Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 35 of 175
Found at i:9496244 original size:7 final size:7
Alignment explanation
Indices: 9496230--9496266 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
9496220 ATAAATGGAG
9496230 AAAA-GA
1 AAAAGGA
9496236 AAAAGGA
1 AAAAGGA
9496243 AAAAGGA
1 AAAAGGA
9496250 AAAAGGA
1 AAAAGGA
9496257 AAAAGGA
1 AAAAGGA
9496264 AAA
1 AAA
9496267 CATCCTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:9499671 original size:39 final size:39
Alignment explanation
Indices: 9499617--9499697 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
9499607 CAAGATTCCG
9499617 GGAGTCCTTGTCAGTGTAGCAGACTAACTTCTGATTTGA
1 GGAGTCCTTGTCAGTGTAGCAGACTAACTTCTGATTTGA
*
9499656 GGAGTCCTTTTCAGTGTAGCAGACTAACTTCTGATTTGA
1 GGAGTCCTTGTCAGTGTAGCAGACTAACTTCTGATTTGA
9499695 GGA
1 GGA
9499698 TTTTGACTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (39 bp):
GGAGTCCTTGTCAGTGTAGCAGACTAACTTCTGATTTGA
Found at i:9513496 original size:4 final size:4
Alignment explanation
Indices: 9513487--9513524 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
9513477 TAGAAATTAT
*
9513487 ATAA ATAA ATAA ATAA ATAA AT-A A-AA ATAA ATCA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
9513525 CATGCAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 4 0.13
4 26 0.87
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:9515714 original size:44 final size:44
Alignment explanation
Indices: 9515621--9516202 Score: 351
Period size: 44 Copynumber: 13.1 Consensus size: 44
9515611 GACTGGATAT
* * * * **
9515621 GATCTGCTATTTTTGATCTACTTCACTGCCAGTACAGGAAGGTAA
1 GATCTGTTATCTTCGATCTACTTCA-TGCCAATACAGGAAGACAA
*
9515666 GATCTGTTATCCTT-GATCTACTTCATGCCAATACATGAAGACAA
1 GATCTGTTAT-CTTCGATCTACTTCATGCCAATACAGGAAGACAA
* * ** *
9515710 GATCTATTTTCTTCGATCTACTTC--GCCACCAGTATGGGAAGATAA
1 GATCTGTTATCTTCGATCTACTTCATGCCA--A-TACAGGAAGACAA
* * * * * *
9515755 GATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGA-AA
1 GATCTGTTATCTTCGATCTACTTC-ATGCCAATACAGGAAGACAA
* * *
9515799 TGATTTGCTT-TCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 -GATCTG-TTATCTTCGATCTACTTCATGCCAATACAGGAAGACAA
* * * * * * *
9515844 GATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAG
1 GATCTGTTATCTTCGATCTACTTC-ATGCCAATACAGGAAGACAA
* * * *
9515889 GATTTGCTT-TCTTCGATCTATTTCACGCCAATACATGAAGACAA
1 GATCTG-TTATCTTCGATCTACTTCATGCCAATACAGGAAGACAA
* * * * * * *
9515933 GATTTG-CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAG
1 GATCTGTTATCTTCGATCTACTTC-ATGCCAATACAGGAAGACAA
* * *
9515977 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCATGCCAATACAGGAAGACAA
* * **
9516021 GATTTAATT-TCTTCGATCTACTTC--GCCACCAGTATGGGAAGACAA
1 GATCT-GTTATCTTCGATCTACTTCATGCCA--A-TACAGGAAGACAA
** * * * * *
9516066 GATCT-ACATCTTCGATCAACTTCCTACCAATATAGGAAGACAT
1 GATCTGTTATCTTCGATCTACTTCATGCCAATACAGGAAGACAA
* * * * *
9516109 GACCTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAA
1 GATCTGTTATCTTCGATCTACTTCATGCCAATACAGGAAGACAA
* * ** **
9516153 TATCTGCTT-TCTTTGATCTACTTCACCACCAATATGGGAAGACAA
1 GATCTG-TTATCTTCGATCTACTTCA-TGCCAATACAGGAAGACAA
9516198 GATCT
1 GATCT
9516203 TCGATCCACT
Statistics
Matches: 409, Mismatches: 101, Indels: 54
0.73 0.18 0.10
Matches are distributed among these distances:
42 8 0.02
43 32 0.08
44 201 0.49
45 157 0.38
46 8 0.02
48 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
GATCTGTTATCTTCGATCTACTTCATGCCAATACAGGAAGACAA
Found at i:9515728 original size:89 final size:89
Alignment explanation
Indices: 9515621--9516242 Score: 565
Period size: 89 Copynumber: 7.1 Consensus size: 89
9515611 GACTGGATAT
* * ** *
9515621 GATCTGCTATT-TTTGATCTACTTCACTGCCAGTACAGGAAGGTAAGATCTGTTATCCTT-GATC
1 GATCTGCT-TTCTTCGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTAT-CTTCGATC
* * * * *
9515684 TACTTC-ATGCCAATACATGAAGACAA
63 CACTTCGCTACCAATATAGGAAGACAA
** * * * ** * *
9515710 GATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCTATCTTCAATCCA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCCA
9515775 CTTCGCTACCAATATAGGAAGA-AA
65 CTTCGCTACCAATATAGGAAGACAA
* * *
9515799 TGATTTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCAATCCA
1 -GATCTGCTTTCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCCA
*
9515864 CTTCGCTACCAATATAGGAAGACAG
65 CTTCGCTACCAATATAGGAAGACAA
* * * *
9515889 GATTTGCTTTCTTCGATCTATTTCACGCCAATACATGAAGACAAGATTTGC-ATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCCAC
*
9515953 TTCGCTACCAATATAGGAAGACAG
66 TTCGCTACCAATATAGGAAGACAA
* * * ** * *
9515977 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTAATTTCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCCAC
* * *
9516042 TTCGCCACCAGTATGGGAAGACAA
66 TTCGCTACCAATATAGGAAGACAA
* * * * * * * *
9516066 GATCTAC-ATCTTCGATCAACTTC-CTACCAATATAGGAAGACATGACCTGCTATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATCTTCGATCCA
* * * * *
9516129 CTTCAC-GCTAATACATGAAGACAA
65 CTTCGCTACCAATATAGGAAGACAA
* * * **
9516153 TATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGAC-A-A---G--ATCTTCGATCCA
1 GATCTGCTTTCTTCGATCTACTTCA-CGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCCA
9516211 CTTC-CTACCAATATAGGAAGACAA
65 CTTCGCTACCAATATAGGAAGACAA
9516235 GATCTGCT
1 GATCTGCT
9516243 ATTTTCAACC
Statistics
Matches: 450, Mismatches: 71, Indels: 31
0.82 0.13 0.06
Matches are distributed among these distances:
81 1 0.00
82 36 0.08
84 1 0.00
87 19 0.04
88 149 0.33
89 207 0.46
90 37 0.08
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (89 bp):
GATCTGCTTTCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCCAC
TTCGCTACCAATATAGGAAGACAA
Found at i:9516116 original size:132 final size:130
Alignment explanation
Indices: 9515680--9516244 Score: 500
Period size: 132 Copynumber: 4.3 Consensus size: 130
9515670 TGTTATCCTT
* * * * ** * * * *
9515680 GATCTACTTCA-TGCCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACCAGTA
1 GATCCACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATA
*** * * * * * * *
9515744 TGGGAAGATAAGATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGA-AATGATTTGCT
65 CATGAAGACAAGATTTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAA-GA-TT-C-
*
9515808 TTCTTC
125 ATCTTC
* * * * * * * *
9515814 GATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTCAATCCACTTCGCTACCAATA
1 GATCCACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATA
* * * * * * ***
9515878 TAGGAAGACAGGATTTGCTTTCTTCGATCTATTTCACGCCAATACATGAAGACAAGATTTGCATC
65 CATGAAGACAAGATTTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGA-TT-CATC
9515943 TTC
128 TTC
* *
9515946 GATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATAC
1 GATCCACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATAC
** *
9516011 ATGAAGACAAGATTTAATTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACATC
66 ATGAAGACAAGATTTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGAT-T-CATC
9516076 TTC
128 TTC
* * * *
9516079 GATCAACTTC-CTACCAATATAGGAAGACATGACCTGCTATCTTCGATCTACTTCACGCTAATAC
1 GATCCACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATAC
* * *
9516143 ATGAAGACAATATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGACAAG----ATCTT
66 ATGAAGACAAGATTTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATTCATCTT
9516204 C
130 C
9516205 GATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTAT
1 GATCCACTTCACTACCAATATAGGAAGACAAGATCTGCTAT
9516245 TTTCAACCTA
Statistics
Matches: 367, Mismatches: 58, Indels: 20
0.82 0.13 0.04
Matches are distributed among these distances:
126 43 0.12
132 151 0.41
133 90 0.25
134 83 0.23
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (130 bp):
GATCCACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATAC
ATGAAGACAAGATTTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATTCATCTTC
Found at i:9516223 original size:37 final size:38
Alignment explanation
Indices: 9516162--9516239 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
9516152 ATATCTGCTT
* * *
9516162 TCTTTGATCTACTTCACCACCAATATGGGAAGACAAGA
1 TCTTCGATCCACTTCACCACCAATATAGGAAGACAAGA
*
9516200 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGA
1 TCTTCGATCCACTTCACCACCAATATAGGAAGACAAGA
9516237 TCT
1 TCT
9516240 GCTATTTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 23 0.64
38 13 0.36
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (38 bp):
TCTTCGATCCACTTCACCACCAATATAGGAAGACAAGA
Found at i:9517129 original size:25 final size:26
Alignment explanation
Indices: 9517091--9517139 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9517081 GTGTCTTGAA
9517091 AAGAAAAAGATATT-CAAGAACAATG
1 AAGAAAAAGATATTACAAGAACAATG
9517116 AAGAATAAAG-TATTACAAGAACAA
1 AAGAA-AAAGATATTACAAGAACAA
9517140 ATATATGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAAAAAGATATTACAAGAACAATG
Found at i:9528404 original size:22 final size:23
Alignment explanation
Indices: 9528379--9528423 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
9528369 AATTTTGAAT
9528379 TATAA-AATTTAT-ATAAATAAAA
1 TATAAGAATTTATGA-AAATAAAA
9528401 TATAATGAATTTATGAAAATAAA
1 TATAA-GAATTTATGAAAATAAA
9528424 GAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.25
24 14 0.70
25 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TATAAGAATTTATGAAAATAAAA
Found at i:9528639 original size:38 final size:40
Alignment explanation
Indices: 9528501--9528639 Score: 94
Period size: 38 Copynumber: 3.5 Consensus size: 40
9528491 AACATTTTCA
* * * *
9528501 AAAATATAAAAAA-AAATATGTACGTATATATATAAATATAAT
1 AAAATA-AAAAAATAAATAT-CACATATATGTA-AAATATATT
* *
9528543 AGAATATTAAAAAATAAATA-CATATATATGTAAAATATATT
1 A-AA-ATAAAAAAATAAATATCACATATATGTAAAATATATT
**
9528584 AAAATAATTAAAT-AATATCTACAT-TAT-TAAAAT-TAATT
1 AAAATAAAAAAATAAATATC-ACATATATGTAAAATAT-ATT
9528622 -AAATAAAAAAATAAATAT
1 AAAATAAAAAAATAAATAT
9528640 ATATACAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
37 11 0.14
38 18 0.23
