Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 221 of 311
Found at i:75448540 original size:61 final size:61
Alignment explanation
Indices: 75448418--75448545 Score: 139
Period size: 61 Copynumber: 2.1 Consensus size: 61
75448408 AACTATTTAA
** * *** * * **
75448418 TCCTAAATATAAAAAATTCAACAAATTTAGCCCTCAATGTTTATAGTTTTTTTTATTTTAG
1 TCCTAAATATAAAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATATTTCAACTTAG
* * *
75448479 TTCTAATTATAAAAAATTCAATAAATTTAGCCCTCAACATTTACAAAATATTTCAACTTAG
1 TCCTAAATATAAAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATATTTCAACTTAG
75448540 TCCTAA
1 TCCTAA
75448546 CTTTGAAATT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (61 bp):
TCCTAAATATAAAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATATTTCAACTTAG
Found at i:75450998 original size:17 final size:19
Alignment explanation
Indices: 75450976--75451010 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75450966 GATATGATAC
75450976 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
75450993 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
75451011 ATCCGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:75451300 original size:22 final size:21
Alignment explanation
Indices: 75451265--75451340 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
75451255 AAAAGGTATC
* *
75451265 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
75451286 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
75451309 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
75451328 TGC-AATCATATCT
1 TACAAATCATATCT
75451341 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:75451357 original size:35 final size:37
Alignment explanation
Indices: 75451294--75451372 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
75451284 ATTACAAAAT
75451294 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
75451330 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
75451365 CATATCAT
1 CATATCAT
75451373 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:75451370 original size:14 final size:15
Alignment explanation
Indices: 75451315--75451370 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
75451305 AGATTGCATA
75451315 TCATATCTAAGATTG
1 TCATATCTAAGATTG
75451330 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
75451348 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
75451365 -CATATC
1 TCATATC
75451371 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:75451380 original size:17 final size:19
Alignment explanation
Indices: 75451301--75451372 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
75451291 AATCATATCT
75451301 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
75451320 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
75451338 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
75451355 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
75451373 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:75451529 original size:21 final size:20
Alignment explanation
Indices: 75451491--75451530 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
75451481 TTGGACTTCG
**
75451491 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
75451511 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
75451531 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:75451787 original size:45 final size:45
Alignment explanation
Indices: 75451723--75451996 Score: 266
Period size: 45 Copynumber: 6.1 Consensus size: 45
75451713 GGAAGGCGAT
* * *
75451723 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGAGGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
75451768 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATGCAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * **
75451813 ATTTGCT-TCTTCAATCTGCTCATCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
75451857 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * ** * * * * *
75451902 ATCTATCATCTTGGATCTGCT-TCTATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGA-G-ATGCCAA
*
75451947 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
75451994 ATC
1 ATC
75451997 ATCCTGGATC
Statistics
Matches: 177, Mismatches: 45, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
43 4 0.02
44 42 0.24
45 101 0.57
46 1 0.01
47 19 0.11
48 6 0.03
49 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:75451888 original size:89 final size:89
Alignment explanation
Indices: 75451737--75451903 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
75451727 GCTATCTTTG
* * *
75451737 ATCTGCTCCCCGTCTAATACAGAGAGGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATGC
1 ATCTGCTCACCGTCTAATACAGAGAGGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
75451802 AAAGACGCCAAATTTGCTTCTTCA
66 AAAGACGCCAAATTTGCTTCTTCA
* * *
75451826 ATCTGCTCATCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTGCTCACCGTCTAATACAGAGAGGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
* *
75451891 AGAGATGCCAAAT
66 AAAGACGCCAAAT
75451904 CTATCATCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (89 bp):
ATCTGCTCACCGTCTAATACAGAGAGGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
AAAGACGCCAAATTTGCTTCTTCA
Found at i:75452065 original size:78 final size:78
Alignment explanation
Indices: 75451936--75452230 Score: 457
Period size: 78 Copynumber: 3.8 Consensus size: 78
75451926 ATGTAAACAC
*
75451936 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
75452001 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
75452014 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
75452078 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
75452092 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
75452157 TGGATCTGCTTTA
66 TGGATCTGCTTCA
* * * * * * **
75452170 ATGAAGGTCAAATTTGCTATGTCTTTGATCTGCTCTCCATCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
75452231 TGTTTCTTCG
Statistics
Matches: 199, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 2 0.01
78 195 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:75452440 original size:78 final size:78
Alignment explanation
Indices: 75452311--75452595 Score: 446
Period size: 78 Copynumber: 3.7 Consensus size: 78
75452301 GTGAAAGCCA
75452311 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
75452376 TCAATGAAGGTCC
66 TTAATGAAGGTCC
* * * * *
75452389 AATCTGTTATGTCTTCGATCTTCACCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTACT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
75452454 TTAATGAAGGTCA
66 TTAATGAAGGTCC
75452467 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
75452532 TTAATGAAGGT-C
66 TTAATGAAGGTCC
* * * **
75452544 AGATCTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
75452596 TGTTTCTTCG
Statistics
Matches: 188, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
77 1 0.01
78 187 0.99
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (78 bp):
AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TTAATGAAGGTCC
Found at i:75452580 original size:365 final size:365
Alignment explanation
Indices: 75451820--75452686 Score: 1326
Period size: 365 Copynumber: 2.4 Consensus size: 365
75451810 CAAATTTGCT
* * ** * * * * *
75451820 TCTTCAATCTGCTCAT-CGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGT
1 TCTTCGATCTGCTC-TCCGTCGAATATGGAGATGCCAAATCTGTT-TCTTCGATTTGTTCTCTGA
* *
75451884 CTAATACAGAGATGCCAAATCTATCATCTTGGATCTGCTTCTA-TGTAAACACATGAAGGTCAGA
64 C-AATACAGAGATGCC-AA---ATCATCTTGGATCTGCTTC-AGCGTAAACACATGAAGGTCAAA
75451948 TCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCCTGGATCTGCTTC
123 TCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCCTGGATCTGCTTC
* *
75452013 AATGAAGGTCCAATCTGTTATGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATC
188 AATGAAGGTCCAATCTGTTATGTCTTCGATCTGTACCCCGTCTAATACAAAGATGCCAAATCATC
* * *
75452078 TTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAG
253 TTGGATCTACTTCAATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAG
* *
75452143 ATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCAAATTTGCTATG
318 ATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCAAATCTACTATG
* * *
75452191 TCTTTGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTTTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
* * * * *
75452256 GTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTAT
66 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACACATGAAGGTCAAATCTGCTAT
*
75452321 GTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG
131 GTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCCTGGATCTGCTTCAATGAAGG
75452386 TCCAATCTGTTATGTCTTCGATCT-TCACCCCGTCTAATACAAAGATGCCAAATCATCTTGGATC
196 TCCAATCTGTTATGTCTTCGATCTGT-ACCCCGTCTAATACAAAGATGCCAAATCATCTTGGATC
*
75452450 TACTTTAATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
260 TACTTCAATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
75452515 ATCATCTTGGATCTGCTTTAATGAAGGTCAGATCTACTATG
325 ATCATCTTGGATCTGCTTTAATGAAGGTCAAATCTACTATG
75452556 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
* ** * *
75452621 ATATAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAAGGTCAAATCTGCTAT
66 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACACATGAAGGTCAAATCTGCTAT
75452686 G
131 G
75452687 CTTTAGCCTG
Statistics
Matches: 452, Mismatches: 41, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
