Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 35 of 141
Found at i:10565760 original size:44 final size:42
Alignment explanation
Indices: 10565712--10565805 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
10565702 AAAATGAATA
* *
10565712 AAATTATAAAATGCAAAAAGATATATGTATGTACATATATATAT
1 AAATTATAAAAT--AAAAAGATATATATAAGTACATATATATAT
* * * *
10565756 AAATTATAAGATATAAATATATATATAAGTACGTATATATAT
1 AAATTATAAAATAAAAAGATATATATAAGTACATATATATAT
10565798 AAATTATA
1 AAATTATA
10565806 CAAAATTATG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 33 0.75
44 11 0.25
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.36
Consensus pattern (42 bp):
AAATTATAAAATAAAAAGATATATATAAGTACATATATATAT
Found at i:10565822 original size:25 final size:25
Alignment explanation
Indices: 10565794--10565848 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
10565784 GTACGTATAT
10565794 ATATAAATTATACAAAAT-TATG-TGC
1 ATAT-AATTATA-AAAATGTATGATGC
10565819 ATAT-ATTATAAAAATGTATGCATGC
1 ATATAATTATAAAAATGTATG-ATGC
10565844 ATATA
1 ATATA
10565849 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
25 11 0.42
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (25 bp):
ATATAATTATAAAAATGTATGATGC
Found at i:10565826 original size:23 final size:24
Alignment explanation
Indices: 10565800--10565854 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 24
10565790 ATATATATAA
10565800 ATTATACAAAAT-TATG-TGCATAT
1 ATTATA-AAAATGTATGATGCATAT
10565823 ATTATAAAAATGTATGCATGCATAT
1 ATTATAAAAATGTATG-ATGCATAT
10565848 ATATATA
1 AT-TATA
10565855 TATAACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.18
23 10 0.36
25 9 0.32
26 4 0.14
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.38
Consensus pattern (24 bp):
ATTATAAAAATGTATGATGCATAT
Found at i:10569459 original size:9 final size:10
Alignment explanation
Indices: 10569442--10569466 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10569432 TTAAAGCATT
10569442 TTAAAAAAAA
1 TTAAAAAAAA
10569452 TTAAAAAAAA
1 TTAAAAAAAA
10569462 TTAAA
1 TTAAA
10569467 TGACTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:10569589 original size:5 final size:5
Alignment explanation
Indices: 10569579--10569607 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10569569 AATAGAATGG
10569579 GAGAA GAGAA GAGAA GAGAA GAGAA GAGA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGA
10569608 GACATTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:10575001 original size:20 final size:20
Alignment explanation
Indices: 10574976--10575069 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
10574966 TTATTATTAA
10574976 AAATAATTTAATAAAATAAT
1 AAATAATTTAATAAAATAAT
** * **
10574996 AAATAATTTAACCATATTTT
1 AAATAATTTAATAAAATAAT
* *
10575016 AACATAA-TT-AT-TATTAA-
1 AA-ATAATTTAATAAAATAAT
*
10575033 ATATAATTTAATAAAATAAT
1 AAATAATTTAATAAAATAAT
*
10575053 ATATAATTTAATAAAAT
1 AAATAATTTAATAAAAT
10575070 TCTTAATATA
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
16 4 0.07
17 3 0.05
18 3 0.05
19 5 0.09
20 36 0.65
21 4 0.07
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATAATTTAATAAAATAAT
Found at i:10575042 original size:57 final size:58
Alignment explanation
Indices: 10574965--10575087 Score: 185
Period size: 57 Copynumber: 2.1 Consensus size: 58
10574955 TTTTAATAAG
* *
10574965 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
10575022 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
10575080 ATTATTAT
1 ATTATTAT
10575088 ATGAATTTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 44 0.75
58 15 0.25
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:10576422 original size:218 final size:218
Alignment explanation
Indices: 10576044--10576481 Score: 876
Period size: 218 Copynumber: 2.0 Consensus size: 218
10576034 AATAAGGGAA
10576044 ACTACGATGTTTGAATTGATCGGCTTCTTTATGACTCTATAAAAATGAGGAATTAATTTTAGATA
1 ACTACGATGTTTGAATTGATCGGCTTCTTTATGACTCTATAAAAATGAGGAATTAATTTTAGATA
10576109 TAAGTTTGGTCAAAAAAAGATAATAAAGACTTGAAATAATTCTTACATTTATATATGAGTTCCAT
66 TAAGTTTGGTCAAAAAAAGATAATAAAGACTTGAAATAATTCTTACATTTATATATGAGTTCCAT
10576174 ACCGCATCTTCAGCAACAACAAGCTGCCTATGCTAATCCCAACCAAAACCGCTATTATTTTTTCT
131 ACCGCATCTTCAGCAACAACAAGCTGCCTATGCTAATCCCAACCAAAACCGCTATTATTTTTTCT
10576239 ATTAAGCATGTCATAAACGATTG
196 ATTAAGCATGTCATAAACGATTG
10576262 ACTACGATGTTTGAATTGATCGGCTTCTTTATGACTCTATAAAAATGAGGAATTAATTTTAGATA
1 ACTACGATGTTTGAATTGATCGGCTTCTTTATGACTCTATAAAAATGAGGAATTAATTTTAGATA
10576327 TAAGTTTGGTCAAAAAAAGATAATAAAGACTTGAAATAATTCTTACATTTATATATGAGTTCCAT
66 TAAGTTTGGTCAAAAAAAGATAATAAAGACTTGAAATAATTCTTACATTTATATATGAGTTCCAT
10576392 ACCGCATCTTCAGCAACAACAAGCTGCCTATGCTAATCCCAACCAAAACCGCTATTATTTTTTCT
131 ACCGCATCTTCAGCAACAACAAGCTGCCTATGCTAATCCCAACCAAAACCGCTATTATTTTTTCT
10576457 ATTAAGCATGTCATAAACGATTG
196 ATTAAGCATGTCATAAACGATTG
10576480 AC
1 AC
10576482 CAATCCCTTT
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 220 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (218 bp):
ACTACGATGTTTGAATTGATCGGCTTCTTTATGACTCTATAAAAATGAGGAATTAATTTTAGATA
TAAGTTTGGTCAAAAAAAGATAATAAAGACTTGAAATAATTCTTACATTTATATATGAGTTCCAT
ACCGCATCTTCAGCAACAACAAGCTGCCTATGCTAATCCCAACCAAAACCGCTATTATTTTTTCT
ATTAAGCATGTCATAAACGATTG
Found at i:10578686 original size:11 final size:11
Alignment explanation
Indices: 10578670--10578695 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10578660 TCAATCACCC
10578670 AAAAAAGAAAG
1 AAAAAAGAAAG
10578681 AAAAAAGAAAG
1 AAAAAAGAAAG
10578692 AAAA
1 AAAA
10578696 GAAAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:10581181 original size:11 final size:11
Alignment explanation
Indices: 10581165--10581199 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10581155 TTGGACATCG
10581165 ATCAAAGAAAA
1 ATCAAAGAAAA
*
10581176 ATCAAAG-AGA
1 ATCAAAGAAAA
10581186 ATCAAAGAAAA
1 ATCAAAGAAAA
10581197 ATC
1 ATC
10581200 CGTAAAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.11
Consensus pattern (11 bp):
ATCAAAGAAAA
Found at i:10584448 original size:17 final size:19
Alignment explanation
Indices: 10584426--10584461 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
10584416 TTACTTATAT
10584426 AAATTATA-TAATA-AATA
1 AAATTATATTAATATAATA
10584443 AAATTATATTAATATAATA
1 AAATTATATTAATATAATA
10584462 TATTACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTATATTAATATAATA
Found at i:10592009 original size:3 final size:3
Alignment explanation
Indices: 10591995--10592037 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
10591985 TCGTTGCTAC
10591995 TAT TACT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10592038 ACTTACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10597301 original size:7 final size:6
Alignment explanation
Indices: 10597287--10597344 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 6
10597277 ATGAAATGGA
*
10597287 AAAATG AAAAGTG AAAATG AGAAATG AGAAATG AAAAATGG AAAAAG TAAAATG
1 AAAATG AAAA-TG AAAATG A-AAATG A-AAATG -AAAAT-G AAAATG -AAAATG
10597341 AAAA
1 AAAA
10597345 GGATAAGGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 12 0.27
7 31 0.69
8 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:10597305 original size:21 final size:20
Alignment explanation
Indices: 10597276--10597344 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
10597266 TCGTAAAAAT
10597276 AATG-AAATGGAAAAATGAA
1 AATGAAAATGGAAAAATGAA
*
10597295 AAGTGAAAAT-GAGAAATGAGA
1 AA-TGAAAATGGAAAAATGA-A
10597316 AATGAAAAATGGAAAAA-GTAA
1 AATG-AAAATGGAAAAATG-AA
10597337 AATGAAAA
1 AATGAAAA
10597345 GGATAAGGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.05
20 16 0.38
21 18 0.43
22 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (20 bp):
AATGAAAATGGAAAAATGAA
Found at i:10598711 original size:45 final size:45
Alignment explanation
Indices: 10598634--10599880 Score: 731
Period size: 45 Copynumber: 28.2 Consensus size: 45
10598624 AAGGTAACAT
* * * * * * **
10598634 ATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGAAAATAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * * *
10598679 ATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAATAAAACAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * *
10598724 ATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
*** ** * **
10598768 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * * * *
10598813 ATCTTGTCTTCCTGTACTTGCAGCGAAGTAGATCAAATAAAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * * * *
10598858 ATCTTGTCTTCATGTATTGGC-GTGAAGTAAATCAAATATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
*** ** **
10598902 A--TTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* *
10598945 ATCTTGTCTTTATGTACTGGCA-TGAAGTAGATCAGAGGATAA-CAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATC-GAAGA-AAGCAG
* *
10598990 ATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
*
10599034 ATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGAATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAA-AGCAG
* * * *
10599079 ATCTTGTCTTCATGTATTGGCA-TGAAATAGATCAAAGATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
*** * * * * *
10599123 ATCTTGTCTTCCCATAC-AG-A-TCGAA-TA-A---AATAGATCTTG
1 ATCTTGTCTTCATGTACTGGCAGT-GAAGTAGATCGAAGAAAGC-AG
* * * * * * * * *
10599162 -TCTT-CCTGT-ACTG-GCAGCGAAGT--AGATCAAAT-AAAGCAGATCTTG
1 ATCTTGTCT-TCA-TGTACTG-GCAGTGAAG-T-AGATCGAAG-AAAGC-AG
** * ** * * *
10599207 -TCTTCCCAT-AT-TGGTGGCGAAGT--AGATCGA-AGAA-AACAGATCTTG
1 ATCTTGTCTTCATGTACTGGC--AGTGAAG-TAGATCGAAGAA-AG--C-AG
* * *
10599252 -TC-T-TC--C-TGTACTGGCAG-CAATGTAGATCAAATAAAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAA-GTAGATCGAAGAAAGCAG
* * * * *
10599291 ATCTTATCTTCATGTATTGG-TGTAAAGTAGATCAAAGATAA-CAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGA-AAGCAG
*** * ** * *
10599335 ATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAACA-TAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAA-AGCAG
* * * * *
10599380 ATCTCGTCTTCCTGTACTGGCAGCGAAGTAGATCAAATAAAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * * * *
10599425 ATCTTGTCTTCATGTATTGGC-GTGAAGTAAATCAAAGATAGCAA
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
** *
10599469 ATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCAAAGAAAGCAG
1 ATCTTGTC-TT-CATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * * *
10599514 ATCTTGTCTTCATGTACTAGCA-TGAAGTAGATCAGAGGATAGTAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATC-GAAGAAAGCAG
* * *
10599559 ATCTTATCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * * ** *
10599603 ATCTTGTCTTCATGTATTGAC-GTGAAGTAGATCGAAGATATTAA
