Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 31 of 198
Found at i:9007976 original size:31 final size:31
Alignment explanation
Indices: 9007934--9008621 Score: 402
Period size: 31 Copynumber: 22.6 Consensus size: 31
9007924 TAATACTGAG
9007934 TAATTAATTAAGTTATGTAATTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
* *
9007965 TAACTAATTAAGTTATGTAATTTATGAATAAT
1 TAATTAATTAAGTTATGTAATTTATGTAT-AT
** * *
9007997 TAAAAAAATGTAAGTTATGTAAGTTATTTA-AGTT
1 T-AATTAAT-TAAGTTATGTAATTTATGTATA--T
* *
9008031 GTAAGTT--GTAAGTTATGTAAGTTATGTA-AGT
1 -TAA-TTAATTAAGTTATGTAATTTATGTATA-T
* *
9008062 TATGAGTT-ATGTAAG-T-TGTAAGTTATGTATAA
1 TA--A-TTAAT-TAAGTTATGTAATTTATGTATAT
* *
9008094 T-ATTAATTGCAATTTTTTGTAATTTATGTATCA-
1 TAATTAATT--AA-GTTATGTAATTTATGTAT-AT
* * *
9008127 T-ATTAATGTAAGTAATGTAAGTTATGTAAAT
1 TAATTAAT-TAAGTTATGTAATTTATGTATAT
* *
9008158 TAATTAACTAAGTTATGTAACTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
9008189 TAATTAATTAAGTTATGTAATTTATG--TA-
1 TAATTAATTAAGTTATGTAATTTATGTATAT
9008217 TAA-T-ATT-A---ATGTAATTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
9008242 TAATTAATTAA----TGTAAGTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
** *
9008269 TAATTAATTAAGTTATCCAACTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
9008300 TAATTAACTAAGTTATGTAATTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
* *
9008331 TAACTAATTAAGTTATGTAATTTATGAATAAT
1 TAATTAATTAAGTTATGTAATTTATGTAT-AT
** * *
9008363 TAAAAAAATGTAAGTTATGTAAGTTATG--T-G
1 T-AATTAAT-TAAGTTATGTAATTTATGTATAT
* * **
9008393 T-GTT--GTAAGTTATGTAACATATGTAATAT
1 TAATTAATTAAGTTATGTAATTTATGT-ATAT
* *
9008422 TAATTAACTAAGTTATGTAATTTATGTATAA
1 TAATTAATTAAGTTATGTAATTTATGTATAT
* * *
9008453 T-ATTAATGTAAGTTATGT-A--TAAGAACA-
1 TAATTAAT-TAAGTTATGTAATTTATGTATAT
9008480 TAA--AATTAAGTTATGTAATTTATGTATAATATTAAT
1 TAATTAATTAAGTTATGTAATTTATG-----TA-T-AT
*
9008516 TAATTAATTAAGTTATGTAATTTATGTATAA
1 TAATTAATTAAGTTATGTAATTTATGTATAT
* * * *
9008547 T-ATTAATGTAAGTAATGT-A--TAAGAACA-
1 TAATTAAT-TAAGTTATGTAATTTATGTATAT
*
9008574 TAA--AATTAAGTTATGTAATTTATGTATAA
1 TAATTAATTAAGTTATGTAATTTATGTATAT
9008603 T-ATTAATGTAAGTTATGTA
1 TAATTAAT-TAAGTTATGTA
9008622 TAAGAACATA
Statistics
Matches: 521, Mismatches: 70, Indels: 132
0.72 0.10 0.18
Matches are distributed among these distances:
22 12 0.02
24 2 0.00
25 39 0.07
26 12 0.02
27 32 0.06
28 29 0.06
29 7 0.01
30 24 0.05
31 188 0.36
32 72 0.14
33 35 0.07
34 43 0.08
35 2 0.00
36 3 0.01
38 21 0.04
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (31 bp):
TAATTAATTAAGTTATGTAATTTATGTATAT
Found at i:9008018 original size:9 final size:9
Alignment explanation
Indices: 9008004--9008090 Score: 109
Period size: 9 Copynumber: 10.6 Consensus size: 9
9007994 AATTAAAAAA
9008004 ATGTAAGTT
1 ATGTAAGTT
9008013 ATGTAAGTT
1 ATGTAAGTT
*
9008022 ATTTAAG-T
1 ATGTAAGTT
9008030 -TGTAAG-T
1 ATGTAAGTT
9008037 -TGTAAGTT
1 ATGTAAGTT
9008045 ATGTAAGTT
1 ATGTAAGTT
9008054 ATGTAAGTT
1 ATGTAAGTT
9008063 ATG--AGTT
1 ATGTAAGTT
9008070 ATGTAAG-T
1 ATGTAAGTT
9008078 -TGTAAGTT
1 ATGTAAGTT
9008086 ATGTA
1 ATGTA
9008091 TAATATTAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
7 25 0.36
8 4 0.06
9 41 0.59
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:9008035 original size:16 final size:16
Alignment explanation
Indices: 9008004--9008090 Score: 97
Period size: 16 Copynumber: 5.3 Consensus size: 16
9007994 AATTAAAAAA
9008004 ATGTAAGTTATGTAAGTT
1 ATGTAAG-T-TGTAAGTT
*
9008022 ATTTAAGTTGTAAG-T
1 ATGTAAGTTGTAAGTT
9008037 -TGTAAGTTATGTAAGTT
1 ATGTAAG-T-TGTAAGTT
* *
9008054 ATGTAAGTTATGAGTT
1 ATGTAAGTTGTAAGTT
9008070 ATGTAAGTTGTAAGTT
1 ATGTAAGTTGTAAGTT
9008086 ATGTA
1 ATGTA
9008091 TAATATTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.08
15 2 0.03
16 37 0.63
17 3 0.05
18 12 0.20
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (16 bp):
ATGTAAGTTGTAAGTT
Found at i:9008037 original size:7 final size:7
Alignment explanation
Indices: 9008025--9008085 Score: 50
Period size: 7 Copynumber: 7.9 Consensus size: 7
9008015 GTAAGTTATT
9008025 TAAGTTG
1 TAAGTTG
9008032 TAAGTTG
1 TAAGTTG
9008039 TAAGTTATG
1 TAAG-T-TG
9008048 TAAGTTATG
1 TAAG-T-TG
*
9008057 TAAGTTA
1 TAAGTTG
*
9008064 TGAGTTATG
1 TAAG-T-TG
9008073 TAAGTTG
1 TAAGTTG
9008080 TAAGTT
1 TAAGTT
9008086 ATGTATAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 23 0.50
8 4 0.09
9 19 0.41
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (7 bp):
TAAGTTG
Found at i:9008046 original size:32 final size:34
Alignment explanation
Indices: 9008004--9008090 Score: 119
Period size: 32 Copynumber: 2.7 Consensus size: 34
9007994 AATTAAAAAA
* *
9008004 ATGTAAGTTATGTAAGTTATTTAAGTTGTAAG-T
1 ATGTAAGTTATGTAAGTTATGTAAGTTATAAGTT
*
9008037 -TGTAAGTTATGTAAGTTATGTAAGTTATGAGTT
1 ATGTAAGTTATGTAAGTTATGTAAGTTATAAGTT
9008070 ATGTAAG-T-TGTAAGTTATGTA
1 ATGTAAGTTATGTAAGTTATGTA
9008091 TAATATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
32 41 0.84
33 2 0.04
34 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (34 bp):
ATGTAAGTTATGTAAGTTATGTAAGTTATAAGTT
Found at i:9008052 original size:41 final size:41
Alignment explanation
Indices: 9008004--9008090 Score: 133
Period size: 41 Copynumber: 2.1 Consensus size: 41
9007994 AATTAAAAAA
9008004 ATGTAAGTTATGTAAGTTATTTAAG-T-TGTAAGTTGTAAGTT
1 ATGTAAGTTATGTAAGTTA--TAAGTTATGTAAGTTGTAAGTT
*
9008045 ATGTAAGTTATGTAAGTTATGAGTTATGTAAGTTGTAAGTT
1 ATGTAAGTTATGTAAGTTATAAGTTATGTAAGTTGTAAGTT
9008086 ATGTA
1 ATGTA
9008091 TAATATTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
39 3 0.07
40 1 0.02
41 39 0.91
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (41 bp):
ATGTAAGTTATGTAAGTTATAAGTTATGTAAGTTGTAAGTT
Found at i:9008215 original size:9 final size:9
Alignment explanation
Indices: 9008201--9008265 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
9008191 ATTAATTAAG
9008201 TTATGTAAT
1 TTATGTAAT
9008210 TTATGTATAAT
1 TTATG--TAAT
9008221 ATTAATGTAAT
1 -TT-ATGTAAT
9008232 TTATGTATAT
1 TTATGTA-AT
*
9008242 TAAT-TAAT
1 TTATGTAAT
* *
9008250 TAATGTAAG
1 TTATGTAAT
9008259 TTATGTA
1 TTATGTA
9008266 TATTAATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
8 6 0.13
9 21 0.45
10 7 0.15
11 8 0.17
12 2 0.04
13 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (9 bp):
TTATGTAAT
Found at i:9008228 original size:22 final size:23
Alignment explanation
Indices: 9008203--9008284 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 23
9008193 TAATTAAGTT
9008203 ATGTAATTTATGTATAAT-ATTA
1 ATGTAATTTATGTATAATAATTA
9008225 ATGTAATTTATGTATATTAATTAATTA
1 ATGTAATTTATG--TA-TAA-TAATTA
* *
9008252 ATGTAAGTTATGTATATTAATTA
1 ATGTAATTTATGTATAATAATTA
*
9008275 AT-TAAGTTAT
1 ATGTAATTTAT
9008285 CCAACTTATG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
22 20 0.38
23 8 0.15
24 4 0.08
25 5 0.09
26 1 0.02
27 15 0.28
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (23 bp):
ATGTAATTTATGTATAATAATTA
Found at i:9008384 original size:9 final size:9
Alignment explanation
Indices: 9008370--9008449 Score: 57
Period size: 9 Copynumber: 9.6 Consensus size: 9
9008360 AATTAAAAAA
9008370 ATGTAAGTT
1 ATGTAAGTT
9008379 ATGTAAGTT
1 ATGTAAGTT
9008388 ATGT--GTGT
1 ATGTAAGT-T
9008396 -TGTAAGTT
1 ATGTAAGTT
**
9008404 ATGTAACAT
1 ATGTAAGTT
9008413 ATGTAA--T
1 ATGTAAGTT
9008420 AT-TAA-TT
1 ATGTAAGTT
**
9008427 AACTAAGTT
1 ATGTAAGTT
*
9008436 ATGTAATTT
1 ATGTAAGTT
9008445 ATGTA
1 ATGTA
9008450 TAATATTAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
6 3 0.05
7 10 0.17
8 5 0.09
9 40 0.69
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:9008439 original size:32 final size:31
Alignment explanation
Indices: 9008398--9008471 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
9008388 ATGTGTGTTG
*
9008398 TAAGTTATGTAACATATGTAATATTAATTAA-C
1 TAAGTTATGTAACATATGT-ATAAT-ATTAATC
** *
9008430 TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAACATATGTATAATATTAATC
9008461 TAAGTTATGTA
1 TAAGTTATGTA
9008472 TAAGAACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 5 0.14
31 15 0.41
32 17 0.46
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.45
Consensus pattern (31 bp):
TAAGTTATGTAACATATGTATAATATTAATC
Found at i:9008534 original size:38 final size:39
Alignment explanation
Indices: 9008483--9008562 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 39
9008473 AAGAACATAA
*
9008483 AATTAAGTTATGTAATTTATGTATAATATTAAT-TAATT
1 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
9008521 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
1 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
9008560 AAT
1 AAT
9008563 GTATAAGAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 33 0.82
39 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (39 bp):
AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
Found at i:9008547 original size:94 final size:94
Alignment explanation
Indices: 9008420--9008609 Score: 362
Period size: 94 Copynumber: 2.0 Consensus size: 94
9008410 CATATGTAAT
*
9008420 ATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAAGAACATAAAA
1 ATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAAAA
9008485 TTAAGTTATGTAATTTATGTATAATATTA
66 TTAAGTTATGTAATTTATGTATAATATTA
*
9008514 ATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAAAA
1 ATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAAAA
9008579 TTAAGTTATGTAATTTATGTATAATATTA
66 TTAAGTTATGTAATTTATGTATAATATTA
9008608 AT
1 AT
9008610 GTAAGTTATG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (94 bp):
ATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAAAA
TTAAGTTATGTAATTTATGTATAATATTA
Found at i:9008553 original size:17 final size:17
Alignment explanation
Indices: 9008495--9008553 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
9008485 TTAAGTTATG
9008495 TAATTTATGTATAATAT
1 TAATTTATGTATAATAT
*
9008512 TAATTAAT-TAATTAAGTTAT
1 TAATTTATGT-A-TAA--TAT
9008532 GTAATTTATGTATAATAT
1 -TAATTTATGTATAATAT
9008550 TAAT
1 TAAT
9008554 GTAAGTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 12 0.35
18 6 0.18
20 6 0.18
21 8 0.24
22 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TAATTTATGTATAATAT
Found at i:9008589 original size:25 final size:25
Alignment explanation
Indices: 9008555--9008647 Score: 89
Period size: 25 Copynumber: 3.5 Consensus size: 25
9008545 AATATTAATG
*
9008555 TAAGTAATGTATAAGAACATAAAAT
1 TAAGTTATGTATAAGAACATAAAAT
* *
9008580 TAAGTTATGTAATTTATGTATA-ATATTAAT
