Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 12 of 410
Found at i:3035868 original size:18 final size:18
Alignment explanation
Indices: 3035823--3035860 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
3035813 TCACAAGTTC
3035823 CGAACATAAACTGTAAAA
1 CGAACATAAACTGTAAAA
3035841 CGAACATAAACTGTAAAA
1 CGAACATAAACTGTAAAA
3035859 CG
1 CG
3035861 TACTTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.18, G:0.13, T:0.16
Consensus pattern (18 bp):
CGAACATAAACTGTAAAA
Found at i:3036203 original size:17 final size:18
Alignment explanation
Indices: 3036170--3036208 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
3036160 TCTGGCCCAC
3036170 TAAACAAAATAATAT-AA
1 TAAACAAAATAATATAAA
3036187 TAAACAAAATCAA-ATAAA
1 TAAACAAAAT-AATATAAA
3036205 TAAA
1 TAAA
3036209 AGTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAACAAAATAATATAAA
Found at i:3036712 original size:14 final size:13
Alignment explanation
Indices: 3036689--3036714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3036679 AAATGGGGTC
3036689 TGAATTTTTTTTT
1 TGAATTTTTTTTT
3036702 TGAATTTTTTTTT
1 TGAATTTTTTTTT
3036715 ATATTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TGAATTTTTTTTT
Found at i:3037234 original size:4 final size:4
Alignment explanation
Indices: 3037225--3037272 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
3037215 TATAAGCTGT
* *
3037225 TTTA TTTA -TTA -TTA TTTG TTTA TTTA TTTA TTTA TTCA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
3037270 TTT
1 TTT
3037273 CTTCCACGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 9 0.24
4 29 0.76
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:3037378 original size:38 final size:36
Alignment explanation
Indices: 3037336--3037432 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 36
3037326 TTTTGTATTT
3037336 TATTATCATTATCATTATTATTATTATTTTATTATGCA
1 TATTAT-ATTATCATTATTATTA-TATTTTATTATGCA
* *
3037374 TATTAGTATTATGATTTATTATTATATTTTATTATGCT
1 TATTA-TATTATCA-TTATTATTATATTTTATTATGCA
*
3037412 TATTAT-TATACCATTATTATT
1 TATTATAT-TATCATTATTATT
3037433 GCAAATTGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
36 9 0.17
37 4 0.08
38 29 0.56
39 10 0.19
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (36 bp):
TATTATATTATCATTATTATTATATTTTATTATGCA
Found at i:3037383 original size:29 final size:29
Alignment explanation
Indices: 3037331--3037398 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
3037321 TGTGCTTTTG
* *
3037331 TATTTTATTATCATTATCATTATTATTAT
1 TATTTTATTATCATTATCAGTATTATGAT
*
3037360 TATTTTATTATGCA-TATTAGTATTATGAT
1 TATTTTATTAT-CATTATCAGTATTATGAT
*
3037389 T-TATTATTAT
1 TATTTTATTAT
3037399 ATTTTATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.24
29 24 0.71
30 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (29 bp):
TATTTTATTATCATTATCAGTATTATGAT
Found at i:3037428 original size:23 final size:23
Alignment explanation
Indices: 3037380--3037431 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3037370 TGCATATTAG
* **
3037380 TATTATGATTTATTATTATATTT
1 TATTATGACTTATTATTATACAT
3037403 TATTATG-CTTATTATTATACCAT
1 TATTATGACTTATTATTATA-CAT
3037426 TATTAT
1 TATTAT
3037432 TGCAAATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTATGACTTATTATTATACAT
Found at i:3037432 original size:3 final size:3
Alignment explanation
Indices: 3037331--3037420 Score: 64
Period size: 3 Copynumber: 31.0 Consensus size: 3
3037321 TGTGCTTTTG
* * *
3037331 TAT T-T TAT TAT CAT TAT CAT TAT TAT TAT TAT T-T TAT TAT GCA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * **
3037374 TAT TAG TAT TAT GATT TAT TAT TA- TAT T-T TAT TAT GCT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3037418 TAT
1 TAT
3037421 ACCATTATTA
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
2 9 0.14
3 54 0.82
4 3 0.05
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3039264 original size:3 final size:3
Alignment explanation
Indices: 3039256--3039280 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3039246 AGCACAATTT
3039256 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
3039281 GCAATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3039572 original size:3 final size:3
Alignment explanation
Indices: 3039564--3039613 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
3039554 ATATTAAACT
3039564 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3039612 AT
1 AT
3039614 GTTTGCCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3054451 original size:16 final size:18
Alignment explanation
Indices: 3054415--3054451 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3054405 TAGTGTTTTG
*
3054415 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
3054433 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
3054449 TAT
1 TAT
3054452 GGGATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:3054769 original size:219 final size:211
Alignment explanation
Indices: 3054433--3055188 Score: 849
Period size: 222 Copynumber: 3.5 Consensus size: 211
3054423 TATAGTTATT
* *
3054433 TATTTTGTTAATAATTTATGGGATTAGGTTAC-AAATTGTTAGTGTTTAGTTGTTTAAG-GTATT
1 TATTTTGTTAGTAATTTAT--GATTAGGTTACTAAATTGTTAGTGTTTAGTGGTTT-AGTGTATT
* **
3054496 GTGA-TTTTTAGGAATGTAATTTTTTTTAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATG
63 GTGATTTTTTAGTAATGT-A-TTTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATG
* **
3054560 ATTAGGTTATAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGGTTTTTTTAAT
126 ATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA-TG-A-T-T--TTTTAGTAAT
3054625 AATATATTTAAAAA-AATAATTTTATAGC
185 -ATAT-TTTAAAAATAATAATTTTATAGC
* * *
3054653 TATTTTATTAGTAATTTATGATTAGGTTACGTAAATTGCTAGTGTTTAGTGGTTTAGTGTATTAT
1 TATTTTGTTAGTAATTTATGATTAGGTTAC-TAAATTGTTAGTGTTTAGTGGTTTAGTGTATTGT
*
3054718 GATTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTA
65 GATTTTTTAGTAATGTATTTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTA
* * * *
3054783 GGTTACATAAATTGCTAGTGTTTAGTGGTTCAGTGTATTATGATTTTTTAGTAATGTATTTTAAA
130 GGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATATATTTTAAA
*
3054848 AATAATAATTTTATAGT
195 AATAATAATTTTATAGC
3054865 TATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGAGTATTAG
1 TATTTTGTTAGTAATTTATGATTAGGTTAC-TAAATTGTTAGTGTTTA---G--T-G-GT-TTAG
* ** *
3054930 TGTATTGTGATTTTTTAGTAATAATATATTTTAAAAAAATAATTTTATAACTATTTTATTAGTAA
57 TGTATTGTGATTTTTTAGTAAT-GTAT-TTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
* *
3054995 TTTATGATTAGATTATATAAATTGTTAGTATTTAGTGGTTTAGTGTATTATGATTTTTTAGTAAT
120 TTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAGTAAT
* * *
3055060 GTA-TTTAAAAATAATAATTTTTTAGT
185 ATATTTTAAAAATAATAATTTTATAGC
* ** *
3055086 TATTTTGTGTTAGTAATTTATG---A--TTA-TAAATTGTTTGTGTTTA-TAATTTAGTGTTTTG
1 TA-TTT-TGTTAGTAATTTATGATTAGGTTACTAAATTGTTAGTGTTTAGTGGTTTAGTGTATTG
* **
3055144 TGATTTTTT--TAATGTAATTTTTATATAATGTAATTTTATA-TTATT
64 TGATTTTTTAGTAATGT-ATTTTTA-AAAAAATAATTTTATAGTTATT
3055189 ATTTATTTAT
Statistics
Matches: 476, Mismatches: 41, Indels: 54
0.83 0.07 0.09
Matches are distributed among these distances:
204 10 0.02
205 19 0.04
207 19 0.04
208 1 0.00
210 1 0.00
211 8 0.02
212 61 0.13
213 8 0.02
215 2 0.00
216 17 0.04
217 2 0.00
218 17 0.04
219 85 0.18
220 73 0.15
221 39 0.08
222 99 0.21
223 15 0.03
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.52
Consensus pattern (211 bp):
TATTTTGTTAGTAATTTATGATTAGGTTACTAAATTGTTAGTGTTTAGTGGTTTAGTGTATTGTG
ATTTTTTAGTAATGTATTTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAG
GTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATATATTTTAAAA
ATAATAATTTTATAGC
Found at i:3054773 original size:106 final size:106
Alignment explanation
Indices: 3054432--3055111 Score: 823
Period size: 106 Copynumber: 6.2 Consensus size: 106
3054422 TTATAGTTAT
* *
3054432 TTATTTTGTTAATAATTTATGGGATTAGGTTAC--AAATTGTTAGTGTTTAGTTGTTTAAG-GTA
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTT-AGTGTA
* * ***
3054494 TTGTGA-TTTTTAGGAATGTAATTTTTTTTAAAAATAATTTTATAG
63 TTATGATTTTTTAGTAATGT-A-TTTTAAAAAAAATAATTTTATAG
* *
3054539 TTATTTTGTTAGTAATTTATGATTAGGTTATAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
** *
3054604 GTGTATTGTGGTTTTTTTAATAATATATTT-AAAAAAATAATTTTATAG
66 -TG-A-T-T--TTTTAGTAAT-GTAT-TTTAAAAAAAATAATTTTATAG
* * * *
3054652 CTATTTTATTAGTAATTTATGATTAGGTTACGTAAATTGCTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