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* *
10599647 ATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * *
10599691 ATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCAAAGATAA-CAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGA-AAGCAG
* * * *
10599736 ATCTTGTCTTCCTGTACTGGCAGTAAAGTAGATCAAAGATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * *
10599781 ATCTTGTCTTCATATATTGGC-GTGAAGTAGATCGAAGAAAGCAA
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
* * *
10599825 ATCTTGTATTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAG
1 ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
10599870 ATCTTGTCTTC
1 ATCTTGTCTTC
10599881 CCATATTGGT
Statistics
Matches: 962, Mismatches: 178, Indels: 124
0.76 0.14 0.10
Matches are distributed among these distances:
37 3 0.00
38 11 0.01
39 3 0.00
40 7 0.01
41 9 0.01
42 31 0.03
43 30 0.03
44 357 0.37
45 504 0.52
46 7 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (45 bp):
ATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCGAAGAAAGCAG
Found at i:10598786 original size:89 final size:89
Alignment explanation
Indices: 10598677--10599880 Score: 790
Period size: 89 Copynumber: 13.7 Consensus size: 89
10598667 CGAAGAAAAT
* * * *
10598677 AGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAATAAAACAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATT
10598742 GGCGTGAAGTAGATCAAAGATAGC
66 GGCGTGAAGTAGATCAAAGATAGC
*** ** * * * ** *
10598766 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCTTCCTGTACT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTA-T
* * *
10598831 T-GCAGCGAAGTAGATCAAATAAAGC
65 TGGC-GTGAAGTAGATCAAAGATAGC
* * * *** *
10598856 AGATCTTGTCTTCATGTATTGGC-GTGAAGTAAATCAAATATAGCAGA--TTGTCTTCCCATACT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATT
* * *
10598918 GGTG-GCAAAGTAGATCGAAGAAAGC
66 GGCGTG--AAGTAGATCAAAGATAGC
* * *
10598943 AGATCTTGTCTTTATGTACTGGCA-TGAAGTAGATCAGAGGATAACAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCA-AAGATAGCAGATCTTGTCTTCATGTAT
* *
10599007 TGGCATGAAGTAGATCGAAGATAGC
65 TGGCGTGAAGTAGATCAAAGATAGC
* *
10599032 AGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGAATAGCAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAG-ATAGCAGATCTTGTCTTCATGTAT
* *
10599096 TGGCATGAAATAGATCAAAGATAGC
65 TGGCGTGAAGTAGATCAAAGATAGC
*** * * *
10599121 AGATCTTGTCTTCCCATAC-AG-A-TCGAA-TA-A--AATAGAT--CTTG-TCTT-CCTGT-ACT
1 AGATCTTGTCTTCATGTACTGGCAGT-GAAGTAGATCAA-AGATAGC-AGATCTTGTCT-TCA-T
* * * * * *
10599174 GGCA---GCGAAGTAGATCAAAT-AAAGCAGATC
61 -GTATTGGCG-TGAAG-T-AGATCAAAG-ATAGC
* ** * ** * * * * *
10599204 TTG-TCTTCCCAT-AT-TGGTGGCGAAGTAGATCGAAGA-AAACAGAT--CTTG-TCTT-CCTGT
1 -AGATCTTGTCTTCATGTACTGGC--AGT-GA-AGTAGATCAA-AGATAGC-AGATCTTGTCT-T
* * * * *
10599261 -ACTGGCA---GC--AATGTAGATCAAATAAAGC
58 CA-T-GTATTGGCGTGAAGTAGATCAAAGATAGC
* * * * * *
10599289 AGATCTTATCTTCATGTATTGG-TGTAAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT--CAT-GT
* *
10599353 AGTGGC--GAAGTAGATCGAAGA-A-C
63 ATTGGCGTGAAGTAGATCAAAGATAGC
* * * * *
10599376 ATAGATCTCGTCTTCCTGTACTGGCAGCGAAGTAGATCAAATAAAGCAGATCTTGTCTTCATGTA
1 --AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTA
*
10599441 TTGGCGTGAAGTAAATCAAAGATAGC
64 TTGGCGTGAAGTAGATCAAAGATAGC
* ** *
10599467 AAATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTA
1 AGATCTTGTC-TT-CATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTA
* * * * *
10599530 CTAGCATGAAGTAGATCAGAGGATAGT
64 TTGGCGTGAAGTAGATCA-AAGATAGC
* * *
10599557 AGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATT
* * **
10599621 GACGTGAAGTAGATCGAAGATATT
66 GGCGTGAAGTAGATCAAAGATAGC
* * * * *
10599645 AAATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATT
* *
10599709 AGCAGTGAAGTAGATCAAAGATAAC
66 GGC-GTGAAGTAGATCAAAGATAGC
* * *
10599734 AGATCTTGTCTTCCTGTACTGGCAGTAAAGTAGATCAAAGATAGCAGATCTTGTCTTCATATATT
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATT
* *
10599799 GGCGTGAAGTAGATCGAAGAAAGC
66 GGCGTGAAGTAGATCAAAGATAGC
* *
10599823 AAATCTTGTATTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
1 AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
10599881 CCATATTGGT
Statistics
Matches: 882, Mismatches: 171, Indels: 124
0.75 0.15 0.11
Matches are distributed among these distances:
80 2 0.00
81 6 0.01
82 21 0.02
83 19 0.02
84 13 0.01
85 18 0.02
86 14 0.02
87 76 0.09
88 88 0.10
89 455 0.52
90 167 0.19
91 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATT
GGCGTGAAGTAGATCAAAGATAGC
Found at i:10598874 original size:134 final size:134
Alignment explanation
Indices: 10598634--10599881 Score: 1119
Period size: 134 Copynumber: 9.4 Consensus size: 134
10598624 AAGGTAACAT
* * * * * * **
10598634 ATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGAAAATAGATCTTGTCTTCCTGTACTGG
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTGTACTGG
* *
10598699 CAGTGAAGTAGATCAAATAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
66 CAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
10598764 GCAG
131 GCAG
*** * * * ** *
10598768 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCTTCCTGTACTTG
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTGTACTGG
* * * *
10598833 CAGCGAAGTAGATCAAATAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAAATCAAATATA
66 CAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
10598898 GCAG
131 GCAG
*** * ** * **
10598902 A--TTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTACTGG
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTGTACTGG
* * *
10598965 CA-TGAAGTAGATCAGAGGATAA-CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGA
66 CAGTGAAGTAGATCA-AAGA-AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA
10599028 TAGCAG
129 TAGCAG
* * * * *
10599034 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAATAGCAGATCTTGTCTTCATGTATTG
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAA-AGCAGATCTTGTCTTCCTGTACTG
* * ** * * *
10599098 GCA-TGAAATAGATCAAAGATAGCAGATCTTGTCTTC--CCA-T-AC-AG-A-TCGAAT-AAA-A
65 GCAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG-ATCAAAGA
10599153 T---AG
129 TAGCAG
* * * * ** *
10599156 ATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAATAAAGCAGATCTTGTCTTCCCATATTGG
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTGTACTGG
** * * * * * * *
10599221 TGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTGTACTGGCAG-CAATGTAGATCAAATA
66 CAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAA-GTAGATCAAAGA
*
10599285 AAGCAG
129 TAGCAG
* * * ** *
10599291 ATCTTATCTTCATGTATTGGT-GTAAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATACTA
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGA-AAGCAGATCTTGTCTTCCTGTACTG
** * * * * * * * *
10599354 GTGGCGAAGTAGATCGAAGAACA-TAGATCTCGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAT
65 GCAGTGAAGTAGATCAAAGAA-AGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAG
*
10599418 AAAGCAG
128 ATAGCAG
* * * * * *
10599425 ATCTTGTCTTCATGTATTGG-CGTGAAGTAAATCAAAGATAGCAAATCTTGTCTTTCC-ATACTG
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTC-TTCCTGTACTG
** * * * *
10599488 GTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCATGAAGTAGATCAGAGGA
65 GCAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA-AAGA
*
10599553 TAGTAG
129 TAGCAG
* * * * * * * *
10599559 ATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGA
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTGTACTGG
* * ** * *
10599623 C-GTGAAGTAGATCGAAGATATTAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
66 CAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
10599687 GCAG
131 GCAG
* * *
10599691 ATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCTGTACTG
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGA-AAGCAGATCTTGTCTTCCTGTACTG
* * * * *
10599755 GCAGTAAAGTAGATCAAAGATAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAA
65 GCAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
*
10599820 AGCAA
130 AGCAG
* * *
10599825 ATCTTGTATTCATGTACTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCC
1 ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCC
10599882 CATATTGGTG
Statistics
Matches: 944, Mismatches: 134, Indels: 72
0.82 0.12 0.06
Matches are distributed among these distances:
122 42 0.04
123 43 0.05
125 3 0.00
126 5 0.01
127 4 0.00
128 1 0.00
129 2 0.00
130 3 0.00
131 17 0.02
132 130 0.14
133 137 0.15
134 529 0.56
135 28 0.03
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (134 bp):
ATCTTGTCTTCATGTACTGGTAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTGTACTGG
CAGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
GCAG
Found at i:10601454 original size:3 final size:3
Alignment explanation
Indices: 10601440--10601498 Score: 75
Period size: 3 Copynumber: 19.0 Consensus size: 3
10601430 TCGTTGCTAC
*
10601440 TAT TACT TAT TAT TAT TAT TAT TATT TAT TAT TAT TA- TAT TACT TAC
1 TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT
10601487 TAT TAT TAT TAT
1 TAT TAT TAT TAT
10601499 ACTTACATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
2 2 0.04
3 39 0.78
4 9 0.18
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10601937 original size:22 final size:23
Alignment explanation
Indices: 10601912--10601955 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
10601902 TATATATACC
10601912 TATATACATATTT-TAATTTTTA
1 TATATACATATTTCTAATTTTTA
*
10601934 TATATACATATTTCTATTTTTT
1 TATATACATATTTCTAATTTTT
10601956 TCATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (23 bp):
TATATACATATTTCTAATTTTTA
Found at i:10607434 original size:29 final size:30
Alignment explanation
Indices: 10607379--10607436 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
10607369 GTGGCATAAG
*
10607379 TATATTATTATAAAATTTTAAAGTTAAAAA
1 TATATTATTATAAAATTATAAAGTTAAAAA
*
10607409 TATA-TATTATAATATTATAATA-TTAAAA
1 TATATTATTATAAAATTATAA-AGTTAAAA
10607437 CTTAAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (30 bp):
TATATTATTATAAAATTATAAAGTTAAAAA
Found at i:10613492 original size:89 final size:88
Alignment explanation
Indices: 10613361--10613588 Score: 289
Period size: 88 Copynumber: 2.6 Consensus size: 88
10613351 ATTAAGGGTG
* * *
10613361 CAAAAA-GCCCTCAAACTTTTTCACAAAAAAAAAATTTAAGCCCCTATTTTTTTTCGCACTCATT
1 CAAAAAGGCCCTCAAACTTTTTCA-AAAAAAGAAA-TTAAGCCCCTACTTTTTTT-GCACTCAAT
10613425 TAGATACTTGAACTTTCAAAATGCAT
63 TAGATACTTGAACTTTCAAAATGCAT
* * * *
10613451 CAAAAAGGCCCTCAAACCTTTTT-AAAAAAAGCAATTAAGCCCATACTTTTTTTGCACTTAATTG
1 CAAAAAGGCCCTCAAA-CTTTTTCAAAAAAAGAAATTAAGCCCCTACTTTTTTTGCACTCAATTA