364 2 0.00
365 384 0.85
368 2 0.00
369 13 0.03
370 15 0.03
371 36 0.08
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (365 bp):
TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACACATGAAGGTCAAATCTGCTAT
GTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCCTGGATCTGCTTCAATGAAGG
TCCAATCTGTTATGTCTTCGATCTGTACCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCT
ACTTCAATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
TCATCTTGGATCTGCTTTAATGAAGGTCAAATCTACTATG
Found at i:75454447 original size:23 final size:24
Alignment explanation
Indices: 75454402--75454466 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
75454392 CCATGTAAAT
*
75454402 ATTTTAATATTATATTATGTATAC
1 ATTTTAATATTATATTATATATAC
*
75454426 ATTTT-ATA-TATATCTATATATAT
1 ATTTTAATATTATAT-TATATATAC
*
75454449 ATCTTTTAATATTGTATT
1 A--TTTTAATATTATATT
75454467 TTTATTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 5 0.15
23 11 0.33
24 5 0.15
25 4 0.12
26 4 0.12
27 4 0.12
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
ATTTTAATATTATATTATATATAC
Found at i:75464017 original size:18 final size:17
Alignment explanation
Indices: 75463989--75464022 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
75463979 AGCTTTAACC
75463989 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
75464006 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
75464023 TCAAAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:75464056 original size:6 final size:6
Alignment explanation
Indices: 75464010--75464147 Score: 102
Period size: 6 Copynumber: 22.3 Consensus size: 6
75464000 AAGAAACATT
* * * * *
75464010 ATCAGA ATTAGA ATCAAA ATCAAA ATCAAA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
75464058 ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
75464108 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA AGTCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA A-TCAGA AT
75464148 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
5 6 0.06
6 83 0.78
7 14 0.13
8 3 0.03
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:75464080 original size:31 final size:31
Alignment explanation
Indices: 75464039--75464147 Score: 200
Period size: 31 Copynumber: 3.5 Consensus size: 31
75464029 TCAAAATCAA
*
75464039 AATCAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAG
75464070 AATCAAAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAG
75464101 AATCAAAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAG
75464132 AATCAAAAGTCAGAAT
1 AATCAAAA-TCAGAAT
75464148 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
31 69 0.91
32 7 0.09
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGTATCAGGTAACAG
Found at i:75464326 original size:26 final size:26
Alignment explanation
Indices: 75464284--75464356 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
75464274 GCTCAGTTAT
* *
75464284 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
75464311 CAG-TATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
75464336 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
75464357 TTAACAGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
25 4 0.10
26 32 0.82
27 3 0.08
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:75464543 original size:22 final size:21
Alignment explanation
Indices: 75464515--75464579 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
75464505 GCAAATACGT
75464515 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
75464537 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
75464559 TTGACACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
75464580 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:75465063 original size:27 final size:27
Alignment explanation
Indices: 75465007--75465200 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
75464997 GGGCAAAATG
* * * **
75465007 GTAATTTTACCCCACAA-GGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
75465033 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
75465060 GTAATTCTACCCTACAGGGGTA-TTTC
1 GTAATTCTACCCTACAAGGGTATTTTA
* **
75465086 GATAATTCTACCCTACAGGGGTA-TTGC
1 G-TAATTCTACCCTACAAGGGTATTTTA
**
75465113 GATAATTCTACCCTACAAGGGTATTTCG
1 G-TAATTCTACCCTACAAGGGTATTTTA
*
75465141 GTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTTA
*
75465168 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTTA
75465195 GTAATT
1 GTAATT
75465201 TTGTAAATCG
Statistics
Matches: 149, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.11
27 129 0.87
28 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTTA
Found at i:75465099 original size:54 final size:54
Alignment explanation
Indices: 75465007--75465200 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
75464997 GGGCAAAATG
* * * *
75465007 GTAATTTTACCCCACAA-GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
* * **
75465060 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTA-TTGC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
* *
75465113 GATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
*
75465168 GTAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
75465201 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 17 0.14
54 104 0.84
55 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
Found at i:75465200 original size:81 final size:80
Alignment explanation
Indices: 75465005--75465200 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 80
75464995 AGGGGCAAAA
* * * * *
75465005 TGGTAATTTTACCCCACAA-GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTC-GTAATTCCACCCTACAAGGGTATTTCAGTAATTCTA
*
75465069 CCCTACAGGGGTATTT
65 CCCTACAAGGGTATTT
* * * * * *
75465085 CGATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTCG-TAATTCCACCCTACAAGGGTATTTCAGTAATTCTA
75465150 CCCTACAAGGGTATTT
65 CCCTACAAGGGTATTT
75465166 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATT
1 TGGTAATTCTACCCTACAAGGGTATTTC-GTAATT
75465201 TTGTAAATCG
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 15 0.15
81 81 0.84
82 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (80 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTAC
CCTACAAGGGTATTT
Found at i:75465250 original size:27 final size:27
Alignment explanation
Indices: 75465220--75465532 Score: 313
Period size: 27 Copynumber: 11.6 Consensus size: 27
75465210 GATGGTAAAA
* * * *
75465220 TGGTAATTCTATAAATCAAGGGTACTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** *
75465247 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*** ***
75465274 CCATAATTTTACAGGTCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** * * *
75465301 CAGTAATTTAACAAATC-AGGTTTATTT
1 TGGTAATTTTACAAACCAAGG-GTATTT
* * *
75465328 TGGTAATTTTATAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
75465355 TGATAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* * *
75465382 TGGTAATTTTATAAACAAAAGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
75465409 TAGTAATTTTACAAACCAAGAGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
**
75465436 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
75465463 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
75465490 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
75465517 TAGTAATTTTACAAAC
1 TGGTAATTTTACAAAC
75465533 TAAAGTATTC
Statistics
Matches: 236, Mismatches: 48, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 3 0.01
27 231 0.98
28 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAAGGGTATTT
Found at i:75465281 original size:54 final size:52
Alignment explanation
Indices: 75465157--75465532 Score: 331
Period size: 54 Copynumber: 7.0 Consensus size: 52
75465147 CTACCCTACA
* *** * ** *
75465157 AGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTA-TAAACAAGGGTATTTTAGTAATTTTACAAA-CC
* *** * * * * *
75465211 ATGGTAAAATGGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTATAAA-CAAGGGTATTTTAGTAATTTTACAA-ACC
*** * ** * * *
75465265 AGGGTATTTCCATAATTTTACAGGTCAAGGGTATTTCAGTAATTTAACAAATC
1 AGGGTATTTTGGTAATTTTATA-AACAAGGGTATTTTAGTAATTTTACAAACC
* *
75465318 AGGTTTATTTTGGTAATTTTATAAACTAGGGGTATTTT-GATAATTTTACAAACC
1 AGG-GTATTTTGGTAATTTTATAAAC-AAGGGTATTTTAG-TAATTTTACAAACC
*
75465372 AGGGGTATTTTGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTATAAAC-AAGGGTATTTTAGTAATTTTACAAACC
* * *
75465426 AAGAGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTATAAA-CAAGGGTATTTTAGTAATTTTACAAACC
75465480 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 A-GGGTATTTTGGTAATTTTATAAA-CAAGGGTATTTTAGTAATTTTACAAAC
75465533 TAAAGTATTC
Statistics
Matches: 258, Mismatches: 53, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
53 7 0.03
54 246 0.95
55 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (52 bp):
AGGGTATTTTGGTAATTTTATAAACAAGGGTATTTTAGTAATTTTACAAACC
Found at i:75465477 original size:108 final size:108
Alignment explanation
Indices: 75465294--75465541 Score: 372
Period size: 108 Copynumber: 2.3 Consensus size: 108
75465284 ACAGGTCAAG
* * * * ** * *
75465294 GGTATTTCAGTAATTTAACAAATCAGGTTTATTTTGGTAATTTTATAAACTAGGGGTATTTTGAT
1 GGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGAT
75465359 AATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAA
66 AATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAA
* *
75465402 GGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGT
