Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 31 of 255
Found at i:8073830 original size:41 final size:41
Alignment explanation
Indices: 8073736--8073817 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
8073726 ATTTTAAGAG
8073736 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
1 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
8073777 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
1 ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
8073818 CACATTAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (41 bp):
ATAATTTATAATTCTTGATCATTAAATACAAATTCACCAAT
Found at i:8074148 original size:21 final size:20
Alignment explanation
Indices: 8074084--8074153 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
8074074 CCATCGTAAA
* *
8074084 TGCATAACAGAGGCACCAAAG
1 TGCA-AACAAAGGCACCGAAG
* * *
8074105 TGCAGACAAAGACA-CGATCG
1 TGCAAACAAAGGCACCGA-AG
8074125 TGCAAATCAAAGGCACCGAAG
1 TGCAAA-CAAAGGCACCGAAG
8074146 TGCAAACA
1 TGCAAACA
8074154 GAGACATTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 18 0.47
22 3 0.08
ACGTcount: A:0.43, C:0.24, G:0.23, T:0.10
Consensus pattern (20 bp):
TGCAAACAAAGGCACCGAAG
Found at i:8074174 original size:19 final size:19
Alignment explanation
Indices: 8074150--8074222 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
8074140 CCGAAGTGCA
**
8074150 AACAGAGACATTAAACTGT
1 AACAGAGACATCGAACTGT
* * *
8074169 AACAGAGACACCGAAGTGCA
1 AACAGAGACATCGAACTG-T
8074189 AACAGAGACATCGAACTGT
1 AACAGAGACATCGAACTGT
*
8074208 AACAGAGACACCGAA
1 AACAGAGACATCGAA
8074223 GTGCAATCCC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 28 0.64
20 16 0.36
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (19 bp):
AACAGAGACATCGAACTGT
Found at i:8074188 original size:39 final size:39
Alignment explanation
Indices: 8074138--8074228 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
8074128 AAATCAAAGG
*
8074138 CACCGAAGTGCAAACAGAGACATTAAACTGTAACAGAGA
1 CACCGAAGTGCAAACAGAGACATCAAACTGTAACAGAGA
*
8074177 CACCGAAGTGCAAACAGAGACATCGAACTGTAACAGAGA
1 CACCGAAGTGCAAACAGAGACATCAAACTGTAACAGAGA
8074216 CACCGAAGTGCAA
1 CACCGAAGTGCAA
8074229 TCCCGTATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.44, C:0.23, G:0.22, T:0.11
Consensus pattern (39 bp):
CACCGAAGTGCAAACAGAGACATCAAACTGTAACAGAGA
Found at i:8074194 original size:20 final size:20
Alignment explanation
Indices: 8074084--8074228 Score: 107
Period size: 20 Copynumber: 7.2 Consensus size: 20
8074074 CCATCGTAAA
* *
8074084 TGCATAACAGAGGCACCAAAG
1 TGCA-AACAGAGACACCGAAG
* * *
8074105 TGCAGACAAAGACA-CGATCG
1 TGCAAACAGAGACACCGA-AG
* *
8074125 TGCAAATCAAAGGCACCGAAG
1 TGCAAA-CAGAGACACCGAAG
*** *
8074146 TGCAAACAGAGACATTAAAC
1 TGCAAACAGAGACACCGAAG
*
8074166 TG-TAACAGAGACACCGAAG
1 TGCAAACAGAGACACCGAAG
* *
8074185 TGCAAACAGAGACATCGAAC
1 TGCAAACAGAGACACCGAAG
*
8074205 TG-TAACAGAGACACCGAAG
1 TGCAAACAGAGACACCGAAG
8074224 TGCAA
1 TGCAA
8074229 TCCCGTATAA
Statistics
Matches: 93, Mismatches: 26, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 32 0.34
20 40 0.43
21 18 0.19
22 3 0.03
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (20 bp):
TGCAAACAGAGACACCGAAG
Found at i:8085933 original size:20 final size:19
Alignment explanation
Indices: 8085898--8085944 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8085888 AAAATAAATT
*
8085898 TTATTTATTTTTCAAAAAA
1 TTATTTTTTTTTCAAAAAA
*
8085917 TTATTTTTTTGTTCAAATAA
1 TTATTTTTTT-TTCAAAAAA
8085937 TT-TTTTTT
1 TTATTTTTT
8085945 GAATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATTTTTTTTTCAAAAAA
Found at i:8085944 original size:19 final size:19
Alignment explanation
Indices: 8085889--8085944 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
8085879 TTTCACCTAA
*
8085889 AAATAAATTTTATTTATTTTTC
1 AAAT-AATTTT-TTT-TTGTTC
*
8085911 AAAAAATTATTTTTTTGTTC
1 AAATAATT-TTTTTTTGTTC
8085931 AAATAATTTTTTTT
1 AAATAATTTTTTTT
8085945 GAATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.20
20 12 0.40
21 7 0.23
22 5 0.17
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
AAATAATTTTTTTTTGTTC
Found at i:8091491 original size:35 final size:35
Alignment explanation
Indices: 8091409--8091506 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
8091399 GACTGTTAAT
* *
8091409 TTTTTGAAAAT-TTTATATATTATTATTATTATTA
1 TTTTTGAAAATATTTATATATTTTTATAATTATTA
* * *
8091443 TTTGTGAACAATATTT-TTTATTTTTATAATTATATG
1 TTTTTGAA-AATATTTATATATTTTTATAATTAT-TA
*
8091479 TTTTTGAAAATATTTATGTATTTTTATA
1 TTTTTGAAAATATTTATATATTTTTATA
8091507 TATTTCTTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
34 7 0.13
35 24 0.45
36 22 0.42
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (35 bp):
TTTTTGAAAATATTTATATATTTTTATAATTATTA
Found at i:8091509 original size:18 final size:18
Alignment explanation
Indices: 8091461--8091511 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
8091451 CAATATTTTT
8091461 TATTTTTATA-ATTATATG
1 TATTTTTATATATT-TATG
* *
8091479 T-TTTTGAAAATATTTATG
1 TATTTT-TATATATTTATG
8091497 TATTTTTATATATTT
1 TATTTTTATATATTT
8091512 CTTCAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.15
18 15 0.58
19 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TATTTTTATATATTTATG
Found at i:8092161 original size:15 final size:15
Alignment explanation
Indices: 8092135--8092178 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
8092125 AACGATTGTT
8092135 GTTAAA-TTTATTAA
1 GTTAAATTTTATTAA
**
8092149 GTTAAATTTTATTTT
1 GTTAAATTTTATTAA
*
8092164 GTGAAATTTTATTAA
1 GTTAAATTTTATTAA
8092179 AAAAGCATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
GTTAAATTTTATTAA
Found at i:8093604 original size:149 final size:149
Alignment explanation
Indices: 8093334--8093627 Score: 570
Period size: 149 Copynumber: 2.0 Consensus size: 149
8093324 CATCAGATGA
*
8093334 AACAGTTAAAAACGACACTGAAATCCAATCATCGTGGTCGGAGGTCAAAAACGAAGGCCACGGTG
1 AACAGTTAAAAACGACACTGAAATCCAATCATCGTGGTCGGAGGTCAAAAACGAAGGCAACGGTG
8093399 ATTTAAGACACGAAACATGGTGACTGGAGATGAACACATTAATCGATCTCACCCAAGCATGCACC
66 ATTTAAGACACGAAACATGGTGACTGGAGATGAACACATTAATCGATCTCACCCAAGCATGCACC
8093464 ATCATCACATGGATAACGG
131 ATCATCACATGGATAACGG
8093483 AACAGTTAAAAACGACACTGAAATCCAATCATCGTGGTCGGAGGTCAAAAACGAAGGCAACGGTG
1 AACAGTTAAAAACGACACTGAAATCCAATCATCGTGGTCGGAGGTCAAAAACGAAGGCAACGGTG
*
8093548 ATTTAAGACACGAAACATGGTGACTGGAGATGAACATATTAATCGATCTCACCCAAGCATGCACC
66 ATTTAAGACACGAAACATGGTGACTGGAGATGAACACATTAATCGATCTCACCCAAGCATGCACC
8093613 ATCATCACATGGATA
131 ATCATCACATGGATA
8093628 GCTTCCGCTT
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (149 bp):
AACAGTTAAAAACGACACTGAAATCCAATCATCGTGGTCGGAGGTCAAAAACGAAGGCAACGGTG
ATTTAAGACACGAAACATGGTGACTGGAGATGAACACATTAATCGATCTCACCCAAGCATGCACC
ATCATCACATGGATAACGG
Found at i:8097048 original size:21 final size:22
Alignment explanation
Indices: 8097015--8097058 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
8097005 TATATGTTGT
8097015 ATGTGAATAATTAA-AAAAAAC
1 ATGTGAATAATTAATAAAAAAC
*
8097036 ATGTGAA-ATATTAATAAATAAC
1 ATGTGAATA-ATTAATAAAAAAC
8097058 A
1 A
8097059 ATTATGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 12 0.60
22 7 0.35
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (22 bp):
ATGTGAATAATTAATAAAAAAC
Found at i:8097193 original size:20 final size:22
Alignment explanation
Indices: 8097145--8097195 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
8097135 AAGGATCTAA
* *
8097145 TTATAAAAAAATAGAATTTAAC
1 TTATTAAAAAATAGAATGTAAC
*
8097167 TTATTAAAAAATATAATGTAA-
1 TTATTAAAAAATAGAATGTAAC
8097188 TT-TTAAAA
1 TTATTAAAA
8097196 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.23
21 2 0.08
22 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
TTATTAAAAAATAGAATGTAAC
Found at i:8097780 original size:21 final size:19
Alignment explanation
Indices: 8097734--8097780 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
8097724 TTGGGATATC
*
8097734 AAAT-CACCAAAATTTTAA
1 AAATACACCAAAATTGTAA
8097752 ATAATACACCAAGAATATGTAA
1 A-AATACACCAA-AAT-TGTAA
8097774 AAATACA
1 AAATACA
8097781 TTGATTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 6 0.25
21 9 0.38
22 5 0.21
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.23
Consensus pattern (19 bp):
AAATACACCAAAATTGTAA
Found at i:8098256 original size:28 final size:27
Alignment explanation
Indices: 8098211--8098264 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
8098201 CAAATTGGAC
8098211 TAATCCAACCTACAAATCTGAAATAAAA
1 TAATCCAACCTACAAATC-GAAATAAAA
* *
8098239 TAATCCAA-CTATCCAATCGGAATAAA
1 TAATCCAACCTA-CAAATCGAAATAAA
8098265 GTAAACGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (27 bp):
TAATCCAACCTACAAATCGAAATAAAA
Found at i:8104815 original size:25 final size:24
Alignment explanation
Indices: 8104765--8104817 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
