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 382 of 410
Found at i:116117345 original size:38 final size:38
Alignment explanation
Indices: 116117229--116117347 Score: 109
Period size: 38 Copynumber: 3.1 Consensus size: 38
116117219 AACAGGTTAA
* *
116117229 ATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAA
1 ATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAG
**
116117267 ATCGA-AGACTCGCCTTAATC-CCCTAAGCAGTAG-GGTAACAG
1 ATTTACAGA-T---CTT-ATCTCCCTAAGCAGTAGTGG-AACAG
* *
116117308 GTTTACAGATCTTATCTCCCTAAACAGTAGTGGAACAG
1 ATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAG
116117346 AT
1 AT
116117348 CAACGACGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
37 6 0.10
38 25 0.40
39 2 0.03
40 2 0.03
41 22 0.35
42 6 0.10
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (38 bp):
ATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAG
Found at i:116117386 original size:82 final size:80
Alignment explanation
Indices: 116117195--116117471 Score: 346
Period size: 84 Copynumber: 3.4 Consensus size: 80
116117185 AAATTCAGCA
116117195 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTTACAGATCTTATCTCCCTAAGCAGTAGT
*
116117260 GGAGCAAAT-CGAAGACTCG
61 GGAGCAGATACGAAGACTCG
* *
116117279 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTTACAGATCTTATCTCCCTAAACAGTAGTGGAAC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
*
116117344 AGATCAACGACGACTCG
66 AGAT--ACGAAGACTCG
*
116117361 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGT-----TTACAGATCTTATCTCCCTAAGCAGTAGT
* *
116117426 GGAGTAGAT-CGAAGA-TGCA
61 GGAGCAGATACGAAGACT-CG
116117445 CCTTAA-CCCCTAAGCAGTAGGGTAACA
1 CCTTAATCCCCTAAGCAGTAGGGTAACA
116117472 AGTTAAAGCA
Statistics
Matches: 174, Mismatches: 10, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
79 36 0.21
82 40 0.23
83 22 0.13
84 42 0.24
87 34 0.20
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (80 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
AGATACGAAGACTCG
Found at i:116117389 original size:44 final size:42
Alignment explanation
Indices: 116117195--116117394 Score: 134
Period size: 44 Copynumber: 4.8 Consensus size: 42
116117185 AAATTCAGCA
* * *
116117195 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAA-ATTTAC-AG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAACA--GACTCG
* * ** *
116117237 ATCTT-ATCTCCCTAAGCAGTAGTGG-AGCAAATCGA-AGACTCG
1 -CCTTAATC-CCCTAAGCAGTAG-GGTAACAGGTCAACAGACTCG
**
116117279 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTTACAGA-T--
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAACAGACTCG
* *
116117318 -CTT-ATCTCCCTAAACAGTAGTGG-AACAGATCAACGACGACTCG
1 CCTTAATC-CCCTAAGCAGTAG-GGTAACAGGTCAAC-A-GACTCG
116117361 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAA
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAA
116117395 AATTGCAGAT
Statistics
Matches: 121, Mismatches: 20, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
37 3 0.02
38 23 0.19
39 3 0.02
40 4 0.03
41 25 0.21
42 10 0.08
43 24 0.20
44 26 0.21
45 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAACAGACTCG
Found at i:116117835 original size:207 final size:207
Alignment explanation
Indices: 116117480--116118216 Score: 1118
Period size: 207 Copynumber: 3.6 Consensus size: 207
116117470 CAAGTTAAAG
*
116117480 CATAGCAGATCAGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* ** * *
116117545 GCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTACTTATGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
116117610 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTAGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTAGAC
116117675 GGAGGGCAGACA
196 GGAGGGCAGACA
*
116117687 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGTTGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * *
116117752 GCTTACAAGGAACAAATTGAAGACATAGTTGATTTGACTTTCACGTGTTTACGTTGAAGCAAGTC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * * *
116117817 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCTATATTCGAA
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTAGAC
116117882 GGAGGGCAGACA
196 GGAGGGCAGACA
** *
116117894 CATAATAGATCTGGCCTTCAGATGTTTATACTGAAACAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
*
116117959 GGTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * * **
116118024 TAAGATGATTTGGTATCTCTGTATTTTCAGAGAACAAATTGAAGTTTGGTATCTCCATATTCA-A
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATT-AGA
*
116118088 CGGAGGACAGACA
195 CGGAGGGCAGACA
* ** * * * *
116118101 TATAGCAGATCTAACCTTCAGATGATTAGACAGAAGC-AGATCCAAGATGGTTTGGTATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* ** * *
116118165 GCTTATAAGGTGCAAATCGAAGACATAGCTGATTTGGCTTTCGCATGTTTAC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAC
116118217 CTCTGTTGGG
Statistics
Matches: 481, Mismatches: 48, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
206 72 0.15
207 409 0.85
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (207 bp):
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTAGAC
GGAGGGCAGACA
Found at i:116126935 original size:205 final size:205
Alignment explanation
Indices: 116126575--116127110 Score: 731
Period size: 205 Copynumber: 2.6 Consensus size: 205
116126565 GCAGATCTGG
*
116126575 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGAT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAG-T
* * * ** * *
116126640 GATTTGGTTTTCGCGTATTTACATTGAGGCAAATCTAAGATGATTTGGCATCTCTGTACTGTCAG
65 AATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
116126705 AGAACAAATCGAAGTCTGGCATCTCCACTTCAAT-GGAGAGCAGATACATAGCAGATCTCACCTT
130 AGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGG-GAGCAGATACATAGCAGATCTCACCTT
*
116126769 CAGAT-GTTT-A
194 CAGATAATTTCA
* * *
116126779 TGTTGAAG-TAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAG
1 --CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAG
* * *
116126843 CTAATTTGGCTTTCGCATGCTTACGCTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
64 -TAATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
* *
116126908 AGAGAACAAATCGAAGTCTGGCATCTCCACTTCGATAGGGAGCAGATACATGGCAGATCTCACCT
128 AGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGGGAGCAGATACATAGCAGATCTCACCT
*
116126973 TCGGATAATTTCA
193 TCAGATAATTTCA
* * *
116126986 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTTGGC-CACAAGGAGCAAATCAAAGACAAAG
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTG-T-GCTTACAAGGAGCAAATCGAAGACATAG
* * ** *
116127050 AAGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCCGAGATGATTTAGCATCTCTGTAT
64 TA-ATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTAT
116127111 CATCAAGAAA
Statistics
Matches: 290, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
205 177 0.61
206 37 0.13
207 74 0.26
208 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTA
ATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCACTTCAATAGGGAGCAGATACATAGCAGATCTCACCTTCA
GATAATTTCA
Found at i:116128797 original size:15 final size:13
Alignment explanation
Indices: 116128758--116128811 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
116128748 TCAACCTTAT
116128758 TTTTATATTATATA
1 TTTTATATTAT-TA
*
116128772 TTGTATA--ATTA
1 TTTTATATTATTA
116128783 TTTTATGATATATTA
1 TTTTAT-AT-TATTA
116128798 -TTTATATTATTA
1 TTTTATATTATTA
116128810 TT
1 TT
116128812 ACTTATTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
11 7 0.21
12 8 0.24
13 3 0.09
14 11 0.33
15 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:116128812 original size:15 final size:15
Alignment explanation
Indices: 116128779--116128962 Score: 64
Period size: 15 Copynumber: 12.1 Consensus size: 15
116128769 ATATTGTATA
*
116128779 ATTATTT-TATGATAT
1 ATTATTTATATTAT-T
116128794 ATTATTTATATTATT
1 ATTATTTATATTATT
*
116128809 ATTACTTAT-TGTATAAT
1 ATTATTTATAT-TAT--T
* *
116128826 ATTTTTTCACAAATTATT
1 ATTATTT---ATATTATT
*
116128844 ATTATTT-TA-CATT
1 ATTATTTATATTATT
*
116128857 ATTATTTATATCATT
1 ATTATTTATATTATT
*
116128872 A-T-TTTATTTTACTT
1 ATTATTTATATTA-TT
*
116128886 -GTA-TTATA-TATT
1 ATTATTTATATTATT
*
116128898 AATTATATATATTATT
1 -ATTATTTATATTATT
* **
116128914 TTTACATATA-TACTTT
1 ATTATTTATATTA--TT
* *
116128930 AATATTATATATTATA
1 ATTATT-TATATTATT
116128946 ATTATTTATATTATT
1 ATTATTTATATTATT
116128961 AT
1 AT
116128963 GTCACTTTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 42
0.66 0.12 0.22
Matches are distributed among these distances:
12 2 0.02
13 19 0.15
14 16 0.13
15 46 0.37
16 19 0.15
17 10 0.08
18 9 0.07
20 4 0.03
21 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (15 bp):
ATTATTTATATTATT
Found at i:116128859 original size:13 final size:15
Alignment explanation
Indices: 116128841--116128874 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
116128831 TTCACAAATT
116128841 ATTATTATTT-TA-C
1 ATTATTATTTATATC
116128854 ATTATTATTTATATC
1 ATTATTATTTATATC
116128869 ATTATT
1 ATTATT
116128875 TTATTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 2 0.11
15 7 0.37
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTATTTATATC
Found at i:116128859 original size:16 final size:16
Alignment explanation
Indices: 116128838--116128897 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
116128828 TTTTTCACAA
116128838 ATTATTATTATTTTAC
1 ATTATTATTATTTTAC
*
116128854 ATTATTA-T-TTATATC
1 ATTATTATTATTTTA-C
116128869 ATTATT-TTATTTTAC
1 ATTATTATTATTTTAC
*
116128884 TTGTATTATATATT
1 AT-TATTAT-TATT
116128898 AATTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 4 0.11
15 11 0.31
16 15 0.43
17 1 0.03
18 4 0.11
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTATTATTATTTTAC
Found at i:116128873 original size:31 final size:32
Alignment explanation
Indices: 116128760--116128944 Score: 107
Period size: 31 Copynumber: 5.7 Consensus size: 32
116128750 AACCTTATTT
* * *
116128760 TTATATTATATATTGTATAATTATTTTATGATATA
1 TTAT-TTATATAAT-TATTATTATTTTA-CATATA
* * *
116128795 TTATTTATATTATTATTACTTATTGTATA-ATA
1 TTATTTATATAATTATTA-TTATTTTACATATA
* *
116128827 TTTTTTCACA-AATTATTATTATTTTACAT-TA
1 TTATTT-ATATAATTATTATTATTTTACATATA
* * *
116128858 TTATTTATATCATTATT-TTATTTTACTTGTA
1 TTATTTATATAATTATTATTATTTTACATATA
*
116128889 TTATATAT-TAATTATATATATTATTTTTACATATA
1 TTATTTATATAA-T-TAT-TATTA-TTTTACATATA
116128924 -TACTTTA-AT-ATTATATATTAT
1 TTA-TTTATATAATTAT-TATTAT
116128945 AATTATTTAT
Statistics
Matches: 119, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
30 14 0.12
31 32 0.27
32 27 0.23
33 9 0.08
34 20 0.17
35 17 0.14
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (32 bp):
TTATTTATATAATTATTATTATTTTACATATA
Found at i:116129912 original size:15 final size:15
Alignment explanation
Indices: 116129892--116129924 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
116129882 TTTGTAGACC
116129892 AAAAC-AAATGATTTT
1 AAAACAAAATG-TTTT
116129907 AAAACAAAATGTTTT
1 AAAACAAAATGTTTT
116129922 AAA
1 AAA
116129925 GGTGATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (15 bp):
AAAACAAAATGTTTT
Found at i:116130308 original size:120 final size:120
Alignment explanation
Indices: 116130095--116130336 Score: 475
Period size: 120 Copynumber: 2.0 Consensus size: 120
116130085 ACACTTGAAG
116130095 CAGTTCGTGGTAAGAGAATAACAAAGAATACCGTTTGGTTAAAAGCAGGAAAACACTAAGAATCC
1 CAGTTCGTGGTAAGAGAATAACAAAGAATACCGTTTGGTTAAAAGCAGGAAAACACTAAGAATCC
116130160 GTTTATCCAAAAACACAAGTACAAATTCGGTTAAGGTTTTTTGCTATAAATGTCA
66 GTTTATCCAAAAACACAAGTACAAATTCGGTTAAGGTTTTTTGCTATAAATGTCA
*
116130215 CAGTTCGTGGTAAGAGAATAACAAAGAATACCGTTTGGTTAAAAGCAGGAAAACACTAAGAATCT
1 CAGTTCGTGGTAAGAGAATAACAAAGAATACCGTTTGGTTAAAAGCAGGAAAACACTAAGAATCC
116130280 GTTTATCCAAAAACACAAGTACAAATTCGGTTAAGGTTTTTTGCTATAAATGTCA
