Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 162 of 207
Found at i:49906356 original size:33 final size:33
Alignment explanation
Indices: 49906314--49906535 Score: 116
Period size: 33 Copynumber: 6.4 Consensus size: 33
49906304 GTGGATTCAG
49906314 CACTTAGCAACCACCAATGAGTCGGGGAATCAA
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAA
* * * *
49906347 CACTTAGCAACCCCTTTCACATTTAATATACAGTGGG-ATCAG
1 CACTTAGCAACCAC---CA-A--TGA-GT-C-G-GGGAATCAA
* *
49906389 CACTTAGCAACCACCAATGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAA
* *
49906422 CACTTAGCAACC-CC--T-CG--GGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAA
* * *
49906449 CACTTAGCAACCCCCTTCACATTTAAGATATGGTGGAATCAA
1 CACTTAGCAA-CCAC--CA-A--TGAG-T-CGG-GGAATCAA
*
49906491 CACTTAGCAACCACCAATGAGTCAGGGAATCAA
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAA
49906524 CACTTAGCAACC
1 CACTTAGCAACC
49906536 CCTTGGGGGA
Statistics
Matches: 148, Mismatches: 15, Indels: 52
0.69 0.07 0.24
Matches are distributed among these distances:
27 20 0.14
28 2 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 5 0.03
33 51 0.34
34 2 0.01
35 2 0.01
36 8 0.05
37 2 0.01
38 2 0.01
39 6 0.04
40 1 0.01
41 6 0.04
42 35 0.24
43 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGAGTCGGGGAATCAA
Found at i:49906460 original size:102 final size:102
Alignment explanation
Indices: 49906337--49906567 Score: 363
Period size: 102 Copynumber: 2.3 Consensus size: 102
49906327 CCAATGAGTC
* * * *
49906337 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAATATACAGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACAGTGGAATCAACACTTAGCAACCA
* * *
49906402 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAGTCAGGGAATCAACACTTAGCAACCCCTCG
* **
49906439 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATATGGTGGAATCAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACAGTGGAATCAACACTTAGCAACCA
*
49906504 CCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAGTCAGGGAATCAACACTTAGCAACCCCTCG
49906541 GGGGAATCAGCACTTAGCAACCCCTTT
1 GGGGAATCAGCACTTAGCAACCCCTTT
49906568 ATATTCAATG
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 117 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACAGTGGAATCAACACTTAGCAACCA
CCAATGAGTCAGGGAATCAACACTTAGCAACCCCTCG
Found at i:49906554 original size:27 final size:27
Alignment explanation
Indices: 49906483--49906566 Score: 96
Period size: 27 Copynumber: 2.9 Consensus size: 27
49906473 AAGATATGGT
*
49906483 GGAATCAACACTTAGCAACCACCAATGAGTCAG
1 GGAATCAACACTTAGCAACC-CC-TTG-G---G
49906516 GGAATCAACACTTAGCAACCCCTTGGG
1 GGAATCAACACTTAGCAACCCCTTGGG
*
49906543 GGAATCAGCACTTAGCAACCCCTT
1 GGAATCAACACTTAGCAACCCCTT
49906567 TATATTCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
27 24 0.49
30 1 0.02
31 2 0.04
32 2 0.04
33 20 0.41
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (27 bp):
GGAATCAACACTTAGCAACCCCTTGGG
Found at i:49913364 original size:85 final size:85
Alignment explanation
Indices: 49913221--49913395 Score: 314
Period size: 85 Copynumber: 2.1 Consensus size: 85
49913211 TAAACACCAA
* * *
49913221 TCTTATGTTGCATGTGGGATAGGTCTTGTATAAATTCAATATTCGATTGTCGTGCTTCTTATTGT
1 TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCGATCGTCATGCTTCTTATTGT
49913286 TCAACAGATTCCAAGGGTTG
66 TCAACAGATTCCAAGGGTTG
49913306 TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCGATCGTCATGCTTCTTATTGT
1 TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCGATCGTCATGCTTCTTATTGT
*
49913371 TCAATAGATTCCAAGGGTTG
66 TCAACAGATTCCAAGGGTTG
49913391 TCTTA
1 TCTTA
49913396 CGCACGTTCG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (85 bp):
TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCGATCGTCATGCTTCTTATTGT
TCAACAGATTCCAAGGGTTG
Found at i:49916457 original size:49 final size:49
Alignment explanation
Indices: 49916400--49916640 Score: 324
Period size: 49 Copynumber: 4.9 Consensus size: 49
49916390 TCCATATAGA
* *
49916400 ACTACACTTCTTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
* * * **
49916449 ACTACACTTCATCTATTTTATATTGATTAAAATAAGGTGTTGGAACCTT
1 ACTACACTTCTTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
*
49916498 ACTACAC-TCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTC-TTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
* * * **
49916547 ACTACACTTCATCTATTTTATATTGATTAAAATAAGGTGTTGGAACCTT
1 ACTACACTTCTTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
*
49916596 ACTACAC-TCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAA
1 ACTACACTTC-TTCTATTTTATATTGATTAGAATAAGGTTTTTCAA
49916641 ACTATAAATA
Statistics
Matches: 164, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
48 4 0.02
49 158 0.96
50 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (49 bp):
ACTACACTTCTTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
Found at i:49916524 original size:98 final size:98
Alignment explanation
Indices: 49916400--49916640 Score: 439
Period size: 98 Copynumber: 2.5 Consensus size: 98
49916390 TCCATATAGA
* **
49916400 ACTACACTTC-TTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTTACTACACTTCATCTA
1 ACTACAC-TCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAACCTTACTACACTTCATCTA
49916464 TTTTATATTGATTAAAATAAGGTGTTGGAACCTT
65 TTTTATATTGATTAAAATAAGGTGTTGGAACCTT
49916498 ACTACACTCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAACCTTACTACACTTCATCTAT
1 ACTACACTCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAACCTTACTACACTTCATCTAT
49916563 TTTATATTGATTAAAATAAGGTGTTGGAACCTT
66 TTTATATTGATTAAAATAAGGTGTTGGAACCTT
49916596 ACTACACTCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAA
1 ACTACACTCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAA
49916641 ACTATAAATA
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
97 2 0.01
98 137 0.99
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (98 bp):
ACTACACTCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAACCTTACTACACTTCATCTAT
TTTATATTGATTAAAATAAGGTGTTGGAACCTT
Found at i:49921074 original size:49 final size:49
Alignment explanation
Indices: 49921012--49921140 Score: 172
Period size: 49 Copynumber: 2.6 Consensus size: 49
49921002 ACTACACTTT
* *
49921012 TATTTTATTTTGATTAGAATAAGGTTTTTCAACCTTACTACACT-TAATC
1 TATTTGATATTGATTAGAATAAGGTTTTTCAACCTTACTACACTCT-ATC
* * *
49921061 TATTTGATATTGATTAGAATAAGGTGTTTT-AACCTTGCTACACTCTTTT
1 TATTTGATATTGATTAGAATAAGGT-TTTTCAACCTTACTACACTCTATC
*
49921110 TATTTGACATTGATTAGAATAAGGTTTTTCA
1 TATTTGATATTGATTAGAATAAGGTTTTTCA
49921141 TCCTATAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
48 4 0.06
49 62 0.87
50 5 0.07
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (49 bp):
TATTTGATATTGATTAGAATAAGGTTTTTCAACCTTACTACACTCTATC
Found at i:49922103 original size:17 final size:17
Alignment explanation
Indices: 49922078--49922112 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49922068 GGTTAACACT
*
49922078 AAAAAAGACTAAATTAC
1 AAAAAAGACAAAATTAC
*
49922095 AAAATAGACAAAATTAC
1 AAAAAAGACAAAATTAC
49922112 A
1 A
49922113 CAATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAAAGACAAAATTAC
Found at i:49923777 original size:14 final size:14
Alignment explanation
Indices: 49923752--49923795 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
49923742 GTTGTAATTA
*
49923752 ACATATAGGGTTCTC
1 ACATA-AGGGTTCGC
49923767 ACATAAGGGTTCGC
1 ACATAAGGGTTCGC
*
49923781 ACATATGGGTTCGC
1 ACATAAGGGTTCGC
49923795 A
1 A
49923796 TGTTTAGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (14 bp):
ACATAAGGGTTCGC
Found at i:49924143 original size:17 final size:18
Alignment explanation
Indices: 49924104--49924144 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49924094 GGGTTCGCAT
49924104 AAGGGGCTTGCACATGCA
1 AAGGGGCTTGCACATGCA
* *
49924122 AAGGGGTTTGTACATG-A
1 AAGGGGCTTGCACATGCA
49924139 AAGGGG
1 AAGGGG
49924145 GGTTTACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.29, C:0.12, G:0.39, T:0.20
Consensus pattern (18 bp):
AAGGGGCTTGCACATGCA
Found at i:49926517 original size:27 final size:27
Alignment explanation
Indices: 49926478--49926533 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
49926468 ATAAAATTTT
*
49926478 TAGCATAATTTTTACAAAGGATGCAAA
1 TAGCATAAGTTTTACAAAGGATGCAAA
49926505 TAGCATAAGTTTTACAAAGGATGCAAA
1 TAGCATAAGTTTTACAAAGGATGCAAA
49926532 TA
1 TA
49926534 AATCTCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (27 bp):
TAGCATAAGTTTTACAAAGGATGCAAA
Found at i:49927350 original size:6 final size:6
Alignment explanation
Indices: 49927341--49927378 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
49927331 CAGGAGCAGG
49927341 AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT AG
1 AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT AG
49927379 AAGATGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (6 bp):
AGCATT
Found at i:49928956 original size:14 final size:14
Alignment explanation
Indices: 49928903--49928969 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
49928893 ATTTCACTTA
*
49928903 AATTAATTAATGATG
1 AATTAATTAAT-ATT
* *
49928918 GATTAATTATAATAAT
1 AATTAA-T-TAATATT
49928934 AACTTAATTAATATT
1 AA-TTAATTAATATT
**
49928949 AATTAATTAAGGTT
1 AATTAATTAATATT
49928963 AATTAAT
1 AATTAAT
49928970 ATTTAACCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
14 17 0.40
15 13 0.31
16 4 0.10
17 8 0.19
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTAATTAATATT
Found at i:49929263 original size:22 final size:20
Alignment explanation
Indices: 49929227--49929268 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
49929217 TCATTGTTGA
*
49929227 GAAATTGATGAATTAGGCTT
1 GAAATTGATGAATTAAGCTT
49929247 GAAATTGATAGATATTAAGCTT
1 GAAATTGAT-GA-ATTAAGCTT
49929269 AGATAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:49930052 original size:19 final size:19
Alignment explanation
Indices: 49930030--49930072 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
49930020 GTGCAGGTTT
** *
49930030 ATGCAATTTGTGTGTTAGG
1 ATGCAATTCCTGTGCTAGG