1 GGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGAT
* *
75465467 AATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
66 AATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAA
*
75465510 GGTATTTTAGTAATTTTACAAACTAA-AGTATT
1 GGTATTTTAGTAATTTTACAAACCAAGAGTATT
75465542 CTAAACAGGG
Statistics
Matches: 127, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 6 0.05
108 121 0.95
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (108 bp):
GGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGAT
AATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAA
Found at i:75467491 original size:6 final size:6
Alignment explanation
Indices: 75467482--75467622 Score: 110
Period size: 6 Copynumber: 22.8 Consensus size: 6
75467472 TATTAGAACT
*
75467482 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
75467531 AGTATC AGGTAA-C AGAATC AAAATC AGAATT AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * *
75467581 AAAATC AGAATC AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
75467623 GTGAATGCAA
Statistics
Matches: 107, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
5 7 0.07
6 84 0.79
7 12 0.11
8 4 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:75467518 original size:31 final size:31
Alignment explanation
Indices: 75467482--75467622 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
75467472 TATTAGAACT
* * *
75467482 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
75467513 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
75467544 AGAATCAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
75467575 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
75467606 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
75467623 GTGAATGCAA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:75468019 original size:22 final size:22
Alignment explanation
Indices: 75467991--75468055 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
75467981 GCAAATACGT
*
75467991 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
75468013 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
75468035 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
75468056 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:75468539 original size:27 final size:26
Alignment explanation
Indices: 75468509--75468676 Score: 212
Period size: 27 Copynumber: 6.2 Consensus size: 26
75468499 AGGTATCTCG
75468509 GTAATT-TCACCCTACAGGGGTATTTTA
1 GTAATTCT-ACCCTACAGGGGTA-TTTA
* *
75468536 GTAATTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTA
**
75468562 GATAATTCTACCCTACAGGGGTATTGC
1 G-TAATTCTACCCTACAGGGGTATTTA
75468589 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTT-A
* *
75468617 GTAATTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTA
75468643 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTT-A
75468671 GTAATT
1 GTAATT
75468677 TTGTAAATCG
Statistics
Matches: 126, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.04
27 118 0.94
28 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGGTATTTA
Found at i:75468607 original size:81 final size:81
Alignment explanation
Indices: 75468517--75468667 Score: 293
Period size: 81 Copynumber: 1.9 Consensus size: 81
75468507 CGGTAATTTC
*
75468517 ACCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGG
75468582 GTATTGCGATAATTCT
66 GTATTGCGATAATTCT
75468598 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGG
75468663 GTATT
66 GTATT
75468668 TCAGTAATTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (81 bp):
ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGG
GTATTGCGATAATTCT
Found at i:75468670 original size:54 final size:54
Alignment explanation
Indices: 75468500--75468676 Score: 252
Period size: 54 Copynumber: 3.3 Consensus size: 54
75468490 TACCCCACAA
* * * *
75468500 GGTATCTCGGTAATT-TCACCCTACAGGGGTATTT-TAGTAATTCTACCCTACAAG
1 GGTATTTCAGTAATTCT-ACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGG
*
75468554 GGTATTTC-GATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
*
75468608 GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
75468662 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
75468677 TTGTAAATCG
Statistics
Matches: 113, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
53 1 0.01
54 109 0.96
55 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (54 bp):
GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
Found at i:75468676 original size:81 final size:80
Alignment explanation
Indices: 75468500--75468677 Score: 286
Period size: 81 Copynumber: 2.2 Consensus size: 80
75468490 TACCCCACAA
* *
75468500 GGTATCTCGGTAATTTCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTC-GTAATTTCACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
75468565 AATTCTACCCTACAGG
65 AATTCTACCCTACAGG
*
75468581 GGTATTGCGATAA-TTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
1 GGTATTTCG-TAATTTC-ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
75468645 TAATTCTACCCTACAGG
64 TAATTCTACCCTACAGG
75468662 GGTATTTCAGTAATTT
1 GGTATTTC-GTAATTT
75468678 TGTAAATCGA
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
80 4 0.04
81 82 0.92
82 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (80 bp):
GGTATTTCGTAATTTCACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATA
ATTCTACCCTACAGG
Found at i:75468691 original size:27 final size:27
Alignment explanation
Indices: 75468661--75469034 Score: 152
Period size: 27 Copynumber: 13.9 Consensus size: 27
75468651 TACCCTACAG
**
75468661 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*** * * * **
75468688 GGGTAAAACGGTAATTCTATAAATTAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
75468715 GGGTGCTTT-GGTAATTTTACAAGTCGA
1 GGGT-ATTTCAGTAATTTTACAAATCGA
**
75468742 GGGTATTTCCA-TAATTTTACAGGTCGA
1 GGGTATTT-CAGTAATTTTACAAATCGA
*
75468769 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** *
75468795 GGTTTATTTTGGTAATTTTACAAA-CTA
1 GG-GTATTTCAGTAATTTTACAAATCGA
* *
75468822 GGGGTATTT-TGATAATTTTACAAA-CCA
1 -GGGTATTTCAG-TAATTTTACAAATCGA
** * *
75468849 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTCAGTAATTTTACAAATCGA
* ** * *
75468877 TGGTATTTTGGTAATTTTATAAA-CAAA
1 GGGTATTTCAGTAATTTTACAAATC-GA
* * *
75468904 AGGTATTTTAGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
** ** * *
75468931 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** * *
75468958 TGGTATTTTGGTAATTTTACGAA-CTA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * * * *
75468984 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTCAGTAATTTTACAAATCGA
*
75469012 GGGTATTTTAGTAATTTTACAAA
1 GGGTATTTCAGTAATTTTACAAA
75469035 CCAGGGGTAT
Statistics
Matches: 278, Mismatches: 55, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
26 13 0.05
27 257 0.92
28 8 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:75468703 original size:54 final size:54
Alignment explanation
Indices: 75468537--75468706 Score: 157
Period size: 54 Copynumber: 3.1 Consensus size: 54
75468527 GGTATTTTAG
* ** * ***
75468537 TAATTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTGCGA
1 TAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACAATACAAGGGTAAAACGA
** ***
75468591 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAATACAAGGGTAAAACGA
* * *
75468645 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTGTA-AAT-CGAGGGTAAAACGG
1 TAATTCTACCCTACAGGGGTATTTCAGTAA--TTCTACAATACAAGGGTAAAACGA
75468699 TAATTCTA
1 TAATTCTA
75468707 TAAATTAAGG
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
54 96 0.94
55 2 0.02
56 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAATACAAGGGTAAAACGA
Found at i:75469035 original size:27 final size:27
Alignment explanation
Indices: 75468721--75469052 Score: 333
Period size: 27 Copynumber: 12.3 Consensus size: 27
75468711 TTAAGGGTGC
** *
75468721 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*** *** *
75468748 TTCCATAATTTTACAGGTCGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
** * * *
75468775 TTCAGTAATTTCACAAATC-AGGTTTAT
1 TTTGGTAATTTTACAAACCAAGG-GTAT
* *
75468802 TTTGGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
75468829 TTTGATAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
75468856 TTTGGTAATTTTACAAACCAATGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * *
75468883 TTTGGTAATTTTATAAACAAAAGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
75468910 TTTAGTAATTTTACAAATCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
** *
75468937 TTTGGTAATTTTGTAAACCAATGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * *
75468964 TTTGGTAATTTTACGAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
75468991 TTTGGTGATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
75469018 TTTAGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
75469045 TTTGGTAA
1 TTTGGTAA
75469053 ATTGGTAAAC
Statistics
Matches: 252, Mismatches: 51, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 3 0.01
27 247 0.98
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACCAAGGGTAT
Found at i:75473623 original size:44 final size:44
Alignment explanation
Indices: 75473564--75474042 Score: 623
Period size: 44 Copynumber: 11.1 Consensus size: 44
75473554 AATCCAAGAT
* *
75473564 GATTTGGCGTTTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
75473608 GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