3054717 TGATTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATAG
66 TGATTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATAG
* *
3054758 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTCAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
*
3054823 TGATTTTTTAGTAATGTATTTTAAAAATAATAATTTTATAG
66 TGATTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATAG
3054864 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGAGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTA---G--T-G-GT-TTA
* * * *
3054929 GTGTATTGTGATTTTTTAGTAATAATATATTTTAAAAAAATAATTTTATAA
58 GTGTATTATGATTTTTTAGTAAT-GTAT-TTTAAAAAAAATAATTTTATAG
* * * * *
3054980 CTATTTTATTAGTAATTTATGATTAGATTATATAAATTGTTAGTATTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
* *
3055045 TGATTTTTTAGTAATGTA-TTTAAAAATAATAATTTTTTAG
66 TGATTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATAG
3055085 TTATTTTGTGTTAGTAATTTATGATTA
1 TTA-TTT-TGTTAGTAATTTATGATTA
3055112 TAAATTGTTT
Statistics
Matches: 504, Mismatches: 44, Indels: 50
0.84 0.07 0.08
Matches are distributed among these distances:
105 33 0.07
106 175 0.35
107 74 0.15
108 27 0.05
109 5 0.01
110 2 0.00
111 3 0.01
112 4 0.01
113 79 0.16
114 35 0.07
115 4 0.01
116 63 0.12
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (106 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
TGATTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATAG
Found at i:3055055 original size:328 final size:322
Alignment explanation
Indices: 3054432--3055111 Score: 1033
Period size: 328 Copynumber: 2.1 Consensus size: 322
3054422 TTATAGTTAT
* * * *
3054432 TTATTTTGTTAATAATTTATGGGATTAGGTTACAAATTGTTAGTGTTTAGTTGTTTAAGGTATTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTACAAATTGCTAGTGTTTAGTTGGTTAAGGTATTA
**
3054497 TGATTTTTAGGAATGTAATTTTTTTTAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGAT
64 TGATTTTTAGGAATGTAA-TTTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGAT
* * *
3054562 TAGGTTATAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGGTTTTTTTAATAA
128 TAGGTTACAAAAATTGTTAGTGTTTAGTGGTTTAGAGTATTAGTGTATTGTGATTTTTTTAATAA
* * *
3054627 TATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTATGATTAGGTTACGTAAATTGC
193 TATATTTAAAAAAATAATTTTATAACTATTTTATTAGTAATTTATGATTAGATTACATAAATTGC
*
3054692 TAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATA
258 TAGTATTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGTA-TTTAAAAAAAATAATTTTATA
3054757 G
322 G
*
3054758 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAG-TGGTTCAGTGTATT
1 TTATTTTGTTAGTAATTTATGATTAGGTTAC--AAATTGCTAGTGTTTAGTTGGTTAAG-GTATT
*
3054822 ATGATTTTTTAGTAATGT-A-TTTTAAAAATAATAATTTTATAGTTATTTTGTTAGTAATTTATG
63 ATGA-TTTTTAGGAATGTAATTTTTAAAAA-AATAATTTTATAGTTATTTTGTTAGTAATTTATG
*
3054885 ATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGAGTATTAGTGTATTGTGATTTTTTAGTA
126 ATTAGGTTACAAAAATTGTTAGTGTTTAGTGGTTTAGAGTATTAGTGTATTGTGATTTTTT--TA
*
3054950 ATAATATATTTTAAAAAAATAATTTTATAACTATTTTATTAGTAATTTATGATTAGATTATATAA
189 ATAATATA-TTTAAAAAAATAATTTTATAACTATTTTATTAGTAATTTATGATTAGATTACATAA
* *
3055015 ATTGTTAGTATTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGTATTTAAAAATAATAATTT
253 ATTGCTAGTATTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGTATTTAAAAAAAATAATTT
*
3055080 TTTAG
318 TATAG
3055085 TTATTTTGTGTTAGTAATTTATGATTA
1 TTA-TTT-TGTTAGTAATTTATGATTA
3055112 TAAATTGTTT
Statistics
Matches: 324, Mismatches: 20, Indels: 17
0.90 0.06 0.05
Matches are distributed among these distances:
324 18 0.06
325 97 0.30
326 44 0.14
327 45 0.14
328 101 0.31
329 19 0.06
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (322 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTACAAATTGCTAGTGTTTAGTTGGTTAAGGTATTATG
ATTTTTAGGAATGTAATTTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAG
GTTACAAAAATTGTTAGTGTTTAGTGGTTTAGAGTATTAGTGTATTGTGATTTTTTTAATAATAT
ATTTAAAAAAATAATTTTATAACTATTTTATTAGTAATTTATGATTAGATTACATAAATTGCTAG
TATTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGTATTTAAAAAAAATAATTTTATAG
Found at i:3055181 original size:15 final size:16
Alignment explanation
Indices: 3055153--3055184 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
3055143 GTGATTTTTT
3055153 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
3055169 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
3055184 T
1 T
3055185 TATTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:3057335 original size:33 final size:33
Alignment explanation
Indices: 3057260--3057353 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
3057250 CAATACTCTG
** *
3057260 GCCCGTATCCACCATCGTACTCTACT-CTTCTA
1 GCCCGTATCCACCGCCGTACTCTACTCCTTCCA
* *
3057292 GAGCCATATCCACCGCCGTACTCTACTCCTTCCA
1 G-CCCGTATCCACCGCCGTACTCTACTCCTTCCA
*
3057326 GCCCGTATCCACCGCCGTATTCTACTCC
1 GCCCGTATCCACCGCCGTACTCTACTCC
3057354 CCTTGACTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
32 1 0.02
33 45 0.87
34 6 0.12
ACGTcount: A:0.18, C:0.44, G:0.12, T:0.27
Consensus pattern (33 bp):
GCCCGTATCCACCGCCGTACTCTACTCCTTCCA
Found at i:3060771 original size:16 final size:17
Alignment explanation
Indices: 3060740--3060771 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3060730 CATTCAAAAG
3060740 CTAACAAAATTAATAAT
1 CTAACAAAATTAATAAT
3060757 CTAACAAAA-TAATAA
1 CTAACAAAATTAATAA
3060772 AATTTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (17 bp):
CTAACAAAATTAATAAT
Found at i:3062350 original size:35 final size:35
Alignment explanation
Indices: 3062283--3062450 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
3062273 TCCTCATTGA
*** *
3062283 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
3062319 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
3062359 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
3062394 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
3062429 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
3062451 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:3062409 original size:75 final size:73
Alignment explanation
Indices: 3062278--3062450 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
3062268 GGTTTTCCTC
*** * * **
3062278 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
3062343 TCAGTATGG
65 TCAGTATGG
*
3062352 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
3062416 ACTCAGTATGG
63 ACTCAGTATGG
3062427 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
3062451 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:3065820 original size:36 final size:37
Alignment explanation
Indices: 3065780--3065874 Score: 88
Period size: 36 Copynumber: 2.6 Consensus size: 37
3065770 TTGAGTGACT
3065780 TTTTAAAAATTTTAAATTA-ATAAAATTAAAATT-ATA
1 TTTTAAAAATTTTAAATTATA-AAAATTAAAATTAATA
** * * *
3065816 TTTT-AACCTCTTAAAATTATAAAAATTTAATTTAATA
1 TTTTAAAAAT-TTTAAATTATAAAAATTAAAATTAATA
*
3065853 TTTTAAAAATTATAAATATATA
1 TTTTAAAAATTTTAAAT-TATA
3065875 TACTATAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
35 3 0.07
36 22 0.49
37 13 0.29
38 7 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (37 bp):
TTTTAAAAATTTTAAATTATAAAAATTAAAATTAATA
Found at i:3065849 original size:29 final size:31
Alignment explanation
Indices: 3065807--3065868 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
3065797 TAATAAAATT
* *
3065807 AAAATTATATTTTAACCTCTT-AAAATTATA
1 AAAATTATAATTTAACATCTTAAAAATTATA
* *
3065837 AAAATT-TAATTTAATATTTTAAAAATTATA
1 AAAATTATAATTTAACATCTTAAAAATTATA
3065867 AA
1 AA
3065869 TATATATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
AAAATTATAATTTAACATCTTAAAAATTATA
Found at i:3065952 original size:19 final size:19
Alignment explanation
Indices: 3065911--3065951 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
3065901 GTACTCCTAC
3065911 AAAATAGATATTAATATAA
1 AAAATAGATATTAATATAA
*
3065930 AAAATGGATA-TAATATAA
1 AAAATAGATATTAATATAA
3065948 AAAA
1 AAAA
3065952 AAAGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAATAGATATTAATATAA
Found at i:3067667 original size:40 final size:40
Alignment explanation
Indices: 3067612--3067700 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
3067602 TATGATTTAC
3067612 ATTAAAACCCCTTGTGTTCATCCTTGCTATAGAATAATGT
1 ATTAAAACCCCTTGTGTTCATCCTTGCTATAGAATAATGT
3067652 ATTAAAACCCCTTGTGTTCATCCTTGCTATAGAATAATGT
1 ATTAAAACCCCTTGTGTTCATCCTTGCTATAGAATAATGT
3067692 ATTTAAAAC
1 A-TTAAAAC