*
49930049 ATGCACTTCCTGTGCTAGG
1 ATGCAATTCCTGTGCTAGG
49930068 ATGCA
1 ATGCA
49930073 CTTCGTGCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (19 bp):
ATGCAATTCCTGTGCTAGG
Found at i:49930073 original size:19 final size:19
Alignment explanation
Indices: 49930040--49930076 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49930030 ATGCAATTTG
*
49930040 TGTGTTAGGATGCACTTCC
1 TGTGCTAGGATGCACTTCC
49930059 TGTGCTAGGATGCACTTC
1 TGTGCTAGGATGCACTTC
49930077 GTGCACCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (19 bp):
TGTGCTAGGATGCACTTCC
Found at i:49930122 original size:19 final size:19
Alignment explanation
Indices: 49930049--49930122 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
49930039 GTGTGTTAGG
* * * *
49930049 ATGCACTTCCTGTGCTAGG
1 ATGCACTTCGTGCGCCAGA
*
49930068 ATGCACTTCGTGCACCAGA
1 ATGCACTTCGTGCGCCAGA
49930087 ATGCACTTCGTGCGCCAGA
1 ATGCACTTCGTGCGCCAGA
* *
49930106 ATGCACTACGTGTGCCA
1 ATGCACTTCGTGCGCCA
49930123 AGACGCTTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (19 bp):
ATGCACTTCGTGCGCCAGA
Found at i:49932152 original size:68 final size:66
Alignment explanation
Indices: 49932058--49932258 Score: 198
Period size: 68 Copynumber: 3.0 Consensus size: 66
49932048 ATTATTTTAA
* * *
49932058 TATTTAAATATTTAATTTAATTTAATACTTATCTTAAGAGTATTTTATTACTTTAATATTAAAGT
1 TATTT-AATATTAAATTTAATTTAATATTTATCTTAAGA-TATTATATTACTTTAATATTAAAGT
49932123 GAT
64 GAT
* * *
49932126 TATCTTAATATTAAATTTAATTTAATATTTATCTTGAAGATA-AACATT-CTATT-AT-TTTAA-
1 TAT-TTAATATTAAATTTAATTTAATATTTATCTT-AAGATATTATATTACT-TTAATATTAAAG
*
49932186 T-AA
63 TGAT
* * * *
49932189 GATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGT
1 TATTTAATATTAAATTTAATTTAATATTTATCTT-A-AGATATTATATTACTTTAATATTAAAGT
49932254 GAT
64 GAT
49932257 TA
1 TA
49932259 AGTTTAATCA
Statistics
Matches: 106, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
62 31 0.29
63 7 0.07
64 7 0.07
65 7 0.07
66 8 0.08
67 6 0.06
68 34 0.32
69 6 0.06
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (66 bp):
TATTTAATATTAAATTTAATTTAATATTTATCTTAAGATATTATATTACTTTAATATTAAAGTGA
T
Found at i:49932199 original size:62 final size:59
Alignment explanation
Indices: 49932130--49932246 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
49932120 AGTGATTATC
* * *
49932130 TTAATATTAAATTTAATTTAATATTTATCTTGAAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATCTT--A-ATAAACATTATATTAATTTAATAAGAT
*
49932192 TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATA
49932247 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
60 1 0.02
62 30 0.59
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:49935620 original size:25 final size:25
Alignment explanation
Indices: 49935560--49935620 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
49935550 CTCCTAAATT
*
49935560 TTAATTTAATTATCTAAATTTTCAA
1 TTAATTAAATTATCTAAATTTTCAA
* *
49935585 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAA-ATTTTCA-A
49935610 TTAATTAAATT
1 TTAATTAAATT
49935621 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (25 bp):
TTAATTAAATTATCTAAATTTTCAA
Found at i:49942399 original size:17 final size:17
Alignment explanation
Indices: 49942377--49942420 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
49942367 ATTAATGGGT
*
49942377 TTACATAATCTCCTAGA
1 TTACATAATCTCCCAGA
*
49942394 TTACATAATCTCCCGGA
1 TTACATAATCTCCCAGA
*
49942411 TTACAAAATC
1 TTACATAATC
49942421 AAATATTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (17 bp):
TTACATAATCTCCCAGA
Found at i:49943956 original size:20 final size:20
Alignment explanation
Indices: 49943932--49943974 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
49943922 TTTTAAAAAT
*
49943932 ATTTTAAACA-TTTTTCATA
1 ATTTTTAACACTTTTTCATA
*
49943951 ATTTTTACCACTTTTTCATA
1 ATTTTTAACACTTTTTCATA
49943971 ATTT
1 ATTT
49943975 ATATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTAACACTTTTTCATA
Found at i:49944055 original size:17 final size:16
Alignment explanation
Indices: 49944033--49944076 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
49944023 ATGCAATTTC
49944033 TTTATATTTTATATATT
1 TTTATATTTTATATA-T
* *
49944050 TTTATAATTTTCTGTAT
1 TTTAT-ATTTTATATAT
49944067 TTTATATTTT
1 TTTATATTTT
49944077 TGTACTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 8 0.33
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTATATTTTATATAT
Found at i:49944085 original size:15 final size:17
Alignment explanation
Indices: 49944050--49944086 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
49944040 TTTATATATT
*
49944050 TTTATAATTTTCTGTAT
1 TTTATAATTTTCTGTAC
49944067 TTTAT-ATTTT-TGTAC
1 TTTATAATTTTCTGTAC
49944082 TTTAT
1 TTTAT
49944087 TGTTTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATAATTTTCTGTAC
Found at i:49944138 original size:20 final size:20
Alignment explanation
Indices: 49944113--49944157 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
49944103 AAATTAATAA
*
49944113 TTTTATTATTTTTATGACTT
1 TTTTATAATTTTTATGACTT
*
49944133 TTTTATAATTTTTATGATTT
1 TTTTATAATTTTTATGACTT
49944153 TTTTA
1 TTTTA
49944158 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTATAATTTTTATGACTT
Found at i:49944165 original size:20 final size:20
Alignment explanation
Indices: 49944122--49944166 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
49944112 ATTTTATTAT
* *
49944122 TTTTATGACTTTTTTATAAT
1 TTTTATGACTTTTTTAAAAA
*
49944142 TTTTATGATTTTTTTAAAAA
1 TTTTATGACTTTTTTAAAAA
49944162 TTTTA
1 TTTTA
49944167 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTATGACTTTTTTAAAAA
Found at i:49944966 original size:40 final size:40
Alignment explanation
Indices: 49944910--49945002 Score: 136
Period size: 38 Copynumber: 2.3 Consensus size: 40
49944900 GGCCCATTTT
* *
49944910 TTTAATAAATACAAAAAATTTATTTTAAAAATATTTTAAAA
1 TTTAAAAAATA-AAAAAAATTATTTTAAAAATATTTTAAAA
49944951 -TTAAAAAAT-AAAAAAATTATTTTAAAAATATTTTAAAA
1 TTTAAAAAATAAAAAAAATTATTTTAAAAATATTTTAAAA
49944989 TTTTAAAAAATAAA
1 -TTTAAAAAATAAA
49945003 TATATTTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
38 28 0.60
40 17 0.36
41 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (40 bp):
TTTAAAAAATAAAAAAAATTATTTTAAAAATATTTTAAAA
Found at i:49944971 original size:38 final size:40
Alignment explanation
Indices: 49944910--49945012 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
49944900 GGCCCATTTT
*
49944910 TTTAATAAATACAAAAAATTTATTTTAAAAATATTTTAAAA
1 TTTAAAAAATA-AAAAAATTTATTTTAAAAATATTTTAAAA
49944951 -TTAAAAAATAAAAAAA-TTATTTTAAAAATATTTTAAAA
1 TTTAAAAAATAAAAAAATTTATTTTAAAAATATTTTAAAA
* *
49944989 TTTTAAAAAATAAATATATTTATT
1 -TTTAAAAAATAAAAAAATTTATT
49945013 ATATCAAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 22 0.39
39 6 0.11
40 23 0.41
41 5 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (40 bp):
TTTAAAAAATAAAAAAATTTATTTTAAAAATATTTTAAAA
Found at i:49947154 original size:6 final size:6
Alignment explanation
Indices: 49947143--49947167 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49947133 TTCTAGCTAG
49947143 GGGTGA GGGTGA GGGTGA GGGTGA G
1 GGGTGA GGGTGA GGGTGA GGGTGA G
49947168 TGTTCGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GGGTGA
Found at i:49947908 original size:27 final size:26
Alignment explanation
Indices: 49947870--49947924 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
49947860 TAAAAATACA
*
49947870 AATTTTAGAATT-TTTAT-AAATATTTG
1 AATTTTAAAATTATTT-TCAAAT-TTTG
49947896 AATTTTAAAAATTATTTTCAAATTTTG
1 AATTTT-AAAATTATTTTCAAATTTTG
49947923 AA
1 AA
49947925 AATTTCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 6 0.24
27 12 0.48
28 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (26 bp):
AATTTTAAAATTATTTTCAAATTTTG
Found at i:49953461 original size:15 final size:16
Alignment explanation
Indices: 49953422--49953468 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
49953412 CACTTTTTTA
*
49953422 ATCATCC-CTGATCTC
1 ATCATCCTCTCATCTC
49953437 ATCATCCCTCTCATCTC
1 ATCAT-CCTCTCATCTC
49953454 -TCATCCTCTC-TCTC
1 ATCATCCTCTCATCTC
49953468 A
1 A
49953469 AATATCTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.14
15 11 0.39
16 6 0.21
17 7 0.25
ACGTcount: A:0.17, C:0.45, G:0.02, T:0.36
Consensus pattern (16 bp):
ATCATCCTCTCATCTC
Found at i:49959591 original size:56 final size:50
Alignment explanation
Indices: 49959331--49959628 Score: 238
Period size: 50 Copynumber: 5.9 Consensus size: 50
49959321 GATAATAACA
* ** * * * *
49959331 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTATGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCAG
* * * * * ** ** * *
49959380 TACCAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCAG
** * * * ** ** *
49959430 TGCCCGTACCATGTCCTAGACATTGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCAG
*
49959480 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCAG
*
49959530 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATTTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT--TG-TCTC-A-G
* * *
49959585 ATGCCAATGCCATGTCCCAGATATTGTCTTACATGGGATCTCTT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
49959629 TACCCAAATG
Statistics
Matches: 198, Mismatches: 44, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
49 36 0.18
50 115 0.58
52 2 0.01
53 3 0.02
54 2 0.01
55 1 0.01
56 39 0.20
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCAG
Found at i:49959998 original size:30 final size:30
Alignment explanation
Indices: 49959967--49960024 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
49959957 CGACTCTAAC
49959967 TTTAGCAAAATTACAATTTTGCCCCAAAACT
1 TTTA-CAAAATTACAATTTTGCCCCAAAACT
* *
49959998 TTTACATAATTACACTTTTGCCCCAAA
1 TTTACAAAATTACAATTTTGCCCCAAA
49960025 GCTCGGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (30 bp):
TTTACAAAATTACAATTTTGCCCCAAAACT
Found at i:49963158 original size:20 final size:20
Alignment explanation
Indices: 49963123--49963180 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
49963113 GTTTTTCTAG