39 11 0.14
40 5 0.06
41 9 0.12
42 9 0.12
43 8 0.10
44 7 0.09
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAATAAAAAAATAAATATCACATATATGTAAAATATATT
Found at i:9529071 original size:11 final size:11
Alignment explanation
Indices: 9529052--9529083 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
9529042 CCTAGGCCTG
9529052 GTCGGGTCGGA
1 GTCGGGTCGGA
*
9529063 GTTGGGTCGGA
1 GTCGGGTCGGA
9529074 GTCGGGTCGG
1 GTCGGGTCGG
9529084 CCTCCCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.16, G:0.56, T:0.22
Consensus pattern (11 bp):
GTCGGGTCGGA
Found at i:9536527 original size:19 final size:20
Alignment explanation
Indices: 9536503--9536542 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
9536493 ACTAAGTCGA
9536503 GAATTTATATGT-T-TAAATT
1 GAATTT-TATGTATGTAAATT
9536522 GAATTTTATGTATGTAAATT
1 GAATTTTATGTATGTAAATT
9536542 G
1 G
9536543 TGTAATTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (20 bp):
GAATTTTATGTATGTAAATT
Found at i:9536852 original size:25 final size:25
Alignment explanation
Indices: 9536824--9536933 Score: 82
Period size: 25 Copynumber: 4.4 Consensus size: 25
9536814 CTTATGAGTG
9536824 TCCCGA-TATATGGCTCTTTGGAGCT
1 TCCCGATTA-ATGGCTCTTTGGAGCT
* *
9536849 TCCCGATTAAAGGCTCTTTCATGAGCT
1 TCCCGATTAATGGCTCTTT--GGAGCT
* **
9536876 TCCTGATTAATGGCTCTCCGGAGCT
1 TCCCGATTAATGGCTCTTTGGAGCT
* * * *
9536901 TCTCGA-TATTGGCTCGCTT-GAACT
1 TCCCGATTAATGGCTC-TTTGGAGCT
9536925 TCCCGATTA
1 TCCCGATTA
9536934 TGACTTTTAT
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
24 17 0.26
25 26 0.40
26 2 0.03
27 20 0.31
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTTGGAGCT
Found at i:9536970 original size:25 final size:25
Alignment explanation
Indices: 9536942--9536989 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9536932 TATGACTTTT
* *
9536942 ATGAGCTTCTTGTTACATGGCTCAC
1 ATGAGCTTCCTATTACATGGCTCAC
*
9536967 ATGAGCTTCCTATTATATGGCTC
1 ATGAGCTTCCTATTACATGGCTC
9536990 GAAAGAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
ATGAGCTTCCTATTACATGGCTCAC
Found at i:9537224 original size:27 final size:27
Alignment explanation
Indices: 9537193--9537290 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
9537183 TGATTTATTC
9537193 ATACATGTTTCTTGATGTTTATATGAG
1 ATACATGTTTCTTGATGTTTATATGAG
* *
9537220 ATACATGTCTAACATTG-TTTCTTGATAGTTGAG
1 ATACATGT-T-TC-TTGATGT-TT-ATA--TGAG
*
9537253 TTCACACATGTTTCTTGATGTTTATATGAG
1 ---ATACATGTTTCTTGATGTTTATATGAG
9537283 ATACATGT
1 ATACATGT
9537291 CTAACATTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
27 15 0.28
28 1 0.02
29 3 0.06
30 9 0.17
31 3 0.06
32 3 0.06
33 9 0.17
34 3 0.06
35 1 0.02
36 7 0.13
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (27 bp):
ATACATGTTTCTTGATGTTTATATGAG
Found at i:9537239 original size:37 final size:37
Alignment explanation
Indices: 9537198--9537301 Score: 106
Period size: 37 Copynumber: 3.1 Consensus size: 37
9537188 TATTCATACA
9537198 TGTTTCTTGATGTTTATATGAGATACATGTCTAACAT
1 TGTTTCTTGATGTTTATATGAGATACATGTCTAACAT
*
9537235 TGTTTCTTGA----TAGT-TGAG-TTCA---C--ACA-
1 TGTTTCTTGATGTTTA-TATGAGATACATGTCTAACAT
9537261 TGTTTCTTGATGTTTATATGAGATACATGTCTAACAT
1 TGTTTCTTGATGTTTATATGAGATACATGTCTAACAT
9537298 TGTT
1 TGTT
9537302 GATGAGGATA
Statistics
Matches: 52, Mismatches: 2, Indels: 26
0.65 0.03 0.32
Matches are distributed among these distances:
26 10 0.19
27 3 0.06
29 2 0.04
30 6 0.12
31 3 0.06
32 3 0.06
33 6 0.12
34 2 0.04
36 3 0.06
37 14 0.27
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (37 bp):
TGTTTCTTGATGTTTATATGAGATACATGTCTAACAT
Found at i:9539393 original size:20 final size:20
Alignment explanation
Indices: 9539370--9539413 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
9539360 CCATTAAATA
* *
9539370 TTTATTTATAAGATTATTAT
1 TTTATTTACAAAATTATTAT
9539390 TTTATTTACAAAATTATTAT
1 TTTATTTACAAAATTATTAT
9539410 TTTA
1 TTTA
9539414 ATAAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTATTTACAAAATTATTAT
Found at i:9547222 original size:21 final size:21
Alignment explanation
Indices: 9547197--9547244 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
9547187 GATGTAAATA
*
9547197 AACCTAGCTATAGTAATAACT
1 AACCTAGCTATAATAATAACT
9547218 AACCTAGCTATAATAATAACT
1 AACCTAGCTATAATAATAACT
9547239 AACCTA
1 AACCTA
9547245 ACTAACTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (21 bp):
AACCTAGCTATAATAATAACT
Found at i:9548573 original size:30 final size:30
Alignment explanation
Indices: 9548495--9548578 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
9548485 GGGTAACCTC
**
9548495 GATATAATGTCAACTTGTGTGAGCAACTTT
1 GATATAATGTCAACTTGTGTGAGCAACCCT
*
9548525 GTTA-AATGT-AAGCTTGTGTGAGCAACCCT
1 GATATAATGTCAA-CTTGTGTGAGCAACCCT
* *
9548554 GATATATTGTCAACTTGTGTAAGCA
1 GATATAATGTCAACTTGTGTGAGCA
9548579 TTATATTCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
28 2 0.04
29 23 0.51
30 18 0.40
31 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (30 bp):
GATATAATGTCAACTTGTGTGAGCAACCCT
Found at i:9574241 original size:5 final size:5
Alignment explanation
Indices: 9574233--9574293 Score: 115
Period size: 5 Copynumber: 12.4 Consensus size: 5
9574223 TCATTTAGTT
9574233 TTATA TTATA TTATA TTATA TTATA -TATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
9574282 TTATA TTATA TT
1 TTATA TTATA TT
9574294 TTCATTTTCG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.07
5 51 0.93
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:9574325 original size:6 final size:6
Alignment explanation
Indices: 9574316--9574363 Score: 69
Period size: 6 Copynumber: 7.7 Consensus size: 6
9574306 TTCATTTTCA
*
9574316 TTTTGT TTTTGT TTTTGCTT TTTTGT TTTTGC TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTG--T TTTTGT TTTTGT TTTTGT TTTTGT TTTT
9574364 TTATTTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.84
8 6 0.16
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.81
Consensus pattern (6 bp):
TTTTGT
Found at i:9574331 original size:18 final size:18
Alignment explanation
Indices: 9574292--9574375 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
9574282 TTATATTATA
**
9574292 TTTTCATTTTCG-TTTTCA
1 TTTTCATTTT-GTTTTTGT
9574310 TTTTCATTTTGTTTTTGT
1 TTTTCATTTTGTTTTTGT
* *
9574328 TTTTGCTTTTTTGTTTTTGC
1 TTTT-C-ATTTTGTTTTTGT
**
9574348 TTTTGTTTTTGTTTTT-T
1 TTTTCATTTTGTTTTTGT
9574365 TATTTCATTTT
1 T-TTTCATTTT
9574376 ATTATGCATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.04
18 36 0.67
19 1 0.02
20 15 0.28
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (18 bp):
TTTTCATTTTGTTTTTGT
Found at i:9574340 original size:14 final size:14
Alignment explanation
Indices: 9574321--9574364 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
9574311 TTTCATTTTG
9574321 TTTTTGTTTTTGCT
1 TTTTTGTTTTTGCT
9574335 TTTTTGTTTTTGC-
1 TTTTTGTTTTTGCT
9574348 -TTTTGTTTTTG-T
1 TTTTTGTTTTTGCT
9574360 TTTTT
1 TTTTT
9574365 TATTTCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.39
13 4 0.14
14 13 0.46
ACGTcount: A:0.00, C:0.05, G:0.14, T:0.82
Consensus pattern (14 bp):
TTTTTGTTTTTGCT
Found at i:9574346 original size:26 final size:26
Alignment explanation
Indices: 9574316--9574365 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
9574306 TTCATTTTCA
*
9574316 TTTTGTTTTTGTTTTTGCTTTTTTGT
1 TTTTGCTTTTGTTTTTGCTTTTTTGT
*
9574342 TTTTGCTTTTGTTTTTGTTTTTTT
1 TTTTGCTTTTGTTTTTGCTTTTTT
9574366 ATTTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (26 bp):
TTTTGCTTTTGTTTTTGCTTTTTTGT
Found at i:9586837 original size:23 final size:21
Alignment explanation
Indices: 9586806--9586861 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
9586796 TATACTAAGG
*
9586806 TTAAA-TTTAATTAAACTTAA
1 TTAAACTTTAATCAAACTTAA
**
9586826 TTAATTACTTTAATCATTCTTAA
1 TTAA--ACTTTAATCAAACTTAA
9586849 TTAAACTTTAATC
1 TTAAACTTTAATC
9586862 CTTAATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 9 0.30
22 1 0.03
23 16 0.53
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAACTTTAATCAAACTTAA
Found at i:9586858 original size:21 final size:22
Alignment explanation
Indices: 9586820--9586875 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
9586810 ATTTAATTAA
9586820 ACTTAATTAATTACTTTAATCATT
1 ACTTAATTAA--ACTTTAATCATT
*
9586844 -CTTAATTAAACTTTAATCCTT
1 ACTTAATTAAACTTTAATCATT
*
9586865 AATTAATTAAA
1 ACTTAATTAAA
9586876 TCTAATGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.38
22 9 0.31
23 9 0.31
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (22 bp):
ACTTAATTAAACTTTAATCATT
Found at i:9587652 original size:26 final size:27
Alignment explanation
Indices: 9587619--9587676 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
9587609 TTCAAAATAA
*
9587619 TTTTC-AAATTTTGA-AAGAAATAAATT
1 TTTTCAAAATTTT-ATAAAAAATAAATT
*
9587645 TTTTCAAAATTTTATAAAAAATTAATT
1 TTTTCAAAATTTTATAAAAAATAAATT
9587672 TTTTC
1 TTTTC
9587677 TATAAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (27 bp):
TTTTCAAAATTTTATAAAAAATAAATT
Found at i:9587711 original size:21 final size:21
Alignment explanation
Indices: 9587657--9587713 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
9587647 TTCAAAATTT
* *
9587657 TATAAAAA-ATTAATTTTTTC
1 TATAAAAATATTAAATTTCTC
**
9587677 TAT-AAAATCCTAAATTTCTC
1 TATAAAAATATTAAATTTCTC
*
9587697 TATAAAAATGTTAAATT
1 TATAAAAATATTAAATT
9587714 ATCAAATCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAAAAATATTAAATTTCTC
Found at i:9593488 original size:10 final size:9
Alignment explanation
Indices: 9593455--9593487 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
9593445 CCATTTTGAT
9593455 ATTTTGGTAA
1 ATTTTGGT-A
9593465 ATTTTGGTA
1 ATTTTGGTA
9593474 ATTTTGGTA
1 ATTTTGGTA
9593483 ATTTT
1 ATTTT
9593488 TAATAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (9 bp):
ATTTTGGTA
Found at i:9593497 original size:19 final size:19
Alignment explanation
Indices: 9593455--9593500 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9593445 CCATTTTGAT