3067701 ATAAGGAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (40 bp):
ATTAAAACCCCTTGTGTTCATCCTTGCTATAGAATAATGT
Found at i:3069120 original size:25 final size:25
Alignment explanation
Indices: 3069086--3069137 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
3069076 TAGGAGAATA
3069086 TGTCTGACTTCAAAAATAATGTAGT
1 TGTCTGACTTCAAAAATAATGTAGT
3069111 TGTCTGACTTCAAAAATAATGTAGT
1 TGTCTGACTTCAAAAATAATGTAGT
3069136 TG
1 TG
3069138 CTTGTGGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (25 bp):
TGTCTGACTTCAAAAATAATGTAGT
Found at i:3085299 original size:1 final size:1
Alignment explanation
Indices: 3085293--3085318 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
3085283 GTGTGTTCTG
3085293 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
3085319 ATCTTAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3100380 original size:28 final size:29
Alignment explanation
Indices: 3100324--3100381 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
3100314 TCACTCAAAC
*
3100324 ATCGAGAAATCTTAAGTTAAAATTTGGTG
1 ATCGAGAAATCTTAAGTTAAAATTCGGTG
3100353 ATCGAGAAATCTTAA-TTAAAATTCGGTG
1 ATCGAGAAATCTTAAGTTAAAATTCGGTG
3100381 A
1 A
3100382 AAATAACGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (29 bp):
ATCGAGAAATCTTAAGTTAAAATTCGGTG
Found at i:3104417 original size:29 final size:28
Alignment explanation
Indices: 3104325--3104434 Score: 87
Period size: 29 Copynumber: 3.8 Consensus size: 28
3104315 TATTTAATTT
* * *
3104325 ATTTTTAAATTTAAAAATATTTTTATATA
1 ATTTTTAATTTTTAAAATAATTTT-TATA
** ** *
3104354 ATTTTTATATTTTTCTTAATAATTTCAATG
1 ATTTTTA-ATTTTT-AAAATAATTTTTATA
*
3104384 CTTTTTAATTTTTGAAAATAATTTTTATA
1 ATTTTTAATTTTT-AAAATAATTTTTATA
3104413 ATTTTTAATATTTTAAAA-AATT
1 ATTTTTAAT-TTTTAAAATAATT
3104435 AATTAAATAT
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
28 4 0.06
29 35 0.56
30 16 0.26
31 7 0.11
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (28 bp):
ATTTTTAATTTTTAAAATAATTTTTATA
Found at i:3105605 original size:30 final size:30
Alignment explanation
Indices: 3105569--3105626 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3105559 TATTTACAAA
*
3105569 TATTATTATAGTAAATATTTAAATATTTTT
1 TATTATTATAATAAATATTTAAATATTTTT
* * *
3105599 TATTATTTTAATTAATTTTTAAATATTT
1 TATTATTATAATAAATATTTAAATATTT
3105627 CATGTATCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
TATTATTATAATAAATATTTAAATATTTTT
Found at i:3108945 original size:48 final size:48
Alignment explanation
Indices: 3108864--3109027 Score: 211
Period size: 48 Copynumber: 3.4 Consensus size: 48
3108854 TGACAATATG
* * ** * * *
3108864 TGATTTGTGGTTTCCGTATAAGATTATATCTGGGATATGGAATCGGTA
1 TGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
3108912 TGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
1 TGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
* * * *
3108960 TGATATGTAATTTCCGTATAAGACCATAGTTGGGCTATGGCATTGGTG
1 TGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
* *
3109008 TGATACGTGATTCCCGTATA
1 TGATATGTGATTTCCGTATA
3109028 GATGATGGAT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.35
Consensus pattern (48 bp):
TGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
Found at i:3109235 original size:22 final size:22
Alignment explanation
Indices: 3109207--3109249 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3109197 CAAAAAAAAT
* *
3109207 ATGCTATTTTTTTGTTGTTTTA
1 ATGCTATTTTCTTATTGTTTTA
3109229 ATGCTATTTTCTTATTGTTTT
1 ATGCTATTTTCTTATTGTTTT
3109250 CTCCCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (22 bp):
ATGCTATTTTCTTATTGTTTTA
Found at i:3109785 original size:25 final size:25
Alignment explanation
Indices: 3109751--3109801 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3109741 GTTTTGCTTT
3109751 ATAGCAAGCACAATATAACAACCAA
1 ATAGCAAGCACAATATAACAACCAA
3109776 ATAGCAAGCACAATATAACAACCAA
1 ATAGCAAGCACAATATAACAACCAA
3109801 A
1 A
3109802 CACTTGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.24, G:0.08, T:0.12
Consensus pattern (25 bp):
ATAGCAAGCACAATATAACAACCAA
Found at i:3111849 original size:21 final size:21
Alignment explanation
Indices: 3111824--3111864 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3111814 ATTAGTTGAG
3111824 AAATTT-ACACATTAAATGTGT
1 AAATTTAACACATT-AATGTGT
*
3111845 AAATTTAACAGATTAATGTG
1 AAATTTAACACATTAATGTG
3111865 ATCATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
AAATTTAACACATTAATGTGT
Found at i:3114856 original size:20 final size:21
Alignment explanation
Indices: 3114817--3114856 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3114807 ATGAATATGC
* *
3114817 AAATATATATAATATGAATAA
1 AAATATATATAAAATAAATAA
3114838 AAATATA-ATAAAATAAATA
1 AAATATATATAAAATAAATA
3114857 CATGATTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATATATATAAAATAAATAA
Found at i:3116833 original size:34 final size:34
Alignment explanation
Indices: 3116795--3116878 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 34
3116785 ATTAAAATAA
**
3116795 TTTATTATTTTAATAAA-TTATTTAATATTCCAAT
1 TTTATTATTTTAATAAATTTAAATAATATT-CAAT
*
3116829 TTTATT-TTAATAATAAATTTAAATAATATTCAAT
1 TTTATTATT-TTAATAAATTTAAATAATATTCAAT
** *
3116863 ACTAATATTTTAATAA
1 TTTATTATTTTAATAA
3116879 TAAATATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
33 2 0.05
34 26 0.65
35 12 0.30
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (34 bp):
TTTATTATTTTAATAAATTTAAATAATATTCAAT
Found at i:3116886 original size:15 final size:15
Alignment explanation
Indices: 3116866--3116922 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
3116856 ATTCAATACT
3116866 AATATTTTAATAATA
1 AATATTTTAATAATA
*
3116881 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
3116900 AATATATTAATAATA
1 AATATTTTAATAATA
*
3116915 AATGTTTT
1 AATATTTT
3116923 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:3116904 original size:34 final size:35
Alignment explanation
Indices: 3116831--3116917 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
3116821 ATTCCAATTT
*
3116831 TATTTTAATAATAAATTTAAATAATATTCAATACTAA
1 TATTTTAATAATAAATTTAAATAAAATT-AATAC-AA
* *
3116868 TATTTTAATAATAAATATTTATTAAAATT-ATA-AA
1 TATTTTAATAATAAAT-TTAAATAAAATTAATACAA
*
3116902 TATATTAATAATAAAT
1 TATTTTAATAATAAAT
3116918 GTTTTGTAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
34 17 0.38
36 3 0.07
37 16 0.36
38 9 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (35 bp):
TATTTTAATAATAAATTTAAATAAAATTAATACAA
Found at i:3118647 original size:12 final size:12
Alignment explanation
Indices: 3118630--3118693 Score: 64
Period size: 10 Copynumber: 5.5 Consensus size: 12
3118620 GCGTAAGCCA
3118630 TTATAATAATTT
1 TTATAATAATTT
*
3118642 TTATAATAATAT
1 TTATAATAATTT
*
3118654 ATATAAT--TTT
1 TTATAATAATTT
3118664 TTATAAT--TTT
1 TTATAATAATTT
3118674 TTATAATATTATTT
1 TTATAATA--ATTT
3118688 TTATAA
1 TTATAA
3118694 ATGTACTCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
10 18 0.41
12 17 0.39
14 9 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATAATAATTT
Found at i:3118678 original size:22 final size:23
Alignment explanation
Indices: 3118630--3118693 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
3118620 GCGTAAGCCA
3118630 TTATAATAA-TTTTTATAATAAT
1 TTATAATAATTTTTTATAATAAT
* **
3118652 ATAT-ATAATTTTTTATAATTTT
1 TTATAATAATTTTTTATAATAAT
*
3118674 TTATAATATTATTTTTATAA
1 TTATAATAAT-TTTTTATAA
3118694 ATGTACTCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.12
22 17 0.50
23 4 0.12
24 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATAATAATTTTTTATAATAAT
Found at i:3118776 original size:15 final size:16
Alignment explanation
Indices: 3118732--3118783 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
3118722 ATTATAGGTT
* *
3118732 TTTATATATTTAGATA
1 TTTATAAATTTATATA
3118748 TTTTAATAAATTTATA-A
1 -TTT-ATAAATTTATATA
*
3118765 TTTATAATTTTATATA
1 TTTATAAATTTATATA
3118781 TTT
1 TTT
3118784 TTCAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.33
16 7 0.23
17 4 0.13
18 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTATAAATTTATATA
Found at i:3123851 original size:22 final size:20
Alignment explanation
Indices: 3123809--3123852 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
3123799 ATTTTTCACC
* *
3123809 ATCTAGGAAAAAGTATTGAT
1 ATCTAGGAAAAAATATCGAT
3123829 ATCTAGGACCAAAAATATCGAT
1 ATCTAGGA--AAAAATATCGAT
3123851 AT
1 AT
3123853 TTTACCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (20 bp):
