATTTTAAAGAATTTT
25758704 TATTTTT
1 TATTTTT
25758711 TATAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 7 0.26
24 19 0.70
25 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
TATTTTTAATTTTAAAGAATTTT
Found at i:25761341 original size:14 final size:14
Alignment explanation
Indices: 25761322--25761352 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25761312 AGCTTGGCAA
25761322 TTGGGAACTATTTG
1 TTGGGAACTATTTG
25761336 TTGGGAACTATTTG
1 TTGGGAACTATTTG
25761350 TTG
1 TTG
25761353 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:25761632 original size:12 final size:12
Alignment explanation
Indices: 25761612--25761641 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25761602 TATGGTTAAT
*
25761612 TTCTTTAGCAGC
1 TTCTGTAGCAGC
25761624 TTCTGTAGCAGC
1 TTCTGTAGCAGC
25761636 TTCTGT
1 TTCTGT
25761642 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:25765702 original size:91 final size:91
Alignment explanation
Indices: 25765570--25765777 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
25765560 TTGATTTTAG
* *
25765570 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
25765635 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
25765662 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
25765727 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
25765753 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
25765778 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:25765811 original size:28 final size:27
Alignment explanation
Indices: 25765780--25765855 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
25765770 ATTTATTAGT
25765780 TATAATTATATTAAATTTTATTAAATCA
1 TATAATTATATTAAATTTTATTAAAT-A
* * * * *
25765808 TATATTTAAATTAAAATATATTTAATA
1 TATAATTATATTAAATTTTATTAAATA
25765835 T-TAATTAT-TTAAAATTTTATT
1 TATAATTATATT-AAATTTTATT
25765856 TTATAGTATC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 2 0.05
26 13 0.34
27 2 0.05
28 21 0.55
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (27 bp):
TATAATTATATTAAATTTTATTAAATA
Found at i:25765826 original size:16 final size:17
Alignment explanation
Indices: 25765807--25765838 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25765797 TTATTAAATC
25765807 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
25765823 ATATATTTAATATTAA
1 ATATATTTAATATTAA
25765839 TTATTTAAAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:25765932 original size:119 final size:119
Alignment explanation
Indices: 25765788--25766084 Score: 465
Period size: 119 Copynumber: 2.5 Consensus size: 119
25765778 GTTATAATTA
* * * *
25765788 TATTAA-ATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATT
1 TATTAAGAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATT
*
25765851 T-TATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAT
64 TATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAT
* * *
25765906 TATTAAGAATTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTA
1 TATTAAGAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTA
*
25765971 TATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAAT
66 TATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAT
25766025 TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TATTAAGAA-TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
25766085 TAAATATGAT
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
118 10 0.06
119 104 0.63
120 50 0.30
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
TATTAAGAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTA
TATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAT
Found at i:25766061 original size:18 final size:17
Alignment explanation
Indices: 25766033--25766067 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25766023 ATTATTAAGA
*
25766033 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25766050 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25766068 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:25766180 original size:147 final size:148
Alignment explanation
Indices: 25766021--25766294 Score: 498
Period size: 147 Copynumber: 1.9 Consensus size: 148
25766011 ATAAGAATAT
*
25766021 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
25766086 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATT-AAATTTAAATAACAATAATT
25766149 TACCAAAACAAATTTCTGC
130 TACCAAAACAAATTTCTGC
25766168 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
25766233 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAATTTAAATAACAATAA
25766295 CAATAATCAT
Statistics
Matches: 122, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
147 103 0.84
148 19 0.16
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (148 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAATTTAAATAACAATAATTT
ACCAAAACAAATTTCTGC
Found at i:25766208 original size:18 final size:17
Alignment explanation
Indices: 25766180--25766214 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25766170 ATTATTAAGA
*
25766180 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25766197 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25766215 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:25766469 original size:16 final size:16
Alignment explanation
Indices: 25766448--25766501 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
25766438 TTGATTTGCT
* *
25766448 ATTACACCTTTATTCC
1 ATTACACCTCTAATCC
25766464 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
25766480 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
25766496 AATACA
1 ATTACA
25766502 GCGAACTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:25772380 original size:122 final size:122
Alignment explanation
Indices: 25772165--25772395 Score: 304
Period size: 122 Copynumber: 1.9 Consensus size: 122
25772155 TACCTTTAGA
* *
25772165 ACTTCTATCGAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
1 ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