8104755 ATACAAATTG
*
8104765 AAAAAATATTAATATTTGATTACA
1 AAAAAATATTAATATTTAATTACA
*
8104789 AAAAAATTATT-ATATTTAAATTTCA
1 AAAAAA-TATTAATATTT-AATTACA
8104814 AAAA
1 AAAA
8104818 TCTTTTGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAAAATATTAATATTTAATTACA
Found at i:8104966 original size:28 final size:28
Alignment explanation
Indices: 8104899--8104986 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
8104889 AATCTCAAAA
**
8104899 TTATACATGAATTTTAGTTTAATGTGTAATT
1 TTATACATGAATTTTA-TTT--TGTACAATT
* *
8104930 CTCTACATGAATTTTATTTTGTACAATT
1 TTATACATGAATTTTATTTTGTACAATT
* *
8104958 TTATACATGAAATTTTATTTGGTCCAATT
1 TTATACATG-AATTTTATTTTGTACAATT
8104987 CTCAAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 14 0.29
29 17 0.35
30 3 0.06
31 14 0.29
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (28 bp):
TTATACATGAATTTTATTTTGTACAATT
Found at i:8105948 original size:22 final size:20
Alignment explanation
Indices: 8105922--8105970 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
8105912 CTTAATTAAT
8105922 ATTATATGTTAAAAATTATTTA
1 ATTATAT-TT-AAAATTATTTA
*
8105944 ATTATGATTTAAAATTTTTTA
1 ATTAT-ATTTAAAATTATTTA
8105965 ATTATA
1 ATTATA
8105971 ATATTTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 15 0.60
22 7 0.28
23 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
ATTATATTTAAAATTATTTA
Found at i:8106507 original size:30 final size:31
Alignment explanation
Indices: 8106465--8106522 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
8106455 TTTTATTTTT
8106465 AATTTTCTTATTATTTTAAAGGCATTTGTTA
1 AATTTTCTTATTATTTTAAAGGCATTTGTTA
*
8106496 AATTTT-TTATTATTTTAGAGGCATTTG
1 AATTTTCTTATTATTTTAAAGGCATTTG
8106523 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (31 bp):
AATTTTCTTATTATTTTAAAGGCATTTGTTA
Found at i:8110860 original size:3 final size:3
Alignment explanation
Indices: 8110854--8111110 Score: 131
Period size: 3 Copynumber: 84.7 Consensus size: 3
8110844 TATTATTGGG
*
8110854 ATT ATT ATT ATT ATT ATTT ATT ACT ATT ATT ATT -TCT ACTT -TT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT
* * * * *
8110900 ATT GTT ACT ACT A-T ATT ATT GTT ATT GTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
8110947 ATT ATT -TT ATT ATT AGT A-T ATGT TTT ATT ATAC ATGT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT AT-T AT-T AT-T ATT ATT
* * * * * * *
8110994 ATT -TT A-T ATT ACT GTT ATTT CTT CTT TTT CA-T ATT ATT ACT GTT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT -ATT ATT ATT ATT ATT
* * *
8111038 ATT AGTGT A-T ACT ATT ATT ATT ATT -TCCT ATT ATC ATT CTT -TT ATT
1 ATT A-T-T ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT
*
8111084 ACTG ATT ATT ATT ATT ATT ATT ATT AT
1 A-TT ATT ATT ATT ATT ATT ATT ATT AT
8111111 CACTTACTAT
Statistics
Matches: 198, Mismatches: 33, Indels: 46
0.71 0.12 0.17
Matches are distributed among these distances:
2 19 0.10
3 156 0.79
4 19 0.10
5 4 0.02
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:8110898 original size:15 final size:16
Alignment explanation
Indices: 8110862--8110919 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
8110852 GGATTATTAT
*
8110862 TATTATTATTTATTAC
1 TATTATTATTTACTAC
8110878 TATTATTATTT-CTAC
1 TATTATTATTTACTAC
*
8110893 TTTTATTATTGTTACTAC
1 TATTATTA-T-TTACTAC
8110911 TA-TATTATT
1 TATTATTATT
8110920 GTTATTGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
15 11 0.31
16 13 0.36
17 7 0.19
18 5 0.14
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTATTATTTACTAC
Found at i:8110940 original size:41 final size:41
Alignment explanation
Indices: 8110895--8110977 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
8110885 ATTTCTACTT
*
8110895 TTATTATTGTTACTACTATATTATT-GT-TATTGTTATTATTA
1 TTATTATTATTACTACTATATTATTAGTATA-TGTT-TTATTA
* * *
8110936 TTATTATTATTATTATTTTATTATTAGTATATGTTTTATTA
1 TTATTATTATTACTACTATATTATTAGTATATGTTTTATTA
8110977 T
1 T
8110978 ACATGTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 28 0.78
42 6 0.17
43 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (41 bp):
TTATTATTATTACTACTATATTATTAGTATATGTTTTATTA
Found at i:8111218 original size:3 final size:3
Alignment explanation
Indices: 8111212--8111257 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
8111202 TTATTTGACA
* * *
8111212 TAT TAT TGT TAT CAT TAT TAT TTT TA- TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8111258 ATTTAGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8111244 original size:14 final size:14
Alignment explanation
Indices: 8111212--8111261 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
8111202 TTATTTGACA
*
8111212 TATTATTGTTATCAT
1 TATTATTTTTAT-AT
8111227 TATTATTTTTATAT
1 TATTATTTTTATAT
*
8111241 TATTATTATTATAT
1 TATTATTTTTATAT
8111255 TA-TATTT
1 TATTATTT
8111262 AGTTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
13 4 0.12
14 17 0.53
15 11 0.34
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTATTTTTATAT
Found at i:8111457 original size:25 final size:25
Alignment explanation
Indices: 8111429--8111534 Score: 105
Period size: 25 Copynumber: 4.3 Consensus size: 25
8111419 TCATGTCTAA
*
8111429 TATATATGTTTTTATATATATTATG
1 TATATATATTTTTATATATATTATG
*
8111454 TATATA-ATTTTAATAT-TATTA-G
1 TATATATATTTTTATATATATTATG
*
8111476 TTATATATATTTTTATACTAT-TCCATG
1 -TATATATATTTTTATA-TATAT-TATG
*
8111503 TATATAT-TTTTTATATCATCTTATG
1 TATATATATTTTTATAT-ATATTATG
8111528 TATATAT
1 TATATAT
8111535 TCTTAAACAC
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
22 1 0.01
23 11 0.16
24 17 0.25
25 28 0.41
26 10 0.15
27 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (25 bp):
TATATATATTTTTATATATATTATG
Found at i:8111836 original size:19 final size:19
Alignment explanation
Indices: 8111794--8111836 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8111784 ATGTACATAT
* *
8111794 TTATTAATATATTTTTATA
1 TTATTAATATATTATAATA
8111813 TTATTAATAT-TTATAATA
1 TTATTAATATATTATAATA
8111831 TATATT
1 T-TATT
8111837 GTATACGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTAATATATTATAATA
Found at i:8111867 original size:13 final size:13
Alignment explanation
Indices: 8111851--8111881 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8111841 ACGTTCATTT
8111851 TATATATTATATA
1 TATATATTATATA
*
8111864 TATATATTGTATA
1 TATATATTATATA
8111877 TATAT
1 TATAT
8111882 TCTAGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATATATTATATA
Found at i:8116121 original size:14 final size:16
Alignment explanation
Indices: 8116090--8116121 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8116080 ATAGTTGTAC
8116090 TTAATTGTTGGATTTA
1 TTAATTGTTGGATTTA
8116106 TTAATTG-TGG-TTTA
1 TTAATTGTTGGATTTA
8116120 TT
1 TT
8116122 GTACTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (16 bp):
TTAATTGTTGGATTTA
Found at i:8120850 original size:50 final size:51
Alignment explanation
Indices: 8120773--8120901 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
8120763 GACCATGGCA
* * *
8120773 ACAAGTGATAAGTGATAGCTTCGGCTACACGTATCTGATCTAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACGTATCTGATCAAGGACAAATG
* *
8120824 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACGTATCTGATCAAGGACAAATG
* *
8120874 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
8120902 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACGTATCTGATCAAGGACAAATG
Found at i:8120915 original size:31 final size:31
Alignment explanation
Indices: 8120877--8121025 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
8120867 ACAAATGACA
8120877 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8120908 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
8120939 AGTGAAAAATGGCAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
8120970 AGTGAAAAATGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8121001 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
8121026 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:8121111 original size:47 final size:47
Alignment explanation
Indices: 8121042--8121166 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 47
8121032 CAAGGGAATT
* * *
8121042 CTGTATAGGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
8121089 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
8121136 C-GTGTAAGACCATAGCTGGGCTATGGCATCG
1 CTGTATAAGACCATATCTGGGATATGGCATCG
8121167 ATATGTGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 26 0.38
47 42 0.62
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:8121201 original size:49 final size:48
Alignment explanation
Indices: 8121094--8121219 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 48
8121084 TGCTACTGTA
* * * * *
8121094 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATTCGTG
*
