Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 37 of 206
Found at i:10688659 original size:12 final size:13
Alignment explanation
Indices: 10688627--10688664 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
10688617 CAAAGAAAGG
*
10688627 ATAGAAAAAGAGA
1 ATAGAAACAGAGA
10688640 ATAGAAACAGAGA
1 ATAGAAACAGAGA
10688653 A-AGAAACAGAGA
1 ATAGAAACAGAGA
10688665 GCAAAACGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.66, C:0.05, G:0.24, T:0.05
Consensus pattern (13 bp):
ATAGAAACAGAGA
Found at i:10689941 original size:39 final size:38
Alignment explanation
Indices: 10689821--10689954 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 38
10689811 GACCTTGAGT
* *
10689821 CGATGAGACACTGGGTGTCATACTGTTACTTCGAA-TAGATT
1 CGATGAGACACTGGGTGTCA-ACT-TTGCTTCGAACT--ATC
** ** * *
10689862 CGATGAGGTACTGGGTACCAAC-TTGCTTCG-GCTTTGC
1 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTAT-C
10689899 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACT-TTGCTTCGAACTATC
*
10689938 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
10689955 CCATTCTGGT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
36 1 0.01
37 18 0.25
38 8 0.11
39 25 0.34
40 5 0.07
41 16 0.22
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTATC
Found at i:10694965 original size:3 final size:3
Alignment explanation
Indices: 10694957--10695005 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
10694947 ATTATTTAGT
*
10694957 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
10695003 TTA
1 TTA
10695006 GTTTTATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 41 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10695548 original size:21 final size:20
Alignment explanation
Indices: 10695517--10695561 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
10695507 TTGCTCATAT
*
10695517 TATTTTTATTCACATTAT-CA
1 TATTTTTATTC-CATCATGCA
10695537 TATTTATTATTCCATCATGCA
1 TATTT-TTATTCCATCATGCA
10695558 TATT
1 TATT
10695562 AACACCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.29, C:0.16, G:0.02, T:0.53
Consensus pattern (20 bp):
TATTTTTATTCCATCATGCA
Found at i:10695820 original size:108 final size:109
Alignment explanation
Indices: 10695583--10695839 Score: 376
Period size: 108 Copynumber: 2.4 Consensus size: 109
10695573 TCAAAAAAAG
* * * * * *
10695583 AAAATTTTCTAAATAAGGCAATATTTTACATTTGGAAGTTCGAGAAAGCGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTG
10695648 GGTTTCAATTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTT
66 GGTTTCAATTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTT
*
10695692 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAAA-CGTGCCCTAATGTGTT
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGA-GAAAGCGTGCCCTAATGTGCT
* * *
10695756 GGGTTTCGA-TTTTCTCGTTCGACC-AGATAGCCGAATATCTTTTT
65 GGGTTTCAATTTTTCTCGTTCGACCTA-ATAGCCAAATATCCTTTT
*
10695800 AAAAATTTCAAAATAAGGCAATGTTTTGCGCTTGGAAATT
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATT
10695840 TCAAAATAAG
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
107 1 0.01
108 70 0.52
109 60 0.44
110 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTG
GGTTTCAATTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTT
Found at i:10696313 original size:17 final size:17
Alignment explanation
Indices: 10696291--10696324 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10696281 TAAATTTAAA
10696291 CGGTAATAACATCAAAT
1 CGGTAATAACATCAAAT
10696308 CGGTAATAACATCAAAT
1 CGGTAATAACATCAAAT
10696325 TAGCCGAAAA
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:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
CGGTAATAACATCAAAT
Found at i:10699008 original size:37 final size:37
Alignment explanation
Indices: 10698967--10699061 Score: 172
Period size: 37 Copynumber: 2.6 Consensus size: 37
10698957 TAAAATTTCT
10698967 TAACTTATATAATATTAAGATAAAATATCGAATTACA
1 TAACTTATATAATATTAAGATAAAATATCGAATTACA
* *
10699004 TAACTTATACAATATTAAGATAAAATTTCGAATTACA
1 TAACTTATATAATATTAAGATAAAATATCGAATTACA
10699041 TAACTTATATAATATTAAGAT
1 TAACTTATATAATATTAAGAT
10699062 TACTTTTATA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (37 bp):
TAACTTATATAATATTAAGATAAAATATCGAATTACA
Found at i:10699071 original size:20 final size:20
Alignment explanation
Indices: 10699043--10699138 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
10699033 GAATTACATA
10699043 ACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATT
* *
10699063 ACTTTTATAATATTAAGATCA
1 ACTTATATAATATTAAGAT-T
* ** * *
10699084 AATT-T-CGA-ATT-ACATA
1 ACTTATATAATATTAAGATT
10699100 ACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATT
10699120 ACTTATATAATATTAAGAT
1 ACTTATATAATATTAAGAT
10699139 AAAATTTCTA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 4 0.07
19 4 0.07
20 41 0.68
21 3 0.05
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (20 bp):
ACTTATATAATATTAAGATT
Found at i:10699087 original size:57 final size:57
Alignment explanation
Indices: 10699006--10699231 Score: 339
Period size: 57 Copynumber: 4.0 Consensus size: 57
10698996 GAATTACATA
*
10699006 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
10699063 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
10699120 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT--GCATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG-ATT
* * * * *
10699176 ACTTATAAAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTGAGAT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT
10699232 AAAATATCGA
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
55 1 0.01
56 48 0.31
57 104 0.68
58 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:10699232 original size:37 final size:37
Alignment explanation
Indices: 10699172--10699305 Score: 214
Period size: 37 Copynumber: 3.6 Consensus size: 37
10699162 TATAATATTG
* *
10699172 CATAACTTATAAAATGTTAAGATAAAATATCGAATTA
1 CATAACTTATACAATATTAAGATAAAATATCGAATTA
*
10699209 CATAACTTATACAATATTGAGATAAAATATCGAATTA
1 CATAACTTATACAATATTAAGATAAAATATCGAATTA
* *
10699246 CATAACTTATACAATATTAAGATAAAATTTCAAATTA
1 CATAACTTATACAATATTAAGATAAAATATCGAATTA
*
10699283 CATAACTTATATAATATTAAGAT
1 CATAACTTATACAATATTAAGAT
10699306 TACTTTTATA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (37 bp):
CATAACTTATACAATATTAAGATAAAATATCGAATTA
Found at i:10699315 original size:20 final size:20
Alignment explanation
Indices: 10699287--10699382 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
10699277 AAATTACATA
10699287 ACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATT
* *
10699307 ACTTTTATAATATTAAGATCA
1 ACTTATATAATATTAAGAT-T
* ** * *
10699328 AATT-T-CGA-ATT-ACATA
1 ACTTATATAATATTAAGATT
10699344 ACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATT
10699364 ACTTATATAATATTAAGAT
1 ACTTATATAATATTAAGAT
10699383 AAAATTTCTA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 4 0.07
19 4 0.07
20 41 0.68
21 3 0.05
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (20 bp):
ACTTATATAATATTAAGATT
Found at i:10699331 original size:57 final size:57
Alignment explanation
Indices: 10699250--10699472 Score: 324
Period size: 57 Copynumber: 3.9 Consensus size: 57
10699240 GAATTACATA
* *
10699250 ACTTATACAATATTAAGATAAAATTTCAAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
10699307 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * * *
10699364 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTACATAA-ATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
10699419 ACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAAG
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
10699473 GTAAAATTTC
Statistics
Matches: 146, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
55 44 0.30
56 6 0.04
57 96 0.66
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:10699394 original size:20 final size:19
Alignment explanation
Indices: 10699258--10699385 Score: 61
Period size: 20 Copynumber: 6.7 Consensus size: 19
10699248 TAACTTATAC
*
10699258 AATATTAAGATAAAATTT-C
1 AATATTAAGAT-AAATTTAT
* *
10699277 AA-ATT-ACATAACTTATAT
1 AATATTAAGATAAATT-TAT
**
10699295 AATATTAAGATTACTTTTAT
1 AATATTAAGA-TAAATTTAT
*
10699315 AATATTAAGATCAAATTT-C
1 AATATTAAGAT-AAATTTAT
* * *
10699334 GA-ATT-ACATAACTTATAT
1 AATATTAAGATAAATT-TAT
* *
10699352 AATATTAAGATTACTTATAT
1 AATATTAAGATAAATT-TAT
10699372 AATATTAAGATAAA
1 AATATTAAGATAAA
10699386 ATTTCTAATT
Statistics
Matches: 81, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
16 8 0.10
17 8 0.10
18 9 0.11
19 10 0.12
20 42 0.52
21 4 0.05
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (19 bp):
AATATTAAGATAAATTTAT
Found at i:10699396 original size:244 final size:243
Alignment explanation
Indices: 10698967--10699511 Score: 991
Period size: 244 Copynumber: 2.2 Consensus size: 243
10698957 TAAAATTTCT
*
10698967 TAACTTATATAATATTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTT
1 TAACTTATACAATATTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTT
*
10699032 CGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
66 CAAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
*
10699097 ATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTA
131 ATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTA
* *
10699162 TATAATATTGCATAACTTATAAAATGTTAAGATAAAATATCGAATTACA
196 CATAA-ATTACATAACTTATAAAATGTTAAGATAAAATATCGAATTACA
*
10699211 TAACTTATACAATATTGAGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTT
1 TAACTTATACAATATTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTT
10699276 CAAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
66 CAAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
10699341 ATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTA
131 ATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTA
*
10699406 CATAAATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACA
196 CATAAATTACATAACTTATAAAATGTTAAGATAAAATATCGAATTACA
* * *