** **
25772230 CTGCTAGGTTCTACTGATACCAGTTGAAACCAC-CAGAGGTCTACCGCTACTTTGAGG
66 CTAATAGGTTCTACTGATACCAAATGAAACC-CTCAGAGGTCTACCGCTACTTTGAGG
* * * *
25772287 ACTTCTACCAAAACAAGTCAAAATAGTGGGCAAAGTTTAGCCTCC-CTTGCACTTCTACCGATAC
1 ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCC-CCTCTAGCACTTCTACCGATAC
* * * *
25772351 TCTAATGGGTTCTATTGATACTAAATGAAACCCTCAGAGTTCTAC
65 TCTAATAGGTTCTACTGATACCAAATGAAACCCTCAGAGGTCTAC
25772396 TGATACAGGA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
121 1 0.01
122 90 0.97
123 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (122 bp):
ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
CTAATAGGTTCTACTGATACCAAATGAAACCCTCAGAGGTCTACCGCTACTTTGAGG
Found at i:25776269 original size:40 final size:39
Alignment explanation
Indices: 25776208--25776337 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 39
25776198 ATGTTTAGCA
* * *
25776208 TTAGTTTGCGAATCGAGATAGCTTCGGCTATTTATGGCAC
1 TTAGTGTGCG-ATTGAGATAGCTTCGGCTATATATGGCAC
*
25776248 TTAGTGTGCGATTGAGAATAGCTTCGACTTTATATATGGCAC
1 TTAGTGTGCGATTGAG-ATAGCTTCGGC--TATATATGGCAC
* * * * *
25776290 TTAGTGTGAGAGATTGAGATAGATTTGGCTATGTAAGGCAC
1 TTAGTGT--GCGATTGAGATAGCTTCGGCTATATATGGCAC
25776331 TTAGTGT
1 TTAGTGT
25776338 ACGGGATTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
39 5 0.07
40 19 0.25
41 17 0.23
42 18 0.24
43 8 0.11
44 8 0.11
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (39 bp):
TTAGTGTGCGATTGAGATAGCTTCGGCTATATATGGCAC
Found at i:25777033 original size:22 final size:22
Alignment explanation
Indices: 25777008--25777386 Score: 224
Period size: 22 Copynumber: 16.5 Consensus size: 22
25776998 TATGGTGACA
25777008 AAATGCTGTTCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
*** * **
25777030 AAATGCTGTTCCTTTTTTAGCAT
1 AAATGCTGTTCGAATGTT-GGTT
* * *
25777053 ACTAATGTTGTCCGAATGTTGTTT
1 A--AATGCTGTTCGAATGTTGGTT
25777077 AAATGCTGTTCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* * **
25777099 AAATGCTGTTC-ATTTTTTAGCAT
1 AAATGCTGTTCGA-ATGTT-GGTT
* * *
25777122 ACTAATGATGTTTGAATGTTGTTT
1 A--AATGCTGTTCGAATGTTGGTT
*
25777146 AAATGGTGTTCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* *
25777168 AAATGTTGTCCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* * **
25777190 AAATGCTGTTC-ATTTTCTAGCAT
1 AAATGCTGTTCGAATGT-T-GGTT
* *
25777213 ACTAATGCTGTCCGAATGATGGTT
1 A--AATGCTGTTCGAATGTTGGTT
** * **
25777237 AAATGCTGTTCGTTTTTTTAGCAT
1 AAATGCTGTTCG-AATGTT-GGTT
* *
25777261 ACTAATGTTGTCCGAATGTTGGTT
1 A--AATGCTGTTCGAATGTTGGTT
* * *
25777285 AAATGTTGTCCGTATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* * *
25777307 AAATGCTGTTC-ATTTTTGAGCAT
1 AAATGCTGTTCGAATGTTG-G-TT
25777330 ACTAATGCTGTTCGAATGTTGGTT
1 A--AATGCTGTTCGAATGTTGGTT
25777354 AAATGCTGTTCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
25777376 AAATGCTGTTC
1 AAATGCTGTTC
25777387 ATTTTTGAGC
Statistics
Matches: 267, Mismatches: 68, Indels: 44
0.70 0.18 0.12
Matches are distributed among these distances:
21 8 0.03
22 166 0.62
23 13 0.05
24 17 0.06
25 46 0.17
26 17 0.06
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (22 bp):
AAATGCTGTTCGAATGTTGGTT
Found at i:25777119 original size:69 final size:69
Alignment explanation
Indices: 25777008--25777431 Score: 453
Period size: 69 Copynumber: 6.1 Consensus size: 69
25776998 TATGGTGACA
* *
25777008 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCCTTTTTTAGCATACTAATGTTGTCCGAATGTT
1 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTT
*
25777073 GTTT
66 GCTT
* **
25777077 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGATGTTTGAATGTT
1 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTT
*
25777142 GTTT
66 GCTT
* * * * * ** * * *
25777146 AAATGGTGTTCGAATGTTGGTTAAATGTTGTCCGA-ATGTT-GGTTA--AATGCTGTTC-ATTTT
1 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTC-ATTTTTTAGCATACTAATGCTGTCCGAATGT
*
25777206 CTAGCAT
65 -T-GCTT
* * * *
25777213 ACTAATGCTGTCCGAATGATGGTTAAATGCTGTTCGTTTTTTTAGCATACTAATGTTGTCCGAAT
1 A--AATGCTGTTCGAATGTTGGTTAAATGCTGTTC-ATTTTTTAGCATACTAATGCTGTCCGAAT
*
25777278 GTTGGTT
63 GTTGCTT
* * * * *
25777285 AAATGTTGTCCGTATGTTGGTTAAATGCTGTTCATTTTTGAGCATACTAATGCTGTTCGAATGTT
1 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTT
*
25777350 GGTT
66 GCTT
* * * *
25777354 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTGAGCATAATAATGCTGTCCAAATTGG
1 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAA-TGT
25777419 TGCTT
65 TGCTT
25777424 AAATGCTG
1 AAATGCTG
25777432 ATCATTTTTG
Statistics
Matches: 296, Mismatches: 48, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
65 3 0.01
66 9 0.03
67 3 0.01
68 3 0.01
69 213 0.72
70 47 0.16
71 3 0.01
72 3 0.01
73 9 0.03
74 3 0.01
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (69 bp):
AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGCTGTCCGAATGTT
GCTT
Found at i:25777144 original size:11 final size:11
Alignment explanation
Indices: 25777125--25777186 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
25777115 TTAGCATACT
*
25777125 AATGATGTTTG
1 AATGTTGTTTG
*
25777136 AATGTTGTTTA
1 AATGTTGTTTG
* *
25777147 AATGGTGTTCG
1 AATGTTGTTTG
* *
25777158 AATGTTGGTTA
1 AATGTTGTTTG
**
25777169 AATGTTGTCCG
1 AATGTTGTTTG
25777180 AATGTTG
1 AATGTTG
25777187 GTTAAATGCT
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (11 bp):
AATGTTGTTTG
Found at i:25777236 original size:47 final size:48
Alignment explanation
Indices: 25777078--25777289 Score: 247
Period size: 47 Copynumber: 4.5 Consensus size: 48
25777068 ATGTTGTTTA
*
25777078 AATGCTGTTCGAATGTTGGTTAAATGCTGTTC-ATTTTTTAGCATACT
1 AATGCTGTCCGAATGTTGGTTAAATGCTGTTCGATTTTTTAGCATACT
* ** * * * * **
25777125 AATGATGTTTGAATGTTGTTTAAATGGTGTTCGA-ATGTT-GGTTA--
1 AATGCTGTCCGAATGTTGGTTAAATGCTGTTCGATTTTTTAGCATACT
* *
25777169 AATGTTGTCCGAATGTTGGTTAAATGCTGTTC-ATTTTCTAGCATACT
1 AATGCTGTCCGAATGTTGGTTAAATGCTGTTCGATTTTTTAGCATACT
* *
25777216 AATGCTGTCCGAATGATGGTTAAATGCTGTTCGTTTTTTTAGCATACT
1 AATGCTGTCCGAATGTTGGTTAAATGCTGTTCGATTTTTTAGCATACT