*
10613515 GGTACTTGAACTTTCAAAATGCAT
65 GATACTTGAACTTTCAAAATGCAT
* * * * *
10613539 CAAACAGACCCTCAAAATTTTTCAAAAAAAGTAATTAAGCCCCTTCTTTT
1 CAAAAAGGCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCCTACTTTT
10613589 ATTAAAAATT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
87 5 0.04
88 69 0.57
89 17 0.14
90 14 0.12
91 10 0.08
92 6 0.05
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (88 bp):
CAAAAAGGCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCCTACTTTTTTTGCACTCAATTAG
ATACTTGAACTTTCAAAATGCAT
Found at i:10613616 original size:11 final size:12
Alignment explanation
Indices: 10613592--10613618 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10613582 TTCTTTTATT
10613592 AAAAATTAGAAA
1 AAAAATTAGAAA
10613604 AAAAATTAGAAA
1 AAAAATTAGAAA
10613616 AAA
1 AAA
10613619 TTAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAATTAGAAA
Found at i:10613699 original size:21 final size:21
Alignment explanation
Indices: 10613675--10613721 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
10613665 ATTCAAATAT
10613675 TAAAAAT-TAGAAAAAAAATTG
1 TAAAAATGTA-AAAAAAAATTG
*
10613696 TAAAATTGTAAAAAAAAATTG
1 TAAAAATGTAAAAAAAAATTG
10613717 TAAAA
1 TAAAA
10613722 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
TAAAAATGTAAAAAAAAATTG
Found at i:10613715 original size:13 final size:13
Alignment explanation
Indices: 10613697--10613721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10613687 AAAAAATTGT
10613697 AAAATTGTAAAAA
1 AAAATTGTAAAAA
10613710 AAAATTGTAAAA
1 AAAATTGTAAAA
10613722 TTTTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAATTGTAAAAA
Found at i:10613722 original size:21 final size:21
Alignment explanation
Indices: 10613685--10613732 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
10613675 TAAAAATTAG
10613685 AAAAAAAATTGTAAAATTGTA
1 AAAAAAAATTGTAAAATTGTA
*
10613706 AAAAAAAATTGTAAAATTTTA
1 AAAAAAAATTGTAAAATTGTA
*
10613727 TAAAAA
1 AAAAAA
10613733 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AAAAAAAATTGTAAAATTGTA
Found at i:10613740 original size:29 final size:27
Alignment explanation
Indices: 10613708--10613775 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
10613698 AAATTGTAAA
* *
10613708 AAAAAATTGTAAAATTTTATAAAAATCAT
1 AAAAAATTATAAAA-TGTATAAAAAT-AT
*
10613737 AAAAAATTATAAAATGTATAGAAATAT
1 AAAAAATTATAAAATGTATAAAAATAT
*
10613764 AAAAAAATATAA
1 AAAAAATTATAA
10613776 CATTTTACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 13 0.37
28 9 0.26
29 13 0.37
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAAAATTATAAAATGTATAAAAATAT
Found at i:10614087 original size:18 final size:18
Alignment explanation
Indices: 10614038--10614132 Score: 61
Period size: 18 Copynumber: 5.2 Consensus size: 18
10614028 TTACGATTTA
*
10614038 TTTAAAAAAATTCTA-ATT
1 TTTAATAAAATT-TATATT
* *
10614056 TTTAATATATTTTATATT
1 TTTAATAAAATTTATATT
*
10614074 TTTATTAAAATTTAATAATT
1 TTTAATAAAATTT-AT-ATT
* *
10614094 TTT-CTAAAATTTAT-TA
1 TTTAATAAAATTTATATT
**
10614110 TTTAATATTATTTATAATT
1 TTTAATAAAATTTAT-ATT
10614129 TTTA
1 TTTA
10614133 GTAAGAGTAG
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
16 4 0.07
17 10 0.17
18 24 0.41
19 15 0.25
20 6 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAAAATTTATATT
Found at i:10615865 original size:34 final size:35
Alignment explanation
Indices: 10615821--10615887 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10615811 CAGTAAAATA
*
10615821 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
10615855 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
10615888 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:10623299 original size:11 final size:11
Alignment explanation
Indices: 10623283--10623320 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
10623273 TAGAAATTAG
10623283 TTTGTGAAACT
1 TTTGTGAAACT
10623294 TTTGTGAAACT
1 TTTGTGAAACT
10623305 TTTGTGAAACT
1 TTTGTGAAACT
10623316 TTTGT
1 TTTGT
10623321 ATTGTACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:10624716 original size:17 final size:17
Alignment explanation
Indices: 10624691--10624724 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10624681 ATTATTTTAA
*
10624691 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
10624708 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
10624725 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:10624726 original size:15 final size:16
Alignment explanation
Indices: 10624691--10624729 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
10624681 ATTATTTTAA
*
10624691 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
10624708 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
10624723 ATTTAAT
1 ATTTAAT
10624730 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:10624733 original size:17 final size:18
Alignment explanation
Indices: 10624695--10624734 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10624685 TTTTAAATTT
*
10624695 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
10624713 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
10624729 TATTAA
1 TATTAA
10624735 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:10624813 original size:66 final size:62
Alignment explanation
Indices: 10624727--10624939 Score: 167
Period size: 66 Copynumber: 3.4 Consensus size: 62
10624717 AATCATATTT
*
10624727 AATATTAATTATTTGAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTAG-AA-TTT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
10624792 G
62 G
* * * * * *
10624793 AATATTAATTATTAAGAATTTTATTAA--ATTATATATT-TTAATT-A-T-AATAT-ATTTAAT
1 AATATTAATTATT-AGAATTTTTTTAAGTATCATATATTATGATTTGAGTAAAT-TCATATAAG
* *
10624850 AATAATT-A-TGTTA-ATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AAT-ATTAATTATTAGAATT-T-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
10624912 G
62 G
*
10624913 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATT-AGAATTTTTTTAA
10624940 ATTATATATT
Statistics
Matches: 112, Mismatches: 18, Indels: 37
0.67 0.11 0.22
Matches are distributed among these distances:
54 3 0.03
55 2 0.02
56 7 0.06
57 13 0.12
58 5 0.04
59 10 0.09
60 8 0.07
61 10 0.09
62 5 0.04
63 14 0.12
64 11 0.10
65 5 0.04
66 18 0.16
67 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (62 bp):
AATATTAATTATTAGAATTTTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:10624849 original size:15 final size:15
Alignment explanation
Indices: 10624814--10624865 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10624804 TTAAGAATTT
*
10624814 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10624828 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10624842 TATTTAATAATAAT-
1 TATTTAATTATAATA
10624856 TATGTTAATT
1 TAT-TTAATT
10624866 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10624891 original size:120 final size:120
Alignment explanation
Indices: 10624690--10624986 Score: 494
Period size: 120 Copynumber: 2.5 Consensus size: 120
10624680 AATTATTTTA
* * *
10624690 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTTTCTT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT-AAATTTTATT
*
10624752 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
10624809 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TATTT
10624873 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
10624929 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
10624987 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
119 23 0.14
120 135 0.80
121 7 0.04
122 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:10624964 original size:16 final size:16
Alignment explanation
Indices: 10624943--10624984 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10624933 TTATTAAATT
*
10624943 ATATATTTTAATTATA
1 ATATATTTTAATAATA
10624959 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
10624974 AT-TATGTTTAA
1 ATATAT-TTTAA
10624985 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:10624969 original size:15 final size:15
Alignment explanation
Indices: 10624934--10624975 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10624924 TTAAGAATTT
*
10624934 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10624948 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10624962 TATTTAATAATAAT
1 TATTTAATTATAAT
10624976 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10625001 original size:155 final size:154
Alignment explanation
Indices: 10624910--10625222 Score: 518
Period size: 155 Copynumber: 2.0 Consensus size: 154
10624900 AAATTCATAT
* *
10624910 AAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAA
1 AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
10624975 TTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAAC
66 TTATGTTTAAATATGATTAAATTATTTA-TATTGATATTAATAATCTTATTAAAATTTAAATAAC
10625040 AATAACAAATAATTTACCAAAACAA
130 AATAACAAATAATTTACCAAAACAA
*** *
10625065 ATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
1 AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
*
10625130 TTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAAC
66 TTATGTTTAAATATGATTAAATTATTTA-TATTGATATTAATAATCTTATTAAAATTTAAATAAC
*
10625195 AATAACAATAATCATTTACCAAAACAA
130 AATAAC-A-AATAATTTACCAAAACAA
10625222 A
1 A
10625223 TTTATGCTAA
Statistics
Matches: 148, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
155 129 0.87
156 1 0.01
157 18 0.12
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (154 bp):
AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
TTATGTTTAAATATGATTAAATTATTTATATTGATATTAATAATCTTATTAAAATTTAAATAACA
ATAACAAATAATTTACCAAAACAA
Found at i:10625113 original size:18 final size:17
Alignment explanation
Indices: 10625085--10625119 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10625075 ATTATTAAGA
*
10625085 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10625102 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10625120 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10625321 original size:39 final size:40
Alignment explanation
Indices: 10625267--10625371 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
10625257 TTCCATTATG
10625267 CTATTACACCTCTATTACATTCAACCAAACACATGA-TTA
1 CTATTACACCTCTATTACATTCAACCAAACACATGATTTA
* ** *
10625306 CTATTACGCCTCTATTTCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTC----T-ATTACATTCAACCAAACACATGATTTA
*
10625351 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTACATT
10625372 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 11 0.20
40 7 0.13
41 1 0.02
43 1 0.02
44 21 0.39
45 13 0.24