66 GTTTATCCAAAAACACAAGTACAAATTCGGTTAAGGTTTTTTGCTATAAATGTCA
116130335 CA
1 CA
116130337 AACGAGTCTA
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (120 bp):
CAGTTCGTGGTAAGAGAATAACAAAGAATACCGTTTGGTTAAAAGCAGGAAAACACTAAGAATCC
GTTTATCCAAAAACACAAGTACAAATTCGGTTAAGGTTTTTTGCTATAAATGTCA
Found at i:116144410 original size:17 final size:17
Alignment explanation
Indices: 116144388--116144449 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
116144378 GAGCATGTGT
116144388 TCATTTACATACATTAA
1 TCATTTACATACATTAA
**
116144405 TCATTT-CATTCGAGCATGTGT
1 TCATTTACA-T--A-CAT-TAA
116144426 TCATTTACATACATTAA
1 TCATTTACATACATTAA
116144443 TCATTTA
1 TCATTTA
116144450 TACAATTCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 15 0.43
18 3 0.09
19 2 0.06
20 3 0.09
21 8 0.23
22 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (17 bp):
TCATTTACATACATTAA
Found at i:116144419 original size:38 final size:38
Alignment explanation
Indices: 116144376--116144448 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
116144366 TCATTATTTA
116144376 TCGAGCATGTGTTCATTTACATACATTAATCATTTCAT
1 TCGAGCATGTGTTCATTTACATACATTAATCATTTCAT
116144414 TCGAGCATGTGTTCATTTACATACATTAATCATTT
1 TCGAGCATGTGTTCATTTACATACATTAATCATTT
116144449 ATACAATTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (38 bp):
TCGAGCATGTGTTCATTTACATACATTAATCATTTCAT
Found at i:116147671 original size:20 final size:20
Alignment explanation
Indices: 116147646--116147686 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
116147636 TCAAGAAGCT
116147646 CAAGTCTATTCTGACTTAGG
1 CAAGTCTATTCTGACTTAGG
*
116147666 CAAGTCTGTTCTGACTTAGG
1 CAAGTCTATTCTGACTTAGG
116147686 C
1 C
116147687 TCCTATTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (20 bp):
CAAGTCTATTCTGACTTAGG
Found at i:116152941 original size:13 final size:15
Alignment explanation
Indices: 116152923--116152954 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
116152913 TTTTGCCTTT
116152923 AGCGGC-CTTTT-TA
1 AGCGGCGCTTTTCTA
116152936 AGCGGCGCTTTTCTA
1 AGCGGCGCTTTTCTA
116152951 AGCG
1 AGCG
116152955 CCGCAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 5 0.29
15 6 0.35
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (15 bp):
AGCGGCGCTTTTCTA
Found at i:116153047 original size:43 final size:42
Alignment explanation
Indices: 116153001--116153269 Score: 348
Period size: 43 Copynumber: 6.4 Consensus size: 42
116152991 TAGCGGAGAA
116153001 AAAAAACGCCGCTAAAGACCAGGAC-TTTAGCGGCGC-TTTT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTT
* *
116153041 ATAAAAACACCGCTAAAGACCAGGACTTTTAGCGGCAC-TTTT
1 A-AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTT
116153083 ATAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCG-TTTTT
1 A-AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTT
* * * *
116153125 ATAAAAACACCGCGATAGACAAGGACTTTTAGCGGCGCGTTTTT
1 A-AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC-TTTTT
* * *
116153169 ACAAAACGCCACTATAGACCAGGACTTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC-TTTTT
* * *
116153212 AGAAAACGCTGCTATAGACCAGGACTTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC-TTTTT
116153255 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
116153270 TTTGCCCAGT
Statistics
Matches: 204, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.00
41 23 0.11
42 86 0.42
43 88 0.43
44 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTT
Found at i:116153073 original size:42 final size:42
Alignment explanation
Indices: 116153002--116153269 Score: 369
Period size: 42 Copynumber: 6.3 Consensus size: 42
116152992 AGCGGAGAAA
116153002 AAAAACGCCGCTAAAGACCAGGAC-TTTAGCGGCGCTTTTAT
1 AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
* *
116153043 AAAAACACCGCTAAAGACCAGGACTTTTAGCGGCACTTTTAT
1 AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
*
116153085 AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGTTTTTAT
1 AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
* * * *
116153127 AAAAACACCGCGATAGACAAGGACTTTTAGCGGCGCGTTTT-T
1 AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC-TTTTAT
* * *
116153169 ACAAAACGCCACTATAGACCAGGACTTTTAGCGGCGCTTTTTT
1 A-AAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
* * *
116153212 AGAAAACGCTGCTATAGACCAGGACTTTTAGCGGCGCTTTTTT
1 A-AAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
116153255 AAAAAACGCCGCTAA
1 -AAAAACGCCGCTAA
116153270 TTTGCCCAGT
Statistics
Matches: 203, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
41 23 0.11
42 92 0.45
43 87 0.43
44 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
Found at i:116153587 original size:21 final size:21
Alignment explanation
Indices: 116153563--116153610 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
116153553 TTCTGTTCTG
116153563 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
116153584 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
116153605 CTCCGC
1 CTCCGC
116153611 TCTAAGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.19, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:116160736 original size:26 final size:26
Alignment explanation
Indices: 116160689--116160741 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
116160679 TAGTGTAACT
*
116160689 AATTTAAAAATACTTTCAAAAACCAAA
1 AATTTAAAAATAATTTCAAAAA-CAAA
* *
116160716 AATTTAAAATTAATTT-GAAAACAAA
1 AATTTAAAAATAATTTCAAAAACAAA
116160741 A
1 A
116160742 TAGTTCTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 14 0.61
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (26 bp):
AATTTAAAAATAATTTCAAAAACAAA
Found at i:116161685 original size:26 final size:26
Alignment explanation
Indices: 116161648--116161705 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
116161638 TGATACAAAT
116161648 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
116161674 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
116161700 TGATAA
1 TGATAA
116161706 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:116164585 original size:14 final size:13
Alignment explanation
Indices: 116164566--116164595 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
116164556 CAATATAATT
116164566 TTACTTCATATATA
1 TTACTTCATATA-A
116164580 TTACTTCATATAA
1 TTACTTCATATAA
116164593 TTA
1 TTA
116164596 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:116166442 original size:6 final size:6
Alignment explanation
Indices: 116166431--116166472 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
116166421 TAAGACAGAA
* *
116166431 AGAGGG AGAGGG AGAGGA AGAGGG AGAGGG AGAGGG AAAGGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG
116166473 GAGAAAGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:116167207 original size:28 final size:29
Alignment explanation
Indices: 116167150--116167221 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
116167140 TTAATCAAAA
*
116167150 CTCTAAACCTTAAACCATTAAACTATATC
1 CTCTAAACCTTAAACCACTAAACTATATC
*
116167179 C-CTATAACCTTAAACC-CTAAAGTATATC
1 CTCTA-AACCTTAAACCACTAAACTATATC
*
116167207 CTCTAAACCCTAAAC
1 CTCTAAACCTTAAAC
116167222 TATATCCCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.28
Consensus pattern (29 bp):
CTCTAAACCTTAAACCACTAAACTATATC
Found at i:116167213 original size:21 final size:21
Alignment explanation
Indices: 116167180--116167241 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
116167170 AACTATATCC
*
116167180 CTATAACCT-TAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
*
116167200 GTATATCCTCTAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
* *
116167221 CTATATCCCCT-AACCATAAA
1 CTATATCCTCTAAACCCTAAA
116167241 C
1 C
116167242 CACAAAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.40, C:0.32, G:0.02, T:0.26
Consensus pattern (21 bp):
CTATATCCTCTAAACCCTAAA
Found at i:116167258 original size:28 final size:28
Alignment explanation
Indices: 116167209--116167276 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
116167199 AGTATATCCT
* * *
116167209 CTAAACC-CTAAACTATATCCCCTAA-C
1 CTAAACCACAAAACAATAACCCCTAAGC
116167235 CATAAACCACAAAACAATAACCCCTAAGC
1 C-TAAACCACAAAACAATAACCCCTAAGC
*
116167264 CTTAACCACAAAA
1 CTAAACCACAAAA
116167277 TGTATGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 6 0.17
28 26 0.74
29 2 0.06
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.16
Consensus pattern (28 bp):
CTAAACCACAAAACAATAACCCCTAAGC
Found at i:116167394 original size:21 final size:21
Alignment explanation
Indices: 116167365--116167445 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
116167355 GTAAACCTTA
116167365 AACCATTAAACTATATCCCTAT
1 AACC-TTAAACTATATCCCTAT
116167387 AACCTTAAACCCTAAAATATATCCCT-T
1 AACCTTAAA--C-----TATATCCCTAT
* *
116167414 AAACCCTAAACTATATCCATAT
1 -AACCTTAAACTATATCCCTAT
116167436 AACCTTAAAC
1 AACCTTAAAC
116167446 CCTAAACCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 19
0.68 0.04 0.28
Matches are distributed among these distances:
21 22 0.47
22 5 0.11
23 1 0.02
26 1 0.02
27 1 0.02
28 17 0.36
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCTTAAACTATATCCCTAT
Found at i:116167410 original size:28 final size:28
Alignment explanation
Indices: 116167358--116167510 Score: 106
Period size: 28 Copynumber: 5.6 Consensus size: 28
116167348 CAAAATCGTA
*
116167358 AACCTTAAACCATTAAACTATATCCCTAT
1 AACCTTAAACC-CTAAACTATATCCCTAT
116167387 AACCTTAAACCCTAAA--ATA----TAT
1 AACCTTAAACCCTAAACTATATCCCTAT
* *
116167409 -CCCTTAAACCCTAAACTATATCCATAT
1 AACCTTAAACCCTAAACTATATCCCTAT
* ***
116167436 AACCTTAAACCCTAAACCCTAAAGTATATAT
1 AACCTTAAACCCTAAA--CTATA-TCCCTAT
* *
116167467 ATCCATTAAACCCTAAACTATATCCC-CT
1 AACC-TTAAACCCTAAACTATATCCCTAT
* *
116167495 AACCATAAACCATAAA
1 AACCTTAAACCCTAAA
116167511 ATAATAACCC
Statistics
Matches: 98, Mismatches: 15, Indels: 24
0.72 0.11 0.18
Matches are distributed among these distances:
21 14 0.14
22 3 0.03
23 3 0.03
26 3 0.03
27 13 0.13
28 22 0.22
29 12 0.12
30 8 0.08
31 8 0.08
32 12 0.12
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.27
Consensus pattern (28 bp):
AACCTTAAACCCTAAACTATATCCCTAT
Found at i:116167452 original size:35 final size:32
Alignment explanation
Indices: 116167413--116167484 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 32
116167403 ATATATCCCT
116167413 TAAACCCTAAACTATATCCATATAACC-TTAAACCC
1 TAAACCCTAAACTATAT--ATAT--CCATTAAACCC
*
116167448 TAAACCCTAAAGTATATATATCCATTAAACCC
1 TAAACCCTAAACTATATATATCCATTAAACCC
116167480 TAAAC
1 TAAAC
116167485 TATATCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 2 0.06
32 13 0.37
33 4 0.11
35 16 0.46
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.26
Consensus pattern (32 bp):
TAAACCCTAAACTATATATATCCATTAAACCC
Found at i:116167522 original size:28 final size:27
Alignment explanation
Indices: 116167473--116167540 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
116167463 ATATATCCAT
* * *
116167473 TAAACCCTAAACTATATCCCCTAA-CC
1 TAAACCATAAAATATAACCCCTAAGCC
116167499 ATAAACCATAAAATAATAACCCCTAAGCC
1 -TAAACCATAAAAT-ATAACCCCTAAGCC
*
116167528 TTAACCATAAAAT
1 TAAACCATAAAAT
116167541 GTATGAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.31
28 22 0.63
29 2 0.06
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (27 bp):
TAAACCATAAAATATAACCCCTAAGCC
Found at i:116167677 original size:14 final size:14
Alignment explanation
Indices: 116167634--116167679 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
116167624 CTTAAACCAT
116167634 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
116167648 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
116167661 TAAACTATATCCCC
1 TAAACTATATCCCC
116167675 TAAAC
1 TAAAC
116167680 CTTAAACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:116167721 original size:263 final size:262