*
25777264 AATGTTGTCCGAATGTTGGTTAAATG
1 AATGCTGTCCGAATGTTGGTTAAATG
25777290 TTGTCCGTAT
Statistics
Matches: 135, Mismatches: 24, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
43 1 0.01
44 29 0.21
45 3 0.02
46 3 0.02
47 61 0.45
48 38 0.28
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (48 bp):
AATGCTGTCCGAATGTTGGTTAAATGCTGTTCGATTTTTTAGCATACT
Found at i:25777302 original size:117 final size:117
Alignment explanation
Indices: 25777147--25777365 Score: 377
Period size: 117 Copynumber: 1.9 Consensus size: 117
25777137 ATGTTGTTTA
*
25777147 AATGGTGTTCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCT-AGC
1 AATGGTGTCCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTTCATTTT-TGAGC
25777211 ATACTAATGCTGTCCGAATGATGGTTAAATGCTGTTCGTTTTTTTAGCATACT
65 ATACTAATGCTGTCCGAATGATGGTTAAATGCTGTTCGTTTTTTTAGCATACT
* *
25777264 AATGTTGTCCGAATGTTGGTTAAATGTTGTCCGTATGTTGGTTAAATGCTGTTCATTTTTGAGCA
1 AATGGTGTCCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTTCATTTTTGAGCA
* *
25777329 TACTAATGCTGTTCGAATGTTGGTTAAATGCTGTTCG
66 TACTAATGCTGTCCGAATGATGGTTAAATGCTGTTCG
25777366 AATGTTGGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
116 1 0.01
117 95 0.99
ACGTcount: A:0.22, C:0.12, G:0.23, T:0.42
Consensus pattern (117 bp):
AATGGTGTCCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTTCATTTTTGAGCA
TACTAATGCTGTCCGAATGATGGTTAAATGCTGTTCGTTTTTTTAGCATACT
Found at i:25777889 original size:12 final size:12
Alignment explanation
Indices: 25777874--25777901 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25777864 TTTTGATGTA
25777874 TAAATTGTTTTG
1 TAAATTGTTTTG
25777886 TAAATTGTTTTG
1 TAAATTGTTTTG
25777898 TAAA
1 TAAA
25777902 AGATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (12 bp):
TAAATTGTTTTG
Found at i:25779288 original size:114 final size:115
Alignment explanation
Indices: 25779080--25779318 Score: 444
Period size: 114 Copynumber: 2.1 Consensus size: 115
25779070 AAATAGGCTC
25779080 AAAATAGAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATAT
1 AAAATA-AGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATAT
25779145 TATGCAAGAAGAACACTTAAAATACATGCAATAATATACATGTGTTAA-TT
65 TATGCAAGAAGAACACTTAAAATACATGCAATAATATACATGTGTTAATTT
*
25779195 AAAATAAGTTTAAAATAAACATTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATATT
1 AAAATAAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATATT
*
25779260 ATGCAAGAAGAACACTTAAAATATATGCAATAATATACATGTGTTAATTT
66 ATGCAAGAAGAACACTTAAAATACATGCAATAATATACATGTGTTAATTT
25779310 AAAATAAGT
1 AAAATAAGT
25779319 AATACATAAT
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
114 104 0.86
115 17 0.14
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.32
Consensus pattern (115 bp):
AAAATAAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATATT
ATGCAAGAAGAACACTTAAAATACATGCAATAATATACATGTGTTAATTT
Found at i:25781051 original size:50 final size:49
Alignment explanation
Indices: 25780957--25781152 Score: 142
Period size: 50 Copynumber: 3.9 Consensus size: 49
25780947 CTCATAACTT
* * * * * *
25780957 TTGGAAAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATG
1 TTGGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCAACTGCAATG
* * * **
25781006 TTGGGTAAACAAGATTCACCATCGTAGCTTTAATCTGTTCCACTGCACCG
1 TTGGG-AAGCAAGATTCACCATTGTAGCTTTAATCTGTTCAACTGCAATG
* * ** ** *
25781056 TTAAGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTCAACTGCAATG
1 TT-GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCAACTGCAATG
* * * * *
25781106 TAGGGGAAGCAAGATTCACTGA-TGTGGTTTTAATCTGTTCCACTGCA
1 T-TGGGAAGCAAGATTCAC-CATTGTAGCTTTAATCTGTTCAACTGCA
25781153 CCGCTTGGGG
Statistics
Matches: 109, Mismatches: 34, Indels: 7
0.73 0.23 0.05
Matches are distributed among these distances:
49 4 0.04
50 103 0.94
51 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (49 bp):
TTGGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCAACTGCAATG
Found at i:25781138 original size:100 final size:100
Alignment explanation
Indices: 25780962--25781177 Score: 283
Period size: 100 Copynumber: 2.2 Consensus size: 100
25780952 AACTTTTGGA
** * * * *
25780962 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTTGGGTAAACAAGATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTAGGGGAAACAAGATTCACCA
25781027 TCGTAGCTTTAATCTGTTCCACTGCACCG-TTAAGG
66 TCGTAGCTTTAATCTGTTCCACTGCACCGCTT-AGG
* * *
25781062 AAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTAGGGGAAGCAAGATTCACTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTAGGGGAAACAAGATTCAC-C
* * *
25781127 AT-GTGGTTTTAATCTGTTCCACTGCACCGCTTGGG
65 ATCGTAGCTTTAATCTGTTCCACTGCACCGCTTAGG
*
25781162 GAGTAAGATTCGCTGT
1 AAGTAAGATTCGCTGT
25781178 AATTCTTCGG
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
100 96 0.96
101 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTAGGGGAAACAAGATTCACCA
TCGTAGCTTTAATCTGTTCCACTGCACCGCTTAGG
Found at i:25781170 original size:50 final size:49
Alignment explanation
Indices: 25781016--25781172 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 49
25781006 TTGGGTAAAC
* * *
25781016 AAGATTCAC-CATCGTAGCTTTAATCTGTTCCACTGCACCGTTAAGGAAGT
1 AAGATTCACTGAT-GTAGCTTTAATCTGTTCCACTGCACCGTT-GGGGAGT
** * * * ** * *
25781066 AAGATTTGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTAGGGGAAGC
1 AAGATTCACTGATGTAGCTTTAATCTGTTCCACTGCACCGTTGGGG-AGT
* *
25781116 AAGATTCACTGATGTGGTTTTAATCTGTTCCACTGCACCGCTTGGGGAGT
1 AAGATTCACTGATGTAGCTTTAATCTGTTCCACTGCACCG-TTGGGGAGT
25781166 AAGATTC
1 AAGATTC
25781173 GCTGTAATTC
Statistics
Matches: 81, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
49 2 0.02
50 73 0.90
51 6 0.07
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (49 bp):
AAGATTCACTGATGTAGCTTTAATCTGTTCCACTGCACCGTTGGGGAGT
Found at i:25781341 original size:44 final size:44
Alignment explanation
Indices: 25781293--25781827 Score: 239
Period size: 44 Copynumber: 11.5 Consensus size: 44
25781283 TCCGCTCTAG
* *