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (40 bp):
CTATTACACCTCTATTACATTCAACCAAACACATGATTTA
Found at i:10625348 original size:44 final size:45
Alignment explanation
Indices: 10625280--10625374 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
10625270 TTACACCTCT
* *
10625280 ATTACATTCAACCAAACACATGA-TTACTATTACGCCTCTATTTC
1 ATTACATTCAACCAAACACATGATTTACTATTACACCTCTATTCC
** *
10625324 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACATGATTTACTATTACACCTCTATTCC
10625369 ATTACA
1 ATTACA
10625375 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 21 0.47
45 24 0.53
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACACATGATTTACTATTACACCTCTATTCC
Found at i:10625374 original size:16 final size:16
Alignment explanation
Indices: 10625353--10625390 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10625343 TTGATTTGCT
*
10625353 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
10625369 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
10625385 AATACA
1 ATTACA
10625391 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:10631645 original size:16 final size:17
Alignment explanation
Indices: 10631614--10631646 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10631604 CATATTCTAG
10631614 CATATATCAAAACATAT
1 CATATATCAAAACATAT
*
10631631 CATATA-CAGAACATAT
1 CATATATCAAAACATAT
10631647 AAAAAAATAA
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:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (17 bp):
CATATATCAAAACATAT
Found at i:10633346 original size:43 final size:42
Alignment explanation
Indices: 10633321--10633441 Score: 122
Period size: 42 Copynumber: 2.8 Consensus size: 42
10633311 ATCAAATTTT
* *
10633321 GATGCCAATGTTCCAGACAGGGTCTTACACGAAATCATATAC
1 GATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATAC
* *
10633363 GATGCCAATGTCCCAGACATGGTCTTACACGTAAGTCTCAAAT-C
1 GATGCCAATGTCCCAGACAGGGTCTTACACG-AA--ATCAAATAC
* *
10633407 GATGCCAACGTCCCCA-A-TGTGGTCTTACACGAAAT
1 GATGCCAATGT-CCCAGACAG-GGTCTTACACGAAAT
10633442 TTCATATTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.02
42 29 0.44
43 4 0.06
44 23 0.35
45 9 0.14
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATAC
Found at i:10634625 original size:11 final size:11
Alignment explanation
Indices: 10634609--10634634 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10634599 GTAAACACAA
10634609 AAAATAATATT
1 AAAATAATATT
10634620 AAAATAATATT
1 AAAATAATATT
10634631 AAAA
1 AAAA
10634635 GCCACTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATATT
Found at i:10634701 original size:21 final size:21
Alignment explanation
Indices: 10634672--10634730 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
10634662 GGCTGTTACA
*
10634672 ACGGCCGTGTGAAAGAGGCAC
1 ACGGTCGTGTGAAAGAGGCAC
** *
10634693 ACGGTCGTGTGGCAGAGGCAT
1 ACGGTCGTGTGAAAGAGGCAC
* * *
10634714 ACGCTTGTGTGATAGAG
1 ACGGTCGTGTGAAAGAG
10634731 TTAGATAGCC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.39, T:0.19
Consensus pattern (21 bp):
ACGGTCGTGTGAAAGAGGCAC
Found at i:10636158 original size:37 final size:37
Alignment explanation
Indices: 10636108--10636182 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
10636098 ATCATCAATC
*
10636108 ACCCAAAGGTAGAGTACAAAAGATCACCTGAAATCCT
1 ACCCAAAGATAGAGTACAAAAGATCACCTGAAATCCT
10636145 ACCCAAAGATAGAGTACAAAAGATCACCTGAAATCCT
1 ACCCAAAGATAGAGTACAAAAGATCACCTGAAATCCT
10636182 A
1 A
10636183 TAGCCTTGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (37 bp):
ACCCAAAGATAGAGTACAAAAGATCACCTGAAATCCT
Found at i:10638753 original size:41 final size:40
Alignment explanation
Indices: 10638627--10638754 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 40
10638617 GGAGACATGT
* * **
10638627 ATCAGGTTTTGAACCTAGCAGGCTTCGTGCCAGTGTAACA
1 ATCAGGCTTTGAGCCTAGCAGGCTTCGTGCCAGTGTATGA
* * * * * *
10638667 GTTTAGGCCTTGAGCCTAGCAGGCCTCATGCCAGTGCATGAA
1 -ATCAGGCTTTGAGCCTAGCAGGCTTCGTGCCAGTGTATG-A
10638709 ATCAGGCTTTGAGCCTAGCAGGCTTCGTGCCAGTGTAGTGA
1 ATCAGGCTTTGAGCCTAGCAGGCTTCGTGCCAGTGTA-TGA
10638750 ATCAG
1 ATCAG
10638755 ATAACTATTG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 66 0.96
42 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCAGGCTTTGAGCCTAGCAGGCTTCGTGCCAGTGTATGA
Found at i:10643779 original size:21 final size:21
Alignment explanation
Indices: 10643714--10643779 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
10643704 CTTAATGCAA
*
10643714 GGTTGTTATGGCTCAACACAAG
1 GGTTGCTATGGCTCAACAC-AG
* * *
10643736 GCTT-CTATGGCTGAACACTG
1 GGTTGCTATGGCTCAACACAG
10643756 GGTTGCTATGGCTCAACACAG
1 GGTTGCTATGGCTCAACACAG
10643777 GGT
1 GGT
10643780 GCATGTCGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.11
21 29 0.81
22 3 0.08
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (21 bp):
GGTTGCTATGGCTCAACACAG
Found at i:10650940 original size:57 final size:58
Alignment explanation
Indices: 10650878--10650995 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 58
10650868 CTTTTTCAGG
* * * * *
10650878 TCATTTTCGTTTTGGAGAAAACCACATTTATTTCCAAATGATTC-TATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTTATATATCCATTT
* * *
10650935 TCATTTTCATTTTGGAGAAAACCATAATCATTTCTAAATGTTTCTTATATATCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTTATATATCCATTT
10650993 TCA
1 TCA
10650996 CCATTTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 38 0.73
58 14 0.27
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.46
Consensus pattern (58 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTTATATATCCATTT
Found at i:10656011 original size:7 final size:8
Alignment explanation
Indices: 10655997--10656031 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
10655987 ATCAAAGAGG
10655997 GAAAAAAA
1 GAAAAAAA
10656005 G-AAAAAA
1 GAAAAAAA
10656012 GAAAAAAA
1 GAAAAAAA
10656020 GAAAAAAA
1 GAAAAAAA
10656028 GAAA
1 GAAA
10656032 GCATCTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:10671393 original size:16 final size:16
Alignment explanation
Indices: 10671365--10671406 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10671355 TTTAAATTTT
*
10671365 AGAAATAAT-ATTATTA
1 AGAAA-AATAATTATCA
10671381 AGAAAAATAATTATCA
1 AGAAAAATAATTATCA
10671397 AGATAAAATA
1 AGA-AAAATA
10671407 TTTTTCATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (16 bp):
AGAAAAATAATTATCA
Found at i:10675288 original size:2 final size:2
Alignment explanation
Indices: 10675283--10675310 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10675273 TTTGCTTGTT
10675283 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10675311 TAACCATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10675964 original size:43 final size:43
Alignment explanation
Indices: 10675862--10675964 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
10675852 CGTTTTTATA
* * *
10675862 AAAAATCGCCGCTAAACAACATGACCTTTAGTAGCACTTTTCCC
1 AAAAAT-GCCGCTAAAGAACATGACATTTAGTAACACTTTTCCC
* * *
10675906 ACAAACGCCGCTAAAGAACATGACATTTAGTAACCCTTTTCCC
1 AAAAATGCCGCTAAAGAACATGACATTTAGTAACACTTTTCCC
*
10675949 AAAAATGCAGCTAAAG
1 AAAAATGCCGCTAAAG
10675965 GTTCCACAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 46 0.92
44 4 0.08
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (43 bp):
AAAAATGCCGCTAAAGAACATGACATTTAGTAACACTTTTCCC
Found at i:10677370 original size:12 final size:12
Alignment explanation
Indices: 10677353--10677380 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10677343 GTGATTAAGT
10677353 ACATTAATAGTA
1 ACATTAATAGTA
10677365 ACATTAATAGTA
1 ACATTAATAGTA
10677377 ACAT
1 ACAT
10677381 CATGGCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (12 bp):
ACATTAATAGTA
Found at i:10678592 original size:14 final size:14
Alignment explanation
Indices: 10678569--10678602 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
10678559 AGAAAAGAGA
10678569 GAAA-GGGAGAGGG
1 GAAAGGGGAGAGGG
10678582 GAAAGGGGAGAGGG
1 GAAAGGGGAGAGGG
10678596 GAAAGGG
1 GAAAGGG
10678603 TAATAGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (14 bp):
GAAAGGGGAGAGGG
Found at i:10679734 original size:15 final size:15
Alignment explanation
Indices: 10679714--10679742 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10679704 CCCATAATGT
10679714 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
10679729 CTAACCCCTAAACC
1 CTAACCCCTAAACC
10679743 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:10679761 original size:21 final size:22
Alignment explanation
Indices: 10679722--10679774 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
10679712 GTCTAACCCC
* *
10679722 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
10679744 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
10679765 T-AATCCCTAA
1 TAAATCCCTAA
10679775 ATTCATACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Found at i:10680019 original size:23 final size:22
Alignment explanation
Indices: 10679991--10680039 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
10679981 TCTAACTCTT
10679991 AACCCCTAACGT-CTAACCTCCTA
1 AACCCCTAAC-TCCTAACC-CCTA
10680014 AACCCCTAACTCCTAACCCCTA
1 AACCCCTAACTCCTAACCCCTA
10680036 AACC
1 AACC
10680040 TAAAATCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (22 bp):
AACCCCTAACTCCTAACCCCTA
Found at i:10680026 original size:15 final size:15
Alignment explanation
Indices: 10679990--10680036 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
10679980 CTCTAACTCT
**
10679990 TAACC-CCTAACGTC
1 TAACCTCCTAACCCC
10680004 TAACCTCCTAAACCCC
1 TAACCTCCT-AACCCC
10680020 TAA-CTCCTAACCCC
1 TAACCTCCTAACCCC
10680034 TAA
1 TAA
10680037 ACCTAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 14 0.48
15 8 0.28
16 7 0.24
ACGTcount: A:0.32, C:0.45, G:0.02, T:0.21
Consensus pattern (15 bp):
TAACCTCCTAACCCC
Found at i:10680033 original size:14 final size:16
Alignment explanation
Indices: 10680003--10680036 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
10679993 CCCCTAACGT
10680003 CTAACCTCCTAAACCC
1 CTAACCTCCTAAACCC
10680019 CTAA-CTCCT-AACCC
1 CTAACCTCCTAAACCC
10680033 CTAA
1 CTAA
10680037 ACCTAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 5 0.28
16 4 0.22
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (16 bp):
CTAACCTCCTAAACCC
Found at i:10680066 original size:20 final size:21
Alignment explanation
Indices: 10680028--10680068 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10680018 CCTAACTCCT
10680028 AACCCCTAAACCTAAAATCCC
1 AACCCCTAAACCTAAAATCCC
* *
10680049 AACCCTTAAACC-ATAATCCC
1 AACCCCTAAACCTAAAATCCC
10680069 TAATCCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCCTAAACCTAAAATCCC
Found at i:10680101 original size:15 final size:15
Alignment explanation
Indices: 10680055--10680101 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
10680045 TCCCAACCCT
10680055 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
10680069 T-AATCCATAATCCT
1 TAAATCCATAATCCC
* *
10680083 TAAATTCATACTCCC
1 TAAATCCATAATCCC
10680098 TAAA
1 TAAA
10680102 CCTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.41
15 14 0.52
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:10680553 original size:42 final size:42
Alignment explanation
Indices: 10680506--10680624 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 42
10680496 CGGTGTTTTT
* * * *
10680506 GCTAAAACACCGAGCATTAGCAGCGCTTTTTCAAAAAATGTC
1 GCTAAAACCCCGAGCATTAGCGGCGCTTTTTCAAAAAACGCC
* *
10680548 GCTAAAACCCCAAGCATTAGCGGCGCATTTTC-AAAAACGCC
1 GCTAAAACCCCGAGCATTAGCGGCGCTTTTTCAAAAAACGCC
* * *
10680589 GCTAAAGCCCCGTGCATTAGCGGCTCTTTTTCAAAA
1 GCTAAAACCCCGAGCATTAGCGGCGCTTTTTCAAAA
10680625 GTGCTGCTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 34 0.52
42 31 0.48
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
GCTAAAACCCCGAGCATTAGCGGCGCTTTTTCAAAAAACGCC
Found at i:10680606 original size:41 final size:41
Alignment explanation
Indices: 10680518--10680638 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 41
10680508 TAAAACACCG
* * *
10680518 AGCATTAGCAGCGCTTTTTCAAAAAATGTCGCTAAAACCCCA
1 AGCATTAGCGGCGCTTTTTC-AAAAATGCCGCTAAAGCCCCA
* * *
10680560 AGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGCCCCG
1 AGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCA
* * * *
10680601 TGCATTAGCGGCTCTTTTTCAAAAGTGCTGCTAAAGCC
1 AGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCC
10680639 GCAAAAGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 49 0.73
42 18 0.27
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCA
Found at i:10681536 original size:28 final size:26
Alignment explanation
Indices: 10681492--10681543 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
10681482 TACCTTCCAC
10681492 ATACAACAATCAAGTTTGTTGTAATTGT
1 ATACAACAATCAAGTTT-TT-TAATTGT
**
10681520 ATACAACAATCTCGTTTTTTAATT
1 ATACAACAATCAAGTTTTTTAATT
10681544 TTAATGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 2 0.09
28 15 0.68
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (26 bp):
ATACAACAATCAAGTTTTTTAATTGT
Found at i:10691524 original size:14 final size:14
Alignment explanation
Indices: 10691505--10691532 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10691495 CCTTCCTTCT
10691505 TTCTACCTTCTGCC
1 TTCTACCTTCTGCC
10691519 TTCTACCTTCTGCC
1 TTCTACCTTCTGCC
10691533 GATTTTCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.43, G:0.07, T:0.43
Consensus pattern (14 bp):
TTCTACCTTCTGCC
Found at i:10692240 original size:17 final size:16
Alignment explanation
Indices: 10692220--10692251 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10692210 CCGTTTTCAT
10692220 TTTCTTTTACTTTTATA
1 TTTCTTTT-CTTTTATA
10692237 TTTCTTTTCTTTTAT
1 TTTCTTTTCTTTTAT
10692252 TCATTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTCTTTTATA
Found at i:10694964 original size:15 final size:15
Alignment explanation
Indices: 10694919--10694975 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
10694909 TATTTTTGTT
*
10694919 TATTATATTTAATAA
1 TATTATATTTTATAA
*
10694934 TAAT-TA-TTT-TAA
1 TATTATATTTTATAA
10694946 -ATTATATTTTATAA
1 TATTATATTTTATAA
*
10694960 TATTATATATTATAA
1 TATTATATTTTATAA
10694975 T
1 T
10694976 TTTAGTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 17 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATATTTTATAA
Found at i:10694984 original size:119 final size:120
Alignment explanation
Indices: 10694772--10694992 Score: 408
Period size: 119 Copynumber: 1.9 Consensus size: 120
10694762 CAATCATAAG
10694772 AATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
* *
10694837 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAA
66 ATAATATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAA
*
10694892 AATTTTATTAAATTATATATTTTTGTT-TATTATATTTAATAATAATTATTTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
10694956 ATAATATTATATATTATAATTTTAGTAAATTCATATA
66 ATAATATTATATATTATAATTTTAGTAAATTCATATA
10694993 TTTTATTAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
119 71 0.72
120 27 0.28
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
ATAATATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATACTAAA
Found at i:10694993 original size:41 final size:40
Alignment explanation
Indices: 10694829--10695011 Score: 116
Period size: 41 Copynumber: 4.6 Consensus size: 40
10694819 TATTTTAAAT
* *
10694829 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
10694870 TATA----AGAATATT-TAATACTAAAAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
** **
10694907 TATATTTT-TGTTTATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATATTTTAT-AATATTATATATT-ATAAT--TT-TAGTAAATTA
10694948 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
10694989 TATATTTTATTAA-ATTATATATT
1 TATATTTTA-TAATATTATATATT
10695012 TTTATTAAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
36 1 0.01
37 14 0.13
38 19 0.18
39 4 0.04
40 4 0.04
41 50 0.46
42 10 0.09
43 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:10694997 original size:18 final size:17
Alignment explanation
Indices: 10694968--10695026 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
10694958 AATATTATAT
*
10694968 ATTATA-ATTTTAGTAA
1 ATTATATATTTTATTAA
10694984 ATTCATATATTTTATTAA
1 ATT-ATATATTTTATTAA
10695002 ATTATATATTTTTATTAA
1 ATTATATA-TTTTATTAA
10695020 ATTATAT
1 ATTATAT
10695027 TTAATAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 3 0.08
17 8 0.21
18 28 0.72
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATATATTTTATTAA
Found at i:10695246 original size:44 final size:45
Alignment explanation
Indices: 10695183--10695279 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
10695173 CTATTACACC
*
10695183 TCCATTCCATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATTTACTATTACGCCTCTAT
* *
10695227 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATTTACTATTACGCCTCTAT
10695272 TCCATTAC
1 TCCATTAC
10695280 GCTTCTATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATTTACTATTACGCCTCTAT
Found at i:10695280 original size:16 final size:16
Alignment explanation
Indices: 10695259--10695305 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
10695249 TTGATTTGCT
10695259 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
10695275 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
10695291 ATTACGCCTCTATTC
1 ATTACGCCTCTATTC
10695306 TAATACAGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.19, C:0.34, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:10699549 original size:52 final size:51
Alignment explanation
Indices: 10699506--10699601 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
10699496 AATAAGAAAC
* *
10699506 ATTTGGAAATGATTAAAGTTTTCTCTAAAATGAAAATAGAGAAATGAAATA
1 ATTTGGAAATGAATAAAGTTTTCTCCAAAATGAAAATAGAGAAATGAAATA
***
10699557 ATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAAT-GA-AAATGA
1 ATTTGGAAATGAATAAAGTTTTCTCCAAAATGAAAATAGAGAAATGA
10699602 CTTGAAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 6 0.15
50 2 0.05
51 32 0.80
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (51 bp):
ATTTGGAAATGAATAAAGTTTTCTCCAAAATGAAAATAGAGAAATGAAATA
Found at i:10713253 original size:13 final size:13
Alignment explanation
Indices: 10713235--10713268 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10713225 TGCTTGTGGA
10713235 AAACAAAACA-AAC
1 AAACAAAA-AGAAC
10713248 AAACAAAAAGAAC
1 AAACAAAAAGAAC
10713261 AAACAAAA
1 AAACAAAA
10713269 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.79, C:0.18, G:0.03, T:0.00
Consensus pattern (13 bp):
AAACAAAAAGAAC
Found at i:10713315 original size:20 final size:21
Alignment explanation
Indices: 10713271--10713316 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
10713261 AAACAAAATT
* *
10713271 TAAAAAATAAAAAAAATAGAT
1 TAAAAAATAAAAAAAATAAAA
*
10713292 TAAAAAA-ATAAAAAATAAAA
1 TAAAAAATAAAAAAAATAAAA
10713312 TAAAA
1 TAAAA
10713317 GGTTTGATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (21 bp):
TAAAAAATAAAAAAAATAAAA
Found at i:10714570 original size:16 final size:16
Alignment explanation
Indices: 10714524--10714564 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10714514 TAAGGTAGCT
*
10714524 AAAAATAAAATAAAAT-
1 AAAAATAAAA-ATAATG
10714540 AAAAATAAAAATAATG
1 AAAAATAAAAATAATG
10714556 AAAAATAAA
1 AAAAATAAA
10714565 GTTAATACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAATAATG
Found at i:10715403 original size:37 final size:37
Alignment explanation
Indices: 10715353--10715429 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
10715343 CCAGATAAAA
* *
10715353 AATACGTATAACTTATTCTAATATTCATATAGACATC
1 AATACGCATAACTTATTCTAATATTCATATAAACATC
10715390 AATACGCATAACTTATTCTAATATTCATATAAACATC
1 AATACGCATAACTTATTCTAATATTCATATAAACATC
10715427 AAT
1 AAT
10715430 TGATCAAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (37 bp):
AATACGCATAACTTATTCTAATATTCATATAAACATC
Found at i:10720193 original size:14 final size:12
Alignment explanation
Indices: 10720171--10720210 Score: 55
Period size: 11 Copynumber: 3.2 Consensus size: 12
10720161 AATTATTTAA
10720171 TTTTTTATTTGT
1 TTTTTTATTTGT
10720183 TCTTCTTTATTTG-
1 T-TT-TTTATTTGT
10720196 TTTTTTATTTGT
1 TTTTTTATTTGT
10720208 TTT
1 TTT
10720211 ATACTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.32
12 6 0.24
13 3 0.12
14 8 0.32
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTATTTGT
Found at i:10720218 original size:25 final size:25
Alignment explanation
Indices: 10720171--10720219 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10720161 AATTATTTAA
* *
10720171 TTTTTTATTTGTTCTTCTTTATTTG
1 TTTTTTATTTGTTCTTATCTATTTG
10720196 TTTTTTATTTGTT-TTATACTATTT
1 TTTTTTATTTGTTCTTAT-CTATTT
10720220 TAAATGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTTTATTTGTTCTTATCTATTTG
Found at i:10720233 original size:13 final size:13
Alignment explanation
Indices: 10720210--10720266 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
10720200 TTATTTGTTT
10720210 TATACTATTTTAAA
1 TATA-TATTTTAAA
*
10720224 TGTATATTTTAAA
1 TATATATTTTAAA
* *
10720237 TTTTAAATTTTAAA
1 -TATATATTTTAAA
*
10720251 TATATATTTTTAA
1 TATATATTTTAAA
10720264 TAT
1 TAT
10720267 TATAAAACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
13 22 0.61
14 14 0.39