Alignment explanation
Indices: 116167201--116167721 Score: 764
Period size: 263 Copynumber: 2.0 Consensus size: 262
116167191 AACCCTAAAG
116167201 TATATCCTCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCT
1 TATATCCTCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCT
*
116167266 TAACCACAAAATGTATGAATTAATCATAACCTTAAACTATATCCCTTGATCCTTAAACCACAAAA
66 TAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTAAACCACAAAA
**
116167331 TAATAACACTAATTAATCAAAATCGTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAA
131 TAATAACACTAATTAATCAAAATCGTAAACCTTAAACCATTAAACTATATCCCTATAACAGT-AA
* * * ** * * *
116167396 CCCTAAAATATATCCCTTAAACCCTAAACTATATCCATATAACCTTAAACCCTAAACCCTAAAGT
195 CCCTAAAATATATCCCCTAAACCCTAAACCACATAAATAAAACCCTAAACACTAAACCCTAAAGT
116167461 ATA
260 ATA
* *
116167464 TATATCCAT-TAAACCCTAAACTATATCCCCTAACCATAAACCATAAAATAATAACCCCTAAGCC
1 TATATCC-TCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCC
*
116167528 TTAACCATAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTAAACCACAAA
65 TTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTAAACCACAAA
*
116167593 ATAATAACACTAATTAATCAATACTC-TAAACCTTAAACCATTAAACTATATCCCCTACTAA-AG
130 ATAATAACACTAATTAATCAA-AATCGTAAACCTTAAACCATTAAACTATAT-CCCTA-TAACAG
* * * * *
116167656 T-ACCCTAAACTATATCCCCTAAACCTTAAACCACA-AAATAAAAACCCCTAAGCATTAACCCCT
192 TAACCCTAAAATATATCCCCTAAACCCTAAACCACATAAAT-AAAA-CCCTAAACACTAAACCCT
116167719 AAA
255 AAA
116167722 CCATTAACCC
Statistics
Matches: 232, Mismatches: 20, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
261 2 0.01
262 32 0.14
263 185 0.80
264 10 0.04
265 3 0.01
ACGTcount: A:0.44, C:0.28, G:0.02, T:0.26
Consensus pattern (262 bp):
TATATCCTCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCT
TAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATCCTTAAACCACAAAA
TAATAACACTAATTAATCAAAATCGTAAACCTTAAACCATTAAACTATATCCCTATAACAGTAAC
CCTAAAATATATCCCCTAAACCCTAAACCACATAAATAAAACCCTAAACACTAAACCCTAAAGTA
TA
Found at i:116167728 original size:15 final size:15
Alignment explanation
Indices: 116167698--116167746 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
116167688 ACAAAATAAA
*
116167698 AACCCCT-AAGCATT
1 AACCCCTAAACCATT
116167712 AACCCCTAAACCATT
1 AACCCCTAAACCATT
* * *
116167727 AACCCATAACCCATA
1 AACCCCTAAACCATT
116167742 AACCC
1 AACCC
116167747 TTAATCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 7 0.23
15 23 0.77
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (15 bp):
AACCCCTAAACCATT
Found at i:116167747 original size:29 final size:29
Alignment explanation
Indices: 116167715--116167774 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
116167705 AAGCATTAAC
*
116167715 CCCTAAACCATTAACCCATAACCCATAAA
1 CCCTAAACCACTAACCCATAACCCATAAA
* * * *
116167744 CCCTTAATCACTAGCCCATAACCCTTAAA
1 CCCTAAACCACTAACCCATAACCCATAAA
116167773 CC
1 CC
116167775 ATAAGCCGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.40, G:0.02, T:0.20
Consensus pattern (29 bp):
CCCTAAACCACTAACCCATAACCCATAAA
Found at i:116167781 original size:22 final size:23
Alignment explanation
Indices: 116167718--116167781 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
116167708 CATTAACCCC
* *
116167718 TAAACCATTAACCCATAA-CCCA
1 TAAACCCTTAAACCATAAGCCCA
*
116167740 TAAACCCTT-AATCACT-AGCCCA
1 TAAACCCTTAAACCA-TAAGCCCA
116167762 T-AACCCTTAAACCATAAGCC
1 TAAACCCTTAAACCATAAGCC
116167782 GTAAACATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 12 0.35
22 22 0.65
ACGTcount: A:0.41, C:0.36, G:0.03, T:0.20
Consensus pattern (23 bp):
TAAACCCTTAAACCATAAGCCCA
Found at i:116167805 original size:28 final size:27
Alignment explanation
Indices: 116167760--116167815 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
116167750 ATCACTAGCC
* *
116167760 CATAACCCTTAAACCATAAGCCGTAAA
1 CATAACCCTTAAACCATAAACCCTAAA
116167787 CATAATCCC-TAAACCCATAAACCCTAAA
1 CATAA-CCCTTAAA-CCATAAACCCTAAA
116167815 C
1 C
116167816 CTTTAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.18
Consensus pattern (27 bp):
CATAACCCTTAAACCATAAACCCTAAA
Found at i:116167822 original size:15 final size:15
Alignment explanation
Indices: 116167712--116167816 Score: 60
Period size: 15 Copynumber: 7.3 Consensus size: 15
116167702 CCTAAGCATT
* * *
116167712 AACCCCTAAACCATT
1 AACCCATAAACCCTA
116167727 AACCCAT-AACCCATA
1 AACCCATAAACCC-TA
* * *
116167742 AACCCTTAATCACT-
1 AACCCATAAACCCTA
*
116167756 AGCCCAT-AACCCTTA
1 AACCCATAAACCC-TA
* *
116167771 AA-CCATAAGCCGTA
1 AACCCATAAACCCTA
*
116167785 AA--CATAATCCCTA
1 AACCCATAAACCCTA
116167798 AACCCATAAACCCTA
1 AACCCATAAACCCTA
116167813 AACC
1 AACC
116167817 TTTAAATAGT
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
13 14 0.21
14 18 0.27
15 32 0.48
16 3 0.04
ACGTcount: A:0.42, C:0.37, G:0.03, T:0.18
Consensus pattern (15 bp):
AACCCATAAACCCTA
Found at i:116168509 original size:86 final size:86
Alignment explanation
Indices: 116168364--116168541 Score: 347
Period size: 86 Copynumber: 2.1 Consensus size: 86
116168354 ACGTAGTTCT
116168364 GCTTAATCTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCGCGCTTTCTTAAAAACGCCGCT
1 GCTTAATCTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCGCGCTTTCTTAAAAACGCCGCT
116168429 AATGCTCAGATCTTTAGCGGC
66 AATGCTCAGATCTTTAGCGGC
116168450 GCTTAATCTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCGCGCTTTCTTAAAAACGCCGCT
1 GCTTAATCTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCGCGCTTTCTTAAAAACGCCGCT
116168515 AATGCTCAGATCTTTAGCGGC
66 AATGCTCAGATCTTTAGCGGC
*
116168536 GTTTAA
1 GCTTAA
116168542 CAAAGCGCCG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 91 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (86 bp):
GCTTAATCTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCGCGCTTTCTTAAAAACGCCGCT
AATGCTCAGATCTTTAGCGGC
Found at i:116168605 original size:40 final size:39
Alignment explanation
Indices: 116168493--116168605 Score: 142
Period size: 38 Copynumber: 2.8 Consensus size: 39
116168483 CCGCTAATGC
116168493 GCGCTTTCTTAAAAACGCCGCTAATGCTCAGATCTTTAGCG
1 GCGCTTT-TTAAAAACGCCGCTAATGCT-AGATCTTTAGCG
*
116168534 GCG---TTTAACAAAGCGCCGCTAATGCTCGATCTTTAGCG
1 GCGCTTTTTAA-AAA-CGCCGCTAATGCTAGATCTTTAGCG
*
116168572 GCGCTTTGTTAAAAACCCCGCTAATGCTAGATCT
1 GCGCTTT-TTAAAAACGCCGCTAATGCTAGATCT
116168606 ATTCGATTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
37 4 0.06
38 18 0.29
39 13 0.21
40 17 0.27
41 7 0.11
42 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (39 bp):
GCGCTTTTTAAAAACGCCGCTAATGCTAGATCTTTAGCG
Found at i:116185036 original size:15 final size:15
Alignment explanation
Indices: 116185012--116185045 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
116185002 TTTAATGTTT
* *
116185012 CAAACGAAATAGAAG
1 CAAACCAAATACAAG
116185027 CAAACCAAATACAAG
1 CAAACCAAATACAAG
116185042 CAAA
1 CAAA
116185046 GTTCTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.06
Consensus pattern (15 bp):
CAAACCAAATACAAG
Found at i:116185365 original size:2 final size:2
Alignment explanation
Indices: 116185358--116185395 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
116185348 GATATTGGAA
116185358 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116185396 GCATTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116187967 original size:16 final size:16
Alignment explanation
Indices: 116187928--116187968 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
116187918 ACAATTAACT
116187928 TTTTTTATAACAATCA
1 TTTTTTATAACAATCA
*
116187944 CTTTTTATAACAA-CA
1 TTTTTTATAACAATCA
116187959 TTTTATTATA
1 TTTT-TTATA
116187969 TAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTTTATAACAATCA
Found at i:116198413 original size:25 final size:25
Alignment explanation
Indices: 116198365--116198438 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
116198355 ACTAATTTTC
* *
116198365 TCAAAATTTTATTGGGGGTAAAATCG
1 TCAAAATTTTACT-GGGGTAAAATCA
*
116198391 TCACAATTTTACTGGGGTAAAATCA
1 TCAAAATTTTACTGGGGTAAAATCA
* *
116198416 TCAAAATTATACTGGAGTAAAAT
1 TCAAAATTTTACTGGGGTAAAAT
116198439 TGGGATGAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 31 0.74
26 11 0.26
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACTGGGGTAAAATCA
Found at i:116199941 original size:27 final size:27
Alignment explanation
Indices: 116199911--116199964 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
116199901 TTATCGAACG
116199911 GAGTGAGTTGATGCTA-TAACTAAGGGA
1 GAGTGAGTTGATGCTATTAA-TAAGGGA
* * *
116199938 GAGTGTGTTTATGGTATTAATAAGGGA
1 GAGTGAGTTGATGCTATTAATAAGGGA
116199965 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.31
Consensus pattern (27 bp):
GAGTGAGTTGATGCTATTAATAAGGGA
Found at i:116211460 original size:2 final size:2
Alignment explanation
Indices: 116211455--116211485 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116211445 ACACACACAC
116211455 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116211486 AACAATAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116211990 original size:17 final size:17
Alignment explanation
Indices: 116211965--116212005 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
116211955 AACCATAGTA
116211965 ATAAAAATAA-AAATAAT
1 ATAAAAATAATAAA-AAT
*
116211982 ATAATAATAATAAAAAT
1 ATAAAAATAATAAAAAT
116211999 ATAAAAA
1 ATAAAAA
116212006 GTGGATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAATAATAAAAAT
Found at i:116212538 original size:18 final size:16
Alignment explanation
Indices: 116212517--116212555 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
116212507 AAGAAAGAAA
116212517 GAGAGAAAAAGAGGAGGG
1 GAGAG-AAAAGA-GAGGG
*
116212535 GAGAGAAGAGAGAGGG
1 GAGAGAAAAGAGAGGG
116212551 GAGAG
1 GAGAG
116212556 CACCGGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 5 0.25
18 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (16 bp):
GAGAGAAAAGAGAGGG
Found at i:116212549 original size:16 final size:15
Alignment explanation
Indices: 116212525--116212555 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
116212515 AAGAGAGAAA
116212525 AAGAGGAGGGGAGAG
1 AAGAGGAGGGGAGAG
116212540 AAGAGAGAGGGGAGAG
1 AAGAG-GAGGGGAGAG
116212556 CACCGGCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (15 bp):
AAGAGGAGGGGAGAG
Found at i:116213835 original size:30 final size:30
Alignment explanation
Indices: 116213799--116213860 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
116213789 TTTTTGAAAA
*
116213799 CAGAAATTAAAAGGCTCAACACACCTCTCG
1 CAGAAATTAAAAAGCTCAACACACCTCTCG
*
116213829 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACACACCTCTCG
116213859 CA
1 CA
116213861 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.18
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACACACCTCTCG
Found at i:116214026 original size:86 final size:85
Alignment explanation
Indices: 116213922--116214147 Score: 321
Period size: 89 Copynumber: 2.6 Consensus size: 85
116213912 ACGTGAGCCA
* * *
116213922 AGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAGCAGAAATCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAGCAGAAATCA
116213987 ACAATACCTCAGCGTACCCTG
66 ACAATACCTCAGCGTACCC-G
* *
116214008 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTGAAAAGCAGAAA
*
116214073 TCAACAATACCTCAGCGTGCCCG
63 TCAACAATACCTCAGCGTACCCG
* * *
116214096 AGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTG-GAACATAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAA
116214148 TTACCTCAAC
Statistics
Matches: 126, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
83 11 0.09
85 5 0.04
86 30 0.24
87 1 0.01
88 39 0.31
89 40 0.32
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAGCAGAAATCA
ACAATACCTCAGCGTACCCG