25781293 TGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCAC
** *
25781337 TGTAATCTCA-AGGAGATAAGATTTTTGGCTTCAATCTGATGCGATCTACTCTAC
1 TGTAATCTCAGA-GAGATAAGATTACTAGCTTCAATC---T--G--CT-C-C-AC
* ** * * *
25781391 TGTAA-CTTTAGAGAGATAAGATCTTTTA-TTTTAATCCGCTCCAC
1 TGTAATC-TCAGAGAGATAAGAT-TACTAGCTTCAATCTGCTCCAC
* * * *
25781435 TGTAATCTCAGGGAGATAGGATTACTAGCTTTAATCTGCTCCGC
1 TGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCAC
* * * *
25781479 TGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTAC
1 TGTAATCTCAGAGAGATAAGATTACTAGCTTCAATC---T--G--CT-C-C-AC
* * *
25781533 TGTAA-CTTCAGAGAGATAAGATT-CTTTA-TTTTAATCCGCTCCAC
1 TGTAATC-TCAGAGAGATAAGATTAC--TAGCTTCAATCTGCTCCAC
* * * *
25781577 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCCGCTCCGC
1 TGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCAC
* * * *
25781621 TGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTACTCTAC
1 TGTAATCTCAGAGAGATAAGATTACTAGCTTCAA--T-CT--G--CT-C-C-AC
** * * *
25781675 TGTAA-CTTC--AGAGATAAGATCTTTTA-ATTTAATCCGCTCCAC
1 TGTAATC-TCAGAGAGATAAGAT-TACTAGCTTCAATCTGCTCCAC
* * * * *
25781717 TGTAATCTCAGGGAGATAGGATTACTAGCTTCCATCTACTCCGC
1 TGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCAC
* *
25781761 TGTAATCTCA-AGGAGATAAGATTACTGGCTTCAACCTGCTCCAC
1 TGTAATCTCAGA-GAGATAAGATTACTAGCTTCAATCTGCTCCAC
*
25781805 TGTAA-CATCAGGGAGATAAGATT
1 TGTAATC-TCAGAGAGATAAGATT
25781828 CACAACTTCC
Statistics
Matches: 374, Mismatches: 66, Indels: 102
0.69 0.12 0.19
Matches are distributed among these distances:
42 9 0.02
43 12 0.03
44 233 0.62
45 7 0.02
46 3 0.01
47 7 0.02
49 5 0.01
50 1 0.00
51 6 0.02
52 17 0.05
53 10 0.03
54 58 0.16
55 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
TGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCAC
Found at i:25781396 original size:142 final size:142
Alignment explanation
Indices: 25781193--25781794 Score: 944
Period size: 142 Copynumber: 4.3 Consensus size: 142
25781183 TTCGGTCTAT
* * * * * * *
25781193 TCCGCCGTAATCTCAGGGAGATAAGA--CCT-GATGCAATCTAATGTGATCTACTCTACTGTAAC
1 TCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
* * *
25781255 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTAGTGTAATCTCAGAGAGATAGGATTACTA
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
25781320 GCTTCAATCTGC
131 GCTTCAATCTGC
*
25781332 TCCGCTGTAATCTCAAGGAGATAAGATTTTTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
1 TCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
* *
25781397 TTTAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
*
25781462 GCTTTAATCTGC
131 GCTTCAATCTGC
* *
25781474 TCCGCTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
1 TCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
*
25781539 TTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
*
25781604 GCTTCAATCCGC
131 GCTTCAATCTGC
* *
25781616 TCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTACTCTACTGTAAC
1 TCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
* *
25781681 TTC--AGAGATAAGATCTTTTAATTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
* *
25781744 GCTTCCATCTAC
131 GCTTCAATCTGC
*
25781756 TCCGCTGTAATCTCAAGGAGATAAGATTACTGGCTTCAA
1 TCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAA
25781795 CCTGCTCCAC
Statistics
Matches: 428, Mismatches: 32, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
139 24 0.06
140 103 0.24
141 1 0.00
142 300 0.70
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (142 bp):
TCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAAC
TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
GCTTCAATCTGC
Found at i:25782117 original size:131 final size:131
Alignment explanation
Indices: 25781872--25782543 Score: 936
Period size: 131 Copynumber: 5.2 Consensus size: 131
25781862 CACTGTAATC
* * * * * * * * *
25781872 TCAGGGAGATAAGACCTGTGGCTTAAATCTGCTTCCTTAC-ACT--TGAAGATAAGATTTGCTGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * * * * *
25781934 CTTCGATCTGCTCAGCTATTGCCTAGGGAGACAAGTTCTGCAATTTCGAACCTATTCCACTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
25781999 G
131 G
* * * *
25782000 TCAGGGACATAGGACTTATGGCTTAAATTTGTTTCCCTACTGCTGGGGAAGATAAGATTCGCTGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* *
25782065 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAACTTCCAACCTATTCCACTACTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
25782130 G
131 G
* *
25782131 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * ** * *
25782196 CTTTGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATTTCCAACCTACTCCACTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
*
25782261 A
131 G
* * * *
25782262 CCAGAGACATAGAACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
*
25782327 CTTCGATCTGCTCCGCTACTGCTCAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
25782392 G
131 G
* *
25782393 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATGAGATTCTCCGT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
* * * *
25782458 TTTCGATCTGCTCCGCTACTGCTCAGGGAAACAAGATCTGTAATTTCCAACCTACTCCACTGCTG
66 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
*
25782523 A
131 G
*
25782524 CCAGGGACATAGGACTTGTG
1 TCAGGGACATAGGACTTGTG
25782544 ATTTCACCGA
Statistics
Matches: 485, Mismatches: 56, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
128 33 0.07
129 2 0.00
131 450 0.93
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (131 bp):
TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
G
Found at i:25788637 original size:21 final size:22
Alignment explanation
Indices: 25788587--25788637 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
25788577 AAATATACAC
*
25788587 TAACGAATACAAACAATCCATAG
1 TAAC-AATACAAACAATACATAG
25788610 -ATA-AATACAAACAA-ACATAG
1 TA-ACAATACAAACAATACATAG
25788630 TAACAATA
1 TAACAATA
25788638 GCGTCAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
20 6 0.25
21 16 0.67
22 1 0.04
23 1 0.04
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (22 bp):