75473652 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
75473696 GATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
75473740 GATTTGGCATCT-T-T------GTAGAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** * *
75473776 GATTTGGCGTCTCTGTAGTGGTAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
75473820 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
75473864 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
75473908 GATTTGGCGTCTTTATGGTGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
75473952 TATTAGACGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATGACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** ** * *
75473996 GATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCAAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
75474040 GAT
1 GAT
75474043 CGGTGTTCCT
Statistics
Matches: 379, Mismatches: 48, Indels: 16
0.86 0.11 0.04
Matches are distributed among these distances:
36 31 0.08
37 1 0.00
38 1 0.00
42 1 0.00
43 1 0.00
44 344 0.91
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:75473770 original size:36 final size:36
Alignment explanation
Indices: 75473720--75473793 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
75473710 GTAGCGGCGG
*
75473720 AGAGCAGATCGAAGATAACAGATTTGGCATCTTTGT
1 AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
* *
75473756 AGAGCAGATTGAAGATAACAGATTTGGCGTCTCTGT
1 AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
75473792 AG
1 AG
75473794 TGGTAGAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (36 bp):
AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
Found at i:75475489 original size:39 final size:39
Alignment explanation
Indices: 75475436--75475514 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
75475426 AAATATGGTT
*
75475436 TTAATTAATAATAAAACAAAGTGGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
75475475 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
75475514 T
1 T
75475515 CAACTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
Found at i:75485413 original size:17 final size:18
Alignment explanation
Indices: 75485391--75485425 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
75485381 GATATGATAC
*
75485391 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
75485408 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
75485426 ATGGGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:75485748 original size:35 final size:37
Alignment explanation
Indices: 75485692--75485763 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 37
75485682 AAATTAAATC
75485692 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCATA
75485729 TCTAAGATTG-TATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGATATCATATCTAAGATTGCATATCAT
75485764 TGAAGATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 19 0.56
36 5 0.15
37 10 0.29
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCATA
Found at i:75485761 original size:14 final size:15
Alignment explanation
Indices: 75485706--75485761 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
75485696 AGATTGCATA
75485706 TCATATCTAAGATTG
1 TCATATCTAAGATTG
75485721 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
75485739 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
75485756 -CATATC
1 TCATATC
75485762 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:75485771 original size:17 final size:19
Alignment explanation
Indices: 75485692--75485763 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
75485682 AAATTAAATC
75485692 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
75485711 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
75485729 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
75485746 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
75485764 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:75485919 original size:21 final size:20
Alignment explanation
Indices: 75485882--75485920 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
75485872 TTGGACTTCG
**
75485882 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
75485902 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
75485921 TCTGGGCTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:75488750 original size:46 final size:45
Alignment explanation
Indices: 75488684--75488780 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 45
75488674 TGTAACCCGC
* *
75488684 CCATAAGCAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
75488729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAG-CAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
75488775 CCATAA
1 CCATAA
75488781 CTAGTTACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 7 0.15
46 40 0.85
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGCAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:75495324 original size:46 final size:46
Alignment explanation
Indices: 75495257--75495349 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
75495247 TGTAACCCGC
* *
75495257 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
75495303 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
75495349 C
1 C
75495350 ATCAACTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:75500593 original size:19 final size:18
Alignment explanation
Indices: 75500566--75500626 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
75500556 GTAAGGATTA
*
75500566 ATTTTATTTTTTTAATATT
1 ATTTAATTTTTTTAAT-TT
*
75500585 ATTTAATTTTTATAATTT
1 ATTTAATTTTTTTAATTT
*
75500603 AATTAATATTTTTATAATTT
1 ATTTAAT-TTTTT-TAATTT
75500623 -TTTA
1 ATTTA
75500627 TAATAGCCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 8 0.23
19 21 0.60
20 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTAATTTTTTTAATTT
Found at i:75500594 original size:18 final size:17
Alignment explanation
Indices: 75500568--75500616 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
75500558 AAGGATTAAT
*
75500568 TTTATTTTTTTAATATTA
1 TTTAATTTTTTAAT-TTA
75500586 TTTAATTTTTATAATTTA
1 TTTAATTTTT-TAATTTA
*
75500604 ATTAATATTTTTA
1 TTTAAT-TTTTTA
75500617 TAATTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATTTTTTAATTTA
Found at i:75503249 original size:92 final size:92
Alignment explanation
Indices: 75503090--75503274 Score: 307
Period size: 92 Copynumber: 2.0 Consensus size: 92
75503080 CTCTTGTGCT
* * *
75503090 TATTTTAATGTATGACTTTAGTATGTGTTGGGTTGTTATTTGCATGAAAATGATGATTGGTAGCT
1 TATTTTAATGTATGACTTGAGTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
* *
75503155 AAATTTATGGTGGTTGGTTGATGAAAG
66 AAATTTATAGTGGCTGGTTGATGAAAG
*
75503182 TATTTTAATGTATGACTTGATTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
1 TATTTTAATGTATGACTTGAGTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
*
75503247 AAATTTATAGTGGCTGGTTGATGGAAG
66 AAATTTATAGTGGCTGGTTGATGAAAG
75503274 T
1 T
75503275 GTTGTTTGGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.43
Consensus pattern (92 bp):
TATTTTAATGTATGACTTGAGTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
AAATTTATAGTGGCTGGTTGATGAAAG
Found at i:75505374 original size:30 final size:30
Alignment explanation
Indices: 75505331--75505397 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
75505321 TAACAAGTGA
* * *
75505331 CACACGGCCGTGTAGCCAGGCCATGTGTGT
1 CACACGACAGTGTAGCCAGGCCATATGTGT
*
75505361 CACACGACAGTGTAGCCAGGCCGTATGTGT
1 CACACGACAGTGTAGCCAGGCCATATGTGT
*
75505391 AACACGA
1 CACACGA
75505398 TCGTGTGCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.18
Consensus pattern (30 bp):
CACACGACAGTGTAGCCAGGCCATATGTGT
Found at i:75507679 original size:10 final size:10
Alignment explanation
Indices: 75507666--75507713 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
75507656 TTATTTTCAT
75507666 TTATCTTTAA
1 TTATCTTTAA
75507676 TTATCTTTAA
1 TTATCTTTAA
*
75507686 TTATCTTTAT
1 TTATCTTTAA
*
75507696 TTAT-TTGTAT
1 TTATCTT-TAA
75507706 TTATCTTT
1 TTATCTTT
75507714 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:75514142 original size:18 final size:15
Alignment explanation
Indices: 75514115--75514155 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
75514105 AACCCAATTT
75514115 TTATTT-TTATTTTA
1 TTATTTATTATTTTA
*
75514129 -T-CTTATTATTTTA
1 TTATTTATTATTTTA
75514142 TTATTTATTATTTT
1 TTATTTATTATTTT
75514156 CAGATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.09
13 9 0.41
14 1 0.05
15 10 0.45
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTATTTTA
Found at i:75515068 original size:96 final size:97
Alignment explanation
Indices: 75514900--75515086 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 97
75514890 TAATTTTTAA
* * *
75514900 GAATGTGTTGGGCTGAGTAACTGGGGTGAGGTGCTTGACTGTCATCTCTCTTCGCGTCAAAAGGT
1 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGACTATCATCTCTCTTCACGTCAAAAGGT
* *
75514965 TCGATATATTCTTAAG-AAAAATAAAAATTAC
66 TCAATATATTCCTAAGTAAAAATAAAAATTAC
* * *
75514996 GAATGTGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGT
1 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGACTATCATCTCTCTTCACGTCAAAAGGT
75515061 TCAATATATTCCTAAGTAAAAATAAA
66 TCAATATATTCCTAAGTAAAAATAAA
75515087 TAAATAGAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 73 0.89
97 9 0.11
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (97 bp):
GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGACTATCATCTCTCTTCACGTCAAAAGGT
TCAATATATTCCTAAGTAAAAATAAAAATTAC
Found at i:75515767 original size:10 final size:10
Alignment explanation
Indices: 75515749--75515793 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
75515739 AATTCTAGGA
75515749 TTTATTTATC
1 TTTATTTATC
*
75515759 TTTAATTATC
1 TTTATTTATC
75515769 TTTATTTAT-
1 TTTATTTATC
75515778 TTGTATTTATC
1 TT-TATTTATC
75515789 ATTTA
1 -TTTA
75515794 GAATGTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.07
10 24 0.80
11 2 0.07
12 2 0.07
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATTTATC
Found at i:75524233 original size:20 final size:19
Alignment explanation
Indices: 75524208--75524254 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
75524198 TTTATATTTT
* *
75524208 TAAAAAAATATTAATTACTA
1 TAAAAAAATATT-AGTACAA
*
75524228 TAAAAAATTATTAGTACAA
1 TAAAAAAATATTAGTACAA
75524247 TAAAAAAA
1 TAAAAAAA
75524255 ATTCTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAAAATATTAGTACAA
Found at i:75529603 original size:3 final size:3
Alignment explanation
Indices: 75529597--75529655 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
75529587 TTCTAAGATT
* ** *
75529597 TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
75529640 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
75529656 GGTTTCATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:75529657 original size:36 final size:37
Alignment explanation
Indices: 75529597--75529685 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
75529587 TTCTAAGATT
*
75529597 TTATTATTATTAATTATTAGTATGGTTTTATATTAAA
1 TTATTATTATTAATTATTAGTATGGTTTCATATTAAA
* *
75529634 TTATTATTATT-ATTATTATTATGGTTTCATATTAAG
1 TTATTATTATTAATTATTAGTATGGTTTCATATTAAA
*
75529670 TTATAATTATTTAATT
1 TTATTATTA-TTAATT
75529686 GGTATTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 30 0.65
37 13 0.28
38 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (37 bp):
TTATTATTATTAATTATTAGTATGGTTTCATATTAAA
Found at i:75530186 original size:22 final size:21
Alignment explanation
Indices: 75530148--75530188 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
75530138 TAAACAAAGT
**
75530148 AAATAAAAGAATGAAAGAATG
1 AAATAAAAGAAACAAAGAATG
75530169 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
75530189 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:75531149 original size:21 final size:21
Alignment explanation
Indices: 75531089--75531149 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
75531079 AGACACTTTA
75531089 TGTGTCGTATTTTAAGCACCTCG
1 TGTGTCG--TTTTAAGCACCTCG
* *
75531112 TGTGTCGTATCAAGCACCTCG
1 TGTGTCGTTTTAAGCACCTCG
*
75531133 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAAGCAC
75531150 TTTATGTGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 26 0.79
23 7 0.21
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (21 bp):
TGTGTCGTTTTAAGCACCTCG
Found at i:75532813 original size:40 final size:36
Alignment explanation
Indices: 75532717--75532879 Score: 95
Period size: 35 Copynumber: 4.5 Consensus size: 36
75532707 TAGTATTGAA
75532717 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
* * * *
75532753 T-TGCA-CCCAG-TGCTATTTGGATATACTGATGATAATAAT
1 TGTG-AGCCCAGCT-CTAGTTGGATAAAC-CA--ACAAT-AT
* ** *
75532792 TGTGAGCCCAGCTCTAGTTGGATGAACCAACGGTGT
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
* * * * *
75532828 T-TGTGCCCAGCGCTAGTCGGATAAATCGAC-A-AT
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
* *
75532861 TGTGTGCCCAGCACTAGTT
1 TGTGAGCCCAGCTCTAGTT
75532880 AGACAAGTTG
Statistics
Matches: 95, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
33 2 0.02
34 16 0.17
35 42 0.44
36 5 0.05
37 2 0.02
38 4 0.04
39 5 0.05
40 18 0.19
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (36 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
Found at i:75536549 original size:46 final size:44
Alignment explanation
Indices: 75536463--75536583 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 44
75536453 ACATGTTCGT
*
75536463 GCCGATGCCATGTCCCAGACATGGTATTACATTGACACATCTC-ACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGACACATCTCGA-A
*
75536509 GCCGATGCATGTCCCAGACATGTCTTACATTCG-CTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATT-GAC--ACATCTCGAA
*
75536555 GCCGATGCATGTCCTAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
75536584 CTAGCTCTCG
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 10 0.15
45 15 0.22
46 42 0.62
47 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGACACATCTCGAA
Found at i:75537124 original size:16 final size:17
Alignment explanation
Indices: 75537093--75537125 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
75537083 TTCATAAGTA
75537093 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
75537110 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
75537126 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:75537477 original size:46 final size:46
Alignment explanation
Indices: 75537423--75537640 Score: 339
Period size: 46 Copynumber: 4.7 Consensus size: 46
75537413 TGTCATAGTG
* * * *
75537423 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
* ** *
75537469 TATTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
75537515 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
75537561 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
75537607 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
75537641 AGAGCACACT
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 157 0.98
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:75542384 original size:27 final size:28
Alignment explanation
Indices: 75542342--75542396 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
75542332 AAAACAAAGG
75542342 GTGGTTTTTTTTATAACCCGAAAGAGCA
1 GTGGTTTTTTTTATAACCCGAAAGAGCA
75542370 GTGG-TTTTTTTATAACCCGAAAGAGCA
1 GTGGTTTTTTTTATAACCCGAAAGAGCA
75542397 AACTGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (28 bp):
GTGGTTTTTTTTATAACCCGAAAGAGCA
Found at i:75543757 original size:24 final size:24
Alignment explanation
Indices: 75543730--75543782 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
75543720 AAAGGAGATC
75543730 TTACTCTTATAAGATATAATGGTT
1 TTACTCTTATAAGATATAATGGTT
75543754 TTACTCTTATAAGATATAATGGTT
1 TTACTCTTATAAGATATAATGGTT
75543778 TTACT
1 TTACT
75543783 TCCAAACGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (24 bp):
TTACTCTTATAAGATATAATGGTT
Found at i:75545395 original size:12 final size:12
Alignment explanation
Indices: 75545378--75545402 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75545368 TAGGTTTCCA
75545378 AAAATGGAAATG
1 AAAATGGAAATG
75545390 AAAATGGAAATG
1 AAAATGGAAATG
75545402 A
1 A
75545403 TCCATTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:75549528 original size:23 final size:24
Alignment explanation
Indices: 75549484--75549528 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
75549474 ATATGAATTC
*
75549484 AATATGCTATTGAATGATAATTGA
1 AATATGCTATTGAATCATAATTGA
75549508 AATA-GCTAATTGAATCA-AATT
1 AATATGCT-ATTGAATCATAATT
75549529 ATGATTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (24 bp):
AATATGCTATTGAATCATAATTGA
Found at i:75551773 original size:46 final size:46
Alignment explanation
Indices: 75551454--75551773 Score: 462
Period size: 46 Copynumber: 7.0 Consensus size: 46
75551444 TTTGACATGA
* * * * * * *
75551454 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
75551500 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
** * *
75551546 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
75551592 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
75551638 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
75551684 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
75551730 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
75551774 AGAGCACACT
Statistics
Matches: 261, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 4 0.02
46 257 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:75553731 original size:21 final size:21
Alignment explanation
Indices: 75553701--75553741 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75553691 ACATCTTTGA
*
75553701 TTTTCCCTTTTTTTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
75553722 TTTTCTCTTTTTCTTTCTTT
1 TTTTCCCTTTTTCTTTCTTT
75553742 TCTCTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:75553734 original size:17 final size:17
Alignment explanation
Indices: 75553712--75553758 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
75553702 TTTCCCTTTT
75553712 TTTTTCTTTCTTTTCTC
1 TTTTTCTTTCTTTTCTC
75553729 TTTTTCTTTCTTTTCTC
1 TTTTTCTTTCTTTTCTC
*
75553746 TTTTTCTCTCTTT
1 TTTTTCTTTCTTT
75553759 CCTTCCCCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTCTTTTCTC
Found at i:75553735 original size:8 final size:8
Alignment explanation
Indices: 75553712--75553759 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
75553702 TTTCCCTTTT
*
75553712 TTTTTCTT
1 TTTTTCTC
75553720 TCTTTTCTC
1 T-TTTTCTC
*
75553729 TTTTTCTT
1 TTTTTCTC
75553737 TCTTTTCTC
1 T-TTTTCTC
75553746 TTTTTCTC
1 TTTTTCTC
*
75553754 TCTTTC
1 TTTTTC
75553760 CTTCCCCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 20 0.59
9 14 0.41
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCTC
Found at i:75553755 original size:27 final size:27