Found at i:116214119 original size:88 final size:88
Alignment explanation
Indices: 116213922--116214131 Score: 327
Period size: 88 Copynumber: 2.4 Consensus size: 88
116213912 ACGTGAGCCA
* *
116213922 AGGCTCAACTCACTTCTCGTAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAAAGCAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAGCAGAAAT
*
116213985 CGACAATACCTCAGCGTACCCTG
66 CAACAATACCTCAGCGTACCCTG
* *
116214008 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAAGCAGAAA
*
116214073 TCAACAATACCTCAGCGTGCCC-G
65 TCAACAATACCTCAGCGTACCCTG
*
116214096 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
116214132 GGAACATAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
86 30 0.26
88 44 0.39
89 40 0.35
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAGCAGAAAT
CAACAATACCTCAGCGTACCCTG
Found at i:116214338 original size:75 final size:73
Alignment explanation
Indices: 116214078--116214377 Score: 260
Period size: 74 Copynumber: 4.1 Consensus size: 73
116214068 AGAAATCAAC
* * *
116214078 AATACCTCAGC--GTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA--TTTTGGAACAT
1 AATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTGAAACAT
*
116214139 AAATTGAA
66 AAATTAAA
* * * * *
116214147 ATTACCTCAACGTGT-CTTGAGGCTTAACTCACCTCTCGCAATATGAG-CTGA-TTTTTGAAACA
1 AATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTC-AATTTTTTGAAAC-
*
116214209 ACAGGAATTAAA
64 ATA--AATTAAA
* **
116214221 AACACCTCA--GTGTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAC
1 AATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAA-TTTTTTGAAAC
*
116214284 ATAAACTAAA
64 ATAAATTAAA
** * * **
116214294 AATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCACAATATGAATTGA-TTTTTGAAAAC
1 AATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTG-AAAC
*
116214358 ATGAATTAAA
64 ATAAATTAAA
*
116214368 GATACCTCAG
1 AATACCTCAG
116214378 AGTACCTAAA
Statistics
Matches: 187, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
69 9 0.05
70 30 0.16
71 10 0.05
72 6 0.03
73 20 0.11
74 65 0.35
75 37 0.20
76 10 0.05
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (73 bp):
AATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTGAAACAT
AAATTAAA
Found at i:116214375 original size:147 final size:143
Alignment explanation
Indices: 116214078--116214377 Score: 352
Period size: 147 Copynumber: 2.1 Consensus size: 143
116214068 AGAAATCAAC
* * *
116214078 AATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTGGAACATAAAT
1 AATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAACATAAAC
* * * * * *
116214143 TGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAC
66 TAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAACTGATTTTTGAAAC
116214208 AACAGGAATTAAA
131 AACAGGAATTAAA
* * * **
116214221 AACACCTCAGTGTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAACAT
1 AATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTCAA---TTTTGAAACAT
* ** *
116214286 AAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCACAATATGAATTGATTTT
62 AAACTAAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCACAATATGAACTGATTTT
*
116214351 TG-AA-AACATGAATTAAA
125 TGAAACAACAGGAATTAAA
*
116214368 GATACCTCAG
1 AATACCTCAG
116214378 AGTACCTAAA
Statistics
Matches: 130, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
143 12 0.09
144 32 0.25
147 49 0.38
148 2 0.02
149 35 0.27
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (143 bp):
AATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAACATAAAC
TAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAACTGATTTTTGAAAC
AACAGGAATTAAA
Found at i:116227192 original size:43 final size:41
Alignment explanation
Indices: 116227092--116227240 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 41
116227082 TAAGATCTTA
* * *
116227092 AACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTT
1 AACCCCTAAGCAGTAGGGTAACAGACAAAAGTGCAGAGCTT
* * *
116227133 AATCCCCTAAGTAGTAGGGAAACAGATCAAAAGTG-ATGGGCTTT
1 AA-CCCCTAAGCAGTAGGGTAACAGA-CAAAAGTGCA-GAGC-TT
** *
116227177 AACCCCTAAGCAGTAGGGTAACA-AGCTAAATTTACA-AGCCTT
1 AACCCCTAAGCAGTAGGGTAACAGA-C-AAAAGTGCAGAG-CTT
116227219 AAACCCCTAAGCAGTAGGGTAA
1 -AACCCCTAAGCAGTAGGGTAA
116227241 TAGGTTGAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 27 0.31
43 53 0.61
44 5 0.06
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
AACCCCTAAGCAGTAGGGTAACAGACAAAAGTGCAGAGCTT
Found at i:116227260 original size:130 final size:131
Alignment explanation
Indices: 116227039--116227332 Score: 316
Period size: 130 Copynumber: 2.2 Consensus size: 131
116227029 TCAAACCACC
* * *
116227039 AAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGATGTTCATAAGATCTTAAACCCCTAAGCA
1 AAGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGCTAATGTTCACAAGACCTTAAACCCCTAAGCA
* *
116227104 GTAGGGTAACAGACCAAATTGCAGATCTTAATC-CCCTAAGTAGTAG-GGAAACAGATCAAA-AG
65 GTAGGGTAACAGACCAAAATGCAGATCTT-ATCTCCCTAAGCAGTAGTGG-AACAGATCAAAGA-
* *
116227166 TGATG
127 CGAAG
*
116227171 -GGCTTTAACCCCTAAGCAGTAGGGTAACAAGCTAAAT-TT-ACAAG-CCTTAAACCCCTAAGCA
1 AAGCTTTAACCCCTAAGCAGTAGGGTAACAAGCT-AATGTTCACAAGACCTTAAACCCCTAAGCA
* *** * *
116227232 GTAGGGTAATAGGTTGAAAAT-CATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
65 GTAGGGTAACA-GACCAAAATGC--AGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGA
116227296 CGAAG
127 CGAAG
* *
116227301 AACCTTAAACCCCTAAGCAGTAGGGTAACAAG
1 AAGCTTTAACCCCTAAGCAGTAGGGTAACAAG
116227333 TTGAATTCCA
Statistics
Matches: 137, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
128 27 0.20
129 12 0.09
130 58 0.42
131 40 0.29
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (131 bp):
AAGCTTTAACCCCTAAGCAGTAGGGTAACAAGCTAATGTTCACAAGACCTTAAACCCCTAAGCAG
TAGGGTAACAGACCAAAATGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGAA
G
Found at i:116227534 original size:87 final size:86
Alignment explanation
Indices: 116227215--116227595 Score: 647
Period size: 86 Copynumber: 4.4 Consensus size: 86
116227205 AATTTACAAG
* *
116227215 CCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAAAAT-CATAGATCTTATCTCCCTAAGCAGTA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTG-AATTGC--AGATCTTATCTCCCTAAGCAGTA
116227279 GTGGAGCAGATCGAAGACGAAGAA
63 GTGGAGCAGATCGAAGACGAAGAA
* *
116227303 CCTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAATTCCAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
116227368 GAGCAGATCGAAGACGAAGAA
66 GAGCAGATCGAAGACGAAGAA
116227389 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
116227454 GAGCAGATCGAAGACGAAGAA
66 GAGCAGATCGAAGACGAAGAA
116227475 CCTTAAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTT-AAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
116227540 GGAGCAGACCGAAGACGAGGAA
65 GGAGCAGATCGAAGACGAAGAA
* *
116227562 TCTTAAACCCCAAAGCAGTAGGGTAACAGGTTGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
116227596 GTTTACAGAT
Statistics
Matches: 282, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
86 164 0.58
87 86 0.30
88 32 0.11
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (86 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGAAGAA
Found at i:116227618 original size:173 final size:172
Alignment explanation
Indices: 116227215--116227624 Score: 651
Period size: 173 Copynumber: 2.4 Consensus size: 172
116227205 AATTTACAAG
* * *
116227215 CCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAAAATCATAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTG--AATTACAGATCTTATCTCCCTAAGCAGTAG
116227280 TGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAATTCCAGA
64 TGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAATTCCAGA
*
116227345 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAA
129 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACGAAGAA
*
116227389 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTG
* *
116227454 GAGCAGATCGAAGACGAAGAACCTTAAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGAT
66 GAGCAGATCGAAGACGAAGAACCTT-AAACCCCTAAGCAGTAGGGTAACAAGTTGAATTCCAGAT
*
116227519 CTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACGAGGAA
130 CTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACGAAGAA
* * * ***
116227562 TCTTAAACCCCAAAGCAGTAGGGTAACAGGTTGAGTTTACAGATC-TAAAACCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-ATTACAGATCTTATCTCCCTAAGCAGTAG
116227625 GGAAACAGAT
Statistics
Matches: 219, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
172 54 0.25
173 125 0.57
174 40 0.18
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (172 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAATTCCAGATC
TTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACGAAGAA
Found at i:116231250 original size:29 final size:29
Alignment explanation
Indices: 116231214--116231269 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
116231204 AGCTTTTAAT
116231214 ATCATCACAGTGTAAACAAGATGTAATAC
1 ATCATCACAGTGTAAACAAGATGTAATAC
*
116231243 ATCATCACTGTGTAAACAAGATGTAAT
1 ATCATCACAGTGTAAACAAGATGTAAT
116231270 CTCCATCACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (29 bp):
ATCATCACAGTGTAAACAAGATGTAATAC
Found at i:116233246 original size:45 final size:45
Alignment explanation
Indices: 116233196--116233433 Score: 237
Period size: 45 Copynumber: 5.3 Consensus size: 45
116233186 GTATCATACT
*
116233196 GAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTAT-GACGTC
1 GAAGAGAAATGGAATAAGCCATCTAGCCCCGTTCAGTATCG-CGTC
* * * * * * *
116233241 AAAGAGAAATGGAATAAGCCATCGAGTCCTGTTCGGTATCGTGTT
1 GAAGAGAAATGGAATAAGCCATCTAGCCCCGTTCAGTATCGCGTC
*
116233286 GAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTAT-GACGTC
1 GAAGAGAAATGGAATAAGCCATCTAGCCCCGTTCAGTATCG-CGTC
* * * * *
116233331 GAAGAGAAATGGAATAAGCCATCGAGTCCTGTTCGGTATCGTGTC
1 GAAGAGAAATGGAATAAGCCATCTAGCCCCGTTCAGTATCGCGTC
* * * * * * ** *
116233376 GAAGAGAAATGGAATAGGCCCTCTAGTCCTGTTCGGTACCATGCC
1 GAAGAGAAATGGAATAAGCCATCTAGCCCCGTTCAGTATCGCGTC
116233421 GAAGAGAAATGGA
1 GAAGAGAAATGGA
116233434 CGAACCGGCC
Statistics
Matches: 162, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.01
45 159 0.98
46 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (45 bp):
GAAGAGAAATGGAATAAGCCATCTAGCCCCGTTCAGTATCGCGTC
Found at i:116233309 original size:90 final size:90
Alignment explanation
Indices: 116233175--116233401 Score: 391
Period size: 90 Copynumber: 2.5 Consensus size: 90
116233165 GGAGAGTTCA
* **
116233175 AGTCCTGTTCGGTATCATACTGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
1 AGTCCTGTTCGGTATCGTGTTGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
116233240 CAAAGAGAAATGGAATAAGCCATCG
66 CAAAGAGAAATGGAATAAGCCATCG
116233265 AGTCCTGTTCGGTATCGTGTTGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
1 AGTCCTGTTCGGTATCGTGTTGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
*
116233330 CGAAGAGAAATGGAATAAGCCATCG
66 CAAAGAGAAATGGAATAAGCCATCG
* * *
116233355 AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAGGCCCTCTAG
1 AGTCCTGTTCGGTATCGTGTTGAAGAGAAATGGAATAAGCCTTCTAG
116233402 TCCTGTTCGG
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 130 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (90 bp):
AGTCCTGTTCGGTATCGTGTTGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
CAAAGAGAAATGGAATAAGCCATCG
Found at i:116233424 original size:90 final size:90
Alignment explanation
Indices: 116233175--116233433 Score: 385
Period size: 90 Copynumber: 2.9 Consensus size: 90
116233165 GGAGAGTTCA
* *
116233175 AGTCCTGTTCGGTATCAT-ACTGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACG
1 AGTCCTGTTCGGTATCGTGTC-GAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACG
*
116233239 TCAAAGAGAAATGGAATAAGCCATCG
65 TCGAAGAGAAATGGAATAAGCCATCG
*