8121140 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATT-CGTG
* *
8121189 TAAGATCTTAGCTGGGCTATGACATCGATAT
1 TAAGACCATAGCTGGGCTATGACATCGATAT
8121220 ATGAAGATGT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
46 24 0.34
47 1 0.01
48 13 0.19
49 32 0.46
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATTCGTG
Found at i:8127233 original size:13 final size:13
Alignment explanation
Indices: 8127217--8127244 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8127207 TGCTGTGGAA
8127217 AAGTACTTTTGAG
1 AAGTACTTTTGAG
8127230 AAGTACTTTTGAG
1 AAGTACTTTTGAG
8127243 AA
1 AA
8127245 ATTTAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:8131317 original size:7 final size:7
Alignment explanation
Indices: 8131305--8131340 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
8131295 TCAAAATATG
8131305 ACTAGAA
1 ACTAGAA
8131312 ACTAGAA
1 ACTAGAA
8131319 ACTAGAA
1 ACTAGAA
*
8131326 ACTAAAA
1 ACTAGAA
8131333 ACTA-AA
1 ACTAGAA
8131339 AC
1 AC
8131341 CATCCCTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.61, C:0.17, G:0.08, T:0.14
Consensus pattern (7 bp):
ACTAGAA
Found at i:8139264 original size:19 final size:19
Alignment explanation
Indices: 8139240--8139278 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8139230 ATTTTTGAAA
8139240 CCGGGATAGCTTAATCTAT
1 CCGGGATAGCTTAATCTAT
8139259 CCGGGATAGCTTAATCTAT
1 CCGGGATAGCTTAATCTAT
8139278 C
1 C
8139279 TATTTGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (19 bp):
CCGGGATAGCTTAATCTAT
Found at i:8142707 original size:22 final size:21
Alignment explanation
Indices: 8142668--8142726 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
8142658 AAAATAAAAA
*
8142668 ATATATAAAATTATTAAATATT
1 ATAT-TAAAATAATTAAATATT
8142690 ATATTAAAATAATATAAATATT
1 ATATTAAAATAAT-TAAATATT
* * *
8142712 TTTTTAAAAAAATTA
1 ATATTAAAATAATTA
8142727 GTAGGTCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTAAAATAATTAAATATT
Found at i:8143016 original size:17 final size:16
Alignment explanation
Indices: 8142996--8143030 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8142986 TTTTATATAT
8142996 TTTTAATATATTTTAAA
1 TTTTAATA-ATTTTAAA
*
8143013 TTTTAATAATTTTTAA
1 TTTTAATAATTTTAAA
8143029 TT
1 TT
8143031 AAACTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTAATAATTTTAAA
Found at i:8143367 original size:13 final size:13
Alignment explanation
Indices: 8143351--8143377 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8143341 TTTGTACAAT
8143351 AATTTTTTTATTA
1 AATTTTTTTATTA
8143364 AATTTTTTTATTA
1 AATTTTTTTATTA
8143377 A
1 A
8143378 TTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTTTTATTA
Found at i:8145431 original size:30 final size:30
Alignment explanation
Indices: 8145396--8145455 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
8145386 TATTTTATTA
*
8145396 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
*
8145426 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
8145456 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGTATTTG
Found at i:8145559 original size:11 final size:11
Alignment explanation
Indices: 8145543--8145567 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8145533 ATTTATTTTG
8145543 ATTTTTTTAGT
1 ATTTTTTTAGT
8145554 ATTTTTTTAGT
1 ATTTTTTTAGT
8145565 ATT
1 ATT
8145568 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTTTTAGT
Found at i:8157105 original size:25 final size:26
Alignment explanation
Indices: 8157066--8157114 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
8157056 TCAACACATA
*
8157066 TTTTATTATATAATTAACATGTATCT
1 TTTTAATATATAATTAACATGTATCT
* *
8157092 TTTTAATATA-AATTTACTTGTAT
1 TTTTAATATATAATTAACATGTAT
8157115 GGTGATGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTTAATATATAATTAACATGTATCT
Found at i:8157612 original size:20 final size:21
Alignment explanation
Indices: 8157567--8157620 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
8157557 TCATATTTAA
*
8157567 AAATATATATTTAATATATAT
1 AAATATATATTTAAAATATAT
*
8157588 GAATA-ATATTTACAAATAT-T
1 AAATATATATTTA-AAATATAT
*
8157608 AAATACA-ATTTAA
1 AAATATATATTTAA
8157621 CTATGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.04
20 17 0.61
21 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATATATATTTAAAATATAT
Found at i:8166011 original size:8 final size:9
Alignment explanation
Indices: 8165993--8166116 Score: 56
Period size: 9 Copynumber: 12.9 Consensus size: 9
8165983 CTTGATTATT
8165993 TAAAAATTA
1 TAAAAATTA
8166002 TAAAAATATAGA
1 TAAAAAT-T--A
*
8166014 AAAAAATT-
1 TAAAAATTA
8166022 TAAAAATTCA
1 TAAAAATT-A
*
8166032 -AAAAAATA
1 TAAAAATTA
8166040 TAAACATATTA
1 TAAA-A-ATTA
*
8166051 TTAAAAATAA
1 -TAAAAATTA
* *
8166061 TAAGAAGTA
1 TAAAAATTA
8166070 TAAAAATTTA
1 TAAAAA-TTA
* *
8166080 TGAATATCATA
1 TAAAAAT--TA
*
8166091 AAAAAATT-
1 TAAAAATTA
8166099 TATAAAATTA
1 TA-AAAATTA
8166109 TAAAAATT
1 TAAAAATT
8166117 CAAGAATTGG
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
8 9 0.11
9 41 0.48
10 13 0.15
11 11 0.13
12 11 0.13
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:8166111 original size:20 final size:21
Alignment explanation
Indices: 8166071--8166114 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8166061 TAAGAAGTAT
*
8166071 AAAAATTTATGAATATCATAA
1 AAAAATTTATGAAAATCATAA
*
8166092 AAAAATTTAT-AAAATTATAA
1 AAAAATTTATGAAAATCATAA
8166112 AAA
1 AAA
8166115 TTCAAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAATTTATGAAAATCATAA
Found at i:8166586 original size:23 final size:23
Alignment explanation
Indices: 8166536--8166666 Score: 110
Period size: 23 Copynumber: 5.8 Consensus size: 23
8166526 ATGAATGAAG
* * **
8166536 ATGAACAGGAAATATTATCTGGT
1 ATGAACAGTAAATATTCTCTGAC
*
8166559 GTGAACAGTAAATATTCTCTGAC
1 ATGAACAGTAAATATTCTCTGAC
*
8166582 ATGAACAATAGAA-A-TCTCTGAC
1 ATGAACAGTA-AATATTCTCTGAC
*
8166604 A-GAAACAGT-AAGATTCTCT-AGC
1 ATG-AACAGTAAATATTCTCTGA-C
* *
8166626 ATGAATAGTAAATATTCTCTGAT
1 ATGAACAGTAAATATTCTCTGAC
*
8166649 ATGAATAGTAAATATTCT
1 ATGAACAGTAAATATTCT
8166667 TTGAAGGGAT
Statistics
Matches: 89, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.02
21 3 0.03
22 26 0.29
23 55 0.62
24 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (23 bp):
ATGAACAGTAAATATTCTCTGAC
Found at i:8166621 original size:22 final size:22
Alignment explanation
Indices: 8166560--8166659 Score: 71
Period size: 22 Copynumber: 4.5 Consensus size: 22
8166550 TTATCTGGTG
*
8166560 TGAACAGTAAATATTCTCTGACA
1 TGAACAGT-AAGATTCTCTGACA
* *
8166583 TGAACAAT-AGAAATCTCTGACA
1 TGAACAGTAAG-ATTCTCTGACA
8166605 -GAAACAGTAAGATTCTCT-AGCA
1 TG-AACAGTAAGATTCTCTGA-CA
* * *
8166627 TGAATAGTAAATATTCTCTGATA
1 TGAACAGT-AAGATTCTCTGACA
*
8166650 TGAATAGTAA
1 TGAACAGTAA
8166660 ATATTCTTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
21 3 0.05
22 30 0.48
23 28 0.45
24 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (22 bp):
TGAACAGTAAGATTCTCTGACA
Found at i:8174004 original size:29 final size:29
Alignment explanation
Indices: 8173971--8174029 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8173961 CAACAGAAAG
8173971 AAAAATATATATACATGTATATCTTTGAA
1 AAAAATATATATACATGTATATCTTTGAA
8174000 AAAAATATATATACATGTATATCTTTGAA
1 AAAAATATATATACATGTATATCTTTGAA
8174029 A
1 A
8174030 GTAAGCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (29 bp):
AAAAATATATATACATGTATATCTTTGAA
Found at i:8176563 original size:18 final size:18
Alignment explanation
Indices: 8176540--8176578 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8176530 CCCTGTTTGT
8176540 AACAAAATTTAAACGTTG
1 AACAAAATTTAAACGTTG
8176558 AACAAAATTTAAACGTTG
1 AACAAAATTTAAACGTTG
8176576 AAC
1 AAC
8176579 CTCCTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (18 bp):
AACAAAATTTAAACGTTG
Found at i:8182134 original size:18 final size:18
Alignment explanation
Indices: 8182108--8182145 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8182098 TAAATTTCAC
8182108 AATTCGAAT-ATCTCAAAT
1 AATTCGAATAAT-TCAAAT
*
8182126 AATTTGAATAATTCAAAT
1 AATTCGAATAATTCAAAT
8182144 AA
1 AA
8182146 CAGATTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTCGAATAATTCAAAT
Found at i:8182250 original size:19 final size:18
Alignment explanation
Indices: 8182228--8182293 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 18
8182218 AATTATGAAA
8182228 AAAATTCAAAATGATTTTT
1 AAAATTCAAAAT-ATTTTT
* *
8182247 AAAATTTAAAATATTTATA
1 AAAATTCAAAATATTT-TT
8182266 AAAATTTCAAAAATTATATTTT
1 AAAA-TTC-AAAA-TAT-TTTT
8182288 AAAATT
1 AAAATT
8182294 TTATAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.11
19 16 0.42
20 2 0.05
21 6 0.16
22 8 0.21
23 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (18 bp):
AAAATTCAAAATATTTTT
Found at i:8182300 original size:33 final size:34
Alignment explanation