1 TAAGTTATGT-A--TAAG-A-ACATA-AAAT
9008610 GTAAGTTATGTATAAGAACATAAAAT
1 -TAAGTTATGTATAAGAACATAAAAT
9008636 TAAGTTATGTAT
1 TAAGTTATGTAT
9008648 TTTATGCAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
25 21 0.38
26 5 0.09
27 4 0.07
28 6 0.11
29 4 0.07
30 5 0.09
31 10 0.18
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (25 bp):
TAAGTTATGTATAAGAACATAAAAT
Found at i:9008596 original size:56 final size:56
Alignment explanation
Indices: 9008521--9008653 Score: 248
Period size: 56 Copynumber: 2.4 Consensus size: 56
9008511 TTAATTAATT
9008521 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAA
1 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAA
*
9008577 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAAGAACATAA
1 AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAA
*
9008633 AATTAAGTTATGTATTTTATG
1 AATTAAGTTATGTAATTTATG
9008654 CAATTTATGT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.42
Consensus pattern (56 bp):
AATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAATGTATAAGAACATAA
Found at i:9012673 original size:41 final size:40
Alignment explanation
Indices: 9012609--9012887 Score: 281
Period size: 41 Copynumber: 6.8 Consensus size: 40
9012599 TTTTGTTACT
* * * * *
9012609 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTCAATAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCGA-GC
* * * *
9012650 ATTAGCGGCGCTTAGATACAAACGCCGCTGAAGA-CAAGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATC--GAGC
* * **
9012691 ATTAGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAT-CGAGC
* * *
9012732 ATTAGCGGCGCCTACACAAAAACGCCGCTAAAGCCTCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG-ATCGAGC
*
9012773 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAT-CGAGC
* * *
9012814 ATTAGCGGCGCATACACAAAAACGCCGCTAAAGCCTCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG-ATCGAGC
* * *
9012855 ATTAGCGACGCTCACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
9012888 GTTTAAAAAA
Statistics
Matches: 201, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.01
41 195 0.97
42 3 0.01
43 1 0.00
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.14
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCGAGC
Found at i:9012755 original size:82 final size:82
Alignment explanation
Indices: 9012609--9012887 Score: 339
Period size: 82 Copynumber: 3.4 Consensus size: 82
9012599 TTTTGTTACT
* * * * * * * *
9012609 ATTAGCGGCGCTTC-GGCAAAAACGCCGCTAAAGGT-CAATACATTAGCGGCGCTTAGATACAAA
1 ATTAGCGGCGC-TCAGACAAAAACGCCGCTAAAGATCCGA-GCATTAGCGGCGCATACACAAAAA
* * ** *
9012672 CGCCGCTGAAGACAAGAGA
64 CGCCGCTAAAGCCTCGAGC
* ** *
9012691 ATTAGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCCTACACAAAAACG
1 ATTAGCGGCGCTCAGACAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCATACACAAAAACG
9012756 CCGCTAAAGCCTCGAGC
66 CCGCTAAAGCCTCGAGC
9012773 ATTAGCGGCGCAT-AGACAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCATACACAAAAAC
1 ATTAGCGGCGC-TCAGACAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCATACACAAAAAC
9012837 GCCGCTAAAGCCTCGAGC
65 GCCGCTAAAGCCTCGAGC
* *
9012855 ATTAGCGACGCTCACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTCAGACAAAAACGCCGCTAAAG
9012888 GTTTAAAAAA
Statistics
Matches: 172, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
81 3 0.02
82 166 0.97
83 3 0.02
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.14
Consensus pattern (82 bp):
ATTAGCGGCGCTCAGACAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCATACACAAAAACG
CCGCTAAAGCCTCGAGC
Found at i:9012835 original size:123 final size:122
Alignment explanation
Indices: 9012625--9012887 Score: 311
Period size: 123 Copynumber: 2.1 Consensus size: 122
9012615 GGCGCTTCGG
* * * * *
9012625 CAAAAACGCCGCTAAAGGTCAATACATTAGCGGCGCTTAGATACAAACGCCGCTGAAGACAAGAG
1 CAAAAACGCCGCTAAAGCTCAATACATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACAAGAG
* * * *
9012690 AATTAGTGGCGCTCAGTTAAAAACGCCGCTAAAG-ATCCGAGCATTAGCGGCGC-CTACA
66 AATTAGCGGCGCTCAG-CAAAAACGCCGCTAAAGCCT-CGAGCATTAGCGACGCTC-ACA
* * *
9012748 CAAAAACGCCGCTAAAGCCTCGA-GCATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATC-CG
1 CAAAAACGCCGCTAAAG-CTCAATACATTAGCGGCGCATAGACAAAAACGCCGCTAAAGA-CAAG
*
9012811 AGCATTAGCGGCGCATACA-CAAAAACGCCGCTAAAGCCTCGAGCATTAGCGACGCTCACA
64 AGAATTAGCGGCGC-T-CAGCAAAAACGCCGCTAAAGCCTCGAGCATTAGCGACGCTCACA
9012871 CAAAAACGCCGCTAAAG
1 CAAAAACGCCGCTAAAG
9012888 GTTTAAAAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
123 112 0.93
124 7 0.06
125 2 0.02
ACGTcount: A:0.36, C:0.28, G:0.22, T:0.14
Consensus pattern (122 bp):
CAAAAACGCCGCTAAAGCTCAATACATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACAAGAG
AATTAGCGGCGCTCAGCAAAAACGCCGCTAAAGCCTCGAGCATTAGCGACGCTCACA
Found at i:9019986 original size:28 final size:28
Alignment explanation
Indices: 9019954--9020051 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
9019944 TGACTTTCAA
9019954 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
9019982 CACTAAGTGTCCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * ** *
9020010 CACTAAGTGTGCAAGTTTGATTATTGAC
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
9020038 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
9020052 ACTTATTAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:9020671 original size:23 final size:23
Alignment explanation
Indices: 9020644--9020915 Score: 120
Period size: 23 Copynumber: 11.6 Consensus size: 23
9020634 TTATGCTAAA
* *
9020644 ATGCTGTCCAATTTGTTGAATTT
1 ATGCTGCCCAATTTGTTGTATTT
* **
9020667 ATGCTGCCCAAATTGTT-TCATAA
1 ATGCTGCCCAATTTGTTGT-ATTT
* * **
9020690 ATGTTGTCCAATATT-TATGCT-TAA
1 ATGCTGCCCAAT-TTGT-TG-TATTT
9020714 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATTT
* *
9020737 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATTT
* * * ***
9020760 ATGCTGTCTAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATTT
* * * *
9020784 ACGCTGCTCAATTTGGTAGATATAT
1 ATGCTGCCCAATTT-GTTG-TATTT
* * *
9020809 AGGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATTT
* * **
9020832 ATGCTGTCCAATTTTTTTGCTA-AA
1 ATGCTGCCCAA-TTTGTTG-TATTT
* *
9020856 ATGCTGCTCAATTTGATGTATTT
1 ATGCTGCCCAATTTGTTGTATTT
* * * *
9020879 ATGCGGCTCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATTT
*
9020902 ATGCTGTCCAATTT
1 ATGCTGCCCAATTT
9020916 TTGGTGTGAA
Statistics
Matches: 185, Mismatches: 51, Indels: 26
0.71 0.19 0.10
Matches are distributed among these distances:
22 3 0.02
23 113 0.61
24 52 0.28
25 16 0.09
26 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATTT
Found at i:9020917 original size:70 final size:70
Alignment explanation
Indices: 9020629--9020917 Score: 368
Period size: 70 Copynumber: 4.1 Consensus size: 70
9020619 ATGCTCATGT
* *
9020629 AATTTTTATGCTAAAATGCTG-TCCAATTTGTTGAATTTATGCTGCCCAAATTGTT-TCATAAAT
1 AATTTTTATGCTAAAATGCTGCT-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGT-ATATAT
*
9020692 GTTGTCC
64 GCTGTCC
* * *
9020699 AATATTTATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
*
9020764 TGTCT
66 TGTCC
* * * * *
9020769 AATTTTGATG-TAAAAACGCTGCTCAATTTGGTAGATATATAGGCTGCCCAAATTGTTGTATATA
1 AATTTTTATGCT-AAAATGCTGCTCAATTT-GTTG-TATTTATGCTGCCCAAATTGTTGTATATA
9020833 TGCTGTCC
63 TGCTGTCC
* * * *
9020841 AATTTTTTTGCTAAAATGCTGCTCAATTTGATGTATTTATGCGGCTCAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
9020906 TGTCC
66 TGTCC
9020911 AATTTTT
1 AATTTTT
9020918 GGTGTGAAAA
Statistics
Matches: 188, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
69 1 0.01
70 122 0.65
71 6 0.03
72 58 0.31
73 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (70 bp):
AATTTTTATGCTAAAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
TGTCC
Found at i:9027761 original size:23 final size:23
Alignment explanation
Indices: 9027734--9027935 Score: 167
Period size: 23 Copynumber: 8.6 Consensus size: 23
9027724 TTATGCTAAA
* *
9027734 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
*
9027757 ATGCTGCCCAAATTGTT-TCATAT
1 ATGCTGCCCAATTTGTTGT-ATAT
* *
9027780 ATGCTGTCCAATATT-TATGCT-TAA
1 ATGCTGCCCAAT-TTGT-TG-TATAT
*
9027804 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
9027827 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
9027850 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* *
9027874 ATGCTGCTCAATTTGGTATATATAT
1 ATGCTGCCCAATTT-GT-TGTATAT
* * * *
9027899 AGGCTACACAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
9027922 ATGCTGTCCAATTT
1 ATGCTGCCCAATTT
9027936 TTGGTGTGAA
Statistics
Matches: 139, Mismatches: 30, Indels: 20
0.74 0.16 0.11
Matches are distributed among these distances:
22 2 0.01
23 84 0.60
24 38 0.27
25 14 0.10
26 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:9027799 original size:70 final size:68
Alignment explanation
Indices: 9027722--9027936 Score: 272
Period size: 70 Copynumber: 3.1 Consensus size: 68
9027712 TTCATGTAAT
9027722 TTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTT-TCATATATGCTG
1 TTTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGT-ATATATGCTG
9027786 TCCAA
64 TCCAA
* *
9027791 TATTTATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAATTTGTTGTATATATGCTG
1 T-TTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCTG
9027856 TCCAA
64 TCCAA
* * * * *
9027861 TTTTGATG-TAAAAATGCTGCTCAATTTGGTATATATATAGGCTACACAAATTGTTGTATATATG
1 TTTT-ATGCT-AAAATGCTGC-CAATTT-GT-TGTATTTATGCTGCCCAAATTGTTGTATATATG
9027925 CTGTCCAA
61 CTGTCCAA
9027933 TTTT
1 TTTT
9027937 TGGTGTGAAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
69 6 0.05
70 81 0.63
71 3 0.02
72 39 0.30
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (68 bp):
TTTTATGCTAAAATGCTGCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCTGTC
CAA
Found at i:9035602 original size:36 final size:36
Alignment explanation
Indices: 9035559--9035627 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
9035549 GGAGCACCTT
9035559 AGTCAGAATAGATCCAAAAGGCTGCTGAACTGAGTC
1 AGTCAGAATAGATCCAAAAGGCTGCTGAACTGAGTC
*
9035595 AGTCAGAATAGATCCAAAAGGTTGCTGAACTGA
1 AGTCAGAATAGATCCAAAAGGCTGCTGAACTGA
9035628 ATAGAGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (36 bp):
AGTCAGAATAGATCCAAAAGGCTGCTGAACTGAGTC
Found at i:9046911 original size:108 final size:108
Alignment explanation
Indices: 9046788--9047010 Score: 308
Period size: 108 Copynumber: 2.1 Consensus size: 108
9046778 TCATACCAAC
* **
9046788 AAATTTAACAATAAAAATTTATTAGTACTAACAATTGGATCTGAATTTTAAAATC-ATAAAAGTA