10699454 TAACTTATACAATATTAAGGTAAAATTTCGAATTACATAACTTATATAATATTAAGAT
1 TAACTTATACAATATTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGAT
10699512 TACTTATATA
Statistics
Matches: 290, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
243 95 0.33
244 195 0.67
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (243 bp):
TAACTTATACAATATTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTT
CAAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
ATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTA
CATAAATTACATAACTTATAAAATGTTAAGATAAAATATCGAATTACA
Found at i:10699460 original size:37 final size:37
Alignment explanation
Indices: 10699410--10699511 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
10699400 AACGTACATA
*
10699410 AATTACATAACTTATATAATGTTAAGATAAAATATCG
1 AATTACATAACTTATATAATATTAAGATAAAATATCG
* * *
10699447 AATTACATAACTTATACAATATTAAGGTAAAATTTCG
1 AATTACATAACTTATATAATATTAAGATAAAATATCG
10699484 AATTACATAACTTATATAATATTAAGAT
1 AATTACATAACTTATATAATATTAAGAT
10699512 TACTTATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (37 bp):
AATTACATAACTTATATAATATTAAGATAAAATATCG
Found at i:10699518 original size:20 final size:20
Alignment explanation
Indices: 10699493--10699531 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10699483 GAATTACATA
10699493 ACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATT
10699513 ACTTATATAATATTAAGAT
1 ACTTATATAATATTAAGAT
10699532 AAAATATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
ACTTATATAATATTAAGATT
Found at i:10699543 original size:20 final size:20
Alignment explanation
Indices: 10699496--10699543 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10699486 TTACATAACT
* **
10699496 TATATAATATTAAGATTACT
1 TATATAATATTAAGATAAAA
10699516 TATATAATATTAAGATAAAA
1 TATATAATATTAAGATAAAA
*
10699536 TATCTAAT
1 TATATAAT
10699544 TACATAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
TATATAATATTAAGATAAAA
Found at i:10699545 original size:57 final size:56
Alignment explanation
Indices: 10699456--10699563 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 56
10699446 GAATTACATA
* * *
10699456 ACTTATACAATATTAAGGTAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATACAATATTAAGATAAAATATCGAATTACATAACTTACATAA-ATTAAGATT
* *
10699513 ACTTATATAATATTAAGATAAAATATCTAATTACATAACTTACATAAATTA
1 ACTTATACAATATTAAGATAAAATATCGAATTACATAACTTACATAAATTA
10699564 CATAACTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 4 0.09
57 42 0.91
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (56 bp):
ACTTATACAATATTAAGATAAAATATCGAATTACATAACTTACATAAATTAAGATT
Found at i:10699550 original size:94 final size:92
Alignment explanation
Indices: 10699364--10699554 Score: 283
Period size: 94 Copynumber: 2.1 Consensus size: 92
10699354 TATTAAGATT
* *
10699364 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTACATAAATTACATAACTTATATAA
1 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACGTACATAAATTACATAACTTATATAA
*
10699429 TGTTAAGATAAAATATCGAATTACATA
66 TATTAAGATAAAATATCGAATTACATA
* * * * *
10699456 ACTTATACAATATTAAGGTAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATAT
1 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACGTACATAA-ATT-ACATAACTTATAT
*
10699521 AATATTAAGATAAAATATCTAATTACATA
64 AATATTAAGATAAAATATCGAATTACATA
10699550 ACTTA
1 ACTTA
10699555 CATAAATTAC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 42 0.48
93 3 0.03
94 43 0.49
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.37
Consensus pattern (92 bp):
ACTTATACAATATTAAGATAAAATTTCGAATTACATAACGTACATAAATTACATAACTTATATAA
TATTAAGATAAAATATCGAATTACATA
Found at i:10699557 original size:9 final size:9
Alignment explanation
Indices: 10699543--10699751 Score: 198
Period size: 9 Copynumber: 23.9 Consensus size: 9
10699533 AAATATCTAA
10699543 TTACATAAC
1 TTACATAAC
*
10699552 TTACATAAA
1 TTACATAAC
10699561 TTACATAAC
1 TTACATAAC
10699570 TTACATAAC
1 TTACATAAC
*
10699579 TTACATAAA
1 TTACATAAC
*
10699588 TTAAATAAC
1 TTACATAAC
*
10699597 TTGCATAAC
1 TTACATAAC
* *
10699606 GTAAATAAC
1 TTACATAAC
10699615 TTACATAA-
1 TTACATAAC
10699623 -TACATAACC
1 TTACATAA-C
*
10699632 TT-CCTAAC
1 TTACATAAC
* *
10699640 TTACATTAT
1 TTACATAAC
*
10699649 TTAGATAA-
1 TTACATAAC
*
10699657 -TACATAGC
1 TTACATAAC
*
10699665 CTACATAAC
1 TTACATAAC
10699674 TTACATAAC
1 TTACATAAC
*
10699683 TTACATAAA
1 TTACATAAC
*
10699692 TTAAATAAC
1 TTACATAAC
*
10699701 TTCCATAAC
1 TTACATAAC
10699710 TTACATAAC
1 TTACATAAC
*
10699719 TCACATAA-
1 TTACATAAC
*
10699727 -TACACAAC
1 TTACATAAC
*
10699735 TTACGTAAC
1 TTACATAAC
10699744 TTACATAA
1 TTACATAA
10699752 TACATAAAAA
Statistics
Matches: 158, Mismatches: 34, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
7 17 0.11
8 3 0.02
9 137 0.87
10 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:10699671 original size:104 final size:104
Alignment explanation
Indices: 10699562--10699749 Score: 306
Period size: 104 Copynumber: 1.8 Consensus size: 104
10699552 TTACATAAAT
* *
10699562 TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACGTAAATAACTTACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAATAACTCACATAATACA
*
10699627 TAACCTT-CCTAACTTACATTATTTAGATAATACATAGCC
66 CAA-CTTACCTAACTTACATTATTTAGATAATACATAGCC
* *
10699666 TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAATAACTCACATAATACA
*
10699731 CAACTTACGTAACTTACAT
66 CAACTTACCTAACTTACAT
10699750 AATACATAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 3 0.04
104 74 0.96
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (104 bp):
TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAATAACTCACATAATACA
CAACTTACCTAACTTACATTATTTAGATAATACATAGCC
Found at i:10699743 original size:25 final size:25
Alignment explanation
Indices: 10699707--10699755 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10699697 TAACTTCCAT
10699707 AACTTACATAACTCACATAATACAC
1 AACTTACATAACTCACATAATACAC
* *
10699732 AACTTACGTAACTTACATAATACA
1 AACTTACATAACTCACATAATACA
10699756 TAAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (25 bp):
AACTTACATAACTCACATAATACAC
Found at i:10699776 original size:104 final size:104
Alignment explanation
Indices: 10699562--10699787 Score: 296
Period size: 104 Copynumber: 2.2 Consensus size: 104
10699552 TTACATAAAT
* *
10699562 TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACGTAAATAACTTACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAATAACTCACATAATACA
* * * * *
10699627 TAACCTTCCTAACTTACATTATTTAGATAATACATAGCC
66 CAACCTTCCTAACTTACATTATATACATAAAACATAGCA
* *
10699666 TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAATAACTCACATAATACA
* * *
10699731 CAA-CTTACGTAACTTACA-TA-ATACATAAAAATATATCA
66 CAACCTT-CCTAACTTACATTATATACAT-AAAACATAGCA
10699769 TATCATAACTTACATAACT
1 TA-CATAACTTACATAACT
10699788 CATTTATAGT
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
102 4 0.04
103 14 0.13
104 89 0.83
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (104 bp):
TACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAATAACTCACATAATACA
CAACCTTCCTAACTTACATTATATACATAAAACATAGCA
Found at i:10701899 original size:21 final size:21
Alignment explanation
Indices: 10701873--10701913 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10701863 TGCCTTTAGT
10701873 TACAACTTTTGATAATGTTGA
1 TACAACTTTTGATAATGTTGA
10701894 TACAACTTTTGATAATGTTG
1 TACAACTTTTGATAATGTTG
10701914 TATATTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (21 bp):
TACAACTTTTGATAATGTTGA
Found at i:10704885 original size:21 final size:21
Alignment explanation
Indices: 10704859--10704929 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
10704849 CTACAACTTA
* *
10704859 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
10704880 AAGCAGCGTCTACAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
10704901 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
10704922 AAGCAGAG
1 AAGCAGAG
10704930 CAGAGCAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:10705897 original size:14 final size:14
Alignment explanation
Indices: 10705878--10705907 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10705868 GATGATGACC
10705878 AATATCATTTTGAA
1 AATATCATTTTGAA
10705892 AATATCATTTTGAA
1 AATATCATTTTGAA
10705906 AA
1 AA
10705908 GAAAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
AATATCATTTTGAA
Found at i:10706119 original size:17 final size:18
Alignment explanation
Indices: 10706086--10706120 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10706076 TTGAATTCTA
10706086 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
10706104 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
10706121 GAGGTTGAGG
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:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:10707237 original size:21 final size:19
Alignment explanation
Indices: 10707213--10707280 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
10707203 AAATAGTATC
*
10707213 AAAAATTTTGAGGGAATAGA
1 AAAAATTATGAGGGAATA-A
*
10707233 AAAAATTATGAAGGGTATCAA
1 AAAAATTATG-AGGGAAT-AA
10707254 AAAAATTATG-GGGAAGTACA
1 AAAAATTATGAGGGAA-TA-A
10707274 AAAAATT
1 AAAAATT
10707281 TTCGAGGAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.12
20 18 0.44
21 17 0.41
22 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.21, T:0.24
Consensus pattern (19 bp):
AAAAATTATGAGGGAATAA
Found at i:10707297 original size:21 final size:21
Alignment explanation
Indices: 10707232--10707298 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
10707222 GAGGGAATAG
10707232 AAAAAATTATGAAGG--GTATCA
1 AAAAAATTATG-AGGAAGTA-CA
*
10707253 AAAAAATTATGGGGAAGTAC-
1 AAAAAATTATGAGGAAGTACA
*
10707273 AAAAAATTTTCGAGG-AGTACA
1 AAAAAATTAT-GAGGAAGTACA
10707294 AAAAA
1 AAAAA
10707299 TCATAAGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 16 0.41
21 20 0.51
22 3 0.08
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.21
Consensus pattern (21 bp):
AAAAAATTATGAGGAAGTACA