**
9593455 ATTTTGGTAAATTTTGGTA
1 ATTTTGGTAAATTTTAATA
*
9593474 ATTTTGGTAATTTTTAATA
1 ATTTTGGTAAATTTTAATA
*
9593493 GTTTTGGT
1 ATTTTGGT
9593501 GTATTGTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.57
Consensus pattern (19 bp):
ATTTTGGTAAATTTTAATA
Found at i:9596482 original size:15 final size:15
Alignment explanation
Indices: 9596462--9596494 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9596452 ACAATCCACT
9596462 TTACTATGGTCTTTA
1 TTACTATGGTCTTTA
*
9596477 TTACTATGTTCTTTA
1 TTACTATGGTCTTTA
9596492 TTA
1 TTA
9596495 GTATATTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (15 bp):
TTACTATGGTCTTTA
Found at i:9597862 original size:30 final size:28
Alignment explanation
Indices: 9597828--9597883 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 28
9597818 TTTATTAAAA
9597828 TTTTA-AATATAGATAATGTATATTTTTTAT
1 TTTTATAATATA-AT-AT-TATATTTTTTAT
*
9597858 TTTTATATTATAATATTATATTTTTT
1 TTTTATAATATAATATTATATTTTTT
9597884 GAAGACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.42
29 2 0.08
30 7 0.29
31 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTATAATATAATATTATATTTTTTAT
Found at i:9605194 original size:14 final size:16
Alignment explanation
Indices: 9605171--9605205 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
9605161 TTAAATATTT
9605171 ATATTATTATTTAAAAA
1 ATATTATTA-TTAAAAA
9605188 ATATTATTATTAAAAA
1 ATATTATTATTAAAAA
9605204 AT
1 AT
9605206 GCACTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTATTATTAAAAA
Found at i:9608821 original size:24 final size:25
Alignment explanation
Indices: 9608794--9608840 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
9608784 ATTGTGCCAT
*
9608794 CTTATGTTGCATGTTT-TGAAATGG
1 CTTATGTGGCATGTTTGTGAAATGG
*
9608818 CTTATGTGGTATGTTTGTGAAAT
1 CTTATGTGGCATGTTTGTGAAAT
9608841 CTTGAATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (25 bp):
CTTATGTGGCATGTTTGTGAAATGG
Found at i:9609700 original size:2 final size:2
Alignment explanation
Indices: 9609693--9609725 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9609683 TGCTAGTTCT
9609693 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9609726 CTGTGAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9610579 original size:48 final size:48
Alignment explanation
Indices: 9610508--9610647 Score: 135
Period size: 44 Copynumber: 3.0 Consensus size: 48
9610498 AGGAAGGATA
* ** * *
9610508 TGAAAAGAATAAGTTAATATGACTCCGTATATGTTATATGTTATGTAT
1 TGAAAAGAGTAAGCAAATATGACTCTGTATGTGTTATATGTTATGTAT
* * * *
9610556 TGAAAAGGGTAAGCAAATATGACTTTGTGTGTGTGATA---TATGT-T
1 TGAAAAGAGTAAGCAAATATGACTCTGTATGTGTTATATGTTATGTAT
* ** *
9610600 TGGAAAGAGTAAGTTAGTATGACTCTGTATGTGTTATATGTTATGTAT
1 TGAAAAGAGTAAGCAAATATGACTCTGTATGTGTTATATGTTATGTAT
9610648 AATTGCTAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
44 31 0.44
45 5 0.07
47 5 0.07
48 30 0.42
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (48 bp):
TGAAAAGAGTAAGCAAATATGACTCTGTATGTGTTATATGTTATGTAT
Found at i:9615725 original size:23 final size:23
Alignment explanation
Indices: 9615695--9615741 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
9615685 TACTTTCTTT
*
9615695 CTGTAGTAATTTTCGGGGTATTA
1 CTGTAGTAATTTTCGGGATATTA
9615718 CTGTAGTAATTTTCGGGATATTA
1 CTGTAGTAATTTTCGGGATATTA
9615741 C
1 C
9615742 ACTTCTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (23 bp):
CTGTAGTAATTTTCGGGATATTA
Found at i:9618239 original size:17 final size:17
Alignment explanation
Indices: 9618217--9618254 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9618207 ATTTAATTAA
*
9618217 TCAATTCAATTAGTTTT-
1 TCAATTAAATTA-TTTTC
9618234 TCAATTAAATTATTTTC
1 TCAATTAAATTATTTTC
9618251 TCAA
1 TCAA
9618255 CCCAATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (17 bp):
TCAATTAAATTATTTTC
Found at i:9626850 original size:29 final size:29
Alignment explanation
Indices: 9626817--9626914 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
9626807 TCATTTAGCT
9626817 GAGATAACCACAAAGGCATCCATT-TAACCA
1 GAGATAACCACAAAGGCATCC-TTATAA-CA
** *
9626847 -AGATCTCCACAAAGGCTTCCTTATAACA
1 GAGATAACCACAAAGGCATCCTTATAACA
* *
9626875 GAGATAACCATAAAGGCTTCCTT-T--CA
1 GAGATAACCACAAAGGCATCCTTATAACA
*
9626901 GAGATAGCCACAAA
1 GAGATAACCACAAA
9626915 TTCATCCACT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 14 0.24
28 5 0.09
29 39 0.67
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (29 bp):
GAGATAACCACAAAGGCATCCTTATAACA
Found at i:9633994 original size:19 final size:19
Alignment explanation
Indices: 9633970--9634007 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9633960 TTAGTTATAG
*
9633970 TACGAAGAATATAAAATAA
1 TACGAAAAATATAAAATAA
9633989 TACGAAAAATATAAAATAA
1 TACGAAAAATATAAAATAA
9634008 CGGATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
TACGAAAAATATAAAATAA
Found at i:9646516 original size:77 final size:77
Alignment explanation
Indices: 9646389--9646545 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
9646379 GGCACATAGT
*
9646389 GATCAAGAAGTGTGTCTGGTTAGTAAGGATTCACTCAAAAGCTTTAATGGCACATAAAGTGGGTG
1 GATCAAGAAGTGTGTCTGGTTAGTAAGGATTCACTCAAAAGCTTTAATGGCACATAAAGTGGATG
9646454 GACTCCATTCTG
66 GACTCCATTCTG
*
9646466 GATCAAGAAGTGTGTCTGGTTAGTAAGGATTCACTCAAAATCTTTAATGGCACATAAAGTGGATG
1 GATCAAGAAGTGTGTCTGGTTAGTAAGGATTCACTCAAAAGCTTTAATGGCACATAAAGTGGATG
9646531 GACTCCATTCTG
66 GACTCCATTCTG
9646543 GAT
1 GAT
9646546 ATGGGAAACA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (77 bp):
GATCAAGAAGTGTGTCTGGTTAGTAAGGATTCACTCAAAAGCTTTAATGGCACATAAAGTGGATG
GACTCCATTCTG
Found at i:9648222 original size:84 final size:84
Alignment explanation
Indices: 9648037--9648310 Score: 319
Period size: 84 Copynumber: 3.3 Consensus size: 84
9648027 AACACCAATT
* * * * * * *
9648037 TCTGTAAAAGTAAGCCTTTGTAGC--TGTCTATTAAAGGAAGTCATTGTGGTGATC--TATTAAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
*
9648098 GGAA-TCCCTTGTGGCGATC
66 GGAAGT-CTTTGTGGCGATC
* *
9648117 TCTGTTAAAGGAAGCCCTTGTGGCGATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
* * * *
9648182 GGAAGTGTTTATGGCTATT
66 GGAAGTCTTTGTGGCGATC
* *
9648201 TCTGTTAAATGAAGCTTTTGTGGCAATCTCTATTAAAGGAAGCCTTT-TGGCT-ATCTTTGTTAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGG-TGATCTTTGTTAA
*
9648264 GGGAAGTCTTTGTGGCGATC
65 AGGAAGTCTTTGTGGCGATC
*
9648284 TCTGTTAAAGGAAGCCTTTGTGACAAT
1 TCTGTTAAAGGAAGCCTTTGTGGCAAT
9648311 ATCTGTCAAA
Statistics
Matches: 163, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
80 20 0.12
82 27 0.17
83 53 0.33
84 62 0.38
85 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (84 bp):
TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
GGAAGTCTTTGTGGCGATC
Found at i:9648316 original size:28 final size:28
Alignment explanation
Indices: 9648037--9648305 Score: 251
Period size: 28 Copynumber: 9.8 Consensus size: 28
9648027 AACACCAATT
* * * *
9648037 TCTGTAAAAGTAAGCCTTTGTAGC--TG
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
* * * *
9648063 TCTATTAAAGGAAGTCATTGTGGTGA--
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
* * *
9648089 TCTATTAAAGGAATCCCTTGTGGCGATC
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
*
9648117 TCTGTTAAAGGAAGCCCTTGTGGCGATC
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
* *
9648145 TCTATTAAAGGAAGCCTTTGTGGTGATC
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
* ** * * *
9648173 TTTGTTAAAGGAAGTGTTTATGGCTATT
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
* * *
9648201 TCTGTTAAATGAAGCTTTTGTGGCAATC
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
* *
9648229 TCTATTAAAGGAAGCCTTT-TGGCTATC
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
* * *
9648256 TTTGTTAAGGGAAGTCTTTGTGGCGATC
1 TCTGTTAAAGGAAGCCTTTGTGGCGATC
9648284 TCTGTTAAAGGAAGCCTTTGTG
1 TCTGTTAAAGGAAGCCTTTGTG
9648306 ACAATATCTG
Statistics
Matches: 195, Mismatches: 43, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
26 39 0.20
27 22 0.11
28 134 0.69
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (28 bp):
TCTGTTAAAGGAAGCCTTTGTGGCGATC
Found at i:9648316 original size:111 final size:112
Alignment explanation
Indices: 9648106--9648334 Score: 271
Period size: 111 Copynumber: 2.1 Consensus size: 112
9648096 AAGGAATCCC
* * *
9648106 TTGTGGCGATCTCTGTTAAAGGAAGCCCTTGTGGCGATCTCTATTAAAGGAAGCCTTTGTGGTGA
1 TTGTGGCAATCTCTATTAAAGGAAGCCCTTGTGGCGATCTCTATTAAAGGAAGCCTTTGTGGCGA
* ** * * * * *
9648171 TCTTTGTTAAAGGAAGTGTTTATGGCTATTTCTGTTAAATGAAGCTT
66 TCTCTGTTAAAGGAAGCCTTTATGACAATATCTGTCAAAAGAAGCTT
* * * * * *
9648218 TTGTGGCAATCTCTATTAAAGGAAG-CCTTTTGGCTATCTTTGTTAAGGGAAGTCTTTGTGGCGA
1 TTGTGGCAATCTCTATTAAAGGAAGCCCTTGTGGCGATCTCTATTAAAGGAAGCCTTTGTGGCGA
* *
9648282 TCTCTGTTAAAGGAAGCCTTTGTGACAATATCTGTCAAAAGACGCTT
66 TCTCTGTTAAAGGAAGCCTTTATGACAATATCTGTCAAAAGAAGCTT
*
9648329 TCGTGG
1 TTGTGG
9648335 TGAGACTCTA
Statistics
Matches: 97, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
111 74 0.76
112 23 0.24
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (112 bp):
TTGTGGCAATCTCTATTAAAGGAAGCCCTTGTGGCGATCTCTATTAAAGGAAGCCTTTGTGGCGA
TCTCTGTTAAAGGAAGCCTTTATGACAATATCTGTCAAAAGAAGCTT
Found at i:9651688 original size:25 final size:24
Alignment explanation
Indices: 9651660--9651718 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
9651650 TCCCCTAGAA
*
9651660 GCCTTAGTGGCTAGTATCCTATGAT
1 GCCTTTGTGGCT-GTATCCTATGAT
*
9651685 GCCTTTGTGG-TGTATGCTATGAT
1 GCCTTTGTGGCTGTATCCTATGAT
9651708 GCCTTTGTGGC
1 GCCTTTGTGGC
9651719 ATATTCTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 21 0.68
24 1 0.03
25 9 0.29
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.39
Consensus pattern (24 bp):
GCCTTTGTGGCTGTATCCTATGAT
Found at i:9653618 original size:3 final size:3
Alignment explanation
Indices: 9653610--9653664 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
9653600 TATTTTCTCC
9653610 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9653657 TTA TTA TT