TAACAATACAAACAATACATAG
Found at i:25789220 original size:26 final size:27
Alignment explanation
Indices: 25789165--25789222 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
25789155 ATAATAGTAG
*
25789165 TAATAATATATAATGATATTAAAAGGC
1 TAATAATATATAATGATATTAAAAGAC
25789192 TAATAATA-ATAA-GAATATTAATAA-AC
1 TAATAATATATAATG-ATATTAA-AAGAC
25789218 TAATA
1 TAATA
25789223 TTAAACAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.04
26 17 0.61
27 10 0.36
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (27 bp):
TAATAATATATAATGATATTAAAAGAC
Found at i:25791016 original size:87 final size:87
Alignment explanation
Indices: 25790870--25791028 Score: 291
Period size: 87 Copynumber: 1.8 Consensus size: 87
25790860 ACTTGTAATC
25790870 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
25790935 CCGATGGAGGTAAGGCTTTGTT
66 CCGATGGAGGTAAGGCTTTGTT
* * *
25790957 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
25791022 CCGATGG
66 CCGATGG
25791029 TAAGATCTGC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGTAAGGCTTTGTT
Found at i:25791046 original size:41 final size:41
Alignment explanation
Indices: 25790989--25791069 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
25790979 GCAGGAAGGC
25790989 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGT
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGT
25791030 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
25791070 AGGCAAGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (41 bp):
AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGT
Found at i:25791130 original size:128 final size:128
Alignment explanation
Indices: 25790902--25791156 Score: 413
Period size: 128 Copynumber: 2.0 Consensus size: 128
25790892 GCAGGAAGGC
* **
25790902 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGTAAGGCTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCATTTTCGATCTGC
* **
25790967 TTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGT
66 TTCACTGTTAACACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGT
*
25791030 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCATTCTT-GATCTG
1 AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCATT-TTCGATCTG
* *
25791094 CTTCATTGTTAACACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCATTGCAACCGATGG
65 CTTCACTGTTAACACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
25791157 AGGCAAGGCT
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 115 0.98
129 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (128 bp):
AAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCATTTTCGATCTGC
TTCACTGTTAACACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGT
Found at i:25791136 original size:87 final size:87
Alignment explanation
Indices: 25791030--25791392 Score: 570
Period size: 87 Copynumber: 4.2 Consensus size: 87
25791020 AACCGATGGT
* *
25791030 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCATTCTTGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGC
*
25791095 TTCATTGTTAACACAGGAAGGC
66 TTCACTGTTAACACAGGAAGGC
*
25791117 AAGATCTGCTATCTTTAACCAGCTCCATTGCAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGC
*
25791182 TTCGCTGTTAACACAGGAAGGC
66 TTCACTGTTAACACAGGAAGGC
* * *
25791204 AAGATCTGCTATCTTTAACCATCTCCACTGCAACTGATGGAGGCAAGGCTTCGTTCTTGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGC
**
25791269 TTTGCTGTTAACACAGGAAGGC
66 TTCACTGTTAACACAGGAAGGC
* *
25791291 AAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAA-GATCTCGTTCTCGATCTA
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCT-TCGTTCTCGATCTG
*
25791354 CTTCACTGTTAACGCAGGAAGGC
65 CTTCACTGTTAACACAGGAAGGC
*
25791377 AAGATTTGCT-TCTTTA
1 AAGATCTGCTATCTTTA
25791393 TTGATCTGTT
Statistics
Matches: 256, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
85 2 0.01
86 80 0.31
87 174 0.68
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGC
TTCACTGTTAACACAGGAAGGC
Found at i:25793054 original size:19 final size:20
Alignment explanation
Indices: 25792976--25793054 Score: 53
Period size: 19 Copynumber: 4.2 Consensus size: 20
25792966 CCTTTTCTTT
*
25792976 TTTCT-TTTTC-CTTTTTCA
1 TTTCTATTTTCTCATTTTCA
* **
25792994 -TTCTGATTTTTTCATTTAGA
1 TTTCT-ATTTTCTCATTTTCA
*
25793014 TTTCTCTTTT-TCATTCTT-A
1 TTTCTATTTTCTCATT-TTCA
25793033 TTTCT-TTTTCTCATTTTCA
1 TTTCTATTTTCTCATTTTCA
25793052 TTT
1 TTT
25793055 TGATCTTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
17 4 0.08
18 6 0.12
19 24 0.50
20 10 0.21
21 4 0.08
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTCTATTTTCTCATTTTCA
Found at i:25793102 original size:14 final size:14
Alignment explanation
Indices: 25793063--25793110 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
25793053 TTTGATCTTG
25793063 ATTTTGATTTTTTCT
1 ATTTTGATTTTTT-T
25793078 -TCTTT-ATTTTTTTT
1 AT-TTTGA-TTTTTTT
25793092 ATTTTGATTTTTTT
1 ATTTTGATTTTTTT
25793106 ATTTT
1 ATTTT
25793111 TTTTGACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (14 bp):
ATTTTGATTTTTTT
Found at i:25800729 original size:28 final size:28
Alignment explanation
Indices: 25800697--25800819 Score: 165
Period size: 28 Copynumber: 4.4 Consensus size: 28
25800687 AATAAGCTCT
* * *
25800697 CACACTTAGTGCTCAATAATCAAACTCG
1 CACACTTAGTGCTCTACAATTAAACTCG
* *
25800725 CACACTTAGTGCTTTACCATTAAACTCG
1 CACACTTAGTGCTCTACAATTAAACTCG
*
25800753 CACACTTAGTGCTCTACAATTAAAATCG
1 CACACTTAGTGCTCTACAATTAAACTCG
* * *
25800781 CACACTTAGTGCTTTATAATTAAATTCG
1 CACACTTAGTGCTCTACAATTAAACTCG
25800809 CACACTTAGTG
1 CACACTTAGTG
25800820 TCGAAAATCA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (28 bp):
CACACTTAGTGCTCTACAATTAAACTCG
Found at i:25800763 original size:56 final size:56
Alignment explanation
Indices: 25800697--25800819 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
25800687 AATAAGCTCT
* * *
25800697 CACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTTTACCATTAAACTCG
1 CACACTTAGTGCTCAACAATCAAAATCGCACACTTAGTGCTTTACAATTAAACTCG