ATCTAGGAAAAAATATCGAT
Found at i:3134426 original size:27 final size:29
Alignment explanation
Indices: 3134369--3134428 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 29
3134359 ATCCTTTCCA
3134369 ATAATATAATATAATTAATTTATTAAATT
1 ATAATATAATATAATTAATTTATTAAATT
3134398 ATAATTATAA-AT-ATTAA-TTA-TAAATTT
1 ATAA-TATAATATAATTAATTTATTAAA-TT
3134425 ATAA
1 ATAA
3134429 CACAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 4 0.14
27 9 0.31
28 5 0.17
29 6 0.21
30 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAATATAATATAATTAATTTATTAAATT
Found at i:3142839 original size:16 final size:16
Alignment explanation
Indices: 3142818--3142872 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
3142808 AATATATTTA
3142818 TTATTTGAACACAAAG
1 TTATTTGAACACAAAG
* * *
3142834 TTATTT-AATATATTTA-
1 TTATTTGAACACA--AAG
3142850 TTATTTGAACACAAAG
1 TTATTTGAACACAAAG
3142866 TTATTTG
1 TTATTTG
3142873 CACTTGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
15 5 0.17
16 19 0.66
17 5 0.17
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.45
Consensus pattern (16 bp):
TTATTTGAACACAAAG
Found at i:3142844 original size:32 final size:32
Alignment explanation
Indices: 3142807--3142871 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
3142797 TGCATATATA
3142807 TAATATATTTATTATTTGAACACAAAGTTATT
1 TAATATATTTATTATTTGAACACAAAGTTATT
3142839 TAATATATTTATTATTTGAACACAAAGTTATT
1 TAATATATTTATTATTTGAACACAAAGTTATT
3142871 T
1 T
3142872 GCACTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (32 bp):
TAATATATTTATTATTTGAACACAAAGTTATT
Found at i:3143893 original size:38 final size:38
Alignment explanation
Indices: 3143842--3143917 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
3143832 ATCGATTTAA
*
3143842 CCTCTGTAATTGATTGTAATAAGATGAAGGCAAACAAG
1 CCTCAGTAATTGATTGTAATAAGATGAAGGCAAACAAG
*
3143880 CCTCAGTATTTGATTGTAATAAGATGAAGGCAAACAAG
1 CCTCAGTAATTGATTGTAATAAGATGAAGGCAAACAAG
3143918 AGGAGGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (38 bp):
CCTCAGTAATTGATTGTAATAAGATGAAGGCAAACAAG
Found at i:3145807 original size:15 final size:15
Alignment explanation
Indices: 3145784--3145819 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3145774 TTTATTTAAA
*
3145784 ATTTAAAAATAAAAT
1 ATTTCAAAATAAAAT
*
3145799 ATTTCAAAATAAATT
1 ATTTCAAAATAAAAT
3145814 ATTTCA
1 ATTTCA
3145820 TTTTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTCAAAATAAAAT
Found at i:3146252 original size:3 final size:3
Alignment explanation
Indices: 3146244--3146302 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
3146234 TTAACTCAAC
3146244 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
3146293 TAT TAT TAT T
1 TAT TAT TAT T
3146303 TTCATATTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3146352 original size:2 final size:2
Alignment explanation
Indices: 3146345--3146379 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3146335 AAAACCGTTT
3146345 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3146380 TCTCACCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3146503 original size:22 final size:24
Alignment explanation
Indices: 3146478--3146534 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
3146468 AATTAAATTG
3146478 TATATTTTTATTACTATAA-A-AA
1 TATATTTTTATTACTATAATAGAA
* * *
3146500 TATAATTTTATTATTATAATAGCA
1 TATATTTTTATTACTATAATAGAA
3146524 TATATTTTTAT
1 TATATTTTTAT
3146535 AAATTTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 17 0.59
23 1 0.03
24 11 0.38
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
TATATTTTTATTACTATAATAGAA
Found at i:3146619 original size:16 final size:18
Alignment explanation
Indices: 3146590--3146626 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
3146580 AGTTCTATTT
*
3146590 AATTATTATTAATT-TAA
1 AATTATTATAAATTATAA
3146607 AATT-TTATAAATTATAA
1 AATTATTATAAATTATAA
3146624 AAT
1 AAT
3146627 GCCTAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTATTATAAATTATAA
Found at i:3147937 original size:57 final size:57
Alignment explanation
Indices: 3147861--3147974 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
3147851 AAAAAGATAA
3147861 TTTTTCGATCAAGTCATTAATTTGAACATCATATGTGTCTTGAAATATAAACTTTAG
1 TTTTTCGATCAAGTCATTAATTTGAACATCATATGTGTCTTGAAATATAAACTTTAG
* * *
3147918 TTTTTCGATCAAGTTATTAATTTGAACATTATATGTGTCTTGAAATATAAGCTTTAG
1 TTTTTCGATCAAGTCATTAATTTGAACATCATATGTGTCTTGAAATATAAACTTTAG
3147975 CACCCCATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (57 bp):
TTTTTCGATCAAGTCATTAATTTGAACATCATATGTGTCTTGAAATATAAACTTTAG
Found at i:3150897 original size:12 final size:12
Alignment explanation
Indices: 3150880--3150904 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3150870 GTAATTCAAA
3150880 AAAAAAAAAAGG
1 AAAAAAAAAAGG
3150892 AAAAAAAAAAGG
1 AAAAAAAAAAGG
3150904 A
1 A
3150905 GAAGAAGAAG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGG
Found at i:3170141 original size:23 final size:23
Alignment explanation
Indices: 3170116--3170166 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
3170106 GAACAATTCA
*
3170116 AAAAAATTAT-TTTAATTATTTT
1 AAAAAATTATATTTAAATATTTT
*
3170138 AAAAAATTTTATTTAAATATTTT
1 AAAAAATTATATTTAAATATTTT
*
3170161 CAAAAA
1 AAAAAA
3170167 GTACATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAAAATTATATTTAAATATTTT
Found at i:3190366 original size:21 final size:21
Alignment explanation
Indices: 3190338--3190454 Score: 171
Period size: 21 Copynumber: 5.5 Consensus size: 21
3190328 CCTGATCAGT
** * *
3190338 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
3190359 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
3190380 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
3190401 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
3190422 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
3190443 AAATACGACACA
1 --ATACGACACA
3190455 TAAAGTGCTG
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
21 78 0.89
23 10 0.11
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:3190862 original size:15 final size:15
Alignment explanation
Indices: 3190837--3190894 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
3190827 TCATATATAT
3190837 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
3190853 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
3190868 AATAATTTCAATCAA
1 TATAAATTCAATCAA
3190883 TATAAATTCAAT
1 TATAAATTCAAT
3190895 AAATTCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:3192173 original size:5 final size:5
Alignment explanation
Indices: 3192160--3192196 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
3192150 TTCTTTAGTT
3192160 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
3192197 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:3192232 original size:8 final size:8
Alignment explanation
Indices: 3192219--3192247 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3192209 TATCTTTATT
3192219 ATATAATA
1 ATATAATA
3192227 ATATAATA
1 ATATAATA
3192235 ATATAATA
1 ATATAATA
3192243 ATATA
1 ATATA
3192248 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:3194968 original size:29 final size:29
Alignment explanation
Indices: 3194935--3194993 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
3194925 CCAACCCCCC
* *
3194935 TCTCCACCAACCTCTCTCCATCTTCATTT
1 TCTCCAACAACCCCTCTCCATCTTCATTT
* * *
3194964 TCTCCAACAACCCCTTTGCATCTTCTTTT
1 TCTCCAACAACCCCTCTCCATCTTCATTT
3194993 T
1 T
3194994 TGTTGTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.17, C:0.41, G:0.02, T:0.41
Consensus pattern (29 bp):
TCTCCAACAACCCCTCTCCATCTTCATTT
Found at i:3201147 original size:70 final size:70
Alignment explanation
Indices: 3201063--3201206 Score: 270
Period size: 70 Copynumber: 2.1 Consensus size: 70
3201053 AATTTTAATT
3201063 AAATAATAATTTATTTAAAAGCTTTATTTTTTAAATGTTCTAATAATATTAATACATTTTATTAA
1 AAATAATAATTTATTTAAAAGCTTTATTTTTTAAATGTTCTAATAATATTAATACATTTTATTAA
3201128 TTATG
66 TTATG
* *
3201133 AAATAATCATTTATTTAAAAGCTTTATTTTTTAAATGTTGTAATAATATTAATACATTTTATTAA
1 AAATAATAATTTATTTAAAAGCTTTATTTTTTAAATGTTCTAATAATATTAATACATTTTATTAA
3201198 TTATG
66 TTATG
3201203 AAAT
1 AAAT
3201207 TAAATCTATC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (70 bp):
AAATAATAATTTATTTAAAAGCTTTATTTTTTAAATGTTCTAATAATATTAATACATTTTATTAA
TTATG
Found at i:3201194 original size:35 final size:35
Alignment explanation
Indices: 3201085--3201195 Score: 86