49963123 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
*
49963143 TTTAACTTTTTATGTTAAAT
1 TTTAAATTTTTATGTTAAAT
49963163 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
49963181 TAAAGTGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:49969452 original size:15 final size:15
Alignment explanation
Indices: 49969432--49969460 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49969422 GTGCATAACA
49969432 CATATCCTTCAAGAT
1 CATATCCTTCAAGAT
49969447 CATATCCTTCAAGA
1 CATATCCTTCAAGA
49969461 ATCAATAAAA
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:0.28, G:0.07, T:0.31
Consensus pattern (15 bp):
CATATCCTTCAAGAT
Found at i:49974368 original size:21 final size:21
Alignment explanation
Indices: 49974329--49974369 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49974319 TAGAAACAGG
* **
49974329 AATGATCTTAATGGTAATCCA
1 AATGATCGTAATGAAAATCCA
49974350 AATGATCGTAATGAAAATCC
1 AATGATCGTAATGAAAATCC
49974370 TCTCATTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
AATGATCGTAATGAAAATCCA
Found at i:49977404 original size:93 final size:93
Alignment explanation
Indices: 49977239--49977427 Score: 308
Period size: 93 Copynumber: 2.0 Consensus size: 93
49977229 GGTAAGGCAT
* * * *
49977239 TTTATTTCTTCCTAGATGCTTATTTAGGATATAATCAAATTTCTATAGCACTTGAAGATCAAGAG
1 TTTATTGCTTCCTAGATGCTTATTCAAGATATAATCAAATTTCTATAGCACTTAAAGATCAAGAG
49977304 AGAACAACTTTCACGTGTCCATATGGTA
66 AGAACAACTTTCACGTGTCCATATGGTA
* *
49977332 TTTATTGCTTCCTAGATGGTTATTCAAGATATAATCAAATTTCTATAGCACTTAAATATCAAGAG
1 TTTATTGCTTCCTAGATGCTTATTCAAGATATAATCAAATTTCTATAGCACTTAAAGATCAAGAG
49977397 A-AGACAACTTTCACGTGTCCATATGGTA
66 AGA-ACAACTTTCACGTGTCCATATGGTA
49977425 TTT
1 TTT
49977428 TTATATTTAG
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 88 0.99
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (93 bp):
TTTATTGCTTCCTAGATGCTTATTCAAGATATAATCAAATTTCTATAGCACTTAAAGATCAAGAG
AGAACAACTTTCACGTGTCCATATGGTA
Found at i:49982298 original size:16 final size:16
Alignment explanation
Indices: 49982268--49982299 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
49982258 TGGTTTCCAT
49982268 TAAAAAAAGGAAAAAA
1 TAAAAAAAGGAAAAAA
49982284 TAAAGAAAAGGAAAAA
1 TAAA-AAAAGGAAAAA
49982300 GGAGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
TAAAAAAAGGAAAAAA
Found at i:49988693 original size:45 final size:44
Alignment explanation
Indices: 49988627--49988717 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
49988617 GGATTAGAGG
* *
49988627 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
49988672 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
49988716 TG
1 TG
49988718 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:49988900 original size:16 final size:16
Alignment explanation
Indices: 49988863--49988904 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49988853 TTAATCATAT
*
49988863 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
49988879 TT-AAATATATTATAA
1 TTAAAATATATTATAA
49988894 TTAAAATATAT
1 TTAAAATATAT
49988905 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:49988911 original size:14 final size:15
Alignment explanation
Indices: 49988872--49988913 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49988862 TTTAAACATA
*
49988872 ATTATTATTAAATAT
1 ATTATAATTAAATAT
49988887 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
49988901 A-TATAATTTAATA
1 ATTATAATTAAATA
49988914 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:49988985 original size:107 final size:107
Alignment explanation
Indices: 49988861--49989182 Score: 601
Period size: 107 Copynumber: 3.0 Consensus size: 107
49988851 ATTTAATCAT
49988861 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
49988926 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
*
49988969 ATTTAACATAATTATTATAAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
49989034 TTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
49989076 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
49989141 TCAATATTCTTATATGAATTTACT-AAATCATAATATATGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
49989183 CTATAAAATA
Statistics
Matches: 210, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
106 13 0.06
107 193 0.92
108 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (107 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
Found at i:49989116 original size:16 final size:16
Alignment explanation
Indices: 49989073--49989118 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
49989063 CATAATATAG
*
49989073 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
49989089 ATTATT-AAATATATT
1 ATAATTAAAATATATT
49989104 ATAATTAAAATATAT
1 ATAATTAAAATATAT
49989119 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:49989125 original size:14 final size:15
Alignment explanation
Indices: 49989073--49989127 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
49989063 CATAATATAG
49989073 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
49989089 ATTATTAAATATATT
1 ATAATTAAATATATT
49989104 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
49989117 ATAATTTAATA
1 ATAATTAAATA
49989128 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:49989297 original size:101 final size:95
Alignment explanation
Indices: 49989190--49989526 Score: 376
Period size: 91 Copynumber: 3.5 Consensus size: 95
49989180 ATACTATAAA
* *
49989190 ATATAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAAAATATAT-ATTTAATAAAATTTAA
* *
49989255 AATAATTATACCTAATAAATTTTCTTATATGAATTT
64 AAT-CTT-GA--TAATAAATTTTCTTATATGAATTT
* * *
49989291 GTATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAA--T--
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAA-AATATAT-ATTTAATAAAATTTAA
49989352 --TCTTGATAATAAATTTTCTTATATGAATTT
64 AATCTTGATAATAAATTTTCTTATATGAATTT
*
49989382 ATATAATTTAAAATAATTAATATTAAATATAATTTAAT--AATGATATA--TAAT---TTCTTAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAAAT-ATATATTTAATAAAAT-TTAA
*
49989440 AATTCTTGATAATAAATTTTTTTATATGAATTT
64 AA-TCTTGATAATAAATTTTCTTATATGAATTT
*
49989473 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAA-AATATAT-ATTTA
49989527 TACATTTAAC
Statistics
Matches: 206, Mismatches: 14, Indels: 37
0.80 0.05 0.14
Matches are distributed among these distances:
86 4 0.02
88 4 0.02
89 4 0.02
91 127 0.62
93 5 0.02
94 5 0.02
95 1 0.00
96 2 0.01
99 1 0.00
100 3 0.01
101 50 0.24
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (95 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTAATAAAATTTAAAA
TCTTGATAATAAATTTTCTTATATGAATTT
Found at i:49989302 original size:47 final size:44
Alignment explanation
Indices: 49989233--49989500 Score: 167
Period size: 47 Copynumber: 5.9 Consensus size: 44
49989223 TTAATTAAAA
*
49989233 TATATG-ATTTAATAAAATTTAAAATAATTATACCTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTAT---TAATAAATTTTCT
* * *
49989280 TATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTAATAAAT-T-TTCT
* * *
49989325 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-AT--TAATAAATTTTCT
* * *
49989371 TATATGAATTTATATAATTTAAAATAATTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTAATAAAT-T-TTCT
* ** *
49989416 TA-AT-AATGATATATAATTTCTTAAAATTCTTGA-TAATAAATTTTTT
1 TATATGAAT-TTATATAA--T-TTAAAATAATT-ATTAATAAATTTTCT
* *
49989462 TATATGAATTTATATAATTTAAAATAATTAATATTAAAT
1 TATATGAATTTATATAATTTAAAATAATTATTAATAAAT
49989501 ATAATTTAAT
Statistics
Matches: 173, Mismatches: 25, Indels: 49
0.70 0.10 0.20
Matches are distributed among these distances:
43 7 0.04
44 54 0.31
45 15 0.09
46 14 0.08
47 72 0.42
48 11 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (44 bp):
TATATGAATTTATATAATTTAAAATAATTATTAATAAATTTTCT
Found at i:49989342 original size:44 final size:43
Alignment explanation
Indices: 49989292--49989526 Score: 197
Period size: 44 Copynumber: 5.2 Consensus size: 43
49989282 TATGAATTTG
*
49989292 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
49989336 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
49989383 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * ** *
49989427 TATAATTTCTTAAAATTCTTGATAATAAAT-TTTTTTATATGAATTTA
1 TATAA--T-TTAAAATAATTAATATTAAATATAATTTA-AT-AATATA
49989474 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
49989518 TATAATTTA
1 TATAATTTA
49989527 TACATTTAAC
Statistics
Matches: 148, Mismatches: 27, Indels: 32
0.71 0.13 0.15
Matches are distributed among these distances:
43 6 0.04
44 60 0.41
45 13 0.09
46 13 0.09
47 50 0.34
48 6 0.04
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:49989363 original size:91 final size:91
Alignment explanation
Indices: 49989267--49989525 Score: 473
Period size: 91 Copynumber: 2.8 Consensus size: 91
49989257 TAATTATACC
* *
49989267 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
49989332 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
49989358 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
49989423 GATATATAATTTCTTAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
49989449 TAATAAATTTTTTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
49989514 GATATATAATTT
66 GATATATAATTT
49989526 ATACATTTAA
Statistics
Matches: 163, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 163 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:49989373 original size:220 final size:225
Alignment explanation
Indices: 49988966--49989382 Score: 559
Period size: 220 Copynumber: 1.9 Consensus size: 225
49988956 CATAATATAG
*
49988966 ATAATTTAACATAATTATTATAAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATAATTTAACATAATTAATATAAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA
* * * *
49989031 TAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAACATAATTATTATTA
66 TAATTAATATACCTATATAAATTTA-TCAAATCATAATATAGATAATTTAAAATAATTATTATTA
*
49989096 AATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATT
130 AATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATT
49989161 TACTAAATCATAATATATGATACTATAAAAT
195 TACTAAATCATAATATATGATACTATAAAAT
