Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 40 of 230
Found at i:10819751 original size:18 final size:19
Alignment explanation
Indices: 10819721--10819756 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10819711 GACTCCAGGT
10819721 CTGATTCTTTTCAATCATC
1 CTGATTCTTTTCAATCATC
10819740 CTGATT-TTTTCAATCAT
1 CTGATTCTTTTCAATCAT
10819757 TGCTTGCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (19 bp):
CTGATTCTTTTCAATCATC
Found at i:10828975 original size:7 final size:7
Alignment explanation
Indices: 10828959--10829005 Score: 64
Period size: 6 Copynumber: 7.0 Consensus size: 7
10828949 TACATTAACC
10828959 TTTA-TT
1 TTTATTT
10828965 TTTATTT
1 TTTATTT
10828972 TTTATTT
1 TTTATTT
10828979 TTTA-TT
1 TTTATTT
10828985 TTTA-TT
1 TTTATTT
10828991 TTTATTTT
1 TTTA-TTT
10828999 TTTATTT
1 TTTATTT
10829006 ACTTGTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.42
7 16 0.42
8 6 0.16
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:10828977 original size:13 final size:13
Alignment explanation
Indices: 10828959--10829018 Score: 70
Period size: 13 Copynumber: 4.5 Consensus size: 13
10828949 TACATTAACC
10828959 TTTATTTTTATTT
1 TTTATTTTTATTT
10828972 TTTATTTTT-TATT
1 TTTATTTTTAT-TT
10828985 TTTATTTTTATTT
1 TTTATTTTTATTT
*
10828998 TTT-TATTTACTTGT
1 TTTATTTTTA-TT-T
10829012 TTTATTT
1 TTTATTT
10829019 ATTTCATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 6 0.15
13 27 0.68
14 5 0.12
15 2 0.05
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:10828984 original size:20 final size:20
Alignment explanation
Indices: 10828959--10829018 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
10828949 TACATTAACC
10828959 TTTATTTTTATTTTTTATTT
1 TTTATTTTTATTTTTTATTT
10828979 TTTATTTTTA-TTTTTATTT
1 TTTATTTTTATTTTTTATTT
*
10828998 TTT-TATTTACTTGTTTTATTT
1 TTTATTTTTA-TT-TTTTATTT
10829019 ATTTCATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 5 0.14
19 12 0.33
20 11 0.31
21 8 0.22
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTATTTTTATTTTTTATTT
Found at i:10829019 original size:4 final size:4
Alignment explanation
Indices: 10828965--10829034 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
10828955 AACCTTTATT
* *
10828965 TTTA TTT- TTTA TTT- TTTA TTT- TTATT TTTA TTTT TTTA TTTA CTTGT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA -TT-TA
10829012 TTTA TTTA TTTCA TTTA TTTA TT
1 TTTA TTTA TTT-A TTTA TTTA TT
10829035 CCTTAATTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 9 0.16
4 37 0.67
5 8 0.15
6 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:10835574 original size:154 final size:154
Alignment explanation
Indices: 10835294--10835593 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 154
10835284 TGTGGAACTC
* * * *
10835294 AGAGCTACCTCCTAAGGTTAAATTATTCTCTTGGCAGGCTTGCTATGGTATACAACCTTTCGGAT
1 AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACAACCTTTCGGAT
*
10835359 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTTCAAGATGCCATTCCACTAATGAGG
66 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
10835424 ATGATCTGCATGCTTTGCTTTCTT
131 ATGATCTGCATGCTTTGCTTTCTT
*
10835448 AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACTACCTTTCGGAT
1 AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACAACCTTTCGGAT
10835513 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
66 GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
10835578 ATGATCTGCATGCTTT
131 ATGATCTGCATGCTTT
10835594 AAAGCAAATA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 140 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (154 bp):
AGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATAGTATACAACCTTTCGGAT
GAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATGAGG
ATGATCTGCATGCTTTGCTTTCTT
Found at i:10838736 original size:6 final size:6
Alignment explanation
Indices: 10838725--10838751 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10838715 TATTATTTTA
10838725 ATTAAT ATTAAT ATTAAT ATTAAT ATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATT
10838752 TTTAATTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTAAT
Found at i:10840283 original size:9 final size:9
Alignment explanation
Indices: 10840254--10840298 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
10840244 GGTTTTTGGA
10840254 TTTTAGGG-
1 TTTTAGGGT
10840262 -TTTAGGG-
1 TTTTAGGGT
10840269 TTTTAGGGT
1 TTTTAGGGT
*
10840278 TTTTAGGAT
1 TTTTAGGGT
*
10840287 TTTTAAGGT
1 TTTTAGGGT
10840296 TTT
1 TTT
10840299 GGAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 7 0.22
8 7 0.22
9 18 0.56
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.56
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:10841645 original size:16 final size:16
Alignment explanation
Indices: 10841624--10841665 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
10841614 TTTTGATAAA
10841624 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
10841640 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
10841656 AGTAAAATTA
1 ATTAAAATTA
10841666 TCAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:10841696 original size:59 final size:66
Alignment explanation
Indices: 10841630--10841756 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
10841620 TAAAATTAAA
*
10841630 ATTAATTGTTAT-TAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTACTTG-TTAATTG
1 ATTAATTGTTATATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTG
10841688 T
66 T
10841689 ATTAATTGTTATAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGTATTAAT
1 ATTAATTGTTAT-ATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTG-ATTAAT
10841754 TGT
64 TGT
10841757 TAATTATATT
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
59 12 0.21
61 6 0.10
62 1 0.02
63 1 0.02
64 1 0.02
65 3 0.05
66 26 0.45
68 8 0.14
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (66 bp):
ATTAATTGTTATATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTG
T
Found at i:10841725 original size:66 final size:68
Alignment explanation
Indices: 10841654--10841799 Score: 188
Period size: 75 Copynumber: 2.1 Consensus size: 68
10841644 AAATTAATTG
* *
10841654 TTAGTAAAATTATCAAATTATTACTTG-TTAATTG-TATTAATTGTTATAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTATAACAAAATCTAACATT
10841717 TGA
66 TGA
*
10841720 TTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTATATTAATTGTTGTAACAAAATC
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTG-----T-TATTAATTGTTATAACAAAATC
10841785 TAACATTTGA
59 TAACATTTGA
10841795 TTAGT
1 TTAGT
10841800 TTACATTTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
66 26 0.38
68 7 0.10
75 35 0.51
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (68 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTATAACAAAATCTAACATT
TGA
Found at i:10841759 original size:16 final size:16
Alignment explanation
Indices: 10841735--10841773 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
10841725 AAAATTATCA
* *
10841735 AATTATTAATTGTATT
1 AATTGTTAATTATATT
10841751 AATTGTTAATTATATT
1 AATTGTTAATTATATT
10841767 AATTGTT
1 AATTGTT
10841774 GTAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTATATT
Found at i:10841845 original size:19 final size:18
Alignment explanation
Indices: 10841804--10841848 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
10841794 ATTAGTTTAC
10841804 ATTTTTGTATTATCAAAT
1 ATTTTTGTATTATCAAAT
10841822 ATTTTTGTATTATCAAAT
1 ATTTTTGTATTATCAAAT
10841840 ATTTTTGTA
1 ATTTTTGTA
10841849 AACAAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTTGTATTATCAAAT
Found at i:10841856 original size:16 final size:17
Alignment explanation
Indices: 10841804--10841856 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
10841794 ATTAGTTTAC
*
10841804 ATTTTTGTATTATCAAAT
1 ATTTTTGTA-TAACAAAT
*
10841822 ATTTTTGTATTATCAAAT
1 ATTTTTGTA-TAACAAAT
10841840 ATTTTTGTA-AACAAAT
1 ATTTTTGTATAACAAAT
10841856 A
1 A
10841857 AGTTTACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 7 0.21
18 27 0.79
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTTTTGTATAACAAAT
Found at i:10842070 original size:20 final size:20
Alignment explanation
Indices: 10842029--10842113 Score: 106
Period size: 19 Copynumber: 4.3 Consensus size: 20
10842019 TCTGTCGGGG
10842029 AAATAAAATTGAAAAC-TAA
1 AAATAAAATTGAAAACATAA
10842048 AAATAAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
10842068 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
*
10842088 ACTAA-AAACTT--AAACATAA
1 A--AATAAAATTGAAAACATAA
10842107 AAATAAA
1 AAATAAA
10842114 TATATATATT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
17 2 0.03
18 3 0.05
19 24 0.41
20 23 0.39
21 5 0.08
22 2 0.03
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:10842083 original size:39 final size:39
Alignment explanation
Indices: 10842029--10842113 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
10842019 TCTGTCGGGG
10842029 AAATAAAATTGAAAACTAAAAAT-AAAA-TTGAAAACATAA
1 AAATAAAATTGAAAACTAAAAATAAAAACTT--AAACATAA
* *
10842068 AAATAAAATTGAAAACTTAAACTAAAAACTTAAACATAA
1 AAATAAAATTGAAAACTAAAAATAAAAACTTAAACATAA
10842107 AAATAAA
1 AAATAAA
10842114 TATATATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 36 0.86
40 4 0.10
41 2 0.05
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (39 bp):
AAATAAAATTGAAAACTAAAAATAAAAACTTAAACATAA
Found at i:10842178 original size:20 final size:20
Alignment explanation