1 TTA TTA TT
9653665 TTCATGTACG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9654336 original size:15 final size:15
Alignment explanation
Indices: 9654297--9654338 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
9654287 TATATTTTAA
*
9654297 ATTAAAGTATTTATT
1 ATTATAGTATTTATT
* *
9654312 ATTGTTGTATTTATT
1 ATTATAGTATTTATT
9654327 ATTATAGTATTT
1 ATTATAGTATTT
9654339 GTATGTATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
ATTATAGTATTTATT
Found at i:9660093 original size:132 final size:131
Alignment explanation
Indices: 9659920--9660283 Score: 595
Period size: 132 Copynumber: 2.8 Consensus size: 131
9659910 ACAGCAAAGC
*
9659920 AGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TCT
9659985 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTAGA
65 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTAGA
9660050 GT
130 GT
*
9660052 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAACTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TCT
* * *
9660117 ACTTCCCTGGACAACAATGGAATAGATTGAAGATTTCGGATCTTATCTCCCTAAGCAGTAGTTGA
65 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTAGA
9660182 GT
130 GT
* *
9660184 AGATCGAAGATGGTGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCAT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATC-T
* * *
9660249 A-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
65 ACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
9660284 GTAAGTTTTA
Statistics
Matches: 217, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
131 3 0.01
132 214 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (131 bp):
AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCTA
CTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTAGAG
T
Found at i:9661477 original size:3 final size:3
Alignment explanation
Indices: 9661469--9661519 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
9661459 TATTTTCTCC
*
9661469 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
9661515 TTA TT
1 TTA TT
9661520 TTCATGTACG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9661786 original size:19 final size:19
Alignment explanation
Indices: 9661762--9661806 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9661752 ATACCCTTTT
9661762 ATATTTTATT-TTATTATAA
1 ATATTTT-TTATTATTATAA
* *
9661781 ATATTTTTTATTATTCTAT
1 ATATTTTTTATTATTATAA
9661800 ATATTTT
1 ATATTTT
9661807 CCATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTTTTTATTATTATAA
Found at i:9666531 original size:22 final size:23
Alignment explanation
Indices: 9666503--9666547 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9666493 AAACAATCTT
9666503 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
9666525 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
9666548 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:9671289 original size:22 final size:22
Alignment explanation
Indices: 9671250--9671298 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
9671240 AAATAATAGT
9671250 TTTAAAATGTATTAATTAAATA
1 TTTAAAATGTATTAATTAAATA
9671272 TATTAAATAT-TATT-ATTAAATA
1 T-TTAAA-ATGTATTAATTAAATA
9671294 TTTAA
1 TTTAA
9671299 TCCAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
23 9 0.36
24 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAAAATGTATTAATTAAATA
Found at i:9671618 original size:23 final size:23
Alignment explanation
Indices: 9671592--9671637 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9671582 ATTATTTAAA
**
9671592 TAATTTTTTTTAATTTTTATATT
1 TAATTTTTTTTAAAATTTATATT
9671615 TAATTTTTTTTAAAATTTATATT
1 TAATTTTTTTTAAAATTTATATT
9671638 ATTTATTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TAATTTTTTTTAAAATTTATATT
Found at i:9675904 original size:28 final size:27
Alignment explanation
Indices: 9675845--9675906 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
9675835 ATGTCATAGA
*
9675845 AATTAAAATAGGATAAAATAAATAATT
1 AATTAAAATAGGATAAAATAAAAAATT
*
9675872 AATTAATAATAGTA-AAAATAAAAATATT
1 AATTAA-AATAGGATAAAATAAAAA-ATT
*
9675900 TATTAAA
1 AATTAAA
9675907 TTAAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (27 bp):
AATTAAAATAGGATAAAATAAAAAATT
Found at i:9679648 original size:16 final size:16
Alignment explanation
Indices: 9679627--9679666 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
9679617 TTTGGTTCGC
9679627 TGTAATAGAATAGAGA
1 TGTAATAGAATAGAGA
*
9679643 TGTAATGGAATAGAGA
1 TGTAATAGAATAGAGA
*
9679659 CGTAATAG
1 TGTAATAG
9679667 TAATTCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.28, T:0.25
Consensus pattern (16 bp):
TGTAATAGAATAGAGA
Found at i:9679708 original size:45 final size:44
Alignment explanation
Indices: 9679642--9679738 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 44
9679632 TAGAATAGAG
9679642 ATGTAATGGAATAGAGACGTAATAGTAATTCAAT-TGTTTGGTTGA
1 ATGTAATGGAATAGAGACGTAATAGT-ATTC-ATGTGTTTGGTTGA
* *
9679687 ATGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGA
1 ATGTAATGGAATAGAGACGTAATAGTATTCATGTGTTTGGTTGA
*
9679731 ATGGAATG
1 ATGTAATG
9679739 ATGTTGTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (44 bp):
ATGTAATGGAATAGAGACGTAATAGTATTCATGTGTTTGGTTGA
Found at i:9679961 original size:56 final size:55
Alignment explanation
Indices: 9679897--9680090 Score: 174
Period size: 56 Copynumber: 3.3 Consensus size: 55
9679887 TTATTATTAA
9679897 ATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATTAAATATTCTT
** * * * * *
9679952 ATATGAATTTTCTAAAATCATAATATATATAATACTATAAAATATAATTTAACA-TAATTATTAT
1 ATAT-AATTTAATAAAAACAT-ATA-AT-T--TA--ATAAAAT-T--CTTAATATTAAATATTCT
9680016 T
55 T
* *
9680017 AAATATAATTTAATAAAAATATATAGTTTAATAAAATTCTTAATATTAAATATTCTT
1 --ATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATTAAATATTCTT
9680074 ATATGAATTTAATAAAA
1 ATAT-AATTTAATAAAA
9680091 TCACAATATA
Statistics
Matches: 108, Mismatches: 16, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
55 8 0.07
56 30 0.28
57 12 0.11
58 3 0.03
59 8 0.07
61 4 0.04
63 8 0.07
64 2 0.02
65 12 0.11
66 17 0.16
67 4 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (55 bp):
ATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATTAAATATTCTT
Found at i:9680014 original size:122 final size:120
Alignment explanation
Indices: 9679877--9680117 Score: 410
Period size: 122 Copynumber: 2.0 Consensus size: 120
9679867 TTAATCATAT
9679877 TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
**
9679942 AAATATTCTTATATGAATTTTCTAAAATCATAATATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTAATAAAATCA-AA-ATATATAATACTATAAAATATAA
* *
9679999 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAGTTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
* *
9680064 AAATATTCTTATATGAATTTAATAAAATCACAATATATAATACTATATAATATA
66 AAATATTCTTATATGAATTTAATAAAATCAAAATATATAATACTATAAAATATA
9680118 GAATAATAAT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 21 0.19
121 1 0.01
122 91 0.81
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTAATAAAATCAAAATATATAATACTATAAAATATAA
Found at i:9680100 original size:61 final size:60
Alignment explanation
Indices: 9679897--9680102 Score: 187
Period size: 61 Copynumber: 3.5 Consensus size: 60
9679887 TTATTATTAA
9679897 ATAT-AATTTAATAAAA--AC-ATATA-ATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATGAATTTAATAAAATCACAATATATATTTAATAAAATTCTTAATATTAAATATTCTT
** * * * *
9679952 ATATGAATTTTCTAAAATCATAATATATATAATACTATAAAA-T-ATAAT-TTAACATAATTATT
1 ATATGAATTTAATAAAATCACAATATATAT-TTA--ATAAAATTCTTAATATTAA-AT-ATTCTT
* * ** * *
9680014 AT-TAAATATAATTTAATAAAAATATATAGTTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATGAATTTAATAAAATCACAATATATA-TTTAATAAAATTCTTAATATTAAATATTCTT
9680074 ATATGAATTTAATAAAATCACAATATATA
1 ATATGAATTTAATAAAATCACAATATATA
9680103 ATACTATATA
Statistics
Matches: 113, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
55 4 0.04
56 10 0.09
58 1 0.01
59 11 0.10
60 14 0.12
61 54 0.48
62 13 0.12
63 6 0.05
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (60 bp):
ATATGAATTTAATAAAATCACAATATATATTTAATAAAATTCTTAATATTAAATATTCTT
Found at i:9681745 original size:37 final size:37
Alignment explanation
Indices: 9681681--9681837 Score: 199
Period size: 37 Copynumber: 4.0 Consensus size: 37
9681671 TACGTATGAT
*
9681681 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
9681717 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
9681754 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
9681797 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
9681837 C
1 C
9681838 GAAGCTATCA
Statistics
Matches: 107, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
36 10 0.09
37 54 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:9681807 original size:46 final size:46
Alignment explanation
Indices: 9681754--9682120 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
9681744 TAAGTGTAGC
* **
9681754 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
9681800 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9681846 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9681898 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9681950 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
9681996 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
9682042 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9682094 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9682121 AGTACTCAAA
Statistics
Matches: 290, Mismatches: 18, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:9681873 original size:52 final size:52
Alignment explanation
Indices: 9681797--9682114 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
9681787 TAGCTAAAGC
* *
9681797 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9681850 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