Found at i:10713773 original size:16 final size:16
Alignment explanation
Indices: 10713752--10713783 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10713742 CAGAAAGCAA
10713752 AAACACACACTTTCAT
1 AAACACACACTTTCAT
10713768 AAACACACACTTTCAT
1 AAACACACACTTTCAT
10713784 GAACCGTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (16 bp):
AAACACACACTTTCAT
Found at i:10716981 original size:22 final size:23
Alignment explanation
Indices: 10716944--10716988 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
10716934 CCAGTGGTAA
*
10716944 ATTTTCATTTTCTTTGTTTTGTTC
1 ATTTTCA-TTTCTTTGCTTTGTTC
10716968 ATTTTCA-TTCTTTGCTTTGTT
1 ATTTTCATTTCTTTGCTTTGTT
10716989 AGAAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.09, C:0.13, G:0.09, T:0.69
Consensus pattern (23 bp):
ATTTTCATTTCTTTGCTTTGTTC
Found at i:10724155 original size:2 final size:2
Alignment explanation
Indices: 10724148--10724184 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10724138 TCCCTCTCAA
10724148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10724185 AATTCAGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10724783 original size:20 final size:20
Alignment explanation
Indices: 10724752--10724789 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10724742 ACTCTCTAAG
10724752 AAAATAATGAAATGAAATACA
1 AAAATAATGAAAT-AAATACA
10724773 AAAATAA-GAAATAAATA
1 AAAATAATGAAATAAATA
10724790 TATTGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAATAATGAAATAAATACA
Found at i:10725955 original size:36 final size:36
Alignment explanation
Indices: 10725908--10725981 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
10725898 TTGGTGCACA
10725908 CACTCGGAGGAAGATTTTCTACAAATAATTGCATGG
1 CACTCGGAGGAAGATTTTCTACAAATAATTGCATGG
10725944 CACTCGGAGGAAGATTTTCTACAAATAATTGCATGG
1 CACTCGGAGGAAGATTTTCTACAAATAATTGCATGG
10725980 CA
1 CA
10725982 GAGAATGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (36 bp):
CACTCGGAGGAAGATTTTCTACAAATAATTGCATGG
Found at i:10738973 original size:22 final size:23
Alignment explanation
Indices: 10738936--10738986 Score: 86
Period size: 22 Copynumber: 2.2 Consensus size: 23
10738926 CCAGTGGTAA
10738936 ATTTTCATTTTCTTTGTTTTGTTC
1 ATTTTCA-TTTCTTTGTTTTGTTC
10738960 ATTTTCA-TTCTTTGTTTTGTTC
1 ATTTTCATTTCTTTGTTTTGTTC
10738982 ATTTT
1 ATTTT
10738987 TTTTATACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 20 0.74
24 7 0.26
ACGTcount: A:0.10, C:0.12, G:0.08, T:0.71
Consensus pattern (23 bp):
ATTTTCATTTCTTTGTTTTGTTC
Found at i:10746692 original size:20 final size:20
Alignment explanation
Indices: 10746661--10746698 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10746651 ACTCTCTAAG
10746661 AAAATAATGAAATGAAATACA
1 AAAATAATGAAAT-AAATACA
10746682 AAAATAA-GAAATAAATA
1 AAAATAATGAAATAAATA
10746699 TATTGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAATAATGAAATAAATACA
Found at i:10750959 original size:26 final size:26
Alignment explanation
Indices: 10750923--10750979 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
10750913 CATACAAAAG
*
10750923 TAGCTCTAGACATTGAAAAGGTTCAC
1 TAGCTCTAGACATTGAAAAAGTTCAC
10750949 TAGCTCTAGACATTGAAAAAGTTCAC
1 TAGCTCTAGACATTGAAAAAGTTCAC
10750975 TAGCT
1 TAGCT
10750980 GCATAAACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (26 bp):
TAGCTCTAGACATTGAAAAAGTTCAC
Found at i:10762715 original size:43 final size:43
Alignment explanation
Indices: 10762598--10762722 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
10762588 GAGAGCGTCG
* * *
10762598 TTACCTTTAGCGGCGCTTTTTTGAAATAAACACCGCTAAAGATCC
1 TTACCTTTAGCGGCGCTTTTTT-AAA-AAACGCCGCTAAAAACCC
* *
10762643 TAACCTTTAGCGGCGCTTTTTCT-ACAAACGCCGCTAAAAACCC
1 TTACCTTTAGCGGCGCTTTTT-TAAAAAACGCCGCTAAAAACCC
*
10762686 TTACCTTTAGCGGCGCTTTTTTAAAAAACGCCACTAA
1 TTACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
10762723 TTTTGGCAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 47 0.67
44 1 0.01
45 20 0.29
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (43 bp):
TTACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAACCC
Found at i:10762863 original size:13 final size:13
Alignment explanation
Indices: 10762847--10762871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10762837 AACACATTAG
10762847 AAAATAAACACTA
1 AAAATAAACACTA
10762860 AAAATAAACACT
1 AAAATAAACACT
10762872 CCGCCTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAACACTA
Found at i:10765095 original size:12 final size:12
Alignment explanation
Indices: 10765078--10765113 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
10765068 AAGTCCGTGT
10765078 ATGCATGGAAGC
1 ATGCATGGAAGC
10765090 ATGCATGGAAGC
1 ATGCATGGAAGC
*
10765102 ATGCATGAAAGC
1 ATGCATGGAAGC
10765114 TTGCTATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (12 bp):
ATGCATGGAAGC
Found at i:10771244 original size:27 final size:27
Alignment explanation
Indices: 10771187--10771244 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
10771177 CAAACCTAGG
** *
10771187 AAAACCAAATAACTGAAAGCAGTAACC
1 AAAACCAAATAACCAAAAGCAGTAACA
*
10771214 AAAACCAAATAACCCAAAATCAGTAA-A
1 AAAACCAAATAA-CCAAAAGCAGTAACA
10771241 AAAA
1 AAAA
10771245 TAGAAGCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.62, C:0.21, G:0.07, T:0.10
Consensus pattern (27 bp):
AAAACCAAATAACCAAAAGCAGTAACA
Found at i:10771665 original size:24 final size:24
Alignment explanation
Indices: 10771632--10771679 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10771622 ACAGTCGAGT
* *
10771632 CCAACTCGACCCGTGCCACCGAAC
1 CCAACCCGACCCGTACCACCGAAC
*
10771656 CCAACCCGACCCGTATCACCGAAC
1 CCAACCCGACCCGTACCACCGAAC
10771680 TAAGTTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.50, G:0.15, T:0.08
Consensus pattern (24 bp):
CCAACCCGACCCGTACCACCGAAC
Found at i:10779412 original size:23 final size:23
Alignment explanation
Indices: 10779386--10779507 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
10779376 ATAAGTGCAA
10779386 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10779409 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10779432 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
10779455 CACTGTTATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
10779478 CACTAAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10779501 CACTGAT
1 CACTGAT
10779508 CAATAATACT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 86 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:10779453 original size:46 final size:46
Alignment explanation
Indices: 10779386--10779505 Score: 204
Period size: 46 Copynumber: 2.6 Consensus size: 46
10779376 ATAAGTGCAA
* *
10779386 CACTGATATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCGAAGCTAC
10779432 CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCGAAGCTAC
* *
10779478 CACTAAAACGTAGCCGAAGCTACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
10779506 ATCAATAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCGAAGCTAC
Found at i:10781367 original size:106 final size:106
Alignment explanation
Indices: 10781271--10781641 Score: 450
Period size: 106 Copynumber: 3.5 Consensus size: 106
10781261 AAATCCAGCG
** *** *
10781271 CGTTAGGATACGTTCTCC-CGAATTTCCAAATACAAAACATTGCCTTATTTTAAAATTTCGAAAG
1 CGTTAGGGCACGTT-TCCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTAAAACTTCGAAAG
10781335 GATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
65 GATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
*
10781377 CGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAACATTGCCTTATTTTAAAACTTCGAAAGG
1 CGTTAGGGCACGTTTCCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTAAAACTTCGAAAGG
*
10781442 ATATTCGACTATTTGGTTAAACGAGTAATCGACACCCAACA
66 ATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
* *
10781483 CGTTAGGGCACGTTTCCTCG-ATTCTCCAAACGTAAAACATTGCCTTA-TTT-AAACTT-TATTA
1 CGTTAGGGCACGTTTCCTCGAATT-TCCAAACGTAAAACATTGCCTTATTTTAAAACTTCGA-AA
** * ** ** ****
10781544 -TTTTTTTTAAAAAGGGGTTAAACGAGTAATCGACACCCAACA
64 GGATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
*
10781586 CGTTAGGGCACGTTTCCTCG-ATTCTCCAAACGTAAAATATTGCCTTATTTTGAAAA
1 CGTTAGGGCACGTTTCCTCGAATT-TCCAAACGTAAAACATTGCCTTATTTT-AAAA
10781642 TTTTATTATT
Statistics
Matches: 237, Mismatches: 22, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
103 79 0.33
104 10 0.04
105 8 0.03
106 140 0.59
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (106 bp):
CGTTAGGGCACGTTTCCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTAAAACTTCGAAAGG
ATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
Found at i:10784020 original size:44 final size:43
Alignment explanation
Indices: 10783966--10784253 Score: 324
Period size: 44 Copynumber: 6.6 Consensus size: 43
10783956 GGCTTAAATT
* * *
10783966 TGCTTCACTACTGCTTAGGAAGATGAGATTCGCCGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGA-TCGCCGTCTTCGATC
*
10784010 TGCTCCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGA-TCGCCGTCTTCGATC
* ** *
10784054 TGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTCGATC
* * * * *
10784098 CGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTCGATC
* * ** * **
10784142 TGCTCCACTACTGCTTAGGGAGATAGGACCGGTGGCTTAAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCGCCGTCTTCGATC
* * *
10784185 TGCTTCACTAATGCTTAGGAAGATAAGATTCGCCGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGA-TCGCCGTCTTCGATC
10784229 TGCTCCACTACTGCTTAGGGAGATA
1 TGCTCCACTACTGCTTAGGGAGATA
10784254 GGACTGGATA
Statistics
Matches: 208, Mismatches: 34, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
43 31 0.15
44 177 0.85
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (43 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCGCCGTCTTCGATC
Found at i:10784202 original size:43 final size:43
Alignment explanation
Indices: 10783925--10784257 Score: 209
Period size: 44 Copynumber: 7.6 Consensus size: 43
10783915 ATTCTGTCTT
* * ** *
10783925 CTCCACTACTACTTAGGGAGATAGGACTGGTGGCTTAAATTTG