Indices: 10842150--10842190 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10842140 AATGTCGGGG
*
10842150 AAATGAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
10842170 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
10842190 A
1 A
10842191 CTGTCAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:10842282 original size:16 final size:16
Alignment explanation
Indices: 10842261--10842293 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10842251 TATATTTTTT
10842261 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
10842277 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
10842293 A
1 A
10842294 TATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:10844505 original size:31 final size:29
Alignment explanation
Indices: 10844432--10844512 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
10844422 AAATTGAATC
*
10844432 AAATCAAAATTTCATGTATAAAACTGCACA
1 AAATCAAAA-TTCATGTATAAAACTACACA
* * *
10844462 AAATCAATATTCATGTATGACACTACACA
1 AAATCAAAATTCATGTATAAAACTACACA
*
10844491 TTAGATCAAAATTCATGTATAA
1 --AAATCAAAATTCATGTATAA
10844513 TTTTATATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAACTACACA
Found at i:10845092 original size:18 final size:18
Alignment explanation
Indices: 10845058--10845091 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10845048 GTGTTTTAGT
10845058 TAAAATATGCATATTTTG
1 TAAAATATGCATATTTTG
*
10845076 TAAAATTTG-ATATTTT
1 TAAAATATGCATATTTT
10845092 TATATATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (18 bp):
TAAAATATGCATATTTTG
Found at i:10846385 original size:16 final size:17
Alignment explanation
Indices: 10846364--10846395 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10846354 TTAGGGTTTT
10846364 GGTTTAGGGT-TTTTAG
1 GGTTTAGGGTATTTTAG
10846380 GGTTTAGGGTATTTTA
1 GGTTTAGGGTATTTTA
10846396 AAAGTGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (17 bp):
GGTTTAGGGTATTTTAG
Found at i:10849274 original size:25 final size:25
Alignment explanation
Indices: 10849220--10849274 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
10849210 AAACATTAAA
*
10849220 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
10849245 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
10849269 TATTAA
1 T-TTAA
10849275 GATATGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:10850936 original size:15 final size:15
Alignment explanation
Indices: 10850912--10850943 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10850902 TATGCATGCA
*
10850912 AAATATAAAAGACAT
1 AAATACAAAAGACAT
10850927 AAATACAAAAGACAT
1 AAATACAAAAGACAT
10850942 AA
1 AA
10850944 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:10851302 original size:30 final size:30
Alignment explanation
Indices: 10851266--10851327 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
10851256 ATTTATTTTA
10851266 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
10851296 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
10851326 TT
1 TT
10851328 ACTTATTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:10851696 original size:16 final size:16
Alignment explanation
Indices: 10851675--10851706 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10851665 CATACACAAA
10851675 CAAAATCAAAGATGTG
1 CAAAATCAAAGATGTG
10851691 CAAAATCAAAGATGTG
1 CAAAATCAAAGATGTG
10851707 AGTGGCAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (16 bp):
CAAAATCAAAGATGTG
Found at i:10859688 original size:43 final size:41
Alignment explanation
Indices: 10859641--10859790 Score: 113
Period size: 43 Copynumber: 3.5 Consensus size: 41
10859631 ATGTTTATTC
10859641 GATGATGCACTATGCATGCCAGTATAATTGCTTCGATTCATCT
1 GATGATGCACTATG-ATGCCAGTATAATTGCTTCGATT-ATCT
* * * * * *
10859684 GATGATGGATCTCGTG-TGCCATTATAATTGTTTCGAGTTACCC
1 GATGATGCA-CT-ATGATGCCAGTATAATTGCTTCGA-TTATCT
* ** * * * *
10859727 GATGATGCACTATGTGTGCCAGTATCTTTCCTTTGGTATATTT
1 GATGATGCACTATG-ATGCCAGTATAATTGCTTCGAT-TATCT
10859770 GATGATGCACTATGATGCCAG
1 GATGATGCACTATGATGCCAG
10859791 ATTGAGATAC
Statistics
Matches: 82, Mismatches: 19, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
41 2 0.02
42 9 0.11
43 65 0.79
44 4 0.05
45 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
GATGATGCACTATGATGCCAGTATAATTGCTTCGATTATCT
Found at i:10865902 original size:8 final size:8
Alignment explanation
Indices: 10865889--10865928 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
10865879 CCTCAATTGC
10865889 ATGTTTGT
1 ATGTTTGT
10865897 ATGTTTGT
1 ATGTTTGT
*
10865905 ATGGTT-T
1 ATGTTTGT
10865912 -TGTTTGT
1 ATGTTTGT
10865919 ATGTTTGT
1 ATGTTTGT
10865927 AT
1 AT
10865929 TACTCATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
8 22 0.79
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATGTTTGT
Found at i:10868431 original size:11 final size:11
Alignment explanation
Indices: 10868415--10868441 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10868405 TAGAAATTAG
10868415 TTTGTGAAACT
1 TTTGTGAAACT
10868426 TTTGTGAAACT
1 TTTGTGAAACT
10868437 TTTGT
1 TTTGT
10868442 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:10869975 original size:91 final size:91
Alignment explanation
Indices: 10869849--10870056 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
10869839 TTGATTTTAG
* *
10869849 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
10869914 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
10869941 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
10870006 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * *
10870032 CAAATTCATATAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
10870057 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:10870025 original size:26 final size:28
Alignment explanation
Indices: 10869971--10870031 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
10869961 TATTATCAAG
* *
10869971 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
10869999 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
10870025 AATTATA
1 AATTATA
10870032 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:10870031 original size:44 final size:43
Alignment explanation
Indices: 10869889--10870075 Score: 121
Period size: 47 Copynumber: 4.1 Consensus size: 43
10869879 GAATTTTATG
* *
10869889 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
10869933 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
10869980 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
* * * *
10870024 AAATTATACAAATTCATATAATATAATT-TATTAGTTATAATTATTTT
1 AAATTAT--ATATT-AT-TATTA-AATTATATTAATAATAATTATTTT
10870071 AAATT
1 AAATT
10870076 TTATTAAATC
Statistics
Matches: 111, Mismatches: 16, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
42 6 0.05
43 4 0.04
44 20 0.18
45 12 0.11
46 15 0.14
47 34 0.31
48 10 0.09
49 10 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:10870149 original size:59 final size:57
Alignment explanation
Indices: 10870083--10870391 Score: 184
Period size: 66 Copynumber: 5.2 Consensus size: 57
10870073 ATTTTATTAA
10870083 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
10870142 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
10870203 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
* * ** * *
10870262 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
10870323 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
10870382 ATCATATATT
1 ATCATATATT
10870392 ATGATTTGAG
Statistics
Matches: 185, Mismatches: 37, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
54 28 0.15
55 14 0.08
56 10 0.05
57 6 0.03
59 30 0.16
60 16 0.09
61 20 0.11
63 7 0.04
64 10 0.05
65 13 0.07
66 31 0.17
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:10870196 original size:120 final size:120
Alignment explanation
Indices: 10870072--10870484 Score: 756
Period size: 120 Copynumber: 3.4 Consensus size: 120
10870062 AATTATTTTA
* * * *
10870072 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATCTTT
10870136 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
10870192 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
10870257 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
10870312 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
10870377 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
10870432 AATTTTATTAAATTAAATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
10870485 TAAATATGAT
Statistics
Matches: 286, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 284 0.99
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:10870232 original size:15 final size:15
Alignment explanation
Indices: 10870197--10870248 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10870187 TTAAGAATTT
*
10870197 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10870211 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10870225 TATTTAATAATAAT-
1 TATTTAATTATAATA
10870239 TATGTTAATT
1 TAT-TTAATT
10870249 TATCTTTTAT
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:10870352 original size:15 final size:15
Alignment explanation
Indices: 10870317--10870368 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10870307 TTAAGAATTT
*
10870317 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10870331 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10870345 TATTTAATAATAAT-
1 TATTTAATTATAATA
10870359 TATGTTAATT
1 TAT-TTAATT
10870369 TATATTTTAT
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:10870472 original size:15 final size:15