* * * *
25800753 CACACTTAGTGCTCTACAATTAAAATCGCACACTTAGTGCTTTATAATTAAATTCG
1 CACACTTAGTGCTCAACAATCAAAATCGCACACTTAGTGCTTTACAATTAAACTCG
25800809 CACACTTAGTG
1 CACACTTAGTG
25800820 TCGAAAATCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (56 bp):
CACACTTAGTGCTCAACAATCAAAATCGCACACTTAGTGCTTTACAATTAAACTCG
Found at i:25808555 original size:28 final size:28
Alignment explanation
Indices: 25808523--25808645 Score: 165
Period size: 28 Copynumber: 4.4 Consensus size: 28
25808513 AATAAGCTCT
* * *
25808523 CACACTTAGTGCTCAATAATCAAACTCG
1 CACACTTAGTGCTCTACAATTAAACTCG
* *
25808551 CACACTTAGTGCTTTACCATTAAACTCG
1 CACACTTAGTGCTCTACAATTAAACTCG
*
25808579 CACACTTAGTGCTCTACAATTAAAATCG
1 CACACTTAGTGCTCTACAATTAAACTCG
* * *
25808607 CACACTTAGTGCTTTATAATTAAATTCG
1 CACACTTAGTGCTCTACAATTAAACTCG
25808635 CACACTTAGTG
1 CACACTTAGTG
25808646 TCGAAAATCA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (28 bp):
CACACTTAGTGCTCTACAATTAAACTCG
Found at i:25808589 original size:56 final size:56
Alignment explanation
Indices: 25808523--25808645 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
25808513 AATAAGCTCT
* * *
25808523 CACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTTTACCATTAAACTCG
1 CACACTTAGTGCTCAACAATCAAAATCGCACACTTAGTGCTTTACAATTAAACTCG
* * * *
25808579 CACACTTAGTGCTCTACAATTAAAATCGCACACTTAGTGCTTTATAATTAAATTCG
1 CACACTTAGTGCTCAACAATCAAAATCGCACACTTAGTGCTTTACAATTAAACTCG
25808635 CACACTTAGTG
1 CACACTTAGTG
25808646 TCGAAAATCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (56 bp):
CACACTTAGTGCTCAACAATCAAAATCGCACACTTAGTGCTTTACAATTAAACTCG
Found at i:25812225 original size:20 final size:20
Alignment explanation
Indices: 25812197--25812249 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
25812187 TGAACTTCTT
*
25812197 TTTGGGATGAGCAAGGAAAA
1 TTTGAGATGAGCAAGGAAAA
*
25812217 TTTGAGATGAGCAAGGAGAA
1 TTTGAGATGAGCAAGGAAAA
*
25812237 TTTGAGATAAGCA
1 TTTGAGATGAGCA
25812250 TGAAGGGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.23
Consensus pattern (20 bp):
TTTGAGATGAGCAAGGAAAA
Found at i:25815987 original size:122 final size:122
Alignment explanation
Indices: 25815770--25815997 Score: 316
Period size: 122 Copynumber: 1.9 Consensus size: 122
25815760 GTAATACTGA
* * *
25815770 TACCTTGAGGACTTCTATCGAAACAAGTCAAAACAGTGGCCAAAGTTCAACCCCTCCTGCACTTC
1 TACCTTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACCCCTCCTGCACTTC
* * **
25815835 AACCGATACTCTACAGGGTTCTATCGATACCAGTTGAAACCACTAGTGTTTTACCAT
66 AACCAATACTCTACAAGGTTCTATCGATACCAAATGAAACCACTAGTGTTTTACCAT
* * *
25815892 TACCTTGAGGACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCATCTTCC-CCTGCACTT
1 TACCTTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAAC-CCCTCCTGCACTT
* *
25815956 CTACCAATACTCTA-ATAGGTTCTATTGATACCAAATGAAACC
65 CAACCAATACTCTACA-AGGTTCTATCGATACCAAATGAAACC
25815998 CTCAGAGTTC
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
121 1 0.01
122 89 0.97
123 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (122 bp):
TACCTTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACCCCTCCTGCACTTC
AACCAATACTCTACAAGGTTCTATCGATACCAAATGAAACCACTAGTGTTTTACCAT
Found at i:25817759 original size:27 final size:27
Alignment explanation
Indices: 25817729--25817868 Score: 145
Period size: 27 Copynumber: 5.2 Consensus size: 27
25817719 TTACACTATT
*
25817729 ATGACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25817756 ATGATCGAAATACCCCTATAGTGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
** * * *
25817783 ATGATTGAAATACCCCCACAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25817810 ATGATCGAAATACTCCCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25817837 ATGACCGAAATATCCTCATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
25817864 ATGAC
1 ATGAC
25817869 TATTATATCC
Statistics
Matches: 93, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:25817847 original size:54 final size:54
Alignment explanation
Indices: 25817729--25817848 Score: 172
Period size: 54 Copynumber: 2.2 Consensus size: 54
25817719 TTACACTATT
* *
25817729 ATGACCGAAATACCCCCATAGGGTAGAATGATCGAAATACCCCTATAGTGTAAA
1 ATGACCGAAATACCCCCACAAGGTAGAATGATCGAAATACCCCTATAGTGTAAA
**
25817783 ATGATTGAAATACCCCCACAAGGTAGAATGATCGAAATACTCCC-ATAAG-GTAAA
1 ATGACCGAAATACCCCCACAAGGTAGAATGATCGAAATAC-CCCTAT-AGTGTAAA
25817837 ATGACCGAAATA
1 ATGACCGAAATA
25817849 TCCTCATAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 53 0.91
55 5 0.09
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
ATGACCGAAATACCCCCACAAGGTAGAATGATCGAAATACCCCTATAGTGTAAA
Found at i:25817867 original size:54 final size:53
Alignment explanation
Indices: 25817729--25817867 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 53
25817719 TTACACTATT
25817729 ATGACCGAAATACCCCCATAGGGTAGAATGATCGAAATACCCCTATAGTGTAAA
1 ATGACCGAAATACCCCCATA-GGTAGAATGATCGAAATACCCCTATAGTGTAAA
** *
25817783 ATGATTGAAATACCCCCACAAGGTAGAATGATCGAAATACTCCC-ATAAG-GTAAA
1 ATGACCGAAATACCCCCA-TAGGTAGAATGATCGAAATAC-CCCTAT-AGTGTAAA
* * *
25817837 ATGACCGAAATATCCTCATAGGATAAAATGA
1 ATGACCGAAATACCCCCATAGG-TAGAATGA
25817868 CTATTATATC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 3 0.04
54 63 0.88
55 6 0.08
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (53 bp):
ATGACCGAAATACCCCCATAGGTAGAATGATCGAAATACCCCTATAGTGTAAA
Found at i:25819807 original size:105 final size:105
Alignment explanation
Indices: 25819619--25819810 Score: 251
Period size: 105 Copynumber: 1.8 Consensus size: 105
25819609 AGATTGTTAC
* *
25819619 GATCTTAAATTAACTAACCTTTGTAAAATCAACTATGAACATAGCTCATCAAGCTGTTTAAGAGT
1 GATCTTAAATCAACAAACCTTTGTAAAATCAACTATGAACATAGCTCATCAAGCTGTTTAAGAGT
* *
25819684 TGTGATCTTAAACCAGCTAACTTAAAGATGAGTAGGTTGT
66 TGCGATATTAAACCAGCTAACTTAAAGATGAGTAGGTTGT
* * * * * * *
25819724 GATCTTAAATCAACAAACCTTTGTAAAAT-TAGTCGTGAACGTAGGTCATCATGCTGTTTAGGAG
1 GATCTTAAATCAACAAACCTTTGTAAAATCAACT-ATGAACATAGCTCATCAAGCTGTTTAAGAG
**
25819788 TTGCGATATTAAATTAGCTAACT