1 CTCCACTACTGCTTAGGGAGATAGGACCGCCGGCTTAAATCTG
* * * * **
10783968 CTTCACTACTGCTTAGGAAGAT-GAGATTCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAG-GA-CCGCCGGCTTAAATCTG
* * * * **
10784012 CTCCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAGGA-CCGCCGGCTTAAATCTG
* ** *** ** * *
10784056 CTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACCCG
1 CTCCACTACTGCTTAGGGAGATAGGA-CCGCCGGCTTAAATCTG
** ** ** *
10784100 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGA-CCGCCGGCTTAAATCTG
**
10784144 CTCCACTACTGCTTAGGGAGATAGGACCGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAGGACCGCCGGCTTAAATCTG
* * * * * * **
10784187 CTTCACTAATGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAGGA-CCGCCGGCTTAAATCTG
10784231 CTCCACTACTGCTTAGGGAGATAGGAC
1 CTCCACTACTGCTTAGGGAGATAGGAC
10784258 TGGATAAGAT
Statistics
Matches: 237, Mismatches: 49, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
42 1 0.00
43 51 0.22
44 185 0.78
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (43 bp):
CTCCACTACTGCTTAGGGAGATAGGACCGCCGGCTTAAATCTG
Found at i:10791397 original size:12 final size:12
Alignment explanation
Indices: 10791376--10791400 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10791366 CTGTGTTAGT
10791376 CCTTGTGTTGGG
1 CCTTGTGTTGGG
10791388 CCTTGTGTTGGG
1 CCTTGTGTTGGG
10791400 C
1 C
10791401 TCCTGCCTTG
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:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (12 bp):
CCTTGTGTTGGG
Found at i:10796100 original size:106 final size:106
Alignment explanation
Indices: 10796004--10796274 Score: 420
Period size: 106 Copynumber: 2.5 Consensus size: 106
10795994 AAATCCAGCG
** ***
10796004 CGTTAGGATACGTTCTCC-CGAATTTCCAAATACAAAACATTGCCTTATTTTAAAATTTCGAAAG
1 CGTTAGGGCACGTT-TCCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTAAAATTTCGAAAG
10796068 GATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
65 GATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
* *
10796110 CGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAACATTGCCTTATTTTAAAACTTCGAAAGG
1 CGTTAGGGCACGTTTCCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTAAAATTTCGAAAGG
*
10796175 ATATTCGACTATTTGGTTAAACGAGTAATCGACACCCAACA
66 ATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
*
10796216 CGTTAGGGCACGTTTCCTCG-ATTCTCCAAACGTAAAATATTGCCTTATTTTGAAAATTT
1 CGTTAGGGCACGTTTCCTCGAATT-TCCAAACGTAAAACATTGCCTTATTTT-AAAATTT
10796275 TATTATTTTT
Statistics
Matches: 151, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
105 5 0.03
106 140 0.93
107 6 0.04
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (106 bp):
CGTTAGGGCACGTTTCCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTAAAATTTCGAAAGG
ATATTCGACTATTTCGTTAAACGAGTAATCGACACCCAACA
Found at i:10804217 original size:75 final size:75
Alignment explanation
Indices: 10804081--10804453 Score: 469
Period size: 75 Copynumber: 5.0 Consensus size: 75
10804071 TCCTTTTTCG
* * * * * * *
10804081 TTTTTCAAAAAATCAAGTTATAATCCGAGAGGTGAGTTGAGCCTCGGGTCTCATGCTGAGGTATT
1 TTTTTC-AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTATT
*
10804146 TTCAATTTTTA
65 TTCAATTTCTA
* * *
10804157 TTTTTCAAAGATCAACTCATAATTCGAGACGTGAGTTGAGCCTT-GGCTCGCACGCCGAGGTATT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAG-CTTCGGGTCGCACGCCGAGGTATT
10804221 TTCAATTTCTA
65 TTCAATTTCTA
* * *
10804232 TTTTTCAAAGATCAACTCACAATCTGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCAAGGTATTT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTATTT
10804297 TCAATTTCTA
66 TCAATTTCTA
* * * * * *
10804307 TTTTTCAAATATCAACTCATAATCCAAGAGGTGAGTTGAACTTCGGGTCGCACGTCAAGGTATTC
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTATTT
* * *
10804372 TGAATTTTTG
66 TCAATTTCTA
* * **
10804382 TTTTTCAAAGATCAACACATAATCCGAGAGGTAAGTTGAGCTTCGGGTCGCACATCGAGGTATTT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTATTT
*
10804447 TAAATTT
66 TCAATTT
10804454 AAGTCTTTTA
Statistics
Matches: 259, Mismatches: 36, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
74 3 0.01
75 248 0.96
76 8 0.03
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (75 bp):
TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTATTT
TCAATTTCTA
Found at i:10805055 original size:28 final size:29
Alignment explanation
Indices: 10805015--10805084 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
10805005 AATATACTAT
*
10805015 TTACATTTTGGCCCCCA-TTTTTTTAAAA
1 TTACATTTTGGCCCCCACTTTTTCTAAAA
*
10805043 TTACATTTTGG-CCTCACTTTTTCTAAAA
1 TTACATTTTGGCCCCCACTTTTTCTAAAA
10805071 TTACATTTTGGCCC
1 TTACATTTTGGCCC
10805085 TGAGAGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 4 0.11
28 32 0.84
29 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (29 bp):
TTACATTTTGGCCCCCACTTTTTCTAAAA
Found at i:10806104 original size:10 final size:10
Alignment explanation
Indices: 10806083--10806137 Score: 80
Period size: 10 Copynumber: 5.7 Consensus size: 10
10806073 AGGGTTAGAG
10806083 AGAAAAAG--
1 AGAAAAAGAA
10806091 AGAAAAAGAA
1 AGAAAAAGAA
10806101 AGAAAAAAGAA
1 AG-AAAAAGAA
10806112 AGAAAAAG-A
1 AGAAAAAGAA
10806121 AGAAAAAGAA
1 AGAAAAAGAA
10806131 AGAAAAA
1 AGAAAAA
10806138 AAGAATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.19
9 9 0.21
10 16 0.37
11 10 0.23
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:10806138 original size:21 final size:21
Alignment explanation
Indices: 10806087--10806155 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
10806077 TTAGAGAGAA
*
10806087 AAAGAGAAAAAGAAAGAAAAAAG
1 AAAGAAAAAAAG-AAG-AAAAAG
10806110 AAAG--AAAAAGAAGAAAAAG
1 AAAGAAAAAAAGAAGAAAAAG
*
10806129 AAAGAAAAAAAGAATAATAAA-
1 AAAGAAAAAAAGAAGAA-AAAG
10806150 AAAGAA
1 AAAGAA
10806156 CAATCGGGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 10 0.24
20 3 0.07
21 22 0.52
22 3 0.07
23 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAAAGAAGAAAAAG
Found at i:10806199 original size:24 final size:24
Alignment explanation
Indices: 10806165--10806213 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10806155 ACAATCGGGT
*
10806165 CCGACCCGACCCGTACCACTGAAC
1 CCGACCCGACCCGTACCACCGAAC
* *
10806189 CCGACCTGACCCGTATCACCGAAC
1 CCGACCCGACCCGTACCACCGAAC
10806213 C
1 C
10806214 GAGTTCAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.49, G:0.16, T:0.10
Consensus pattern (24 bp):
CCGACCCGACCCGTACCACCGAAC
Found at i:10806310 original size:30 final size:29
Alignment explanation
Indices: 10806274--10806343 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
10806264 GTCAGCCCAA
10806274 CAGCAGCAGACCAACCCAA-CAGACTCAC-TC
1 CAGCAGCAGACCAACCCAATCAG-C-C-CGTC
* *
10806304 CAGCAGCAGCCCAATCCAATCAGCCCGTC
1 CAGCAGCAGACCAACCCAATCAGCCCGTC
10806333 CAGCAGCAGAC
1 CAGCAGCAGAC
10806344 TCACTCCAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 1 0.03
29 13 0.37
30 18 0.51
31 3 0.09
ACGTcount: A:0.33, C:0.43, G:0.17, T:0.07
Consensus pattern (29 bp):
CAGCAGCAGACCAACCCAATCAGCCCGTC
Found at i:10806346 original size:46 final size:46
Alignment explanation
Indices: 10806293--10806387 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
10806283 ACCAACCCAA
10806293 CAGACTCACTCCAG-CAGCAGCCCAATCCAATCAGCCCGTCCAGCAG
1 CAGACTCACTCCAGCCA-CAGCCCAATCCAATCAGCCCGTCCAGCAG
10806339 CAGACTCACTCCAGCCACAGCCCAATCCAATCAGCCCGTCCAGCAG
1 CAGACTCACTCCAGCCACAGCCCAATCCAATCAGCCCGTCCAGCAG
10806385 CAG
1 CAG
10806388 CCCAAAGTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 46 0.96
47 2 0.04
ACGTcount: A:0.28, C:0.44, G:0.17, T:0.11
Consensus pattern (46 bp):
CAGACTCACTCCAGCCACAGCCCAATCCAATCAGCCCGTCCAGCAG
Found at i:10811321 original size:35 final size:35
Alignment explanation
Indices: 10811282--10811352 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
10811272 ATTCACTTTA
10811282 ATTAAAATTATACAGAATATAGTTCATACGAACTT
1 ATTAAAATTATACAGAATATAGTTCATACGAACTT
*
10811317 ATTAAAATTATACAGAATATAGTTCATATGAACTT
1 ATTAAAATTATACAGAATATAGTTCATACGAACTT
10811352 A
1 A
10811353 CCAGGCTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.35
Consensus pattern (35 bp):
ATTAAAATTATACAGAATATAGTTCATACGAACTT
Found at i:10818222 original size:40 final size:39
Alignment explanation
Indices: 10818163--10818300 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 39
10818153 AACACACCAG
*
10818163 TTTGACACCCAGTGCCTCATCAGATAATTCGAAGTAAAAA
1 TTTGACACCCAGTGCCTCATC-GATAATCCGAAGTAAAAA
* * * *
10818203 TTTGACACCCAGTGTCTCATCGGCTAAACCAAAGT--AAA
1 TTTGACACCCAGTGCCTCATC-GATAATCCGAAGTAAAAA
* *
10818241 -TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCG-A-TAATCCGAAGTAAAAA
*
10818281 TTTGACACCCAGTGTCTCAT
1 TTTGACACCCAGTGCCTCAT
10818301 TGACTCGAAG
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
36 1 0.01
37 18 0.23
38 12 0.15
40 31 0.39
41 17 0.22
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (39 bp):
TTTGACACCCAGTGCCTCATCGATAATCCGAAGTAAAAA
Found at i:10818902 original size:18 final size:19
Alignment explanation
Indices: 10818876--10818911 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10818866 TAAACTAGAT
*
10818876 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
10818894 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
10818912 TAATTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:10819221 original size:4 final size:4
Alignment explanation
Indices: 10819209--10819273 Score: 71
Period size: 4 Copynumber: 15.8 Consensus size: 4
10819199 TCCTTTCCTT
10819209 TTTC TTTTC TTTC TTTC TTTC TTTC -TT- TTTC TTTC TGTTTC GTTTC
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC --TTTC -TTTC
*
10819255 TATC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTT
10819274 ATTTTTTATT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
3 4 0.07
4 37 0.69
5 9 0.17
6 4 0.07
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:10819255 original size:33 final size:31
Alignment explanation
Indices: 10819209--10819269 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
10819199 TCCTTTCCTT
*