Period size: 35 Copynumber: 3.2 Consensus size: 35
3201075 ATTTAAAAGC
*
3201085 TTTATTTTTTAAATGTTCTAATAATATTAATACAT
1 TTTATTTTTTAAATGTTATAATAATATTAATACAT
** ** * *
3201120 TTTATTAATT--ATGAAATAATCATTTATTTAA-A-AGC
1 TTTATTTTTTAAATGTTATAAT-A-ATA-TTAATACA-T
*
3201155 TTTATTTTTTAAATGTTGTAATAATATTAATACAT
1 TTTATTTTTTAAATGTTATAATAATATTAATACAT
3201190 TTTATT
1 TTTATT
3201196 AATTATGAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 16
0.64 0.17 0.19
Matches are distributed among these distances:
33 7 0.13
34 6 0.11
35 28 0.52
36 6 0.11
37 7 0.13
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (35 bp):
TTTATTTTTTAAATGTTATAATAATATTAATACAT
Found at i:3201499 original size:27 final size:27
Alignment explanation
Indices: 3201468--3201520 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
3201458 TCAAGGTACA
* *
3201468 TAGAATTAGGATCAAATTGATAGAATT
1 TAGAATTAAGATCAAACTGATAGAATT
3201495 TAGAATTAAGATCAAACTGATAGAAT
1 TAGAATTAAGATCAAACTGATAGAAT
3201521 ACATAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (27 bp):
TAGAATTAAGATCAAACTGATAGAATT
Found at i:3203497 original size:53 final size:52
Alignment explanation
Indices: 3203421--3203523 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 52
3203411 CACATAACAT
3203421 ACCGATACCATACCGCAGATATGGTCTTATACGGAA-TCACATTATCACATCAC
1 ACCGATACCATACCGCAGATATGGTCTTATACGGAAGT-ACA-TATCACATCAC
* *
3203474 ACCGATGCCATAACC-CAGCTATGGTCTTATACGGAAGTACATATCACATC
1 ACCGATACCAT-ACCGCAGATATGGTCTTATACGGAAGTACATATCACATC
3203524 TTTTCTGTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
52 9 0.20
53 33 0.72
54 4 0.09
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (52 bp):
ACCGATACCATACCGCAGATATGGTCTTATACGGAAGTACATATCACATCAC
Found at i:3204986 original size:5 final size:5
Alignment explanation
Indices: 3204976--3205005 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
3204966 TATATATATG
3204976 TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA
3205006 AAGGAACGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:3206546 original size:10 final size:10
Alignment explanation
Indices: 3206531--3206561 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
3206521 CACTTCAATG
3206531 AACAATATAA
1 AACAATATAA
3206541 AACAATATAA
1 AACAATATAA
3206551 AACAATATAA
1 AACAATATAA
3206561 A
1 A
3206562 TCATTTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (10 bp):
AACAATATAA
Found at i:3207204 original size:20 final size:20
Alignment explanation
Indices: 3207179--3207216 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3207169 GACATGGCAA
*
3207179 TGTTGACCAATGATATGGTG
1 TGTTGACCAATGACATGGTG
*
3207199 TGTTGACCGATGACATGG
1 TGTTGACCAATGACATGG
3207217 CACATTGATT
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:0.24, C:0.13, G:0.32, T:0.32
Consensus pattern (20 bp):
TGTTGACCAATGACATGGTG
Found at i:3207325 original size:16 final size:16
Alignment explanation
Indices: 3207272--3207316 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
3207262 GACCAGTAAA
3207272 AAAAATAAAAAAATTTT
1 AAAAATAAAAAAA-TTT
*
3207289 AAAATTAAAAAAATTT
1 AAAAATAAAAAAATTT
3207305 AAAAATAAAAAA
1 AAAAATAAAAAA
3207317 TTGCAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:3207410 original size:20 final size:20
Alignment explanation
Indices: 3207374--3207424 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
3207364 AAAAATTAAT
3207374 TTGTAAAAATT-CTAAAAAAA
1 TTGTAAAAATTACT-AAAAAA
3207394 TTGTAAAAATTAC-AAAAAA
1 TTGTAAAAATTACTAAAAAA
3207413 TAT-TAAAAATTA
1 T-TGTAAAAATTA
3207425 TTGTAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.55
20 12 0.41
21 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (20 bp):
TTGTAAAAATTACTAAAAAA
Found at i:3207709 original size:9 final size:9
Alignment explanation
Indices: 3207695--3207736 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
3207685 AATCTTTGCA
3207695 ATTTTTAAT
1 ATTTTTAAT
*
3207704 ATTTTTAAA
1 ATTTTTAAT
*
3207713 AGTTTTAAT
1 ATTTTTAAT
3207722 GA-TTTTAAT
1 -ATTTTTAAT
3207731 ATTTTT
1 ATTTTT
3207737 TTACATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 1 0.04
9 26 0.93
10 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:3207736 original size:18 final size:18
Alignment explanation
Indices: 3207694--3207750 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
3207684 TAATCTTTGC
3207694 AATTTTTAATATTTTTAA
1 AATTTTTAATATTTTTAA
*
3207712 AAGTTTTAATGA-TTTTAA
1 AATTTTTAAT-ATTTTTAA
* * *
3207730 TATTTTTTTACATTTTTAA
1 -AATTTTTAATATTTTTAA
3207749 AA
1 AA
3207751 ATTACAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
AATTTTTAATATTTTTAA
Found at i:3210298 original size:75 final size:79
Alignment explanation
Indices: 3210214--3210371 Score: 252
Period size: 82 Copynumber: 2.0 Consensus size: 79
3210204 TATAAATTAA
*
3210214 AGAAATAATTTTCATGTCATTTT-TTAAACAGTAAA-T-G-CTATTCCAATTTTGCCCTATTTGA
1 AGAAATAATTTTCATGTCATTTTATTAAACAGTAAACTAGCCTATTCCAATTTTACCCTATTTGA
3210275 TTCTTTTTAATAGT
66 TTCTTTTTAATAGT
3210289 AGAAATAATTTTCATGTCATTTTATTAAACAGTAAATGCTAGCTCTATTCCAATTTTACCCTATT
1 AGAAATAATTTTCATGTCATTTTATTAAACAGTAAA--CTAGC-CTATTCCAATTTTACCCTATT
3210354 TGATTCTTTTTAATAGT
63 TGATTCTTTTTAATAGT
3210371 A
1 A
3210372 CAAGGCTACA
Statistics
Matches: 75, Mismatches: 1, Indels: 7
0.90 0.01 0.08
Matches are distributed among these distances:
75 23 0.31
76 12 0.16
79 1 0.01
80 1 0.01
82 38 0.51
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.46
Consensus pattern (79 bp):
AGAAATAATTTTCATGTCATTTTATTAAACAGTAAACTAGCCTATTCCAATTTTACCCTATTTGA
TTCTTTTTAATAGT
Found at i:3211865 original size:20 final size:20
Alignment explanation
Indices: 3211842--3211879 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3211832 AAAAAAAGTT
*
3211842 AAAAATCATTTTAAAATTTA
1 AAAAATCATTTAAAAATTTA
*
3211862 AAAAATTATTTAAAAATT
1 AAAAATCATTTAAAAATT
3211880 ACAAAAAAAA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATCATTTAAAAATTTA
Found at i:3212412 original size:21 final size:21
Alignment explanation
Indices: 3212365--3212412 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
3212355 AATTTTATAT
* *
3212365 ATTTTTCATATTTTTAAATTA
1 ATTTTTAAAATTTTTAAATTA
*
3212386 AATTTTAAAATTTTCTAAA-TA
1 ATTTTTAAAATTTT-TAAATTA
3212407 ATTTTT
1 ATTTTT
3212413 TTACTAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTAAAATTTTTAAATTA
Found at i:3212446 original size:30 final size:32
Alignment explanation
Indices: 3212410--3212483 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
3212400 CTAAATAATT
3212410 TTTTTACTAATTTTTAT-ATTTTTAAA-ATAA
1 TTTTTACTAATTTTTATCATTTTTAAATATAA
* **
3212440 TTTTTAC-AATTTTTTTCATTTTTAAATATTC
1 TTTTTACTAATTTTTATCATTTTTAAATATAA
3212471 TTTTTA-TAATTTT
1 TTTTTACTAATTTT
3212484 CAAATAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 8 0.21
30 16 0.42
31 14 0.37
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (32 bp):
TTTTTACTAATTTTTATCATTTTTAAATATAA
Found at i:3214997 original size:2 final size:2
Alignment explanation
Indices: 3214990--3215015 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3214980 TAAATACATG
3214990 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3215016 AGGAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3219022 original size:24 final size:24
Alignment explanation
Indices: 3218990--3219035 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
3218980 TTTTATGTAT
*
3218990 TATTTATTTAAAATTGCTTTATAA
1 TATTCATTTAAAATTGCTTTATAA
* *
3219014 TATTCATTTTAAATTGTTTTAT
1 TATTCATTTAAAATTGCTTTAT
3219036 TGTGCATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTCATTTAAAATTGCTTTATAA
Found at i:3219140 original size:26 final size:26
Alignment explanation
Indices: 3218928--3219165 Score: 81
Period size: 26 Copynumber: 9.4 Consensus size: 26
3218918 TTTTGTACAA
* **
3218928 TTTTATATATTACTTATTTTAGGTAT
1 TTTTATATATTATTTATTTTAAATAT
* * *
3218954 TTTTACATATTAGTTCTTTTAAACTA-
1 TTTTATATATTATTTATTTTAAA-TAT
*
3218980 TTTTATGTATTATTTA-TTTAAA-AT
1 TTTTATATATTATTTATTTTAAATAT
*
3219004 TGCTTTATA-A-TATTCATTTTAAAT-T
1 T--TTTATATATTATTTATTTTAAATAT
* * * *
3219029 GTTTTAT-TGTGCA-TTGTTTT-AA-GT
1 -TTTTATATAT-TATTTATTTTAAATAT
* * * *
3219053 TATTCTATACT-TTTATTTTAAGT-T
1 TTTTATATATTATTTATTTTAAATAT
** * * *
3219077 TTTT-TGCAGTAGTTATTTTAAACT-G
1 TTTTATATATTATTTATTTTAAA-TAT
*
3219102 TTTTACATATTATTTATTTTAAATAT
1 TTTTATATATTATTTATTTTAAATAT
* * *
3219128 TTTTATATGTTATTTACTTTAAGCTAT
1 TTTTATATATTATTTATTTTAA-ATAT