Alignment explanation
Indices: 10870437--10870478 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10870427 TTAAGAATTT
*
10870437 TATTAAATTA-AATA
1 TATTTAATTATAATA
10870451 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10870465 TATTTAATAATAAT
1 TATTTAATTATAAT
10870479 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.29
14 6 0.25
15 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10870717 original size:45 final size:44
Alignment explanation
Indices: 10870632--10870722 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
10870622 ACCTCTATTC
* *
10870632 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTATATTCCATTA
*** *
10870676 CATTCAACCAAACAGTTGATTTGCTATTACACCTATATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTATATTCCATTA
10870721 CA
1 CA
10870723 CCTCTATTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTATATTCCATTA
Found at i:10870722 original size:16 final size:16
Alignment explanation
Indices: 10870701--10870752 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
10870691 TTGATTTGCT
*
10870701 ATTACACCTATATTCC
1 ATTACACCTCTATTCC
*
10870717 ATTACACCTCTATTGC
1 ATTACACCTCTATTCC
* *
10870733 ATTACGCCTCTATTCT
1 ATTACACCTCTATTCC
10870749 ATTA
1 ATTA
10870753 AAGCGAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:10871129 original size:18 final size:18
Alignment explanation
Indices: 10871107--10871151 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
10871097 CTTTCATTTT
*
10871107 TATTTATAAAATT-TTTA
1 TATTTATAAAATTATATA
10871124 TGATTTATAAAATTATATA
1 T-ATTTATAAAATTATATA
10871143 TATTTATAA
1 TATTTATAA
10871152 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTATAAAATTATATA
Found at i:10871161 original size:26 final size:27
Alignment explanation
Indices: 10871130--10871183 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
10871120 TTTATGATTT
10871130 ATAAAATTATATATATTTATA-ATTTTTA
1 ATAAAATTATATAT-TTT-TAGATTTTTA
*
10871158 AAAAAATTATATATTTTTAGATTTTT
1 ATAAAATTATATATTTTTAGATTTTT
10871184 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 2 0.08
27 9 0.38
28 13 0.54
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
ATAAAATTATATATTTTTAGATTTTTA
Found at i:10873122 original size:37 final size:37
Alignment explanation
Indices: 10873081--10873152 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
10873071 CTTATTTTTT
10873081 CCATTAGATTAAAATTCACTAACTATTTAATTAATCA
1 CCATTAGATTAAAATTCACTAACTATTTAATTAATCA
*
10873118 CCATTAGATTAGAATTCACTAACTATTTAATTAAT
1 CCATTAGATTAAAATTCACTAACTATTTAATTAAT
10873153 TATGAGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (37 bp):
CCATTAGATTAAAATTCACTAACTATTTAATTAATCA
Found at i:10875363 original size:13 final size:14
Alignment explanation
Indices: 10875327--10875365 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10875317 TAAAGAAAAA
10875327 TATACAAATATATAT
1 TATA-AAATATATAT
*
10875342 TATAAAATATGTAT
1 TATAAAATATATAT
10875356 TA-AAAATATA
1 TATAAAATATA
10875366 AGTATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 11 0.50
15 4 0.18
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
TATAAAATATATAT
Found at i:10875661 original size:3 final size:3
Alignment explanation
Indices: 10875653--10875705 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
10875643 TGAATATAGA
* * * *
10875653 AAT AAT AAT AGT AAT AAT GAC AAT ACAT AAT -AT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
10875698 AAT AAT AA
1 AAT AAT AA
10875706 CAAAAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10883835 original size:35 final size:37
Alignment explanation
Indices: 10883787--10883863 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 37
10883777 ATTTGTTAGA
10883787 TATTGATTATGTTTTAACCTTATTGGATATT-AAATT
1 TATTGATTATGTTTTAACCTTATTGGATATTGAAATT
* *
10883823 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAA-T
1 TATTGATTATGTTTTAACCTTATTGGATATTGAAATT
10883858 TATTGA
1 TATTGA
10883864 CAATGACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 29 0.78
36 8 0.22
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (37 bp):
TATTGATTATGTTTTAACCTTATTGGATATTGAAATT
Found at i:10885149 original size:32 final size:32
Alignment explanation
Indices: 10885113--10885189 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
10885103 AACTTTTCCG
** *
10885113 GAAAATATTTTCA-AGGAATCTGTCAAACAGCA
1 GAAAATATTTTCACA-GAATCAATCAAACACCA
* *
10885145 GAAAACATTTTACACAGATTCAATCAAACACCA
1 GAAAATATTTT-CACAGAATCAATCAAACACCA
10885178 GAAAATATTTTC
1 GAAAATATTTTC
10885190 CAGTAAATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 11 0.30
33 25 0.68
34 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCACAGAATCAATCAAACACCA
Found at i:10889088 original size:182 final size:182
Alignment explanation
Indices: 10888756--10889092 Score: 460
Period size: 182 Copynumber: 1.9 Consensus size: 182
10888746 ACCTCTACTT
* * * *
10888756 GAGGGAGCTGATTGGAGTGGATGAGAGACGAGATGAACTTTACTACTTCCAGCAAGTATCTACAA
1 GAGGGAGCTGATTGGAGCGAATGAGAGACGAGATGAACTTTACTACCTCCAGCAAGTATCGACAA
* * * * * * * *
10888821 TCAAAGCGGTTTCTATTGAAGCTTTATCCTCTTTGGAACTTTGGTGTAGAAGATTGGGTCAACCT
66 TCAAAGCGATTTCTATTAAAGCTTCATCCTCTTTGGAAATTTAGTATAAAAGATAGGGTCAACCT
*
10888886 TCCGAGAAAGTGCCGAAGTTACTTCCCTATGTGCTATTTAGGACCTCCAATC
131 TCCGAGAAACTGCCGAAGTTACTTCCCTATGTGCTATTTAGGACCTCCAATC
* * * *
10888938 GAGGGAGCTGATTGGAGCGAATGAGAGATGGGATGAACTTTACTACCTCCAGCAAGTTTCGACAG
1 GAGGGAGCTGATTGGAGCGAATGAGAGACGAGATGAACTTTACTACCTCCAGCAAGTATCGACAA
* * *
10889003 TCAAAGCGATTTTTATTAAAGCTTCATCCTCTTTTGAAATTTAGTATAAAAGATAGGGTCACCCT
66 TCAAAGCGATTTCTATTAAAGCTTCATCCTCTTTGGAAATTTAGTATAAAAGATAGGGTCAACCT
* *
10889068 TTCGAGAAACTAG-TGAAGTTACTTC
131 TCCGAGAAACT-GCCGAAGTTACTTC
10889093 ATTATGTTAG
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
182 131 0.99
183 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (182 bp):
GAGGGAGCTGATTGGAGCGAATGAGAGACGAGATGAACTTTACTACCTCCAGCAAGTATCGACAA
TCAAAGCGATTTCTATTAAAGCTTCATCCTCTTTGGAAATTTAGTATAAAAGATAGGGTCAACCT
TCCGAGAAACTGCCGAAGTTACTTCCCTATGTGCTATTTAGGACCTCCAATC
Found at i:10895312 original size:12 final size:12
Alignment explanation
Indices: 10895295--10895320 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10895285 TTGTATATCT
10895295 TTTAGGAATATA
1 TTTAGGAATATA
10895307 TTTAGGAATATA
1 TTTAGGAATATA
10895319 TT
1 TT
10895321 ATATACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTAGGAATATA
Found at i:10896853 original size:26 final size:26
Alignment explanation
Indices: 10896793--10896843 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
10896783 TTGAGTTACT
*
10896793 AAATTCTCTTTGAGTTTTTCTTTTCAAG
1 AAATTTTC-TTGAGTTTTTCTTTT-AAG
10896821 AAATTTTCTTGAG-TTTTCTTTTA
1 AAATTTTCTTGAGTTTTTCTTTTA
10896844 GAAGAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 9 0.41
27 5 0.23
28 7 0.32
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.57
Consensus pattern (26 bp):
AAATTTTCTTGAGTTTTTCTTTTAAG
Found at i:10898274 original size:24 final size:24
Alignment explanation
Indices: 10898247--10898299 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10898237 ACTTGTAATT
*
10898247 TAAATA-AGTTATTCTAATAAATAC
1 TAAATATA-TTATACTAATAAATAC
10898271 TAAATATATTATACTAATAAATAC
1 TAAATATATTATACTAATAAATAC
10898295 TAAAT
1 TAAAT
10898300 CTTCTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAC
Found at i:10905926 original size:23 final size:23
Alignment explanation
Indices: 10905898--10905952 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 23
10905888 ATGTATTATT
*
10905898 ATATATACATACGTATAGTAAAAAA
1 ATATAT-CATACATATA-TAAAAAA
*
10905923 ATATTATTCATACATATATAAAAAT
1 ATA-TA-TCATACATATATAAAAAA
10905948 ATATA
1 ATATA
10905953 AATTAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.08
25 12 0.46
26 11 0.42
27 1 0.04
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATATCATACATATATAAAAAA
Found at i:10907684 original size:44 final size:44
Alignment explanation
Indices: 10907613--10907718 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
10907603 GACCTACTCT
* * *
10907613 ACTACAACTTCAGAGAGATGAGGTCTATCATTTTGATCCGCTCC
1 ACTACAACTTCAGGGAGATGAGGTCTATCACTTTAATCCGCTCC
** * *
10907657 ACTGTAACTTCAGGGAGAT-AGGATCTATTACTTTAATTCGCTCC
1 ACTACAACTTCAGGGAGATGAGG-TCTATCACTTTAATCCGCTCC
*
10907701 ACTACAACTTTAGGGAGA
1 ACTACAACTTCAGGGAGA
10907719 AAATATTATC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.06
44 48 0.94
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATGAGGTCTATCACTTTAATCCGCTCC
Found at i:10910790 original size:26 final size:26
Alignment explanation
Indices: 10910761--10910811 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
10910751 CCCGATATAT
10910761 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTCGTGAGCTTCCTAATTAAA
* * *
10910787 GGCTCTTTGTTAGCTTCCTGATTAA
1 GGCTCTTCGTGAGCTTCCTAATTAA
10910812 TACTCTCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTAATTAAA
Found at i:10911487 original size:16 final size:16
Alignment explanation
Indices: 10911466--10911502 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10911456 AGTATTTCGA
10911466 AAGCTCGTTGGGTTAG
1 AAGCTCGTTGGGTTAG
*
10911482 AAGCTCGTTGGGTTGG
1 AAGCTCGTTGGGTTAG
10911498 AAGCT
1 AAGCT
10911503 TGGCGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.38, T:0.30
Consensus pattern (16 bp):
AAGCTCGTTGGGTTAG
Found at i:10915072 original size:11 final size:11