* * *
49989192 ATAATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-TTA
1 ATAATTT-AACATAATTAATATAAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTA
** *
49989254 A-AA-TAATTATACCTA-ATAAATTT-TCTTAT-ATGAAT-TTGTATAATTTAAAATAATTATTA
65 ATAATTAA-TATACCTATATAAATTTATCAAATCAT-AATATAG-ATAATTTAAAATAATTATTA
* * *
49989313 TTAAATATAATT-TAA-TAATAATATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATAT
127 TTAAATAT-ATTATAATTAA-AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATAT
49989376 GAATTTA
190 GAATTTA
49989383 TATAATTTAA
Statistics
Matches: 170, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
219 7 0.04
220 84 0.49
221 3 0.02
222 10 0.06
223 8 0.05
224 4 0.02
225 1 0.01
226 51 0.30
227 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (225 bp):
ATAATTTAACATAATTAATATAAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA
TAATTAATATACCTATATAAATTTATCAAATCATAATATAGATAATTTAAAATAATTATTATTAA
ATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTT
ACTAAATCATAATATATGATACTATAAAAT
Found at i:49990544 original size:17 final size:17
Alignment explanation
Indices: 49990522--49990557 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
49990512 GCACCTAATA
49990522 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
49990539 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
49990556 TA
1 TA
49990558 CAGCAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
TAACTCATATTTCAAAT
Found at i:49996527 original size:41 final size:43
Alignment explanation
Indices: 49996443--49996531 Score: 119
Period size: 41 Copynumber: 2.1 Consensus size: 43
49996433 TAACTTATTT
*
49996443 TATTTTTTAAAAAGAAAAAATATATATATATATGAATTCCCTA
1 TATTTTTTAAAAAGAAAAAATATATATATATACGAATTCCCTA
* * * *
49996486 TATTTTTTAAAAAG-CAAAA-GTATATATATACGATTTTCCTA
1 TATTTTTTAAAAAGAAAAAATATATATATATACGAATTCCCTA
49996527 TATTT
1 TATTT
49996532 GATAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 23 0.56
42 4 0.10
43 14 0.34
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (43 bp):
TATTTTTTAAAAAGAAAAAATATATATATATACGAATTCCCTA
Found at i:49996654 original size:27 final size:27
Alignment explanation
Indices: 49996623--49996678 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
49996613 AAATCGATCT
* *
49996623 AAATTGTAGTGGTTATTCAGCAAATTA
1 AAATTCTAATGGTTATTCAGCAAATTA
49996650 AAATTCTAATGGTTATTCAGCAAATTA
1 AAATTCTAATGGTTATTCAGCAAATTA
49996677 AA
1 AA
49996679 TTTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (27 bp):
AAATTCTAATGGTTATTCAGCAAATTA
Found at i:49997963 original size:30 final size:30
Alignment explanation
Indices: 49997927--49997983 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49997917 ATATATTATG
49997927 TATCATTATATTAAATTACCTAAATATCAT
1 TATCATTATATTAAATTACCTAAATATCAT
**
49997957 TATCATTATATTAAATTATTTAAATAT
1 TATCATTATATTAAATTACCTAAATAT
49997984 AATTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (30 bp):
TATCATTATATTAAATTACCTAAATATCAT
Found at i:49999165 original size:3 final size:3
Alignment explanation
Indices: 49999157--49999207 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
49999147 TAATTTTTAT
* * * *
49999157 TTA TTA TTA TTA TTA TTA TGA TTT TTA TTA -TC TTG TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49999203 TTA TT
1 TTA TT
49999208 TTTTAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:49999200 original size:28 final size:28
Alignment explanation
Indices: 49999149--49999210 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
49999139 TTAAGCTTTA
49999149 ATTTTTATTTATTATTATTATTATTATG
1 ATTTTTATTTATTATTATTATTATTATG
* * *
49999177 ATTTTTATTATCTTGTTATT-TTATTATT
1 ATTTTTATT-TATTATTATTATTATTATG
49999205 ATTTTT
1 ATTTTT
49999211 TAAAAAACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (28 bp):
ATTTTTATTTATTATTATTATTATTATG
Found at i:50009254 original size:45 final size:44
Alignment explanation
Indices: 50009169--50009288 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 44
50009159 ATAGTACTCT
*
50009169 GTGAAATCAGTACATAGCAACCACCTTTATACTCAATGGTA-CCGG
1 GTGAAATCAGTACATAGCAATCA-CTTTATACTCAATGGTATCC-G
* *
50009214 GTGAATTCAGTACATAGCAATCACTTATATAAC-CATTGGTATCCG
1 GTGAAATCAGTACATAGCAATCACTT-TAT-ACTCAATGGTATCCG
* *
50009259 GTGAAATCTGCACATAGCAATCACCTTTAT
1 GTGAAATCAGTACATAGCAATCA-CTTTAT
50009289 TTTCATTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 3 0.05
45 55 0.85
46 7 0.11
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (44 bp):
GTGAAATCAGTACATAGCAATCACTTTATACTCAATGGTATCCG
Found at i:50011142 original size:20 final size:20
Alignment explanation
Indices: 50011102--50011142 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50011092 AAATACTTTA
*
50011102 AAAATATTTTTTTTATTTTT
1 AAAATATTTTTTTTATGTTT
*
50011122 AAAATATTTTTTTTGTGTTT
1 AAAATATTTTTTTTATGTTT
50011142 A
1 A
50011143 TTAAAAATCG
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:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
AAAATATTTTTTTTATGTTT
Found at i:50020308 original size:5 final size:5
Alignment explanation
Indices: 50020298--50020345 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
50020288 TTTTTATATA
50020298 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
50020346 TTATATTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:50028533 original size:44 final size:44
Alignment explanation
Indices: 50028466--50028644 Score: 286
Period size: 44 Copynumber: 4.1 Consensus size: 44
50028456 GTAGATAAAA
* *
50028466 TAATATTAAAATAACCTACACTAATTAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGGGAAAC
* * *
50028510 TAATATTAAAATAATCTATACTAATCAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGGGAAAC
*
50028554 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATAGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGGGAAAC
* *
50028598 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGGGAAAC
50028642 TAA
1 TAA
50028645 AAACAAAGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 125 1.00
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGGGAAAC
Found at i:50028578 original size:21 final size:21
Alignment explanation
Indices: 50028552--50028622 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
50028542 TAAATGGGAA
50028552 ACTAATATTAAAATAACCTAC
1 ACTAATATTAAAATAACCTAC
* ** *
50028573 ACTAATCAAAGTTTAAAT-A-GGAA
1 ACTAAT---A-TTAAAATAACCTAC
50028596 ACTAATATTAAAATAACCTAC
1 ACTAATATTAAAATAACCTAC
50028617 ACTAAT
1 ACTAAT
50028623 CAAAGTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
19 6 0.17
20 2 0.06
21 13 0.36
23 7 0.19
24 2 0.06
25 6 0.17
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (21 bp):
ACTAATATTAAAATAACCTAC
Found at i:50039373 original size:459 final size:459
Alignment explanation
Indices: 50038515--50039436 Score: 1736
Period size: 459 Copynumber: 2.0 Consensus size: 459
50038505 TGAAATCATA
50038515 AAAACTTATGGTGAATGCTCTTTGCCCAATTTGTAGCTCATTTGTTTCGGGAATGCGCCTTCACA
1 AAAACTTATGGTGAATGCTCTTTGCCCAATTTGTAGCTCATTTGTTTCGGGAATGCGCCTTCACA
50038580 AAGTTGGTCTGGCAGGAAATAGGAGTGGCTCCCTCGACCACAAACAAGGGCTAAGATTGGAGATA
66 AAGTTGGTCTGGCAGGAAATAGGAGTGGCTCCCTCGACCACAAACAAGGGCTAAGATTGGAGATA
*
50038645 GTGGTTAGCATTAGAAATTGGTTGCTGAGAGCAACGAGGAAGATTTAGTTGGTGCTAATTTGGTC
131 GTGGTTAGCATTAGAAATTGGTTGCTGAGAGCAACGAGGAAGATTTAGTTGGTGCTAATTTGGCC
*
50038710 AATGATAAGGATGATGATTTCTTGTTGGTTTCAGCAAGTGAAAGCTTCAGGTTTACGTCCGAGTG
196 AATGATAAGGAAGATGATTTCTTGTTGGTTTCAGCAAGTGAAAGCTTCAGGTTTACGTCCGAGTG
* *
50038775 GATCCTAGATTCGAGGTTTTCTTTCCACATGTGTCCCAAGAGGGACTAGTTCTCCACATATAGTT
261 AATCCTAGATTCGAGGTTTTCTTTCCACATGTGTCCCAAGAGGGACTAGTTCTCCACATACAGTT
50038840 TAGTTGAATGTGAAGTTGTGCACACGGGGAATGGTTCACCCAATAAGGTAATCGATACTGGTACT
326 TAGTTGAATGTGAAGTTGTGCACACGGGGAATGGTTCACCCAATAAGGTAATCGATACTGGTACT
50038905 GTTTAGATCAGGATGCACAATGGGACAATTAGGACACTGTCAAATGTCAGGCACGTGCCTGACGT
391 GTTTAGATCAGGATGCACAATGGGACAATTAGGACACTGTCAAATGTCAGGCACGTGCCTGACGT
50038970 AAAG
456 AAAG
*
50038974 AAAACTTATGGTGAATGCTCTTTGCCCAATTTGTAGCTCATTTGTTTCGGGAATGCGCCTTTACA
1 AAAACTTATGGTGAATGCTCTTTGCCCAATTTGTAGCTCATTTGTTTCGGGAATGCGCCTTCACA
* *
50039039 AAGTTGGTCTGGCAGGAAATAGGAGTGGCTCCCTCGGCCACAAACAGGGGCTAAGATTGGAGATA
66 AAGTTGGTCTGGCAGGAAATAGGAGTGGCTCCCTCGACCACAAACAAGGGCTAAGATTGGAGATA
*
50039104 GTGGTTAGCATTAGAAATTTGTTGCTGAGAGCAACGAGGAAGATTTAGTTGGTGCTAATTTGGCC
131 GTGGTTAGCATTAGAAATTGGTTGCTGAGAGCAACGAGGAAGATTTAGTTGGTGCTAATTTGGCC
*
50039169 AATGATAAGGAAGATGATTTCTTGTTGGTTTCAGCAAGTGAAAGCTTCAGGTTTACGTCTGAGTG
196 AATGATAAGGAAGATGATTTCTTGTTGGTTTCAGCAAGTGAAAGCTTCAGGTTTACGTCCGAGTG
* * *
50039234 AATCCTAGATTTGAGGTTTTCTTTTCACATGTGTCCCAAGAGGGACTGGTTCTCCACATACAGTT
261 AATCCTAGATTCGAGGTTTTCTTTCCACATGTGTCCCAAGAGGGACTAGTTCTCCACATACAGTT
50039299 TAGTTGAATGTGAAGTTGTGCACACGGGGAATGGTTCACCCAATAAGGTAATCGATACTGGTACT
326 TAGTTGAATGTGAAGTTGTGCACACGGGGAATGGTTCACCCAATAAGGTAATCGATACTGGTACT
50039364 GTTTAGATCAGGATGCACAATGGGACAATTAGGACACTGTCAAATGTCAGGCACGTGCCTGACGT
391 GTTTAGATCAGGATGCACAATGGGACAATTAGGACACTGTCAAATGTCAGGCACGTGCCTGACGT
50039429 AAAG
456 AAAG
50039433 AAAA
1 AAAA
50039437 ATCTAATCTC
Statistics
Matches: 451, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
459 451 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (459 bp):
AAAACTTATGGTGAATGCTCTTTGCCCAATTTGTAGCTCATTTGTTTCGGGAATGCGCCTTCACA
AAGTTGGTCTGGCAGGAAATAGGAGTGGCTCCCTCGACCACAAACAAGGGCTAAGATTGGAGATA
GTGGTTAGCATTAGAAATTGGTTGCTGAGAGCAACGAGGAAGATTTAGTTGGTGCTAATTTGGCC
AATGATAAGGAAGATGATTTCTTGTTGGTTTCAGCAAGTGAAAGCTTCAGGTTTACGTCCGAGTG
AATCCTAGATTCGAGGTTTTCTTTCCACATGTGTCCCAAGAGGGACTAGTTCTCCACATACAGTT
TAGTTGAATGTGAAGTTGTGCACACGGGGAATGGTTCACCCAATAAGGTAATCGATACTGGTACT
GTTTAGATCAGGATGCACAATGGGACAATTAGGACACTGTCAAATGTCAGGCACGTGCCTGACGT
AAAG
Found at i:50040622 original size:44 final size:45
Alignment explanation
Indices: 50040545--50040632 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 45
50040535 ATAATTGTAA
* ** *
50040545 ATTAAATTATAGTTATTTTTAAATGTGCGATTATCA-AAATTTTT
1 ATTAAATTATAATTATTTTTAAATGAACAATTATCACAAATTTTT
* *