1 AAATTTAACAATAAAAATTTAATAGTACTAACAATTAAATCTGAATTTTAAAATCTA-AAAAGTA
*
9046852 GAGAGACTAAATTAC-TAAAAAT-AAAAGTCAAAAGAATAAATTCT
65 AAGAGACTAAATT-CTTAAAAATAAAAAG-CAAAAGAATAAATTCT
* *
9046896 AAATTTAACAATAAAAATTTAATAGTGCTAACAATTAAATCTGAATTTTGAAATCTAAAAAGTAA
1 AAATTTAACAATAAAAATTTAATAGTACTAACAATTAAATCTGAATTTTAAAATCTAAAAAGTAA
* * * *
9046961 AGAGATTAAATTCTTAAAAATAAAAAGCAAGAGACTGAATTCT
66 AGAGACTAAATTCTTAAAAATAAAAAGCAAAAGAATAAATTCT
9047004 AAATTTA
1 AAATTTA
9047011 CAAAGAATAC
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
107 1 0.01
108 95 0.93
109 6 0.06
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (108 bp):
AAATTTAACAATAAAAATTTAATAGTACTAACAATTAAATCTGAATTTTAAAATCTAAAAAGTAA
AGAGACTAAATTCTTAAAAATAAAAAGCAAAAGAATAAATTCT
Found at i:9050389 original size:23 final size:23
Alignment explanation
Indices: 9050346--9050390 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9050336 CTTGTAATCT
*
9050346 ATATTGTAGAAAACGCATAACCC
1 ATATTGTAGAAAACGAATAACCC
*
9050369 ATATTGTA-AAAATGAACTAACC
1 ATATTGTAGAAAACGAA-TAACC
9050391 TTTGCGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (23 bp):
ATATTGTAGAAAACGAATAACCC
Found at i:9064156 original size:32 final size:32
Alignment explanation
Indices: 9064120--9064235 Score: 169
Period size: 32 Copynumber: 3.6 Consensus size: 32
9064110 CCCTACAAAT
**
9064120 TTGTAGCAAACGTCCCATTTTGGTAATTAATA
1 TTGTAGCAAACAACCCATTTTGGTAATTAATA
* *
9064152 TTGTAGCAAACAACCCATTTAGGTAGTTAATA
1 TTGTAGCAAACAACCCATTTTGGTAATTAATA
** *
9064184 TCATAGCAAACAACCCATTTTGATAATTAATA
1 TTGTAGCAAACAACCCATTTTGGTAATTAATA
9064216 TTGTAGCAAACAACCCATTT
1 TTGTAGCAAACAACCCATTT
9064236 CGGTGACTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
TTGTAGCAAACAACCCATTTTGGTAATTAATA
Found at i:9070509 original size:163 final size:161
Alignment explanation
Indices: 9070200--9070528 Score: 586
Period size: 163 Copynumber: 2.0 Consensus size: 161
9070190 GATGACCATT
* * *
9070200 TAAGGAACATGCAAGACCATGGATATATAGTGGTTCCTTGTCCTACAAGTAGCATATGAAATAAG
1 TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAATAAG
*
9070265 CATTTATCTTTATGTGATTCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGATG
66 CATTTATCTTTATGTGATCCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGATG
9070330 TTAAGATTAGGTGCTAATTGATAATTGAGTG
131 TTAAGATTAGGTGCTAATTGATAATTGAGTG
9070361 TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAATAAG
1 TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAATAAG
* *
9070426 CATTTATCTTTATATGTGATCCCATCATCTGAAAACATGATCAGCCATTCAGCTTAACACTAGGA
66 CATTTATC-TT-TATGTGATCCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGA
9070491 TGTTAAGATTAGGTGCTAATTGATAATTGAGTG
129 TGTTAAGATTAGGTGCTAATTGATAATTGAGTG
9070524 TAAGG
1 TAAGG
9070529 TGATAATCCT
Statistics
Matches: 160, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
161 70 0.44
162 2 0.01
163 88 0.55
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (161 bp):
TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAATAAG
CATTTATCTTTATGTGATCCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGATG
TTAAGATTAGGTGCTAATTGATAATTGAGTG
Found at i:9077129 original size:18 final size:17
Alignment explanation
Indices: 9077103--9077141 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9077093 ATTTTCCATC
9077103 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
9077120 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
9077138 CACA
1 CACA
9077142 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:9083430 original size:888 final size:881
Alignment explanation
Indices: 9081715--9084363 Score: 3192
Period size: 888 Copynumber: 3.0 Consensus size: 881
9081705 TGTTCTGAAG
* * * * * *
9081715 TTCTGAAAACTGCTTACACTGAACCTTCAACTCCAT-ACGTAGTGAATTATTTTC-AGTTGTAAG
1 TTCTGAAAACTGCTCAGACTGAACCTTCAACTCC-TGATGCAGTGAGTTATTTTCTA-TTGCAAG
* * *
9081778 ATTTTCAGCCTCTAGTTTCAGCTGCCTAAGAATTCCAATAAGAACTGAATTCTCAATTATGAATT
64 ATTTTTAGCCTCTAGTTTCAGTTGCCCAAGAA-TCCAATAAGAACTGAATTCTCAATTATGAATT
* * * * *
9081843 GTTGATTTTCATCCAGAGACATTAGAAGTGAATTTTGCATCTTTTGAAGCCTACCAAATATACAG
128 GCTGATTTTCATCCAGAGACTTTAAAAGTGAATTTTGCATCTTTTGGATCCT-CCAAATATACAG
* * * ** *
9081908 TCAAGAACTGATTGGTTTTGTTTGATCGTATCATCATAAACACAGATAGCATCAACTTCAAGAGT
192 TCAAGAACTGATTGGTCTTGTTTGATTGTATCATCATAACCATGGATAGCATCAAATTCAAGAGT
* * * * **
9081973 CCTCAACATCTGATAAATCCCCATCCTCAGTATAGAAATTTGATCAAACAAGGCTTTTATCTCTG
257 CCTCAACATCTGATAAAGCCCCATCCTCAGTATAGTAATTTGATCAAATAAGGATTTTATCTCCA
* * * *
9082038 TCTGTTTTATGGAATTTCCAAGCTCCAATTCTGATATAAGTTCTTTT-GATAATTTAGAGGCTTC
322 TCTGTTTT-TGGAATTTCTAAGCTCCAATTCAGAGATAAGTT-TTTTGGATAA-TTGGAGGCTTC
* ** ** * *
9082102 CAAGAGGTTCCTACACTCAAGCACCAAAGATAAATTCTTCTCTTCTAGATCTTGTGCACATTTTT
384 CAAGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATTTCT
* *
9082167 GCAAGATGAAGGTTTCTACATGAGCATTCATGGCCTTATCTAGCTCCTCTTCGTATTCTTTTTTC
449 GCAAGATGAAGGTTTCTACATGAGCATTCATGGCCTTATCTAGTTCCTCTTCGTATTCTTTCTTC
* *** * * *
9082232 ATGTGCAGACTTTCTCCTTGTAGAAAATGGATCTGAGATTCCGTAGAAGTAACCCTGGTTTCATT
514 CTGCATAGACTTTCTCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATT
* * * *
9082297 CAACTTCACAAAACTAGCATGTTGC-TGCTTTT-CAGCATCTAATGACCTTTGTAGTTCTTCTAC
579 CAACTTCAC-AAACTAGCATATT-CTTGCTTTTCCA-CATCTAGTGACTTTTGTAGCTCTTCTAC
** ** * * * **
9082360 TTCATGAAGCATTGATTCTCTCTCTTTTTTCATGACCTCATGCTTTTCTTCTAATCCCTT-ATAT
641 TTCACAAAGTGTTGATTCTCTCTCTTTCTCCA-GACCACATATTTTTCTTCTAAT-CCTTGATAT
*
9082424 CTATTTTCCAAATCTTCCATCCTTTTCTGACTGATATTCAACTCAGAAATCAAACCTTCTCTCTG
704 CT-TTTTCCAAATCTTCCAACCTTTTCTGACTGATATTCAACTCAGAAATCAAACCTTCTCTCTG
** * *
9082489 TGTTAGCAAACCAGACTTCTCATCACCAAGCAGTTGGTATGAAATTTCTAAGCTCTTTAA-TTTT
768 TGTTAGCAGGCCAGACTTCTCATCACCAAGCAGTAGGCATGAAATTTCTAAGCTC-TTAAGTTTT
* * * * * *
9082553 G-TACTCAATCCTTCAACTTTAACATTTGCATCACAAAGATAATTCTTCAC
832 GCT-CTCAATACTTCAACTTCAACATTTGCATCAAAAAGAGAAGTCTTCAA
*
9082603 TTCTGAAAACTGCTCAGACTGAACCTTCAATTCCTGATGCAGTGAGTTATTTTCTATTGCAAGAT
1 TTCTGAAAACTGCTCAGACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTATTGCAAGAT
*
9082668 TTTTAGCCTCTAGCTTCAGTTGCCCAAGTAATCCAATAAGAACTGAATTCTCAATTATGAATTGC
66 TTTTAGCCTCTAGTTTCAGTTGCCCAAG-AATCCAATAAGAACTGAATTCTCAATTATGAATTGC
* *
9082733 TGATTTTCATCCAGAGACTTTAAAAGTAAATTTTGCATCTTTTGGATCCTGCCATATATACAGTC
130 TGATTTTCATCCAGAGACTTTAAAAGTGAATTTTGCATCTTTTGGATCCT-CCAAATATACAGTC
* *
9082798 AAGAACTGATTGATCTTGTTTGATTGTATCATCATAACCATGGATAGCATCAAAATCAAGAGTCC
194 AAGAACTGATTGGTCTTGTTTGATTGTATCATCATAACCATGGATAGCATCAAATTCAAGAGTCC
* * * * *
9082863 TCAACATCTGATAGAGCCCCATCCTCAGTATAGTGATTTGATCAGATAAAGATTCTATCTCCA-C
259 TCAACATCTGATAAAGCCCCATCCTCAGTATAGTAATTTGATCAAATAAGGATTTTATCTCCATC
* * *
9082927 TTGTTTTTGGGAATTTCTAAGCTCCAACTCGGAGATAAGTTTTTTGGATAATCTGGAGTCTTCCA
324 -TGTTTTT-GGAATTTCTAAGCTCCAATTCAGAGATAAGTTTTTTGGATAAT-TGGAGGCTTCCA
* ** * * *
9082992 AGAGTTTGCTACACTCTTGCAATAGGGATAAATTCTTCGCTTCGAGATCTTGTGCACATCTCTGC
386 AGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATTTCTGC
* * *
9083057 AAAATGAAGGTTTCTACATGAGCAATCATGGCCTTGTCTAGTTCCTCTTCGTATTCTTTCTTCCT
451 AAGATGAAGGTTTCTACATGAGCATTCATGGCCTTATCTAGTTCCTCTTCGTATTCTTTCTTCCT
* *
9083122 GCATAGACTTTCTCCTTGTAGAAAATGGATTTGAGATTCCATAGAAGTGACTCGGGCTTT-ATTC
516 GCATAGACTTTCTCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGG-TTTCATTC
*
9083186 GACTTCACAAATCTAGCATATTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTTC
580 AACTTCACAAA-CTAGCATATTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTTC
* *
9083251 ACAAAGTGTTGATTCTATCTCTTTCTCCAGACTCACATATTTTTCTTCTAATCCTTGATTTCTTT
644 ACAAAGTGTTGATTCTCTCTCTTTCTCCAGAC-CACATATTTTTCTTCTAATCCTTGATATCTTT
* * * * *
9083316 CCTCCAAATCTTCCAACCTTTTTTGTCTGACATTCAACTCAGATATCAAACCTTCTCTCTGTGTT
708 -TTCCAAATCTTCCAACCTTTTCTGACTGATATTCAACTCAGAAATCAAACCTTCTCTCTGTGTT
* * *
9083381 AGCAGGCCAGACTTCTCTTCACCAAGCAGCAGGCATGAACTTTCTAAGCTCTTAAGTTTTGCTCT
772 AGCAGGCCAGACTTCTCATCACCAAGCAGTAGGCATGAAATTTCTAAGCTCTTAAGTTTTGCTCT
** * * * * * *
9083446 TGATATTTCAAGTTCAGCATTTGTATTAAAAAGGGAAGTCTTCAA
837 CAATACTTCAACTTCAACATTTGCATCAAAAAGAGAAGTCTTCAA
* ** * * * * * *
9083491 TTTTGGGAACTGCTCGGACTGAACCTTCAACTCCTGGTGCAGTGAGTTCTTCTCTGTAGCAAGAT
1 TTCTGAAAACTGCTCAGACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTATTGCAAGAT
* *
9083556 TTTTTGCCTCAAGTTTCAGTTGCCCAAGCAATCCAATAAGAACTGAATTCTCAATTATGAATTGC
66 TTTTAGCCTCTAGTTTCAGTTGCCCAAG-AATCCAATAAGAACTGAATTCTCAATTATGAATTGC
* * * * *
9083621 TGATTATCATCTAGAGACTTTAAATGTGAGTTTTGCATCTTGTGGATCCCTCCAAATATACAGTC
130 TGATTTTCATCCAGAGACTTTAAAAGTGAATTTTGCATCTTTTGGAT-CCTCCAAATATACAGTC
* * * *
9083686 AATAACTAATTGGTCTTGTTTGATCT-CATCATCATAACCATGG--A-CATCAATTTCAAGAG-C
194 AAGAACTGATTGGTCTTGTTTGAT-TGTATCATCATAACCATGGATAGCATCAAATTCAAGAGTC
** * * *
9083746 CATCAGTATTTGATAAAGCCACATCCTCAGTATAGTAATTCGATCAAATAAGGATTTTATCTCCA
258 C-TCAACATCTGATAAAGCCCCATCCTCAGTATAGTAATTTGATCAAATAAGGATTTTATCTCCA
* * * * * * *
9083811 TCTCTTTTTCAGAATTTCTGAGCTCCAATTCAGAGATAAGTTTTTCAGAAAAATTGGAGGCTTCT
322 TCTGTTTTT-GGAATTTCTAAGCTCCAATTCAGAGATAAGTTTTT-TGGATAATTGGAGGCTTCC
* *
9083876 AGGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCATATCTTGTGCACATTTCTG
385 AAGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATTTCTG
* * * *
9083941 CAAGATGAAGGTTTCTACATGAGCATTCATGGACC-TATCCAATTCCTCTTCATATTCTTTCTTT
450 CAAGATGAAGGTTTCTACATGAGCATTCATGG-CCTTATCTAGTTCCTCTTCGTATTCTTTCTTC
* * *
9084005 CTGCATAGACTTTCCCCTTGTAGAAAACGGATCTGAGATTCCATAGCAGTAACTCGGGTTTCATT
514 CTGCATAGACTTTCTCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATT
* * * ** *
9084070 CAACTGCATGAAACTGGCATATTCTTGCTTTTCTGCATCTAGTAACTTTTGTAGCTCTTCTACTT
579 CAACTTCA-CAAACTAGCATATTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTT
* * * * * **
9084135 CACTAAGTGTTAATTCTCTCTCTTTCTCCAGGCC-CATGTATTTTTTTTCTAAACCCCGATATCT
643 CACAAAGTGTTGATTCTCTCTCTTTCTCCAGACCACA--TATTTTTCTTCTAATCCTTGATATC-
* * * * * *
9084199 TTTTTCCGAATCTTCTAACCTTTTCTGACTGATACTCAACTCAGAAATCAAGCCTTCTCTTTGTC
705 TTTTTCCAAATCTTCCAACCTTTTCTGACTGATATTCAACTCAGAAATCAAACCTTCTCTCTGTG
* * ** *
9084264 TTATCAGGCCAGACTTCTCATCACCAAGCAGTAGGCATGAATTTTCTAAGCTCATT-ACCTTTAC
770 TTAGCAGGCCAGACTTCTCATCACCAAGCAGTAGGCATGAAATTTCTAAGCTC-TTAAGTTTTGC
* * * * *
9084328 CCTCAATCCTCCAAGTTCAACATTTACATCAAAAAG
834 TCTCAATACTTCAACTTCAACATTTGCATCAAAAAG
9084364 GAAATTCTCC
Statistics
Matches: 1508, Mismatches: 225, Indels: 59
0.84 0.13 0.03
Matches are distributed among these distances:
883 2 0.00
884 6 0.00
885 513 0.34