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
TATATATTTTAAA
Found at i:10720376 original size:22 final size:22
Alignment explanation
Indices: 10720339--10720401 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
10720329 ATAATATTTT
*
10720339 AAATGTATATTTTAAAATTTTAA
1 AAAT-TATTTTTTAAAATTTTAA
10720362 AAATTATTTTTTAAAATTTTAA
1 AAATTATTTTTTAAAATTTTAA
* *
10720384 ATATAATTTTTTAAAATT
1 AAATTATTTTTTAAAATT
10720402 ATTTTTAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATTATTTTTTAAAATTTTAA
Found at i:10720449 original size:33 final size:31
Alignment explanation
Indices: 10720388--10720449 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
10720378 TTTTAAATAT
* *
10720388 AATTTTTTAAAATTATTTTTAAAGATATTCA
1 AATTTTTTAAAATTATTTTAAAAAATATTCA
*
10720419 AATTTTTTTAAATTATATTTAAAATAATATT
1 AATTTTTTAAAATTAT-TTTAAAA-AATATT
10720450 TAATTTGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 15 0.58
32 6 0.23
33 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
AATTTTTTAAAATTATTTTAAAAAATATTCA
Found at i:10721649 original size:9 final size:9
Alignment explanation
Indices: 10721637--10721721 Score: 68
Period size: 9 Copynumber: 9.1 Consensus size: 9
10721627 TTTCTATATA
10721637 TTTTATAAT
1 TTTTATAAT
*
10721646 TTTTATAAAA
1 TTTTAT-AAT
*
10721656 TTTTAAAAT
1 TTTTATAAT
10721665 TATTTATAAAT
1 T-TTTAT-AAT
10721676 TCTTT-TACGA-
1 T-TTTATA--AT
10721686 TTTTATAAT
1 TTTTATAAT
10721695 TTTTATAAT
1 TTTTATAAT
*
10721704 TTTTCTAAT
1 TTTTATAAT
10721713 TTTT-TAAT
1 TTTTATAAT
10721721 T
1 T
10721722 AAAATTTAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.10
9 34 0.54
10 15 0.24
11 8 0.13
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10721651 original size:49 final size:49
Alignment explanation
Indices: 10721598--10721717 Score: 120
Period size: 49 Copynumber: 2.4 Consensus size: 49
10721588 TTCTTACGAC
* * *
10721598 TTTATACAATTTTATAATTTTTTTCTATATT-TCTATA-TATTTTATAATT
1 TTTATA-AATTTTATAATTTTTTTATAAATTCT-TATACGATTTTATAATT
* * *
10721647 TTTATAAAATTTTA-AAATTATTTATAAATTCTTTTACGATTTTATAATT
1 TTTAT-AAATTTTATAATTTTTTTATAAATTCTTATACGATTTTATAATT
* *
10721696 TTTATAATTTTTCTAATTTTTT
1 TTTATAAATTTTATAATTTTTT
10721718 AATTAAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
48 21 0.37
49 35 0.61
50 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (49 bp):
TTTATAAATTTTATAATTTTTTTATAAATTCTTATACGATTTTATAATT
Found at i:10721675 original size:11 final size:10
Alignment explanation
Indices: 10721598--10721742 Score: 65
Period size: 9 Copynumber: 14.7 Consensus size: 10
10721588 TTCTTACGAC
10721598 TTTATACAA-T
1 TTTATA-AATT
*
10721608 TTTATAATTTT
1 TTTATAA-ATT
* *
10721619 TTTCTATATT
1 TTTATAAATT
* *
10721629 TCTATATA-T
1 TTTATAAATT
10721638 TTTAT-AATT
1 TTTATAAATT
*
10721647 TTTATAAAAT
1 TTTATAAATT
10721657 TTTA-AAATT
1 TTTATAAATT
10721666 ATTTATAAATT
1 -TTTATAAATT
*
10721677 CTTT-TACGA-T
1 -TTTATA-AATT
10721687 TTTAT-AATT
1 TTTATAAATT
10721696 TTTAT-AATT
1 TTTATAAATT
* *
10721705 TTTCTAATTT
1 TTTATAAATT
*
10721715 TTTAATTAAAAT
1 TTT-A-TAAATT
*
10721727 TTAAT-AATT
1 TTTATAAATT
10721736 TTTATAA
1 TTTATAA
10721743 CTTTCATTGA
Statistics
Matches: 101, Mismatches: 21, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
8 2 0.02
9 40 0.40
10 37 0.37
11 16 0.16
12 6 0.06
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTATAAATT
Found at i:10721718 original size:19 final size:19
Alignment explanation
Indices: 10721607--10721718 Score: 77
Period size: 19 Copynumber: 5.8 Consensus size: 19
10721597 CTTTATACAA
*
10721607 TTTTATAATTTTTTTCTATAT
1 TTTTATAA-TTTTTTATA-AT
* *
10721628 TTCTAT-ATATTTTATAAT
1 TTTTATAATTTTTTATAAT
** *
10721646 TTTTATAAAATTTTAAAAT
1 TTTTATAATTTTTTATAAT
**
10721665 TATTTATAAATTCTTTTACGA-
1 T-TTTAT-AATT-TTTTATAAT
10721686 TTTTATAA-TTTTTATAAT
1 TTTTATAATTTTTTATAAT
*
10721704 TTTTCTAATTTTTTA
1 TTTTATAATTTTTTA
10721719 ATTAAAATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
17 6 0.08
18 15 0.21
19 26 0.36
20 11 0.15
21 8 0.11
22 6 0.08
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:10724304 original size:12 final size:13
Alignment explanation
Indices: 10724287--10724315 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10724277 TGACTTCCAT
10724287 TTCTCCT-CCTTA
1 TTCTCCTCCCTTA
10724299 TTCTCCTCCCTTA
1 TTCTCCTCCCTTA
10724312 TTCT
1 TTCT
10724316 ACACTGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (13 bp):
TTCTCCTCCCTTA
Found at i:10751216 original size:14 final size:14
Alignment explanation
Indices: 10751199--10751230 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10751189 AACTATCCAA
*
10751199 CAAAATAGAACCAT
1 CAAAATAAAACCAT
10751213 CAAAATAAAACCAT
1 CAAAATAAAACCAT
10751227 CAAA
1 CAAA
10751231 TTATCCATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.22, G:0.03, T:0.12
Consensus pattern (14 bp):
CAAAATAAAACCAT
Found at i:10754656 original size:9 final size:9
Alignment explanation
Indices: 10754638--10754745 Score: 53
Period size: 9 Copynumber: 11.7 Consensus size: 9
10754628 AACAATAATA
10754638 AACATAACAT
1 AACAT-ACAT
10754648 AACATACAT
1 AACATACAT
*
10754657 AAAATACA-
1 AACATACAT
* *
10754665 AAAATAGTAAT
1 AACATA--CAT
10754676 ATAC-TACAT
1 A-ACATACAT
*
10754685 AACATACGT
1 AACATACAT
*
10754694 AATATACA-
1 AACATACAT
*
10754702 GACATAAACAAT
1 AACAT--AC-AT
*
10754714 AATATACAT
1 AACATACAT
10754723 AACATACAT
1 AACATACAT
*
10754732 AATATACAT
1 AACATACAT
10754741 -ACATA
1 AACATA
10754746 ACAGATATAC
Statistics
Matches: 75, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
8 15 0.20
9 42 0.56
10 10 0.13
11 4 0.05
12 4 0.05
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (9 bp):
AACATACAT
Found at i:10754750 original size:47 final size:49
Alignment explanation
Indices: 10754632--10754750 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 49
10754622 ATTATAAACA
* *
10754632 ATAATAAACATAACATAACATACATAAAATACAAAAATAGTAATATACTAC
1 ATAATATACAT-ACATAACAGACAT-AAATACAAAAATAGTAATATACTAC
* * *
10754683 ATAACATACGTA-ATATACAGACAT-AA-ACAATAATA-TACATA-ACATAC
1 ATAATATACATACATA-ACAGACATAAATACAAAAATAGTA-ATATAC-TAC
10754730 ATAATATACATACATAACAGA
1 ATAATATACATACATAACAGA
10754751 TATACTAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
46 4 0.07
47 29 0.51
48 5 0.09
49 3 0.05
50 8 0.14
51 8 0.14
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (49 bp):
ATAATATACATACATAACAGACATAAATACAAAAATAGTAATATACTAC
Found at i:10755310 original size:25 final size:25
Alignment explanation
Indices: 10755282--10755350 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
10755272 TTCAGATGGC
10755282 TGGGTAATCGAAAAGGTTTCTCAGA
1 TGGGTAATCGAAAAGGTTTCTCAGA
*
10755307 TGGGTAATCGAAGAA-CTTT-TCAGA
1 TGGGTAATCGAA-AAGGTTTCTCAGA
10755331 T-GG-AATC-AAAAGGCTTTCTC
1 TGGGTAATCGAAAAGG-TTTCTC
10755351 GCACAAATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 7 0.18
23 4 0.11
24 6 0.16
25 15 0.39
26 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (25 bp):
TGGGTAATCGAAAAGGTTTCTCAGA
Found at i:10757799 original size:15 final size:15
Alignment explanation
Indices: 10757779--10757871 Score: 54
Period size: 14 Copynumber: 6.4 Consensus size: 15
10757769 AATCTCCCCC
*
10757779 TAAATCCCTAAACCT
1 TAAACCCCTAAACCT
* *
10757794 TAAATCTCT-AACTCT
1 TAAACCCCTAAAC-CT
*
10757809 T-AACCCCT-AACAT
1 TAAACCCCTAAACCT
*
10757822 CT-AACCCCTAAACCCC
1 -TAAACCCCTAAA-CCT
10757838 T-AACCCCTAAACCT
1 TAAACCCCTAAACCT
* *
10757852 TAAATCCC-AACCCT
1 TAAACCCCTAAACCT
10757866 TAAACC
1 TAAACC
10757872 ATAATCCCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
13 1 0.02
14 32 0.51
15 29 0.46
16 1 0.02
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCCCTAAACCT
Found at i:10757819 original size:7 final size:7
Alignment explanation
Indices: 10757809--10757847 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
10757799 CTCTAACTCT
10757809 TAACCCC
1 TAACCCC
**
10757816 TAACATC
1 TAACCCC
10757823 TAACCCC
1 TAACCCC
10757830 TAAACCCC
1 T-AACCCC
10757838 TAACCCC
1 TAACCCC
10757845 TAA
1 TAA
10757848 ACCTTAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:10757847 original size:22 final size:22
Alignment explanation
Indices: 10757810--10757871 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
10757800 TCTAACTCTT
** *
10757810 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACCCCTAAACCCTA
*
10757832 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACCCCTAAACCCTA
* *
10757854 AATCCC-AACCCTTAAACC
1 AACCCCTAACCCCTAAACC
10757872 ATAATCCCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCCTAAACCCTA
Found at i:10757869 original size:21 final size:22
Alignment explanation
Indices: 10757830--10757882 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
10757820 ATCTAACCCC
* *
10757830 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
10757852 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
10757873 T-AATCCCTAA
1 TAAATCCCTAA
10757883 ATCCATACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Found at i:10758179 original size:15 final size:15
Alignment explanation
Indices: 10758155--10758185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10758145 AACCCGTAAT
10758155 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
10758170 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
10758185 C
1 C
10758186 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:10758735 original size:73 final size:73
Alignment explanation
Indices: 10758615--10758779 Score: 240
Period size: 73 Copynumber: 2.3 Consensus size: 73
10758605 CTGAGCATTG
* ** * ***
10758615 GCGGCACTTTCTTAAAAACGTTGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAG
1 GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAACGTCGTTGGGCTTAG
10758680 GTTTTTTT
66 GTTTTTTT
* *
10758688 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAACGTTGTTGGGCTTAG
1 GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAACGTCGTTGGGCTTAG
10758753 GTTTTTTT
66 GTTTTTTT
*
10758761 GCTGCACTTTCTCAAAAAC
1 GCGGCACTTTCTCAAAAAC
10758780 ATCGATAAAG
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (73 bp):
GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAACGTCGTTGGGCTTAG
GTTTTTTT
Found at i:10758826 original size:114 final size:114
Alignment explanation
Indices: 10758688--10758893 Score: 349
Period size: 114 Copynumber: 1.8 Consensus size: 114
10758678 AGGTTTTTTT
* *
10758688 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAACGTTGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCGAAAGCTCACAAAACAACGTCGTTGGGCTTAG
*
10758753 GTTTTTTTGCTGCACTTTCTCAAAAACATCGATAAAGACCTGAGCATTA