50040589 ATTAAATTATAATTATTTTTTAATGAATAATTATCACAAATTTT
1 ATTAAATTATAATTATTTTTAAATGAACAATTATCACAAATTTT
50040633 AATTTACGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 30 0.81
45 7 0.19
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.50
Consensus pattern (45 bp):
ATTAAATTATAATTATTTTTAAATGAACAATTATCACAAATTTTT
Found at i:50044134 original size:59 final size:60
Alignment explanation
Indices: 50043981--50044149 Score: 232
Period size: 59 Copynumber: 2.8 Consensus size: 60
50043971 AGCACCGAAT
* * * *
50043981 TTTTTAACGAATAACTGTAAATTAAATTATAATTATAATCATCACACTTTATCATCAAAA
1 TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATTATCACAATTTATCAGCAAAA
* * * *
50044041 CTTTTAACTAATAACTGTAAATTAAATTATAATTATAGTTATCACAATTTA-GAGCCAAA
1 TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATTATCACAATTTATCAGCAAAA
* * *
50044100 TTTTTAACTAATAATTGTGAATTAAATTATAATTATAATTATCTCAATTT
1 TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATTATCACAATTT
50044150 TTCCTATATT
Statistics
Matches: 96, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 50 0.52
60 46 0.48
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (60 bp):
TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATTATCACAATTTATCAGCAAAA
Found at i:50044337 original size:6 final size:6
Alignment explanation
Indices: 50044314--50044352 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
50044304 TATTTAAATA
*
50044314 ATAATT ATAAGTG A-AATT ATAATT ATAATT ATAATT ATA
1 ATAATT ATAA-TT ATAATT ATAATT ATAATT ATAATT ATA
50044353 TGATCACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (6 bp):
ATAATT
Found at i:50047367 original size:8 final size:8
Alignment explanation
Indices: 50047350--50047394 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
50047340 ATTTGTAATA
*
50047350 AAATACAT
1 AAATAGAT
50047358 AAATAGAT
1 AAATAGAT
50047366 -AATA-AT
1 AAATAGAT
50047372 -AATAGAT
1 AAATAGAT
*
50047379 AAATAAAT
1 AAATAGAT
50047387 AAATAGAT
1 AAATAGAT
50047395 GCCCGATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 20 0.62
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (8 bp):
AAATAGAT
Found at i:50047380 original size:21 final size:20
Alignment explanation
Indices: 50047345--50047388 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
50047335 GTGCAATTTG
*
50047345 TAATAAAATACATAAATAGA
1 TAATAAAATACATAAATAAA
*
50047365 TAATAATAATAGATAAATAAA
1 TAATAA-AATACATAAATAAA
50047386 TAA
1 TAA
50047389 ATAGATGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
TAATAAAATACATAAATAAA
Found at i:50049175 original size:94 final size:94
Alignment explanation
Indices: 50048967--50049236 Score: 267
Period size: 94 Copynumber: 2.9 Consensus size: 94
50048957 ATGATGTGTT
* * * * * *
50048967 GCTTCAATCTAA-TCCACTGCAATTTCAGGGAGATTAGACTTATAGCTTTAATCTACTCCACTAT
1 GCTTCAATC-AATTCCACTGCAACTTCAGGGA-ATAAGATTTGTAGCTTTAATCTGCTCCACTAC
* * * *
50049031 AACTTTAGGGAGATGAGATTGGTAATTTTTT
64 AACTTTAGGGAGATAAGATTGGTAACTTGTA
* * * * *
50049062 GTTTTAATCTATTCTACTGCAACTTCAGGGAATAAGATTTGTAGCCTTT-ATCTGCTCCACTGCA
1 GCTTCAATCAATTCCACTGCAACTTCAGGGAATAAGATTTGTAG-CTTTAATCTGCTCCACTACA
* *
50049126 ACTTTAGGGAGATAAGATTTGTGACTTGTA
65 ACTTTAGGGAGATAAGATTGGTAACTTGTA
* * * * *
50049156 GCTTCAAT-AAGTTCCACTGCAACTTTAGGAAAATGAGATTTGTAGCTTTAATTTGCTCCAGTAC
1 GCTTCAATCAA-TTCCACTGCAACTTCAGG-GAATAAGATTTGTAGCTTTAATCTGCTCCACTAC
*
50049220 AACTTTAGAGAGATAAG
64 AACTTTAGGGAGATAAG
50049237 GTTTATAGCT
Statistics
Matches: 142, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
93 1 0.01
94 73 0.51
95 68 0.48
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (94 bp):
GCTTCAATCAATTCCACTGCAACTTCAGGGAATAAGATTTGTAGCTTTAATCTGCTCCACTACAA
CTTTAGGGAGATAAGATTGGTAACTTGTA
Found at i:50049313 original size:45 final size:44
Alignment explanation
Indices: 50049077--50049917 Score: 411
Period size: 44 Copynumber: 18.6 Consensus size: 44
50049067 AATCTATTCT
* * *
50049077 ACTGCAACTTCAGGGA-ATAAGATTTGTAGCCTT-TATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTTGTA-TCTTCAATCTGCTCC
* * ** *
50049120 ACTGCAACTTTAGGGAGATAAGATTTGTGACTTGTAGCTTCAATAAGTTCC
1 ACTGCAACTTCAGAGAGATAAGATTTGT-A----T--CTTCAATCTGCTCC
* * * * * *
50049171 ACTGCAACTTTAG-GAAAATGAGATTTGTAGCTTTAATTTGCTCC
1 ACTGCAACTTCAGAG-AGATAAGATTTGTATCTTCAATCTGCTCC
* * * * * * * *
50049215 AGTACAACTTTAGAGAGATAAGGTTTATAGCTTTAATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCC
* * * *
50049259 ACTGTAACTTCAGAGAGATAAGATTCGCTATCTTCAATCTACTCT
1 ACTGCAACTTCAGAGAGATAAGATTTG-TATCTTCAATCTGCTCC
* * * *
50049304 ACTGCAACTTCAG-GAAGATAATATTTGTAACTTTAATCTACTCC
1 ACTGCAACTTCAGAG-AGATAAGATTTGTATCTTCAATCTGCTCC
* * * * * * * *
50049348 ACTACGACTTCA-AGGAGATAAGATTTGTGTTTTTAGTTTACTCC
1 ACTGCAACTTCAGA-GAGATAAGATTTGTATCTTCAATCTGCTCC
* * * * **
50049392 ACTACAAGTTCAGGGAGATAAGATTAGTATCTTCAATCTAATCC
1 ACTGCAACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCC
* * ** * *
50049436 ACTGCAACCTT-AG-G-GAGAAGATTTCTGGCTTTAATCTACTCC
1 ACTGCAA-CTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCC
* *
50049478 ACTACAACTTCAGAGAGATAAGATTCACCACG-ATGACTTCAATC--CATCC
1 ACTGCAACTTCAGAGAGATAAGATT-----TGTAT--CTTCAATCTGC-TCC
* * * * * **
50049527 TACTGCAAATTCA-AGGGTATAGGATTTGTGGTTTGTAGCCTTAATCTATTCC
1 -ACTGCAACTTCAGAGAG-ATAAGATTTGT-ATCT-T---C--AATCTGCTCC
* * * * *
50049579 ACTACAA-TCTCAGGGAAATAAGATTCGCTATCTTCAATCCGCTCC
1 ACTGCAACT-TCAGAGAGATAAGATTTG-TATCTTCAATCTGCTCC
* * *
50049624 ACTGCATCTTCAG-GAAGATAAGATTTGTTATCTTTAACCTGCTCC
1 ACTGCAACTTCAGAG-AGATAAGATTTG-TATCTTCAATCTGCTCC
* * * * * *
50049669 ACTACAATTTCAGGGAGATAAGGTTTGTAGT-TTTAATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATTTGTA-TCTTCAATCTGCTCC
* * *
50049713 ACTGCCACTTCAGAGAGATAATATTCGCTATCTTCAATTCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTTG-TATCTTCAA-TCTGCTCC
* * * *
50049759 ACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATTTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCC
* *
50049803 ACTGCAACTTTAGAGAGATAAGATTTGCTATTTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTTG-TATCTTCAATCTGCTCC
* * * * *
50049848 ACTGTAACTTTAGGGAGATAAGATTAGT-TCTTCAATTTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCC
* *
50049891 ATTGCAATTTCA-AGGAGATAAGATTTG
1 ACTGCAACTTCAGA-GAGATAAGATTTG
50049918 CCATGGTGAC
Statistics
Matches: 610, Mismatches: 137, Indels: 102
0.72 0.16 0.12
Matches are distributed among these distances:
41 3 0.00
42 29 0.05
43 50 0.08
44 240 0.39
45 154 0.25
46 34 0.06
47 2 0.00
48 2 0.00
49 7 0.01
50 31 0.05
51 53 0.09
52 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCC
Found at i:50049332 original size:133 final size:131
Alignment explanation
Indices: 50049168--50049502 Score: 354
Period size: 133 Copynumber: 2.5 Consensus size: 131
50049158 TTCAATAAGT
* * * * * *
50049168 TCCACTGCAACTTTAGGAAAATGAGATTTGTAGCTTTAATTTGCTCCAGTACAACTTTAGAGAGA
1 TCCACTGCAAC-TTAGGAAGATAAGATTTGTAGCTTTAATCTACTCCACTACAACTTCAGAGAGA
* * * ** *
50049233 TAAGGTTTATAG-CTTTAATCTGCTCTACTGTAACTTCAGAGAGATAAGATTCGCTATCTTCAAT
65 TAAGATTTAT-GTCTTTAATCTACTCCACTACAACTTCAGAGAGATAAGATTAG-TATCTTCAAT
*
50049297 CTAC
128 CTAA
* * * *
50049301 TCTACTGCAACTTCAGGAAGATAATATTTGTAACTTTAATCTACTCCACTACGACTTCA-AGGAG
1 TCCACTGCAACTT-AGGAAGATAAGATTTGTAGCTTTAATCTACTCCACTACAACTTCAGA-GAG
* * * * * *
50049365 ATAAGATTTGTGTTTTTAGTTTACTCCACTACAAGTTCAGGGAGATAAGATTAGTATCTTCAATC
64 ATAAGATTTATGTCTTTAATCTACTCCACTACAACTTCAGAGAGATAAGATTAGTATCTTCAATC
50049430 TAA
129 TAA
* * *
50049433 TCCACTGCAACCTTAGG--GAGAAGATTTCTGGCTTTAATCTACTCCACTACAACTTCAGAGAGA
1 TCCACTGCAA-CTTAGGAAGATAAGATTTGTAGCTTTAATCTACTCCACTACAACTTCAGAGAGA
50049496 TAAGATT
65 TAAGATT
50049503 CACCACGATG
Statistics
Matches: 167, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
130 45 0.27
131 1 0.01
132 29 0.17
133 92 0.55
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (131 bp):
TCCACTGCAACTTAGGAAGATAAGATTTGTAGCTTTAATCTACTCCACTACAACTTCAGAGAGAT
AAGATTTATGTCTTTAATCTACTCCACTACAACTTCAGAGAGATAAGATTAGTATCTTCAATCTA
A
Found at i:50049690 original size:90 final size:89
Alignment explanation
Indices: 50049567--50049918 Score: 315
Period size: 90 Copynumber: 3.9 Consensus size: 89
50049557 GTTTGTAGCC
** * * * *
50049567 TTAATCTATTCCACTACAATCTCAGGGAAATAAGATTCGCTATCTTCAATCCGCTCCACTGCATC
1 TTAATCTGCTCCACTACAATTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTCCACTGCATC
*
50049632 TTCAG-GAAGATAAGATTTGTTATCT
65 TTCAGAG-AGATAAGATTTGCTATCT
* * * *
50049657 TTAACCTGCTCCACTACAATTTCAGGGAGATAAGGTTTGTAGT-TTTAATCTGCTCTACTGCCA-
1 TTAATCTGCTCCACTACAATTTCAGGGAGATAAGATTTGTA-TCTTCAATCTGCTCCACTG-CAT
* *
50049720 CTTCAGAGAGATAATATTCGCTATCT
64 CTTCAGAGAGATAAGATTTGCTATCT
* * * * * * * * *
50049746 TCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATTTGCTCTACTGCAAC
1 TTAA-TCTGCTCCACTACAATTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCCACTGCATC
*
50049811 TTTAGAGAGATAAGATTTGCTAT-T
65 TTCAGAGAGATAAGATTTGCTATCT
** * * *
50049835 TTCAATCTGCTCCACTGTAACTTT-AGGGAGATAAGATTAGT-TCTTCAATTTGCTCCATTGCAA
1 TT-AATCTGCTCCACTACAA-TTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCCACTGC-A
50049898 T-TTCA-AGGAGATAAGATTTGC
63 TCTTCAGA-GAGATAAGATTTGC
50049919 CATGGTGACC
Statistics
Matches: 217, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
87 1 0.00
88 33 0.15
89 74 0.34
90 109 0.50
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (89 bp):
TTAATCTGCTCCACTACAATTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCCACTGCATCT
TCAGAGAGATAAGATTTGCTATCT
Found at i:50056804 original size:40 final size:40
Alignment explanation
Indices: 50056716--50056806 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
50056706 CCATTTTAAC
* *
50056716 AAACGCCGCAATAGATCGAGAATTAGTAGCGATTTTTATG
1 AAACGCCGCAATAGATCAAGAATTAGCAGCGATTTTTATG
* * * * *
50056756 AAAGGCCGCTATAGATCAAGTATTAGCGGCGCTTTTT-TGG
1 AAACGCCGCAATAGATCAAGAATTAGCAGCGATTTTTAT-G
50056796 AAACGCCGCAA
1 AAACGCCGCAA
50056807 ACAAAATGAG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (40 bp):
AAACGCCGCAATAGATCAAGAATTAGCAGCGATTTTTATG