886 17 0.01
887 25 0.02
888 932 0.62
889 13 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (881 bp):
TTCTGAAAACTGCTCAGACTGAACCTTCAACTCCTGATGCAGTGAGTTATTTTCTATTGCAAGAT
TTTTAGCCTCTAGTTTCAGTTGCCCAAGAATCCAATAAGAACTGAATTCTCAATTATGAATTGCT
GATTTTCATCCAGAGACTTTAAAAGTGAATTTTGCATCTTTTGGATCCTCCAAATATACAGTCAA
GAACTGATTGGTCTTGTTTGATTGTATCATCATAACCATGGATAGCATCAAATTCAAGAGTCCTC
AACATCTGATAAAGCCCCATCCTCAGTATAGTAATTTGATCAAATAAGGATTTTATCTCCATCTG
TTTTTGGAATTTCTAAGCTCCAATTCAGAGATAAGTTTTTTGGATAATTGGAGGCTTCCAAGAGT
TTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCCAGATCTTGTGCACATTTCTGCAAGAT
GAAGGTTTCTACATGAGCATTCATGGCCTTATCTAGTTCCTCTTCGTATTCTTTCTTCCTGCATA
GACTTTCTCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTC
ACAAACTAGCATATTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTTCACAAAGT
GTTGATTCTCTCTCTTTCTCCAGACCACATATTTTTCTTCTAATCCTTGATATCTTTTTCCAAAT
CTTCCAACCTTTTCTGACTGATATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAGGCCA
GACTTCTCATCACCAAGCAGTAGGCATGAAATTTCTAAGCTCTTAAGTTTTGCTCTCAATACTTC
AACTTCAACATTTGCATCAAAAAGAGAAGTCTTCAA
Found at i:9088258 original size:2 final size:2
Alignment explanation
Indices: 9088251--9088279 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9088241 GACTGGAGTT
9088251 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9088280 TTTTAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9088346 original size:6 final size:6
Alignment explanation
Indices: 9088337--9088362 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9088327 AATATAAAAT
9088337 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
9088363 AATACAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:9090665 original size:32 final size:31
Alignment explanation
Indices: 9090629--9090688 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
9090619 CTTAAAAAGT
*
9090629 AATAGGTTTTGAGT-AGAAATAAATGTTCGAAA
1 AATAGGTTTTGA-TAAAAAATAAA-GTTCGAAA
9090661 AATAGGTTTTGATAAAAAATAAAGTTCG
1 AATAGGTTTTGATAAAAAATAAAGTTCG
9090689 TTTTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (31 bp):
AATAGGTTTTGATAAAAAATAAAGTTCGAAA
Found at i:9090809 original size:22 final size:22
Alignment explanation
Indices: 9090769--9090814 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
9090759 TTTGTTGTTG
*
9090769 TTGTTGTTTTGCTGCCATTTTA
1 TTGTTGTTTTGCTACCATTTTA
* *
9090791 TTGTTGTTTTGTTATCATTTTA
1 TTGTTGTTTTGCTACCATTTTA
9090813 TT
1 TT
9090815 ATTATATTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.15, T:0.65
Consensus pattern (22 bp):
TTGTTGTTTTGCTACCATTTTA
Found at i:9090824 original size:22 final size:22
Alignment explanation
Indices: 9090784--9090839 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
9090774 GTTTTGCTGC
* * *
9090784 CATTTTATTGTTGTTTTGTTAT
1 CATTTTATTATTATATTGTTAT
*
9090806 CATTTTATTATTATATTGTTGT
1 CATTTTATTATTATATTGTTAT
*
9090828 TATTTTATTATT
1 CATTTTATTATT
9090840 TTTATTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.68
Consensus pattern (22 bp):
CATTTTATTATTATATTGTTAT
Found at i:9090844 original size:14 final size:14
Alignment explanation
Indices: 9090813--9090855 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
9090803 TATCATTTTA
* *
9090813 TTATTATATTGTTG
1 TTATTTTATTATTG
*
9090827 TTATTTTATTATTT
1 TTATTTTATTATTG
*
9090841 TTATTTTAATATTG
1 TTATTTTATTATTG
9090855 T
1 T
9090856 ATAATTCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (14 bp):
TTATTTTATTATTG
Found at i:9094171 original size:23 final size:22
Alignment explanation
Indices: 9094140--9094184 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9094130 CAAATGTGTT
*
9094140 AAAACTATTAATTAAAAATAATA
1 AAAAATATT-ATTAAAAATAATA
* *
9094163 AAAAATATTTTTTAAAATAATA
1 AAAAATATTATTAAAAATAATA
9094185 CAATTGTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATATTATTAAAAATAATA
Found at i:9094519 original size:26 final size:26
Alignment explanation
Indices: 9094456--9094519 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
9094446 GACATTTTAT
** *
9094456 TTTTCAAAAGTACTTCTCAATGGCAC
1 TTTTCAAAAGTACTTCTCAAAAGCAA
* * * *
9094482 TTTTCCATAGTACTTTTTAAAAGCAA
1 TTTTCAAAAGTACTTCTCAAAAGCAA
9094508 TTTTCAAAAGTA
1 TTTTCAAAAGTA
9094520 TTGCTAAACT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (26 bp):
TTTTCAAAAGTACTTCTCAAAAGCAA
Found at i:9096110 original size:14 final size:14
Alignment explanation
Indices: 9096091--9096130 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9096081 TTGATTGGCT
9096091 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
9096105 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
9096119 GGAAAATGTTTT
1 GTAAAATGTTTT
9096131 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:9096143 original size:34 final size:35
Alignment explanation
Indices: 9096099--9096165 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
9096089 CTGTAAAATG
* *
9096099 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
9096133 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
9096166 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:9096152 original size:20 final size:20
Alignment explanation
Indices: 9096114--9096153 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9096104 CGTAAAATGA
**
9096114 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
9096134 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
9096154 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:9097540 original size:27 final size:27
Alignment explanation
Indices: 9097510--9097579 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
9097500 AATAATCAAT
*
9097510 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
9097537 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
9097565 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
9097580 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:9106003 original size:21 final size:20
Alignment explanation
Indices: 9105958--9106004 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
9105948 AAATAATAAA
*
9105958 TTAG-ATTATATATTATTTT
1 TTAGTATTATATATTATATT
9105977 TATAGTATTATATATTATGATT
1 T-TAGTATTATATATTAT-ATT
9105999 TTAGTA
1 TTAGTA
9106005 AATTCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 17 0.71
22 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
TTAGTATTATATATTATATT
Found at i:9106107 original size:59 final size:60
Alignment explanation
Indices: 9106012--9106315 Score: 298
Period size: 59 Copynumber: 5.1 Consensus size: 60
9106002 GTAAATTCAT
*
9106012 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTA
1 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAAGTATATTTA
* * * * * * * ** * *
9106072 ATAATAATTATTTTAGATT-A-TATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCA
1 ATAAGAA-TATTTAATATTAAGAATTTTATTA-AATTATATATTTTTATTAAAGTATATTTA
*
9106131 TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTA
1 -ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAAGTATATTTA
* * * ** * *
9106192 ATAAAAAGTATTTTAA-ATT-A-TATTTTA-TAATATTATATATTATTATTTTAGTAAATTCA
1 ATAAGAA-TA-TTTAATATTAAGAATTTTATTAA-ATTATATATTTTTATTAAAGTATATTTA
* *
9106251 TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
1 -ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAAGTATATTTA
9106312 ATAA
1 ATAA
9106316 TAATTATGTT
Statistics
Matches: 189, Mismatches: 41, Indels: 28
0.73 0.16 0.11
Matches are distributed among these distances:
58 10 0.05
59 69 0.37
60 32 0.17
61 68 0.36
62 10 0.05
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (60 bp):
ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAAGTATATTTA
Found at i:9106110 original size:120 final size:120
Alignment explanation
Indices: 9105969--9106328 Score: 641
Period size: 120 Copynumber: 3.0 Consensus size: 120
9105959 TAGATTATAT
9105969 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
9106033 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAG
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
9106088 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
9106153 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAAAAGTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
* *
9106208 ATTATATTTTATAATATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* * *
9106273 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
9106328 A
1 A
9106329 ATATGATTAA
Statistics
Matches: 230, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
119 5 0.02
120 225 0.98
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:9106300 original size:18 final size:17
Alignment explanation
Indices: 9106274--9106308 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9106264 AATATTAAGA
*
9106274 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9106291 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9106309 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9106553 original size:45 final size:44
Alignment explanation
Indices: 9106472--9106561 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
9106462 ACCTCAATTC
*
9106472 CATTCAACCAAACACAAGAATACTATTACACCTCTATTTCATTA
1 CATTCAACCAAACACAAGAATACTATTACACCTCTATTCCATTA
* * *
9106516 CATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGAA-TACTATTACACCTCTATTCCATTA
9106561 C
1 C
9106562 GCCTCTATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 17 0.43
45 22 0.55
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACACCTCTATTCCATTA
Found at i:9106562 original size:16 final size:16
Alignment explanation
Indices: 9106541--9106573 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9106531 TTGAATTGCT
9106541 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
9106557 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
9106573 A
1 A
9106574 ATACAGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:9113549 original size:18 final size:18
Alignment explanation
Indices: 9113526--9113565 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9113516 CATCCGAATA
* * *
9113526 TAATTTACATTTATTATT
1 TAATTTAAATATAATATT
9113544 TAATTTAAATATAATATT
1 TAATTTAAATATAATATT
9113562 TAAT
1 TAAT
9113566 AATTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTTAAATATAATATT
Found at i:9119858 original size:27 final size:28
Alignment explanation
Indices: 9119810--9119863 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
9119800 AAAACTAGAA
*
9119810 AAAGTTTTCTCCTTTTGGGGGTGAAAACG
1 AAAGTTCTCTCCTTTT-GGGGTGAAAACG
9119839 AAAGTTCTCTCCTTTT-GGGTGAAAA