10819209 TTTCTTTTCTTTCTTTCTTTCTTTCTTTTTC
1 TTTCTTTTCTTTCTATCTTTCTTTCTTTTTC
10819240 TTTCTGTTTCGTTTCTATCTTTCTTTCTTT
1 TTTCT-TTTC-TTTCTATCTTTCTTTCTTT
10819270 CTTTATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 5 0.19
32 4 0.15
33 18 0.67
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.74
Consensus pattern (31 bp):
TTTCTTTTCTTTCTATCTTTCTTTCTTTTTC
Found at i:10819299 original size:5 final size:5
Alignment explanation
Indices: 10819291--10819319 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10819281 ATTTTATCAT
10819291 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
10819320 TACTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:10821110 original size:102 final size:102
Alignment explanation
Indices: 10820967--10821178 Score: 372
Period size: 102 Copynumber: 2.1 Consensus size: 102
10820957 CTTTATTTTC
10820967 GGGTTTTTAGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAATAA
1 GGGTTTTTAGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAATAA
*
10821032 AATTATTTTTG-CCATTGGTTTTTTATCCTCTTTGGAG
66 AATCATTTTTGCCCA-TGGTTTTTTATCCTCTTTGGAG
* * *
10821069 GGGTTTTTGGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCGTTCTTTTTCCATTATAGTAA
1 GGGTTTTTAGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAATAA
10821134 AATCATTTTTGCCCATGGTTTTTTATCCTCTTTGGAG
66 AATCATTTTTGCCCATGGTTTTTTATCCTCTTTGGAG
10821171 GGGTTTTT
1 GGGTTTTT
10821179 CCACATTAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
102 102 0.97
103 3 0.03
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (102 bp):
GGGTTTTTAGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAATAA
AATCATTTTTGCCCATGGTTTTTTATCCTCTTTGGAG
Found at i:10823569 original size:14 final size:15
Alignment explanation
Indices: 10823544--10823572 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10823534 AAAAGGAATT
10823544 AAGAACGAAAAGAAA
1 AAGAACGAAAAGAAA
10823559 AAGAA-GAAAAGAAA
1 AAGAACGAAAAGAAA
10823573 GGGAGAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAACGAAAAGAAA
Found at i:10824912 original size:21 final size:21
Alignment explanation
Indices: 10824888--10824938 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10824878 TTTGCCTAAG
* *
10824888 ATGTGAATTGGATTGAATTGA
1 ATGTAAATTGGATTAAATTGA
*
10824909 ATGTAAATTGTATTAAATTG-
1 ATGTAAATTGGATTAAATTGA
10824929 ATGTCAAATT
1 ATGT-AAATT
10824939 CATTCGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:10825425 original size:26 final size:26
Alignment explanation
Indices: 10825396--10825453 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
10825386 TCCGTTATAT
10825396 GGCTCTTCATGAGCTTCCCAATTAAA
1 GGCTCTTCATGAGCTTCCCAATTAAA
** ** *
10825422 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCATGAGCTTCCCAATTAAA
10825448 GGCTCT
1 GGCTCT
10825454 CCGGTGCTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCCAATTAAA
Found at i:10825511 original size:25 final size:25
Alignment explanation
Indices: 10825483--10825547 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
10825473 CTCGCTTGAA
10825483 CTTCCCGATATATGGCTATCCGGAG
1 CTTCCCGATATATGGCTATCCGGAG
* * *
10825508 CTTCCTGAT-TAATGGCTCTTCGGAG
1 CTTCCCGATAT-ATGGCTATCCGGAG
* *
10825533 CTACCCGTTAT-TGGC
1 CTTCCCGATATATGGC
10825548 CCGCATGAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
24 5 0.16
25 26 0.81
26 1 0.03
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (25 bp):
CTTCCCGATATATGGCTATCCGGAG
Found at i:10825582 original size:73 final size:72
Alignment explanation
Indices: 10825403--10825587 Score: 199
Period size: 73 Copynumber: 2.5 Consensus size: 72
10825393 TATGGCTCTT
* * * *
10825403 CATGAGCTTCCCAATTAAAGGCTCTTTGTGAGCTTCCTGATTAATGGCTCTCCGGTGCTACCTGA
1 CATGAGCTTCCCAATT-ATGGCTC-TTATGAGCTTCCTGATTAATGGCTCTCCGGAGCTACCCGA
*
10825468 TATGGCTCG
64 TATGGCCCG
* * * * *** * *
10825477 CTTGAACTTCCCGATATATGGCTATCCGGAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGTT
1 CATGAGCTTCCCAAT-TATGGCTCTTATGAGCTTCCTGATTAATGGCTCTCCGGAGCTACCCGAT
10825542 ATTGGCCCG
65 A-TGGCCCG
*
10825551 CATGAGCTTCCTAATTATGGCTCTTATGAGCTTCCTG
1 CATGAGCTTCCCAATTATGGCTCTTATGAGCTTCCTG
10825588 TTATACAGCC
Statistics
Matches: 88, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
73 53 0.60
74 34 0.39
75 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.33
Consensus pattern (72 bp):
CATGAGCTTCCCAATTATGGCTCTTATGAGCTTCCTGATTAATGGCTCTCCGGAGCTACCCGATA
TGGCCCG
Found at i:10831842 original size:2 final size:2
Alignment explanation
Indices: 10831837--10831888 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
10831827 CCCATATAGA
10831837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10831879 AT AT AT AT AT
1 AT AT AT AT AT
10831889 CAATATCTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10838959 original size:17 final size:17
Alignment explanation
Indices: 10838932--10838980 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
10838922 ATCCATCAAA
*
10838932 ATTTCAAAAAAAGAATT
1 ATTTCATAAAAAGAATT
*
10838949 ATTTTATAAAATA-AATT
1 ATTTCATAAAA-AGAATT
10838966 ATTTCATATAAAAGA
1 ATTTCATA-AAAAGA
10838981 TAAATGAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (17 bp):
ATTTCATAAAAAGAATT
Found at i:10842508 original size:19 final size:20
Alignment explanation
Indices: 10842468--10842518 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
10842458 AGAATGATAA
10842468 ATAATAAATAA-ATAAATATC
1 ATAAT-AATAATATAAATATC
*
10842488 ATAATAATAATATTAAT-TC
1 ATAATAATAATATAAATATC
*
10842507 ATAATACTAATA
1 ATAATAATAATA
10842519 GCAATAGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATAATAATATAAATATC
Found at i:10845461 original size:21 final size:21
Alignment explanation
Indices: 10845436--10845483 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
10845426 TTATATTTAT
10845436 ATATTAGT-AATATTTTATTTC
1 ATATTAGTCAATATTTT-TTTC
10845457 ATATT--TCAATATTTTTTTC
1 ATATTAGTCAATATTTTTTTC
*
10845476 ACATTAGT
1 ATATTAGT
10845484 GTAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 9 0.39
20 8 0.35
21 6 0.26
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.56
Consensus pattern (21 bp):
ATATTAGTCAATATTTTTTTC
Found at i:10853731 original size:23 final size:22
Alignment explanation
Indices: 10853688--10853733 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
10853678 TACAATATGG
10853688 TTATTGAATTATTCAAATATTT
1 TTATTGAATTATTCAAATATTT
*
10853710 TTATTTAAGTTATT-AAATTATTT
1 TTATTGAA-TTATTCAAA-TATTT
10853733 T
1 T
10853734 AAAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTATTGAATTATTCAAATATTT
Found at i:10854374 original size:2 final size:2
Alignment explanation
Indices: 10854367--10854393 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10854357 AGATTACTAT
10854367 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10854394 CAATCTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10855937 original size:14 final size:15
Alignment explanation
Indices: 10855920--10855958 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
10855910 TTAATTGACC
10855920 AAATTAAATTAA-AA
1 AAATTAAATTAACAA
*
10855934 AAATCAAATTAACAA
1 AAATTAAATTAACAA
10855949 AAAGTTAAAT
1 AAA-TTAAAT
10855959 AATAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.52
15 5 0.24
16 5 0.24
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (15 bp):
AAATTAAATTAACAA
Found at i:10860185 original size:12 final size:12
Alignment explanation
Indices: 10860170--10860223 Score: 62
Period size: 11 Copynumber: 4.8 Consensus size: 12
10860160 AACTAATTCT
10860170 CTCTCAAATTTC
1 CTCTCAAATTTC
*
10860182 CTCTC-AATTTG
1 CTCTCAAATTTC
10860193 CTCTCAAA-TTC
1 CTCTCAAATTTC
10860204 CT-TCAAAATTT-
1 CTCTC-AAATTTC
10860215 CTCTCAAAT
1 CTCTCAAAT
10860224 CCATATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 2 0.06
11 23 0.64
12 11 0.31
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.41
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:10860190 original size:23 final size:22
Alignment explanation
Indices: 10860164--10860223 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 22
10860154 TTCACAAACT
10860164 AATTCTCTCTCAAATTTCCTCTC-
1 AATT-TCTCTCAAATTTCCT-TCA
10860187 AATTTGCTCTCAAA-TTCCTTCAA
1 AATTT-CTCTCAAATTTCCTTC-A
10860210 AATTTCTCTCAAAT
1 AATTTCTCTCAAAT
10860224 CCATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 2 0.06
22 14 0.42
23 17 0.52
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (22 bp):
AATTTCTCTCAAATTTCCTTCA
Found at i:10860243 original size:51 final size:51
Alignment explanation
Indices: 10860185--10860282 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
10860175 AAATTTCCTC
10860185 TCAATTTGCTCTCAAATTCCTTC-AAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAAATT-CTTCTAAAATTTCTCTCAAATCCATATTTAATT
* * * *
10860236 TCAATTTGCTCTCAAGTTCTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCTTCTAAAATTTCTCTCAAATCCATATTT
10860283 TTAAATAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 4 0.10
51 38 0.90
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCTTCTAAAATTTCTCTCAAATCCATATTTAATT
Found at i:10862127 original size:18 final size:18
Alignment explanation
Indices: 10862100--10862139 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10862090 CAGGTGCGTT
* *
10862100 TCCTAGCCCTTCTATGTA
1 TCCTAACCCTTATATGTA
10862118 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
10862136 TCCT
1 TCCT
10862140 TTTCTGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:10862647 original size:25 final size:25
Alignment explanation
Indices: 10862613--10862660 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10862603 TATTTTGATA
10862613 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
10862638 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
10862661 AATTTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:10862649 original size:70 final size:70
Alignment explanation
Indices: 10862568--10862698 Score: 253
Period size: 70 Copynumber: 1.9 Consensus size: 70