3219155 TTTATATATAT
1 TTT-TATATAT
3219166 ATATATATGA
Statistics
Matches: 151, Mismatches: 40, Indels: 40
0.65 0.17 0.17
Matches are distributed among these distances:
23 14 0.09
24 29 0.19
25 25 0.17
26 69 0.46
27 8 0.05
28 6 0.04
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAATAT
Found at i:3219440 original size:24 final size:24
Alignment explanation
Indices: 3219403--3219464 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
3219393 ATATTATTTT
*
3219403 ATTGTTTTGAATATTAATGATTTTAA
1 ATTGTTTT--ATATTAATGACTTTAA
* *
3219429 ATTGTTTTATATTATTTACTTTAA
1 ATTGTTTTATATTAATGACTTTAA
3219453 ATTGCTTTTATA
1 ATTG-TTTTATA
3219465 GCATCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.53
25 7 0.22
26 8 0.25
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (24 bp):
ATTGTTTTATATTAATGACTTTAA
Found at i:3219476 original size:25 final size:24
Alignment explanation
Indices: 3219422--3219478 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
3219412 AATATTAATG
** *
3219422 ATTTTAAATTGTTTTATATTATTT
1 ATTTTAAATTGTTTTATAGCATCT
*
3219446 ACTTTAAATTGCTTTTATAGCATCT
1 ATTTTAAATTG-TTTTATAGCATCT
3219471 ATTTTAAA
1 ATTTTAAA
3219479 CCTTTATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (24 bp):
ATTTTAAATTGTTTTATAGCATCT
Found at i:3223831 original size:14 final size:13
Alignment explanation
Indices: 3223799--3223837 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
3223789 TTATGAAATT
3223799 AAAAATATA-TTA
1 AAAAATATATTTA
3223811 AAAAATATATTTA
1 AAAAATATATTTA
3223824 AAATAATATTATTT
1 AAA-AATA-TATTT
3223838 CACGTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 6 0.25
14 4 0.17
15 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAATATATTTA
Found at i:3224027 original size:25 final size:25
Alignment explanation
Indices: 3223977--3224028 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
3223967 ATTTAATAAT
* * *
3223977 AATATAAAATATGATAATTTCTAAA
1 AATATAAAATATGAAAATTACCAAA
3224002 AATA-AAAATATAGAAAATTACCAAA
1 AATATAAAATAT-GAAAATTACCAAA
3224027 AA
1 AA
3224029 ATACCTAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
AATATAAAATATGAAAATTACCAAA
Found at i:3229804 original size:2 final size:2
Alignment explanation
Indices: 3229792--3229823 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3229782 GAATCTTGTA
3229792 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3229824 AAAAGGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3232999 original size:18 final size:18
Alignment explanation
Indices: 3232976--3233031 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
3232966 AACTTCAATT
3232976 TTTTAAAGGATAATATAA
1 TTTTAAAGGATAATATAA
* *
3232994 TTTTAAA--ATAAACCAAAA
1 TTTTAAAGGAT-AA-TATAA
3233012 TATTTAAAGGATAATATAA
1 T-TTTAAAGGATAATATAA
3233031 T
1 T
3233032 AAAAATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 11 0.38
19 10 0.34
20 2 0.07
21 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (18 bp):
TTTTAAAGGATAATATAA
Found at i:3233032 original size:19 final size:19
Alignment explanation
Indices: 3232977--3233032 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
3232967 ACTTCAATTT
3232977 TTTAAAGGATAATATAAT-
1 TTTAAAGGATAATATAATA
* *
3232995 TTTAAA--ATAAACCAAAATA
1 TTTAAAGGAT-AA-TATAATA
3233014 TTTAAAGGATAATATAATA
1 TTTAAAGGATAATATAATA
3233033 AAAATAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 10 0.34
19 11 0.38
20 2 0.07
21 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (19 bp):
TTTAAAGGATAATATAATA
Found at i:3236944 original size:16 final size:17
Alignment explanation
Indices: 3236919--3236952 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3236909 CTCGCTAGAG
*
3236919 AAAAACCAAAAA-TAAA
1 AAAAAACAAAAACTAAA
3236935 AAAAAACAAAAACTAAA
1 AAAAAACAAAAACTAAA
3236952 A
1 A
3236953 TAAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAAAACAAAAACTAAA
Found at i:3244235 original size:19 final size:19
Alignment explanation
Indices: 3244205--3244250 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
3244195 TAATAAGATG
3244205 GTTAGCTCATAACCT-TTTTA
1 GTTAG-TCATAA-CTGTTTTA
3244225 GTTAGTCATAACTGTTTTA
1 GTTAGTCATAACTGTTTTA
3244244 GTTAGTC
1 GTTAGTC
3244251 GGTTGAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.08
19 18 0.72
20 5 0.20
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (19 bp):
GTTAGTCATAACTGTTTTA
Found at i:3249786 original size:25 final size:26
Alignment explanation
Indices: 3249737--3249791 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
3249727 AATGATGACG
3249737 AAAACAATAATAATAGCAATAGTA-T
1 AAAACAATAATAATAGCAATAGTATT
* *
3249762 AAAACGATAATAATA-CATATGGTATT
1 AAAACAATAATAATAGCA-ATAGTATT
3249788 AAAA
1 AAAA
3249792 TATATATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 19 0.73
26 5 0.19
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.25
Consensus pattern (26 bp):
AAAACAATAATAATAGCAATAGTATT
Found at i:3250004 original size:2 final size:2
Alignment explanation
Indices: 3249997--3250035 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3249987 TATGGTGTAT
3249997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3250036 TAAAAGGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3250284 original size:19 final size:20
Alignment explanation
Indices: 3250262--3250317 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
3250252 ATTGGGAATA
3250262 ATAATA-ATATATA-AAAACT
1 ATAATACATATATATAAAA-T
*
3250281 ATAA-ACATATACATAAAAT
1 ATAATACATATATATAAAAT
*
3250300 ATATATATATATATATAA
1 ATA-ATACATATATATAA
3250318 GTATCAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 5 0.17
21 10 0.33
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATACATATATATAAAAT
Found at i:3251054 original size:20 final size:20
Alignment explanation
Indices: 3251029--3251070 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3251019 CCGTAGGTAG
* * *
3251029 ATTTTTTCTTTTTTTTATAT
1 ATTTTTTATTTATTTAATAT
3251049 ATTTTTTATTTATTTAATAT
1 ATTTTTTATTTATTTAATAT
3251069 AT
1 AT
3251071 GTGTATTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTTATTTATTTAATAT
Found at i:3264351 original size:25 final size:26
Alignment explanation
Indices: 3264302--3264356 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
3264292 AATGATGACG
3264302 AAAACAATAATAATAGCAATAGTA-T
1 AAAACAATAATAATAGCAATAGTATT
* *
3264327 AAAACGATAATAATA-CATATGGTATT
1 AAAACAATAATAATAGCA-ATAGTATT
3264353 AAAA
1 AAAA
3264357 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 19 0.73
26 5 0.19
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.25
Consensus pattern (26 bp):
AAAACAATAATAATAGCAATAGTATT
Found at i:3264385 original size:2 final size:2
Alignment explanation
Indices: 3264380--3264412 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
3264370 ATAGAAACAA
3264380 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
3264413 TAAAATGTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3264634 original size:2 final size:2
Alignment explanation
Indices: 3264573--3264617 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3264563 TATGGTGTAT
3264573 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3264615 TA T
1 TA T
3264618 TAAAAGGATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3265637 original size:20 final size:19
Alignment explanation
Indices: 3265600--3265639 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3265590 TAGGTAGATT
* *
3265600 TTTTTTCTTTTTTTATATA
1 TTTTTTATTTTTTAATATA
3265619 TTTTTTATTTATTTAATATA
1 TTTTTTATTT-TTTAATATA
3265639 T
1 T
3265640 GTGTATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTATTTTTTAATATA
Found at i:3267068 original size:15 final size:15
Alignment explanation
Indices: 3267025--3267070 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
3267015 TACATAATTT
3267025 AAAA-TTAAATATTG
1 AAAATTTAAATATTG
*
3267039 AAAATTTAAACATTG
1 AAAATTTAAATATTG
*
3267054 AAAATTTAAGTATTG
1 AAAATTTAAATATTG
3267069 AA
1 AA
3267071 TTTAAGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (15 bp):
AAAATTTAAATATTG
Found at i:3271871 original size:2 final size:2
Alignment explanation
Indices: 3271828--3271853 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3271818 ATTGCACTCA
3271828 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3271854 GTTTATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3275573 original size:22 final size:22
Alignment explanation