1 AAAGTTCTCTCCTTTTGGGGTGAAAA
9119864 TAAAAATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.38
29 15 0.62
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (28 bp):
AAAGTTCTCTCCTTTTGGGGTGAAAACG
Found at i:9119873 original size:27 final size:28
Alignment explanation
Indices: 9119808--9119876 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
9119798 ACAAAACTAG
*
9119808 AAAAAGTTTTCTCCTTTTGGGGGTGAAAAC
1 AAAAA-TTCTCTCCTTTT-GGGGTGAAAAC
* * *
9119838 GAAAGTTCTCTCCTTTT-GGGTGAAAAT
1 AAAAATTCTCTCCTTTTGGGGTGAAAAC
9119865 AAAAATTCTCTC
1 AAAAATTCTCTC
9119877 TTCTTAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 19 0.58
29 11 0.33
30 3 0.09
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (28 bp):
AAAAATTCTCTCCTTTTGGGGTGAAAAC
Found at i:9121145 original size:18 final size:20
Alignment explanation
Indices: 9121122--9121171 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
9121112 ATGCAAAAAC
9121122 GGTATCGATATAAAAT-A-A
1 GGTATCGATATAAAATCAGA
*
9121140 GGTATCGATA-AAATTCAGTA
1 GGTATCGATATAAAATCAG-A
9121160 GGTATCGATATA
1 GGTATCGATATA
9121172 TTTCTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 11 0.41
20 11 0.41
21 1 0.04
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (20 bp):
GGTATCGATATAAAATCAGA
Found at i:9121626 original size:12 final size:12
Alignment explanation
Indices: 9121609--9121633 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9121599 TGCAAATGGA
9121609 TCATTTCCATTT
1 TCATTTCCATTT
9121621 TCATTTCCATTT
1 TCATTTCCATTT
9121633 T
1 T
9121634 TAGAAACCTA
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:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:9122801 original size:2 final size:2
Alignment explanation
Indices: 9122794--9122847 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
9122784 ATGTATTCGA
9122794 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
9122836 AT AT AT AT AT AT
1 AT AT AT AT AT AT
9122848 TCATCTATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9141186 original size:16 final size:17
Alignment explanation
Indices: 9141155--9141187 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9141145 CCAAAGCTAA
*
9141155 AGTTTCTTATCTGTACC
1 AGTTTCTTAACTGTACC
9141172 AGTTT-TTAACTGTACC
1 AGTTTCTTAACTGTACC
9141188 TTCAAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (17 bp):
AGTTTCTTAACTGTACC
Found at i:9142268 original size:40 final size:40
Alignment explanation
Indices: 9142211--9142294 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
9142201 GAGGGTACTA
* * * *
9142211 TGGGTAGTCACCCTTAGGAGTCATGCCGTGAATGGTTTTG
1 TGGGTAGTCACCCTTAGGAGCCACGCCATGAATGGTTTCG
* * *
9142251 TGGGTGGTCACCTTTAGGAGCCACGCCATGGATGGTTTCG
1 TGGGTAGTCACCCTTAGGAGCCACGCCATGAATGGTTTCG
9142291 TGGG
1 TGGG
9142295 AAGGTACCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.15, C:0.19, G:0.36, T:0.30
Consensus pattern (40 bp):
TGGGTAGTCACCCTTAGGAGCCACGCCATGAATGGTTTCG
Found at i:9142423 original size:24 final size:25
Alignment explanation
Indices: 9142370--9142423 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
9142360 ATACTTGTGT
* *
9142370 ATGGTTCCACAGGAGGGTACCATGG
1 ATGGTTCCACAGGAGAGTAACATGG
*
9142395 ATGGTTCCATA-GAGAGTAACATGG
1 ATGGTTCCACAGGAGAGTAACATGG
*
9142419 GTGGT
1 ATGGT
9142424 ACTCGTGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (25 bp):
ATGGTTCCACAGGAGAGTAACATGG
Found at i:9144799 original size:23 final size:23
Alignment explanation
Indices: 9144772--9144870 Score: 144
Period size: 23 Copynumber: 4.3 Consensus size: 23
9144762 AGTGTTATTG
*
9144772 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9144795 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9144818 TTCAGTGGTAGCTTCGGCTACAA
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9144841 AACAGTGGTAGCTTCGTCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9144864 ATCAGTG
1 ATCAGTG
9144871 TTGCACTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9146755 original size:36 final size:36
Alignment explanation
Indices: 9146700--9146797 Score: 126
Period size: 36 Copynumber: 2.7 Consensus size: 36
9146690 AGCTGTGCAA
*
9146700 AAACCAT-TCATTGATGATATAAAGTGCAAGAAGTGT
1 AAACCATCT-ATTGATGATATAAAATGCAAGAAGTGT
* * * *
9146736 AGACCATCTGTTGACGATATAAAATGGAAGAAGTGT
1 AAACCATCTATTGATGATATAAAATGCAAGAAGTGT
*
9146772 AAACCATTTATTGATGATATAAAATG
1 AAACCATCTATTGATGATATAAAATG
9146798 TAAGCAATGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 51 0.98
37 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (36 bp):
AAACCATCTATTGATGATATAAAATGCAAGAAGTGT
Found at i:9147056 original size:29 final size:29
Alignment explanation
Indices: 9147012--9147075 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
9147002 AGGATGAAGG
* * * *
9147012 GTATGGTGACTCGAACAGGTTGTTGACGA
1 GTATGGCGACTCGAACAAGTTGTTAACAA
*
9147041 GTATGGCGACTTGAACAAGTTGTTAACAA
1 GTATGGCGACTCGAACAAGTTGTTAACAA
9147070 GTATGG
1 GTATGG
9147076 TGACCCGAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.28
Consensus pattern (29 bp):
GTATGGCGACTCGAACAAGTTGTTAACAA
Found at i:9156078 original size:67 final size:67
Alignment explanation
Indices: 9155966--9156103 Score: 267
Period size: 67 Copynumber: 2.1 Consensus size: 67
9155956 ATGCAAGTTC
*
9155966 AAATGATGTTTCTATTGGTTATTTGAGAAAGAAATTTAACTCTCGAGGGGGTTTAGTCCAAAATG
1 AAATGATGTTTCTATTGGTTATTTGAGAAAGAAATTTAACCCTCGAGGGGGTTTAGTCCAAAATG
9156031 GT
66 GT
9156033 AAATGATGTTTCTATTGGTTATTTGAGAAAGAAATTTAACCCTCGAGGGGGTTTAGTCCAAAATG
1 AAATGATGTTTCTATTGGTTATTTGAGAAAGAAATTTAACCCTCGAGGGGGTTTAGTCCAAAATG
9156098 GT
66 GT
9156100 AAAT
1 AAAT
9156104 ATCTTCATAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (67 bp):
AAATGATGTTTCTATTGGTTATTTGAGAAAGAAATTTAACCCTCGAGGGGGTTTAGTCCAAAATG
GT
Found at i:9157553 original size:17 final size:17
Alignment explanation
Indices: 9157533--9157630 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
9157523 ATTTCAAGAC
9157533 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
9157550 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
9157569 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
9157587 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
9157606 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
9157624 TTATGTA
1 TTATGTA
9157631 GTGATTCAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.43
18 8 0.14
19 7 0.12
20 17 0.30
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:9157569 original size:37 final size:37
Alignment explanation
Indices: 9157528--9157639 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
9157518 TGTTAATTTC
9157528 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
9157565 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
9157602 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
9157639 A
1 A
9157640 TTTGGGTAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:9157575 original size:20 final size:19
Alignment explanation
Indices: 9157549--9157639 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 19
9157539 AATGTTTTTA
9157549 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
9157568 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
9157586 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* * **
9157605 ATTTATGTAATGCTT-TTA-
1 A-TTATGTAGTGATTCAAAG
9157623 ATTATGTAGTGATTCAA
1 ATTATGTAGTGATTCAA
9157640 TTTGGGTAAT
Statistics
Matches: 51, Mismatches: 16, Indels: 11
0.65 0.21 0.14
Matches are distributed among these distances:
17 19 0.37
18 6 0.12
19 7 0.14
20 19 0.37
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:9159870 original size:13 final size:13
Alignment explanation
Indices: 9159852--9159876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9159842 ATGCGGTTGC
9159852 ATTTTAGCACTGT
1 ATTTTAGCACTGT
9159865 ATTTTAGCACTG
1 ATTTTAGCACTG
9159877 CCGTGTAATA
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:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTTTAGCACTGT
Found at i:9164087 original size:2 final size:2
Alignment explanation
Indices: 9164080--9164147 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
9164070 AGATATAATG
9164080 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9164122 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
9164148 CATTGCCAAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9180696 original size:17 final size:16
Alignment explanation
Indices: 9180674--9180707 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9180664 AATTATATTT
*
9180674 TAATTATTTTTAATAAA
1 TAATTATTATTAA-AAA
9180691 TAATTATTATTAAAAA
1 TAATTATTATTAAAAA
9180707 T
1 T
9180708 GAAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATTATTAAAAA
Found at i:9181144 original size:10 final size:11
Alignment explanation
Indices: 9181111--9181148 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
9181101 ACATCAAACC
9181111 TTAAATTTTTAA
1 TTAAATTTTT-A
*
9181123 ATAAATTTTTA
1 TTAAATTTTTA
9181134 TTAAA-TTTTA
1 TTAAATTTTTA
9181144 TTAAA
1 TTAAA
9181149 AATTGGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAAATTTTTA
Found at i:9185412 original size:51 final size:52
Alignment explanation
Indices: 9185336--9185451 Score: 162
Period size: 51 Copynumber: 2.2 Consensus size: 52
9185326 AAACTTAATC
* * * * *
9185336 AATTTAATATTAAATTGATATAATATTTATAT-CAATATAAATATTAGATTA
1 AATTTAATATTAAATTAATAGAATATTTATATACAAGATAAACATTAAATTA
* *
9185387 AATTTAATATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTT
1 AATTTAATATTAAATTAATAGAATATTTATATACAAGATAAACATTAAATTA
9185439 AATTTAATATTAA
1 AATTTAATATTAA
9185452 GATAATCATT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 29 0.51
52 28 0.49
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (52 bp):
AATTTAATATTAAATTAATAGAATATTTATATACAAGATAAACATTAAATTA
Found at i:9185519 original size:68 final size:72
Alignment explanation
Indices: 9185389--9185519 Score: 189
Period size: 68 Copynumber: 1.9 Consensus size: 72
9185379 TTAGATTAAA
* *
9185389 TTTAATATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGA
1 TTTAATATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGA
9185454 TAATCAT
66 TAATCAT
** *
9185461 TTTAATATTAAATTAATAAAATA-CTAT-TA-AA-ATAAGTATTTAATTTAATTTAATATTAA
1 TTTAATATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
9185520 ATCTATTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 25 0.46
69 2 0.04
70 2 0.04
71 3 0.06
72 22 0.41
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (72 bp):
TTTAATATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGA
TAATCAT
Found at i:9185526 original size:38 final size:37
Alignment explanation
Indices: 9185446--9185537 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 37
9185436 TTTAATTTAA
*
9185446 TATTAAGATAATCATTTTAATATTAAATTAATAAAATAC
1 TATTAAAATAAT-A-TTTAATATTAAATTAATAAAATAC
*
9185485 TATTAAAATAAGTATTTAAT-TTAATTTAATATTAAAT-C
1 TATTAAAATAA-TATTTAATATTAAATTAATA--AAATAC
9185523 TATTAAAATAATATT
1 TATTAAAATAATATT
9185538 ATTTTTGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
37 14 0.29
38 18 0.38
39 15 0.31
40 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (37 bp):
TATTAAAATAATATTTAATATTAAATTAATAAAATAC
Found at i:9185535 original size:68 final size:72
Alignment explanation
Indices: 9185391--9185538 Score: 162
Period size: 68 Copynumber: 2.1 Consensus size: 72
9185381 AGATTAAATT
* *
9185391 TAATATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGATA
1 TAATATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGATA
***
9185456 ATCATTT
66 ATCAAAA
** *
9185463 TAATATTAAATTAATAAAATA-CTAT-TA-AA-ATAAGTATTTAATTTAATTTAATATTAA-ATC
1 TAATATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGAT-
* *
9185523 TATTAAAA
65 AATCAAAA
9185531 TAATATTA
1 TAATATTA
9185539 TTTTTGGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
67 2 0.03
68 36 0.55
69 2 0.03
70 2 0.03
71 3 0.05
72 20 0.31
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (72 bp):
TAATATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGATA
ATCAAAA
Found at i:9188835 original size:18 final size:19
Alignment explanation
Indices: 9188802--9188842 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
9188792 TTCATTTAAT
*
9188802 TTACTGTACGGGTAGTCAA
1 TTACCGTACGGGTAGTCAA
9188821 TTACCGTAC-GGTAGTCAA
1 TTACCGTACGGGTAGTCAA
9188839 TTAC
1 TTAC
9188843 ATATCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (19 bp):
TTACCGTACGGGTAGTCAA
Found at i:9193914 original size:2 final size:2
Alignment explanation
Indices: 9193907--9193938 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9193897 GTATACAAAC
9193907 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
9193939 TAAAAGTTAG
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:9196114 original size:14 final size:14
Alignment explanation
Indices: 9196095--9196123 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9196085 TCTTTTTATT
9196095 TGTATATATATATA
1 TGTATATATATATA
9196109 TGTATATATATATA
1 TGTATATATATATA
9196123 T
1 T
9196124 ATTTGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TGTATATATATATA
Found at i:9199239 original size:3 final size:3
Alignment explanation
Indices: 9199227--9199257 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9199217 AACACAAAAT
9199227 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9199258 TATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9203335 original size:21 final size:21
Alignment explanation
Indices: 9203296--9203335 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9203286 TAAGGAATAA
* *
9203296 GATTGTATAGAGTTTAAATCT
1 GATTGTATAGAGGTGAAATCT
9203317 GATTGTATAGAGGTGAAAT
1 GATTGTATAGAGGTGAAAT
9203336 ACTACAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (21 bp):
GATTGTATAGAGGTGAAATCT
Found at i:9213626 original size:18 final size:18
Alignment explanation
Indices: 9213605--9213641 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9213595 TAAATTTTCA
* *
9213605 AATTCGAATAACTCAAAT
1 AATTCAAATAAATCAAAT
9213623 AATTCAAATAAATCAAAT
1 AATTCAAATAAATCAAAT
9213641 A
1 A
9213642 CCAAACCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCAAAT
Found at i:9216121 original size:16 final size:17
Alignment explanation
Indices: 9216054--9216126 Score: 57
Period size: 16 Copynumber: 4.5 Consensus size: 17
9216044 ATAATTAATT
9216054 AATATTTT-TATATTTA
1 AATATTTTATATATTTA
*
9216070 AA-ATTATTA-A-ATCTA
1 AATATT-TTATATATTTA
* *
9216085 ATTCATTTGATATATTTA
1 AAT-ATTTTATATATTTA
*
9216103 AATCTTTTATATA-TTA
1 AATATTTTATATATTTA
9216119 AATATTTT
1 AATATTTT
9216127 TCTAAAACAT
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
15 8 0.19
16 17 0.40
17 12 0.28
18 6 0.14
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (17 bp):
AATATTTTATATATTTA
Found at i:9219705 original size:20 final size:21
Alignment explanation
Indices: 9219680--9219722 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9219670 AAAAATTATA
9219680 ATATTA-TTTTATGAATA-AGT
1 ATATTATTTTTAT-AATATAGT
9219700 ATATTATTTTTATAATATAGT
1 ATATTATTTTTATAATATAGT
9219721 AT
1 AT
9219723 GAACACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
ATATTATTTTTATAATATAGT
Found at i:9221244 original size:15 final size:15
Alignment explanation
Indices: 9221219--9221253 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9221209 GACTCTATTT
*
9221219 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
9221233 TAATTAATATTAAGA
1 TAATTAATATTAAGA
9221248 TAATTA
1 TAATTA
9221254 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:9223617 original size:40 final size:40
Alignment explanation
Indices: 9223573--9223746 Score: 174
Period size: 40 Copynumber: 4.4 Consensus size: 40
9223563 CCAGTTTGGT
* *
9223573 ACCCAGTGCCTCATCGGATAATTCGAAGTAATAGATTGAC
1 ACCCAGTGTCTCATCGGATAAATCGAAGTAATAGATTGAC
* *
9223613 ACCCAATGTCTCATCGGCTAAATCGAAGTAATAGATTGAC
1 ACCCAGTGTCTCATCGGATAAATCGAAGTAATAGATTGAC
* * * * *
9223653 ACTCAGTGTCTTATCGGCTAAATCAAAGT-A-A-ATTGGC
1 ACCCAGTGTCTCATCGGATAAATCGAAGTAATAGATTGAC
* * * * * *
9223690 ACCCAGTGCCTCATTGAATTAATCTGAAGTAGTAAATTGAC
1 ACCCAGTGTCTCATCGGATAAATC-GAAGTAATAGATTGAC
*
9223731 ACCTAGTGTCTCATCG
1 ACCCAGTGTCTCATCG
9223747 ATTTGAAGTC
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
37 22 0.20
38 5 0.05
39 1 0.01
40 62 0.57
41 18 0.17
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (40 bp):
ACCCAGTGTCTCATCGGATAAATCGAAGTAATAGATTGAC
Found at i:9224647 original size:18 final size:17
Alignment explanation
Indices: 9224624--9224686 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 17
9224614 CTTGCGTTTC
9224624 TTCTTTCTTTCTTTTCTT
1 TTCTTTCTTTC-TTTCTT
9224642 TTCTTTCTTTCCTTTCTGT
1 TTCTTTCTTT-CTTTCT-T
*
9224661 TTCGTTTTGTTTCTTTCTT
1 TTC--TTTCTTTCTTTCTT
9224680 TCTCTTT
1 T-TCTTT
9224687 TTATTTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 18 0.46
19 7 0.18
20 8 0.21
21 6 0.15
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (17 bp):
TTCTTTCTTTCTTTCTT
Found at i:9224726 original size:20 final size:21
Alignment explanation
Indices: 9224700--9224746 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 21
9224690 TTTCATTTAC
9224700 TTAT-TATATTTACTTTATTAATA
1 TTATATATATTTAC-TTA--AATA
9224723 TTATATATATTTACTTAAATA
1 TTATATATATTTACTTAAATA
9224744 TTA
1 TTA
9224747 AGTAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATATATATTTACTTAAATA
Found at i:9224760 original size:41 final size:41
Alignment explanation
Indices: 9224715--9224801 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
9224705 ATATTTACTT
*
9224715 TATTAATATTATATATATTT-ACTTAA-ATATTAAGTAATATA
1 TATTAATAATATATAT-TTTAACTTAATATATTAA-TAATATA
* *
9224756 TATT-ATAATATATATTTTAAATTTAATTTATTAATAATATA
1 TATTAATAATATATATTTT-AACTTAATATATTAATAATATA
9224797 TATTA
1 TATTA
9224802 TACTTTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
39 3 0.08
40 10 0.26
41 20 0.51
42 6 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (41 bp):
TATTAATAATATATATTTTAACTTAATATATTAATAATATA
Found at i:9230614 original size:28 final size:28
Alignment explanation
Indices: 9230569--9230623 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
9230559 TCGCACCCAA
9230569 TCGCCCATCCAAACCTACCCTAAGCCTT
1 TCGCCCATCCAAACCTACCCTAAGCCTT
* * *
9230597 TCGCTCATTCAAATCTACCCTAAGCCT
1 TCGCCCATCCAAACCTACCCTAAGCCT
9230624 CATGCATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.07, T:0.25
Consensus pattern (28 bp):
TCGCCCATCCAAACCTACCCTAAGCCTT
Found at i:9233644 original size:21 final size:21
Alignment explanation
Indices: 9233618--9233714 Score: 162
Period size: 21 Copynumber: 4.7 Consensus size: 21
9233608 AATCATATCT
9233618 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
9233639 TCTAAGATTTCATATATCATA
1 TCTAAGATTGCATATATCATA
9233660 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
9233681 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
*
9233700 TCTAAGATTGTATAT
1 TCTAAGATTGCATAT
9233715 CCTCGAAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 18 0.25
21 53 0.75
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:9233977 original size:44 final size:44
Alignment explanation
Indices: 9233918--9234002 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
9233908 AGGAATTCGT
9233918 GCTTCAATCTACTCCACTGCAACTTCAGG-GAGATAAGACTTATA
1 GCTTCAATCTACTCCACTGCAACTTCAGGAG-GATAAGACTTATA
* * *
9233962 GCTTTAATCTGCTCCACTGCCACTTCAGGAGGATAAGACTT
1 GCTTCAATCTACTCCACTGCAACTTCAGGAGGATAAGACTT
9234003 GCTGGCTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 36 0.97
45 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCAACTTCAGGAGGATAAGACTTATA
Found at i:9234160 original size:132 final size:132
Alignment explanation
Indices: 9234000--9234954 Score: 1578
Period size: 132 Copynumber: 7.3 Consensus size: 132
9233990 GAGGATAAGA
*
9234000 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGAT-TTGCT
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTT-CT
* *
9234064 CCACTACTGCTTAAGGAGATAATATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACA
65 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACA
9234129 AGG
130 AGG
* * *
9234132 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTTCTC
* * *
9234197 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTATTCCGTTGCTGCTCATGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
*
9234262 GA
131 GG
* *
9234264 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTTTTCAATCTTCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTTCTC
*
9234329 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
9234394 GG
131 GG
* *
9234396 CTTGGTGGCTTAAATTTGCTTCCTACTATCTTGGAAAGATAAGATTTGT-CGTCTTCGATCTTCT
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTCGATCTTCT
9234460 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACA
65 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACA
9234525 AGG
130 AGG
*