Alignment explanation
Indices: 75553707--75553758 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
75553697 TTGATTTTCC
* *
75553707 CTTTTTTTTTCTTTCTTTTCTCTTTTT
1 CTTTTTTTCTCTTTCTTCTCTCTTTTT
75553734 CTTTCTTTTCTCTTT-TTCTCTCTTT
1 CTTT-TTTTCTCTTTCTTCTCTCTTT
75553759 CCTTCCCCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (27 bp):
CTTTTTTTCTCTTTCTTCTCTCTTTTT
Found at i:75553832 original size:12 final size:12
Alignment explanation
Indices: 75553815--75553840 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75553805 CCTTTATTTC
75553815 TTTTTTCCTTTT
1 TTTTTTCCTTTT
75553827 TTTTTTCCTTTT
1 TTTTTTCCTTTT
75553839 TT
1 TT
75553841 ATATATACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCCTTTT
Found at i:75557503 original size:3 final size:3
Alignment explanation
Indices: 75557495--75557523 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
75557485 AATCAACACC
75557495 CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
75557524 TGTACAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:75561440 original size:28 final size:28
Alignment explanation
Indices: 75561408--75561490 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
75561398 AGTTTATATA
75561408 TATGATTTGACTACTTTATAATAACATG
1 TATGATTTGACTACTTTATAATAACATG
* * * *
75561436 TATGA--T-A-T-CTGTAT-ATGAGA-A
1 TATGATTTGACTACTTTATAATAACATG
*
75561457 TATGATTTGACTACTTTGTAATAACATG
1 TATGATTTGACTACTTTATAATAACATG
75561485 TATGAT
1 TATGAT
75561491 ATCTGTATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
21 5 0.13
22 4 0.10
23 6 0.15
24 2 0.05
25 2 0.05
26 5 0.13
27 4 0.10
28 11 0.28
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.42
Consensus pattern (28 bp):
TATGATTTGACTACTTTATAATAACATG
Found at i:75561470 original size:49 final size:49
Alignment explanation
Indices: 75561407--75561503 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
75561397 AAGTTTATAT
75561407 ATATGATTTGACTACTTTATAATAACATGTATGATATCTGTATATGAGA
1 ATATGATTTGACTACTTTATAATAACATGTATGATATCTGTATATGAGA
*
75561456 ATATGATTTGACTACTTTGTAATAACATGTATGATATCTGTATATGAG
1 ATATGATTTGACTACTTTATAATAACATGTATGATATCTGTATATGAG
75561504 TATGCGGGAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.41
Consensus pattern (49 bp):
ATATGATTTGACTACTTTATAATAACATGTATGATATCTGTATATGAGA
Found at i:75562119 original size:23 final size:23
Alignment explanation
Indices: 75562075--75562119 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
75562065 TCCAGACTTT
*
75562075 TTGATTTCTTTTGATTTTTGTTG
1 TTGATTTCTTTTGATTTATGTTG
*
75562098 TTGACTTTGTTTTGA-TTATGTT
1 TTGA-TTTCTTTTGATTTATGTT
75562120 TTATGCGACG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.18, T:0.67
Consensus pattern (23 bp):
TTGATTTCTTTTGATTTATGTTG
Found at i:75562556 original size:44 final size:44
Alignment explanation
Indices: 75562493--75562576 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
75562483 GTTCTTTGTG
* *
75562493 ATGAATTTAAAGGCGAGAGATCTTATCTTTAGATACAAAATTAA
1 ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAATTAA
75562537 ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAA
1 ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAA
75562577 GTAGTGTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (44 bp):
ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAATTAA
Found at i:75570226 original size:20 final size:20
Alignment explanation
Indices: 75570203--75570267 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
75570193 TAAATACTAG
75570203 TTATTAATATTTATTAGTAT
1 TTATTAATATTTATTAGTAT
* *
75570223 TTATTTATAATTAATTA-TAT
1 TTATTAAT-ATTTATTAGTAT
* * *
75570243 TTAAATAA-AATTATTTGTAT
1 TT-ATTAATATTTATTAGTAT
75570263 TTATT
1 TTATT
75570268 TTTAAATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
19 7 0.21
20 17 0.50
21 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTATTAATATTTATTAGTAT
Found at i:75579569 original size:26 final size:26
Alignment explanation
Indices: 75579540--75579592 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
75579530 ACCCTATAAC
75579540 TTAGTGCCTAATATTTAGCTTACTAA
1 TTAGTGCCTAATATTTAGCTTACTAA
75579566 TTAGTGCCTAATATTTAGCTTACTAA
1 TTAGTGCCTAATATTTAGCTTACTAA
75579592 T
1 T
75579593 AGCATTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (26 bp):
TTAGTGCCTAATATTTAGCTTACTAA
Found at i:75586552 original size:30 final size:29
Alignment explanation
Indices: 75586518--75586589 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
75586508 ATACATATTT
75586518 AATTATTTATATATATTTAGTCATATAAGA
1 AATTATTTATATA-ATTTAGTCATATAAGA
* * * * *
75586548 AATTATTAATATAATTTATTCTTTTAATA
1 AATTATTTATATAATTTAGTCATATAAGA
75586577 AATTATTTGATAT
1 AATTATTT-ATAT
75586590 TTTAATTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (29 bp):
AATTATTTATATAATTTAGTCATATAAGA
Found at i:75586615 original size:13 final size:14
Alignment explanation
Indices: 75586599--75586640 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
75586589 TTTTAATTTT
75586599 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
75586612 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
75586627 ATTTTAAATAATAT
1 ATTTT-AATAATAT
75586641 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:75586625 original size:16 final size:16
Alignment explanation
Indices: 75586603--75586639 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
75586593 AATTTTATTT
75586603 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
75586620 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
75586635 TAATA
1 TAATA
75586640 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:75588130 original size:12 final size:13
Alignment explanation
Indices: 75588115--75588143 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
75588105 TTAAATATAT
75588115 ATATAAAAAA-TA
1 ATATAAAAAATTA
75588127 ATATAAAAAATTA
1 ATATAAAAAATTA
75588140 ATAT
1 ATAT
75588144 GAACAGATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:75593704 original size:13 final size:14
Alignment explanation
Indices: 75593688--75593723 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
75593678 CAATCTCATA
75593688 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
75593701 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
75593714 TCTC-ATTTCA
1 TCTCAATTTCA
75593724 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:75593713 original size:18 final size:19
Alignment explanation
Indices: 75593675--75593715 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
75593665 TGGTTCATGT
75593675 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
75593694 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
75593712 TTTC
1 TTTC
75593716 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:75593874 original size:25 final size:23
Alignment explanation
Indices: 75593820--75593877 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
75593810 GTGGATTCCT
*
75593820 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAAAATATCCAA
75593843 CCCAAACACACCAAAATATCCAA
1 CCCAAACACACCAAAATATCCAA
*
75593866 CCCAAAAACACC
1 CCCAAACACACC
75593878 CGGAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.50, C:0.41, G:0.02, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAAAATATCCAA
Found at i:75594399 original size:15 final size:15
Alignment explanation
Indices: 75594379--75594425 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
75594369 TAATATATAT
75594379 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
75594394 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
75594409 TTCAATCAATATAAA
1 TTCAATCAATATAAA
75594424 TT
1 TT
75594426 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:75595726 original size:13 final size:13
Alignment explanation
Indices: 75595708--75595739 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
75595698 TTTTATTTCA
75595708 TTTATTTCTTTAT
1 TTTATTTCTTTAT
75595721 TTTATTTCTTTAT
1 TTTATTTCTTTAT
75595734 TTTATT
1 TTTATT
75595740 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:75598842 original size:5 final size:5
Alignment explanation
Indices: 75598832--75598857 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
75598822 TAATTGTGAA
75598832 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
75598858 TAGAACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:75613668 original size:43 final size:42
Alignment explanation
Indices: 75613556--75613689 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 42
75613546 ACTGATGGAA
* *
75613556 TATACTGGCACACATAGTGCATTATC-GGATAAACCGAAGAAA
1 TATACTGGCACACATAGTGCATTATCAGG-TAAGCCGAAGAAT
* * * * *
75613598 TATATTGGCATACATAATGCATCATCAGGTAAGCCAAAGCAAT
1 TATACTGGCACACATAGTGCATTATCAGGTAAGCCGAAG-AAT
* * **
75613641 TATACTGGCACAGACAGTGCATTATCAGACAAGCCGAAGTAAT
1 TATACTGGCACACATAGTGCATTATCAGGTAAGCCGAAG-AAT
75613684 TATACT
1 TATACT
75613690 AACATACACA
Statistics
Matches: 73, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
42 30 0.41
43 43 0.59
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (42 bp):
TATACTGGCACACATAGTGCATTATCAGGTAAGCCGAAGAAT
Found at i:75616945 original size:15 final size:15
Alignment explanation
Indices: 75616925--75616981 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
75616915 ATTCAATATT
75616925 AATATTTTAATAATA
1 AATATTTTAATAATA
*