66 GTTTTTTTGCGGCACTTTCTCAAAAACATCGATAAAGACCTGAGCATTA
* * *
10758802 GCGGCGCTTTCTTAAAAACACCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCGAAAGCTCACAAAACAACGTCGTTGGGCTTAG
*
10758867 GTTTTTTTGCGGCGCTTTCTCAAAAAC
66 GTTTTTTTGCGGCACTTTCTCAAAAAC
10758894 GCCGCTAAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 85 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCGAAAGCTCACAAAACAACGTCGTTGGGCTTAG
GTTTTTTTGCGGCACTTTCTCAAAAACATCGATAAAGACCTGAGCATTA
Found at i:10758835 original size:187 final size:187
Alignment explanation
Indices: 10758520--10759089 Score: 876
Period size: 187 Copynumber: 3.0 Consensus size: 187
10758510 AGAATCTTTT
* * * *
10758520 GCCGCTAAATCCCCGAAAGCCCAGAAAACGGCGCCATTGGGCTTAGGTTTTTTTGCGGTGCA--T
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGC--TGCACTT
* * * **
10758583 TCTCAAAAACGCCGCTAAAGCCCTGAGCATTGGCGGCACTTTCTTAAAAACGTTGCTAAATCCCC
64 TCTCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACACTGCTAAATCCCC
*
10758648 GAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAAC
129 GAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAAC
* * *
10758707 GCCGCTAAATCCCCGAAAGCTCACAAAACAACGTTGTTGGGCTTAGGTTTTTTTGCTGCACTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCTGCACTTTC
* * * *
10758772 TCAAAAACATCGATAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACACCGCTAAATCCCCGA
66 TCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACACTGCTAAATCCCCGA
*
10758837 AAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAAC
131 AAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAAC
* *
10758894 GCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCTGCACTTTC
*
10758959 TCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGTGCTTTAC-TAAAAACACTGCTAAATCCCCG
66 TCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTT-CTTAAAAACACTGCTAAATCCCCG
* *
10759023 AAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTCTCAAAAAC
130 AAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAAC
*
10759081 GCCGATAAA
1 GCCGCTAAA
10759090 GACCTGAACA
Statistics
Matches: 348, Mismatches: 32, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
185 4 0.01
187 343 0.99
188 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (187 bp):
GCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCTGCACTTTC
TCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACACTGCTAAATCCCCGA
AAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAAC
Found at i:10758921 original size:73 final size:73
Alignment explanation
Indices: 10758802--10758975 Score: 321
Period size: 73 Copynumber: 2.4 Consensus size: 73
10758792 CTGAGCATTA
* *
10758802 GCGGCGCTTTCTTAAAAACACCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
10758867 GTTTTTTT
66 GTTTTTTT
10758875 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
10758940 GTTTTTTT
66 GTTTTTTT
*
10758948 GCGGCGCTTTCTCAAAAACGTCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
10758976 GCCCTGAGCA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 98 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (73 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
GTTTTTTT
Found at i:10758969 original size:114 final size:114
Alignment explanation
Indices: 10758875--10759431 Score: 792
Period size: 114 Copynumber: 4.9 Consensus size: 114
10758865 AGGTTTTTTT
* * *
10758875 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
*
10758940 GTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAGACCTGAGCATTA
* * * * *
10758989 GCGGTGCTTTAC-TAAAAACACTGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTA
1 GCGGCGCTTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTA
* * * *
10759053 GGTTTTTTTGCAGCGCTTTCTCAAAAACGCCGATAAAGACCTGAACATTA
65 GGTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAGACCTGAGCATTA
* * *
10759103 GCGGCACTTTCTTAAAAACGCCGCTAAATCCCCGAAAACTCACAAAACGGTGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
** *
10759168 GTTTTTTTGCGGCATTTTCTCAAAAACGCCGCTAAAGACCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAGACCTGAGCATTA
* * *
10759217 GCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* * * *
10759282 GTTTTTTTGCAGCGCTTTCTCAGAAACGTTGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAGACCTGAGCATTA
* * * * *
10759331 GCAGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGTTCATAAAACGGCGTCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* * *
10759396 GTTTTTTTGCGGCGTTTTCTCAAAAATGCCGCTAAA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAA
10759432 TCCCCGAAAG
Statistics
Matches: 392, Mismatches: 49, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
113 1 0.00
114 390 0.99
115 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAGACCTGAGCATTA
Found at i:10759317 original size:301 final size:298
Alignment explanation
Indices: 10758520--10759317 Score: 786
Period size: 301 Copynumber: 2.6 Consensus size: 298
10758510 AGAATCTTTT
* * *
10758520 GCCGCTAAATCCCCGAAAGCCCAGAAAACGGCGCCATTGGGCTTAGGTTTTTTTGCGGTGCA-TT
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGC-G-GCATTT
* * *
10758584 CTCAAAAACGCCGCTAAAGCCCTGAGCATTGGCGGCACTTTCTTAAAAACGTTGCTAAATCCCCG
64 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA--TGGCTAAATCCCCG
* ** * *
10758649 AAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTA
127 AAAGCTCACAAAACGACGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTA
* * *
10758714 AATCCCCGAAAGCTCACAAAACAACGTTGTTGGGCTTAGGTTTTTTTGCTGCACTTTCTCAAAAA
192 AATCCCCGAAAGCTCACAAAACAACATCGTTGGGCTTAGGTTTTTTTGCAGCACTTTCTCAAAAA
* * *
10758779 CATCGATAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
257 CACCGATAAAGACCTGAACATTAGCGGCACTTTCTTAAAAAC
* * *
10758821 ACCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC-ATTTC
* * * *** * ***** *** **
10758886 TCAAAAACGCCGCTAAATCCCCGAAAGC-TCAGAAAACGAC-GTCGTTGGGCTTAGG-TTTTTTT
65 TCAAAAACGCCGCTAAAGCCCTG--AGCATTAG-CGGCG-CTTTC-TTAAAAAT-GGCTAAATCC
* ** * *** ** **** * *
10758948 GCG-GCGCTTTCTCAAAA--ACGTCGCTAAAGC-CCTGAGCATTAGCGGTGCTTTACT-AAAAAC
124 CCGAAAGC--TCACAAAACGACGTCG-TTGGGCTTATGTTTTTTTGCGGCGCTTT-CTCAAAAAC
* * ** *
10759008 ACTGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTC
185 GCTGCTAAATCCCCGAAAGCTCACAAAACAACATCGTTGGGCTTAGGTTTTTTTGCAGCACTTTC
*
10759073 TCAAAAACGCCGATAAAGACCTGAACATTAGCGGCACTTTCTTAAAAAC
250 TCAAAAACACCGATAAAGACCTGAACATTAGCGGCACTTTCTTAAAAAC
* * *
10759122 GCCGCTAAATCCCCGAAAACTCACAAAACGGTGTCGTTGGGCTTAGGTTTTTTTGCGGCATTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCA-TTTC
*
10759187 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGA
65 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATG--GCTAAATCCCCGA
* * *
10759252 AAGCTCACAAAACGACGTCGTTGGGCTTATGTTTTTTTGCAGCGCTTTCTCAGAAACGTTGCTAA
128 AAGCTCACAAAACGACGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAA
10759317 A
193 A
10759318 GCCCTGAGCA
Statistics
Matches: 373, Mismatches: 101, Indels: 46
0.72 0.19 0.09
Matches are distributed among these distances:
297 1 0.00
298 4 0.01
299 17 0.05
300 13 0.03
301 310 0.83
302 12 0.03
303 13 0.03
304 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (298 bp):
GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCATTTCT
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGGCTAAATCCCCGAAAG
CTCACAAAACGACGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAATC
CCCGAAAGCTCACAAAACAACATCGTTGGGCTTAGGTTTTTTTGCAGCACTTTCTCAAAAACACC
GATAAAGACCTGAACATTAGCGGCACTTTCTTAAAAAC
Found at i:10759427 original size:73 final size:72
Alignment explanation
Indices: 10759334--10759502 Score: 212
Period size: 73 Copynumber: 2.3 Consensus size: 72
10759324 AGCATTAGCA
* * * * *
10759334 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGTTCATAAAACGGCGTCGTTGGGCTTATGTT
1 GCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTA-GGT
10759399 TTTTTGCG
65 TTTTTGCG
* * * * * *
10759407 GCGTTTTCTCAAAAATGCCGCTAAATCCCCGAAAGCTCGGAAAATGACGTTGTTGGGCTTAGGTT
1 GCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTT
10759472 TTTTGCG
66 TTTTGCG
**
10759479 GCGCTTTCTGGAAAACGCCGCTAA
1 GCGCTTTCTCAAAAACGCCGCTAA
10759503 TGATCGATCT
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 30 0.37
73 51 0.63
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (72 bp):
GCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTT
TTTTGCG
Found at i:10765712 original size:27 final size:27
Alignment explanation
Indices: 10765655--10765744 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
10765645 GGGGTGCCAT
* ** *
10765655 AGGCGGCACC-AGTTGTGCCTCTGTCAG
1 AGGCGGCACCGA-TGGTGCCTCTCCCAC
10765682 AGGCGGCACCGATGGTGGCC-CTCCCAC
1 AGGCGGCACCGATGGT-GCCTCTCCCAC
10765709 AGGCGGCACCGATGGTGCCTCTCCCAC
1 AGGCGGCACCGATGGTGCCTCTCCCAC
10765736 AGGCGGCAC
1 AGGCGGCAC
10765745 TGCCTATTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.05
27 49 0.88
28 4 0.07
ACGTcount: A:0.16, C:0.37, G:0.33, T:0.14
Consensus pattern (27 bp):
AGGCGGCACCGATGGTGCCTCTCCCAC
Found at i:10765829 original size:5 final size:5
Alignment explanation
Indices: 10765807--10765908 Score: 65
Period size: 5 Copynumber: 21.4 Consensus size: 5
10765797 GAAAGAAGAA
* *
10765807 GAAA- GAAA- GAAAG AAAAG GAAAG GAGAG GAAA- GAAA- GAAA- G-AAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
* * * * * *
10765851 GAAAG AAAAG GAAAG GAGAAG AAAAAA GAAAG AAAAA G-AAG GAAAG AAAAG
1 GAAAG GAAAG GAAAG GA-AAG -GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
10765902 GAAAG GA
1 GAAAG GA
10765909 GAAGAAAAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
3 2 0.03
4 21 0.28
5 47 0.62
6 5 0.07
7 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:10765855 original size:36 final size:36
Alignment explanation
Indices: 10765791--10765960 Score: 162
Period size: 36 Copynumber: 4.4 Consensus size: 36
10765781 GGAAGAGAAT
*
10765791 GAGAGGGAAAGAAGAAGAAAGAAAGAAAGAAAAGGAAAG
1 GAGA-GGAAAG-A-AAGAAAGAAGGAAAGAAAAGGAAAG
10765830 GAGAGGAAAGAAAGAAAGAAGGAAAGAAAAGGAAAG
1 GAGAGGAAAGAAAGAAAGAAGGAAAGAAAAGGAAAG
*
10765866 GAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
1 GAG-AG--GAAAGAAAG--AAAGAAGGAAAGAAAAGGAAAG
* * * * *
10765907 GAGAAGAAAAAAAAAGAAAGAAGAAGAAGAAGAGGGAAG
1 GAG-AG-GAAAGAAAGAAAGAAGGA-AAGAAAAGGAAAG
*
10765946 GA-AGGAAAAAAAGAA
1 GAGAGGAAAGAAAGAA
10765961 GGTAATTTTT
Statistics
Matches: 118, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
36 37 0.31
37 5 0.04
38 14 0.12
39 25 0.21
40 9 0.08
41 28 0.24
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (36 bp):
GAGAGGAAAGAAAGAAAGAAGGAAAGAAAAGGAAAG