9234528 CTTGGT-GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCAATCTTCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTTCTC
* *
9234592 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCCGCTGCTCATGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
9234657 GG
131 GG
* * * * *
9234659 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGTTCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTTCTC
* *
9234724 TACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGAGAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
9234789 GG
131 GG
* *
9234791 CTTGGT-GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTTCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTTCTC
* * *
9234855 CACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTCCTCCGCTGCTGCTCAGAGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
9234920 GG
131 GG
*
9234922 CTTGGTGGCTTAAATATGC-TCCCACTATCTTGG
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
9234955 TNNNNNNNNN
Statistics
Matches: 771, Mismatches: 47, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
130 1 0.00
131 261 0.34
132 507 0.66
133 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (132 bp):
CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTTCTC
CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
GG
Found at i:9234365 original size:44 final size:44
Alignment explanation
Indices: 9234317--9234628 Score: 144
Period size: 44 Copynumber: 7.1 Consensus size: 44
9234307 ATTTTCCGTT
*
9234317 TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
1 TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAGTC
* * * * * * * * **
9234361 TTCAACCTACTCCGCTGCTGCTCATGGAGACAAG-GCT-TGGTGGC
1 TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAGT--C
* * * *
9234405 TTAAAT-TTGCTTCCTACTA-T-CTT-GGAAAGATAAGATTTGTC-GTC
1 TTCAATCTT-C-TCC-ACTACTGCTTAGG-GAGATAAGATCT-ACAGTC
* *
9234449 TTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
1 TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAGTC
* * * * * * * **
9234493 TTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG-GCT-TGGTGC
1 TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAGT-C
* * * * * *
9234536 TTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTTCCGTC
1 TTCAATCTTC-T-CCACTACTGCTTAGG-GAGATAAGATCTACAGTC
*
9234580 TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
1 TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAGTC
9234624 TTCAA
1 TTCAA
9234629 CCTACTCCGC
Statistics
Matches: 186, Mismatches: 59, Indels: 46
0.64 0.20 0.16
Matches are distributed among these distances:
42 14 0.08
43 29 0.16
44 122 0.66
45 17 0.09
46 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (44 bp):
TTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAGTC
Found at i:9234660 original size:263 final size:263
Alignment explanation
Indices: 9234007--9234954 Score: 1623
Period size: 263 Copynumber: 3.6 Consensus size: 263
9233997 AGACTTGCTG
*
9234007 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGAT-TTGCTCCACTAC
1 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCAATCTT-CTCCACTAC
* * *
9234071 TGCTTAAGGAGATAATATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
65 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGACAAGGCTTG
9234136 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACT
130 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACT
* * * *
9234201 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTATTCCGTTGCTGCTCATGGAGACAAGACT
195 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCT
9234266 TGGT
260 TGGT
*
9234270 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTTTTCAATCTTCTCCACTAC
1 -GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCAATCTTCTCCACTAC
9234335 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGACAAGGCTTG
65 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGACAAGGCTTG
* * * * *
9234400 GTGGCTTAAATTTGCTTCCTACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTTCTCCACT
130 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACT
9234465 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCT
195 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCT
9234530 TGGT
260 TGGT
9234534 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCAATCTTCTCCACTACT
1 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCAATCTTCTCCACTACT
*
9234599 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCCGCTGCTCATGGAGACAAGGCTTGG
66 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGACAAGGCTTGG
* * *
9234664 TGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGTTCTGCTCTACTA
131 TGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTA
*
9234729 CTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGAGAAGGCTT
196 CTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTT
9234794 GGT
261 GGT
* **
9234797 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTTCTCCACTACT
1 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCAATCTTCTCCACTACT
* *
9234862 GCTTAGGGAGATAAGATCTACAATTTTCAACCTCCTCCGCTGCTGCTCA-GAGAGACAAGGCTTG
66 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATG-GAGACAAGGCTTG
*
9234926 GTGGCTTAAATATGC-TCCCACTATCTTGG
130 GTGGCTTAAATCTGCTTCCCACTATCTTGG
9234955 TNNNNNNNNN
Statistics
Matches: 650, Mismatches: 32, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
262 15 0.02
263 387 0.60
264 246 0.38
265 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (263 bp):
GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCAATCTTCTCCACTACT
GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGACAAGGCTTGG
TGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTT
GGT
Found at i:9240175 original size:40 final size:40
Alignment explanation
Indices: 9240120--9240200 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
9240110 TGAACGTCTA
9240120 TGTCCAAACTCAAGTTCATCTTTTCCACCTCCATTTGCTC
1 TGTCCAAACTCAAGTTCATCTTTTCCACCTCCATTTGCTC
* * * *
9240160 TGTCCAAACTCAAGTTCGTCTTTTCCGCCTTCATTTTCTC
1 TGTCCAAACTCAAGTTCATCTTTTCCACCTCCATTTGCTC
9240200 T
1 T
9240201 ATCCTTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.17, C:0.33, G:0.09, T:0.41
Consensus pattern (40 bp):
TGTCCAAACTCAAGTTCATCTTTTCCACCTCCATTTGCTC
Found at i:9243921 original size:19 final size:19
Alignment explanation
Indices: 9243899--9243962 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
9243889 AATATTATAT
9243899 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
9243918 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
9243939 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
9243958 ATATC
1 ATATC
9243963 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:9243921 original size:21 final size:21
Alignment explanation
Indices: 9243897--9243961 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
9243887 CTAATATTAT
9243897 ATATATCATATCTAAGATTGC
1 ATATATCATATCTAAGATTGC
9243918 ATATATCATATCTAAGATTGC
1 ATATATCATATCTAAGATTGC
*
9243939 --ATATCATATCTAAGATTGT
1 ATATATCATATCTAAGATTGC
9243958 ATAT
1 ATAT
9243962 CCTCGAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.44
21 23 0.56
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (21 bp):
ATATATCATATCTAAGATTGC
Found at i:9244992 original size:40 final size:38
Alignment explanation
Indices: 9244943--9245068 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 38
9244933 TTTTTTAAAA
9244943 TTTTAAAATATTTTTACATACTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTACAT--TTTTTTAATTTTAAAATAT
9244983 TTTT-AAA-A----TAC-TTTTTTTAATTTTAAAATA-
1 TTTTAAAATATTTTTACATTTTTTTAATTTTAAAATAT
9245013 TTTTAAAATACTTTTTTTA-ATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATA---TTTTTACA-TTTTTTTAATTTTAAAATAT
9245054 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
9245069 TTAATTTTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 26
0.74 0.00 0.26
Matches are distributed among these distances:
30 4 0.05
31 21 0.28
32 1 0.01
33 1 0.01
34 3 0.04
38 6 0.08
39 5 0.07
40 23 0.31
41 10 0.14
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (38 bp):
TTTTAAAATATTTTTACATTTTTTTAATTTTAAAATAT
Found at i:9244994 original size:30 final size:31
Alignment explanation
Indices: 9244941--9245036 Score: 162
Period size: 30 Copynumber: 3.2 Consensus size: 31
9244931 TATTTTTTAA
*
9244941 AATTTTAAAATATTTTT-ACATAC-TTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTT
9244970 AATTTTAAAATATTTTTAAAATACTTTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTT
9245001 AATTTTAAAATA-TTTTAAAATACTTTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTT
9245031 AATTTT
1 AATTTT
9245037 TTTTAATTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
29 17 0.27
30 29 0.45
31 18 0.28
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (31 bp):
AATTTTAAAATATTTTTAAAATACTTTTTTT
Found at i:9245046 original size:30 final size:30
Alignment explanation
Indices: 9244983--9245081 Score: 112
Period size: 30 Copynumber: 3.3 Consensus size: 30
9244973 TTTAAAATAT
***
9244983 TTTTAAAATACTTTTTTTAA-TTTTAAAATA
1 TTTTAAAATACTTTTTTTAATTTTTTTTA-A
9245013 TTTTAAAATACTTTTTTTAATTTTTTTTAA
1 TTTTAAAATACTTTTTTTAATTTTTTTTAA
**
9245043 TTTTAAAATA-TTTTTAAAATATTTTTTTAA
1 TTTTAAAATACTTTTTTTAAT-TTTTTTTAA
9245073 TTTTTAAAA
1 -TTTTAAAA
9245082 ATTTTTAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.13
30 40 0.66
31 13 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTAAAATACTTTTTTTAATTTTTTTTAA
Found at i:9245047 original size:60 final size:59
Alignment explanation
Indices: 9244931--9245057 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 59
9244921 TGAATATATT
* * * *
9244931 TATTTTTTAAAATTTTAAAATATTTTTACATACTTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTT-TAATTTTAAAATATTTTAAAATACTTTTTTAATTTTAAAATAATTTTAAAA
***
9244991 TACTTTTTTTAATTTTAAAATATTTTAAAATACTTTTTTTAATTTT-TTTTAATTTTAAAA
1 TA-TTTTTTTAATTTTAAAATATTTTAAAATAC-TTTTTTAATTTTAAAATAATTTTAAAA
9245051 TATTTTT
1 TATTTTT
9245058 AAAATATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
59 5 0.09
60 35 0.60
61 18 0.31
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (59 bp):
TATTTTTTTAATTTTAAAATATTTTAAAATACTTTTTTAATTTTAAAATAATTTTAAAA
Found at i:9245069 original size:40 final size:39
Alignment explanation
Indices: 9244971--9245077 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 39
9244961 TACTTTTTTA
**
9244971 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTAAAAT
1 ATTTTAAAATATTTTTTTAAT--TTTTTTTAATTTTAAAAT