Alignment explanation
Indices: 10915056--10915080 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10915046 TTTTTGGTTT
10915056 TTTATTTATAA
1 TTTATTTATAA
10915067 TTTATTTATAA
1 TTTATTTATAA
10915078 TTT
1 TTT
10915081 TTATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTATAA
Found at i:10921401 original size:16 final size:16
Alignment explanation
Indices: 10921380--10921428 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
10921370 TTCGCTATAT
*
10921380 TGGAATAGAGGCGTAA
1 TGGAATAGAGGTGTAA
*
10921396 TGGAATATAGGTGTAA
1 TGGAATAGAGGTGTAA
10921412 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10921428 T
1 T
10921429 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.37, C:0.02, G:0.35, T:0.27
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:10921635 original size:16 final size:16
Alignment explanation
Indices: 10921598--10921639 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10921588 TTAATCATAT
*
10921598 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10921614 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10921629 TTAAAATATAT
1 TTAAAATATAT
10921640 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10921646 original size:14 final size:15
Alignment explanation
Indices: 10921607--10921648 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10921597 TTTAAACATA
*
10921607 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10921622 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10921636 A-TATAATTTAATA
1 ATTATAATTAAATA
10921649 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10921745 original size:15 final size:15
Alignment explanation
Indices: 10921717--10921757 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
10921707 ATAAAATATA
10921717 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
10921732 TATTAAATATATTAT
1 AATTAAATATATTAT
10921747 AATTAAA-ATAT
1 AATTAAATATAT
10921758 CATGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:10921805 original size:122 final size:122
Alignment explanation
Indices: 10921601--10921895 Score: 499
Period size: 122 Copynumber: 2.4 Consensus size: 122
10921591 ATCATATTTA
10921601 AACATAATTATTATTAAATATATTATAATTAAAATATAT-AATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGAATTTAATAAAATTCTTAATAATCA
*
10921665 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
10921721 AACATAATTATTATTAAATATATTATAATTAAAATATCATGAATTTAATAAAATTCTTAATAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATAT-ATGAATTTAATAAAATTCTTAATAATC
*
10921786 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
65 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
10921844 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATG-ACTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGAATTTAATAAAATT
10921896 TAAAATAATT
Statistics
Matches: 166, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
120 49 0.30
121 5 0.03
122 110 0.66
123 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (122 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:10921941 original size:101 final size:91
Alignment explanation
Indices: 10921892--10922122 Score: 265
Period size: 90 Copynumber: 2.5 Consensus size: 91
10921882 GACTTAATAA
* *
10921892 AATTT-AAAATAATTATA-ACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTATACA-TAATAAATT-TCTTATATGAATTTATATAATTTAAAATAATTAA
*
10921955 TATTACATATAATTTAA-TAATAATATAT
63 TATTAAATATAATTTAATTAATAATATAT
* * * *
10921983 AATTTCATAAAATTCTTCATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATAT
1 AATTTCAAAAAATTATACATAATAAATTTCTTATATGAATTTATATAATTTAAAATAATTAATAT
*
10922048 TAAATATAATTTAA-TAATGATATAT
66 TAAATATAATTTAATTAATAATATAT
* * * *
10922073 AATTTCATAAAATTCTTA-ATAATAAAATATTCTTATATGACTTCATATAA
1 AATTTCAAAAAATT-ATACATAAT-AAAT-TTCTTATATGAATTTATATAA
10922123 GATAATTTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
90 76 0.62
91 24 0.20
92 22 0.18
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (91 bp):
AATTTCAAAAAATTATACATAATAAATTTCTTATATGAATTTATATAATTTAAAATAATTAATAT
TAAATATAATTTAATTAATAATATAT
Found at i:10921965 original size:26 final size:28
Alignment explanation
Indices: 10921936--10922102 Score: 85
Period size: 26 Copynumber: 5.8 Consensus size: 28
10921926 TATGAATTTG
*
10921936 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
10921962 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
* * *
10921990 TAAAATTCTTCATAATAAATTTCTTATATGAATT-TA
1 TATAA-T-TTAATAAT-AA-----TATAT-AATTACA
* *
10922026 TACAATTTAA-AATAAT-TA-ATATTAAA
1 TATAATTTAATAATAATATATA-ATTACA
* *
10922052 TATAATTTAATAATGATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
* *
10922080 TAAAATTCTTAATAATAAAATAT
1 TATAA-T-TTAATAATAATATAT
10922103 TCTTATATGA
Statistics
Matches: 108, Mismatches: 15, Indels: 32
0.70 0.10 0.21
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 22 0.20
27 12 0.11
28 22 0.20
29 3 0.03
30 20 0.19
31 2 0.02
32 2 0.02
33 3 0.03
34 3 0.03
35 1 0.01
36 10 0.09
37 4 0.04
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:10922049 original size:90 final size:90
Alignment explanation
Indices: 10921911--10922112 Score: 323
Period size: 90 Copynumber: 2.2 Consensus size: 90
10921901 TAATTATAAC
* * * *
10921911 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10921976 AATATATAATTTCATAAAATTCTTCA
65 AATATATAATTTCATAAAATTCTTAA
*
10922002 TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATG
1 TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
10922067 ATATATAATTTCATAAAATTCTTAA
66 ATATATAATTTCATAAAATTCTTAA
10922092 TAATAAAATATTCTTATATGA
1 TAAT-AAAT-TTCTTATATGA
10922113 CTTCATATAA
Statistics
Matches: 103, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
90 79 0.77
91 13 0.13
92 11 0.11
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:10922092 original size:47 final size:47
Alignment explanation
Indices: 10921961--10922098 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
10921951 TTATTATTAC
* *
10921961 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTCATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * ** *
10922008 AT-T--TCTT-AT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAAT-TTAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
10922051 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
10922098 A
1 A
10922099 ATATTCTTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
43 18 0.26
44 10 0.14
45 10 0.14
46 10 0.14
47 21 0.30
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:10932587 original size:21 final size:21
Alignment explanation
Indices: 10932550--10932589 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10932540 TTGAGAATTA
*
10932550 ATTTAATATTTTCTAATTATT
1 ATTTAATATTTTATAATTATT
10932571 ATTTAAT-TATTTATAATTA
1 ATTTAATAT-TTTATAATTA
10932590 AATAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAATATTTTATAATTATT
Found at i:10933057 original size:13 final size:13
Alignment explanation
Indices: 10933039--10933072 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10933029 GTATGAACAT
*
10933039 AAGTTTTACACAC
1 AAGTTTCACACAC
10933052 AAGTTTCACACAC
1 AAGTTTCACACAC
10933065 AAGTTTCA
1 AAGTTTCA
10933073 TATATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (13 bp):
AAGTTTCACACAC
Found at i:10933145 original size:21 final size:20
Alignment explanation
Indices: 10933105--10933145 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10933095 GTAGTGAAAA
* *
10933105 TTTATTTTCTAAGGATAAAT
1 TTTATTTTCCAAGAATAAAT
10933125 TTTATTTTCCAAGTAATAAAT
1 TTTATTTTCCAAG-AATAAAT
10933146 CGTTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTATTTTCCAAGAATAAAT
Found at i:10949056 original size:20 final size:19
Alignment explanation
Indices: 10949033--10949087 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
10949023 AATTTAGCCA
10949033 TTTTTATTTTTATTTAATAT
1 TTTTTATTTTTATTTAA-AT
10949053 TTTTTATTTTTAATTTAAAT
1 TTTTTATTTTT-ATTTAAAT
* *
10949073 TTTATATTTTAATTT
1 TTTTTATTTTTATTT
10949088 TTCTTTTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 4 0.12
20 22 0.69
21 6 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTTTATTTAAAT
Found at i:10950478 original size:20 final size:20
Alignment explanation
Indices: 10950453--10950492 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10950443 CCATGTGGGG
*
10950453 ATAAAATCGACCCACCCAAC
1 ATAAAATCAACCCACCCAAC
10950473 ATAAAATCAACCCACCCAAC
1 ATAAAATCAACCCACCCAAC
10950493 CAGACACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.40, G:0.03, T:0.10
Consensus pattern (20 bp):
ATAAAATCAACCCACCCAAC
Found at i:10950861 original size:27 final size:27
Alignment explanation
Indices: 10950798--10951075 Score: 242
Period size: 27 Copynumber: 10.4 Consensus size: 27
10950788 ATAATAGTCT
* * *
10950798 TTTTACACTATG-GGGTATCTCAGTCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
** * * *
10950824 TACTACTCTATGAGGGTATTTAGGCCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
10950851 TTTTACCCTAT-AGGCGTATTTCGGTCA
1 TTTTACCCTATGAGG-GTATTTCGGTCA
* * *
10950878 TTCTACCCTATG-GGGTATTCCGGCCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * * * * *
10950904 TTCTACCCTGTGGGGGTATTTTGATTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * * *
10950931 TTTTACCTTGTGGGGGTATTTCGGTTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * *
10950958 TTTTACCCTGTGGGGGTATTTCGATCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