10862558 TATTTTGATA
*
10862568 TTATTTTATGTAATAAAATAGAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAGAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
10862633 GAAGT
66 GAAGT
10862638 TTATTTGATGTAATAAAATAGAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
1 TTATTTGATGTAATAAAATAGAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
10862699 CATGAGCTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (70 bp):
TTATTTGATGTAATAAAATAGAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
GAAGT
Found at i:10862669 original size:25 final size:24
Alignment explanation
Indices: 10862571--10862670 Score: 84
Period size: 25 Copynumber: 4.2 Consensus size: 24
10862561 TTTGATATTA
10862571 TTTT-ATGTAATAAAATAGAAAATT
1 TTTTGATGTAATAAAATAG-AAATT
** * *
10862595 TTTTGA-GT--T-ATTTTGATATT
1 TTTTGATGTAATAAAATAGAAATT
* *
10862615 ATTTGATGTAATAAAATAGAAGTT
1 TTTTGATGTAATAAAATAGAAATT
10862639 TATTTGATGTAATAAAATAGAAAATT
1 T-TTTGATGTAATAAAATAG-AAATT
10862665 TTTTGA
1 TTTTGA
10862671 GTTATTTTGA
Statistics
Matches: 57, Mismatches: 12, Indels: 13
0.70 0.15 0.16
Matches are distributed among these distances:
20 9 0.16
21 5 0.09
22 1 0.02
23 1 0.02
24 12 0.21
25 24 0.42
26 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (24 bp):
TTTTGATGTAATAAAATAGAAATT
Found at i:10862740 original size:70 final size:70
Alignment explanation
Indices: 10862575--10862714 Score: 212
Period size: 70 Copynumber: 2.0 Consensus size: 70
10862565 ATATTATTTT
* *
10862575 ATGTAATAAAATAGAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTT
1 ATGTAATAAAATAGAAAATATTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGCTT
* *
10862640 ATTTG
66 AATTA
* *
10862645 ATGTAATAAAATAGAAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAACAT-G-AGCTT
1 ATGTAATAAAATAGAAAATATTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGCTT
10862708 AATTA
66 AATTA
10862713 AT
1 AT
10862715 TTGTACAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
68 9 0.14
69 1 0.02
70 56 0.85
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (70 bp):
ATGTAATAAAATAGAAAATATTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGCTT
AATTA
Found at i:10865938 original size:2 final size:2
Alignment explanation
Indices: 10865931--10865962 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10865921 NNNNNNNNNN
10865931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10865963 TAGCAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10865996 original size:25 final size:26
Alignment explanation
Indices: 10865945--10866006 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
10865935 ATATATATAT
*
10865945 ATATATATATATATATATTAGCAAAAC
1 ATATATATATATATATAGTAG-AAAAC
* *
10865972 ATATGTATATATATATGGTAG-AAAC
1 ATATATATATATATATAGTAGAAAAC
*
10865997 GTATATATAT
1 ATATATATAT
10866007 TTAATGTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 12 0.40
27 18 0.60
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (26 bp):
ATATATATATATATATAGTAGAAAAC
Found at i:10868982 original size:125 final size:125
Alignment explanation
Indices: 10868736--10869157 Score: 668
Period size: 125 Copynumber: 3.4 Consensus size: 125
10868726 CAAAGATGCT
*
10868736 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCTTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCTTGGTA
10868801 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * *
10868861 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAACATCTTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCTTGGT
* * * * * *
10868925 TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTTGAAATAATTT-TTTCAGGACCT
65 AGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * *
10868986 ACTGTAGCAAAAACGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCTTGGTA
10869051 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
10869111 ACTGTAGCAAAAGCGCATCCAGGAGGGCGCGATTTCACAAATTCTTC
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTC
10869158 GCGTCTACGT
Statistics
Matches: 265, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
124 41 0.15
125 183 0.69
126 41 0.15
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCTTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:10881491 original size:15 final size:16
Alignment explanation
Indices: 10881463--10881498 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
10881453 TAAAGAACAA
*
10881463 CCTGCTCAACATCATC
1 CCTGCTCAAAATCATC
10881479 CCTG-TCAAAATCATC
1 CCTGCTCAAAATCATC
10881494 CCTGC
1 CCTGC
10881499 CCTGGCTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (16 bp):
CCTGCTCAAAATCATC
Found at i:10887283 original size:6 final size:7
Alignment explanation
Indices: 10887249--10887281 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10887239 ATAAATATAT
10887249 ATTTTTA
1 ATTTTTA
10887256 ATTTTTA
1 ATTTTTA
10887263 ATTTTTA
1 ATTTTTA
10887270 ATTTTTA
1 ATTTTTA
10887277 ATTTT
1 ATTTT
10887282 AAAATACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:10892238 original size:67 final size:67
Alignment explanation
Indices: 10892130--10892261 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 67
10892120 TTTCCAATTC
* *
10892130 AGAGAGCACACTTCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
10892195 CA
66 CA
*
10892197 AGAGAGCATACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
10892262 TAATATAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:10896047 original size:42 final size:42
Alignment explanation
Indices: 10896000--10896084 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
10895990 TTAAAAACAG
10896000 ATGTTTACACAATTCAGAAGCTCAAAGCAGGGTTTGCACCTA
1 ATGTTTACACAATTCAGAAGCTCAAAGCAGGGTTTGCACCTA
10896042 ATGTTTACACAATTCAGAAGCTCAAAGCAGGGTTTGCACCTA
1 ATGTTTACACAATTCAGAAGCTCAAAGCAGGGTTTGCACCTA
10896084 A
1 A
10896085 GGCCTGAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGTTTACACAATTCAGAAGCTCAAAGCAGGGTTTGCACCTA
Found at i:10900810 original size:8 final size:8
Alignment explanation
Indices: 10900797--10900827 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
10900787 TCCTTCATCT
10900797 TCAAATTC
1 TCAAATTC
10900805 TCAAATTC
1 TCAAATTC
10900813 TCAAATTC
1 TCAAATTC
10900821 TCAAATT
1 TCAAATT
10900828 ATCTCATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (8 bp):
TCAAATTC
Found at i:10904372 original size:2 final size:2
Alignment explanation
Indices: 10904365--10904415 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
10904355 AGCCCCATAC
10904365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10904407 AT AT AT AT A
1 AT AT AT AT A
10904416 AACTTAAAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10905269 original size:13 final size:13
Alignment explanation
Indices: 10905237--10905269 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10905227 CAGTACCTTT
*
10905237 GCCCCAAGCCATC
1 GCCCCAGGCCATC
10905250 GCCCCAGGCCATC
1 GCCCCAGGCCATC
10905263 GCCCCAG
1 GCCCCAG
10905270 CGTGTAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.55, G:0.21, T:0.06
Consensus pattern (13 bp):
GCCCCAGGCCATC
Found at i:10905748 original size:110 final size:111
Alignment explanation
Indices: 10905533--10905823 Score: 386
Period size: 113 Copynumber: 2.6 Consensus size: 111
10905523 AAAACTAAGT
* * * *
10905533 CCAACGACGCCGTTTTCTAAGCTTCCGGGGGGGTTTAGCGGCGTTTTTAATAATGCGCCGCTAAT
1 CCAACGACACCGTTTTCTTAGCTTTC--GGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAAT
* * * **
10905598 GCAGGGCTTTAGCGGCGTTTTTATGGAAGCGCCG-AAAAAAATTAAAC
64 GCTGGGCTTTAGCGGCGCTTTCATAAAAGCGCCGAAAAAAAATTAAAC
* * * *
10905645 CCAACGACACCGTTTTCTTTGCTTTCGGGGGTTTAACGGCGTTTTTAGTAAAGCGTCGCTAATGC
1 CCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGC
* *
10905710 TGGGTTTTTAGCGGCGCTTTCATAAAAGCGTCGCAAAAAAAATTAAAC
66 TGGG-CTTTAGCGGCGCTTTCATAAAAGCGCCG-AAAAAAAATTAAAC
* *
10905758 CCAACGACACCGTTTTCTTAGCTTTCAGGGTTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGC
1 CCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGC
10905823 T
66 T
10905824 CAGGGATTTA
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
110 38 0.25
111 22 0.14
112 22 0.14
113 73 0.47
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (111 bp):
CCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGC
TGGGCTTTAGCGGCGCTTTCATAAAAGCGCCGAAAAAAAATTAAAC
Found at i:10905782 original size:113 final size:110
Alignment explanation
Indices: 10905494--10905823 Score: 385
Period size: 113 Copynumber: 3.0 Consensus size: 110
10905484 AAAATAAGAA
* * * ** * *
10905494 TTAGCGGCGCTTTTGC-T-AAAGCACCACAAAAAACTAAGTCCAACGACGCCGTTTTCTAAGCTT
1 TTAGCGGCGC-TTT-CATAAAAGCGCCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTT
* * *
10905557 CCGGGGGGGTTTAGCGGCGTTTTTAATAATGCGCCGCTAATGCAGGGCT
64 TC--GGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGGCT
* * ** * *
10905606 TTAGCGGCGTTTTTATGGAAGCGCCGAAAAAAATTAAACCCAACGACACCGTTTTCTTTGCTTTC
1 TTAGCGGCGCTTTCATAAAAGCGCCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTC
* * * *
10905671 GGGGGTTTAACGGCGTTTTTAGTAAAGCGTCGCTAATGCTGGGTTT
66 GGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGG-CT
10905717 TTAGCGGCGCTTTCATAAAAGCGTCGCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTT
1 TTAGCGGCGCTTTCATAAAAGCG-C-CAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTT
* *
10905782 TCAGGGTTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCT
64 TCGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCT
10905824 CAGGGATTTA
Statistics
Matches: 183, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
110 38 0.21
111 24 0.13
112 47 0.26
113 74 0.40
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (110 bp):
TTAGCGGCGCTTTCATAAAAGCGCCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTC
GGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGGCT
Found at i:10906116 original size:32 final size:31
Alignment explanation
Indices: 10906054--10906116 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