9681902 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9681954 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9682000 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
9682046 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9682098 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
9682115 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:9682062 original size:196 final size:196
Alignment explanation
Indices: 9681754--9682106 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
9681744 TAAGTGTAGC
* * * * * *
9681754 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
9681819 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
9681884 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
9681949 T
196 T
*
9681950 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
9682015 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
9682080 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
9682107 ATCACTTGAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:9682110 original size:98 final size:97
Alignment explanation
Indices: 9681754--9682120 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
9681744 TAAGTGTAGC
* * * *
9681754 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
9681819 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
9681853 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
9681918 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
9681957 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
9682017 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
9682049 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
9682114 GATCAGA
65 GATCAGA
9682121 AGTACTCAAA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 148 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:9686574 original size:14 final size:14
Alignment explanation
Indices: 9686555--9686588 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9686545 TTGTTTCACT
9686555 GAAAATGACTTCTA
1 GAAAATGACTTCTA
*
9686569 GAAAATGATTTCTA
1 GAAAATGACTTCTA
*
9686583 AAAAAT
1 GAAAAT
9686589 AATTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (14 bp):
GAAAATGACTTCTA
Found at i:9687164 original size:16 final size:16
Alignment explanation
Indices: 9687133--9687169 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9687123 ATGTGAATAA
9687133 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9687149 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
9687165 TATTA
1 TATTA
9687170 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9687179 original size:33 final size:34
Alignment explanation
Indices: 9687140--9687235 Score: 101
Period size: 33 Copynumber: 2.9 Consensus size: 34
9687130 TAATATTATT
*
9687140 TAAAATTATTATTTTTAA-AATTTATTATTAA-AA
1 TAAAATTA-TATTTTTAATAATTTATTATAAATAA
* * *
9687173 TAAAATTGAAATATTAAATAATTTATTA-AAATAA
1 TAAAATT-ATATTTTTAATAATTTATTATAAATAA
9687207 T-AAATTATATTTATTAATAATTTATTATA
1 TAAAATTATATTT-TTAATAATTTATTATA
9687236 TGACTAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
32 4 0.08
33 33 0.65
34 14 0.27
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (34 bp):
TAAAATTATATTTTTAATAATTTATTATAAATAA
Found at i:9687210 original size:20 final size:22
Alignment explanation
Indices: 9687181--9687223 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
9687171 AATAAAATTG
*
9687181 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
9687201 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
9687223 A
1 A
9687224 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:9687301 original size:9 final size:9
Alignment explanation
Indices: 9687287--9687315 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
9687277 TGAAAAATAT
9687287 AATATTTTA
1 AATATTTTA
9687296 AATATTTTA
1 AATATTTTA
9687305 AATATTTTA
1 AATATTTTA
9687314 AA
1 AA
9687316 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATATTTTA
Found at i:9692224 original size:111 final size:110
Alignment explanation
Indices: 9692024--9692329 Score: 458
Period size: 111 Copynumber: 2.8 Consensus size: 110
9692014 AAGGAAAATG
* * *
9692024 TTTTAAAATAAGGCAATATTTCGCGTTTGGGAAATTCGAGAAAACATTCCCTAAGGTGCTGGGTG
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
** * *
9692089 TTGATTTTTCTCGTCCAACCAAATGGCTTAATATCCTTTTAAAAC
66 TTGATTTTTCTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
9692134 TTTTAAGAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGT
1 TTTTAA-AATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGT
9692199 GTTGATTTTTCTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
65 GTTGATTTTTCTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
* * * * *
9692245 TTTCAAAATAAGGCAATGTTTTGCATTT-GGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
*
9692308 TTGA--TTTCTCGTTTAACCAAAT
66 TTGATTTTTCTCGTTAAACCAAAT
9692330 TGTCAAATAT
Statistics
Matches: 182, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
106 17 0.09
108 25 0.14
109 11 0.06
110 27 0.15
111 102 0.56
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (110 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TTGATTTTTCTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
Found at i:9704275 original size:50 final size:50
Alignment explanation
Indices: 9704117--9704793 Score: 613
Period size: 50 Copynumber: 13.7 Consensus size: 50
9704107 GCAGCGGAAC
* * * *
9704117 AGATTGAAGCTACAACGGCGAATCTCACTTCCCTGACATTGCAA-TCAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
* * ** * ** * ** ** * *
9704166 AGATTGAGGCCACAAC-GACAAATCTTA-TTTCGAGGCGGTGCGGTGGAAC
1 AGATTGAAGCTACAACAG-CGGATCTTACTTCCCTGACATTGCAATTGAAA
* * * *
9704215 AGATTGAAGCTACAACAGTGGATCTTACTTCCATGATATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
* * * *
9704265 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAATTGAAA
*
9704315 AGATTGAAGCTACAACAGTGGATCTTACTTCCCTGACATTGCAATT-AAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
* * * *
9704364 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAATTGAAA
9704414 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATT-AAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
* * * *
9704463 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAATTGAAA
*
9704513 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA-TAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
* * * * *
9704562 AGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCAATGCAATGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
* * ** ** * *
9704612 AGATTGAAGCTACATCGGCAAATCACACTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
** * * * * * * *
9704662 AGATTGAAGCTACAAC-GACAAATCTTATTTCCCAGGCGA-TACAGTGGAAC
1 AGATTGAAGCTACAACAG-CGGATCTTACTTCCCTGAC-ATTGCAATTGAAA
* * ** *
9704712 AGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATT-AAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
* * * *
9704761 AGATTGAGGCCACAACGGCGAATCTTACTTCCC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCC
9704794 AGGCGATGTA
Statistics
Matches: 505, Mismatches: 106, Indels: 34
0.78 0.16 0.05
Matches are distributed among these distances:
48 11 0.02
49 205 0.41
50 284 0.56
51 5 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTGAAA
Found at i:9704412 original size:99 final size:99
Alignment explanation
Indices: 9704054--9704790 Score: 887
Period size: 99 Copynumber: 7.4 Consensus size: 99
9704044 TAACCATAGT
* * * ** *
9704054 TTGCAATTTAAAAGATTGAGGCCACAAC-GACGAATCTTACTTTCTCAAGCGGTGCAGCGGAACA
1 TTGCAA-TTAAAAGATTGAAGCTACAACAG-CGAATCTTACTTTC-CTAGCATTGCAGTGGAACA
* * *
9704118 GATTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
63 GATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * * ** *
9704155 TTGCAATCAAAAGATTGAGGCCACAAC-GACAAATCTTA-TTT-CGAGGCGGTGCGGTGGAACAG
1 TTGCAATTAAAAGATTGAAGCTACAACAG-CGAATCTTACTTTCCTA-GCATTGCAGTGGAACAG
* * *
9704217 ATTGAAGCTACAACAGTGGATCTTACTTCCATGATA
64 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
9704253 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
1 TTGCAATT-AAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGA
*
9704318 TTGAAGCTACAACAGTGGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
9704353 TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGAT
9704418 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
9704452 TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGAT
9704517 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * * *
9704551 TTGCAATAAAAAGATTGAAGCTACAACAGCGGATCTTAC-TTCCCAGGCAATGCAATGGAATAGA
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTA-GCATTGCAGTGGAACAGA
* * ** ** *
9704615 TTGAAGCTACATCGGCAAATCACACTTCCCCGACA
65 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
9704650 TTGCAATTTAAAAGATTGAAGCTACAAC-GACAAATCTTA-TTTCCCAGGCGA-TACAGTGGAAC
1 TTGCAA-TTAAAAGATTGAAGCTACAACAG-CGAATCTTACTTTCCTA-GC-ATTGCAGTGGAAC
* * ** *
9704712 AGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
62 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
9704750 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTT
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGAATCTTACTT
9704791 CCCAGGCGAT
Statistics
Matches: 576, Mismatches: 48, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
97 2 0.00
98 57 0.10
99 331 0.57
100 177 0.31
101 9 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGAT
TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
Found at i:9704815 original size:149 final size:148
Alignment explanation
Indices: 9704106--9704823 Score: 599
Period size: 149 Copynumber: 4.8 Consensus size: 148
9704096 TCTCAAGCGG
* * * * * *
9704106 TGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCCTGACATTGCAATCAAAAGATT
1 TGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGAAAAGATT
* * * * * * * * *
9704171 GAGGCCACAACGACAAATCTTA-TTTCGAGGCGGTGCGGTGGAACAGATTGAAGCTACAACAGTG
66 GAAGCTACAACGGCGAATCTTACTTCCCAGGC-ATGCAGTGGAACAGATTGAAGCTACAACAGCG
* **
9704235 GATCTTACTT-CCATGATAT
