Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold84
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: 4163231
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 246351 characters in sequence are not A, C, G, or T
File 5 of 11
Found at i:1959449 original size:45 final size:46
Alignment explanation
Indices: 1959385--1959771 Score: 517
Period size: 45 Copynumber: 8.6 Consensus size: 46
1959375 ATCTGCTTTA
* *
1959385 CTGCCAGTATAGGAAGACAAGATCTGCTATCTTCAG-TCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGATCTACTTCG
*
1959430 CTGCCAATACAGGAAGACAAGA-CTTGCTATCTT-TGATCTACTTCG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCAGATCTACTTCG
* * * *
1959475 CTGCCAATACAGAAAGAAAAGATCTGCTATCTTC-GATCCACTTTG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGATCTACTTCG
*
1959520 CTGCCAATATAGGAAGACAAGATCTGCTATCTTC-GATCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGATCTACTTCG
* * *
1959565 GTGCCAATACAGGAAGACAAGATCTACTATCTTTAG-TCTACTTCG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGATCTACTTCG
*
1959610 CTGCCAATATAGGAAGACAAGA-CTTGCTATCTTC-GATCTACTTCG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCAGATCTACTTCG
* *
1959655 CTGCCAATACAGGAAGACAAGATCTGTTATCTTCAG-TCTACTTCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGATCTACTTCG
*
1959700 CTGCCAATACAGGAAGACAAGA-CTTGCTATCTTCA-ATCTACTTTG
1 CTGCCAATACAGGAAGACAAGATC-TGCTATCTTCAGATCTACTTCG
*
1959745 CTGCCAAATACAGGAAGATAAGATCTG
1 CTGCC-AATACAGGAAGACAAGATCTG
1959772 TAATGTATAG
Statistics
Matches: 302, Mismatches: 27, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
44 5 0.02
45 274 0.91
46 22 0.07
47 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (46 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGATCTACTTCG
Found at i:1960148 original size:100 final size:100
Alignment explanation
Indices: 1959791--1960158 Score: 468
Period size: 100 Copynumber: 3.7 Consensus size: 100
1959781 GCTTTAAACT
* * * ** * *
1959791 TTTTAAATTGCGATGTCGGGGAAGCAAGATCCACTGTTGTAGCTACAATCTG-TCCCATTACACC
1 TTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCT-CCACTACATC
* * * *
1959855 ACCAGAGAAGTAAGATTCGCCGTTGCGGCCTCAATC
65 GCCATAGAAGTAAGATTCACCGTTGCGGCTTCAATC
* * ** * *
1959891 TTTTAAATTGCAATATCGGGGAAGTAAGATTCGTCGTTGTAACTTTAATCTGCTCCATTACATCG
1 TTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTACATCG
*
1959956 CCATGGAAGTAAGATTCACCGTTGCGGCTTCAATC
66 CCATAGAAGTAAGATTCACCGTTGCGGCTTCAATC
* * **
1959991 TTTTAAATTACAATGTCGGGGAAGCAAGATTTACCGTTGTAGCTTTAATCTGCTCCACTGTATCG
1 TTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTACATCG
* *
1960056 CCATAGAAGTAAGATTCACTGTCGCGGCTTCAATC
66 CCATAGAAGTAAGATTCACCGTTGCGGCTTCAATC
* * * *
1960091 TTTTAAATTGCAATGTCGGGGAAGGAAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCATTG
1 TTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTACATCG
1960156 CCA
66 CCA
1960159 GGGAAGGTAA
Statistics
Matches: 232, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 231 1.00
101 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (100 bp):
TTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTACATCG
CCATAGAAGTAAGATTCACCGTTGCGGCTTCAATC
Found at i:1960165 original size:50 final size:50
Alignment explanation
Indices: 1959909--1960164 Score: 170
Period size: 50 Copynumber: 5.1 Consensus size: 50
1959899 TGCAATATCG
** * * * *
1959909 GGGAAGTAAGATTCGTCGTTGTAACTTTAATCTGCTCCATTACATCGCCA
1 GGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCATTGCCA
* ** * * ** * * * *
1959959 TGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTACAATGTCG
1 GGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCATTGCCA
* * * * * *
1960009 GGGAAGCAAGATTTACCGTTGTAGCTTTAATCTGCTCCACTGTATCGCCA
1 GGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCATTGCCA
** * * ** * * ** * * *
1960059 TAGAAGTAAGATTCACTGTCGCGGCTTCAATCTTTTAAATTGCAATGTCG
1 GGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCATTGCCA
* *
1960109 GGGAAGGAAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCATTGCCA
1 GGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCATTGCCA
1960159 GGGAAG
1 GGGAAG
1960165 GTAACTTCAT
Statistics
Matches: 140, Mismatches: 66, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
50 140 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCATTGCCA
Found at i:1961904 original size:28 final size:26
Alignment explanation
Indices: 1961864--1961923 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
1961854 CCAGTAGAGG
*
1961864 TTTTTTATTTTTTTGTCTTTTTTGTT
1 TTTTTTATTTTTTTGTCTTTTTGGTT
* *
1961890 CTTTTTTTTTGTTTTTGTGTTTTTGGTT
1 -TTTTTTATT-TTTTTGTCTTTTTGGTT
1961918 TTTTTT
1 TTTTTT
1961924 GCCTCCACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.02, C:0.03, G:0.12, T:0.83
Consensus pattern (26 bp):
TTTTTTATTTTTTTGTCTTTTTGGTT
Found at i:1967305 original size:25 final size:26
Alignment explanation
Indices: 1967262--1967312 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
1967252 CCTAAATTTG
*
1967262 ATATTTTTTTTCTTTATTTGGTACTTA
1 ATATTTTTTTTC-TGATTTGGTACTTA
1967289 ATATTTTTTTTC-GATTTGGTACTT
1 ATATTTTTTTTCTGATTTGGTACTT
1967313 GTTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
27 12 0.52
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.65
Consensus pattern (26 bp):
ATATTTTTTTTCTGATTTGGTACTTA
Found at i:1972086 original size:16 final size:17
Alignment explanation
Indices: 1972052--1972086 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1972042 GACGATATGC
*
1972052 AAAAGGTGCTAGTCAAA
1 AAAAGGTGCAAGTCAAA
1972069 AAAAGGTGCAAGTCAAA
1 AAAAGGTGCAAGTCAAA
1972086 A
1 A
1972087 TGGTGGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.14
Consensus pattern (17 bp):
AAAAGGTGCAAGTCAAA
Found at i:1972127 original size:28 final size:28
Alignment explanation
Indices: 1972095--1972190 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
1972085 AATGGTGGAC
*
1972095 AGTGCAAGCCAAAGTGGCAGATAGTCCA
1 AGTGCAAGCCAAAGTGGCAGACAGTCCA
* * *
1972123 AGTGCAAGCCAAAATGGCGGACAGTCTA
1 AGTGCAAGCCAAAGTGGCAGACAGTCCA
* * **
1972151 AGTACAAG-CTAAGTGGC-GAACAACCCA
1 AGTGCAAGCCAAAGTGGCAG-ACAGTCCA
*
1972178 AGTGCAACCCAAA
1 AGTGCAAGCCAAA
1972191 ATAGCGGACA
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
26 1 0.02
27 18 0.34
28 34 0.64
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (28 bp):
AGTGCAAGCCAAAGTGGCAGACAGTCCA
Found at i:1974647 original size:27 final size:28
Alignment explanation
Indices: 1974540--1974662 Score: 126
Period size: 27 Copynumber: 4.5 Consensus size: 28
1974530 TACAAGACAA
* * * *
1974540 AAGTGCAAGCCAAAATAGCGGACAGTCC
1 AAGTACAAGCCAAAGTGGAGGACAGTCC
* * * *
1974568 AAGTGCAAGCC-AAGTGGTGAACAATCC
1 AAGTACAAGCCAAAGTGGAGGACAGTCC
*
1974595 AAGTACAAGCC-AAGTGGCGGACAGTCC
1 AAGTACAAGCCAAAGTGGAGGACAGTCC
*
1974622 AAGTACAAGCCAAAG-GGAGGATAGTCC
1 AAGTACAAGCCAAAGTGGAGGACAGTCC
*
1974649 AAGTGCAAGCCAAA
1 AAGTACAAGCCAAA
1974663 ATGGTGAACA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 68 0.83
28 14 0.17
ACGTcount: A:0.39, C:0.23, G:0.27, T:0.11
Consensus pattern (28 bp):
AAGTACAAGCCAAAGTGGAGGACAGTCC
Found at i:1974650 original size:54 final size:54
Alignment explanation
Indices: 1974557--1974661 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
1974547 AGCCAAAATA
* *
1974557 GCGGACAGTCCAAGTGCAAGCCAAGTGGTGAACAATCCAAGTACAAGCCAAGTG
1 GCGGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCCAAGTACAAGCCAAGTG
* * * *
1974611 GCGGACAGTCCAAGTACAAGCCAAAG-GGAGGATAGTCCAAGTGCAAGCCAA
1 GCGGACAGTCCAAGTACAAGCC-AAGTGGAGAACAATCCAAGTACAAGCCAA
1974662 AATGGTGAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 41 0.93