Indices: 8182251--8182317 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 34
8182241 ATTTTTAAAA
8182251 TTTAAAATATTTATAAAAATT-TCAAAAATTATAT
1 TTTAAAATATTTATAAAAATTCT-AAAAATTATAT
8182285 TTTAAAAT-TTTATAAAAATTCTAAAAATTATAT
1 TTTAAAATATTTATAAAAATTCTAAAAATTATAT
8182318 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 23 0.72
34 9 0.28
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (34 bp):
TTTAAAATATTTATAAAAATTCTAAAAATTATAT
Found at i:8183468 original size:42 final size:42
Alignment explanation
Indices: 8183399--8183525 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
8183389 CTTCGTTTTC
* * * *
8183399 TCGATGCCATAGTTCAACTATGATCTTACACATCTTCACATAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACAT-A
* *
8183442 T-GATGACATAGTCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
*
8183483 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACAC-ATATTCACATA
8183524 TC
1 TC
8183526 TCACTAATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.14
42 61 0.84
43 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
Found at i:8183588 original size:47 final size:46
Alignment explanation
Indices: 8183484--8183605 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 46
8183474 ATTCATATAT
* * * * *
8183484 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
** * *
8183530 TAATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
8183577 CGATGCCATATCCCAGATATGGTCTTATA
1 CGATGCCATATCCCAGATATGGTCTTATA
8183606 AGGAAATCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 25 0.39
47 39 0.61
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:8183694 original size:31 final size:31
Alignment explanation
Indices: 8183656--8183748 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
8183646 CACTGATCAA
*
8183656 GATCAGGTAGCCAGAGCTACCATTTTTCACT
1 GATCAGGTAGCCAGAGCTACCACTTTTCACT
8183687 GATCAGGTAGCCAGAGCTACCACTTTTCACT
1 GATCAGGTAGCCAGAGCTACCACTTTTCACT
*
8183718 GATCAGGAAG-CAGAAGCTACCACTTTTCACT
1 GATCAGGTAGCCAG-AGCTACCACTTTTCACT
8183749 ACCACTTTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
30 3 0.05
31 56 0.95
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (31 bp):
GATCAGGTAGCCAGAGCTACCACTTTTCACT
Found at i:8183752 original size:13 final size:13
Alignment explanation
Indices: 8183734--8183761 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8183724 GAAGCAGAAG
8183734 CTACCACTTTTCA
1 CTACCACTTTTCA
8183747 CTACCACTTTTCA
1 CTACCACTTTTCA
8183760 CT
1 CT
8183762 GATCAGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (13 bp):
CTACCACTTTTCA
Found at i:8183766 original size:44 final size:44
Alignment explanation
Indices: 8183703--8183792 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
8183693 GTAGCCAGAG
*
8183703 CTACCACTTTTCACTGATCAGGAAGCAGAAGCTACCACTTTTCA
1 CTACCACTTTTCACTGATCAGGAAGCAGAAGCGACCACTTTTCA
* * *
8183747 CTACCACTTTTCACTGATCAGGTAGCCGAAGCGACCATTTTTCA
1 CTACCACTTTTCACTGATCAGGAAGCAGAAGCGACCACTTTTCA
8183791 CT
1 CT
8183793 GATCAAGTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (44 bp):
CTACCACTTTTCACTGATCAGGAAGCAGAAGCGACCACTTTTCA
Found at i:8183792 original size:31 final size:31
Alignment explanation
Indices: 8183747--8183854 Score: 162
Period size: 31 Copynumber: 3.5 Consensus size: 31
8183737 CCACTTTTCA
8183747 CTACCACTTTTCACTGATCAGGTAGCCGAAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
* * * *
8183778 CGACCATTTTTCACTGATCAAGTAGCCGGAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
* *
8183809 CTACCACTTTTCACTGATCGGGTAGCAGAAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
8183840 CTACCACTTTTCACT
1 CTACCACTTTTCACT
8183855 TGTCATTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (31 bp):
CTACCACTTTTCACTGATCAGGTAGCCGAAG
Found at i:8183795 original size:75 final size:75
Alignment explanation
Indices: 8183672--8183823 Score: 225
Period size: 75 Copynumber: 2.0 Consensus size: 75
8183662 GTAGCCAGAG
* * *
8183672 CTACCATTTTTCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGATCAGGAAGCAGAAGCTA
1 CTACCACTTTTCACTGATCAGGTAGCCAGAGCGACCACTTTTCACTGATCAAGAAGCAGAAGCTA
8183737 CCACTTTTCA
66 CCACTTTTCA
* * * *
8183747 CTACCACTTTTCACTGATCAGGTAGCC-GAAGCGACCATTTTTCACTGATCAAGTAGCCGGAGCT
1 CTACCACTTTTCACTGATCAGGTAGCCAG-AGCGACCACTTTTCACTGATCAAGAAGCAGAAGCT
8183811 ACCACTTTTCA
65 ACCACTTTTCA
8183822 CT
1 CT
8183824 GATCGGGTAG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 1 0.01
75 68 0.99
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (75 bp):
CTACCACTTTTCACTGATCAGGTAGCCAGAGCGACCACTTTTCACTGATCAAGAAGCAGAAGCTA
CCACTTTTCA
Found at i:8183810 original size:106 final size:106
Alignment explanation
Indices: 8183656--8183854 Score: 337
Period size: 106 Copynumber: 1.9 Consensus size: 106
8183646 CACTGATCAA
* *
8183656 GATCAGGTAGCCAGAGCTACCATTTTTCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGAT
1 GATCAGGTAGCCAGAGCGACCATTTTTCACTGATCAAGTAGCCAGAGCTACCACTTTTCACTGAT
8183721 CAGGAAGCAGAAGCTACCACTTTTCACTACCACTTTTCACT
66 CAGGAAGCAGAAGCTACCACTTTTCACTACCACTTTTCACT
*
8183762 GATCAGGTAGCC-GAAGCGACCATTTTTCACTGATCAAGTAGCCGGAGCTACCACTTTTCACTGA
1 GATCAGGTAGCCAG-AGCGACCATTTTTCACTGATCAAGTAGCCAGAGCTACCACTTTTCACTGA
* *
8183826 TCGGGTAGCAGAAGCTACCACTTTTCACT
65 TCAGGAAGCAGAAGCTACCACTTTTCACT
8183855 TGTCATTTGT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 1 0.01
106 86 0.99
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (106 bp):
GATCAGGTAGCCAGAGCGACCATTTTTCACTGATCAAGTAGCCAGAGCTACCACTTTTCACTGAT
CAGGAAGCAGAAGCTACCACTTTTCACTACCACTTTTCACT
Found at i:8183898 original size:106 final size:104
Alignment explanation
Indices: 8183682--8184003 Score: 252
Period size: 106 Copynumber: 3.1 Consensus size: 104
8183672 CTACCATTTT
* * *
8183682 TCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGATCAGGAAGCAGAAGCTACCACTTTTCA
1 TCACTGATCAAGTAGCC-GAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCA
** * * * ** *
8183747 CTACCACTTT-TCAC-TGATCAGGT-AGCCGAAG-CGACCATTTT
65 CTTTCA-TTTGTC-CTTGATCAGATAAG-TGTAGCCGA--AGCTA
8183788 TCACTGATCAAGTAGCCGGAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCA
1 TCACTGATCAAGTAGCC-GAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCA
8183853 CTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
65 CTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
* * ** ** * * * * * *
8183894 TCACTTATC-ACT-TTC-A-CTTGTC-CTTGATCA--GATAAGTGTAGCTGAAGCTACTACTTAT
1 TCACTGATCAAGTAGCCGAGC-TACCACTT-TTCACTGAT-CGGGTAGCAGAAGCTACCACTTTT
8183952 CACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
63 CACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
*
8183994 TCACTTATCA
1 TCACTGATCA
8184004 CTTGTTGCCA
Statistics
Matches: 183, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
100 49 0.27
101 28 0.15
102 6 0.03
104 1 0.01
105 2 0.01
106 77 0.42
107 15 0.08
108 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (104 bp):
TCACTGATCAAGTAGCCGAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCAC
TTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:8183933 original size:50 final size:50
Alignment explanation
Indices: 8183830--8184006 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
8183820 CACTGATCGG
* * *
8183830 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
8183881 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
8183931 GTAGCTGAAGCTA-CTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
8183981 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
8184007 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 1 0.01
50 92 0.79
51 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:8185479 original size:15 final size:16
Alignment explanation
Indices: 8185452--8185481 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8185442 GAACCCTCCA
8185452 ATTTAGTCCAATTTTT
1 ATTTAGTCCAATTTTT
8185468 ATTTAG-CCAATTTT
1 ATTTAGTCCAATTTT
8185482 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCAATTTTT
Found at i:8188952 original size:20 final size:20
Alignment explanation
Indices: 8188928--8188985 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
8188918 AAAATTATGA
8188928 AAAAATTTCAAAATAATTT-T
1 AAAAATTTCAAAAT-ATTTAT
*
8188948 TAAAA-TTCAAAATATTTAT
1 AAAAATTTCAAAATATTTAT
8188967 AAAAATTT-AAAA-ATTTAT
1 AAAAATTTCAAAATATTTAT
8188985 A
1 A
8188986 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.32
19 17 0.50
20 6 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTTCAAAATATTTAT
Found at i:8189012 original size:10 final size:10
Alignment explanation
Indices: 8188999--8189034 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
8188989 TAAAAAATAT
8188999 AAAAATTCTA
1 AAAAATTCTA
8189009 AAAAATTCTA
1 AAAAATTCTA
*
8189019 AAAAATATATA
1 AAAAAT-TCTA
8189030 AAAAA
1 AAAAA