10906044 GGTTTAAGGG
* *
10906054 TTAGGTGTTATGATTTAGGGGTTAGGGGGAT
1 TTAGGGGTTATGATTTAGGGGTTAGAGGGAT
* *
10906085 TTAGGGGTTATGCTTTAAGGGGTTATAGGGAT
1 TTAGGGGTTATGATTT-AGGGGTTAGAGGGAT
10906117 ATATTTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.21, C:0.02, G:0.40, T:0.38
Consensus pattern (31 bp):
TTAGGGGTTATGATTTAGGGGTTAGAGGGAT
Found at i:10908162 original size:52 final size:52
Alignment explanation
Indices: 10908084--10908182 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
10908074 TGAAATAAGA
* *
10908084 AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTATTAATACGGT
1 AAATTCAAACTAGGGTTAAAAAAGTAAGAACATTTTTAGGTAATAATACGGT
*
10908136 AAATTCAAATTAGGGTTAAAAAAGTAAGAACATTTTTAGGTAATAAT
1 AAATTCAAACTAGGGTTAAAAAAGTAAGAACATTTTTAGGTAATAAT
10908183 TTACATAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.31
Consensus pattern (52 bp):
AAATTCAAACTAGGGTTAAAAAAGTAAGAACATTTTTAGGTAATAATACGGT
Found at i:10910409 original size:40 final size:39
Alignment explanation
Indices: 10910340--10910471 Score: 108
Period size: 40 Copynumber: 3.4 Consensus size: 39
10910330 ACCAGTTTGG
* *
10910340 CACCCAGTGCCTCATCGGAT-AATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGGTTAAACT-GAAGTAATAA-TTGA
* * *
10910380 CATCCAGTGTCTCATCGGTTAAACTGAAGT-A-AATTGG
1 CACCCAGTGCCTCATCGGTTAAACTGAAGTAATAATTGA
* * * * *
10910417 CACCCAGTGCCTGATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCG-GTTAAACTGAAGTAAT-AATTGA
*
10910458 CACCCAGTGTCTCA
1 CACCCAGTGCCTCA
10910472 CCGACTCGAA
Statistics
Matches: 72, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 17 0.24
38 12 0.17
39 1 0.01
40 22 0.31
41 20 0.28
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGTTAAACTGAAGTAATAATTGA
Found at i:10910611 original size:24 final size:24
Alignment explanation
Indices: 10910584--10910630 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10910574 CAATTACAAC
10910584 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
10910608 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
10910631 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:10911418 original size:8 final size:8
Alignment explanation
Indices: 10911405--10911436 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
10911395 AACATTAAGA
10911405 TATAATAT
1 TATAATAT
10911413 TATAATAT
1 TATAATAT
10911421 TATAATAT
1 TATAATAT
10911429 TATAATAT
1 TATAATAT
10911437 ATATTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATAT
Found at i:10914375 original size:24 final size:24
Alignment explanation
Indices: 10914343--10914396 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
10914333 AATCAATGCC
*
10914343 AAATATATTATGCTAATAAAGT-CT
1 AAATATATTATACTAATAAA-TACT
10914367 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
10914391 AAATAT
1 AAATAT
10914397 TCTAGAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:10916149 original size:113 final size:111
Alignment explanation
Indices: 10915819--10916149 Score: 459
Period size: 113 Copynumber: 3.0 Consensus size: 111
10915809 AAAATAAGAA
* * * * *
10915819 TTAGCGGCGCTTTTGCT-AAAGCGCCGC-AAAAAACTAAGCCCAACGACGCCGTTTTCTAAGCTT
1 TTAGCGGCGCTTTT-ATGAAAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTT
* * *
10915882 CCGGGGGGGTTTAGCGGCGTTTTTAATAATGCGCCGCTAATGCAGGGTT
65 TC--GGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGGTT
* * *
10915931 TTAGCGGCGTTTTTATGGAAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTTGCTTT
1 TTAGCGGCGCTTTTATGAAAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTT
* *
10915996 CGGGGGTTTAGCGGCGTTTTTAGTAAAGCGTCGCTAATGCTGGGTTT
66 CGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGG-TT
10916043 TTAGCGGCGCTTTTATGAAAGCGCCGCAAAAGAAATTAAACCCAACGACACCGTTTTCTTAGCTT
1 TTAGCGGCGCTTTTATGAAAGCGCCGCAAAA-AAATTAAACCCAACGACACCGTTTTCTTAGCTT
* * *
10916108 TCAGGGTTTTAGCGGCGTTTTTAATAAAGCGCCACTAATGCT
65 TCGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCT
10916150 CAGGGATTTA
Statistics
Matches: 194, Mismatches: 21, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
111 40 0.21
112 53 0.27
113 101 0.52
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (111 bp):
TTAGCGGCGCTTTTATGAAAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTT
CGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGGTT
Found at i:10916415 original size:31 final size:32
Alignment explanation
Indices: 10916380--10916442 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
10916370 GGTTTAAGGG
*
10916380 TTAGGTGTTATGATTT-AGGGGTTAGGGGGAT
1 TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
* *
10916411 TTAGGGGTTATGCTTTAAGGGGTTATGGGGAT
1 TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
10916443 ATATTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.19, C:0.02, G:0.41, T:0.38
Consensus pattern (32 bp):
TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
Found at i:10919059 original size:52 final size:52
Alignment explanation
Indices: 10918987--10919191 Score: 186
Period size: 52 Copynumber: 4.1 Consensus size: 52
10918977 GTATATAACT
*
10918987 TAATACATAATAACACAATACATAA-TTGGTATATAAGCTTGCATAACTTACA
1 TAATACATAATAACACAATACATAACTT-ATATATAAGCTTGCATAACTTACA
* *
10919039 TAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACA
1 TAATACATAATAACACAATACATAACTTATATATAAGCTTGCATAACTTACA
* * *
10919091 TAATA-ACT--T----C----CGTAACTTATATATAATCTGAT-AAT-ACATTACA
1 TAATACA-TAATAACACAATACATAACTTATATATAAGCT--TGCATAAC-TTACA
* *
10919134 TAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACA
1 TAATACATAATAACACAATACATAACTTATA-TATAAGCTTGCATAACTTACA
10919187 TAATA
1 TAATA
10919192 ACTTACATAA
Statistics
Matches: 124, Mismatches: 10, Indels: 37
0.73 0.06 0.22
Matches are distributed among these distances:
42 19 0.15
43 13 0.10
44 2 0.02
45 1 0.01
50 1 0.01
51 1 0.01
52 53 0.43
53 24 0.19
54 10 0.08
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (52 bp):
TAATACATAATAACACAATACATAACTTATATATAAGCTTGCATAACTTACA
Found at i:10919085 original size:21 final size:20
Alignment explanation
Indices: 10919059--10919116 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
10919049 TAACATAATA
*
10919059 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
* *
10919080 TATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
*
10919101 CGTAACTTATATATAA
1 CATAACTTATATATAA
10919117 TCTGATAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:10919138 original size:12 final size:14
Alignment explanation
Indices: 10919121--10919157 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
10919111 ATATAATCTG
10919121 ATAATACAT-T-AC
1 ATAATACATATAAC
10919133 ATAATACATAATAAC
1 ATAATACAT-ATAAC
10919148 ATAATACATA
1 ATAATACATA
10919158 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:10919143 original size:95 final size:96
Alignment explanation
Indices: 10919034--10919211 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
10919024 CTTGCATAAC
*
10919034 TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGTATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATATTATAAGCTTGCATAACTTACATAATAAC
* * *
10919098 TTCCGTAACTTATATATAATCTGATAATACA
66 TTACATAACTTACATATAATCTGATAATACA
*
10919129 TTACATAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATATTATAAGCTTGCATAACTTACATAATAAC
10919194 TTACATAACTTACATATA
66 TTACATAACTTACATATA
10919212 TTCATTTACG
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 36 0.47
96 41 0.53
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (96 bp):
TTACATAATACATAATAACATAATACATAACTTATATTATAAGCTTGCATAACTTACATAATAAC
TTACATAACTTACATATAATCTGATAATACA
Found at i:10919151 original size:8 final size:7
Alignment explanation
Indices: 10919121--10919158 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
10919111 ATATAATCTG
10919121 ATAATAC
1 ATAATAC
10919128 AT--TAC
1 ATAATAC
10919133 ATAATAC
1 ATAATAC
10919140 ATAATAAC
1 ATAAT-AC
10919148 ATAATAC
1 ATAATAC
10919155 ATAA
1 ATAA
10919159 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:10919179 original size:22 final size:21
Alignment explanation
Indices: 10919121--10919209 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 21
10919111 ATATAATCTG
10919121 ATAAT-ACATTACATAA--TAC
1 ATAATAAC-TTACATAACTTAC
*
10919140 ATAATAACATAATACATAACTTAT
1 ATAATAAC-T--TACATAACTTAC
* *
10919164 ATTATAATCTTGCATAACTTAC
1 ATAATAA-CTTACATAACTTAC
10919186 ATAATAACTTACATAACTTAC
1 ATAATAACTTACATAACTTAC
10919207 ATA
1 ATA
10919210 TATTCATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.09
20 4 0.07
21 16 0.28
22 23 0.40
24 9 0.16
25 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (21 bp):
ATAATAACTTACATAACTTAC
Found at i:10919194 original size:12 final size:12
Alignment explanation
Indices: 10919177--10919201 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10919167 ATAATCTTGC
10919177 ATAACTTACATA
1 ATAACTTACATA
10919189 ATAACTTACATA
1 ATAACTTACATA
10919201 A
1 A
10919202 CTTACATATA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:10919314 original size:92 final size:92
Alignment explanation
Indices: 10919204--10919770 Score: 1068
Period size: 92 Copynumber: 6.2 Consensus size: 92
10919194 TTACATAACT
*
10919204 TACATATATTCATTTACGTATGTAAGTTATATGTT-AATTTTATTAATAATAAATTTATAACTTA
1 TACATATATTCATTTACGTATGTAAGCTATAT-TTAAATTTTATTAATAATAAATTTATAACTTA
*
10919268 AATAAGTATTACTATTTTTTTAATATTA
65 AATAAGTATTACTATTTTTTTAATAGTA
10919296 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
*
10919361 ATAAGTATTACTATTTTTTTAATATTA
66 ATAAGTATTACTATTTTTTTAATAGTA
10919388 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
10919453 ATAAGTATTACTA-TTTTTTAATAGTA
66 ATAAGTATTACTATTTTTTTAATAGTA
10919479 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
10919544 ATAAGTATTACTATTTTTTTAATAGTA
66 ATAAGTATTACTATTTTTTTAATAGTA
10919571 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
10919636 ATAAGTATTACTATTTTTTTAATAGTA
66 ATAAGTATTACTATTTTTTTAATAGTA