55 3 0.07
ACGTcount: A:0.36, C:0.24, G:0.29, T:0.11
Consensus pattern (54 bp):
GCGGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCCAAGTACAAGCCAAGTG
Found at i:1978137 original size:35 final size:35
Alignment explanation
Indices: 1978098--1978169 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
1978088 AATTTAGCTC
1978098 TCTATTTTCAATTCTACCCCTTAATTTTGAAATTT
1 TCTATTTTCAATTCTACCCCTTAATTTTGAAATTT
*
1978133 TCTATTTTCAATTCTACCCTTTAATTTTGAAATTT
1 TCTATTTTCAATTCTACCCCTTAATTTTGAAATTT
1978168 TC
1 TC
1978170 ACAATTCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (35 bp):
TCTATTTTCAATTCTACCCCTTAATTTTGAAATTT
Found at i:1981566 original size:17 final size:17
Alignment explanation
Indices: 1981526--1981567 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1981516 TGCTAAATTG
*
1981526 TTAAAATAGTATTAAAA
1 TTAAAATTGTATTAAAA
1981543 TTAAAATTGTATT-AAA
1 TTAAAATTGTATTAAAA
1981559 TTATAAATT
1 TTA-AAATT
1981568 ATAAAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
TTAAAATTGTATTAAAA
Found at i:1983811 original size:20 final size:20
Alignment explanation
Indices: 1983786--1983834 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1983776 TAAAGTATTG
*
1983786 ATACTTTGTAGAAGGTACCA
1 ATACTTTGTAAAAGGTACCA
* *
1983806 ATACTTTATAAAAGGTATCA
1 ATACTTTGTAAAAGGTACCA
1983826 ATACCTTTG
1 ATA-CTTTG
1983835 ATTTTTGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (20 bp):
ATACTTTGTAAAAGGTACCA
Found at i:1985049 original size:1 final size:1
Alignment explanation
Indices: 1985043--1985069 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1985033 ATTGTGCCCC
1985043 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1985070 CATTACATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1988925 original size:2 final size:2
Alignment explanation
Indices: 1988920--1988984 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
1988910 TGATAATATA
1988920 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * *
1988962 TG CG CG CG CG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
1988985 ATCTACGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.06, G:0.49, T:0.45
Consensus pattern (2 bp):
TG
Found at i:1989017 original size:2 final size:2
Alignment explanation
Indices: 1989010--1989078 Score: 102
Period size: 2 Copynumber: 34.5 Consensus size: 2
1989000 AACTCTCACA
1989010 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * *
1989052 TG TG TG CG CG CG CG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1989079 ATCTACGCTA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.00, C:0.06, G:0.49, T:0.45
Consensus pattern (2 bp):
TG
Found at i:1989076 original size:94 final size:94
Alignment explanation
Indices: 1988920--1989102 Score: 366
Period size: 94 Copynumber: 1.9 Consensus size: 94
1988910 TGATAATATA
1988920 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGTGTGTGTGTGTGT
1 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGTGTGTGTGTGTGT
1988985 ATCTACGCTATTATTAACTCTCACATGTG
66 ATCTACGCTATTATTAACTCTCACATGTG
1989014 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGTGTGTGTGTGTGT
1 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGTGTGTGTGTGTGT
1989079 ATCTACGCTATTATTAACTCTCAC
66 ATCTACGCTATTATTAACTCTCAC
1989103 TGAATTTGAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.08, C:0.12, G:0.37, T:0.43
Consensus pattern (94 bp):
TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGTGTGTGTGTGTGT
ATCTACGCTATTATTAACTCTCACATGTG
Found at i:1993338 original size:1 final size:1
Alignment explanation
Indices: 1993332--1993357 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1993322 CTTCCAAAGA
1993332 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
1993358 GCAAAATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1994338 original size:4 final size:4