8189035 GTTAAGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:8192204 original size:24 final size:24
Alignment explanation
Indices: 8192176--8192228 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
8192166 ATTCGTAAGT
* *
8192176 TAAATAAATTATGCTAATAAATGC
1 TAAATAAATTATACTAATAAATAC
*
8192200 TAAATATATTATACTAATAAATAC
1 TAAATAAATTATACTAATAAATAC
8192224 TAAAT
1 TAAAT
8192229 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATAC
Found at i:8193287 original size:20 final size:20
Alignment explanation
Indices: 8193264--8193303 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8193254 TTAAATTCTA
*
8193264 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
8193284 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
8193304 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:8195875 original size:9 final size:9
Alignment explanation
Indices: 8195840--8196085 Score: 76
Period size: 9 Copynumber: 25.9 Consensus size: 9
8195830 AGTTTTTTTT
*
8195840 TAATTTTTA
1 TAATTTTAA
*
8195849 TAAGTTTATA
1 TAATTTTA-A
8195859 TCAATTTTAA
1 T-AATTTTAA
8195869 TAATTTTAA
1 TAATTTTAA
**
8195878 TTTTTTTAA
1 TAATTTTAA
8195887 TAATTTTATA
1 TAATTTTA-A
* *
8195897 CAATGTTTAT
1 TAAT-TTTAA
*
8195907 TATCTTTTAA
1 TA-ATTTTAA
* *
8195917 GAATTCTAATTA
1 TAATT-T--TAA
8195929 TAATTTTTTAA
1 TAA--TTTTAA
*
8195940 TAA-TTTAT
1 TAATTTTAA
*
8195948 TAGATTTT-T
1 TA-ATTTTAA
*
8195957 TATATTTTTA
1 TA-ATTTTAA
8195967 TAATATTT-A
1 TAAT-TTTAA
*
8195976 TAAGTTTTTA
1 TAA-TTTTAA
*
8195986 TAATTTTTA
1 TAATTTTAA
8195995 TAATATTT-A
1 TAAT-TTTAA
*
8196004 TAAGTTTTTA
1 TAA-TTTTAA
8196014 TAA-TTTATA
1 TAATTTTA-A
8196023 TAATTTTAA
1 TAATTTTAA
8196032 TAAGTTTGT-A
1 TAA-TTT-TAA
8196042 TCAATTTTAA
1 T-AATTTTAA
* **
8196052 CAATTCAAA
1 TAATTTTAA
8196061 TAATTTT--
1 TAATTTTAA
8196068 TAATATTTAA
1 TAAT-TTTAA
*
8196078 TATTTTTA
1 TAATTTTA
8196086 TTTTTTTATA
Statistics
Matches: 181, Mismatches: 28, Indels: 56
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.02
8 12 0.07
9 87 0.48
10 52 0.29
11 19 0.10
12 4 0.02
13 1 0.01
14 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (9 bp):
TAATTTTAA
Found at i:8195983 original size:28 final size:28
Alignment explanation
Indices: 8195926--8196049 Score: 155
Period size: 28 Copynumber: 4.4 Consensus size: 28
8195916 AGAATTCTAA
*
8195926 TTATAATTTTT-TAATAATTTATTAGATTT
1 TTATAATTTTTATAAT-ATTTATAAG-TTT
8195955 TT-TATATTTTTATAATATTTATAAGTTT
1 TTATA-ATTTTTATAATATTTATAAGTTT
8195983 TTATAATTTTTATAATATTTATAAGTTT
1 TTATAATTTTTATAATATTTATAAGTTT
*
8196011 TTATAATTTATATAAT-TTTAATAAGTTT
1 TTATAATTTTTATAATATTT-ATAAGTTT
*
8196039 GTATCAATTTT
1 TTAT-AATTTT
8196050 AACAATTCAA
Statistics
Matches: 86, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
27 3 0.03
28 56 0.65
29 23 0.27
30 4 0.05
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (28 bp):
TTATAATTTTTATAATATTTATAAGTTT
Found at i:8195985 original size:19 final size:18
Alignment explanation
Indices: 8195834--8196112 Score: 138
Period size: 19 Copynumber: 14.9 Consensus size: 18
8195824 TTTTTTAGTT
*
8195834 TTTTTTTAATTTTTATAA
1 TTTTTATAATTTTTATAA
* *
8195852 GTTTATATCAATTTTAATAA
1 -TTTTTAT-AATTTTTATAA
* *
8195872 TTTTAAT-TTTTTTAATAA
1 TTTTTATAATTTTT-ATAA
* * *
8195890 TTTTATACAATGTTTATTA
1 TTTT-TATAATTTTTATAA
*
8195909 TCTTTTAAGAATTCTAATTATAA
1 T-TTTT-ATAATT-T--TTATAA
* *
8195932 TTTTTTAATAATTTATTAGAT
1 -TTTTT-ATAATTT-TTATAA
8195953 TTTTTAT-ATTTTTATAA
1 TTTTTATAATTTTTATAA
*
8195970 TATTTATAAGTTTTTATAA
1 TTTTTATAA-TTTTTATAA
*
8195989 TTTTTATAATATTTATAA
1 TTTTTATAATTTTTATAA
*
8196007 GTTTTTATAATTTATATAA
1 -TTTTTATAATTTTTATAA
* *
8196026 TTTTAATAAGTTTGTATCAA
1 TTTTTATAA-TTTTTAT-AA
* * ***
8196046 TTTTAACAATTCAAATAA
1 TTTTTATAATTTTTATAA
*
8196064 -TTTT-TAATATTTA-ATA
1 TTTTTATAATTTTTATA-A
*
8196080 TTTTTAT-TTTTTTATAA
1 TTTTTATAATTTTTATAA
* *
8196097 TTTTTTTCATTTTTAT
1 TTTTTATAATTTTTAT
8196113 GGGAAAAACA
Statistics
Matches: 199, Mismatches: 41, Indels: 41
0.71 0.15 0.15
Matches are distributed among these distances:
15 1 0.01
16 5 0.03
17 33 0.17
18 40 0.20
19 61 0.31
20 36 0.18
21 6 0.03
22 1 0.01
23 15 0.08
24 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:8199220 original size:16 final size:17
Alignment explanation
Indices: 8199191--8199229 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
8199181 ATTCTATTTT
* *
8199191 TATAATATATAAAT-TA
1 TATAAAATAAAAATATA
8199207 TATAAAATAAAAATATA
1 TATAAAATAAAAATATA
8199224 TATAAA
1 TATAAA
8199230 TATATAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATAAAAATATA
Found at i:8199230 original size:10 final size:10
Alignment explanation
Indices: 8199195--8199235 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
8199185 TATTTTTATA
8199195 ATATATAAAT
1 ATATATAAAT
8199205 -TATATAAA-
1 ATATATAAAT
8199213 ATA-A-AAAT
1 ATATATAAAT
8199221 ATATATAAAT
1 ATATATAAAT
8199231 ATATA
1 ATATA
8199236 ATGGGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
7 3 0.11
8 4 0.15
9 11 0.41
10 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATAAAT
Found at i:8220035 original size:17 final size:17
Alignment explanation
Indices: 8220013--8220045 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8220003 ATTACATTTG
*
8220013 AAAAAAATTAAAAAATT
1 AAAAAAAATAAAAAATT
8220030 AAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
8220046 ATTGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAAATAAAAAATT
Found at i:8222458 original size:22 final size:22
Alignment explanation
Indices: 8222432--8222478 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8222422 GGGAGGTCAA
*
8222432 ACGCCTATGTAAAGAGGGGCAC
1 ACGCCTATGTAAAGAGAGGCAC
* **
8222454 ACGCCTGTGTGGAGAGAGGCAC
1 ACGCCTATGTAAAGAGAGGCAC
8222476 ACG
1 ACG
8222479 GCCGTATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.36, T:0.13
Consensus pattern (22 bp):
ACGCCTATGTAAAGAGAGGCAC
Found at i:8223528 original size:50 final size:45
Alignment explanation
Indices: 8223450--8223726 Score: 235
Period size: 44 Copynumber: 6.2 Consensus size: 45
8223440 CAGTGAAACC
* *
8223450 ACAAATCCTATAC-CCCTGAAGTTACAGTGGGA-TGGATTGAAGTCAT
1 ACAAATCTTAT-CTCCCTGAAGTTACAGTGGGAGTAGATTGAAG-C-T
*
8223496 CATGGCAAATCTTATCTCCCTGAAGTTGCAGT-GGAGTAGATTGAAGCT
1 -A---CAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
* * * *
8223544 ACAAATCTTATCTCCTTGAAGTTACAGT-GGAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
* * ** ** *
8223588 ACAAATCTTATATCCCTAAAGTTGTAGT-GGAACAAATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
* * *
8223632 ACAAATCTTATCTCCATGAAGTTGCAAT-GGAGTAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
** ** * *
8223676 ACAAATCTTATCTTGCTGAAGTTGTAGT-AGAGTAGATTGAAGCG
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
8223720 ACAAATC
1 ACAAATC
8223727 CTATACCTCT
Statistics
Matches: 193, Mismatches: 32, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
44 153 0.79
47 2 0.01
48 1 0.01
49 5 0.03
50 32 0.17
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
Found at i:8223564 original size:44 final size:44
Alignment explanation
Indices: 8223501--8223726 Score: 290
Period size: 44 Copynumber: 5.1 Consensus size: 44
8223491 GTCATCATGG
8223501 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
* * * * *
8223545 CAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
* * * ** *
8223589 CAAATCTTATATCCCTAAAGTTGTAGTGGAACAAATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
* *
8223633 CAAATCTTATCTCCATGAAGTTGCAATGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
** * * *
8223677 CAAATCTTATCTTGCTGAAGTTGTAGTAGAGTAGATTGAAGCGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
8223721 CAAATC
1 CAAATC
8223727 CTATACCTCT
Statistics
Matches: 153, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 153 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
Found at i:8223696 original size:132 final size:132
Alignment explanation
Indices: 8223501--8223749 Score: 367
Period size: 132 Copynumber: 1.9 Consensus size: 132
8223491 GTCATCATGG
* *
8223501 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCTTATCTCCTTGAAGT
1 CAAATCTTATCTCCATGAAGTTGCAATGGAGTAGATTGAAGCTACAAATCTTATCTCCTTGAAGT
* * *
8223566 TACAGTGGAGCAGATTAAAGCCACAAATCTTATATCC-CTAAAGTTGTAGTGGAACAAATTGAAG
66 TACAGTAGAGCAGATTAAAGCCACAAATCCTATA-CCTCTAAAATTGTAGTGGAACAAATTGAAG
8223630 CTA
130 CTA
*
8223633 CAAATCTTATCTCCATGAAGTTGCAATGGAGTAGATTGAAGCTACAAATCTTATCTTGC-TGAAG
1 CAAATCTTATCTCCATGAAGTTGCAATGGAGTAGATTGAAGCTACAAATCTTATC-TCCTTGAAG
** * * *
8223697 TTGTAGTAGAGTAGATTGAAGCGACAAATCCTATACCTCTAAAATTGTAGTGG
65 TTACAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAATTGTAGTGG
8223750 GTCGGGTTAA
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
131 2 0.02
132 100 0.96