Indices: 3275547--3275590 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3275537 TAAACTAAAA
3275547 ATATTCCAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
*
3275569 ATATTCTAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
3275591 TTAATCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATTCCAAATTTTAAGTACCT
Found at i:3278012 original size:20 final size:20
Alignment explanation
Indices: 3277989--3278038 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3277979 AAATCCAAAT
3277989 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
3278009 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAGGA
3278029 TAAGAATACT
1 TAA-AATACT
3278039 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 4 0.15
22 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:3281034 original size:22 final size:22
Alignment explanation
Indices: 3281008--3281051 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3280998 TAAACTAAAA
3281008 ATATTCCAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
**
3281030 ATATTTTAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
3281052 TTAATCTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATTCCAAATTTTAAGTACCT
Found at i:3281512 original size:78 final size:78
Alignment explanation
Indices: 3281383--3281538 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
3281373 AAAAAAGCGG
*
3281383 GAGTAAAAGGGAGTCGTTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAAT
1 GAGTAAAAAGGAGTCGTTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAAT
3281448 CCTCCCTCGCCGC
66 CCTCCCTCGCCGC
3281461 GAGTAAAAAGGAGTCGTTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAAT
1 GAGTAAAAAGGAGTCGTTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAAT
3281526 CCTCCCTCGCCGC
66 CCTCCCTCGCCGC
3281539 CTTCGCAGAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (78 bp):
GAGTAAAAAGGAGTCGTTCAAGTTCAGCACCATCTTGGGTAGGCCATGATTCTCCTCCCAATAAT
CCTCCCTCGCCGC
Found at i:3282662 original size:24 final size:23
Alignment explanation
Indices: 3282614--3282665 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
3282604 CTTTTTTTGT
*
3282614 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
3282637 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
3282661 TATTA
1 TATTA
3282666 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:3282711 original size:27 final size:26
Alignment explanation
Indices: 3282681--3282838 Score: 85
Period size: 25 Copynumber: 6.0 Consensus size: 26
3282671 ATTCTAAATT
* *
3282681 CTATATTACGTATATATATTTTCTATA
1 CTATATTATGTATATATATTTT-AATA
* *
3282708 CTATTTTATGTATATAT-CTTTAATA
1 CTATATTATGTATATATATTTTAATA
* * *
3282733 CTATATTATTTATATATATATATT-TTT
1 CTATATTATGTATATATAT-T-TTAATA
* *
3282760 CTACATGTTATCTTATGTATATATTTT-A-A
1 CT--ATATTAT-GTA--TATATATTTTAATA
* *
3282789 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATTTTAATA
* *
3282814 CTATATTACGTACATAT-TTTTAATA
1 CTATATTATGTATATATATTTTAATA
3282839 TTATCACGTA
Statistics
Matches: 102, Mismatches: 19, Indels: 22
0.71 0.13 0.15
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 40 0.39
26 5 0.05
27 25 0.25
28 2 0.02
29 8 0.08
30 5 0.05
31 1 0.01
32 7 0.07
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATTTTAATA
Found at i:3282721 original size:25 final size:25
Alignment explanation
Indices: 3282614--3282749 Score: 95
Period size: 23 Copynumber: 5.6 Consensus size: 25
3282604 CTTTTTTTGT
* *
3282614 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
* *
3282637 TATTATATATATATTCTTT--TAATA
1 TATTATGTATATA-TCTTTAATACTA
* * *
3282661 TATTAGGTATAT-TC-TAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* * *
3282684 TATTACGTATATATATTTTCTATACTA
1 TATTATGTATATAT-CTTT-AATACTA
*
3282711 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
*
3282736 TATTATTTATATAT
1 TATTATGTATATAT
3282750 ATATATTTTT
Statistics
Matches: 86, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 20 0.23
24 20 0.23
25 20 0.23
26 6 0.07
27 17 0.20
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:3282743 original size:30 final size:28
Alignment explanation
Indices: 3282690--3282821 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 28
3282680 TCTATATTAC
*
3282690 GTATATATATTT-T-CTATACTATTTTAT
1 GTATATAT-TTTATACTATATTATTTTAT
3282717 GTATATATCTTTAATACTATATTATTTATAT
1 GTATATAT-TTT-ATACTATATTATTT-TAT
* * * *
3282748 ATATATATTTTTCTAC-ATGTTATCTTAT
1 GTATATA-TTTTATACTATATTATTTTAT
*
3282776 GTATATATTTTA-ACTATATTA-TGTAT
1 GTATATATTTTATACTATATTATTTTAT
* *
3282802 GTAT-T-TTTAACACTATATTA
1 GTATATATTTTATACTATATTA
3282822 CGTACATATT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
24 4 0.05
25 10 0.12
26 9 0.10
27 20 0.23
28 9 0.10
29 8 0.09
30 13 0.15
31 12 0.14
32 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.55
Consensus pattern (28 bp):
GTATATATTTTATACTATATTATTTTAT
Found at i:3283015 original size:16 final size:15
Alignment explanation
Indices: 3282991--3283038 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3282981 TAATTATTAT
*
3282991 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3283007 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3283022 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3283038 T
1 T
3283039 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3283026 original size:7 final size:8
Alignment explanation
Indices: 3282991--3283042 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3282981 TAATTATTAT
*
3282991 TATTCTAA
1 TATTTTAA
*
3282999 TATTTTGA
1 TATTTTAA
3283007 TATTTTAA
1 TATTTTAA
3283015 TATTTT-A
1 TATTTTAA
3283022 TATTTTATA
1 TATTTTA-A
*
3283031 TATTTTAT
1 TATTTTAA
3283039 TATT
1 TATT
3283043 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3292521 original size:46 final size:44
Alignment explanation
Indices: 3292417--3292524 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
3292407 TGTCTTTGAC
** * * *
3292417 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
3292461 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
3292507 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
3292525 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:3299899 original size:46 final size:43
Alignment explanation
Indices: 3299801--3299907 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
3299791 TGTCTTTGAC
** * * *
3299801 ATGGACTTACATGAATTATTCCTGTCTCCAATCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAGCCATATATAAT
*
3299844 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCC-AAGCCATA--TATAAT
3299890 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
3299908 TTTCGTTCTG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 25 0.45
44 7 0.13
46 23 0.42
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (43 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAGCCATATATAAT
Found at i:3303512 original size:75 final size:75
Alignment explanation
Indices: 3303346--3303903 Score: 824
Period size: 75 Copynumber: 7.5 Consensus size: 75
3303336 TTCCGTTTTC
* ** *
3303346 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACATGTTGA-GTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3303410 TGTCTTTCAA
66 TGTCTTTCAA
*
3303420 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTAAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
*
3303485 TGTATTTCAA
66 TGTCTTTCAA
* * *
3303495 AAAAATCAACTCATATTGCGAGAAATGAGTTGTGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3303560 TGTCTTTCAA
66 TGTCTTTCAA
** * *
3303570 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3303635 TGTCTTTCAA
66 TGTCTTTCAA
3303645 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
3303709 CTGT-TTTC--
65 CTGTCTTTCAA
*
3303717 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3303782 TGTCTTTC-A
66 TGTCTTTCAA
** * * * *
3303791 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGTCACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
3303856 TGT-TGTAAA
66 TGTCTTTCAA
* ** *
3303865 AAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGTCTCA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
3303904 GGCCACACAC
Statistics
Matches: 447, Mismatches: 31, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
71 5 0.01
72 61 0.14
73 6 0.01
74 148 0.33
75 222 0.50
76 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTCAA
Found at i:3304135 original size:106 final size:104