116233265 AGTCCTGTTCGGTATCGTGTTGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
1 AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
116233330 CGAAGAGAAATGGAATAAGCCATCG
66 CGAAGAGAAATGGAATAAGCCATCG
* * * * * ** * *
116233355 AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAGGCCCTCTAGTCCTGTTCGGTACCATGC
1 AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
116233420 CGAAGAGAAATGGA
66 CGAAGAGAAATGGA
116233434 CGAACCGGCC
Statistics
Matches: 154, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 154 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (90 bp):
AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGCCTTCTAGCCCCGTTCAGTATGACGT
CGAAGAGAAATGGAATAAGCCATCG
Found at i:116236804 original size:15 final size:15
Alignment explanation
Indices: 116236780--116236809 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116236770 TGCAAATTCT
116236780 CGTCAACTTGTGTAA
1 CGTCAACTTGTGTAA
*
116236795 CGTCAGCTTGTGTAA
1 CGTCAACTTGTGTAA
116236810 GCAGCACCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
CGTCAACTTGTGTAA
Found at i:116238427 original size:40 final size:41
Alignment explanation
Indices: 116238354--116238449 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
116238344 GACTATGTTC
* *
116238354 GGCACTAAGTGTGCG-GTTCGAAATAGCTCTGGCTACAA-A
1 GGCACTAAGTGTACGAGTTCGAAATAACTCTGGCTACAAGA
* * *
116238393 TGGCACTAAGTGTACGAGTT-GGAATAACTTTGGCTATAAGA
1 -GGCACTAAGTGTACGAGTTCGAAATAACTCTGGCTACAAGA
116238434 GGCACTAAGTGTACGA
1 GGCACTAAGTGTACGA
116238450 TACTGAGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 45 0.92
41 4 0.08
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (41 bp):
GGCACTAAGTGTACGAGTTCGAAATAACTCTGGCTACAAGA
Found at i:116240279 original size:3 final size:3
Alignment explanation
Indices: 116240271--116240309 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
116240261 CTATTTTACC
116240271 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
116240310 TCATGTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:116240328 original size:20 final size:20
Alignment explanation
Indices: 116240305--116240350 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
116240295 ATTATTATTA
116240305 TTATTTCATGTTTATCATTT
1 TTATTTCATGTTTATCATTT
116240325 TTATTTCATGTTTATCATTT
1 TTATTTCATGTTTATCATTT
116240345 TTATTT
1 TTATTT
116240351 AAATTTCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.67
Consensus pattern (20 bp):
TTATTTCATGTTTATCATTT
Found at i:116240487 original size:17 final size:17
Alignment explanation
Indices: 116240448--116240489 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
116240438 ACTTACTACC
*
116240448 ATTTTTTTAAATTTATT
1 ATTTATTTAAATTTATT
116240465 -TTTATTTAAA-TTATTT
1 ATTTATTTAAATTTA-TT
116240481 ATTTATTTA
1 ATTTATTTA
116240490 TTTGCTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 11 0.50
17 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTATTTAAATTTATT
Found at i:116245563 original size:46 final size:46
Alignment explanation
Indices: 116245510--116245646 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
116245500 TATATATACA
* * *
116245510 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
** *
116245556 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
116245602 CATCTCATACATATTTCGCATTAGCCATTCGACTTTACCACATAT
1 CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATAT
116245647 ATACACTTCC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:116245691 original size:47 final size:47
Alignment explanation
Indices: 116245620--116246084 Score: 678
Period size: 47 Copynumber: 10.1 Consensus size: 47
116245610 ACATATTTCG
* * * * * * *
116245620 CATTAGCCATTCGACTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
116245667 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
116245714 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
116245761 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
116245808 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
116245855 CATTGGCCATTCAGCCTTAT--C-----T-CATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
116245894 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
116245941 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
116245988 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
116246035 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
116246082 CAT
1 CAT
116246085 AAAATCCTAA
Statistics
Matches: 387, Mismatches: 22, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
39 36 0.09
40 1 0.00
41 1 0.00
45 1 0.00
46 2 0.01
47 346 0.89
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:116245738 original size:22 final size:22
Alignment explanation
Indices: 116245710--116245831 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
116245700 GTTCACATTC
116245710 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
116245732 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
116245756 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
116245779 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
116245803 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
116245826 ATCACA
1 ATCACA
116245832 CATATGCATG
Statistics
Matches: 74, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 23 0.31
23 17 0.23
24 17 0.23
25 17 0.23
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:116245857 original size:23 final size:23
Alignment explanation
Indices: 116245783--116245857 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
116245773 GGCCTTATCA
116245783 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
116245806 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
116245828 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
116245853 CACAT
1 CACAT
116245858 TGGCCATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:116245935 original size:180 final size:180
Alignment explanation
Indices: 116245697--116246059 Score: 654
Period size: 180 Copynumber: 2.0 Consensus size: 180
116245687 CACATATATG
*
116245697 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCAC
116245762 ATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
66 ATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
116245827 TCACACATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCT
131 TCACACATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCT
* *
116245877 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCGTCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCAC
*
116245942 ATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
66 ATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * * *
116246007 TCTCATATATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTATCT
131 TCACACATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCT
116246057 CAT
1 CAT
116246060 ATATACACAT
Statistics
Matches: 175, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
180 175 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (180 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCAC
ATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
TCACACATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCT
Found at i:116245936 original size:86 final size:86
Alignment explanation
Indices: 116245791--116246059 Score: 421
Period size: 86 Copynumber: 3.0 Consensus size: 86
116245781 CACACATATG
116245791 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCAC
*
116245856 ATTGGCCATTCAGCCTTATCT
66 ATTGGCCATTCGGCCTTATCT
*
116245877 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCGTCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCAC
116245942 ATTGGCCATTCGGCCTTATCACATATAT
66 ATTGGCCATTCGGCCTTAT--C-----T
* *
116245970 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 -CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
116246035 CATTTGCCATTCGGCCTTATCT
65 CATTGGCCATTCGGCCTTATCT
116246057 CAT
1 CAT
116246060 ATATACACAT
Statistics
Matches: 169, Mismatches: 6, Indels: 16
0.88 0.03 0.08
Matches are distributed among these distances:
86 85 0.50
87 1 0.01
88 1 0.01
92 1 0.01
93 1 0.01
94 80 0.47
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (86 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCAC
ATTGGCCATTCGGCCTTATCT
Found at i:116245964 original size:22 final size:22
Alignment explanation
Indices: 116245938--116246008 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
116245928 TTCACATTCG
116245938 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
* * *
116245960 TCACATATATG-CATGTTC-ACATTCA
1 TCACAT-T-GGCCA--TTCGGCCTT-A
116245985 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
116246007 TC
1 TC
116246009 TCATATATGC
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
22 12 0.33
23 7 0.19
24 7 0.19
25 10 0.28
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.34
Consensus pattern (22 bp):
TCACATTGGCCATTCGGCCTTA
Found at i:116246050 original size:227 final size:227
Alignment explanation
Indices: 116245660--116246084 Score: 742
Period size: 227 Copynumber: 1.9 Consensus size: 227
116245650 CACTTCCACG
* *
116245660 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
116245725 CGGCCTTATCACATATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
66 CGGCCTTATCACATATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
* **
116245790 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
131 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCA
116245855 CATTGGCCATTCAGCCTTATCTCATGTTCACA
196 CATTGGCCATTCAGCCTTATCTCATGTTCACA
*
116245887 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCGTCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
* * *
116245952 CGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT
66 CGGCCTTATCACATATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
* * *
116246017 GCATGTTCACATTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
131 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCA
116246082 CAT
196 CAT
116246085 AAAATCCTAA
Statistics
Matches: 186, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
227 186 1.00
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (227 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACATATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCA
CATTGGCCATTCAGCCTTATCTCATGTTCACA
Found at i:116250102 original size:54 final size:54
Alignment explanation
Indices: 116250044--116250146 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
116250034 TACTTCACCT
* *
116250044 AAAAAAAGGAGAGG-CGAATGCGAAAACCCGCAAAGGGCACTTTGAGACCTTTAA
1 AAAAAAAGGAGAGGCCG-AGGCAAAAACCCGCAAAGGGCACTTTGAGACCTTTAA
* *
116250098 AAAAAAAGGAGAGGCCGGGGCAAAAACCCGTAAAGGGCACTTTGAGACC
1 AAAAAAAGGAGAGGCCGAGGCAAAAACCCGCAAAGGGCACTTTGAGACC
116250147 AAAGGGGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (54 bp):
AAAAAAAGGAGAGGCCGAGGCAAAAACCCGCAAAGGGCACTTTGAGACCTTTAA
Found at i:116251402 original size:44 final size:44
Alignment explanation
Indices: 116251298--116251943 Score: 388
Period size: 44 Copynumber: 14.4 Consensus size: 44
116251288 GCGAATCTAT
** **
116251298 TCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCCACTAAACCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTAC-AAGTCTTA
*
116251343 TCTCCCTAAAGTTGCAGTGGAGCA-AGTTGAAATTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAATTACAAGTCTTA
* * *
116251387 TCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTA-CAAGTCTTA
* * * * *
116251432 TTTCCCTGAAATTACAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAA---AT---TACA-AG-TCTTA
* * * * **
116251484 TCTCTCTGAAGTTGCAGTAGAGCAGA-T--CATAACAAACCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTA
* * * * *
116251525 TCTCCTTGAAGTTGCAGTAGAGCAGGTTGAAGTTA-AAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTA
* *
116251568 TCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGATAGCGAA-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTA-C-AAGTCTTA
* * *
116251613 TTTCCATGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTA
* * * *
116251657 TCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGA-TAGAAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTA-CAAGTCTTA
* **
116251702 TTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTATAAGTTAC-AGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AA-TTACAAG-TCTTA
* * * ** *
116251753 TCTCTCTGAAATAGCAGTACAGCAGATTG-AA--ACAAGCCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTA
** * * * *
116251794 AGTCTCTGAAGTTGCAATGGAGTAGGTTGAAATTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTA
* * * * * *
116251838 TCTTCCTGAAGTTGCAGCGGAGCATATTGAAACTATTAA-TCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTA-CAAGTCTTA
* ** *
116251882 TCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGCGACAAGTCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTACAAGTCTTA
* *
116251926 TATCTCTGAAGTTGCAGT
1 TCTCCCTGAAGTTGCAGT
116251944 AGGTCAGATT
Statistics
Matches: 460, Mismatches: 101, Indels: 81
0.72 0.16 0.13
Matches are distributed among these distances:
41 53 0.12
42 8 0.02
43 42 0.09
44 157 0.34
45 126 0.27
46 10 0.02
47 1 0.00
48 2 0.00
50 4 0.01
51 30 0.07
52 27 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTA
Found at i:116251408 original size:89 final size:88
Alignment explanation
Indices: 116251298--116251943 Score: 424
Period size: 89 Copynumber: 7.2 Consensus size: 88
116251288 GCGAATCTAT
* ** *
116251298 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAAACCTTATCTCCCTAAAGTTGCAGTGG
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC-AAACCTTATCTCCCTGAAGTTGCAGTGG
116251363 AGCAAGTTGAAATTACAAGTCTTA
65 AGCAAGTTGAAATTACAAGTCTTA
* * * * * *
116251387 TCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAATTACAGTGG
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAACCTTATCTCCCTGAAGTTGCAGTGG
* *
116251452 AAC-AGATTGAAGCTATAAATAAACAGATCTTA
65 AGCAAG-TTGAA---AT---TACA-AG-TCTTA
* * * * *
116251484 TCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATA-ACAAACCTTATCTCCTTGAAGTTGCAGTAGA
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGA
* * *
116251546 GCAGGTTGAAGTTA-AAATCTTA
66 GCAAGTTGAAATTACAAGTCTTA
* * * * * *
116251568 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCATGAAGTTGCAGTGG
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAACCTTATCTCCCTGAAGTTGCAGTGG
*
116251633 AGCAGGTTGAAATTACAAGTCTTA
65 AGCAAGTTGAAATTACAAGTCTTA
* * * * * * *
116251657 TCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGAAAATCTTATTTCCCTGAAGTTGCAGTGG
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAACCTTATCTCCCTGAAGTTGCAGTGG
116251722 A--ATAGATTAAAGCTATAAGTTAC-AGATCTTA
65 AGCA-AG-TT---G--A-AA-TTACAAG-TCTTA
* * ** * * ** * *
116251753 TCTCTCTGAAATAGCAGTACAGCAGATT---GAAACAAGCCTTAAGTCTCTGAAGTTGCAATGGA
1 TCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGA
* *
116251815 GTAGGTTGAAATTACAAGTCTTA
66 GCAAGTTGAAATTACAAGTCTTA
* * * * * *
116251838 TCT-TCCTGAAGTTGCAGCGGAGCATATTGAAA-CTATTAATCC-TATCTCCCTGAAGTTACAGT
1 TCTCT-CTGAAGTTGCAGTGGAGCAGATT-AAAGATA-CAAACCTTATCTCCCTGAAGTTGCAGT
** *
116251900 GGAGC-AGATT-AAAGCGACAAGTCCTA
63 GGAGCAAG-TTGAAA-TTACAAGTCTTA
*
116251926 TATCTCTGAAGTTGCAGT
1 TCTCTCTGAAGTTGCAGT
116251944 AGGTCAGATT
Statistics
Matches: 439, Mismatches: 80, Indels: 77
0.74 0.13 0.13
Matches are distributed among these distances:
84 30 0.07
85 31 0.07
86 7 0.02
87 9 0.02
88 86 0.20
89 136 0.31
90 2 0.00
92 28 0.06
93 34 0.08
94 4 0.01
95 9 0.02
96 33 0.08
97 30 0.07
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
TCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGA
GCAAGTTGAAATTACAAGTCTTA
Found at i:116251537 original size:41 final size:42
Alignment explanation
Indices: 116251480--116251719 Score: 144
Period size: 45 Copynumber: 5.5 Consensus size: 42
116251470 ATAAACAGAT
*
116251480 CTTATCT-CTCTGAAGTTGCAGTAGAGCAGAT-CA-TAACAAAC
1 CTTATCTCCT-TGAAGTTGCAGTAGAGCAGATGAAGTAA-AAAC
* * *
116251521 CTTATCTCCTTGAAGTTGCAGTAGAGCAGGTTGAAGTTAAAAT
1 CTTATCTCCTTGAAGTTGCAGTAGAGCA-GATGAAGTAAAAAC
* * * ** *
116251564 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAAT
1 CTTATCTCCTTGAAGTTGCAGTAGAGCAGA-TGAAG-TA-AAAAC
* * * * * * **
116251609 CTTATTTCCATGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCTTGAAGTTGCAGTAGAGCA-GATG-AAGTAAAAAC
* * * *
116251653 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGAAAAT
1 CTTATCTCCTTGAAGTTGCAGTAGAGCAGA-TGAAG-TA-AAAAC
* *
116251698 CTTATTTCCCTGAAGTTGCAGT
1 CTTATCTCCTTGAAGTTGCAGT
116251720 GGAATAGATT
Statistics
Matches: 160, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
41 25 0.16
42 5 0.03
43 37 0.23
44 35 0.22
45 55 0.34
46 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
CTTATCTCCTTGAAGTTGCAGTAGAGCAGATGAAGTAAAAAC
Found at i:116251586 original size:181 final size:184
Alignment explanation
Indices: 116251298--116251643 Score: 491
Period size: 181 Copynumber: 1.9 Consensus size: 184
116251288 GCGAATCTAT
* * *
116251298 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAAACCTTATCTCCCTAAAGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATCAAA--CACTAAACCTTATCTCCCTAAAGTTGCAGTAG
* * *
116251363 AGCAAGTTGAAATTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
64 AGCAAGTTGAAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAAT
*
116251428 CTTATTTCCCTGAAATTACAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTA
129 CTTATTTCCATGAAATTACAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTA
* * * *
116251484 TCTCTCTGAAGTTGCAGTAGAGCAGATCATA-AC-AAACCTTATCTCCTTGAAGTTGCAGTAGAG
1 TCTCCCTGAAGTTGCAGTAGAGCAGATCAAACACTAAACCTTATCTCCCTAAAGTTGCAGTAGAG
* * *
116251547 CAGGTTGAAGTTA-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCT
66 CAAGTTGAAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCT
* * * *
116251611 TATTTCCATGAAGTTGCAGTGGAGCAGGTTGAA
131 TATTTCCATGAAATTACAGTGGAACAGATTGAA
116251644 ATTACAAGTC
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
181 75 0.53
182 38 0.27
183 2 0.01
186 27 0.19
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (184 bp):
TCTCCCTGAAGTTGCAGTAGAGCAGATCAAACACTAAACCTTATCTCCCTAAAGTTGCAGTAGAG
CAAGTTGAAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCT
TATTTCCATGAAATTACAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTA
Found at i:116251839 original size:270 final size:270
Alignment explanation
Indices: 116251298--116251861 Score: 778
Period size: 270 Copynumber: 2.1 Consensus size: 270
116251288 GCGAATCTAT
* * *
116251298 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAAACCTTATCTCCCTAAAGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACACTAAACCTTATCTCCATAAAGTTGCAGTGG
* *
116251363 AGCAAGTTGAAATTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
66 AGCAAGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAAT
*
116251428 CTTATTTCCCTGAAATTACAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGA
131 CTTATTTCCCTGAAATTACAGTGGAACAGATTAAAGCTATAAATAAACAGATCTTATCTCTCTGA
* * * * *
116251493 AGTTGCAGTAGAGCAGATCATAACAAACCTTATCTCCTTGAAGTTGCAGTAGAGCAGGTTGAAGT
196 AATAGCAGTACAGCAGATCATAACAAACCTTATCTCCTTGAAGTTGCAATAGAGCAGGTTGAAAT
116251558 TAAAATCTTA
261 TAAAATCTTA
* * * * *
116251568 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC-GAATCTTATTTCCATGAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACA-CTAAACCTTATCTCCATAAAGTTGCAGTG
* *
116251632 GAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGAAAA
65 GAGCAAGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAA
* * * * *
116251697 TCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTATAAGT-TACAGATCTTATCTCTCTG
130 TCTTATTTCCCTGAAATTACAGTGGAACAGATTAAAGCTATAAATAAACAGATCTTATCTCTCTG
* * * *
116251761 AAATAGCAGTACAGCAGATTGA-AACAAGCCTTAAGTCT-C-TGAAGTTGCAATGGAGTAGGTTG
195 AAATAGCAGTACAGCAGA-TCATAACAAACCTT-A-TCTCCTTGAAGTTGCAATAGAGCAGGTTG
*
116251823 AAATTACAAGTCTTA
257 AAATTA-AAATCTTA
* *
116251838 TCTTCCTGAAGTTGCAGCGGAGCA
1 TCTCCCTGAAGTTGCAGTGGAGCA
116251862 TATTGAAACT
Statistics
Matches: 259, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
269 67 0.26
270 188 0.73
271 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (270 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACACTAAACCTTATCTCCATAAAGTTGCAGTGG
AGCAAGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAAT
CTTATTTCCCTGAAATTACAGTGGAACAGATTAAAGCTATAAATAAACAGATCTTATCTCTCTGA
AATAGCAGTACAGCAGATCATAACAAACCTTATCTCCTTGAAGTTGCAATAGAGCAGGTTGAAAT
TAAAATCTTA
Found at i:116253381 original size:3 final size:3
Alignment explanation
Indices: 116253368--116253413 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
116253358 CTATTTTACC
*
116253368 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
116253414 CTACTTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:116253460 original size:28 final size:28
Alignment explanation
Indices: 116253428--116253515 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
116253418 TTAAATTTCA
116253428 TATTTGTTTATACATTTTACATAATACT
1 TATTTGTTTATACATTTTACATAATACT
* * * * *
116253456 TATTTGCATTTAT-TATACTTA-A-ATTTCA
1 TATTTG--TTTATACAT-TTTACATAATACT
*
116253484 TATTTGTTTATACGTTTTACATAATACT
1 TATTTGTTTATACATTTTACATAATACT
116253512 TATT
1 TATT
116253516 ATTATTATTA
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
26 8 0.19
27 2 0.05
28 22 0.51
29 3 0.07
30 8 0.19
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (28 bp):
TATTTGTTTATACATTTTACATAATACT
Found at i:116253485 original size:56 final size:57
Alignment explanation
Indices: 116253408--116253515 Score: 200
Period size: 56 Copynumber: 1.9 Consensus size: 57
116253398 ATTATTATTA
116253408 TTATTACTACTTAAATTTCATATTTGTTTATACATTTTACATAATACTTATTTGCAT
1 TTATTACTACTTAAATTTCATATTTGTTTATACATTTTACATAATACTTATTTGCAT
*
116253465 TTATTA-TACTTAAATTTCATATTTGTTTATACGTTTTACATAATACTTATT
1 TTATTACTACTTAAATTTCATATTTGTTTATACATTTTACATAATACTTATT
116253516 ATTATTATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 44 0.88
57 6 0.12
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.54
Consensus pattern (57 bp):
TTATTACTACTTAAATTTCATATTTGTTTATACATTTTACATAATACTTATTTGCAT
Found at i:116253519 original size:3 final size:3
Alignment explanation
Indices: 116253511--116253560 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
116253501 TACATAATAC
116253511 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
116253559 TT
1 TT
116253561 TCATGTTTAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:116253724 original size:16 final size:18
Alignment explanation
Indices: 116253703--116253743 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
116253693 TTTATTTAAA
116253703 TTATTTACTTA-TTT-AT
1 TTATTTACTTACTTTCAT
*
116253719 TTATTTGCTTACTTTCAT
1 TTATTTACTTACTTTCAT
*
116253737 TTTTTTA
1 TTATTTA
116253744 TTTAAACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATTTACTTACTTTCAT
Found at i:116254085 original size:19 final size:20
Alignment explanation
Indices: 116254045--116254083 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
116254035 TGAATCTACG
116254045 AATGTTCTAAAATTTTTTTT
1 AATGTTCTAAAATTTTTTTT
116254065 AATGTTCTAAAATTTTTTT
1 AATGTTCTAAAATTTTTTT
116254084 AAATTATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (20 bp):
AATGTTCTAAAATTTTTTTT
Found at i:116257189 original size:23 final size:23
Alignment explanation
Indices: 116257163--116257207 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
116257153 TAGGTATGTG
*