130 GATCTTATTTCCCA-GGCAT
* ** * * * * *
9704254 TGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTT-TCCTAGCATTGCAGTGGAACAGA
1 TGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCCGA-CATTGCAAT-GAAAAGA
* * * * * * * *
9704318 TTGAAGCTACAACAGTGGATCTTACTTCCCTGACATTGCAAT-TAAAAGATTGAAGCTACAACAG
64 TTGAAGCTACAACGGCGAATCTTACTTCCCAGGCA-TGCAGTGGAACAGATTGAAGCTACAACAG
*
9704382 CGGATCTTACTTTCCTA-GCAT
128 CGGATCTTA-TTTCCCAGGCAT
* *
9704403 TGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAGATT
1 TGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGAAAAGATT
* * *
9704468 GAAGCTACAACAGCGGATCTTACTTTCCTA-GCATTGCAGTGGAACAGATTGAAGCTACAACAGC
66 GAAGCTACAACGGCGAATCTTAC-TTCCCAGGCA-TGCAGTGGAACAGATTGAAGCTACAACAGC
* * *
9704532 GGATCTTACTTCCCTGACAT
129 GGATCTTATTTCCCAGGCAT
* * * * * * *
9704552 TGCAAT-AAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCAATGCAATGGAATAGAT
1 TGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAAT-GAAAAGAT
* * ** * * * ** *
9704616 TGAAGCTACATCGGCAAATCACACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACAAC-GA
65 TGAAGCTACAACGGCGAATCTTACTTCCCAGGCA-TGCAGTGGAACAGATTGAAGCTACAACAG-
**
9704680 CAAATCTTATTTCCCAGGCGA-
128 CGGATCTTATTTCCCAGGC-AT
* * * ** *
9704701 TACAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATT
1 TGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGAAAAGATT
* * * * *
9704766 GAGGCCACAACGGCGAATCTTACTTCCCAGGCGATGTAGCGCAACAGATTGAAGCTAC
66 GAAGCTACAACGGCGAATCTTACTTCCCAGGC-ATGCAGTGGAACAGATTGAAGCTAC
9704824 GACGTAAAAC
Statistics
Matches: 445, Mismatches: 109, Indels: 31
0.76 0.19 0.05
Matches are distributed among these distances:
147 2 0.00
148 131 0.29
149 255 0.57
150 55 0.12
151 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (148 bp):
TGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGAAAAGATT
GAAGCTACAACGGCGAATCTTACTTCCCAGGCATGCAGTGGAACAGATTGAAGCTACAACAGCGG
ATCTTATTTCCCAGGCAT
Found at i:9706639 original size:29 final size:27
Alignment explanation
Indices: 9706606--9706660 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
9706596 TATACATTTT
*
9706606 TTTTACACTTGTACCCATTTATATATATG
1 TTTTACACTT-TA-CAATTTATATATATG
* *
9706635 TTTTATACTTTATAATTTATATATAT
1 TTTTACACTTTACAATTTATATATAT
9706661 ACATATAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 12 0.52
28 2 0.09
29 9 0.39
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.55
Consensus pattern (27 bp):
TTTTACACTTTACAATTTATATATATG
Found at i:9707241 original size:111 final size:109
Alignment explanation
Indices: 9707041--9707346 Score: 447
Period size: 111 Copynumber: 2.8 Consensus size: 109
9707031 AAGGAAAATG
* * *
9707041 TTTTAAAATAAGGCAATATTTCGCGTTTGGGAAATTCGAGAAAACATTCCCTAAGGTGCTGGGTG
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
** * *
9707106 TTGATTTTTCTCGTCCAACCAAATGGCTTAATATCCTTTTAAAAC
66 TTGA-TTTTCTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
9707151 TTTTAAGAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGT
1 TTTTAA-AATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGT
9707216 GTTGATTTTCCTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
65 GTTGATTTT-CTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
* * * * *
9707262 TTTCAAAATAAGGCAATGTTTTGCATTT-GGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
*
9707325 TTGA-TTTCTCGTTTAACCAAAT
66 TTGATTTTCTCGTTAAACCAAAT
9707347 TGTCAAATAT
Statistics
Matches: 181, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
106 14 0.08
107 3 0.02
108 25 0.14
109 11 0.06
110 31 0.17
111 97 0.54
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (109 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TTGATTTTCTCGTTAAACCAAATGGCTTAATATCCTTCTAAAAA
Found at i:9709029 original size:16 final size:16
Alignment explanation
Indices: 9708999--9709028 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9708989 ATCTAACTTT
9708999 GTATACTAAAATTTTG
1 GTATACTAAAATTTTG
9709015 GTATAC-AAAATTTT
1 GTATACTAAAATTTT
9709029 TAATCAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (16 bp):
GTATACTAAAATTTTG
Found at i:9710507 original size:88 final size:89
Alignment explanation
Indices: 9710381--9710560 Score: 254
Period size: 88 Copynumber: 2.0 Consensus size: 89
9710371 AAGTAAGCTA
* * * *
9710381 CTTGAAAATATTGTTAATGAAGAGTAAAGGCTTAGATCTCACATTGGTTAAATACCAAAGTGTGA
1 CTTGAAAATATTGTTAAGGAAAAATAAAGACTTAGATCTCACATTGGTTAAATACCAAAGTGTGA
* *
9710446 GATGGGCTTATATATGTGAACCTT
66 GATGAGCTTATATATGTGAACCCT
* * *
9710470 CTTG-AAATATTGTTGAGGAAAAATAAAGACTTGGATCTCACATTGGTTTAATACCAAAGTGTGA
1 CTTGAAAATATTGTTAAGGAAAAATAAAGACTTAGATCTCACATTGGTTAAATACCAAAGTGTGA
* *
9710534 GATGAGTTTATCTATGTGAACCCT
66 GATGAGCTTATATATGTGAACCCT
9710558 CTT
1 CTT
9710561 CAAAGGTAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 76 0.95
89 4 0.05
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (89 bp):
CTTGAAAATATTGTTAAGGAAAAATAAAGACTTAGATCTCACATTGGTTAAATACCAAAGTGTGA
GATGAGCTTATATATGTGAACCCT
Found at i:9712186 original size:24 final size:24
Alignment explanation
Indices: 9712158--9712214 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
9712148 TCATTACTAC
9712158 TATTACTATTG-TTAATAATATTGT
1 TATTA-TATTGATTAATAATATTGT
* *
9712182 TATTAT-TATGATTATTACTATTGT
1 TATTATAT-TGATTAATAATATTGT
9712206 TATTATATT
1 TATTATATT
9712215 TTTGTAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 3 0.11
24 23 0.82
25 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.58
Consensus pattern (24 bp):
TATTATATTGATTAATAATATTGT
Found at i:9712196 original size:12 final size:12
Alignment explanation
Indices: 9712158--9712211 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
9712148 TCATTACTAC
*
9712158 TATTACTATTGT
1 TATTATTATTGT
* *
9712170 TAATAATATTGT
1 TATTATTATTGT
9712182 TATTATTA-TGAT
1 TATTATTATTG-T
*
9712194 TATTACTATTGT
1 TATTATTATTGT
9712206 TATTAT
1 TATTAT
9712212 ATTTTTGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (12 bp):
TATTATTATTGT
Found at i:9713554 original size:16 final size:16
Alignment explanation
Indices: 9713529--9713562 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9713519 TATGTTTTGC
* *
9713529 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
9713545 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
9713561 TT
1 TT
9713563 CATCCTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:9719016 original size:16 final size:18
Alignment explanation
Indices: 9718996--9719035 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
9718986 ACGCAAGACA
*
9718996 AAGAAGGAGT-GAGATAG
1 AAGAAGGAGTCGAGAAAG
9719013 -AGAA-GAGTCGAGAAAG
1 AAGAAGGAGTCGAGAAAG
9719029 AAGAAGG
1 AAGAAGG
9719036 GCACGCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 4 0.21
18 1 0.05
ACGTcount: A:0.50, C:0.03, G:0.40, T:0.07
Consensus pattern (18 bp):
AAGAAGGAGTCGAGAAAG
Found at i:9723699 original size:12 final size:12
Alignment explanation
Indices: 9723682--9723706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9723672 AAGTTGAGAC
9723682 TATCCCTTCAGA
1 TATCCCTTCAGA
9723694 TATCCCTTCAGA
1 TATCCCTTCAGA
9723706 T
1 T
9723707 TTTGTGGTCA
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:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCCCTTCAGA
Found at i:9724449 original size:132 final size:132
Alignment explanation
Indices: 9724208--9724892 Score: 1004
Period size: 132 Copynumber: 5.2 Consensus size: 132
9724198 GAATAAACCA
* * * * *
9724208 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG-A---TA-G
1 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGTGAATCTTATC
**** *
9724268 TGGAGAAGTAGTAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGTAGTGGAG
66 TTCCCAAG-A-TAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAG
9724333 TAGG
129 TAGG
* *
9724337 TTGAAGATTGCAGATTCTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAAATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGTGAATCTTATC
*
9724402 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAACA-CTAGTGGAGT
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGC-AGTGGAGT
9724466 AGG
130 AGG
*
9724469 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGTGAATCTTATC
* * * *
9724534 TTCCCAAGATAATGAAGAAGCAAATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTAGAGTA
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
9724599 GG
131 GG
* * *
9724601 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGTGAATCTTATC
* * *
9724666 TTCCCAATATAGTGGAGAAGCAGATTTAAACCATTAGTCCTTTCTCCCTGAGCAGCAGTGGAGTA
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
9724731 GG
131 GG
* *
9724733 TTGAAGATTGCAGATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGTGAATCTTATC
* * *
9724798 TTCCCAAGATAGTGGAGAAGCAAATTTAAGCCATTAATCCTATCTCCCTGAGCAGCAGTGGAGTG
66 TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
9724863 GG
131 GG
* * * *
9724865 TTGAATATTGTAAATCCTGTCTCCCTAA
1 TTGAAGATTGCAGATTCTGTCTCCCTAA
9724893 TCTTCATTAC
Statistics
Matches: 505, Mismatches: 44, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
129 50 0.10
130 1 0.00
132 446 0.88
133 4 0.01
134 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGTGAATCTTATC
TTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
GG
Found at i:9724784 original size:44 final size:44
Alignment explanation
Indices: 9724309--9724777 Score: 181
Period size: 44 Copynumber: 10.7 Consensus size: 44
9724299 GCCATTAGTC
* * *
9724309 CTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * * * ** *
9724353 CTATCTCCCTAAGCAGTAGTAGAGCAGA-TCAAAAATGGTGAAT
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* *
9724396 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGT-G-G-AGCAGATTGAAG--ATTGCAGATT
* * *
9724441 CTATCTCCCTGAA-CACTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * * ** *
9724485 CTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAA-AATGGTGAAT