*
10950985 TTTTA-CCTATGAGGGTATTTCGGTTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
10951011 TTTTACCCTATCG-GGGTATTTCGGTCA
1 TTTTACCCTAT-GAGGGTATTTCGGTCA
* * * *
10951038 TTTTACCTTAAGAGGGTATTTCGATTA
1 TTTTACCCTATGAGGGTATTTCGGTCA
10951065 TTTTACCCTAT
1 TTTTACCCTAT
10951076 TTTGGGGTAT
Statistics
Matches: 206, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
26 56 0.27
27 149 0.72
28 1 0.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTTACCCTATGAGGGTATTTCGGTCA
Found at i:10950911 original size:53 final size:54
Alignment explanation
Indices: 10950798--10951075 Score: 256
Period size: 53 Copynumber: 5.2 Consensus size: 54
10950788 ATAATAGTCT
* * * ** * *
10950798 TTTTACACTAT-GGGGTATCTCAGTCATACTACTCTATGAGGGTATTTAGGCCA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * * *
10950851 TTTTACCCTATAGGCGTATTTCGGTCATTCTACCCTATG-GGGTATTCCGGCCA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * * * * * * * **
10950904 TTCTACCCTGTGGGGGTATTTTGATTATTTTACCTTGTGGGGGTATTTCGGTTA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * **
10950958 TTTTACCCTGTGGGGGTATTTCGATCATTTTA-CCTATGAGGGTATTTCGGTTA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
* * * ***
10951011 TTTTACCCTATCGGGGTATTTCGGTCATTTTACCTTAAGAGGGTATTTCGATTA
1 TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
10951065 TTTTACCCTAT
1 TTTTACCCTAT
10951076 TTTGGGGTAT
Statistics
Matches: 189, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
53 98 0.52
54 91 0.48
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (54 bp):
TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGCCA
Found at i:10950965 original size:54 final size:54
Alignment explanation
Indices: 10950832--10951073 Score: 272
Period size: 53 Copynumber: 4.5 Consensus size: 54
10950822 CATACTACTC
* ** * * * * * *
10950832 TATGAGGGTATTTAGGCCATTTTACCCTATAGGCGTATTTCGGTCATTCTACCC
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* ** * * *
10950886 TATG-GGGTATTCCGGCCATTCTACCCTGTGGGGGTATTTTGATTATTTTACCT
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* *
10950939 TGTGGGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACC-
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* * *
10950992 TATGAGGGTATTTCGGTTATTTTACCCTATCGGGGTATTTCGGTCATTTTACCT
1 TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
* *
10951046 TAAGAGGGTATTTCGATTATTTTACCCT
1 TATGAGGGTATTTCGGTTATTTTACCCT
10951074 ATTTTGGGGT
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 89 0.55
54 72 0.45
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (54 bp):
TATGAGGGTATTTCGGTTATTTTACCCTGTGGGGGTATTTCGATCATTTTACCT
Found at i:10950965 original size:107 final size:107
Alignment explanation
Indices: 10950850--10951075 Score: 274
Period size: 107 Copynumber: 2.1 Consensus size: 107
10950840 TATTTAGGCC
* *
10950850 ATTTTACCCTATAGGCGTATTTCGGTCATTCTACCCTATG-GGGTATTCCGGCCATTCTACCCTG
1 ATTTTACCCTATAGGCGTATTTCGATCATTCTA-CCTATGAGGGTATTCCGGCCATTCTACCCTA
* * * ** * *
10950914 TGGGGGTATTTTGATTATTTTACCTTGTGGGGGTATTTCGGTT
65 TCGGGGTATTTCGATCATTTTACCTTAAGAGGGTATTTCGATT
* * * * * ** *
10950957 ATTTTACCCTGTGGGGGTATTTCGATCATTTTACCTATGAGGGTATTTCGGTTATTTTACCCTAT
1 ATTTTACCCTATAGGCGTATTTCGATCATTCTACCTATGAGGGTATTCCGGCCATTCTACCCTAT
*
10951022 CGGGGTATTTCGGTCATTTTACCTTAAGAGGGTATTTCGATT
66 CGGGGTATTTCGATCATTTTACCTTAAGAGGGTATTTCGATT
10951064 ATTTTACCCTAT
1 ATTTTACCCTAT
10951076 TTTGGGGTAT
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
106 6 0.06
107 93 0.94
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.42
Consensus pattern (107 bp):
ATTTTACCCTATAGGCGTATTTCGATCATTCTACCTATGAGGGTATTCCGGCCATTCTACCCTAT
CGGGGTATTTCGATCATTTTACCTTAAGAGGGTATTTCGATT
Found at i:10951055 original size:80 final size:79
Alignment explanation
Indices: 10950798--10951071 Score: 262
Period size: 80 Copynumber: 3.4 Consensus size: 79
10950788 ATAATAGTCT
* * ** **
10950798 TTTTACACTATGGGGTATCTC-AGTCATACTACTCTATGAGGGTATTTAGGCCATTTTACCCTAT
1 TTTTACCCTATGGGGTATTTCGA-TCATTTTAC-CTATGAGGGTATTTAGGTTATTTTACCCTAT
*
10950862 AGGCGTATTTCGGTCA
64 AGGGGTATTTCGGTCA
* * ** * * * * * * * *
10950878 TTCTACCCTATGGGGTATTCCGGCCATTCTACCCTGTGGGGGTATTTTGATTATTTTACCTTGTG
1 TTTTACCCTATGGGGTATTTCGATCATTTTA-CCTATGAGGGTATTTAGGTTATTTTACCCTATA
*
10950943 GGGGTATTTCGGTTA
65 GGGGTATTTCGGTCA
* * *
10950958 TTTTACCCTGTGGGGGTATTTCGATCATTTTACCTATGAGGGTATTTCGGTTATTTTACCCTATC
1 TTTTACCCTAT-GGGGTATTTCGATCATTTTACCTATGAGGGTATTTAGGTTATTTTACCCTATA
10951023 GGGGTATTTCGGTCA
65 GGGGTATTTCGGTCA
* * *
10951038 TTTTACCTTAAGAGGGTATTTCGATTATTTTACC
1 TTTTACCCTATG-GGGTATTTCGATCATTTTACC
10951072 CTATTTTGGG
Statistics
Matches: 154, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
79 1 0.01
80 136 0.88
81 17 0.11
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (79 bp):
TTTTACCCTATGGGGTATTTCGATCATTTTACCTATGAGGGTATTTAGGTTATTTTACCCTATAG
GGGTATTTCGGTCA
Found at i:10954694 original size:27 final size:27
Alignment explanation
Indices: 10954629--10954908 Score: 196
Period size: 27 Copynumber: 10.4 Consensus size: 27
10954619 TATAACAATT
10954629 ATTTTACCCTAT-GGGGTATTTC-GTTC
1 ATTTTACCCTATGGGGGTATTTCAG-TC
** ** *
10954655 ATACTACTTTATGGGGGTATTTCATTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* ** *
10954682 ATTTTACCCTATGCGAATATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* * * *
10954709 ATTCTACCCTGTTGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* * *
10954736 ATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* *
10954763 ATTTTACCCTGTGAGGGTATTTC-GATC
1 ATTTTACCCTATGGGGGTATTTCAG-TC
10954790 ATTTTA-CCT-TGTGGGGTATTTC-GATC
1 ATTTTACCCTATG-GGGGTATTTCAG-TC
* * * *
10954816 ACTTTACCTTGTGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
* * ***
10954843 CTTTTACCTTATATTGGTATTT-AGGTC
1 ATTTTACCCTATGGGGGTATTTCA-GTC
* * *
10954870 ATTTTACCCCATTGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTC
10954897 ATTTTACCCTAT
1 ATTTTACCCTAT
10954909 TTTGGAGTCT
Statistics
Matches: 198, Mismatches: 47, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
25 2 0.01
26 30 0.15
27 163 0.82
28 3 0.02
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCAGTC
Found at i:10954727 original size:54 final size:53
Alignment explanation
Indices: 10954629--10954908 Score: 249
Period size: 54 Copynumber: 5.2 Consensus size: 53
10954619 TATAACAATT
* ** ** * * *
10954629 ATTTTACCCTATGGGGTATTTCGTTCATACTACTTTATGGGGGTATTTCATTC
1 ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
** * *
10954682 ATTTTACCCTATGCGAATATTTCGGTCATTCTACCCTGTTGGGGTATTTCAATC
1 ATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
*
10954736 ATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTG-TGAGGGTATTTC-GATC
1 ATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTGTTG-GGGTATTTCAG-TC
* * * * * * *
10954790 ATTTTACCTTGTGGGGTATTTCGATCACTTTACCTTGTGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
* * ** * ** *
10954843 CTTTTACCTTATATTGGTATTTAGGTCATTTTACCCCATTGGGGTATTTCGGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
10954897 ATTTTACCCTAT
1 ATTTTACCCTAT
10954909 TTTGGAGTCT
Statistics
Matches: 186, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
53 57 0.31
54 129 0.69
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTGTTGGGGTATTTCAGTC
Found at i:10954784 original size:81 final size:81
Alignment explanation
Indices: 10954629--10954908 Score: 280
Period size: 81 Copynumber: 3.5 Consensus size: 81
10954619 TATAACAATT
* * * ** **
10954629 ATTTTACCCT-ATGGGGTATTTCGTTCATACTACTTTATGGGGGTATTTCATTCATTTTACCCTA
1 ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
* **
10954693 TGCGAATATTTCGGTC
66 TGAGGGTATTTCGGTC
* * * *
10954709 ATTCTACCCTGTTGGGGTATTTCAATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTG
1 ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
*
10954774 TGAGGGTATTTCGATC
66 TGAGGGTATTTCGGTC
* * * * *
10954790 ATTTTACCTTG-TGGGGTATTTCGATCACTT-TACCTTGTGGGGGTATTTCGGTCCTTTTACCTT
1 ATTTTACCCTGTTGGGGTATTTCGATCA-TTCTACCCTATGGGGGTATTTCGGTCATTTTACCCT
* *
10954853 AT-ATTGGTATTTAGGTC
65 ATGA-GGGTATTTCGGTC
** * *
10954870 ATTTTACCCCATTGGGGTATTTCGGTCATTTTACCCTAT
1 ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTAT
10954909 TTTGGAGTCT
Statistics
Matches: 162, Mismatches: 33, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
79 1 0.01
80 73 0.45
81 88 0.54
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTGTTGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
TGAGGGTATTTCGGTC
Found at i:10963214 original size:17 final size:17
Alignment explanation
Indices: 10963182--10963215 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10963172 TATCACTTGC
*
10963182 TATTTCAATAGCATTTT
1 TATTTCAATAACATTTT
*
10963199 TATTTCAATAATATTTT
1 TATTTCAATAACATTTT
10963216 CCATTTCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTCAATAACATTTT
Found at i:10964664 original size:27 final size:27
Alignment explanation
Indices: 10964634--10964735 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
10964624 CCGACGAACA
* *
10964634 AGGTGTTCA-CCAAGTTTTAGGTGAAAT
1 AGGTGTTCATCAAAG-TTTAGGCGAAAT
10964661 AGGTGTTCATCAAAGTTTAGGCGAAAT
1 AGGTGTTCATCAAAGTTTAGGCGAAAT
*
10964688 AGGTGTTCATCAATGTTTAGGCGAAAT
1 AGGTGTTCATCAAAGTTTAGGCGAAAT
10964715 AGGTGTTCATCAAAGTTTAGG
1 AGGTGTTCATCAAAGTTTAGG
10964736 TGAATTGGGA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 66 0.94
28 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (27 bp):