10919663 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
*
10919728 ATAAGTATTACTA-TTTTTTAATATTA
66 ATAAGTATTACTATTTTTTTAATAGTA
10919754 TACATATATTCATTTAC
1 TACATATATTCATTTAC
10919771 ATAACACATA
Statistics
Matches: 470, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
91 121 0.26
92 349 0.74
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (92 bp):
TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
ATAAGTATTACTATTTTTTTAATAGTA
Found at i:10919541 original size:183 final size:184
Alignment explanation
Indices: 10919204--10919770 Score: 1077
Period size: 183 Copynumber: 3.1 Consensus size: 184
10919194 TTACATAACT
*
10919204 TACATATATTCATTTACGTATGTAAGTTATATGTT-AATTTTATTAATAATAAATTTATAACTTA
1 TACATATATTCATTTACGTATGTAAGCTATAT-TTAAATTTTATTAATAATAAATTTATAACTTA
*
10919268 AATAAGTATTACTATTTTTTTAATATTATACATATATTCATTTACGTATGTAAGCTATATTTAAA
65 AATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAA
10919333 TTTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTA
130 TTTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTA
10919388 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
10919453 ATAAGTATTACTA-TTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
66 ATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
*
10919517 TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATAGTA
131 TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTA
10919571 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
10919636 ATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
66 ATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
10919701 TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTA-TTTTTTAATATTA
131 TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTA
10919754 TACATATATTCATTTAC
1 TACATATATTCATTTAC
10919771 ATAACACATA
Statistics
Matches: 377, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
183 212 0.56
184 165 0.44
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (184 bp):
TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
ATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTA
Found at i:10919695 original size:275 final size:275
Alignment explanation
Indices: 10919204--10919770 Score: 1082
Period size: 275 Copynumber: 2.1 Consensus size: 275
10919194 TTACATAACT
*
10919204 TACATATATTCATTTACGTATGTAAGTTATATGTTAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATGTTAATTTTATTAATAATAAATTTATAACTTAA
*
10919269 ATAAGTATTACTATTTTTTTAATATTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
66 ATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
*
10919334 TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
131 TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATAGTATACATATATTC
10919399 ATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTATTAC
196 ATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTATTAC
10919464 TATTTTTTAATAGTA
261 TATTTTTTAATAGTA
10919479 TACATATATTCATTTACGTATGTAAGCTATAT-TTAAATTTTATTAATAATAAATTTATAACTTA
1 TACATATATTCATTTACGTATGTAAGCTATATGTT-AATTTTATTAATAATAAATTTATAACTTA
10919543 AATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAA
65 AATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAA
10919608 TTTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATAGTATACATATATT
130 TTTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATAGTATACATATATT
10919673 CATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTATTA
195 CATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTATTA
*
10919738 CTATTTTTTAATATTA
260 CTATTTTTTAATAGTA
10919754 TACATATATTCATTTAC
1 TACATATATTCATTTAC
10919771 ATAACACATA
Statistics
Matches: 287, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
274 2 0.01
275 285 0.99
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (275 bp):
TACATATATTCATTTACGTATGTAAGCTATATGTTAATTTTATTAATAATAAATTTATAACTTAA
ATAAGTATTACTATTTTTTTAATAGTATACATATATTCATTTACGTATGTAAGCTATATTTAAAT
TTTATTAATAATAAATTTATAACTTAAATAAGTATTACTATTTTTTTAATAGTATACATATATTC
ATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTATTAC
TATTTTTTAATAGTA
Found at i:10920129 original size:52 final size:52
Alignment explanation
Indices: 10920050--10920148 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
10920040 TGAAATAAGA
* *
10920050 AAATTCAAACTAGGGTTAAGAATGTAAGAACATTTTTAGGTATTAATACGGT
1 AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAATACGGT
* *
10920102 AAATTCAAATTAGGTTTAAGAAAGTAAGAACATTTTTAGGTAATAAT
1 AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAAT
10920149 TTACATAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAATACGGT
Found at i:10922773 original size:16 final size:16
Alignment explanation
Indices: 10922752--10922806 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
10922742 ATATATTCAT
10922752 TTACATAACACATAAC
1 TTACATAACACATAAC
10922768 TTACATAAC-C-T-AC
1 TTACATAACACATAAC
*
10922781 TTAATATAACACATAAC
1 TT-ACATAACACATAAC
10922798 TTACATAAC
1 TTACATAAC
10922807 CTACTTCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 4 0.12
14 7 0.21
15 2 0.06
16 16 0.48
17 4 0.12
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (16 bp):
TTACATAACACATAAC
Found at i:10922775 original size:9 final size:9
Alignment explanation
Indices: 10922752--10923167 Score: 106
Period size: 9 Copynumber: 48.9 Consensus size: 9
10922742 ATATATTCAT
10922752 TTACATAAC
1 TTACATAAC
10922761 --ACATAAC
1 TTACATAAC
10922768 TTACATAAC
1 TTACATAAC
* *
10922777 CTACTTAA-
1 TTACATAAC
10922785 -T--ATAAC
1 TTACATAAC
10922791 --ACATAAC
1 TTACATAAC
10922798 TTACATAAC
1 TTACATAAC
* *
10922807 CTAC-T-TC
1 TTACATAAC
* *
10922814 ATATATAAC
1 TTACATAAC
*
10922823 TTGCATAAC
1 TTACATAAC
* *
10922832 TTAAATAAG
1 TTACATAAC
*
10922841 TTACGTAA-
1 TTACATAAC
10922849 TAATACATAA-
1 T--TACATAAC
*
10922859 -TACACAAC
1 TTACATAAC
*
10922867 TTACAT-GC
1 TTACATAAC
* *
10922875 GTAAATAA-
1 TTACATAAC
* *
10922883 -TACAGAGC
1 TTACATAAC
10922891 TTACATAA-
1 TTACATAAC
*
10922899 TAATACATACC
1 T--TACATAAC
* *
10922910 CTACATAAA
1 TTACATAAC
* *
10922919 TTAAATAAG
1 TTACATAAC
10922928 TTACATAA-
1 TTACATAAC
*
10922936 TAATACATACC
1 T--TACATAAC
* *
10922947 CTACATAAA
1 TTACATAAC
* *
10922956 TTAAATAAG
1 TTACATAAC
10922965 TTACATAA-
1 TTACATAAC
*
10922973 TAATACATACC
1 T--TACATAAC
*
10922984 CTACATAAC
1 TTACATAAC
10922993 TTACATAA-
1 TTACATAAC
*
10923001 -GACATAAC
1 TTACATAAC
*
10923009 TTTCATAA-
1 TTACATAAC
*
10923017 -TACACAAC
1 TTACATAAC
**
10923025 TTACGCAAC
1 TTACATAAC
10923034 TTACATAA-
1 TTACATAAC
*
10923042 -GACATAAC
1 TTACATAAC
*
10923050 TTACAT--G
1 TTACATAAC
*
10923057 TGTAAATAA-
1 T-TACATAAC
**
10923066 -TACATATT
1 TTACATAAC
10923074 TTACATAAC
1 TTACATAAC
10923083 TTACATAA-
1 TTACATAAC
*
10923091 -GACATAAC
1 TTACATAAC
*
10923099 TTACATAAG
1 TTACATAAC
*
10923108 TTTCATAA-
1 TTACATAAC
* *
10923116 -TACACATC
1 TTACATAAC
**
10923124 TTACGCAAC
1 TTACATAAC
*
10923133 TTACACAAC
1 TTACATAAC
10923142 TTACATAAC
1 TTACATAAC
10923151 TTACATAAC
1 TTACATAAC
10923160 TTACATAA
1 TTACATAA
10923168 TGTATATCTT
Statistics
Matches: 292, Mismatches: 75, Indels: 80
0.65 0.17 0.18
Matches are distributed among these distances:
5 3 0.01
7 59 0.20
8 15 0.05
9 191 0.65
10 24 0.08
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:10922818 original size:30 final size:30
Alignment explanation
Indices: 10922756--10922818 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
10922746 ATTCATTTAC
10922756 ATAACACATAACTTACATAACCTACTTAAT
1 ATAACACATAACTTACATAACCTACTTAAT
*
10922786 ATAACACATAACTTACATAACCTACTTCAT
1 ATAACACATAACTTACATAACCTACTTAAT
10922816 ATA
1 ATA
10922819 TAACTTGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (30 bp):
ATAACACATAACTTACATAACCTACTTAAT
Found at i:10922938 original size:37 final size:37
Alignment explanation
Indices: 10922891--10923001 Score: 204
Period size: 37 Copynumber: 3.0 Consensus size: 37
10922881 AATACAGAGC
10922891 TTACATAATAATACATACCCTACATAAATTAAATAAG
1 TTACATAATAATACATACCCTACATAAATTAAATAAG
10922928 TTACATAATAATACATACCCTACATAAATTAAATAAG
1 TTACATAATAATACATACCCTACATAAATTAAATAAG
* *
10922965 TTACATAATAATACATACCCTACATAACTTACATAAG
1 TTACATAATAATACATACCCTACATAAATTAAATAAG
10923002 ACATAACTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.30
Consensus pattern (37 bp):
TTACATAATAATACATACCCTACATAAATTAAATAAG
Found at i:10923005 original size:16 final size:16
Alignment explanation
Indices: 10922986--10923107 Score: 82
Period size: 16 Copynumber: 8.0 Consensus size: 16
10922976 TACATACCCT
10922986 ACATAACTTACATAAG
1 ACATAACTTACATAAG
* *
10923002 ACATAACTTTCATAAT
1 ACATAACTTACATAAG
*
10923018 ACACAACTTAC----G
1 ACATAACTTACATAAG
10923030 -C--AACTTACATAAG
1 ACATAACTTACATAAG
**
10923043 ACATAACTTACATGTG
1 ACATAACTTACATAAG
* **
10923059 TAAATAA--TACATATTTT
1 -ACATAACTTACATA--AG
10923076 ACATAACTTACATAAG
1 ACATAACTTACATAAG
10923092 ACATAACTTACATAAG
1 ACATAACTTACATAAG
10923108 TTTCATAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
9 7 0.09
11 1 0.01
13 1 0.01
14 1 0.01
15 5 0.06
16 54 0.67
17 6 0.07
18 6 0.07
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAG
Found at i:10923034 original size:25 final size:25
Alignment explanation
Indices: 10923006--10923137 Score: 70
Period size: 25 Copynumber: 5.3 Consensus size: 25
10922996 CATAAGACAT
* *
10923006 AACTTTCATAATACACAACTTACGC
1 AACTTACATAAGACACAACTTACGC
*
10923031 AACTTACATAAGACATAACTTA--C
1 AACTTACATAAGACACAACTTACGC
** * * * ** **
10923054 ATGTGTAAATAATACATATTTTACAT
1 AACT-TACATAAGACACAACTTACGC
* **
10923080 AACTTACATAAGACATAACTTACAT
1 AACTTACATAAGACACAACTTACGC
* * * *
10923105 AAGTTTCATAATACACATCTTACGC
1 AACTTACATAAGACACAACTTACGC
10923130 AACTTACA
1 AACTTACA
10923138 CAACTTACAT
Statistics
Matches: 79, Mismatches: 25, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
23 3 0.04
24 14 0.18
25 60 0.76
26 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.31
Consensus pattern (25 bp):
AACTTACATAAGACACAACTTACGC
Done.