133 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (132 bp):
CAAATCTTATCTCCATGAAGTTGCAATGGAGTAGATTGAAGCTACAAATCTTATCTCCTTGAAGT
TACAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAATTGTAGTGGAACAAATTGAAGC
TA
Found at i:8223745 original size:44 final size:44
Alignment explanation
Indices: 8223661--8223747 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
8223651 AGTTGCAATG
* * * * *
8223661 GAGTAGATTGAAGCTACAAATCTTATCTTGCTGAAGTTGTAGTA
1 GAGTAGATTGAAGCGACAAATCCTATCCTGCTAAAATTGTAGTA
8223705 GAGTAGATTGAAGCGACAAATCCTATACCT-CTAAAATTGTAGT
1 GAGTAGATTGAAGCGACAAATCCTAT-CCTGCTAAAATTGTAGT
8223748 GGGTCGGGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (44 bp):
GAGTAGATTGAAGCGACAAATCCTATCCTGCTAAAATTGTAGTA
Found at i:8223887 original size:44 final size:44
Alignment explanation
Indices: 8223820--8223913 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 44
8223810 AGCTACAAGT
*
8223820 TACAAATCTTATCTTCCTAAAGTTGAAGTGGAGTAGATTAAAGC
1 TACAAATCTTATCTGCCTAAAGTTGAAGTGGAGTAGATTAAAGC
* * * * *
8223864 TACAAGTCTTATCTGCTTGAAGTTGTAGTGGAGTAGATTAAAAC
1 TACAAATCTTATCTGCCTAAAGTTGAAGTGGAGTAGATTAAAGC
8223908 TA-AAAT
1 TACAAAT
8223914 TCCTATACCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (44 bp):
TACAAATCTTATCTGCCTAAAGTTGAAGTGGAGTAGATTAAAGC
Found at i:8223929 original size:44 final size:44
Alignment explanation
Indices: 8223829--8223932 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
8223819 TTACAAATCT
* * * * *
8223829 TATCTTCCTAAAGTTGAAGTGGAGTAGATTAAAGCTACAAGTCT
1 TATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAACTAAAAGTCC
* * * *
8223873 TATCTGCTTGAAGTTGTAGTGGAGTAGATTAAAACTAAAATTCC
1 TATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAACTAAAAGTCC
8223917 TATAC-CCCTGAAGTTG
1 TAT-CTCCCTGAAGTTG
8223933 CAGTTGGTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
44 48 0.98
45 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAACTAAAAGTCC
Found at i:8224115 original size:6 final size:6
Alignment explanation
Indices: 8224106--8224140 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
8224096 AACAGAAACC
8224106 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
8224141 AATAACAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:8225617 original size:354 final size:352
Alignment explanation
Indices: 8225125--8225779 Score: 976
Period size: 354 Copynumber: 1.9 Consensus size: 352
8225115 AATCACGTAG
* * *
8225125 GATCCGCGCATTTTGGCATAAGGGGTCTATTTGTGCCTTTGGTCCTTCCGCTTTTGCGGCTTGTT
1 GATCCCCGCATTTTGGCATAAGGGGTCTATTTGTGCCTTTGGTCATTCCACTTTTGCGGCTTGTT
8225190 TCAATTTAGTCCTGTTTTATTTTTTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGG
66 TCAATTTAGTCCTGTTTTATTTTTTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGG
* * ** * *
8225255 GACATTTTAGGAAATGGGTACCTGAAACGACATCGTTTCAGTTGACCTGAAGACCCAAC-CTACA
131 GACATTTTAGGAAATGGGTACATGAAACGACATCGTTACAGCCGACCCGAAGACCCAACTCGA-A
*
8225319 CAGTACAGGATCCGTGTGTTTTCT-AAAGGGGGTCTAATTGATGCTTAGGCCATTCCATTTTTTT
195 CAGTACAGGATCCGCGTGTTTTCTAAAAGGGGGTCTAATTGATGCTTAGGCCATTCCATTTTTTT
*
8225383 TGCTGCTTTTCAATTTCATCCTATTA-TTATTTTTTTTATTTTCACACCTTTTGTTTTGTTTTTT
260 TGCTACTTTTCAATTTCATCCTATTATTTA-TTTTTTTATTTTCACACCTTTTGTTTTGTTTTTT
8225447 TTTTTCAATTTAGTCCCTGAACCATGCAT
324 TTTTTCAATTTAGTCCCTGAACCATGCAT
* *
8225476 GATCCCCGCGTTTTGGCATAAGGGGTCTATTTGTG-CTTTGGTCATTTCACTTTTGCGGCTTGTT
1 GATCCCCGCATTTTGGCATAAGGGGTCTATTTGTGCCTTTGGTCATTCCACTTTTGCGGCTTGTT
* * *
8225540 TCAGTTTAGTCTTGTTTTATTTTTTAATTTTTCCATTTAATTTAATTTTATTTTCATTTTGGTCC
66 TCAATTTAGTCCTGTTTTA--TTTT--TTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCC
* * * *
8225605 ATGGGACATTTTAGGAAATGGGTACATGAAACGACGTCGTTACAGCCGACCCGATGACTCGACTC
127 ATGGGACATTTTAGGAAATGGGTACATGAAACGACATCGTTACAGCCGACCCGAAGACCCAACTC
* * * * * *
8225670 GAATAGTGCAGGATCCGCGTGTTTTTTAAAAGGGGGTCTAATTGTTGCTTAGGCCCTTCCGTTTT
192 GAACAGTACAGGATCCGCGTGTTTTCTAAAAGGGGGTCTAATTGATGCTTAGGCCATTCCATTTT
* *
8225735 TTTTGCTACTTTTCATTTTCATCCTATTGTTTATTTTTTTATTTT
257 TTTTGCTACTTTTCAATTTCATCCTATTATTTATTTTTTTATTTT
8225780 TTTATTTCCA
Statistics
Matches: 269, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
350 43 0.16
351 33 0.12
352 4 0.01
354 112 0.42
355 74 0.28
356 3 0.01
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (352 bp):
GATCCCCGCATTTTGGCATAAGGGGTCTATTTGTGCCTTTGGTCATTCCACTTTTGCGGCTTGTT
TCAATTTAGTCCTGTTTTATTTTTTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGG
GACATTTTAGGAAATGGGTACATGAAACGACATCGTTACAGCCGACCCGAAGACCCAACTCGAAC
AGTACAGGATCCGCGTGTTTTCTAAAAGGGGGTCTAATTGATGCTTAGGCCATTCCATTTTTTTT
GCTACTTTTCAATTTCATCCTATTATTTATTTTTTTATTTTCACACCTTTTGTTTTGTTTTTTTT
TTTCAATTTAGTCCCTGAACCATGCAT
Found at i:8226079 original size:9 final size:9
Alignment explanation
Indices: 8226067--8226110 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
8226057 TTTTATTTTA
*
8226067 ATTATTGAT
1 ATTATTAAT
8226076 ATTATTAAT
1 ATTATTAAT
8226085 ATTATTAAT
1 ATTATTAAT
*
8226094 ATTATTAAC
1 ATTATTAAT
8226103 ATTATTAA
1 ATTATTAA
8226111 ATAATCATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (9 bp):
ATTATTAAT
Found at i:8231935 original size:21 final size:21
Alignment explanation
Indices: 8231911--8231990 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
8231901 CTTCCTGGTC
8231911 CACACGGACGTGTGCCTCAGT
1 CACACGGACGTGTGCCTCAGT
* *
8231932 CACATGG-C-TGTGGACTTCTC-TT
1 CACACGGACGTGT-G-C--CTCAGT
8231954 CACAC-GAGCGTGTGCCTCAGT
1 CACACGGA-CGTGTGCCTCAGT
*
8231975 CACACGGCCGTGTGCC
1 CACACGGACGTGTGCC
8231991 CCTCTTCACA
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
19 3 0.07
20 5 0.11
21 22 0.49
22 7 0.16
23 5 0.11
24 3 0.07
ACGTcount: A:0.16, C:0.34, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGACGTGTGCCTCAGT
Found at i:8231996 original size:43 final size:43
Alignment explanation
Indices: 8231911--8232000 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
8231901 CTTCCTGGTC
* * **
8231911 CACACGGACGTGTGCCTCAGTCACATGGCTGTGGACTTCTCTT
1 CACACGGACGTGTGCCTCAGTCACACGGCCGTGGACCCCTCTT
8231954 CACAC-GAGCGTGTGCCTCAGTCACACGGCCGTGTG-CCCCTCTT
1 CACACGGA-CGTGTGCCTCAGTCACACGGCCGTG-GACCCCTCTT
8231997 CACA
1 CACA
8232001 TAGGCGTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 2 0.05
43 38 0.93
44 1 0.02
ACGTcount: A:0.17, C:0.36, G:0.24, T:0.23
Consensus pattern (43 bp):
CACACGGACGTGTGCCTCAGTCACACGGCCGTGGACCCCTCTT
Found at i:8234761 original size:23 final size:23
Alignment explanation
Indices: 8234735--8234779 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8234725 ATTTAATAAT
* *
8234735 ATTTATAGTTTTTATTGATTTTA
1 ATTTATAATTTTTATTAATTTTA
* *
8234758 ATTTTTAATTTTTTTTAATTTT
1 ATTTATAATTTTTATTAATTTT
8234780 TAATAAAAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
ATTTATAATTTTTATTAATTTTA
Found at i:8234763 original size:17 final size:17
Alignment explanation
Indices: 8234743--8234783 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8234733 ATATTTATAG
8234743 TTTTT-ATTGATTTTAA
1 TTTTTAATTGATTTTAA
**
8234759 TTTTTAATTTTTTTTAA
1 TTTTTAATTGATTTTAA
8234776 TTTTTAAT
1 TTTTTAAT
8234784 AAAAGTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTAATTGATTTTAA
Found at i:8236632 original size:42 final size:42
Alignment explanation
Indices: 8236552--8236632 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
8236542 AATATATATA
* *
8236552 TATATAGCCGAAGCTACCTCAATCTCGCACACTAAGTGCAAT
1 TATATAGCCGAAGCTACCTCAATCTAGCACACGAAGTGCAAT
* ** * *
8236594 TATATAGCCGAAGCTATCTTGATTTAGCACACGCAGTGC
1 TATATAGCCGAAGCTACCTCAATCTAGCACACGAAGTGC
8236633 CCATAATTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
TATATAGCCGAAGCTACCTCAATCTAGCACACGAAGTGCAAT
Found at i:8238157 original size:26 final size:26
Alignment explanation
Indices: 8238121--8238230 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
8238111 TGATACAAAT
8238121 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8238147 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
8238173 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
8238199 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8238225 TGATAA
1 TGATAA
8238231 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:8239748 original size:26 final size:26
Alignment explanation
Indices: 8239716--8239768 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8239706 TTTAAAATTT
8239716 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
8239742 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
8239768 T
1 T
8239769 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:8245198 original size:26 final size:26
Alignment explanation
Indices: 8245162--8245270 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
8245152 TGATACAAAT
*
8245162 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
8245188 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