65 TTGCGATATTAAACCAGCTAACT
25819811 CACTTCAATC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 2 0.03
105 71 0.97
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (105 bp):
GATCTTAAATCAACAAACCTTTGTAAAATCAACTATGAACATAGCTCATCAAGCTGTTTAAGAGT
TGCGATATTAAACCAGCTAACTTAAAGATGAGTAGGTTGT
Found at i:25824485 original size:41 final size:41
Alignment explanation
Indices: 25824440--25824534 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
25824430 ATTGAAATTT
25824440 GTGATCTGAATCAGACTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGACTATAAGCCTAGCAGGCTAAGTGCCG
*
25824481 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGACTATAAGCCTAGCAGGCTAAGTGCCG
*
25824522 GTGATTTGAATCA
1 GTGATCTGAATCA
25824535 AAGGAACGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
GTGATCTGAATCAGACTATAAGCCTAGCAGGCTAAGTGCCG
Found at i:25824763 original size:41 final size:41
Alignment explanation
Indices: 25824706--25824881 Score: 271
Period size: 41 Copynumber: 4.3 Consensus size: 41
25824696 GTTTGTAATT
*
25824706 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTACC
*
25824747 GGTGATCTGAATCAGGCTATAAGTCTAGCAGGCTAAGTACC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTACC
* * *
25824788 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATACT
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTACC
* * * *
25824829 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTACC
25824870 GGTGATCTGAAT
1 GGTGATCTGAAT
25824882 ATGTTAAATT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTACC
Found at i:25832695 original size:41 final size:41
Alignment explanation
Indices: 25832638--25832772 Score: 243
Period size: 41 Copynumber: 3.3 Consensus size: 41
25832628 GTTTGTAATT
25832638 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
*
25832679 GGTGATCTGAATCAGGCTATAAGCCTAGAAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
25832720 GGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
25832761 GGTGATCTGAAT
1 GGTGATCTGAAT
25832773 TTGTTAAATT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:25835236 original size:12 final size:12
Alignment explanation
Indices: 25835219--25835243 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25835209 AAATTTGATT
25835219 TATATACATATA
1 TATATACATATA
25835231 TATATACATATA
1 TATATACATATA
25835243 T
1 T
25835244 TACATGGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATACATATA
Found at i:25842730 original size:20 final size:20
Alignment explanation
Indices: 25842705--25842746 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
25842695 TTTTTCGTTT
*
25842705 AAAAAAGTAAAAAAGGAAAA
1 AAAAAAGTAAAAAAGCAAAA
*
25842725 AAAAAAGTTAAAAAGCAAAA
1 AAAAAAGTAAAAAAGCAAAA
25842745 AA
1 AA
25842747 GAATTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (20 bp):
AAAAAAGTAAAAAAGCAAAA
Found at i:25843868 original size:35 final size:34
Alignment explanation
Indices: 25843820--25843895 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
25843810 CCAAAATAAC
*
25843820 AATTTTTTTTTATAAA-TTTTCAAT-ATTTTCAAT
1 AATTTTTTTTTATAAACTTCT-AATAATTTTCAAT
*
25843853 AAATTTTTATTTTATAAACTTCTAATAATTTTTAAT
1 -AATTTTT-TTTTATAAACTTCTAATAATTTTCAAT
25843889 AATTTTT
1 AATTTTT
25843896 GTATTCTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.19
35 19 0.51
36 11 0.30
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (34 bp):
AATTTTTTTTTATAAACTTCTAATAATTTTCAAT
Found at i:25847581 original size:113 final size:113
Alignment explanation
Indices: 25847181--25847582 Score: 554
Period size: 114 Copynumber: 3.5 Consensus size: 113
25847171 GCAGAAAATG
* ** * * * *
25847181 TTAAACAAAACGCAGCGTACGATCTTGAGGTATACTAGAATTAGTGGCGATTATGCAACAACGCC
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGATTATGAAAAAACGCC
* * * *
25847246 GTTAAAGTACAGTATTAGCGGCGCATTATAAAAA-ATGCCGCAAAATATC
66 GCTAAAGCACAGAATTAGCGGCGCATTATAAAAACA--CTGCAAAATATC
* *
25847295 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAACAACGCC
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGATTATGAAAAAACGCC
* * *
25847360 GCTAAAGCACAGCATTAGCGGCGCCTTATAAAAAGCGCTGCAAAATATC
66 GCTAAAGCACAGAATTAGCGGCGCATTATAAAAA-CACTGCAAAATATC
* * * * *
25847409 TAAACCAAAACGCAGCTTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATAAAAAAACACC
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGATTATGAAAAAACGCC
*
25847474 GCTAAAGCACAGAATTAGTGGCGCATTATAAAAACACTGCAAAATATC
66 GCTAAAGCACAGAATTAGCGGCGCATTATAAAAACACTGCAAAATATC
* *
25847522 TTAAGCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGATTATGAAAAAA
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGATTATGAAAAAA
25847583 ATCACCAAAG
Statistics
Matches: 258, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
113 68 0.26
114 190 0.74
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (113 bp):
TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGATTATGAAAAAACGCC
GCTAAAGCACAGAATTAGCGGCGCATTATAAAAACACTGCAAAATATC
Found at i:25847869 original size:21 final size:22
Alignment explanation
Indices: 25847831--25847879 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
25847821 TGGTGGTTGT
*
25847831 TGTTTGTGATTTACGGGTTTAA
1 TGTTTATGATTTACGGGTTTAA
*
25847853 TGTTTATGGTTTA-GGGTTTAA
1 TGTTTATGATTTACGGGTTTAA
*
25847874 TATTTA
1 TGTTTA
25847880 CAGTTAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.53
Consensus pattern (22 bp):
TGTTTATGATTTACGGGTTTAA
Found at i:25847991 original size:14 final size:14
Alignment explanation
Indices: 25847974--25848000 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25847964 TATGATTTAT
25847974 GGTTTGGGGTTTGG
1 GGTTTGGGGTTTGG
25847988 GGTTTGGGGTTTG
1 GGTTTGGGGTTTG
25848001 AGATTTAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.56, T:0.44
Consensus pattern (14 bp):
GGTTTGGGGTTTGG
Found at i:25848011 original size:14 final size:14
Alignment explanation
Indices: 25847980--25848035 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
25847970 TTATGGTTTG
* * *
25847980 GGGTTTGGGGTTTG