Found at i:50056905 original size:14 final size:14
Alignment explanation
Indices: 50056889--50056993 Score: 66
Period size: 14 Copynumber: 7.4 Consensus size: 14
50056879 TACACTTTTT
*
50056889 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAA
*
50056903 GGTTTTAGGATTTAA
1 GG-TTTAGGGTTTAA
*
50056918 AGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
* ** *
50056932 GGGTTAGTATGTAA
1 GGTTTAGGGTTTAA
** * *
50056946 GGTTTAATGTCTAT
1 GGTTTAGGGTTTAA
*
50056960 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAA
* *
50056974 GGTTTATGGTATAA
1 GGTTTAGGGTTTAA
*
50056988 TGTTTA
1 GGTTTA
50056994 TTATTTTCGG
Statistics
Matches: 68, Mismatches: 22, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
14 57 0.84
15 11 0.16
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:50057591 original size:39 final size:39
Alignment explanation
Indices: 50057542--50057619 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 39
50057532 CATTATATTC
50057542 AATTTTAAAATTGAACAATT-AAATAATGTCATATTAAA
1 AATTTTAAAATTGAACAATTAAAATAATGTCATATTAAA
*
50057580 AATTTTAAAAATTTAACAATTAAAAATAATGTCATATTAA
1 AATTTT-AAAATTGAACAATT-AAAATAATGTCATATTAA
50057620 TGTATCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 6 0.17
39 13 0.36
41 17 0.47
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (39 bp):
AATTTTAAAATTGAACAATTAAAATAATGTCATATTAAA
Found at i:50057943 original size:126 final size:123
Alignment explanation
Indices: 50057689--50057954 Score: 293
Period size: 126 Copynumber: 2.1 Consensus size: 123
50057679 AAAAACGCCA
* * * * *
50057689 CAACAATGTCTTAAAAATTATACAAAACGGCGCCGTTTGGTTACAGGAATTTGATTTTTAGTGGC
1 CAACAATGTATTAAAAAGTATACAAAACGACGCCGTTTGCTTACAGGAATTTAATTTTTAGTGGC
* * *
50057754 GTTTTCTCCACAATGCTGCAAAAGGTATGGAATAGCGGCGTTTGTTATAAAAACACTG
66 GTTTTCTCCACAATGCCGCAAAAGGTAAGCAATAGCGGCGTTTGTTATAAAAACACTG
* * * * *
50057812 TAACAATGTATTAAAAAGTGTACAAAAACTACGTCGTTTGCTTACAGGATTTTAACTTTTTAGTG
1 CAACAATGTATTAAAAAGTATAC-AAAACGACGCCGTTTGCTTACAGGAATTTAA-TTTTTAGTG
* * * * * **
50057877 GTG-TTTCTCTCAGAATCGCCGCAAAAGGTAAGCATTAGTGGCGTTT-TGTCTAAAAATGCTG
64 GCGTTTTCTC-CACAAT-GCCGCAAAAGGTAAGCAATAGCGGCGTTTGT-TATAAAAACACTG
50057938 CAACAATGTATTAAAAA
1 CAACAATGTATTAAAAA
50057955 TTGTTCAGAA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
123 19 0.16
124 31 0.26
125 17 0.15
126 50 0.43
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (123 bp):
CAACAATGTATTAAAAAGTATACAAAACGACGCCGTTTGCTTACAGGAATTTAATTTTTAGTGGC
GTTTTCTCCACAATGCCGCAAAAGGTAAGCAATAGCGGCGTTTGTTATAAAAACACTG
Found at i:50058080 original size:20 final size:20
Alignment explanation
Indices: 50058057--50058097 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
50058047 CGCAGTCAGC
50058057 CCCTAATTCCCCTTCCAAAT
1 CCCTAATTCCCCTTCCAAAT
*
50058077 CCCTAATTCCCCTTCTAAAT
1 CCCTAATTCCCCTTCCAAAT
50058097 C
1 C
50058098 TCTTCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (20 bp):
CCCTAATTCCCCTTCCAAAT
Found at i:50058725 original size:41 final size:42
Alignment explanation
Indices: 50058653--50058750 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 42
50058643 AGCATGGGGC
* *
50058653 TTTAGCGGCGTTTTTGAAAATACGCCGCTAATGCTTAGGG-T
1 TTTAGCGGCGTTTTTGAAAATACGCCACTAATGCTCAGGGTT
* * *
50058694 TTTAGCGGCGTTTTTGGATAA-GCGCCACTAATGCTCGGGGTT
1 TTTAGCGGCGTTTTT-GAAAATACGCCACTAATGCTCAGGGTT
*
50058736 TTTAGCGGCGCTTTT
1 TTTAGCGGCGTTTTT
50058751 CCAAAAGCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
41 30 0.61
42 19 0.39
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGAAAATACGCCACTAATGCTCAGGGTT
Found at i:50058759 original size:42 final size:40
Alignment explanation
Indices: 50058653--50058761 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 40
50058643 AGCATGGGGC
* * * *
50058653 TTTAGCGGCGTTTTTGAAAATACGCCGCTAATGCTTAGGGT
1 TTTAGCGGCGTTTTCGAAAA-GCGCCACTAATGCTCAGGGT
* * *
50058694 TTTAGCGGCGTTTTTGGATAAGCGCCACTAATGCTCGGGGTT
1 TTTAGCGGCG-TTTTCGAAAAGCGCCACTAATGCTCAGGG-T
*
50058736 TTTAGCGGCGCTTTTCCAAAAGCGCC
1 TTTAGCGGCG-TTTTCGAAAAGCGCC
50058762 GCAAAAATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 25 0.45
42 31 0.55
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGTTTTCGAAAAGCGCCACTAATGCTCAGGGT
Found at i:50058803 original size:16 final size:16
Alignment explanation
Indices: 50058784--50058830 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 16
50058774 TATCTATTTA
50058784 TTATTATTTAATTGGT
1 TTATTATTTAATTGGT
50058800 TTATTATTTAATTGGT
1 TTATTATTTAATTGGT
50058816 TTATTTATATTAATT
1 TTA-TTAT-TTAATT
50058831 AAAATTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 19 0.66
17 4 0.14
18 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (16 bp):
TTATTATTTAATTGGT
Found at i:50059091 original size:14 final size:15
Alignment explanation
Indices: 50059065--50059113 Score: 66
Period size: 14 Copynumber: 3.4 Consensus size: 15
50059055 ACTATTTGAA
50059065 GGTTTATAGATTATG
1 GGTTTATAGATTATG
50059080 GGTTTA-AGATTAT-
1 GGTTTATAGATTATG
*
50059093 GGTTTATAGTTTATG
1 GGTTTATAGATTATG
*
50059108 CGTTTA
1 GGTTTA
50059114 AGGTTTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.20
14 13 0.43
15 11 0.37
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (15 bp):
GGTTTATAGATTATG
Found at i:50059126 original size:8 final size:7
Alignment explanation
Indices: 50059109--50059261 Score: 80
Period size: 7 Copynumber: 21.7 Consensus size: 7
50059099 TAGTTTATGC
50059109 GTTTAAG
1 GTTTAAG
50059116 GTTTAAG
1 GTTTAAG
* *
50059123 GGTTACG
1 GTTTAAG
*
50059130 GTTTATG
1 GTTTAAG
50059137 GTTTAAG
1 GTTTAAG
50059144 GTTTATA-
1 GTTTA-AG
*
50059151 GATTAATG
1 GTTTAA-G
50059159 G-TTAAG
1 GTTTAAG
50059165 GTTTAAG
1 GTTTAAG
*
50059172 GTTTAGG
1 GTTTAAG
*
50059179 GGTTAAG
1 GTTTAAG
*
50059186 AG-TTGAG
1 -GTTTAAG
*
50059193 GGTTAAG
1 GTTTAAG
*
50059200 AG-TTGAG
1 -GTTTAAG
* *
50059207 GGTTATG
1 GTTTAAG
*
50059214 GTTTATG
1 GTTTAAG
*
50059221 GTTTATG
1 GTTTAAG
*
50059228 GTTTAAT
1 GTTTAAG
*
50059235 GTTTAGG
1 GTTTAAG
* *
50059242 GGTTAGGG
1 GTTTA-AG
50059250 GTTTAAG
1 GTTTAAG
50059257 GTTTA
1 GTTTA
50059262 TGTTTTATGA
Statistics
Matches: 115, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
6 5 0.04
7 100 0.87
8 10 0.09
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.42
Consensus pattern (7 bp):
GTTTAAG
Found at i:50059269 original size:43 final size:43
Alignment explanation
Indices: 50059213--50059304 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
50059203 TGAGGGTTAT
* * * *
50059213 GGTTTATGGTTTATGGTTTAATGTTTAGGGGTTAGGGGTTTAA-
1 GGTTTATGGTTTATGATTCAAGGTTTAGGGGATAGGGG-TTAAG
*
50059256 GGTTTATGTTTTATGATTCAAGGTTTAGGGGATAGGGGTTAAG
1 GGTTTATGGTTTATGATTCAAGGTTTAGGGGATAGGGGTTAAG
50059299 GGTTTA
1 GGTTTA
50059305 GGATTTAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (43 bp):
GGTTTATGGTTTATGATTCAAGGTTTAGGGGATAGGGGTTAAG
Found at i:50059284 original size:36 final size:36
Alignment explanation
Indices: 50059205--50059286 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
50059195 TTAAGAGTTG
* * *
50059205 AGGGTTA-TGGTTTATGGTTTATGGTTTAATGTTTA
1 AGGGTTAGGGGTTTAAGGTTTATGGTTTAATGTTCA
* *
50059240 GGGGTTAGGGGTTTAAGGTTTAT-GTTTTATGATTCA
1 AGGGTTAGGGGTTTAAGGTTTATGGTTTAATG-TTCA
*
50059276 AGGTTTAGGGG
1 AGGGTTAGGGG
50059287 ATAGGGGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 13 0.34
36 25 0.66
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (36 bp):
AGGGTTAGGGGTTTAAGGTTTATGGTTTAATGTTCA
Found at i:50062447 original size:57 final size:57
Alignment explanation
Indices: 50062367--50062483 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
50062357 TATGCTCTAA
50062367 TTTATGTTTTATTTTTCATTATTATGATAGTGCATGGCTAATCCTTCTATATGCTTG
1 TTTATGTTTTATTTTTCATTATTATGATAGTGCATGGCTAATCCTTCTATATGCTTG
50062424 TTTATGTTTTATTTTTCATTATTATGATAGTGCATGGCTAATCCTTCTATATGCTTG
1 TTTATGTTTTATTTTTCATTATTATGATAGTGCATGGCTAATCCTTCTATATGCTTG
50062481 TTT
1 TTT
50062484 GATATTGCAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.54
Consensus pattern (57 bp):
TTTATGTTTTATTTTTCATTATTATGATAGTGCATGGCTAATCCTTCTATATGCTTG
Found at i:50063877 original size:73 final size:75
Alignment explanation
Indices: 50063791--50063935 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
50063781 CATAATATAA
* * *
50063791 TATTTGATTAAAATAAT-TTTTTTAAAGGTTATGTTTTTAGTGGCG-TTTTTGCGAGAAGCGCCA
1 TATTTGATTAAAATAATCTTTTTTAAAGGTTATATTTTTAGCGGCGTTTTTTGCGACAAGCGCCA
50063854 CTAAAGATAT
66 CTAAAGATAT
*
50063864 TATTTGATTAAAATATTCTTTTTTAAAGGTTATATTTTTAGCGGCGTTTTTTTGCGACAAGCGCC
1 TATTTGATTAAAATAATCTTTTTTAAAGGTTATATTTTTAGCGGCG-TTTTTTGCGACAAGCGCC
*
50063929 GCTAAAG
65 ACTAAAG
50063936 GTTTGTTCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
73 16 0.25
74 26 0.41
76 22 0.34
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (75 bp):
TATTTGATTAAAATAATCTTTTTTAAAGGTTATATTTTTAGCGGCGTTTTTTGCGACAAGCGCCA
CTAAAGATAT
Found at i:50063950 original size:44 final size:43
Alignment explanation
Indices: 50063900--50064088 Score: 186
Period size: 43 Copynumber: 4.4 Consensus size: 43
50063890 AGGTTATATT
* * *
50063900 TTTAGCGGCGTTTTTTTGCGACAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCG-TTTTTTGC-AAAAGCGCCGCTAAAGGTCGTGGTC
* * * *
50063944 TTTAGCGGCG-TTTGTGATAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTTTTG-CAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
50063987 TTTAGCAGCG-TTTGTGCCAAAAGCGCCGCTAAGGGTCGTGGTC
1 TTTAGCGGCGTTTTTTG-CAAAAGCGCCGCTAAAGGTCGTGGTC
* * * *
50064030 TATAGCGGCGTTTGTCGCAAAAGTGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTTTTGCAAAAGCGCCGCTAAAGGTCGTGGTC
*
50064073 TTTATCGGCGTTTTTT
1 TTTAGCGGCGTTTTTT
50064089 TTCTAAAAAT
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
42 22 0.18
43 85 0.71
44 13 0.11
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTTGCAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:50064001 original size:43 final size:42
Alignment explanation
Indices: 50063922--50064085 Score: 204