8245214 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
8245240 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
8245265 TGATAA
1 TGATAA
8245271 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 8 0.10
26 70 0.90
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:8248055 original size:7 final size:7
Alignment explanation
Indices: 8248045--8248083 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
8248035 AGTAATTCAA
8248045 TTTAAAT
1 TTTAAAT
8248052 TTTAAAT
1 TTTAAAT
8248059 TTT-AAT
1 TTTAAAT
8248065 TATATAAAT
1 T-T-TAAAT
8248074 TTTAAAT
1 TTTAAAT
8248081 TTT
1 TTT
8248084 TTTAATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 4 0.14
7 19 0.66
8 2 0.07
9 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTAAAT
Found at i:8248627 original size:42 final size:42
Alignment explanation
Indices: 8248581--8248661 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
8248571 TAGAAAAGTT
*
8248581 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
*
8248623 ACAGAGAGCAAACGTGAGAAAGAAAGAAGGAAAGAAAGA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGA
8248662 AAGAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.58, C:0.09, G:0.28, T:0.05
Consensus pattern (42 bp):
ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:8248655 original size:12 final size:12
Alignment explanation
Indices: 8248640--8248679 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
8248630 GCAAACGTGA
8248640 GAAAGAAAGAAG
1 GAAAGAAAGAAG
*
8248652 GAAAGAAAGAAA
1 GAAAGAAAGAAG
* *
8248664 GAAATAAAAAAG
1 GAAAGAAAGAAG
8248676 GAAA
1 GAAA
8248680 ATTTGTGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (12 bp):
GAAAGAAAGAAG
Found at i:8254687 original size:44 final size:44
Alignment explanation
Indices: 8254600--8254722 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
8254590 CTGTACATTT
* * *
8254600 AGTCTGCTCCACT-ACGACTTCAAGGAGACGAGACTTGTAACTTC
1 AGTCTGCTCCACTGA-GGCTTCAAGGAGACAAGACTAGTAACTTC
* * *
8254644 AGTCTGCTCCACTGAGGCTTCAAGGAGATAAGGCTAGTGACTTC
1 AGTCTGCTCCACTGAGGCTTCAAGGAGACAAGACTAGTAACTTC
* * * * *
8254688 AATTTGCTTCGCTGAGGCTTC-AGGAAGACATGACT
1 AGTCTGCTCCACTGAGGCTTCAAGG-AGACAAGACT
8254723 CACCGTCTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 3 0.05
44 60 0.94
45 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (44 bp):
AGTCTGCTCCACTGAGGCTTCAAGGAGACAAGACTAGTAACTTC
Found at i:8254875 original size:42 final size:43
Alignment explanation
Indices: 8254813--8254921 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 43
8254803 TTAAAGCTCG
* * * *
8254813 ACCTGTTTCCCTACTACTTAGGGGTTT-AGATCTGTAAATTCA
1 ACCTGTTACCCTATTGCTTAGGGGTTTAAGATCTGAAAATTCA
* * **
8254855 ACCTGTTACCCTATTGCTTAGGGGTTTAAGGTTTGAAAATTTG
1 ACCTGTTACCCTATTGCTTAGGGGTTTAAGATCTGAAAATTCA
* *
8254898 GCTTGTTACCCTATTGCTTAGGGG
1 ACCTGTTACCCTATTGCTTAGGGG
8254922 GTTGAAGCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 24 0.43
43 32 0.57
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (43 bp):
ACCTGTTACCCTATTGCTTAGGGGTTTAAGATCTGAAAATTCA
Found at i:8267151 original size:3 final size:3
Alignment explanation
Indices: 8267143--8267231 Score: 67
Period size: 3 Copynumber: 30.0 Consensus size: 3
8267133 GGGCAAAAAT
* * * *
8267143 ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATG ATA ATA ATA A-A GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
8267189 ATAA ATC ATA ATG ATA ATA GTA ATA ACA AT- ATA AGTA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
8267232 TAAGTAAATA
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 5 0.07
3 56 0.84
4 6 0.09
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8267230 original size:30 final size:28
Alignment explanation
Indices: 8267146--8267234 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 28
8267136 CAAAAATATA
* * *
8267146 ATAATAATAATATAATAGTAGTAATAATG
1 ATAATAATAAAACAATA-AAGTAATAATG
** *
8267175 ATAATAATAAAGTAATAAA-TCATAATG
1 ATAATAATAAAACAATAAAGTAATAATG
*
8267202 ATAATAGTAATAACAATATAAGTAATAAT-
1 ATAATAATAA-AACAATA-AAGTAATAATG
8267231 ATAA
1 ATAA
8267235 GTAAATACAG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
27 16 0.33
28 6 0.12
29 21 0.43
30 6 0.12
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (28 bp):
ATAATAATAAAACAATAAAGTAATAATG
Found at i:8269860 original size:41 final size:41
Alignment explanation
Indices: 8269803--8269888 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
8269793 TAGCGGAATC
*
8269803 ATCCCCAACTCTATCTCCAATGCTTCCATGCTTAAGATTCT
1 ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
8269844 ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
1 ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
8269885 ATCC
1 ATCC
8269889 TTGGCACATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.26, C:0.34, G:0.07, T:0.34
Consensus pattern (41 bp):
ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
Found at i:8272097 original size:16 final size:16
Alignment explanation
Indices: 8272064--8272110 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
8272054 TAGTACTTTA
*
8272064 AATTTATA-GTTA-TT
1 AATTTATATTTTATTT
8272078 AATTTATATTTTATTT
1 AATTTATATTTTATTT
8272094 AATTT-TATTCTTATTT
1 AATTTATATT-TTATTT
8272110 A
1 A
8272111 TTCTTATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.28
15 7 0.24
16 14 0.48
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
AATTTATATTTTATTT
Found at i:8272117 original size:16 final size:15
Alignment explanation
Indices: 8272073--8272130 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
8272063 AAATTTATAG
*
8272073 TTATTAATTTATATT-
1 TTATTTATTT-TATTC
8272088 TTATTTAATTTTATTC
1 TTATTT-ATTTTATTC
8272104 TTATTTATTCTTATTC
1 TTATTTATT-TTATTC
8272120 TTATTCTATTT
1 TTATT-TATTT
8272131 ATTACTCTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 12 0.32
16 22 0.58
17 4 0.11
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTATTTTATTC
Found at i:8272701 original size:13 final size:13
Alignment explanation
Indices: 8272668--8272702 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
8272658 AGAGATTTGG
8272668 GGTCACATGGCCT
1 GGTCACATGGCCT
8272681 GG-CTACATGGCCT
1 GGTC-ACATGGCCT
8272694 GGTCACATG
1 GGTCACATG
8272703 ATTTGGGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (13 bp):
GGTCACATGGCCT
Found at i:8277384 original size:44 final size:43
Alignment explanation
Indices: 8277310--8277460 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 43
8277300 ATATATGTTA
* * * *
8277310 TCGTGTAAGACCACGTCTGAGACGTTGGCATCGAT-TTGAGATT
1 TCGTATAAGACCATGTCTGGGAC-ATGGCATCGATATTGAGATT
* *
8277353 TATGTATAAGACCATGTCTGGGACATCGGCATC-ATATT-TGATT
1 T-CGTATAAGACCATGTCTGGGACAT-GGCATCGATATTGAGATT
* *
8277396 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT--GATT
1 TCGTATAAGACCATGTCTGGGACA-TGGCATCGATATTGAGATT
* * * *
8277438 ACATGTAAGACCACGTCTGGGAC
1 TCGTATAAGACCATGTCTGGGAC
8277461 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
42 49 0.54
43 15 0.17
44 26 0.29
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TCGTATAAGACCATGTCTGGGACATGGCATCGATATTGAGATT
Found at i:8277413 original size:42 final size:42
Alignment explanation
Indices: 8277359--8277468 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 42
8277349 GATTTATGTA
* * *
8277359 TAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGATTTCGTG
1 TAAGACCCTGTCTGGGACAGT-GGCATCGATA-TTGATTACATG
8277401 TAAGACCCTGTCTGGGACAGTGGCATCGATATTGATTACATG
1 TAAGACCCTGTCTGGGACAGTGGCATCGATATTGATTACATG
8277443 TAAGACCAC-GTCTGGGAC-GTTGGCAT
1 TAAGACC-CTGTCTGGGACAG-TGGCAT
8277469 TGTACGATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
41 1 0.02
42 55 0.90
43 5 0.08
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGACAGTGGCATCGATATTGATTACATG
Found at i:8290954 original size:23 final size:23
Alignment explanation
Indices: 8290928--8290997 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
8290918 CATAACAGAC
8290928 ATATATAGGTTCGCATACTACTA
1 ATATATAGGTTCGCATACTACTA
* * * *
8290951 ATATGT-GAGTTTGCATAACAAAT-
1 ATATATAG-GTTCGCAT-ACTACTA
*
8290974 ATATATAGGTTCGCATACTGCTA
1 ATATATAGGTTCGCATACTACTA
8290997 A
1 A
8290998 CATGTGAGTT
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
22 4 0.12
23 25 0.74
24 5 0.15
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (23 bp):
ATATATAGGTTCGCATACTACTA
Found at i:8290960 original size:46 final size:46
Alignment explanation
Indices: 8290809--8291015 Score: 233
Period size: 46 Copynumber: 4.5 Consensus size: 46
8290799 GGATCACATG
* * *
8290809 CTGCTAATCATATGAGTTTGCATAA-AGGCGTATATAGGGTTC-CATA
1 CTGCTAAT-ATGTGAGTTTGCATAACAGACATATATA-GGTTCGCATA
* * * * *
8290855 CTGCCAATGTGTGAGTTTACATAACAGA-A-ATATGGGTTTGCATA
1 CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