Alignment explanation
Indices: 3303846--3304159 Score: 357
Period size: 102 Copynumber: 3.0 Consensus size: 104
3303836 GCTGAGGTAA
* * *
3303846 TTTCAATTTCTG-TTGTAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGTCTCAGGCCAC
1 TTTCAATTTATGCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGCCAC
** * * *
3303910 ACACTGAGGTCTTTTCAAATTCCGTTTTCAATTTCTCTT
66 ATGCTGAGGTCTTTTCAAATTCTGTTTTTAATTTCTATT
* * *
3303949 TTTCAATTTATGCTTTT--CAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGTCTCAGGCCAC
1 TTTCAATTTATGCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGCCAC
* *
3304012 ATGCCGAGGTCTTTTCAAATTCTGTTTTTAGTTTCTATT
66 ATGCTGAGGTCTTTTCAAATTCTGTTTTTAATTTCTATT
* * * * *
3304051 TTTTAATTTCTGTGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTA-GCT
1 TTTCAATTTATG-CTTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGC-
* * * * * *
3304115 CACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCTAGT
63 CACATGCTGAGGTCTTTTCAAATTCTGTTTTTAATTTCTATT
3304157 TTT
1 TTT
3304160 AAAGAGTCAA
Statistics
Matches: 176, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
102 84 0.48
103 15 0.09
104 3 0.02
105 2 0.01
106 72 0.41
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (104 bp):
TTTCAATTTATGCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGCCAC
ATGCTGAGGTCTTTTCAAATTCTGTTTTTAATTTCTATT
Found at i:3304262 original size:16 final size:14
Alignment explanation
Indices: 3304225--3304264 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
3304215 TCTTTTCAAA
3304225 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
3304238 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
*
3304252 TTCTGTGTTTTAA
1 TTCTGTTTTTTAA
3304265 AAAAATCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:3304347 original size:192 final size:193
Alignment explanation
Indices: 3303977--3304405 Score: 736
Period size: 192 Copynumber: 2.2 Consensus size: 193
3303967 AAAAATTAAC
** *
3303977 TCATATTGCGAGAGGTGAGTTAAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTGTTTTTA
1 TCATATTGCGAGAAATGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTGTTTTTA
*
3304042 GTTTCTATTTTTTAATTTCTGTGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 ATTTCTATTTTTTAATTTCTGTGTTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
3304107 CCTTAGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAAT
130 CCTTAGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTAATGTCTAGTTTTAAAGAGTCAAT
*
3304171 TCATATTGCGAGAAACGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTGTTTTTA
1 TCATATTGCGAGAAATGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTGTTTTTA
*
3304236 ATTTCTGTTTTTTAATTTCTGTGTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 ATTTCTATTTTTTAATTTCTGTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
3304300 CTTGGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTAATGTCTAGTTTTAAAGAGTCAAT
131 CTTAGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTAATGTCTAGTTTTAAAGAGTCAAT
* *
3304363 TCATATTGCAAGAAATGAGTTGAG-CTCAGGATCACATGCCGAG
1 TCATATTGCGAGAAATGAGTTGAGTCTCAGG-CCACATGCCGAG
3304406 TAAAGAATAA
Statistics
Matches: 223, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
191 6 0.03
192 131 0.59
194 86 0.39
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (193 bp):
TCATATTGCGAGAAATGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTGTTTTTA
ATTTCTATTTTTTAATTTCTGTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTTAGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTAATGTCTAGTTTTAAAGAGTCAAT
Found at i:3305607 original size:27 final size:26
Alignment explanation
Indices: 3305514--3305647 Score: 82
Period size: 25 Copynumber: 5.3 Consensus size: 26
3305504 TTGTTATTAT
* *
3305514 TATAT-TTCTTAATATTATATTATATA
1 TATATATT-TTAATACTATATTATGTA
* * *
3305540 TATATATTCTT-TTAATATATTA-G-G
1 TATATATT-TTAATACTATATTATGTA
* * * *
3305564 TATAT-TCTAAATTCTATATTACGTA
1 TATATATTTTAATACTATATTATGTA
* *
3305589 TATATATTTTCTATACTATTTTATGTA
1 TATATATTTT-AATACTATATTATGTA
* *
3305616 TATAT-CTTTAATACTATATTATTTA
1 TATATATTTTAATACTATATTATGTA
3305641 TATATAT
1 TATATAT
3305648 ATATATATAT
Statistics
Matches: 80, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
22 1 0.01
23 9 0.11
24 6 0.08
25 23 0.29
26 19 0.24
27 22 0.28
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (26 bp):
TATATATTTTAATACTATATTATGTA
Found at i:3305617 original size:25 final size:25
Alignment explanation
Indices: 3305508--3305645 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 25
3305498 CTCTTTTTGT
* *
3305508 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
* * ** *
3305531 TATTATATATATATATTCTTTTAATA
1 TATTATGTATATATCTT-TAATACTA
* * *
3305557 TATTAGGTATAT-TC-TAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* * *
3305580 TATTACGTATATATATTTTCTATACTA
1 TATTATGTATATAT-CTTT-AATACTA
*
3305607 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
*
3305632 TATTATTTATATAT
1 TATTATGTATATAT
3305646 ATATATATAT
Statistics
Matches: 84, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
23 20 0.24
24 8 0.10
25 20 0.24
26 19 0.23
27 17 0.20
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:3305722 original size:25 final size:24
Alignment explanation
Indices: 3305672--3305736 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 24
3305662 ACATGTTATC
3305672 TTATGTATATA-TTTT-AACTATA
1 TTATGTATATATTTTTAAACTATA
*
3305694 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAA-ACTATA
*
3305719 TTATGTACATATTTTTAA
1 TTATGTATATATTTTTAA
3305737 TATTATCACG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.27
23 4 0.11
24 1 0.03
25 22 0.59
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (24 bp):
TTATGTATATATTTTTAAACTATA
Found at i:3305914 original size:16 final size:15
Alignment explanation
Indices: 3305890--3305937 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3305880 TAATTATTAT
*
3305890 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3305906 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3305921 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3305937 T
1 T
3305938 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3305925 original size:7 final size:8
Alignment explanation
Indices: 3305890--3305941 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3305880 TAATTATTAT
*
3305890 TATTCTAA
1 TATTTTAA
*
3305898 TATTTTGA
1 TATTTTAA
3305906 TATTTTAA
1 TATTTTAA
3305914 TATTTT-A
1 TATTTTAA
3305921 TATTTTATA
1 TATTTTA-A
*
3305930 TATTTTAT
1 TATTTTAA
3305938 TATT
1 TATT
3305942 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3308796 original size:7 final size:7
Alignment explanation
Indices: 3308786--3308811 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3308776 GCACATGTAA
3308786 CATGTGG
1 CATGTGG
3308793 CATGTGG
1 CATGTGG
3308800 CATGTGG
1 CATGTGG
3308807 CATGT
1 CATGT
3308812 CACTATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (7 bp):
CATGTGG
Found at i:3313319 original size:19 final size:19
Alignment explanation
Indices: 3313295--3313334 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3313285 ACATCCTAAT
3313295 TACATAAATCTCATATATC
1 TACATAAATCTCATATATC
3313314 TACATAAATCTCATATATC
1 TACATAAATCTCATATATC
3313333 TA
1 TA
3313335 TATCATCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (19 bp):
TACATAAATCTCATATATC
Found at i:3325910 original size:16 final size:17
Alignment explanation
Indices: 3325889--3325933 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
3325879 AAAAAAAGGC
*
3325889 AAAT-AATTGTTTTATA
1 AAATAAATTATTTTATA
3325905 AAATAAATTATTTTATATA
1 AAATAAATTA-TTT-TATA
3325924 AAATAAATTA
1 AAATAAATTA
3325934 ATATTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
18 3 0.12
19 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATAAATTATTTTATA
Found at i:3333824 original size:2 final size:2
Alignment explanation
Indices: 3333817--3333845 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3333807 CAATCGTTTA
3333817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3333846 GTATTTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3334327 original size:2 final size:2
Alignment explanation
Indices: 3334316--3334345 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3334306 AATTTCAGAA
3334316 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3334346 GAATCATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.