Period size: 43 Copynumber: 3.9 Consensus size: 42
50063912 TTTTTGCGAC
* * *
50063922 AAGCGCCGCTAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTG-CAA
* * *
50063964 AAGCGCCGCTAAAGGTCATGATCTTTAGCAGCGTTTGTGCCAA
1 AAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTG-CAA
* *
50064007 AAGCGCCGCTAAGGGTCGTGGTCTATAGCGGCGTTTGTCGCAA
1 AAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGT-GCAA
* *
50064050 AAGTGCCGCTAAAGGTCGTGGTCTTTATCGGCGTTT
1 AAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTT
50064086 TTTTTCTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
42 16 0.15
43 89 0.84
44 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCAA
Found at i:50064196 original size:22 final size:22
Alignment explanation
Indices: 50064168--50064211 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50064158 TAGCGGCGCT
*
50064168 AAAAAGCGCTGCTAAAGGCCTA
1 AAAAAGCGCTGCTAAAAGCCTA
50064190 AAAAAGCGCTGCTAAAAGCCTA
1 AAAAAGCGCTGCTAAAAGCCTA
50064212 TTTTGCTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (22 bp):
AAAAAGCGCTGCTAAAAGCCTA
Found at i:50064942 original size:52 final size:52
Alignment explanation
Indices: 50064832--50064934 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
50064822 TTTAGGAATT
* ** *
50064832 TGGTTAATGTTGCTGCAAGTTCTTTTTTGCTGTAAGTTCTAGTTAATGTTGC
1 TGGTTAATGTTACTGCAAGTTCTTTTTTGCTCCAAGTTCTAGCTAATGTTGC
* **
50064884 TGGTTAATGTTATTGCAAGTTCTTTTTTGCTCCATTTTCTA-CTAAGTGTTG
1 TGGTTAATGTTACTGCAAGTTCTTTTTTGCTCCAAGTTCTAGCTAA-TGTTG
50064935 TATGTTAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 3 0.07
52 40 0.93
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (52 bp):
TGGTTAATGTTACTGCAAGTTCTTTTTTGCTCCAAGTTCTAGCTAATGTTGC
Found at i:50066038 original size:21 final size:18
Alignment explanation
Indices: 50066014--50066076 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
50066004 ATGTTTTTAA
50066014 AACTTACAAAATATATATCAT
1 AACTTACAAAAT-T-TA-CAT
*
50066035 AACTTACATAATTTACAT
1 AACTTACAAAATTTACAT
* *
50066053 AACTTACATAACTTACAT
1 AACTTACAAAATTTACAT
50066071 AACTTA
1 AACTTA
50066077 ATAACTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
18 26 0.65
19 2 0.05
20 1 0.03
21 11 0.28
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACAAAATTTACAT
Found at i:50066111 original size:56 final size:56
Alignment explanation
Indices: 50066041--50066229 Score: 254
Period size: 56 Copynumber: 3.3 Consensus size: 56
50066031 TCATAACTTA
* * *
50066041 CATAATTTACATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTTACATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAT
*
50066097 CATAACTTAAATAACTCACATAACTTAC-TCAACTTAATAACTTATATACATCATATCATAT
1 CATAACTTACATAACTCACATAACTTACAT-AACTTAATAAC-T-TAT--AT-ATATCATAT
* * *
50066158 CATAATTTACATAACTCACATAACTTACCTAACTTAATAACTTATGTATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAT
50066214 CATAACTTACATAACT
1 CATAACTTACATAACT
50066230 TGCATAATAC
Statistics
Matches: 118, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
55 1 0.01
56 60 0.51
57 2 0.02
58 3 0.03
59 3 0.03
60 3 0.03
61 45 0.38
62 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.36
Consensus pattern (56 bp):
CATAACTTACATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAT
Found at i:50066180 original size:61 final size:60
Alignment explanation
Indices: 50066024--50066217 Score: 256
Period size: 61 Copynumber: 3.3 Consensus size: 60
50066014 AACTTACAAA
* * *
50066024 ATATATATCATAACTTACATAATTTACATAACTTACATAACTTACAT-AACTTAATAACTT
1 ATATATATCATATCATACATAATTTACATAACTCACATAACTTAC-TCAACTTAATAACTT
* *
50066084 ATATATATCATA-C---CATAACTTAAATAACTCACATAACTTACTCAACTTAATAACTT
1 ATATATATCATATCATACATAATTTACATAACTCACATAACTTACTCAACTTAATAACTT
*
50066140 ATATACATCATATCATATCATAATTTACATAACTCACATAACTTAC-CTAACTTAATAACTT
1 ATATATATCATATCATA-CATAATTTACATAACTCACATAACTTACTC-AACTTAATAACTT
*
50066201 ATGTATATCATATCATA
1 ATATATATCATATCATA
50066218 ACTTACATAA
Statistics
Matches: 119, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
55 1 0.01
56 49 0.41
57 1 0.01
59 1 0.01
60 13 0.11
61 54 0.45
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.37
Consensus pattern (60 bp):
ATATATATCATATCATACATAATTTACATAACTCACATAACTTACTCAACTTAATAACTT
Found at i:50066200 original size:8 final size:9
Alignment explanation
Indices: 50066032--50066274 Score: 153
Period size: 9 Copynumber: 27.0 Consensus size: 9
50066022 AAATATATAT
50066032 CATAACTTA
1 CATAACTTA
*
50066041 CATAATTTA
1 CATAACTTA
50066050 CATAACTTA
1 CATAACTTA
50066059 CATAACTTA
1 CATAACTTA
50066068 CATAACTTA
1 CATAACTTA
50066077 -ATAACTTA
1 CATAACTTA
* *
50066085 TATATATCATA
1 CATA-A-CTTA
50066096 CCATAACTTA
1 -CATAACTTA
* *
50066106 AATAACTCA
1 CATAACTTA
50066115 CATAACTTA
1 CATAACTTA
50066124 C-TCAACTTA
1 CAT-AACTTA
50066133 -ATAACTTA
1 CATAACTTA
* *
50066141 TAT-ACAT-
1 CATAACTTA
* *
50066148 CATATCATA
1 CATAACTTA
*
50066157 TCATAATTTA
1 -CATAACTTA
*
50066167 CATAACTCA
1 CATAACTTA
50066176 CATAACTTA
1 CATAACTTA
*
50066185 CCTAACTTA
1 CATAACTTA
50066194 -ATAACTTA
1 CATAACTTA
* * *
50066202 TGTATATCATA
1 --CATAACTTA
50066213 TCATAACTTA
1 -CATAACTTA
*
50066223 CATAACTTG
1 CATAACTTA
50066232 CATAA--TA
1 CATAACTTA
*
50066239 CATAA-ATA
1 CATAACTTA
* * *
50066247 TATATCATTT
1 CATAAC-TTA
*
50066257 CATAAGTTA
1 CATAACTTA
50066266 CATAACTTA
1 CATAACTTA
50066275 ATTATACTTA
Statistics
Matches: 181, Mismatches: 37, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
7 8 0.04
8 33 0.18
9 107 0.59
10 20 0.11
11 10 0.06
12 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:50072172 original size:43 final size:43
Alignment explanation
Indices: 50072050--50072173 Score: 176
Period size: 43 Copynumber: 2.9 Consensus size: 43
50072040 AGATCATTCT
* * * * * *
50072050 TATAAAAGTGTCGCTAAATAACATGACATTTAGCGGCGTTTCC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGTTACC
* *
50072093 TATAAAAGCGCCACTAAAGAACATGACCTTTAGCGGTGTTAGC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGTTACC
50072136 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTG
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTG
50072174 CCTATCTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (43 bp):
TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGTTACC
Found at i:50072203 original size:42 final size:43
Alignment explanation
Indices: 50072050--50072196 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
50072040 AGATCATTCT
* * * * * * **
50072050 TATAAAAGTGTCGCTAAATAACATGACATTTAGCGGCGTTTCC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGCTAGC
* *
50072093 TATAAAAGCGCCACTAAAGAACATGACCTTTAGCGGTGTTAGC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGCTAGC
*
50072136 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGCCTATC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTG-CTAGC
*
50072180 T-TTAAA-CGCCGCTAAAG
1 TATAAAAGCGCCGCTAAAG
50072197 GTCATGATCT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 11 0.12
43 76 0.84
44 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (43 bp):
TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGCTAGC
Found at i:50072539 original size:20 final size:19
Alignment explanation
Indices: 50072514--50072565 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
50072504 ATGCAATTTG
*
50072514 TAATAAAATACATAAATAGA
1 TAATAAAATA-ATAAATAAA
*
50072534 TAATAATAATAATAGATAAA
1 TAATAA-AATAATAAATAAA
50072554 TAAATAAAATAA
1 T-AATAAAATAA
50072566 ATAGATGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
TAATAAAATAATAAATAAA
Found at i:50072568 original size:24 final size:24
Alignment explanation
Indices: 50072514--50072565 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
50072504 ATGCAATTTG
*
50072514 TAATAA-AATACATAAATAGATAA
1 TAATAATAATACATAAATAAATAA
*
50072537 TAATAATAATAGATAAATAAATAA
1 TAATAATAATACATAAATAAATAA
50072561 -AATAA
1 TAATAA
50072566 ATAGATGCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (24 bp):
TAATAATAATACATAAATAAATAA
Found at i:50086874 original size:17 final size:17
Alignment explanation
Indices: 50086837--50086884 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
50086827 GAATTTAGAA
*
50086837 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
50086853 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
50086870 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
50086885 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:50088163 original size:46 final size:46
Alignment explanation
Indices: 50088093--50088277 Score: 307
Period size: 46 Copynumber: 4.0 Consensus size: 46
50088083 CATGGAAAAG
*
50088093 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
50088139 TGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
50088185 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAAT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
50088231 TGTAAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
50088277 T
1 T
50088278 ATAGCAATGT
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:50091084 original size:15 final size:16
Alignment explanation
Indices: 50091064--50091093 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50091054 TTTAATTGAA
50091064 AGAGAAG-AGAAAAAG
1 AGAGAAGAAGAAAAAG
50091079 AGAGAAGAAGAAAAA
1 AGAGAAGAAGAAAAA
50091094 TAAAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGAGAAGAAGAAAAAG
Found at i:50092799 original size:21 final size:21
Alignment explanation
Indices: 50092773--50092814 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
50092763 TCATAAAATC
50092773 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
50092794 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
50092815 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:50093770 original size:13 final size:13
Alignment explanation
Indices: 50093752--50093776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50093742 ACCAACGATA
50093752 AAATTTTCACACG
1 AAATTTTCACACG
50093765 AAATTTTCACAC
1 AAATTTTCACAC