* *
8290899 CTGCTGACATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
1 CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
* * *
8290945 CTACTAATATGTGAGTTTGCATAACAAATATATATAGGTTCGCATA
1 CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
* *
8290991 CTGCTAACATGTGAGTTCGCATAAC
1 CTGCTAATATGTGAGTTTGCATAAC
8291016 TGATAAGCTG
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
43 4 0.03
44 31 0.23
45 14 0.10
46 85 0.63
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (46 bp):
CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
Found at i:8290974 original size:21 final size:21
Alignment explanation
Indices: 8290907--8290975 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 21
8290897 TACTGCTGAC
8290907 ATGTGAGTTTGCATAACAGACAT
1 ATGTGAGTTTGCATAACA-A-AT
* * *
8290930 ATAT-AGGTTCGCATACTACTAAT
1 ATGTGA-GTTTGCATA--ACAAAT
8290953 ATGTGAGTTTGCATAACAAAT
1 ATGTGAGTTTGCATAACAAAT
8290974 AT
1 AT
8290976 ATATAGGTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
21 7 0.19
22 1 0.03
23 24 0.67
24 2 0.06
25 2 0.06
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGTGAGTTTGCATAACAAAT
Found at i:8291013 original size:92 final size:90
Alignment explanation
Indices: 8290791--8291015 Score: 256
Period size: 90 Copynumber: 2.5 Consensus size: 90
8290781 GGGTTTGCAT
* * * * * *
8290791 AAATATAGGGATCACATGCTGCTAATCATATGAGTTTGCATAA-AGGCGTATATAGGGTTCCATA
1 AAATATA-GGTTCGCATACTGCTAA-CATGTGAGTTTGCATAACAGACATATATAGGGTTCCATA
* * *
8290855 CTGCCAATGTGTGAGTTTACATAACAG
64 CTACCAATATGTGAGTTTACATAACAA
* * *
8290882 AAATATGGGTTTGCATACTGCTGACATGTGAGTTTGCATAACAGACATATATA-GGTTCGCATAC
1 AAATATAGGTTCGCATACTGCTAACATGTGAGTTTGCATAACAGACATATATAGGGTTC-CATAC
* *
8290946 TACTAATATGTGAGTTTGCATAACAA
65 TACCAATATGTGAGTTTACATAACAA
*
8290972 ATATATATAGGTTCGCATACTGCTAACATGTGAGTTCGCATAAC
1 A-A-ATATAGGTTCGCATACTGCTAACATGTGAGTTTGCATAAC
8291016 TGATAAGCTG
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
89 21 0.19
90 48 0.43
91 7 0.06
92 36 0.32
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (90 bp):
AAATATAGGTTCGCATACTGCTAACATGTGAGTTTGCATAACAGACATATATAGGGTTCCATACT
ACCAATATGTGAGTTTACATAACAA
Found at i:8292707 original size:31 final size:31
Alignment explanation
Indices: 8292659--8292744 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
8292649 TCAATTTCAA
*
8292659 CATAT-ACTGGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
8292689 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
8292720 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
8292745 GGTAAACGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:8293732 original size:27 final size:27
Alignment explanation
Indices: 8293702--8293841 Score: 153
Period size: 27 Copynumber: 5.2 Consensus size: 27
8293692 GTTATGGAGT
8293702 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
8293729 CACCA-AAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
8293756 CACCAGAT-CAGAAAATTGTGGCATAGC
1 CACCAGATACAG-ATATTGTGGCAGAGC
* * *
8293783 CACCAG-GACAAATATATGTGCCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
8293810 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8293837 CACCA
1 CACCA
8293842 AGACGCTTCC
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
26 12 0.13
27 75 0.81
28 6 0.06
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:8293774 original size:54 final size:54
Alignment explanation
Indices: 8293702--8293842 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
8293692 GTTATGGAGT
* * * *
8293702 CACCAGATACAG-ATATTGTGGCAGAGCCACCAAAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGAAAATTGTGGCATAGCCACCAAAACAAATATATGTGCCAGAGC
**
8293756 CACCAGATCAGAAAATTGTGGCATAGCCACCAGGACAAATATATGTGCCAGAGC
1 CACCAGATCAGAAAATTGTGGCATAGCCACCAAAACAAATATATGTGCCAGAGC
*
8293810 CACCAGATCAGATAATTGTGGCATAGCCACCAA
1 CACCAGATCAGAAAATTGTGGCATAGCCACCAA
8293843 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 3 0.04
54 75 0.96
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGAAAATTGTGGCATAGCCACCAAAACAAATATATGTGCCAGAGC
Found at i:8296002 original size:25 final size:25
Alignment explanation
Indices: 8295969--8296038 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
8295959 CTCTTTTAAT
* *
8295969 AACTAGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTAGTA
8295994 AACTGGGGCAAAGCCCTTTTTAGTA
1 AACTGGGGCAAAGCCCTTTTTAGTA
* *
8296019 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
8296039 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTAGTA
Found at i:8296099 original size:10 final size:10
Alignment explanation
Indices: 8296083--8296122 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
8296073 CATTTATGAA
8296083 CATATCATGG
1 CATATCATGG
*
8296093 AATATCATGTG
1 CATATCATG-G
8296104 CATATCATGG
1 CATATCATGG
8296114 CATATCATG
1 CATATCATG
8296123 TACAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:8296107 original size:21 final size:21
Alignment explanation
Indices: 8296083--8296123 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8296073 CATTTATGAA
8296083 CATATCATGGAATATCATGTG
1 CATATCATGGAATATCATGTG
*
8296104 CATATCATGGCATATCATGT
1 CATATCATGGAATATCATGT
8296124 ACAAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (21 bp):
CATATCATGGAATATCATGTG
Found at i:8302004 original size:14 final size:14
Alignment explanation
Indices: 8301985--8302040 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
8301975 ATTAATTGTG
*
8301985 ATTAAGGTTAATTA
1 ATTAAGTTTAATTA
*
8301999 ATTAAGATTTAATTT
1 ATTAAG-TTTAATTA
* *
8302014 ATTAAATTTGATTA
1 ATTAAGTTTAATTA
8302028 ATTAAGATTTAAT
1 ATTAAG-TTTAAT
8302041 CTAAATATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 17 0.52
15 16 0.48
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (14 bp):
ATTAAGTTTAATTA
Found at i:8302012 original size:15 final size:15
Alignment explanation
Indices: 8301992--8302040 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
8301982 GTGATTAAGG
8301992 TTAATTAATTAAGAT
1 TTAATTAATTAAGAT
*
8302007 TTAATTTATTAA-AT
1 TTAATTAATTAAGAT
*
8302021 TTGATTAATTAAGAT
1 TTAATTAATTAAGAT
8302036 TTAAT
1 TTAAT
8302041 CTAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (15 bp):
TTAATTAATTAAGAT
Found at i:8306288 original size:26 final size:26
Alignment explanation
Indices: 8306251--8306334 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
8306241 TGATACAAAT
* *
8306251 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8306277 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8306303 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8306329 TGATAA
1 TGATAA
8306335 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:8307979 original size:27 final size:27
Alignment explanation
Indices: 8307941--8308051 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
8307931 GGTTATATTA
8307941 TGGTGGCTCTGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
8307968 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
8307995 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTG-ATC
* * * * *
8308023 TAGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
8308049 TGG
1 TGG
8308052 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.06
27 54 0.75
28 14 0.19
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:8307999 original size:54 final size:54
Alignment explanation
Indices: 8307941--8308051 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
8307931 GGTTATATTA
* *
8307941 TGGTGGCTCTGCCACAAATATCTG-ATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGTATCTAGTGACTCTGCCACAT-TATCTGTTC
* * *
8307995 TGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGTATCTAGTGACTCTGCCACATTATCTGTTC
8308049 TGG
1 TGG
8308052 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
TGGTGGCTCTGCCACAAATATCTGTATCTAGTGACTCTGCCACATTATCTGTTC
Found at i:8308137 original size:19 final size:22
Alignment explanation
Indices: 8308113--8308152 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
8308103 CTCCCCACAC
8308113 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
8308132 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
8308153 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:8316212 original size:31 final size:28
Alignment explanation
Indices: 8316176--8316245 Score: 97
Period size: 27 Copynumber: 2.4 Consensus size: 28
8316166 ATATTAAATT
8316176 GTGAAAAGTTAGACTAAATAAACTAAGGTTA
1 GTGAAAAGTTA-A--AAATAAACTAAGGTTA
*
8316207 GTGAAAAGTT-AAAATGAACTAAGGTTA
1 GTGAAAAGTTAAAAATAAACTAAGGTTA
8316234 GTGAAAAGTTAA
1 GTGAAAAGTTAA
8316246 GCCTTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 25 0.68
28 1 0.03
29 1 0.03
31 10 0.27
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (28 bp):
GTGAAAAGTTAAAAATAAACTAAGGTTA
Done.