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * * *
9724528 CTTATCTTCCC-AAG-A-TAATGAAGAAGCAAATTTAAGCCATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGTG--G-AGCAGATTGAAG--ATTGCAGATT
* * * * *
9724573 CTATCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * * ** *
9724617 CTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-TGGTGAAT
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * * *
9724660 CTTATCTTCCC-AA-TA-TAGTGGAGAAGCAGATTTAAACCATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGT-G-G-AGCAGA-TTGAA-GATTGCAGATT
* * * * *
9724705 CTTTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
9724749 CTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 CTATCTCCCTAAGCAGTAGTGGAGCAGAT
9724778 CAAAGATGGT
Statistics
Matches: 301, Mismatches: 80, Indels: 88
0.64 0.17 0.19
Matches are distributed among these distances:
41 9 0.03
42 16 0.05
43 68 0.23
44 143 0.48
45 41 0.14
46 18 0.06
47 1 0.00
48 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
Found at i:9724914 original size:6 final size:6
Alignment explanation
Indices: 9724906--9724962 Score: 69
Period size: 6 Copynumber: 9.5 Consensus size: 6
9724896 TCATTACTAC
* * * *
9724906 TATTAC TATTGT TATTAT TATTAT TATTAT TATTAT GATTAT TACTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
*
9724954 TGTTAT TAT
1 TATTAT TAT
9724963 ATTTTGTAAC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (6 bp):
TATTAT
Found at i:9724924 original size:9 final size:9
Alignment explanation
Indices: 9724906--9724962 Score: 69
Period size: 9 Copynumber: 6.3 Consensus size: 9
9724896 TCATTACTAC
*
9724906 TATTACTAT
1 TATTATTAT
*
9724915 TGTTATTAT
1 TATTATTAT
9724924 TATTATTAT
1 TATTATTAT
9724933 TATTATTAT
1 TATTATTAT
* *
9724942 GATTATTAC
1 TATTATTAT
*
9724951 TATTGTTAT
1 TATTATTAT
9724960 TAT
1 TAT
9724963 ATTTTGTAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (9 bp):
TATTATTAT
Found at i:9727544 original size:20 final size:20
Alignment explanation
Indices: 9727482--9727547 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
9727472 TGGTATAGGC
9727482 TAGAAA-TTTGGTATC-CAT
1 TAGAAATTTTGGTATCGCAT
* **
9727500 TAGAAAATTTTGGCATCGCCG
1 TAG-AAATTTTGGTATCGCAT
9727521 TAGAAATTTTGGTATCGCAT
1 TAGAAATTTTGGTATCGCAT
9727541 TAGAAAT
1 TAGAAAT
9727548 ATCGATGTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 29 0.74
21 4 0.10
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (20 bp):
TAGAAATTTTGGTATCGCAT
Found at i:9727714 original size:20 final size:20
Alignment explanation
Indices: 9727689--9727756 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
9727679 CATTAGAAAT
*
9727689 TTAGAAATATTGTTATTCGA
1 TTAGAAATATTGGTATTCGA
* *
9727709 TTAGAAATAATGGTGTCTCG-
1 TTAGAAATATTGGTAT-TCGA
* **
9727729 TTAGAAATCTTGGTATTATA
1 TTAGAAATATTGGTATTCGA
9727749 TTAGAAAT
1 TTAGAAAT
9727757 TTTGTTATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.03
20 34 0.89
21 3 0.08
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (20 bp):
TTAGAAATATTGGTATTCGA
Found at i:9727765 original size:20 final size:20
Alignment explanation
Indices: 9727729--9727766 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9727719 TGGTGTCTCG
9727729 TTAGAAATCTTGGTATTATA
1 TTAGAAATCTTGGTATTATA
* *
9727749 TTAGAAATTTTGTTATTA
1 TTAGAAATCTTGGTATTA
9727767 ATTTATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (20 bp):
TTAGAAATCTTGGTATTATA
Found at i:9728284 original size:17 final size:16
Alignment explanation
Indices: 9728262--9728297 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9728252 TAATTTTAAA
*
9728262 TATTATATTTTATTATT
1 TATTATATGTTATT-TT
9728279 TATTATATGTTATTTT
1 TATTATATGTTATTTT
9728295 TAT
1 TAT
9728298 GTGATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTATATGTTATTTT
Found at i:9728699 original size:11 final size:11
Alignment explanation
Indices: 9728683--9728780 Score: 64
Period size: 11 Copynumber: 9.3 Consensus size: 11
9728673 TCAATTATTT
9728683 TCTCAATTTCC
1 TCTCAATTTCC
9728694 TCTCAATTTCC
1 TCTCAATTTCC
* *
9728705 TCTCAAATTGC
1 TCTCAATTTCC
*
9728716 TTTCAATTTCC
1 TCTCAATTTCC
9728727 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
9728738 TCTCAA-ATCC
1 TCTCAATTTCC
* **
9728748 -AT--ATTTAA
1 TCTCAATTTCC
*
9728756 TCTCAATTTAC
1 TCTCAATTTCC
9728767 TCTCAATTTCC
1 TCTCAATTTCC
9728778 TCT
1 TCT
9728781 TAAAATTCTC
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 4 0.06
11 51 0.77
12 6 0.09
ACGTcount: A:0.24, C:0.30, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:9728743 original size:22 final size:22
Alignment explanation
Indices: 9728683--9728743 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
9728673 TCAATTATTT
9728683 TCTC-AATTTCCTCTCAATTTCC
1 TCTCAAATTT-CTCTCAATTTCC
* *
9728705 TCTCAAATTGCTTTCAATTTCC
1 TCTCAAATTTCTCTCAATTTCC
9728727 T-TCCAAATTTCTCTCAA
1 TCT-CAAATTTCTCTCAA
9728744 ATCCATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.85
23 4 0.12
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAAATTTCTCTCAATTTCC
Found at i:9728761 original size:51 final size:51
Alignment explanation
Indices: 9728705--9728804 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
9728695 CTCAATTTCC
* * *
9728705 TCTCAAATTGCTTTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTACTCTCAATTTCCTCT-CAAAATTCTCTCAAATCCATATTTAA
* * * *
9728756 TCTCAATTTACTCTCAATTTCCTCTTAAAATTCTCTTAAATCCCTATTT
1 TCTCAAATTACTCTCAATTTCCTCTCAAAATTCTCTCAAATCCATATTT
9728805 TTAACTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.01, T:0.45
Consensus pattern (51 bp):
TCTCAAATTACTCTCAATTTCCTCTCAAAATTCTCTCAAATCCATATTTAA
Found at i:9728826 original size:20 final size:19
Alignment explanation
Indices: 9728801--9728838 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9728791 TTAAATCCCT
9728801 ATTTTTAACTATTTTTAAAA
1 ATTTTTAA-TATTTTTAAAA
*
9728821 ATTTTTAATTTTTTTAAA
1 ATTTTTAATATTTTTAAA
9728839 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTAATATTTTTAAAA
Found at i:9728840 original size:10 final size:10
Alignment explanation
Indices: 9728800--9728850 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
9728790 CTTAAATCCC
*
9728800 TATTTTTAAC
1 TATTTTTAAA
9728810 TATTTTTAAA
1 TATTTTTAAA
*
9728820 AATTTTT-AA
1 TATTTTTAAA
*
9728829 TTTTTTTAAA
1 TATTTTTAAA
*
9728839 TTTTTTTTAAA
1 -TATTTTTAAA
9728850 T
1 T
9728851 CATAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 7 0.20
10 18 0.51
11 10 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:9730634 original size:18 final size:18
Alignment explanation
Indices: 9730611--9730653 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9730601 TGCCAGGTGC
* *
9730611 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
9730629 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
9730647 GTTTCCT
1 GTATCCT
9730654 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9731244 original size:21 final size:21
Alignment explanation
Indices: 9731218--9731291 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
9731208 CCCTAACTCT
*
9731218 AACCCTCACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
9731239 AACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
9731260 AACACCAAAACCC-TAAC--AAA
1 AAC-CC-TAACCCTTAACTTAAA
9731280 AACCCTAACCCT
1 AACCCTAACCCT
9731292 AACCCTAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
18 5 0.11
19 2 0.04
20 6 0.13
21 22 0.49
22 6 0.13
23 4 0.09
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:9731328 original size:14 final size:15
Alignment explanation
Indices: 9731298--9731330 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9731288 CCCTAACCCT
9731298 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
9731313 AACCTTTAACTTAAA
1 AACCCTTAACTTAAA
9731328 AAC
1 AAC
9731331 ACCAAAACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:9731366 original size:68 final size:70
Alignment explanation
Indices: 9731193--9731383 Score: 278
Period size: 68 Copynumber: 2.7 Consensus size: 70
9731183 TTTAATTGAC
* *
9731193 AAACCCTAACAAAAACCCTAACTCTAACCCTCACCCTTAACTTAAAAACCCTAACTCTTAACTTA
1 AAACCCTAACAAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAA--C--ACTCTTAACTTA
9731258 AAAACACCA
62 AAAACACCA
9731267 AAACCCTAACAAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAAC-CT-TTAACTTAAAAA
1 AAACCCTAACAAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAACACTCTTAACTTAAAAA
9731330 CACCA
66 CACCA
* * * *
9731335 AAACCGTAACAAAAACCTTAGCCCTAACCCTAACCATTAACTTAAAAAC
1 AAACCCTAACAAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAAC
9731384 TCTAACTCTA
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 62 0.56
69 2 0.02
72 1 0.01
74 46 0.41
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (70 bp):
AAACCCTAACAAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAACACTCTTAACTTAAAAA
CACCA
Found at i:9731414 original size:86 final size:86
Alignment explanation
Indices: 9731313--9731490 Score: 268
Period size: 86 Copynumber: 2.1 Consensus size: 86
9731303 TTAACTTAAA
* ** * *
9731313 AACCTTTAACTTAAAAACACCAAAACCGTAACAAAAACCTTAGCCCTAACCCT-AACCATTAACT
1 AACCCTTAACTTAAAAACACCAAAACCCAAACAAAAACCCTAACCCTAACCCTGAACC-TTAACT
* *
9731377 TAAAAACTCTAACTCTAACCCT
65 TAAAAACCCTAACCCTAACCCT
*
9731399 AACCCTTAACTTAAAAACACCAAAACCCAAACAAAAACCCTAACCCTAACCCTGATCCTTAACTT
1 AACCCTTAACTTAAAAACACCAAAACCCAAACAAAAACCCTAACCCTAACCCTGAACCTTAACTT
9731464 AAAAACCCTAACCCTAACCCT
66 AAAAACCCTAACCCTAACCCT
9731485 AACCCT
1 AACCCT
9731491 AACCCTTAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 80 0.96
87 3 0.04
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.20
Consensus pattern (86 bp):
AACCCTTAACTTAAAAACACCAAAACCCAAACAAAAACCCTAACCCTAACCCTGAACCTTAACTT
AAAAACCCTAACCCTAACCCT
Found at i:9731478 original size:6 final size:6
Alignment explanation
Indices: 9731467--9731523 Score: 62
Period size: 6 Copynumber: 9.0 Consensus size: 6
9731457 TTAACTTAAA