50093777 ACATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:50100335 original size:21 final size:21
Alignment explanation
Indices: 50100309--50100350 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
50100299 TCATAAAATC
50100309 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
50100330 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
50100351 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:50109107 original size:15 final size:17
Alignment explanation
Indices: 50109068--50109109 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
50109058 AGTACCCTTA
*
50109068 AATACATAATCAATTTC
1 AATAAATAATCAATTTC
50109085 AGATAAATAAT-AATTT-
1 A-ATAAATAATCAATTTC
50109101 AATAAATAA
1 AATAAATAA
50109110 ATTAGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 1 0.04
17 6 0.26
18 8 0.35
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAATAATCAATTTC
Found at i:50116000 original size:22 final size:21
Alignment explanation
Indices: 50115975--50116015 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
50115965 AATATATAAA
* *
50115975 TATAATATTAATATATAAATTG
1 TATAAAATTAAAATA-AAATTG
50115997 TATAAAATTAAAATAAAAT
1 TATAAAATTAAAATAAAAT
50116016 AAAGTAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TATAAAATTAAAATAAAATTG
Found at i:50118750 original size:19 final size:19
Alignment explanation
Indices: 50118714--50118751 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50118704 AAAGTTAATA
* *
50118714 ACAAATTTGATTATGGTGG
1 ACAAATTTGACTACGGTGG
50118733 ACAAATTTGACTACGGTGG
1 ACAAATTTGACTACGGTGG
50118752 GTGGCAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ACAAATTTGACTACGGTGG
Found at i:50123378 original size:19 final size:19
Alignment explanation
Indices: 50123356--50123423 Score: 100
Period size: 19 Copynumber: 3.6 Consensus size: 19
50123346 GCACACACGA
50123356 TTCCACTAATCTCACACAG
1 TTCCACTAATCTCACACAG
*
50123375 TTCCACTAATCTCACATAG
1 TTCCACTAATCTCACACAG
** *
50123394 TTCCACTAATCAGACACAA
1 TTCCACTAATCTCACACAG
50123413 TTCCACTAATC
1 TTCCACTAATC
50123424 AAACATCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.34, C:0.34, G:0.04, T:0.28
Consensus pattern (19 bp):
TTCCACTAATCTCACACAG
Found at i:50123424 original size:19 final size:19
Alignment explanation
Indices: 50123347--50123424 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
50123337 ACTTTACATG
*
50123347 CACACACGATTCCACTAAT
1 CACACACAATTCCACTAAT
* *
50123366 CTCACACAGTTCCACTAAT
1 CACACACAATTCCACTAAT
* * *
50123385 CTCACATAGTTCCACTAAT
1 CACACACAATTCCACTAAT
*
50123404 CAGACACAATTCCACTAAT
1 CACACACAATTCCACTAAT
50123423 CA
1 CA
50123425 AACATCATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.36, C:0.35, G:0.05, T:0.24
Consensus pattern (19 bp):
CACACACAATTCCACTAAT
Found at i:50124806 original size:38 final size:38
Alignment explanation
Indices: 50124692--50124807 Score: 153
Period size: 37 Copynumber: 3.1 Consensus size: 38
50124682 AAATTTTAAT
* * *
50124692 ACACCGAAACTAAGCTTGCTAGGCACAAAGCCTGAATA
1 ACACCGACACCAAGCCTGCTAGGCACAAAGCCTGAATA
* * *
50124730 ACACTGGCACCAAGCCTGCTAGTCA-AAAGCCTGAATA
1 ACACCGACACCAAGCCTGCTAGGCACAAAGCCTGAATA
* *
50124767 ACGCCGACACCAAGCCTGCTAGGCACAAAGCTTGAATA
1 ACACCGACACCAAGCCTGCTAGGCACAAAGCCTGAATA
50124805 ACA
1 ACA
50124808 ATATAATTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 33 0.51
38 32 0.49
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (38 bp):
ACACCGACACCAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:50126431 original size:18 final size:19
Alignment explanation
Indices: 50126408--50126476 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 19
50126398 TTCATGGTGG
50126408 AAGAAAGAAGA-AAATAAA
1 AAGAAAGAAGAGAAATAAA
*
50126426 AAGAAAGAAGAGAGATAAA
1 AAGAAAGAAGAGAAATAAA
**
50126445 AA-AAAGGAAG-G-AAGGAA
1 AAGAAA-GAAGAGAAATAAA
*
50126462 AAGAAAGAAAAGAAA
1 AAGAAAGAAGAGAAA
50126477 AGAAATGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.20
18 19 0.46
19 14 0.34
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (19 bp):
AAGAAAGAAGAGAAATAAA
Found at i:50127711 original size:17 final size:17
Alignment explanation
Indices: 50127673--50127712 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
50127663 AATTTGGAAT
* *
50127673 ATTTATAAATATTTTAA
1 ATTTTTAAAAATTTTAA
*
50127690 ATTTTTAAAAATTTTTA
1 ATTTTTAAAAATTTTAA
50127707 ATTTTT
1 ATTTTT
50127713 TTAATTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTAAAAATTTTAA
Found at i:50129554 original size:19 final size:19
Alignment explanation
Indices: 50129527--50129569 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
50129517 CTTCTATCTT
*
50129527 ATATTTAAAAGAT-TAAAAA
1 ATATATAAAA-ATATAAAAA
50129546 ATATATAAAAATATAAAAA
1 ATATATAAAAATATAAAAA
*
50129565 TTATA
1 ATATA
50129570 GAAATAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
ATATATAAAAATATAAAAA
Found at i:50129569 original size:17 final size:18
Alignment explanation
Indices: 50129542--50129575 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50129532 TAAAAGATTA
50129542 AAAAATATATAAAAATAT
1 AAAAATATATAAAAATAT
*
50129560 AAAAAT-TATAGAAATA
1 AAAAATATATAAAAATA
50129576 GTTGAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATATAAAAATAT
Found at i:50134640 original size:21 final size:19
Alignment explanation
Indices: 50134597--50134643 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
50134587 TGTAGGGAAC
*
50134597 AAATTTTCAATCGATTTAA
1 AAATTTTCAATCGATTAAA
*
50134616 AAATGTTTCAATTGAGTTAAA
1 AAAT-TTTCAATCGA-TTAAA
50134637 AAATTTT
1 AAATTTT
50134644 AAACCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 8 0.33
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (19 bp):
AAATTTTCAATCGATTAAA
Found at i:50144037 original size:21 final size:19
Alignment explanation
Indices: 50144013--50144058 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
50144003 AAAAAAATTA
*
50144013 ATTTTCCTATTATTATTATTT
1 ATTTTACTATT-TTATT-TTT
50144034 ATTTTTACTATTTTATTTTT
1 A-TTTTACTATTTTATTTTT
50144054 ATTTT
1 ATTTT
50144059 TATTTTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 6 0.26
22 9 0.39
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTACTATTTTATTTTT
Found at i:50144059 original size:21 final size:22
Alignment explanation
Indices: 50144014--50144060 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
50144004 AAAAAATTAA
*
50144014 TTTTCCTATTATTATTATTTAT
1 TTTTACTATTATTATTATTTAT
50144036 TTTTACTATT-TTATT-TTTAT
1 TTTTACTATTATTATTATTTAT
50144056 TTTTA
1 TTTTA
50144061 TTTTTGCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTACTATTATTATTATTTAT
Found at i:50144063 original size:6 final size:6
Alignment explanation
Indices: 50144020--50144065 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
50144010 TTAATTTTCC
*
50144020 TATTAT TATTATT TATTTT TACTATTT TATTTT TATTTT TATTTT T
1 TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT T
50144066 GCAGGAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
6 24 0.67
7 7 0.19
8 5 0.14
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:50152104 original size:25 final size:25
Alignment explanation
Indices: 50152089--50152155 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
50152079 TCTTTCGAGT
50152089 CATATAACAGGAAGCTCATGTGAGC
1 CATATAACAGGAAGCTCATGTGAGC
* *
50152114 CATGTAACAGGAAGCTCCA-GAGAGC
1 CATATAACAGGAAGCT-CATGTGAGC
*
50152139 CAT-TAATCGGGAAGCTC
1 CATATAA-CAGGAAGCTC
50152156 CTGAAGGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.11
25 31 0.84
26 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
CATATAACAGGAAGCTCATGTGAGC
Found at i:50152171 original size:27 final size:25
Alignment explanation
Indices: 50152110--50152310 Score: 99
Period size: 25 Copynumber: 7.8 Consensus size: 25
50152100 AAGCTCATGT
*
50152110 GAGCCATGTAA-CAGGAAGCTCCAGA
1 GAGCCAT-TAATCGGGAAGCTCCAGA
*
50152135 GAGCCATTAATCGGGAAGCTCCTGAA
1 GAGCCATTAATCGGGAAGCTCCAG-A
* * *
50152161 GGAGCCTTTAATCGGGAATG-TTCAAA
1 -GAGCCATTAATCGGGAA-GCTCCAGA
* * * * *
50152187 CGAACCAAT-ATCGGGAAGGTTCAAGT
1 -GAGCCATTAATCGGGAA-GCTCCAGA
* * *
50152213 GAGCCAAT-ATCAGGAAGCTCCGGA
1 GAGCCATTAATCGGGAAGCTCCAGA
50152237 GAGCCAATTAATCGGGAAGCT-CATGAAA
1 GAGCC-ATTAATCGGGAAGCTCCA-G--A
* * * *
50152265 AAGCCTTTAATTGGGAAGCTCCAAA
1 GAGCCATTAATCGGGAAGCTCCAGA
*
50152290 GAGCCA-TATATCGGGACGCTC
1 GAGCCATTA-ATCGGGAAGCTC
50152311 ATTAGAGTTG
Statistics
Matches: 132, Mismatches: 32, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
24 14 0.11
25 59 0.45
26 20 0.15
27 31 0.23
28 8 0.06
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCCAGA
Found at i:50152301 original size:103 final size:102
Alignment explanation
Indices: 50152121--50152305 Score: 266
Period size: 103 Copynumber: 1.8 Consensus size: 102
50152111 AGCCATGTAA
* ** *
50152121 CAGGAAGCTCCAGAGAGCCATTAATCGGGAAGCTCCTGAAGGAGCCTTTAATCGGGAATGTTCAA
1 CAGGAAGCTCCAGAGAGCCATTAATCGGGAAGCTCATGAAAAAGCCTTTAATCGGGAATGTCCAA
50152186 ACGAACCAATATCGGGAAGGTTCAAGTGAGCCAATAT
66 ACGAACCAATATCGGGAAGGTTCAAGTGAGCCAATAT
* *
50152223 CAGGAAGCTCCGGAGAGCCAATTAATCGGGAAGCTCATGAAAAAGCCTTTAATTGGGAA-GCTCC
1 CAGGAAGCTCCAGAGAGCC-ATTAATCGGGAAGCTCATGAAAAAGCCTTTAATCGGGAATG-TCC
*
50152287 AAA-GAGCCATATATCGGGA
64 AAACGAACCA-ATATCGGGA
50152306 CGCTCATTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
102 24 0.33
103 49 0.67
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (102 bp):
CAGGAAGCTCCAGAGAGCCATTAATCGGGAAGCTCATGAAAAAGCCTTTAATCGGGAATGTCCAA
ACGAACCAATATCGGGAAGGTTCAAGTGAGCCAATAT
Found at i:50163612 original size:25 final size:24
Alignment explanation
Indices: 50163584--50163641 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
50163574 ACATAAATAG
*
50163584 GAAGCTCTTTCGAGCCATATAACGA
1 GAAGCTCTGT-GAGCCATATAACGA
* *
50163609 GAAGCTCATGTGAGCCATGTAACGG
1 GAAGCTC-TGTGAGCCATATAACGA
*
50163634 GAAACTCT
1 GAAGCTCT
50163642 AGAGAGCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 25 0.89
26 2 0.07
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (24 bp):
GAAGCTCTGTGAGCCATATAACGA
Done.