75616940 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
75616959 AATATATTAATAATA
1 AATATTTTAATAATA
*
75616974 AATGTTTT
1 AATATTTT
75616982 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:75619445 original size:14 final size:16
Alignment explanation
Indices: 75619426--75619464 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
75619416 AAGAAAATGA
*
75619426 TGATATATGACA-A-G
1 TGATATATGAAATATG
75619440 TGATATATGAAATATG
1 TGATATATGAAATATG
75619456 TGATATATG
1 TGATATATG
75619465 TTATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (16 bp):
TGATATATGAAATATG
Found at i:75619896 original size:51 final size:49
Alignment explanation
Indices: 75619768--75619905 Score: 195
Period size: 49 Copynumber: 2.8 Consensus size: 49
75619758 TATTGTGAGG
* * * * *
75619768 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
* *
75619817 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGA
75619868 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
75619906 TAGATAGCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 39 0.50
50 1 0.01
51 38 0.49
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
Found at i:75621516 original size:31 final size:32
Alignment explanation
Indices: 75621475--75621538 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
75621465 TCTCAGCTTA
75621475 AAATCTATTAATTTAACAC-CTAAAACTTTAAG
1 AAATCTATTAATTTAA-ACTCTAAAACTTTAAG
75621507 AAAT-TATTAATTTAAACTTTCTAAAACTTTAA
1 AAATCTATTAATTTAAAC--TCTAAAACTTTAA
75621539 CAGTTTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 2 0.07
31 11 0.38
32 4 0.14
33 12 0.41
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (32 bp):
AAATCTATTAATTTAAACTCTAAAACTTTAAG
Found at i:75622626 original size:32 final size:31
Alignment explanation
Indices: 75622584--75622662 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
75622574 CAAGTATACT
* * *
75622584 TTTTTTGACAATTTTAAGTACCAACTATGTA
1 TTTTTGGACAAGTTTAAGTACCAACTAGGTA
* *
75622615 CTTTTTGGACAAGTTCAAGTACCAGCTAGGTA
1 -TTTTTGGACAAGTTTAAGTACCAACTAGGTA
*
75622647 TTTTTGTACAAGTTTA
1 TTTTTGGACAAGTTTA
75622663 GGGGGCAAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 14 0.35
32 26 0.65
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (31 bp):
TTTTTGGACAAGTTTAAGTACCAACTAGGTA
Found at i:75624399 original size:25 final size:27
Alignment explanation
Indices: 75624354--75624404 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
75624344 ATAGTAAGTT
*
75624354 TTATTATAAAAAATAGCAAATTAAATCA
1 TTATTATAAAAAATA-CAAATGAAATCA
75624382 TTATT-TAAAAAATA-AAATGAAAT
1 TTATTATAAAAAATACAAATGAAAT
75624405 TTAGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
27 9 0.41
28 5 0.23
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (27 bp):
TTATTATAAAAAATACAAATGAAATCA
Found at i:75625593 original size:13 final size:13
Alignment explanation
Indices: 75625575--75625599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75625565 TTAGAGCAGC
75625575 TGGTGAATTTATT
1 TGGTGAATTTATT
75625588 TGGTGAATTTAT
1 TGGTGAATTTAT
75625600 CTGAGATGCC
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:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
TGGTGAATTTATT
Found at i:75625979 original size:7 final size:7
Alignment explanation
Indices: 75625967--75625992 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
75625957 TAGTCGATTC
75625967 GTATTTA
1 GTATTTA
75625974 GTATTTA
1 GTATTTA
75625981 GTATTTA
1 GTATTTA
75625988 GTATT
1 GTATT
75625993 GTGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:75629682 original size:126 final size:126
Alignment explanation
Indices: 75629457--75629959 Score: 801
Period size: 126 Copynumber: 4.0 Consensus size: 126
75629447 GCCAAATAGG
* * * *
75629457 AACTATTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTATTTTTGATGATAGTGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
*
75629522 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCCCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
75629583 AACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATTC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
*
75629648 TGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
75629709 AACAACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATTC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
* *
75629774 TGCTTGAAGCGTTTTTGATACTATTTGTTCAGAAACATCTTTTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* ** *
75629835 AACTACTGTAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGGCAATGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
* * * *
75629900 TGCTTGAAGCGTTTTCGACACTATTTGTTTAAAAACATCTTCTTAAAATTA-TTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
75629960 TACGTCTTCT
Statistics
Matches: 350, Mismatches: 27, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
125 9 0.03
126 341 0.97
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:75630384 original size:27 final size:28
Alignment explanation
Indices: 75630327--75630387 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
75630317 CCCTTTTTAG
75630327 TAAATAATAAAAAAATTAACTCATTTCTA
1 TAAATAATAAAAAAA-TAACTCATTTCTA
* *
75630356 TAAATATTAAAAAAA-AACT-TTTTCTTA
1 TAAATAATAAAAAAATAACTCATTTC-TA
75630383 TAAAT
1 TAAAT
75630388 TACACTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.14
27 11 0.38
29 14 0.48
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAATAATAAAAAAATAACTCATTTCTA
Found at i:75632993 original size:18 final size:18
Alignment explanation
Indices: 75632970--75633012 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
75632960 GTTCAAGGTG
75632970 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
75632988 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
75633006 TAATTAA
1 TAATTAA
75633013 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:75635966 original size:19 final size:19
Alignment explanation
Indices: 75635901--75635968 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 19
75635891 AATTGATCGG
* *
75635901 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
*
75635919 TTATTCAGTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
* *
75635938 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
75635956 TTATTCAGTAACA
1 TTATTCAGTAACA
75635969 GTTGATCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 28 0.68
19 13 0.32
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:75636095 original size:6 final size:6
Alignment explanation
Indices: 75636084--75636138 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
75636074 CCGAAGCTGG
75636084 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
75636132 AACAGT A
1 AACAGT A
75636139 CGGTACACAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:75637467 original size:16 final size:15
Alignment explanation
Indices: 75637458--75637492 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
75637448 TATTTATTAT
75637458 ATAATATATTATTTA
1 ATAATATATTATTTA
*
75637473 ATAATATACTTATATA
1 ATAATATA-TTATTTA
75637489 ATAA
1 ATAA
75637493 GTAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATATATTATTTA
Found at i:75644970 original size:55 final size:55
Alignment explanation
Indices: 75644883--75645137 Score: 241
Period size: 55 Copynumber: 4.8 Consensus size: 55
75644873 ATTAGGGTTT
*
75644883 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAA-GTTTCATAAGGC
* * * *
75644938 AAGGATATCATGTAAGACCATGTCAAGACATGG-CATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTC-ATAAGGC
* * * *
75644993 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGG-CATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCATAAGGC
75645046 AAGGATACCATGTAAGACCATGTCC-AGACAT-GACAA-TGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATG-CCAAGACATGGA-AATTGGTAAGTTTCATAAGGC
* * * **
75645095 AAGAATACCACGTAAGACCATGACAATTCATGGAAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAG
75645138 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 20, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
48 1 0.01
49 33 0.19
50 2 0.01
52 7 0.04
53 39 0.23
54 16 0.09
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCATAAGGC
Found at i:75645089 original size:108 final size:110
Alignment explanation
Indices: 75644890--75645092 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 110
75644880 TTTAAGGATA
*
75644890 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
75644955 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
* *
75645000 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
75645062 ACCATGTCCAGACATGACAATGGTAAGTTTC
65 ACCATGTCAAGACATGACAATGATAAGTTTC
75645093 AAAAGAATAC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.58
109 7 0.08
110 26 0.31
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:75645351 original size:16 final size:16
Alignment explanation
Indices: 75645330--75645360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75645320 ATAAATTTGA
75645330 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
75645346 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
75645361 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:75647239 original size:15 final size:15
Alignment explanation
Indices: 75647190--75647241 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
75647180 CAATTCAAAT
*
75647190 AATCAATATATATTC
1 AATCAATATAAATTC
*