116257163 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
116257186 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
116257208 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:116272882 original size:16 final size:16
Alignment explanation
Indices: 116272861--116272910 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
116272851 AATGTGTAAG
116272861 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
*
116272877 ACCAT-G--GCAAG--
1 ACCATGGTTGAAAGAT
116272888 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
116272904 ACCATGG
1 ACCATGG
116272911 CAACAGGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 5 0.19
12 1 0.04
13 4 0.15
14 4 0.15
15 1 0.04
16 12 0.44
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:116272891 original size:27 final size:27
Alignment explanation
Indices: 116272858--116272913 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
116272848 TGAAATGTGT
116272858 AAGACCATGGTTGAAAGATACCATGGC
1 AAGACCATGGTTGAAAGATACCATGGC
116272885 AAGACCATGGTTGAAAGATACCATGGC
1 AAGACCATGGTTGAAAGATACCATGGC
116272912 AA
1 AA
116272914 CAGGATATAA
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:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (27 bp):
AAGACCATGGTTGAAAGATACCATGGC
Found at i:116272931 original size:73 final size:73
Alignment explanation
Indices: 116272812--116272959 Score: 269
Period size: 73 Copynumber: 2.0 Consensus size: 73
116272802 TGAAATGTGT
* *
116272812 AAGACCATGGGTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGGTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT
116272877 ACCATGGC
66 ACCATGGC
*
116272885 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGGTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT
116272950 ACCATGGC
66 ACCATGGC
116272958 AA
1 AA
116272960 CATGACGGGA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (73 bp):
AAGACCATGGGTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT
ACCATGGC
Found at i:116272937 original size:46 final size:46
Alignment explanation
Indices: 116272885--116273084 Score: 217
Period size: 46 Copynumber: 4.4 Consensus size: 46
116272875 ATACCATGGC
* * **
116272885 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGT
1 AAGACCATGGTTGAAAGATACCATGGCAACAGGACAGAAAATGAAT
* **
116272931 AAGACCATGGTTGAAAGATACCATGGCAACATGAC-GGGAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACAGGACAGAAAATGAAT
* * * * *
116272976 ATGACCATGGTTGAAAGATACCATTGCAA-TGTAACATG-AAATGAAC
1 AAGACCATGGTTGAAAGATACCATGGCAACAG-GACA-GAAAATGAAT
** *
116273022 AAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACAGGACAGAAAATGAAT
*
116273068 AAGACCATAGTTGAAAG
1 AAGACCATGGTTGAAAG
116273085 TGTAACAACC
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
45 35 0.28
46 91 0.72
47 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACAGGACAGAAAATGAAT
Found at i:116272991 original size:91 final size:92
Alignment explanation
Indices: 116272885--116273084 Score: 251
Period size: 91 Copynumber: 2.2 Consensus size: 92
116272875 ATACCATGGC
* * ***
116272885 AAGACCATGGTTGAAAGATACCATGGCAACAG-GATATAAAATGTGTAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGCAA-AGTAACATAAAATGAACAAGACCATGGTTGAAAGA
**
116272949 TACCATGGCAACATGAC-GGGAATGAAT
65 TACCATGGCAACATGACAGAAAATGAAT
* * * *
116272976 ATGACCATGGTTGAAAGATACCATTGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAAAGTAACATAAAATGAACAAGACCATGGTTGAAAGAT
* *
116273041 ACCATGGCAACCTGACAGAAAATGAGT
66 ACCATGGCAACATGACAGAAAATGAAT
*
116273068 AAGACCATAGTTGAAAG
1 AAGACCATGGTTGAAAG
116273085 TGTAACAACC
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
90 1 0.01
91 69 0.75
92 22 0.24
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
AAGACCATGGTTGAAAGATACCATGGCAAAGTAACATAAAATGAACAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACAGAAAATGAAT
Found at i:116274833 original size:47 final size:47
Alignment explanation
Indices: 116274761--116275105 Score: 521
Period size: 47 Copynumber: 7.3 Consensus size: 47
116274751 CCCTTCGGGA
* * * * * * *
116274761 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
116274808 CCTATCACATATATACATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
116274855 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
116274902 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
116274951 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
116274998 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
116275047 CTTATCACATATATACA-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
116275093 CTTATCACATATA
1 CTTATCACATATA
116275106 CATATCTCAT
Statistics
Matches: 277, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
46 41 0.15
47 145 0.52
49 91 0.33
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:116274958 original size:96 final size:95
Alignment explanation
Indices: 116274761--116275105 Score: 541
Period size: 96 Copynumber: 3.6 Consensus size: 95
116274751 CCCTTCGGGA
* * * * * * *
116274761 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATAT--AC
1 CTTATCACATATATACACTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
116274824 ATTTTCACATTCATCACATTGGCCATTCGGC
65 ACTTTCACATTCATCACATTGGCCATTAGGC
116274855 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACA-CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
116274920 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTAGGC
*
116274951 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
116275016 ACTTTCACATTCATCACATTGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTAGGC
*
116275047 CTTATCACATATATACATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
116275106 CATATCTCAT
Statistics
Matches: 233, Mismatches: 14, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
94 50 0.21
95 45 0.19
96 138 0.59
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACA
CTTTCACATTCATCACATTGGCCATTAGGC
Found at i:116274960 original size:22 final size:22
Alignment explanation
Indices: 116274932--116275007 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
116274922 TTTCACATTC
116274932 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
116274954 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
116274978 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
116275001 ATCACAT
1 ATCACAT
116275008 ATATACACAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:116275056 original size:22 final size:22
Alignment explanation
Indices: 116275028--116275102 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 22
116275018 TTTCACATTC
116275028 ATCACATTGGCCATTAGGCCTT
1 ATCACATTGGCCATTAGGCCTT
*** *** *
116275050 ATCACATATATACATTTCACATT
1 ATCACAT-TGGCCATTAGGCCTT
*
116275073 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
116275096 ATCACAT
1 ATCACAT
116275103 ATACATATCT
Statistics
Matches: 36, Mismatches: 15, Indels: 4
0.65 0.27 0.07
Matches are distributed among these distances:
22 14 0.39
23 15 0.42
24 7 0.19
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCCTT
Found at i:116278889 original size:40 final size:40
Alignment explanation
Indices: 116278845--116279196 Score: 562
Period size: 40 Copynumber: 8.8 Consensus size: 40
116278835 CCAGTATGAT
* *
116278845 TGCTCTTC-GAGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
* * * *
116278885 TGCTCTTCGGGACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
116278925 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
116278965 TGCTCTTCGGAACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
116279005 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
116279045 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
116279085 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
116279125 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
116279165 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
116279197 CTCAATTCTC
Statistics
Matches: 289, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 288 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:116281168 original size:25 final size:25
Alignment explanation
Indices: 116281140--116281218 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
116281130 ACTCGGCCCT
*
116281140 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
116281165 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
116281187 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
116281212 ATCACAT
1 ATCACAT
116281219 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:116281225 original size:47 final size:47
Alignment explanation
Indices: 116281090--116281226 Score: 195
Period size: 47 Copynumber: 2.9 Consensus size: 47
116281080 CCCTTCGGGA
* * * *
116281090 CTTATCACATTTATACA-CTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTT-CACATTCATCACATTGGCCATTCGGC
* *
116281137 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
*
116281184 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATT
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT
116281227 AGCACACTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 78 0.98
48 2 0.03
ACGTcount: A:0.27, C:0.34, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
Found at i:116281239 original size:32 final size:32
Alignment explanation
Indices: 116281198--116281260 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
116281188 TCACATATAT
116281198 ACACCTTCACATTCATCACATCGGCCATTAGC
1 ACACCTTCACATTCATCACATCGGCCATTAGC
*
116281230 ACACTTTCACATTCATCACATCGGCCATTAG
1 ACACCTTCACATTCATCACATCGGCCATTAG
116281261 GCCTTATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.27
Consensus pattern (32 bp):
ACACCTTCACATTCATCACATCGGCCATTAGC
Found at i:116281272 original size:22 final size:22
Alignment explanation
Indices: 116281244--116281319 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
116281234 TTTCACATTC
116281244 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
116281266 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
116281290 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
116281313 ATCACAT
1 ATCACAT
116281320 ATATACACAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:116281282 original size:47 final size:47
Alignment explanation
Indices: 116281229--116281419 Score: 330
Period size: 47 Copynumber: 4.0 Consensus size: 47
116281219 CGGCCATTAG
116281229 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
116281276 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
* *
116281325 CACACTTTCACATTCATCACATTGGTCATTAGGCCTTATCACATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
116281372 TACACTTTCACATTCATCACATCGGCCA-TAGGCCTTATCACATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
116281418 CA
1 CA
116281420 TATCTCATAC
Statistics
Matches: 136, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
46 19 0.14
47 72 0.53
49 45 0.33
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:116281286 original size:79 final size:79
Alignment explanation
Indices: 116281151--116281307 Score: 278
Period size: 79 Copynumber: 2.0 Consensus size: 79
116281141 TCACATATAT
* * *
116281151 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCACATTCATCA
116281216 CATCGGCCATTAGC
66 CATCGGCCATTAGC
*
116281230 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCACATTCATCA
116281295 CATCGGCCATTAG
66 CATCGGCCATTAG
116281308 GCCTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (79 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCACATTCATCA
CATCGGCCATTAGC
Found at i:116281341 original size:96 final size:95
Alignment explanation
Indices: 116281229--116281417 Score: 342
Period size: 96 Copynumber: 2.0 Consensus size: 95
116281219 CGGCCATTAG
116281229 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATC
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATC
116281294 ACATCGGCCATTAGGCCTTATCACATATATA
66 ACATCGGCCA-TAGGCCTTATCACATATATA
* * *
116281325 CACACTTTCACATTCATCACATTGGTCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATC
116281390 ACATCGGCCATAGGCCTTATCACATATA
66 ACATCGGCCATAGGCCTTATCACATATA
116281418 CATATCTCAT
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 18 0.20
96 72 0.80
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (95 bp):
CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATC
ACATCGGCCATAGGCCTTATCACATATATA
Found at i:116284727 original size:43 final size:43
Alignment explanation
Indices: 116284680--116284775 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
116284670 TAACCCAACT
*
116284680 ATGGTCTTACACGAAATCAAATAACGATACTAATGTCTCAAAC
1 ATGGTCTTACACGAAATCAAATAACGATACTAATGTCCCAAAC
* * * * *
116284723 ATGGTCTTACACGTAATCACATAATGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATACTAATGTCCCAAAC
116284766 ATGGTCTTAC
1 ATGGTCTTAC
116284776 CCATAATCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATACTAATGTCCCAAAC
Found at i:116284783 original size:43 final size:43
Alignment explanation
Indices: 116284680--116284787 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
116284670 TAACCCAACT
* * *
116284680 ATGGTCTTACACGA-AATCAAATAACGATACTAATGTCTCAAAC
1 ATGGTCTTAC-CCATAATCACATAACGATACTAATGTCCCAAAC
* * * * *
116284723 ATGGTCTTACACGTAATCACATAATGATGCTAATGTCCCAGAC
1 ATGGTCTTACCCATAATCACATAACGATACTAATGTCCCAAAC
116284766 ATGGTCTTACCCATAATCACAT
1 ATGGTCTTACCCATAATCACAT
116284788 CTCGTTAATC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACCCATAATCACATAACGATACTAATGTCCCAAAC
Found at i:116285806 original size:25 final size:25
Alignment explanation
Indices: 116285778--116285864 Score: 111
Period size: 25 Copynumber: 3.5 Consensus size: 25
116285768 CCACATCTCT
*
116285778 CATGAGCTTCCCGATATTTAGCTCG
1 CATGAGCTTCCCGTTATTTAGCTCG
* **
116285803 CATGAGCTTCCTGTTATTTAGCTTA
1 CATGAGCTTCCCGTTATTTAGCTCG
*
116285828 CATGAGCTTCCCGTTATATAGCTCG
1 CATGAGCTTCCCGTTATTTAGCTCG
**
116285853 CAAAAGCTTCCC
1 CATGAGCTTCCC
116285865 ATTTACATGC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
CATGAGCTTCCCGTTATTTAGCTCG
Found at i:116286077 original size:16 final size:17
Alignment explanation
Indices: 116286053--116286085 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
116286043 ACTTGATATA
116286053 TTGAAACATG-ATTCGG
1 TTGAAACATGTATTCGG
*
116286069 TTGATACATGTATTCGG
1 TTGAAACATGTATTCGG
116286086 AACTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (17 bp):
TTGAAACATGTATTCGG
Found at i:116289089 original size:35 final size:35
Alignment explanation
Indices: 116289043--116289242 Score: 242
Period size: 35 Copynumber: 5.7 Consensus size: 35
116289033 TTTCCTCATT
* *
116289043 GAAATACCATACCTACATTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* **
116289078 GAAATGCCATACCTACGTTTCTTAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* *
116289112 GATAATACTATACCTACGTTTCACAACTCAATATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
**
116289148 TTAATACCATACCTACGTTTCACAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
*
116289182 GATGATACCATACCTACGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** *
116289218 TTAATACTATACCTTACGTTTCACA
1 GAAATACCATACC-TACGTTTCACA
116289243 CTTTTCCATG
Statistics
Matches: 139, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
34 4 0.03
35 122 0.88
36 13 0.09
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATGG
Found at i:116289134 original size:70 final size:70
Alignment explanation
Indices: 116289045--116289242 Score: 270
Period size: 70 Copynumber: 2.8 Consensus size: 70
116289035 TCCTCATTGA
* * * **
116289045 AATACCATACCTACATTTCACAACTCGGTATGGGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
116289110 TGGAT
66 TGGAT
* * **
116289115 AATACTATACCTACGTTTCACAACTCAATATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
116289180 TGGAT
66 TGGAT
* ** *
116289185 GATACCATACCTACGTTTCACAACTCAGTATGGTTAATACTATACCTTACGTTTCACA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACC-TACGTTTCACA
116289243 CTTTTCCATG
Statistics
Matches: 114, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 103 0.90
71 11 0.10
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:116289227 original size:105 final size:106
Alignment explanation
Indices: 116289045--116289242 Score: 310
Period size: 105 Copynumber: 1.9 Consensus size: 106
116289035 TCCTCATTGA
* * **
116289045 AATACCATACCTACATTTCACAACTCGGTATGGGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
116289110 TGGATAATACTATACC-TACGTTTCACAACTCAATATGGTT
66 TGGATAATACTATACCTTACGTTTCACAACTCAATATGGTT
* *
116289150 AATACCATACCTACGTTTCACAACTCAGTAT-GGATGATACCATACCTACGTTTCACAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACGTTTCACAACTCAGT
*
116289214 ATGGTTAATACTATACCTTACGTTTCACA
65 ATGGATAATACTATACCTTACGTTTCACA
116289243 CTTTTCCATG
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
104 3 0.04
105 70 0.83
106 11 0.13
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (106 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TGGATAATACTATACCTTACGTTTCACAACTCAATATGGTT
Found at i:116291609 original size:19 final size:20
Alignment explanation
Indices: 116291582--116291621 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
116291572 TCCCCTGTAG
*
116291582 TTTGAAAAAATTTC-TAAGT
1 TTTGAAAAAACTTCTTAAGT
*
116291601 TTTGTAAAAACTTCTTAAGT
1 TTTGAAAAAACTTCTTAAGT
116291621 T
1 T
116291622 ATCGATTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTGAAAAAACTTCTTAAGT
Found at i:116293159 original size:302 final size:303
Alignment explanation
Indices: 116292612--116293220 Score: 1175
Period size: 302 Copynumber: 2.0 Consensus size: 303
116292602 GTCCCGACTT
116292612 ATTTCTAAAGTGGATTTTAGGCCTCGAGGGCTCGCATAAGGGACAATATATTTATTTTTGATTGG
1 ATTTCTAAAGTGGATTTTAGGCCTCGAGGGCTCGCATAAGGGACAATATATTTATTTTTGATTGG
116292677 TTTCCGATATGAATGTTATTTTTTATGGAATATCTGTTTATTTGATCTGTAAACTCTGGTAATGT
66 TTTCCGATATGAATGTTATTTTTTATGGAATATCTGTTTATTTGATCTGTAAACTCTGGTAATGT
*
116292742 TCTGTAACTCTGTTCTGGCGATGGATCGCGTTAGGGGTGTTACAGGTATATTGTAATAGATATTG
131 TCTGTAACTCTGTTCTGGCGATGGATCGCGTTAGGGGTGTTACAGGTATATTGTAATAGACATTG
116292807 AGGATATTATTCATCTAATTTTTTTTAAAATAAAATATATAAATAATTAATAACATTTAGCTTGT
196 AGGATATTATTCATCTAATTTTTTTTAAAATAAAATATATAAATAATTAATAACATTTAGCTTGT
116292872 TTAACCTAAAATAAAAGTAATCTCAATGCGTGAGAAATCACAA
261 TTAACCTAAAATAAAAGTAATCTCAATGCGTGAGAAATCACAA
*
116292915 ATTTCTAAAGTGTATTTTAGGCCTCGAGGGCTCGCATAAGGGACAATATATTT-TTTTTGATTGG
1 ATTTCTAAAGTGGATTTTAGGCCTCGAGGGCTCGCATAAGGGACAATATATTTATTTTTGATTGG
*
116292979 TTTCCGATATGAATGTTTTTTTTTATGGAATATCTGTTTATTTGATCTGTAAACTCTGGTAATGT
66 TTTCCGATATGAATGTTATTTTTTATGGAATATCTGTTTATTTGATCTGTAAACTCTGGTAATGT
116293044 TCTGTAACTCTGTTCTGGCGATGGATCGCGTTAGGGGTGTTACAGGTATATTGTAATAGACATTG
131 TCTGTAACTCTGTTCTGGCGATGGATCGCGTTAGGGGTGTTACAGGTATATTGTAATAGACATTG
116293109 AGGATATTATTCATCTAATTTTTTTTAAAATAAAATATATAAATAATTAATAACATTTAGCTTGT
196 AGGATATTATTCATCTAATTTTTTTTAAAATAAAATATATAAATAATTAATAACATTTAGCTTGT
*
116293174 TTAGCCTAAAATAAAAGTAATCTCAATGCGTGAGAAATCACAA
261 TTAACCTAAAATAAAAGTAATCTCAATGCGTGAGAAATCACAA
116293217 ATTT
1 ATTT
116293221 AAAATATAAA
Statistics
Matches: 302, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
302 250 0.83
303 52 0.17
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (303 bp):
ATTTCTAAAGTGGATTTTAGGCCTCGAGGGCTCGCATAAGGGACAATATATTTATTTTTGATTGG
TTTCCGATATGAATGTTATTTTTTATGGAATATCTGTTTATTTGATCTGTAAACTCTGGTAATGT
TCTGTAACTCTGTTCTGGCGATGGATCGCGTTAGGGGTGTTACAGGTATATTGTAATAGACATTG
AGGATATTATTCATCTAATTTTTTTTAAAATAAAATATATAAATAATTAATAACATTTAGCTTGT
TTAACCTAAAATAAAAGTAATCTCAATGCGTGAGAAATCACAA
Found at i:116296872 original size:143 final size:141
Alignment explanation
Indices: 116296616--116296902 Score: 396
Period size: 143 Copynumber: 2.0 Consensus size: 141
116296606 TAGAATTAAA
* * * *
116296616 CAAGTGCATTGTTTATTCCTCTCTAAGGTTGGGCCTTTTTCGGGTTTAGTATTGTTGTTCCGACT
1 CAAGTGCATGGTTTATTCCTATCTAAGGTTGGGCCTTTTCCAGGTTTAGTATTGTTGTTCCGACT
* *
116296681 CTTCATTTTTCTCGAAGTCACCATGTCCGAGGCATACTGGGATATATGTATGTCATATTACACTC
66 CTTCATTTTTCTCGAAGTCACCATGTCCGAGGCATACCGGGATATATGTATGTCATATGACACTC
**
116296746 CATGAATATTC
131 CACAAATATTC
* *
116296757 CAAGTTCATGGTTTATTCCTATCTAAGGTTGGGTCTTTTCCAGGTTTAGTATT-TTGATTCTCCG
1 CAAGTGCATGGTTTATTCCTATCTAAGGTTGGGCCTTTTCCAGGTTTAGTATTGTTG--T-TCCG
* ** ** *
116296821 AGTCTTCATTTTTCTCGAAGTCACTGTGTTTGATGCATACCGGGATATATGTATGTCATATGACA
63 ACTCTTCATTTTTCTCGAAGTCACCATGTCCGAGGCATACCGGGATATATGTATGTCATATGACA
116296886 CTCCACAAATATTC
128 CTCCACAAATATTC
116296900 CAA
1 CAA
116296903 ATACATGGAA
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
140 3 0.02
141 47 0.37
142 1 0.01
143 76 0.60
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (141 bp):
CAAGTGCATGGTTTATTCCTATCTAAGGTTGGGCCTTTTCCAGGTTTAGTATTGTTGTTCCGACT
CTTCATTTTTCTCGAAGTCACCATGTCCGAGGCATACCGGGATATATGTATGTCATATGACACTC
CACAAATATTC
Found at i:116316163 original size:14 final size:14
Alignment explanation
Indices: 116316144--116316174 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
116316134 TATAGCTCTA
116316144 TCTTAGCTTTGCAT
1 TCTTAGCTTTGCAT
116316158 TCTTAGCTTTGCAT
1 TCTTAGCTTTGCAT
116316172 TCT
1 TCT
116316175 GACTAGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.52
Consensus pattern (14 bp):
TCTTAGCTTTGCAT
Found at i:116323368 original size:4 final size:4
Alignment explanation
Indices: 116323355--116323386 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
116323345 TAGATGGAAG
116323355 CTTT -TTT CTTT CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
116323387 GTTTTGCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:116325134 original size:2 final size:2
Alignment explanation
Indices: 116325127--116325161 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
116325117 AAGAACATGA
* *
116325127 TC TC TC TC TC TT TC TC TC TC TC TC AC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
116325162 ATCTATCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:116326654 original size:18 final size:17
Alignment explanation
Indices: 116326627--116326663 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
116326617 TTAAATATGT
116326627 AAATATAAATATAACAA
1 AAATATAAATATAACAA
*
116326644 AAATAATAAATATATCAA
1 AAAT-ATAAATATAACAA
116326662 AA
1 AA
116326664 TCTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATATAAATATAACAA
Found at i:116327839 original size:30 final size:32
Alignment explanation
Indices: 116327799--116327867 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
116327789 AGCCTATATC
* * *
116327799 TTTATAATTTTTAAA-AGATTAAATTA-AATT
1 TTTATCATTTTTAAAGAGACTAAAATATAATT
*
116327829 TTTATCATTTTTAAAGGGACTAAAATATAATT
1 TTTATCATTTTTAAAGAGACTAAAATATAATT
116327861 TTTATCA
1 TTTATCA
116327868 CTATTAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 14 0.42
31 8 0.24
32 11 0.33
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (32 bp):
TTTATCATTTTTAAAGAGACTAAAATATAATT
Found at i:116333237 original size:38 final size:40
Alignment explanation
Indices: 116333159--116333246 Score: 126
Period size: 38 Copynumber: 2.2 Consensus size: 40
116333149 TAAAAAGTAT
* * *
116333159 TTATATTAAAAAACACTACTATAAATATAATAATTTTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTA
116333199 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTA
*
116333237 TTTTATTAAA
1 TTATATTAAA
116333247 TATAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 27 0.61
39 1 0.02
40 16 0.36
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (40 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTA
Done.