AGGTGTTCATCAAAGTTTAGGCGAAAT
Found at i:10965616 original size:41 final size:41
Alignment explanation
Indices: 10965559--10965644 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
10965549 TTTTACAAGC
* *
10965559 TGTGTATCAGCGAAGCTCCCCTCGTGAGCTTTGTGATAAGT
1 TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
* *
10965600 TGTGTATCAGGGAAGCTCTCCTAGTGAGCTTAGTGATAAGT
1 TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
10965641 TGTG
1 TGTG
10965645 CGTCACGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGT
Found at i:10977291 original size:23 final size:23
Alignment explanation
Indices: 10977265--10977313 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10977255 ACCTTTTGTT
10977265 TTTATTATTTTAATCAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
*
10977288 TTTATTATTTTAATTAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
10977311 TTT
1 TTT
10977314 TTTTTCTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTATTTTAATCAATTTAAG
Found at i:10986432 original size:40 final size:40
Alignment explanation
Indices: 10986381--10986517 Score: 229
Period size: 40 Copynumber: 3.4 Consensus size: 40
10986371 AGCAACTTTT
* *
10986381 AGTAGAATCAGTAGGTATGGCTCGATAGCACATACGTTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
* *
10986421 AGTAGATTCAGTAGGTATGGCTTGATAGCGCATACATTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
*
10986461 AGTAGATTCAGTAGGTATGGCTCGATAGCGGATACGTTTC
1 AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
10986501 AGTAGATTCAGTAGGTA
1 AGTAGATTCAGTAGGTA
10986518 ATGCTCATTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (40 bp):
AGTAGATTCAGTAGGTATGGCTCGATAGCGCATACGTTTC
Found at i:10993109 original size:12 final size:12
Alignment explanation
Indices: 10993092--10993116 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10993082 GGTGTGCATT
10993092 CGGTTAACCGAC
1 CGGTTAACCGAC
10993104 CGGTTAACCGAC
1 CGGTTAACCGAC
10993116 C
1 C
10993117 CGAATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:10993291 original size:9 final size:9
Alignment explanation
Indices: 10993277--10993387 Score: 161
Period size: 9 Copynumber: 12.4 Consensus size: 9
10993267 TGGTTAAAAA
10993277 TTAACCGAT
1 TTAACCGAT
*
10993286 TTAACCTAT
1 TTAACCGAT
10993295 TTAACCGA-
1 TTAACCGAT
*
10993303 TTAACCGAC
1 TTAACCGAT
10993312 TTAACCGAT
1 TTAACCGAT
*
10993321 TTAACCGAC
1 TTAACCGAT
*
10993330 TTAACCGAC
1 TTAACCGAT
10993339 TTAACCGAT
1 TTAACCGAT
10993348 TTAACCGAT
1 TTAACCGAT
10993357 TTAACCGAT
1 TTAACCGAT
* *
10993366 TTAACCAAC
1 TTAACCGAT
10993375 TTAACCGAT
1 TTAACCGAT
10993384 TTAA
1 TTAA
10993388 ATCACTATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
8 8 0.09
9 84 0.91
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (9 bp):
TTAACCGAT
Found at i:10993442 original size:37 final size:37
Alignment explanation
Indices: 10993387--10993496 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
10993377 AACCGATTTA
* *
10993387 AATCACTATATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
* * * *
10993424 AATCACTACATAACTAAAAACATTACATAAATTTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
10993461 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
10993497 AAATTTAACG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
Found at i:10993732 original size:7 final size:7
Alignment explanation
Indices: 10993720--10993778 Score: 82
Period size: 7 Copynumber: 8.3 Consensus size: 7
10993710 GTACAGAAGA
10993720 AAACATG
1 AAACATG
10993727 AAACATG
1 AAACATG
* *
10993734 CAATATG
1 AAACATG
10993741 AAACATG
1 AAACATG
*
10993748 AAATCGTG
1 AAA-CATG
10993756 AAACATG
1 AAACATG
10993763 AAACATG
1 AAACATG
10993770 AAACATG
1 AAACATG
10993777 AA
1 AA
10993779 TTGTTCTTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:10993799 original size:13 final size:13
Alignment explanation
Indices: 10993781--10993807 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10993771 AACATGAATT
10993781 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
10993794 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
10993807 G
1 G
10993808 AGCCTGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTCTTGGGCTTA
Found at i:10995166 original size:22 final size:23
Alignment explanation
Indices: 10995126--10995171 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10995116 TAAATTGGTA
* *
10995126 TAAATATTTTTTTTCAAATTATT
1 TAAATATTTTATTTCAAATAATT
10995149 TAAATATTTTATTT-AAATAATT
1 TAAATATTTTATTTCAAATAATT
10995171 T
1 T
10995172 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TAAATATTTTATTTCAAATAATT
Found at i:10996759 original size:29 final size:29
Alignment explanation
Indices: 10996727--10996794 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
10996717 TTTTGTAAAG
10996727 TAGGGGACAAAATTATAAAATCTAAAAAA
1 TAGGGGACAAAATTATAAAATCTAAAAAA
* *
10996756 TAGGGGA-AAAATTTTTAAATCTAAAAAA
1 TAGGGGACAAAATTATAAAATCTAAAAAA
*
10996784 TAAGGG-CAAAA
1 TAGGGGACAAAA
10996795 CCATAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (29 bp):
TAGGGGACAAAATTATAAAATCTAAAAAA
Found at i:10996801 original size:27 final size:28
Alignment explanation
Indices: 10996744--10996802 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
10996734 CAAAATTATA
* ***
10996744 AAATCTAAAAAATAGGGGAAAAATTTTT
1 AAATCTAAAAAATAAGGGAAAAATCCAT
*
10996772 AAATCTAAAAAATAAGGGCAAAA-CCAT
1 AAATCTAAAAAATAAGGGAAAAATCCAT
10996799 AAAT
1 AAAT
10996803 TTTGAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.22
Consensus pattern (28 bp):
AAATCTAAAAAATAAGGGAAAAATCCAT
Found at i:10997833 original size:23 final size:23
Alignment explanation
Indices: 10997807--10997853 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10997797 ACTAACCTCC
10997807 TATATTTTGAGGCATGACATTTA
1 TATATTTTGAGGCATGACATTTA
* **
10997830 TATATTTTGGGGGGTGACATTTA
1 TATATTTTGAGGCATGACATTTA
10997853 T
1 T
10997854 CACCTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (23 bp):
TATATTTTGAGGCATGACATTTA
Found at i:11000863 original size:39 final size:39
Alignment explanation
Indices: 11000820--11000894 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
11000810 TTCTTTTCTA
*
11000820 TTTTTCATA-TTTTTAATAATTTTTTAATTTTTTAAATAT
1 TTTTTCATACTTTTT-ATAATTTTTTAATATTTTAAATAT
** * *
11000859 TTTTTGGTACTTTTTATATTTTTTTCATATTTTAAA
1 TTTTTCATACTTTTTATAATTTTTTAATATTTTAAA
11000895 AAGATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 25 0.83
40 5 0.17
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (39 bp):
TTTTTCATACTTTTTATAATTTTTTAATATTTTAAATAT
Found at i:11000881 original size:9 final size:9
Alignment explanation
Indices: 11000813--11000882 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
11000803 TATGATTTTC
*
11000813 TTTTCTATT
1 TTTTATATT
*
11000822 TTTCATATT
1 TTTTATATT
*
11000831 TTTAATAATT
1 TTTTAT-ATT
11000841 TTTTA-ATT
1 TTTTATATT
11000849 TTTTAAATATT
1 TTTT--ATATT
* *
11000860 TTTTGGTACT
1 TTTT-ATATT
11000870 TTTTATATT
1 TTTTATATT
11000879 TTTT
1 TTTT
11000883 TCATATTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 7 0.15
9 19 0.40
10 15 0.31
11 7 0.15
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:11007669 original size:15 final size:14
Alignment explanation
Indices: 11007648--11007683 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
11007638 ATAATCCTTA
11007648 ATAATTATCTTAAT
1 ATAATTATCTTAAT
11007662 ATTAATTATCTTAAT
1 A-TAATTATCTTAAT
11007677 ATAATTA
1 ATAATTA
11007684 AAATAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATTATCTTAAT
Found at i:11015623 original size:4 final size:4
Alignment explanation
Indices: 11015610--11015652 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
11015600 TGATTTTTCG
11015610 AATT -ATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
11015653 GAAGTTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:11025620 original size:27 final size:27
Alignment explanation
Indices: 11025540--11025802 Score: 222
Period size: 27 Copynumber: 9.9 Consensus size: 27
11025530 GCTAATGACT
*
11025540 GAAATACCCCCAAT-GGTAAAATAACC
1 GAAATACCCTCAATAGGTAAAATAACC
* **
11025566 GAAATACCCTC-ATGGGTAAAATGGCC
1 GAAATACCCTCAATAGGTAAAATAACC
11025592 GAAATACCCTCAATAGGTAAAATAACC
1 GAAATACCCTCAATAGGTAAAATAACC
*
11025619 GAAATACCCTCAA-AGGGTAAAATAATC
1 GAAATACCCTCAATA-GGTAAAATAACC
* * * *
11025646 GAAATATCCTCGAT-GTGTAAAGTGACC
1 GAAATACCCTCAATAG-GTAAAATAACC
* * *
11025673 GAAATACCCTCGAT-GGATAAAATGATC
1 GAAATACCCTCAATAGG-TAAAATAACC
*
11025700 GAAATACCCTCAA-AGGGTAAAATAACA
1 GAAATACCCTCAATA-GGTAAAATAACC
* * *
11025727 AAAATACCCTTGAA-GGGTAAAATAACC
1 GAAATACCC-TCAATAGGTAAAATAACC
* *
11025754 GAAATACCC-CAA-AGGGTAAAATGACT
1 GAAATACCCTCAATA-GGTAAAATAACC
*
11025780 GAAATACCC-CTATAGGGTAAAAT
1 GAAATACCCTCAATA-GGTAAAAT
11025803 GACTGTTATA
Statistics
Matches: 197, Mismatches: 29, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
25 4 0.02
26 55 0.28
27 133 0.68
28 5 0.03
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
GAAATACCCTCAATAGGTAAAATAACC
Found at i:11025666 original size:54 final size:54
Alignment explanation
Indices: 11025540--11025802 Score: 257
Period size: 54 Copynumber: 4.9 Consensus size: 54
11025530 GCTAATGACT
* * * **
11025540 GAAATACCC-CCAATGGTAAAATAACCGAAATACCCTC-ATGGGTAAAATGGCC
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
*
11025592 GAAATACCCTCAATA-GGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAATC
1 GAAATACCCTCAA-AGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
* * * * * * * * * * *
11025646 GAAATATCCTCGATGTGTAAAGTGACCGAAATACCCTCGATGGATAAAATGATC
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
** **
11025700 GAAATACCCTCAAAGGGTAAAATAACAAAAATACCCTTGAAGGGTAAAATAACC
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
* * *
11025754 GAAATACCC-CAAAGGGTAAAATGACTGAAATACCC-CTATAGGGTAAAAT
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTC-AAAGGGTAAAAT
11025803 GACTGTTATA
Statistics
Matches: 172, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
52 9 0.05
53 58 0.34
54 105 0.61
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (54 bp):
GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
Found at i:11025682 original size:81 final size:79
Alignment explanation
Indices: 11025533--11025802 Score: 296
Period size: 81 Copynumber: 3.4 Consensus size: 79
11025523 ATTGTGGGCT
* * * *
11025533 AATGACTGAAATACCCCCAATGGTAAAATAACCGAAATACCCTC-ATGGGTAAAATGGCCGAAAT
1 AATGACCGAAATACCCCAAAGGGTAAAATAA-CGAAATACCCTCGATGGGTAAAATGACCGAAAT
11025597 ACCCTCAATAGGTAA
65 ACCCTCAATAGGTAA
* * * *
11025612 AATAACCGAAATACCCTCAAAGGGTAAAATAATCGAAATATCCTCGATGTGTAAAGTGACCGAAA
1 AATGACCGAAATACCC-CAAAGGGTAAAATAA-CGAAATACCCTCGATGGGTAAAATGACCGAAA
*
11025677 TACCCTCGAT-GGATAA
64 TACCCTCAATAGG-TAA
* * * * *
11025693 AATGATCGAAATACCCTCAAAGGGTAAAATAACAAAAATACCCTTGAAGGGTAAAATAACCGAAA
1 AATGACCGAAATACCC-CAAAGGGTAAAATAAC-GAAATACCCTCGATGGGTAAAATGACCGAAA
11025758 TACCC-CAA-AGGGTAA
64 TACCCTCAATA-GGTAA
* *
11025773 AATGACTGAAATACCCCTATAGGGTAAAAT
1 AATGACCGAAATACCCC-AAAGGGTAAAAT
11025803 GACTGTTATA
Statistics
Matches: 161, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
79 15 0.09
80 57 0.35
81 89 0.55
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (79 bp):
AATGACCGAAATACCCCAAAGGGTAAAATAACGAAATACCCTCGATGGGTAAAATGACCGAAATA
CCCTCAATAGGTAA
Found at i:11032054 original size:27 final size:26
Alignment explanation
Indices: 11031990--11032236 Score: 230
Period size: 27 Copynumber: 9.2 Consensus size: 26
11031980 ATTGTGGGTT
11031990 AATGACCGAAATACCC-CTAAGGGTAA
1 AATGACCGAAATACCCTC-AAGGGTAA
* **
11032016 AATGATCGAAATACCCTCAATAAGTAA
1 AATGACCGAAATACCCTCAA-GGGTAA
* *
11032043 AATGACCAAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCC-TCAAGGGTAA
* *
11032070 AATTACCAAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTC-AAGGGTAA
* * *
11032097 AATAATCGAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCC-TCAAGGGTAA
* *
11032124 AATGACTGAAATACCCTCGATGGGTAA
1 AATGACCGAAATACCCTC-AAGGGTAA
* *
11032151 AATGACTGAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCC-TCAAGGGTAA
* **
11032178 AATGACTGAAATATCCCT-AAAAGTAA
1 AATGACCGAAATA-CCCTCAAGGGTAA
11032204 AATGACCGAAATACCC-CTATAGGGTAA
1 AATGACCGAAATACCCTC-A-AGGGTAA
11032231 AATGAC
1 AATGAC
11032237 TGTTGTACCG
Statistics
Matches: 184, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.02
26 38 0.21
27 135 0.73
28 8 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (26 bp):
AATGACCGAAATACCCTCAAGGGTAA
Found at i:11032082 original size:54 final size:53
Alignment explanation
Indices: 11031990--11032236 Score: 284
Period size: 54 Copynumber: 4.6 Consensus size: 53
11031980 ATTGTGGGTT
* *
11031990 AATGACCGAAATACCCCT-AAGGGTAAAATGATCGAAATACCCTCAATAAGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCAA-AAGTAA
* * * **
11032043 AATGACCAAAATACCCTTGAAGGGTAAAATTACCAAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTC-AAAAGTAA
* * * ***
11032097 AATAATCGAAATACCCTTGAAGGGTAAAATGACTGAAATACCCTCGATGGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTC-AAAAGTAA
* *
11032151 AATGACTGAAATACCCTTGAAGGGTAAAATGACTGAAATATCCCT-AAAAGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATA-CCCTCAAAAGTAA
*
11032204 AATGACCGAAATACCCCT-ATAGGGTAAAATGAC
1 AATGACCGAAATACCCTTGA-AGGGTAAAATGAC
11032237 TGTTGTACCG
Statistics
Matches: 168, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.01
53 50 0.30
54 111 0.66
55 6 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (53 bp):
AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCAAAAGTAA
Found at i:11032149 original size:81 final size:79
Alignment explanation
Indices: 11031990--11032236 Score: 284
Period size: 81 Copynumber: 3.1 Consensus size: 79
11031980 ATTGTGGGTT
* * *
11031990 AATGACCGAAATACCC-CTAAGGGTAAAATGATCGAAATACCCTCAATAAGTAAAATGACCAAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCCT-AA-AAGTAAAATGACCGAAA
* *
11032054 TACCCTTGAAGGGTAA
64 TACCCTCGATGGGTAA
* * ** *
11032070 AATTACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTTGAAGGGTAAAATGACTGAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-T-AAAAGTAAAATGACCGAAA
11032135 TACCCTCGATGGGTAA
64 TACCCTCGATGGGTAA
** *
11032151 AATGACTGAAATACCCTTGAAGGGTAAAATGA-CTGAAATATCCCTAAAAGTAAAATGACCGAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATC-GAAATA-CCCTAAAAGTAAAATGACCGAAA
*
11032215 TACCC-CTATAGGGTAA
64 TACCCTCGAT-GGGTAA
11032231 AATGAC
1 AATGAC
11032237 TGTTGTACCG
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
79 3 0.02
80 48 0.34
81 85 0.60
82 6 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (79 bp):
AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTAAAAGTAAAATGACCGAAATA
CCCTCGATGGGTAA
Found at i:11032463 original size:26 final size:26
Alignment explanation
Indices: 11032411--11032485 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
11032401 ATGCCACATA
* *
11032411 TACTGTTACTCA-CAGCTTTGATACGT
1 TACTGTTACT-AGCAGCTTTGCTGCGT
11032437 TACTGTTACTAGCAGCTTTGCTGCGT
1 TACTGTTACTAGCAGCTTTGCTGCGT
* * *
11032463 TATTATTACTGGCAGCTTTGCTG
1 TACTGTTACTAGCAGCTTTGCTG
11032486 TGATTTTGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (26 bp):
TACTGTTACTAGCAGCTTTGCTGCGT
Found at i:11032630 original size:28 final size:28
Alignment explanation
Indices: 11032597--11032663 Score: 102
Period size: 27 Copynumber: 2.4 Consensus size: 28
11032587 CATTGTACTG
11032597 ATTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
*
11032625 ATTACTGTAAT-GGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
11032652 A-TACTGATATTG
1 ATTACTG-TATTG
11032664 TATAAGGCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.14
27 20 0.57
28 10 0.29
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACACT
Found at i:11032669 original size:27 final size:27
Alignment explanation
Indices: 11032597--11032671 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
11032587 CATTGTACTG
* *
11032597 ATTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTAAT-GGATAAGGCCCACACT
*
11032625 ATTACTGTAATGGCTAAGGCCCACACT
1 ATTACTGTAATGGATAAGGCCCACACT
* *
11032652 A-TACTGATATTGTATAAGGC
1 ATTACTG-TAATGGATAAGGC
11032672 TCAGGCCCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 27 0.64
28 10 0.24
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (27 bp):
ATTACTGTAATGGATAAGGCCCACACT
Found at i:11033727 original size:43 final size:42
Alignment explanation
Indices: 11033679--11033786 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
11033669 CGCAAACTTG
* * *
11033679 TAAGGGTTGAACGGAACCTCATAAGAGCTGGACAGAAACCCAA
1 TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCC-A
* * * *
11033722 TAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAACCCA
1 TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCCA
* *
11033764 TTAGGGTTAAATGGAAACTCATA
1 TAAGGGTTAAACGGAAACTCATA
11033787 TGAGTTAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 19 0.35
43 35 0.65
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (42 bp):
TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCCA
Found at i:11033793 original size:21 final size:21
Alignment explanation
Indices: 11033755--11033821 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
11033745 AGAGCTGAAC
* *
11033755 GGAAACCCATTAGGGTTAAAT
1 GGAAACTCATTAGAGTTAAAT
*
11033776 GGAAACTCA-TATGAGTTAACT
1 GGAAACTCATTA-GAGTTAAAT
* *
11033797 -GAAGCTCATTAGAGCTAAAT
1 GGAAACTCATTAGAGTTAAAT
11033817 GGAAA
1 GGAAA
11033822 GTAAACACGA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (21 bp):
GGAAACTCATTAGAGTTAAAT
Found at i:11039446 original size:28 final size:28
Alignment explanation
Indices: 11039414--11039498 Score: 156
Period size: 28 Copynumber: 3.1 Consensus size: 28
11039404 CCAGACTTGT
11039414 TATATCTTTCTTTGCACGTCAAGCATGA
1 TATATCTTTCTTTGCACGTCAAGCATGA
11039442 TATATCTTTCTTTGCACGTCAAGCAT--
1 TATATCTTTCTTTGCACGTCAAGCATGA
11039468 TATATCTTTCTTTGCACGTCAAGCATGA
1 TATATCTTTCTTTGCACGTCAAGCATGA
11039496 TAT
1 TAT
11039499 TTGGTACAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
26 26 0.47
28 29 0.53
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (28 bp):
TATATCTTTCTTTGCACGTCAAGCATGA
Found at i:11039478 original size:26 final size:26
Alignment explanation
Indices: 11039413--11039498 Score: 145
Period size: 26 Copynumber: 3.2 Consensus size: 26
11039403 TCCAGACTTG
11039413 TTATATCTTTCTTTGCACGTCAAGCA
1 TTATATCTTTCTTTGCACGTCAAGCA
11039439 TGATATATCTTTCTTTGCACGTCAAGCA
1 T--TATATCTTTCTTTGCACGTCAAGCA
11039467 TTATATCTTTCTTTGCACGTCAAGCA
1 TTATATCTTTCTTTGCACGTCAAGCA
*
11039493 TGATAT
1 TTATAT
11039499 TTGGTACAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
26 31 0.54
28 26 0.46
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (26 bp):
TTATATCTTTCTTTGCACGTCAAGCA
Found at i:11044909 original size:78 final size:81