75647205 AATATATATATACCAATTC
1 AAT-CA-ATATA--AATTC
75647224 AATCAATATAAATTC
1 AATCAATATAAATTC
75647239 AAT
1 AAT
75647242 AAATTTATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 10 0.33
18 1 0.03
19 7 0.23
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:75648041 original size:15 final size:12
Alignment explanation
Indices: 75648010--75648039 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
75648000 TTAATTATTT
75648010 TATATTATATAA
1 TATATTATATAA
75648022 TATATTATGATAA
1 TATATTAT-ATAA
75648035 TATAT
1 TATAT
75648040 ATACTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
TATATTATATAA
Found at i:75654237 original size:49 final size:48
Alignment explanation
Indices: 75654035--75654328 Score: 222
Period size: 49 Copynumber: 6.2 Consensus size: 48
75654025 TATGTGTGCT
* *
75654035 AGTGTAAGACATGTCTGGGACAT-GCATCGTCCAC--AT-TATG-GAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCG--CACTGATATATGAG-AGCC
* *
75654081 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATATGCA-AGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GCACT-GATATATG-AGAGCC
* * * * * * *
75654129 AGTATAAGGCTTGTCTGGGACATGGCATCG-GCT--TGACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGCACTGAT-ATATGAGAGCC
*
75654173 AGTGTAAGACCTGTCTGGGACATGGCATTGACACTGATATATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCG-CACTGATATATGAGAGCC
* *
75654222 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GCACT-GATATATGAGAGCC
* * * * *
75654271 AGTGTAAGACCTGTCTGGGACATGACATCG-ACTTAGATGTGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGCACTGATATATGAGAGCC
75654318 AGTGTAAGACC
1 AGTGTAAGACC
75654329 ATGTTTAGAA
Statistics
Matches: 201, Mismatches: 27, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
44 29 0.14
45 1 0.00
46 33 0.16
47 24 0.12
48 36 0.18
49 77 0.38
50 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGCACTGATATATGAGAGCC
Found at i:75654286 original size:142 final size:140
Alignment explanation
Indices: 75654026--75654332 Score: 363
Period size: 142 Copynumber: 2.2 Consensus size: 140
75654016 TTTGGGTGAT
* *
75654026 ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGTCCACATTATGGAAGCTAGTGTAAGAC
1 ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGTACACATTATGGAAGCCAGTGTAAGAC
* * * *
75654091 ATGTCTGGGACATGCATCGGCCTCGAGATATGCAAGCCAGTATAAGGCTTGTCTGGGACATGGCA
66 ATGTCTGGGACATGCATCGGCCTCGAGATATGAAAGCCAGTATAAGACCTGTCTGGGACATGACA
75654156 TCGGCTTGAC
131 TCGGCTTGAC
* *
75654166 ATGTGT-C-AGTGTAAGACCTGTCTGGGACATGGCATTG-ACACTGATATAT-GAGAGCCAGTGT
1 ATGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGTACAC--AT-TATGGA-AGCCAGTGT
* * * *
75654227 AAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGAC
61 AAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGAAAGCCAGTATAAGACCTGTCTGGGAC
* *
75654292 ATGACATCGACTT-AG
125 ATGACATCGGCTTGAC
*
75654307 ATGTGTGAGCCAGTGTAAGACCATGT
1 ATGTGT--GCTAGTGTAAGA-CATGT
75654333 TTAGAACATG
Statistics
Matches: 141, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
138 25 0.18
139 6 0.04
140 10 0.07
141 35 0.25
142 51 0.36
144 1 0.01
145 9 0.06
146 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (140 bp):
ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGTACACATTATGGAAGCCAGTGTAAGAC
ATGTCTGGGACATGCATCGGCCTCGAGATATGAAAGCCAGTATAAGACCTGTCTGGGACATGACA
TCGGCTTGAC
Found at i:75654734 original size:21 final size:21
Alignment explanation
Indices: 75654710--75654776 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
75654700 TACCAATGTG
75654710 GTGAAAATGAATTAATAAGGT
1 GTGAAAATGAATTAATAAGGT
* *
75654731 GTGATAAACT--ATCATTAA-GT
1 GTGA-AAA-TGAATTAATAAGGT
75654751 GGTGAAAATGAATTAATAAGGT
1 -GTGAAAATGAATTAATAAGGT
75654773 GTGA
1 GTGA
75654777 TAAACTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 24 0.67
22 5 0.14
23 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (21 bp):
GTGAAAATGAATTAATAAGGT
Found at i:75654766 original size:42 final size:42
Alignment explanation
Indices: 75654707--75654790 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
75654697 CTTTACCAAT
75654707 GTGGTGAAAATGAATTAATAAGGTGTGATAAACTATCATTAA
1 GTGGTGAAAATGAATTAATAAGGTGTGATAAACTATCATTAA
75654749 GTGGTGAAAATGAATTAATAAGGTGTGATAAACTATCATTAA
1 GTGGTGAAAATGAATTAATAAGGTGTGATAAACTATCATTAA
75654791 TTTACACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (42 bp):
GTGGTGAAAATGAATTAATAAGGTGTGATAAACTATCATTAA
Found at i:75654791 original size:24 final size:24
Alignment explanation
Indices: 75654720--75654791 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 24
75654710 GTGAAAATGA
75654720 ATTAATAAGGTGTGATAAACTATC
1 ATTAATAAGGTGTGATAAACTATC
75654744 A-T--TAA-GTGGTGA-AAA-TGA--
1 ATTAATAAGGT-GTGATAAACT-ATC
75654762 ATTAATAAGGTGTGATAAACTATC
1 ATTAATAAGGTGTGATAAACTATC
75654786 ATTAAT
1 ATTAAT
75654792 TTACACTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 20
0.66 0.00 0.34
Matches are distributed among these distances:
18 1 0.03
19 2 0.05
20 6 0.16
21 14 0.37
22 6 0.16
23 2 0.05
24 7 0.18
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (24 bp):
ATTAATAAGGTGTGATAAACTATC
Found at i:75658089 original size:11 final size:11
Alignment explanation
Indices: 75658073--75658097 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75658063 TTCAATTCAA
75658073 ATAATCAATAT
1 ATAATCAATAT
75658084 ATAATCAATAT
1 ATAATCAATAT
75658095 ATA
1 ATA
75658098 TATACACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:75663249 original size:32 final size:33
Alignment explanation
Indices: 75663205--75663274 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
75663195 CCTACACGCT
75663205 CGTGTGGGCCCACAAGCCCAACTTGGCC-TAGCC
1 CGTGTGGGCCCACAAGCCCAACTTGGCCTTA-CC
* **
75663238 CGTGT-GGCCCACATGCCCAGTTTGGCCTTACC
1 CGTGTGGGCCCACAAGCCCAACTTGGCCTTACC
75663270 CGTGT
1 CGTGT
75663275 TCTTCACACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 26 0.79
33 7 0.21
ACGTcount: A:0.14, C:0.37, G:0.27, T:0.21
Consensus pattern (33 bp):
CGTGTGGGCCCACAAGCCCAACTTGGCCTTACC
Found at i:75663329 original size:103 final size:103
Alignment explanation
Indices: 75663149--75663353 Score: 295
Period size: 103 Copynumber: 2.0 Consensus size: 103
75663139 TAGCCTACAC
* * *
75663149 GCCCAGATTGGCCTTACCCGTGTGGGTCAAACGGCCTAGCCTAAAACCTACACGCTCGTGTGGGC
1 GCCCAGATTGGCCTTACCCGTGTGCGTCAAACGGCCTAGCATAAAACCTACACGCTCGTATGGGC
*
75663214 CCACAAGCCCAACTTGGCCTAGCCCGTGTGGCCCACAT
66 CCACAAGCCCAACTTGGACTAGCCCGTGTGGCCCACAT
* * * * *
75663252 GCCCAGTTTGGCCTTACCCGTGTTCTTCACACGGTCTAG-ATAAAAACCTACACGCTCGTATGGG
1 GCCCAGATTGGCCTTACCCGTGTGCGTCAAACGGCCTAGCAT-AAAACCTACACGCTCGTATGGG
* *
75663316 CCCACACGTCCAACTTGGACTAGCCCGTGTGGCCCACA
65 CCCACAAGCCCAACTTGGACTAGCCCGTGTGGCCCACA
75663354 CGGCCATACT
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 1 0.01
103 89 0.99
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.20
Consensus pattern (103 bp):
GCCCAGATTGGCCTTACCCGTGTGCGTCAAACGGCCTAGCATAAAACCTACACGCTCGTATGGGC
CCACAAGCCCAACTTGGACTAGCCCGTGTGGCCCACAT
Found at i:75675668 original size:18 final size:17
Alignment explanation
Indices: 75675637--75675694 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
75675627 CTTTTACCCC
*
75675637 TATTCTCTTCATTTATTT
1 TATT-TCTTTATTTATTT
75675655 TACTTTCTTTATTTTATTT
1 TA-TTTCTTTA-TTTATTT
*
75675674 TATTTCTTTATTCA-TT
1 TATTTCTTTATTTATTT
75675690 TATTT
1 TATTT
75675695 ATTTTTGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 7 0.19
17 3 0.08
18 15 0.42
19 11 0.31
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTCTTTATTTATTT
Found at i:75679859 original size:46 final size:46
Alignment explanation
Indices: 75679799--75680072 Score: 397
Period size: 46 Copynumber: 6.0 Consensus size: 46
75679789 TTTGACATGA
* * * ** * *
75679799 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** **
75679845 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
75679891 TGCCATGGTATCTTTCAACCATGATCTTAGACATTTCATATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
75679937 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
75679983 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
75680029 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
75680073 AGAGCACACT
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 206 0.98
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:75682228 original size:8 final size:9
Alignment explanation
Indices: 75682208--75682267 Score: 76
Period size: 8 Copynumber: 7.1 Consensus size: 9
75682198 TTTTATACTA
75682208 AATAATTAAT
1 AATAA-TAAT
75682218 AATAA-AAT
1 AATAATAAT
75682226 AATAATAA-
1 AATAATAAT
75682234 AATAATAAT
1 AATAATAAT
75682243 AA-AATAAT
1 AATAATAAT
75682251 AATAA-AAT
1 AATAATAAT
75682259 AATAA-AAT
1 AATAATAAT
75682267 A
1 A
75682268 TCTCATTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
8 36 0.77
9 6 0.13
10 5 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AATAATAAT
Found at i:75682230 original size:11 final size:11
Alignment explanation
Indices: 75682214--75682263 Score: 100
Period size: 11 Copynumber: 4.5 Consensus size: 11
75682204 ACTAAATAAT
75682214 TAATAATAAAA
1 TAATAATAAAA
75682225 TAATAATAAAA
1 TAATAATAAAA
75682236 TAATAATAAAA
1 TAATAATAAAA
75682247 TAATAATAAAA
1 TAATAATAAAA
75682258 TAATAA
1 TAATAA
75682264 AATATCTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Done.