Found at i:10765879 original size:31 final size:32
Alignment explanation
Indices: 10765796--10765934 Score: 119
Period size: 31 Copynumber: 4.4 Consensus size: 32
10765786 AGAATGAGAG
* * *
10765796 GGAAAGAAGAAGAAAGAAAGAAAGAAAAGGAAA
1 GGAAAGGAGAAGAAAGAAAG-AAGGAAAGAAAA
*
10765829 GGAGAGGA-AAGAAAGAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAGGAAAGAAAA
*
10765860 GGAAAGGAGAAGAAA-AAAGAAAGAAA-AAGAA
1 GGAAAGGAGAAGAAAGAAAGAAGGAAAGAA-AA
* * *
10765891 GGAAA-GAAAAGGAAAG-GAGAA-GAAAAAAAA
1 GGAAAGGAGAA-GAAAGAAAGAAGGAAAGAAAA
* *
10765921 AGAAAGAAGAAGAA
1 GGAAAGGAGAAGAA
10765935 GAAGAGGGAA
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
30 19 0.21
31 47 0.53
32 17 0.19
33 6 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (32 bp):
GGAAAGGAGAAGAAAGAAAGAAGGAAAGAAAA
Found at i:10765938 original size:67 final size:67
Alignment explanation
Indices: 10765799--10765939 Score: 164
Period size: 67 Copynumber: 2.1 Consensus size: 67
10765789 ATGAGAGGGA
* * * * *
10765799 AAGAAGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAGAAGGAAAGAAAAGGAA
1 AAGAAGAAAAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGAAAGAAAGAAGAAAAGAAAAAGAA
10765864 AG
66 AG
*
10765866 GAGAAGAAAAAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAAA-AA-AAAAGAAAGA
1 AAGAAGAAAAAAGAAAGAAAGAA-AAGGAAAGAAAAGGAAA-GA-AAGAAAGAAGAAAAGAAA-A
10765928 AG-AAG
62 AGAAAG
10765933 AAGAAGA
1 AAGAAGA
10765940 GGGAAGGAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
66 2 0.03
67 49 0.78
68 6 0.10
69 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (67 bp):
AAGAAGAAAAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGAAAGAAAGAAGAAAAGAAAAAGAA
AG
Found at i:10765947 original size:44 final size:41
Alignment explanation
Indices: 10765798--10765956 Score: 185
Period size: 41 Copynumber: 4.1 Consensus size: 41
10765788 AATGAGAGGG
* *
10765798 AAAG-AAGAAGAAAGAAAGAAAGAAAAGGAAAGGAG-AG--G
1 AAAGAAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
10765836 AAAGAAAG--AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
10765875 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
* * *
10765916 AAA-AAAGAAAGAAGAA-G-AAGAAGAGGGAAGGA-AGGAAA
1 AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
10765954 AAA
1 AAA
10765957 AGAAGGTAAT
Statistics
Matches: 109, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
36 24 0.22
37 2 0.02
38 12 0.11
39 24 0.22
40 8 0.07
41 39 0.36
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (41 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
Found at i:10766488 original size:157 final size:155
Alignment explanation
Indices: 10766315--10766866 Score: 509
Period size: 159 Copynumber: 3.5 Consensus size: 155
10766305 AAATTAATAA
* * * * * *
10766315 ATTTCAAACATAATGTACTAAAATCATGTAAAATAATAAAATTAGAAATTATGATA-TTTT-TT-
1 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATTAAAAATAAT-ATATTTTTATTG
* **
10766377 AAAGTAATAAAAAGCGGAGAAAAAATACAAAGAAATGGCCGAAATAAGAGAGTTTTACTAAATTT
65 AAAGTAATAAAATGC-GAGAAAAAATAC-AAGAAA-GGCCGAAATAAGAGTCTTTTACTAAATTT
10766442 TTTAAAAATTCAGAAATAATTAATACAAAT
127 TTTAAAAATTCA-AAATAATTAATACAAAT
*
10766472 ATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAA-TACAAAAGTAATATATTTTTATT
1 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATTA-AAAA-TAATATATTTTTATT
* * * * * * *
10766536 GAAAGTAATAAAATTCGAAAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTTACACTAA
64 GAAAGTAATAAAATGCGAGAAAA-AATACAAG-AAAGGCCGA-AATAAGAG-TCTTTT--ACTAA
* * * *
10766601 ATTAATTTAAAAA-ACACACTAAATTAAT--AAA-
123 ATT-TTTTAAAAATTCAAAAT-AATTAATACAAAT
* * ** * * *
10766632 A-TT-AAAAAATAATGCACTGAAATAATGCAAAATTATAAAATTAGAAATTATGATA-TTTT-TT
1 ATTTCAAACAA-AATGTACTGAAATAATATAAAATAATAAAATTAAAAATAAT-ATATTTTTATT
* * *
10766693 -AAAGTAATAAAATGTAGAGAAAAAAATACGAACAAAGGGCCGAAGTAAGAGTCTTTTACTAAAT
64 GAAAGTAATAAAATG-CGAG-AAAAAATAC-AAGAAA-GGCCGAAATAAGAGTCTTTTACTAAAT
10766757 TTTTTAAAAATTCAAAAATAATTAATACAAAT
125 TTTTTAAAAATTC-AAAATAATTAATACAAAT
* *
10766789 ATTTCAAACAAAATCTACTGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTG
1 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAAT-TAAAAATAATATATTTTTATTG
10766854 AAAGTAATAAAAT
65 AAAGTAATAAAAT
10766867 TTGGGGAAAT
Statistics
Matches: 313, Mismatches: 51, Indels: 58
0.74 0.12 0.14
Matches are distributed among these distances:
153 8 0.03
154 16 0.05
155 3 0.01
156 23 0.07
157 61 0.19
158 59 0.19
159 63 0.20
160 33 0.11
161 20 0.06
162 2 0.01
163 17 0.05
164 8 0.03
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (155 bp):
ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATTAAAAATAATATATTTTTATTGA
AAGTAATAAAATGCGAGAAAAAATACAAGAAAGGCCGAAATAAGAGTCTTTTACTAAATTTTTTA
AAAATTCAAAATAATTAATACAAAT
Found at i:10766798 original size:317 final size:317
Alignment explanation
Indices: 10766289--10766972 Score: 1091
Period size: 317 Copynumber: 2.2 Consensus size: 317
10766279 AAAATGGTAT
* * * *
10766289 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATCATGTAAAATAATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGCAAAATAATAA
* * *
10766354 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAATACAAAGAAATGGCCGA
66 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCAGAGAAAAAATACAAACAAAGGGCCGA
* *
10766419 AATAAGAGAGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAA
131 AATAAGAGACTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAAA
* *
10766484 ATGTAATGAAATAATATAAAATAATAAAATACAAAAGTAATATATTTTTATTGAAAGTAATAAAA
196 ATCTAATGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAA
10766549 TTCGAAAAAATAATACGAGCAAAGGGCAAGAATAAGGG-TTTTTTTACACTAAATTA
261 TTCGAAAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTTTACACTAAATTA
* * * *
10766605 ATTTAAAAAACACACTAAATTAATAAAATTAAAAAATAATGCACTGAAATAATGCAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGCAAAATAATAA
* * *
10766670 AATTAGAAATTATGATATTTTTTAAAGTAATAAAATGTAGAGAAAAAAATACGAACAAAGGGCCG
66 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCAGAG-AAAAAATACAAACAAAGGGCCG
* *
10766735 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAA
130 AAATAAGAGACTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAA
*
10766800 AATCTACTGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAA
195 AATCTAATGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAA
* *** * *
10766865 ATTTGGGGAAATAATACGAGCAAATGGCAGGAATAAGGGTTTTTTTTTACACTAAATTA
260 ATTCGAAAAAATAATACGAGCAAAGGGCAAGAATAAGGG-TTTTTTTTACACTAAATTA
*
10766924 ATTTAAAAAACAAACTAAATTAATAAATTTCAAACATAATGCACTGAAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAA
10766973 ATACGAACAA
Statistics
Matches: 334, Mismatches: 31, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
316 96 0.29
317 175 0.52
319 63 0.19
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.30
Consensus pattern (317 bp):
ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGCAAAATAATAA
AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCAGAGAAAAAATACAAACAAAGGGCCGA
AATAAGAGACTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAAA
ATCTAATGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAA
TTCGAAAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTTTACACTAAATTA
Found at i:10772236 original size:25 final size:26
Alignment explanation
Indices: 10772194--10772242 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
10772184 CTAAACCCTA
10772194 AAAACTAATAATAATAAT-ACTAACT
1 AAAACTAATAATAATAATAACTAACT
* **
10772219 AAAACTATTAATCTTAATAACTAA
1 AAAACTAATAATAATAATAACTAA
10772243 ACAACAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAACTAATAATAATAATAACTAACT
Found at i:10772346 original size:10 final size:10
Alignment explanation
Indices: 10772318--10772354 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
10772308 AAATACCTTT
10772318 TTTTTCTCTTC
1 TTTTTCTC-TC
*
10772329 TCTTTCTCTC
1 TTTTTCTCTC
10772339 TTTTTCTCTC
1 TTTTTCTCTC
10772349 TTTTTC
1 TTTTTC
10772355 CGGCAGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:10775858 original size:31 final size:29
Alignment explanation
Indices: 10775798--10775859 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
10775788 GTTTTCCGCG
* *
10775798 TATAATTGCACCAAATTAAAGTTCATGTA
1 TATAATTGCACCAAATCAAAGCTCATGTA
*
10775827 TATAATTGCACATTAAATCAAAGCTCATGTA
1 TATAATTGCAC--CAAATCAAAGCTCATGTA
10775858 TA
1 TA
10775860 ATTTTGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
31 17 0.61
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (29 bp):
TATAATTGCACCAAATCAAAGCTCATGTA
Found at i:10775859 original size:29 final size:27
Alignment explanation
Indices: 10775797--10775862 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
10775787 AGTTTTCCGC
* *
10775797 GTATAATTGCACCAAATTAAAGTTCAT
1 GTATAATTGCACCAAATCAAAGCTCAT
*
10775824 GTATATAATTGCACATTAAATCAAAGCTCAT
1 G--TATAATTGCAC--CAAATCAAAGCTCAT
10775855 GTATAATT
1 GTATAATT
10775863 TTGAGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 1 0.03
29 18 0.56
31 13 0.41
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (27 bp):
GTATAATTGCACCAAATCAAAGCTCAT
Found at i:10776661 original size:18 final size:18
Alignment explanation
Indices: 10776615--10776662 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
10776605 TTGAAAAATA
*
10776615 TTTAT-TTATTTTATTATT
1 TTTATATTA-TTTATAATT
10776633 TTTATCA-TATTTATAATT
1 TTTAT-ATTATTTATAATT
10776651 TTTATATTATTT
1 TTTATATTATTT
10776663 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 23 0.88
19 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATATTATTTATAATT
Found at i:10777148 original size:13 final size:12
Alignment explanation
Indices: 10777130--10777182 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 12
10777120 GATTTTGATT
10777130 ATTTTATAATTAA
1 ATTTTA-AATTAA
10777143 ATTTTAAATTAA
1 ATTTTAAATTAA
*
10777155 AGCTATTAAATTAA
1 A--TTTTAAATTAA
10777169 ATTATTAAACTTAA
1 ATT-TTAAA-TTAA
10777183 TTAATAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 8 0.24
13 11 0.32
14 15 0.44
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (12 bp):
ATTTTAAATTAA
Found at i:10777185 original size:13 final size:13
Alignment explanation
Indices: 10777137--10777182 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
10777127 ATTATTTTAT
10777137 AATTAAATT-TTA
1 AATTAAATTATTA
*
10777149 AATTAAAGCTATTA
1 AATTAAA-TTATTA
10777163 AATTAAATTATTA
1 AATTAAATTATTA
10777176 AACTTAA
1 AA-TTAA
10777183 TTAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 8 0.28
14 14 0.48
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (13 bp):
AATTAAATTATTA
Done.