1 GGGTTTGAGATTTA
25847994 GGGTTTGAGATTTA
1 GGGTTTGAGATTTA
*
25848008 GGGTTT-ATAATTTA
1 GGGTTTGA-GATTTA
*
25848022 GGGTTTAAGATTTA
1 GGGTTTGAGATTTA
25848036 CAGTTAGGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 1 0.03
14 33 0.94
15 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.45
Consensus pattern (14 bp):
GGGTTTGAGATTTA
Found at i:25848977 original size:24 final size:24
Alignment explanation
Indices: 25848950--25849007 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
25848940 AAGCTCATTT
25848950 TTCCCCTCAAAATTTT-CCTCAAAA
1 TTCCCCTCAAAATTTTCCCT-AAAA
* *
25848974 TTCCCCTCTAATTTTTCCCTAAAA
1 TTCCCCTCAAAATTTTCCCTAAAA
25848998 TTCCCC-CAAA
1 TTCCCCTCAAA
25849008 TCTAAAACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.10
24 24 0.80
25 3 0.10
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.34
Consensus pattern (24 bp):
TTCCCCTCAAAATTTTCCCTAAAA
Found at i:25849616 original size:26 final size:26
Alignment explanation
Indices: 25849579--25849638 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
25849569 CTCGTTGCAT
* *
25849579 AATAATTCTTACTCTATAGCTTATCA
1 AATAATTATTACTCTATAGCTTATAA
25849605 AATAATTATTACTCTATAGCTTATAA
1 AATAATTATTACTCTATAGCTTATAA
25849631 AATAATTA
1 AATAATTA
25849639 AATTGTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (26 bp):
AATAATTATTACTCTATAGCTTATAA
Found at i:25850498 original size:28 final size:29
Alignment explanation
Indices: 25850465--25850540 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 29
25850455 TCAATCATAT
*
25850465 CATAACTTATAT-ATAAACTTACATAAT-A
1 CATAACTTACATAAT-AACTTACATAATAA
25850493 CATAACTTACATAATAACTTACATAATAA
1 CATAACTTACATAATAACTTACATAATAA
25850522 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
25850541 TATAGCCTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
28 23 0.55
29 4 0.10
32 15 0.36
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (29 bp):
CATAACTTACATAATAACTTACATAATAA
Found at i:25850501 original size:16 final size:16
Alignment explanation
Indices: 25850480--25850782 Score: 166
Period size: 16 Copynumber: 18.7 Consensus size: 16
25850470 CTTATATATA
25850480 AACTTACATAATACAT
1 AACTTACATAATACAT
25850496 AACTTAC---ATA-AT
1 AACTTACATAATACAT
25850508 AACTTACATAATAACATAAT
1 AACTTACATAAT-AC---AT
*
25850528 AACTTACATAATATAT
1 AACTTACATAATACAT
* * *
25850544 AGCCTACATAAATTGCAT
1 AACTTACAT-AA-TACAT
* *
25850562 AACTCACATAATACAC
1 AACTTACATAATACAT
*
25850578 AACTTACATAACTTAAAT
1 AACTTACATAA--TACAT
25850596 AACTTACATAATACAT
1 AACTTACATAATACAT
25850612 AACTTACAT--TA-AT
1 AACTTACATAATACAT
*
25850625 -ATTATACATAACTTACAT
1 AACT-TACATAA--TACAT
*
25850643 AACTTACA-ACTTACAT
1 AACTTACATA-ATACAT
25850659 AACTTA-AT--TACAT
1 AACTTACATAATACAT
* *
25850672 TA--TACACAACTTACAT
1 AACTTACATAA--TACAT
* *
25850688 AACATACACAATACAT
1 AACTTACATAATACAT
*
25850704 AACTTACATAATATAT
1 AACTTACATAATACAT
*
25850720 TACTTACATAACTTACAT
1 AACTTACATAA--TACAT
* *
25850738 AATTTACGTAATACAT
1 AACTTACATAATACAT
* * *
25850754 AAATATATATCATATCAT
1 AACT-TACATAATA-CAT
25850772 AACTTACATAA
1 AACTTACATAA
25850783 CTCATATATA
Statistics
Matches: 220, Mismatches: 35, Indels: 63
0.69 0.11 0.20
Matches are distributed among these distances:
11 2 0.01
12 12 0.05
13 16 0.07
14 2 0.01
15 3 0.01
16 96 0.44
17 18 0.08
18 54 0.25
19 3 0.01
20 14 0.06
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:25850505 original size:9 final size:9
Alignment explanation
Indices: 25850480--25850784 Score: 159
Period size: 9 Copynumber: 35.4 Consensus size: 9
25850470 CTTATATATA
25850480 AACTTACAT
1 AACTTACAT
25850489 AA--TACAT
1 AACTTACAT
25850496 AACTTACAT
1 AACTTACAT
*
25850505 AA-TAAC-T
1 AACTTACAT
* *
25850512 TACATA-AT
1 AACTTACAT
*
25850520 AACATA-AT
1 AACTTACAT
25850528 AACTTACAT
1 AACTTACAT
*
25850537 AA--TATAT
1 AACTTACAT
* *
25850544 AGCCTACAT
1 AACTTACAT
* *
25850553 AAATTGCAT
1 AACTTACAT
*
25850562 AACTCACAT
1 AACTTACAT
*
25850571 AA--TACAC
1 AACTTACAT
25850578 AACTTACAT
1 AACTTACAT
*
25850587 AACTTAAAT
1 AACTTACAT
25850596 AACTTACAT
1 AACTTACAT
25850605 AA--TACAT
1 AACTTACAT
25850612 AACTTACATT
1 AACTTACA-T
*
25850622 AATATTATACAT
1 -A-ACT-TACAT
25850634 AACTTACAT
1 AACTTACAT
25850643 AACTTAC--
1 AACTTACAT
25850650 AACTTACAT
1 AACTTACAT
25850659 AACTTA-ATT
1 AACTTACA-T
* *
25850668 ACATTATACAC
1 A-ACT-TACAT
25850679 AACTTACAT
1 AACTTACAT
* *
25850688 AACATACAC
1 AACTTACAT
25850697 AA--TACAT
1 AACTTACAT
25850704 AACTTACAT
1 AACTTACAT
*
25850713 AA--TATAT
1 AACTTACAT
*
25850720 TACTTACAT
1 AACTTACAT
25850729 AACTTACAT
1 AACTTACAT
* *
25850738 AATTTACGT
1 AACTTACAT
25850747 AA--TACAT
1 AACTTACAT
* *
25850754 AA-ATATAT
1 AACTTACAT
* *
25850762 ATCATATCAT
1 AACTTA-CAT
25850772 AACTTACAT
1 AACTTACAT
25850781 AACT
1 AACT
25850785 CATATATACT
Statistics
Matches: 226, Mismatches: 42, Indels: 56
0.70 0.13 0.17
Matches are distributed among these distances:
7 50 0.22
8 23 0.10
9 127 0.56
10 13 0.06
11 5 0.02
12 4 0.02
13 4 0.02
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:25850511 original size:12 final size:12
Alignment explanation
Indices: 25850494--25850540 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
25850484 TACATAATAC
25850494 ATAACTTACATA
1 ATAACTTACATA
25850506 ATAACTTACATA
1 ATAACTTACATA
25850518 AT-A---ACATA
1 ATAACTTACATA
25850526 ATAACTTACATA
1 ATAACTTACATA
25850538 ATA
1 ATA
25850541 TATAGCCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.23
9 1 0.03
11 1 0.03
12 22 0.71
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:25850526 original size:20 final size:20
Alignment explanation
Indices: 25850491--25850540 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
25850481 ACTTACATAA
*
25850491 TACATAACTTACATAATAACT
1 TACATAA-TAACATAATAACT
25850512 TACATAATAACATAATAACT
1 TACATAATAACATAATAACT
25850532 TACATAATA
1 TACATAATA
25850541 TATAGCCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
TACATAATAACATAATAACT
Done.