*
9731467 AACCCT AACCCT AACCCT AACCCT AACCCTT AA-CTT AAAAACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCCT AACCC-T AACCCT ---AACCCT AACCCT
9731518 AACCCT
1 AACCCT
9731524 TAACTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 1 0.02
6 36 0.82
7 3 0.07
8 2 0.05
9 2 0.05
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (6 bp):
AACCCT
Found at i:9731484 original size:39 final size:39
Alignment explanation
Indices: 9731434--9731523 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 39
9731424 CCCAAACAAA
* *
9731434 AACCCTAACCCTAACCCTGATCCTTAACTTAAAAACCCT
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCT
9731473 AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCT
9731512 AACCCTAACCCT
1 AACCCTAACCCT
9731524 TAACTTAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.37, C:0.41, G:0.01, T:0.21
Consensus pattern (39 bp):
AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCT
Found at i:9731511 original size:15 final size:15
Alignment explanation
Indices: 9731491--9731550 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
9731481 CCCTAACCCT
9731491 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
9731506 AACCC-TAACCCT---
1 AACCCTTAA-CTTAAA
9731518 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
* *
9731533 AATCCTTGACTTAAA
1 AACCCTTAACTTAAA
9731548 AAC
1 AAC
9731551 ACCAAAACCC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
12 7 0.20
13 3 0.09
14 3 0.09
15 22 0.63
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:9731511 original size:27 final size:27
Alignment explanation
Indices: 9731479--9731534 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
9731469 CCCTAACCCT
9731479 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
9731506 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
9731533 AA
1 AA
9731535 TCCTTGACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (27 bp):
AACCCTAACCCTAACCCTTAACTTAAA
Found at i:9731651 original size:16 final size:15
Alignment explanation
Indices: 9731620--9731652 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9731610 CATAAACCCT
*
9731620 AACCTTTAACTTAAA
1 AACCCTTAACTTAAA
9731635 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
9731650 AAC
1 AAC
9731653 ACCAAAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:9731651 original size:102 final size:103
Alignment explanation
Indices: 9731483--9731726 Score: 315
Period size: 102 Copynumber: 2.4 Consensus size: 103
9731473 AACCCTAACC
* * *
9731483 CTAACCCTAACCCTTAACTTAAAAA--C---CC-TAACCCTAACCCTTAACTTAAAAATCCTTGA
1 CTAACCCTAACCATTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTTAA
* *
9731542 CTTAAAAACACCAAAACCCTAACAAAAACCTTAG-CCT
66 CTTAAAAACACCAAAACCCAAACAAAAACCCTAGCCCT
*
9731579 -TAACCCTAACCATTAACTTAAAAACCCTAACCATAAACCCTAACCTTTAACTTAAAAACCCTTA
1 CTAACCCTAACCATTAACTTAAAAACCCTAACCAT-AACCCTAACCCTTAACTTAAAAACCCTTA
*
9731643 ACTTAAAAACACCAAAACTCAAACAAAAACCCTAGCCCT
65 ACTTAAAAACACCAAAACCCAAACAAAAACCCTAGCCCT
*
9731682 AACCCTAACCCTAACCCTTAACTTAAAAACCCTAACCATAACCCT
1 ----CTAACCCTAACCATTAACTTAAAAACCCTAACCATAACCCT
9731727 TAACTTAAAA
Statistics
Matches: 127, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
95 23 0.18
97 1 0.01
100 2 0.02
101 1 0.01
102 58 0.46
103 3 0.02
107 6 0.05
108 33 0.26
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (103 bp):
CTAACCCTAACCATTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTTAA
CTTAAAAACACCAAAACCCAAACAAAAACCCTAGCCCT
Found at i:9731714 original size:27 final size:27
Alignment explanation
Indices: 9731682--9731806 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
9731672 CCCTAGCCCT
9731682 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
*
9731709 AACCCTAACCATAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
9731736 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
* **
9731763 AACTCCAAAACCCTAATGC-TAAC--AAA
1 AAC-CC-TAACCCTAACCCTTAACTTAAA
9731789 AACCCTAACCCTAACCCT
1 AACCCTAACCCTAACCCT
9731807 AACCCTAATA
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.10
25 2 0.02
26 6 0.07
27 55 0.63
28 6 0.07
29 9 0.10
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (27 bp):
AACCCTAACCCTAACCCTTAACTTAAA
Found at i:9731718 original size:6 final size:6
Alignment explanation
Indices: 9731670--9731699 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9731660 CTCAAACAAA
*
9731670 AACCCT AGCCCT AACCCT AACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCCT AACCCT
9731700 TAACTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.50, G:0.03, T:0.17
Consensus pattern (6 bp):
AACCCT
Found at i:9731798 original size:6 final size:6
Alignment explanation
Indices: 9731789--9731814 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9731779 TGCTAACAAA
9731789 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
9731815 TATGATATAA
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:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:9731802 original size:18 final size:18
Alignment explanation
Indices: 9731769--9731803 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9731759 TAAAAACTCC
**
9731769 AAAACCCTAATGCTAACA
1 AAAACCCTAACCCTAACA
9731787 AAAACCCTAACCCTAAC
1 AAAACCCTAACCCTAAC
9731804 CCTAACCCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.34, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAACCCTAACCCTAACA
Found at i:9731868 original size:35 final size:36
Alignment explanation
Indices: 9731829--9731991 Score: 107
Period size: 35 Copynumber: 4.4 Consensus size: 36
9731819 ATATAATTTG
9731829 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATACAATTACACAATTA
* * ** * * * *
9731864 ATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTT
1 ATAATTTTACTAAC-AATTAATACA-ATTACACAAT-TA
* * ** * * * *
9731903 TTGACTGGTACTAACAATTAATA-ATTTGATATAATTTG
1 AT-AATTTTACTAACAATTAATACAATT-ACACAA-TTA
9731941 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATACAATTACACAATTA
9731976 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
9731992 AATGTTTTGA
Statistics
Matches: 94, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
35 31 0.33
36 9 0.10
37 24 0.26
38 14 0.15
39 8 0.09
40 8 0.09
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.39
Consensus pattern (36 bp):
ATAATTTTACTAACAATTAATACAATTACACAATTA
Found at i:9732053 original size:22 final size:23
Alignment explanation
Indices: 9732028--9732077 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
9732018 TAATTTGATA
* *
9732028 TAATTTTAATAACAAT-TAGTTT
1 TAATTTTAATAAAAATATAATTT
9732050 TAATTTTAATAAAAATATAATTT
1 TAATTTTAATAAAAATATAATTT
9732073 TAATT
1 TAATT
9732078 ATATTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TAATTTTAATAAAAATATAATTT
Found at i:9733124 original size:18 final size:17
Alignment explanation
Indices: 9733101--9733134 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9733091 TTCACTTTCC
9733101 AATTTATTACTTTAATTT
1 AATTTA-TACTTTAATTT
*
9733119 AATTTATCCTTTAATT
1 AATTTATACTTTAATT
9733135 AAAATCGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTATACTTTAATTT
Found at i:9734047 original size:19 final size:19
Alignment explanation
Indices: 9734025--9734067 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
9734015 AATCATCAGG
9734025 CAATGATTAAGTCAAAAAT
1 CAATGATTAAGTCAAAAAT
*
9734044 CAATGATTGAGTCAAAAAT
1 CAATGATTAAGTCAAAAAT
9734063 CAATG
1 CAATG
9734068 TGGTGCTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.26
Consensus pattern (19 bp):
CAATGATTAAGTCAAAAAT
Found at i:9735207 original size:19 final size:20
Alignment explanation
Indices: 9735171--9735209 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9735161 GAAAAATATT
9735171 AAATATATATATTATTTTTA
1 AAATATATATATTATTTTTA
9735191 AAATATA-ATAGTT-TTTTTA
1 AAATATATATA-TTATTTTTA
9735210 TTTTAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AAATATATATATTATTTTTA
Found at i:9735324 original size:9 final size:9
Alignment explanation
Indices: 9735310--9735337 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9735300 TTTTGTTACA
9735310 ACAATTAAT
1 ACAATTAAT
9735319 ACAATTAAT
1 ACAATTAAT
9735328 ACAATTAAT
1 ACAATTAAT
9735337 A
1 A
9735338 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:9735359 original size:68 final size:66
Alignment explanation
Indices: 9735280--9735421 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 66
9735270 TCAAGTTTGT
* *
9735280 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
9735345 AAA
64 AAA
9735348 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
9735413 T
66 A
9735414 TTTACTAA
1 TTTACTAA
9735422 CAATTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 43 0.61
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:9735431 original size:16 final size:16
Alignment explanation
Indices: 9735410--9735451 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9735400 AATAATTTGA
*
9735410 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
9735426 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9735442 TAGTTTTAAT
1 TAATTTTAAT
9735452 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9735435 original size:22 final size:23
Alignment explanation
Indices: 9735425--9735480 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
9735415 TTACTAACAA
* * *
9735425 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
9735447 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
9735470 TTAATTTTAAT
1 TTAATTTTAAT
9735481 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:9736761 original size:23 final size:22
Alignment explanation
Indices: 9736719--9736761 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9736709 TGGTAAAAAC
* *
9736719 ATTAAGTTAAATATTGAATGAA
1 ATTAAGCTAAATAATGAATGAA
9736741 ATTAAGCTAATATAATGAATG
1 ATTAAGCTAA-ATAATGAATG
9736762 GTTATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTAAGCTAAATAATGAATGAA
Done.