9245012 ATTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAAAT
1 ATTTTAAAATA-TTTTTTTAATTTTTTTTAATTTTAAAAT
9245052 ATTTTTAAAATATTTTTTTAATTTTT
1 A-TTTTAAAATATTTTTTTAATTTTT
9245078 AAAAATTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
40 33 0.53
41 21 0.34
42 8 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
ATTTTAAAATATTTTTTTAATTTTTTTTAATTTTAAAAT
Found at i:9245071 original size:13 final size:11
Alignment explanation
Indices: 9244972--9245093 Score: 77
Period size: 11 Copynumber: 11.9 Consensus size: 11
9244962 ACTTTTTTAA
9244972 TTTTAAAATAT
1 TTTTAAAATAT
9244983 TTTTAAAATACT
1 TTTTAAAATA-T
* *
9244995 TTTT---TTAA
1 TTTTAAAATAT
9245003 TTTTAAAATA-
1 TTTTAAAATAT
9245013 TTTTAAAATACT
1 TTTTAAAATA-T
**
9245025 TTTTTTAAT-T
1 TTTTAAAATAT
* *
9245035 TTTT---TTAA
1 TTTTAAAATAT
9245043 TTTTAAAATAT
1 TTTTAAAATAT
9245054 TTTTAAAATAT
1 TTTTAAAATAT
**
9245065 TTTT-TTA-AT
1 TTTTAAAATAT
9245074 TTTTAAAA-AT
1 TTTTAAAATAT
9245084 TTTTAAAATA
1 TTTTAAAATA
9245094 AAAATGGGCC
Statistics
Matches: 86, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
7 1 0.01
8 8 0.09
9 8 0.09
10 27 0.31
11 30 0.35
12 12 0.14
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:9245085 original size:40 final size:40
Alignment explanation
Indices: 9245001--9245093 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
9244991 TACTTTTTTT
***
9245001 AATTTTAAAATATTTTAAAATACTTTTTTTAATTTTTTTT
1 AATTTTAAAATATTTTAAAATACTTTTTTTAATTTTTAAA
9245041 AATTTTAAAATATTTTTAAAATA-TTTTTTTAATTTTTAAA
1 AATTTTAAAATA-TTTTAAAATACTTTTTTTAATTTTTAAA
9245081 AATTTTTAAAATA
1 AA-TTTTAAAATA
9245094 AAAATGGGCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
40 28 0.58
41 20 0.42
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (40 bp):
AATTTTAAAATATTTTAAAATACTTTTTTTAATTTTTAAA
Found at i:9245086 original size:30 final size:30
Alignment explanation
Indices: 9245012--9245093 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 30
9245002 ATTTTAAAAT
**
9245012 ATTTTAAAATACTTTTTTTAAT-TTTTTTTA
1 ATTTTAAAATA-TTTTTAAAATATTTTTTTA
9245042 ATTTTAAAATATTTTTAAAATATTTTTTTA
1 ATTTTAAAATATTTTTAAAATATTTTTTTA
9245072 ATTTTTAAAA-ATTTTTAAAATA
1 A-TTTTAAAATATTTTTAAAATA
9245094 AAAATGGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 8 0.17
30 32 0.67
31 8 0.17
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTAAAATATTTTTAAAATATTTTTTTA
Found at i:9245633 original size:25 final size:27
Alignment explanation
Indices: 9245589--9245640 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
9245579 TGTTATAAAT
9245589 TTTTTTTATTTACTAAAAAATATATAA
1 TTTTTTTATTTACTAAAAAATATATAA
*
9245616 TTTTTTTATTTA-T-CAAAATATATAA
1 TTTTTTTATTTACTAAAAAATATATAA
9245641 AAAAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 11 0.46
26 1 0.04
27 12 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTTTTTATTTACTAAAAAATATATAA
Found at i:9245746 original size:27 final size:27
Alignment explanation
Indices: 9245708--9245784 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
9245698 CTCTGGGTGG
* *
9245708 AGGGAACACTGTTGGTGGCACCAAACA
1 AGGGAACCCTGTTGGAGGCACCAAACA
9245735 AGGGAACCCTGTTGGAGGCACCAAACA
1 AGGGAACCCTGTTGGAGGCACCAAACA
** *
9245762 AGGGTTCCCTGTTGGCGGCACCA
1 AGGGAACCCTGTTGGAGGCACCA
9245785 CTCGTGTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.26, G:0.31, T:0.16
Consensus pattern (27 bp):
AGGGAACCCTGTTGGAGGCACCAAACA
Found at i:9246131 original size:3 final size:3
Alignment explanation
Indices: 9246071--9246115 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
9246061 AATTTTATAG
9246071 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9246116 GTTACTTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9246613 original size:14 final size:14
Alignment explanation
Indices: 9246594--9246623 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9246584 TAACTGAAAC
9246594 TAGAATAATTAAAT
1 TAGAATAATTAAAT
9246608 TAGAATAATTAAAT
1 TAGAATAATTAAAT
9246622 TA
1 TA
9246624 ATACAAAAAA
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:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:9249081 original size:18 final size:18
Alignment explanation
Indices: 9249055--9249092 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9249045 ATCCTAATGA
* *
9249055 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
9249073 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
9249091 TC
1 TC
9249093 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:9249099 original size:18 final size:18
Alignment explanation
Indices: 9249058--9249099 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9249048 CTAATGATCG
* *
9249058 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
9249076 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
9249094 CCACCA
1 CCACCA
9249100 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:9249839 original size:3 final size:3
Alignment explanation
Indices: 9249831--9249870 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9249821 TAACATCTTA
9249831 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9249871 CTATAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9250231 original size:27 final size:27
Alignment explanation
Indices: 9250158--9250234 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
9250148 ATAACACGAG
**
9250158 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
9250185 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
9250212 TGGTGCCGCCAACAGTGTTCCCT
1 TGGTGCCGCCAACAGGGTTCCCT
9250235 CCACCCAGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:9250294 original size:9 final size:8
Alignment explanation
Indices: 9250266--9250304 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
9250256 CAGTCCAGGT
*
9250266 TTTTTTTC
1 TTTTTTTG
* *
9250274 TGTTTTTA
1 TTTTTTTG
9250282 TTTTTTTG
1 TTTTTTTG
9250290 TTTTTTTG
1 TTTTTTTG
9250298 TTTTTTT
1 TTTTTTT
9250305 ATATGTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:9261085 original size:2 final size:2
Alignment explanation
Indices: 9261078--9261105 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9261068 TCCTTAGGTA
9261078 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
9261106 TAAATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9269830 original size:33 final size:33
Alignment explanation
Indices: 9269793--9269861 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
9269783 CTCAAAGATA
9269793 AATTACAGCCAGACTTCGAGCTGTAAATAAAAG
1 AATTACAGCCAGACTTCGAGCTGTAAATAAAAG
9269826 AATTACAGCCAGACTTCGAGCTGTAAATAAAAG
1 AATTACAGCCAGACTTCGAGCTGTAAATAAAAG
9269859 AAT
1 AAT
9269862 AACACAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (33 bp):
AATTACAGCCAGACTTCGAGCTGTAAATAAAAG
Found at i:9278400 original size:9 final size:9
Alignment explanation
Indices: 9278386--9278454 Score: 84
Period size: 9 Copynumber: 7.7 Consensus size: 9
9278376 TTTCGGTTAA
9278386 AAATTAACC
1 AAATTAACC
9278395 AAATTAACC
1 AAATTAACC
* *
9278404 GAATTACCC
1 AAATTAACC
*
9278413 GAATTAACC
1 AAATTAACC
*
9278422 AAATTACCC
1 AAATTAACC
9278431 AAATTAACC
1 AAATTAACC
*
9278440 TAATTAACC
1 AAATTAACC
*
9278449 GAATTA
1 AAATTA
9278455 CCTGAATTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (9 bp):
AAATTAACC
Found at i:9278417 original size:27 final size:27
Alignment explanation
Indices: 9278387--9278489 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
9278377 TTCGGTTAAA
9278387 AATTAACCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTACCCG
* * * *
9278414 AATTAACCAAATTACCCAAATTAACCT
1 AATTAACCAAATTAACCGAATTACCCG
*
9278441 AATTAACCGAATT-ACCTGAATTACCCG
1 AATTAACCAAATTAACC-GAATTACCCG
**
9278468 AATT-ACTTGAATTAACCGAATT
1 AATTAAC-CAAATTAACCGAATT
9278490 GAATCACTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
26 4 0.06
27 56 0.89
28 3 0.05
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTACCCG
Found at i:9278461 original size:9 final size:9
Alignment explanation
Indices: 9278396--9278489 Score: 89
Period size: 9 Copynumber: 10.4 Consensus size: 9
9278386 AAATTAACCA
*
9278396 AATTAACCG
1 AATTACCCG
9278405 AATTACCCG
1 AATTACCCG
* *
9278414 AATTAACCA
1 AATTACCCG
*
9278423 AATTACCCA
1 AATTACCCG
* *
9278432 AATTAACCT
1 AATTACCCG
*
9278441 AATTAACCG
1 AATTACCCG
*
9278450 AATTACCTG
1 AATTACCCG
9278459 AATTACCCG
1 AATTACCCG
**
9278468 AATTACTTG
1 AATTACCCG
*
9278477 AATTAACCG
1 AATTACCCG
9278486 AATT
1 AATT
9278490 GAATCACTAC
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 70 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTACCCG
Found at i:9278473 original size:18 final size:19
Alignment explanation
Indices: 9278396--9278489 Score: 108
Period size: 18 Copynumber: 5.2 Consensus size: 19
9278386 AAATTAACCA
9278396 AATTAACC-GAATTACCCG
1 AATTAACCTGAATTACCCG
* *
9278414 AATTAACC-AAATTACCCA
1 AATTAACCTGAATTACCCG
*
9278432 AATTAACCT-AATTAACCG
1 AATTAACCTGAATTACCCG
9278450 AATT-ACCTGAATTACCCG
1 AATTAACCTGAATTACCCG
* *
9278468 AATT-ACTTGAATTAACCG
1 AATTAACCTGAATTACCCG
9278486 AATT
1 AATT
9278490 GAATCACTAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.06
18 63 0.94
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.28
Consensus pattern (19 bp):
AATTAACCTGAATTACCCG
Found at i:9279019 original size:20 final size:21
Alignment explanation
Indices: 9278994--9279033 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9278984 ATCCTTCTTC
*
9278994 TTTCTTTCTT-TTTTTTTTCT
1 TTTCTTTCTTCTTTTCTTTCT
9279014 TTTCTTTCTTCTTTTCTTTC
1 TTTCTTTCTTCTTTTCTTTC
9279034 AATTTGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTCTTTCTTCTTTTCTTTCT
Found at i:9279027 original size:12 final size:12
Alignment explanation
Indices: 9278991--9279033 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
9278981 TTCATCCTTC
9278991 TTCTTTCTTTCTT
1 TTCTTTC-TTCTT
*
9279004 TT-TTTTTTCTT
1 TTCTTTCTTCTT
9279015 TTCTTTCTTCTT
1 TTCTTTCTTCTT
9279027 TTCTTTC
1 TTCTTTC
9279034 AATTTGCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 7 0.26
12 18 0.67
13 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTTTCTTCTT
Found at i:9286116 original size:10 final size:10
Alignment explanation
Indices: 9286101--9286128 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9286091 TACTAAGAAT
9286101 AAACATTTGG
1 AAACATTTGG
9286111 AAACATTTGG
1 AAACATTTGG
9286121 AAACATTT
1 AAACATTT
9286129 TGAATCATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (10 bp):
AAACATTTGG
Done.