Alignment explanation
Indices: 11044750--11044913 Score: 180
Period size: 78 Copynumber: 2.0 Consensus size: 81
11044740 CCAAAAATAA
*
11044750 AAAATTTTAATTTAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATAGCAGACTTGCAC
1 AAAATTTTAATTCAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATA-CAGACTTGCAC
* **
11044815 TTTGACCCTTCAAAATG
65 TTAGACCCCCCAAAATG
*
11044832 AAAATTTTCAATTCAGTCCTT-TTAT-AAATA-A-AAACTATAAATTAATATAGTA-ATA-TTGC
1 AAAATTTT-AATTCAGT-CTTCTTATAAAATAGATAAACTATAAATTAATATA-TACAGACTTGC
*
11044891 ACTATAG-CCCCCCCAAATG
63 ACT-TAGACCCCCCAAAATG
11044910 AAAA
1 AAAA
11044914 AATTATGTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
78 20 0.28
79 4 0.06
80 18 0.25
81 3 0.04
82 13 0.18
83 11 0.15
84 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.34
Consensus pattern (81 bp):
AAAATTTTAATTCAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATACAGACTTGCACT
TAGACCCCCCAAAATG
Found at i:11059632 original size:149 final size:151
Alignment explanation
Indices: 11059459--11059744 Score: 470
Period size: 151 Copynumber: 1.9 Consensus size: 151
11059449 AGTTTAGATT
* *
11059459 TTTTTTAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAATTTTAAAA-TTTTAAAACAAAG
1 TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
*
11059523 TTTTGAT-CTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAA-AAATAGTGATTTTTTT
66 TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAA-AACAAATAGTGATTTTTTT
11059586 AAAAAAAAAGAGAAATGTTAGA
130 AAAAAAAAAGAGAAATGTTAGA
* *
11059608 TTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
1 TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
* *
11059673 TTTTGATATTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAGTAGTGATTTTTTTA
66 TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAATAGTGATTTTTTTA
*
11059738 AAGAAAA
131 AAAAAAA
11059745 CATTGATTTT
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
149 47 0.37
150 22 0.17
151 57 0.45
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (151 bp):
TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAATAGTGATTTTTTTA
AAAAAAAAGAGAAATGTTAGA
Found at i:11061769 original size:16 final size:16
Alignment explanation
Indices: 11061748--11061779 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11061738 GTTTTGTTGC
11061748 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
11061764 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
11061780 CTTTCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTACTTTTTCA
Found at i:11062072 original size:51 final size:50
Alignment explanation
Indices: 11061997--11062193 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 50
11061987 ATTAATGATA
* * * * *
11061997 CCGGTTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT-ACTAT
* * *
11062048 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGTTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTAT
* * * * * *
11062099 CCGGTACGCATAGTAGCCTGCGCATAGTACTACACATGCGACC-TATTATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACTA-T
** *
11062149 TTGGTACACGTAGTAGCCTGCACATAGTACTACATACGTGACCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
11062194 CACTTTCCCT
Statistics
Matches: 118, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.03
50 39 0.33
51 74 0.63
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACTAT
Found at i:11062212 original size:101 final size:102
Alignment explanation
Indices: 11062000--11062220 Score: 243
Period size: 101 Copynumber: 2.2 Consensus size: 102
11061990 AATGATACCG
* *
11062000 GTTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
* * *
11062065 CTGCACATAGTACTACACACGTGATCGAAGTTATCCG
66 CTGCACATAGTACTACACACGTGATCCAACTTATCCC
* * * * * ** *
11062102 GTACGCATAGTAGCCTGCGCATAGTACTACACATGCGACC-T-ATTATTTTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTA-TCCGATACACGTAGTAG
*
11062165 CCTGCACATAGTACTACATACGTGA-CCATCACTT-TCCC
65 CCTGCACATAGTACTACACACGTGATCCA--ACTTATCCC
* *
11062203 TTTCACATAGTGGCCTAC
1 GTTCACATAGTAGCCTAC
11062221 TCACAGTTTG
Statistics
Matches: 97, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
100 5 0.05
101 55 0.57
102 37 0.38
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGATCCAACTTATCCC
Found at i:11063150 original size:13 final size:13
Alignment explanation
Indices: 11063132--11063159 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11063122 TTAGTCCTTT
11063132 TGACTAAATTAAG
1 TGACTAAATTAAG
11063145 TGACTAAATTAAG
1 TGACTAAATTAAG
11063158 TG
1 TG
11063160 CCCAAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (13 bp):
TGACTAAATTAAG
Found at i:11065061 original size:42 final size:42
Alignment explanation
Indices: 11064981--11065062 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
11064971 TATTTTCTCT
**
11064981 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
*
11065023 ATGCCATA-TCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGT-CCAACTATGGTCTTACACA-TATGCACATAT
11065063 CACACCGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 32 0.91
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:11068133 original size:51 final size:51
Alignment explanation
Indices: 11068058--11068258 Score: 196
Period size: 51 Copynumber: 4.0 Consensus size: 51
11068048 ATTAATGATA
* * * * *
11068058 CCGGTTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * *
11068109 CCGATACACGTAGTACCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
** * * *
11068160 CCGGTA-TGGATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-T
1 CCGGTACACG-TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* *
11068210 CTGGCACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
11068259 TTCCCTTTCA
Statistics
Matches: 120, Mismatches: 22, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 74 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:11068243 original size:101 final size:102
Alignment explanation
Indices: 11068067--11068250 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
11068057 ACCGGTTCAC
* * *
11068067 ATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTACCCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCCTGCAC
11068132 ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
* * * * *
11068169 ATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGCACACGTAGTAGCCTGCA
1 ATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGACACACGTAGTACCCTGCA
11068232 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
11068251 CCATCACTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 38 0.52
102 31 0.42
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
Found at i:11068274 original size:101 final size:103
Alignment explanation
Indices: 11068062--11068281 Score: 236
Period size: 101 Copynumber: 2.2 Consensus size: 103
11068052 ATGATACCGG
* * *
11068062 TTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTACCC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCC
* *
11068127 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGT
66 TGCACATAGTACTACACACGTGATCCAAGCTATCCGCT
* ** * * * * *
11068165 AT-GGATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGCACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGACACACGTAGTACC
*
11068227 CTGCACATAGTACTACACACGTGA-CCATCA-CTTTCC-CT
65 CTGCACATAGTACTACACACGTGATCCA--AGCTATCCGCT
*
11068265 TTCACATAGTGGCCTAC
1 TTCACATAGTAGCCTAC
11068282 TCACAGTTTG
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
100 4 0.04
101 53 0.56
102 32 0.34
103 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (103 bp):
TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCC
TGCACATAGTACTACACACGTGATCCAAGCTATCCGCT
Found at i:11069119 original size:28 final size:28
Alignment explanation
Indices: 11069079--11069134 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11069069 CAACAAGTTA
11069079 ACCAATGGTCTAATTACCATTTAAGGAC
1 ACCAATGGTCTAATTACCATTTAAGGAC
*
11069107 ACCAATGGTCTAATTATCATTTAAGGAC
1 ACCAATGGTCTAATTACCATTTAAGGAC
11069135 CTCCAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (28 bp):
ACCAATGGTCTAATTACCATTTAAGGAC
Found at i:11078191 original size:39 final size:40
Alignment explanation
Indices: 11078067--11078202 Score: 143
Period size: 40 Copynumber: 3.5 Consensus size: 40
11078057 GCGTTTGAAT
* * * * *
11078067 AAAAAACGCCGCTAAAAATAAATCATTAGCGGCGCTATAT
1 AAAAAACGCCGCTAAAAATAGAGCATTAGCGGCGTTTTAC
* * * *
11078107 AAAAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTT-C
1 AAAAAACGCCGCTAAAAATAGAGCATTAGCGGCG-TTTTAC
* *
11078147 TAAAAACGCCACTAAAAAT-GAGCATTAGCGGCGTTTTAC
1 AAAAAACGCCGCTAAAAATAGAGCATTAGCGGCGTTTTAC
11078186 AAAAAACGCCGC-AAAAA
1 AAAAAACGCCGCTAAAAA
11078203 CCTAAACCTA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
38 9 0.12
39 24 0.31
40 43 0.55
41 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATAGAGCATTAGCGGCGTTTTAC
Found at i:11078305 original size:41 final size:41
Alignment explanation
Indices: 11078242--11078395 Score: 254
Period size: 41 Copynumber: 3.8 Consensus size: 41
11078232 TTTTTAGGGA
* *
11078242 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
* *
11078283 TTTAGCGGCGTTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
*
11078324 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
*
11078365 TTTAGGGGCGTTTTTGAAGAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAA
11078396 AAGCATTTTA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
Done.