Alignment explanation
Indices: 1994329--1994356 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1994319 ATAAGAAATC
1994329 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1994357 TTTTCTGCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:1995836 original size:3 final size:3
Alignment explanation
Indices: 1995828--1995878 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
1995818 ACAGTATTTT
1995828 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1995876 TTA
1 TTA
1995879 ATCCAAACAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2003358 original size:43 final size:43
Alignment explanation
Indices: 2003287--2003543 Score: 309
Period size: 43 Copynumber: 6.0 Consensus size: 43
2003277 ATACATTGCA
* *
2003287 TTATGGATAAACCACCAGTAATTACAAATAAACTGCTAGTAAG
1 TTATGGATAAACCACCAGTAATTGCAAATAAACTGCCAGTAAG
*
2003330 TTATGGATAAACCACCAAG-AATTGCAAATAAACTGTCAGTAAG
1 TTATGGATAAACCACC-AGTAATTGCAAATAAACTGCCAGTAAG
* ** *
2003373 TTGTGGATAAACCACCAGTAATTTTAGATAAACTGCCAGTAAG
1 TTATGGATAAACCACCAGTAATTGCAAATAAACTGCCAGTAAG
*
2003416 TTATGGATAAACCACCAGTAATTGCAAAAAAACTGCCAGTAAG
1 TTATGGATAAACCACCAGTAATTGCAAATAAACTGCCAGTAAG
* * * ** * * *
2003459 TTATGAATAAATCACTAGTAATTATAGATAAATTGCCAGTAAT
1 TTATGGATAAACCACCAGTAATTGCAAATAAACTGCCAGTAAG
* * * * *
2003502 TTGTGGATAAACCGCCAATAATTGCAGATAAACTGTCAGTAA
1 TTATGGATAAACCACCAGTAATTGCAAATAAACTGCCAGTAA
2003544 CTTCCTCCTT
Statistics
Matches: 180, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 2 0.01
43 176 0.98
44 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (43 bp):
TTATGGATAAACCACCAGTAATTGCAAATAAACTGCCAGTAAG
Found at i:2003391 original size:22 final size:22
Alignment explanation
Indices: 2003366--2003436 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
2003356 AATAAACTGT
*
2003366 CAGTAAGTTGTGGATAAACCAC
1 CAGTAAGTTATGGATAAACCAC
* * **
2003388 CAGTAA-TTTTAGATAAACTGC
1 CAGTAAGTTATGGATAAACCAC
2003409 CAGTAAGTTATGGATAAACCAC
1 CAGTAAGTTATGGATAAACCAC
2003431 CAGTAA
1 CAGTAA
2003437 TTGCAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 17 0.43
22 23 0.57
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (22 bp):
CAGTAAGTTATGGATAAACCAC
Found at i:2003439 original size:86 final size:86
Alignment explanation
Indices: 2003287--2003543 Score: 354
Period size: 86 Copynumber: 3.0 Consensus size: 86
2003277 ATACATTGCA
* * *
2003287 TTATGGATAAACCACCAGTAATTACAAATAAACTGCTAGTAAGTTATGGATAAACCACCAAG-AA
1 TTATGGATAAACCACCAGTAATTATAGATAAACTGCCAGTAAGTTATGGATAAACCACC-AGTAA
2003351 TTGCAAATAAACTGTCAGTAAG
65 TTGCAAATAAACTGTCAGTAAG
* *
2003373 TTGTGGATAAACCACCAGTAATTTTAGATAAACTGCCAGTAAGTTATGGATAAACCACCAGTAAT
1 TTATGGATAAACCACCAGTAATTATAGATAAACTGCCAGTAAGTTATGGATAAACCACCAGTAAT
* *
2003438 TGCAAAAAAACTGCCAGTAAG
66 TGCAAATAAACTGTCAGTAAG
* * * * * * * *
2003459 TTATGAATAAATCACTAGTAATTATAGATAAATTGCCAGTAATTTGTGGATAAACCGCCAATAAT
1 TTATGGATAAACCACCAGTAATTATAGATAAACTGCCAGTAAGTTATGGATAAACCACCAGTAAT
*
2003524 TGCAGATAAACTGTCAGTAA
66 TGCAAATAAACTGTCAGTAA
2003544 CTTCCTCCTT
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
85 2 0.01
86 148 0.99
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (86 bp):
TTATGGATAAACCACCAGTAATTATAGATAAACTGCCAGTAAGTTATGGATAAACCACCAGTAAT
TGCAAATAAACTGTCAGTAAG
Found at i:2003499 original size:21 final size:21
Alignment explanation
Indices: 2003286--2003543 Score: 110
Period size: 21 Copynumber: 12.0 Consensus size: 21
2003276 TATACATTGC
* **
2003286 ATTATGGATAAACCACCAGTA
1 ATTATAGATAAACTGCCAGTA
* * *
2003307 ATTACAAATAAACTGCTAGTA
1 ATTATAGATAAACTGCCAGTA
* **
2003328 AGTTATGGATAAACCACCAAG-A
1 A-TTATAGATAAACTGCC-AGTA
** * *
2003350 ATTGCAAATAAACTGTCAGTA
1 ATTATAGATAAACTGCCAGTA
* * **
2003371 AGTTGTGGATAAACCACCAGTA
1 A-TTATAGATAAACTGCCAGTA
*
2003393 ATTTTAGATAAACTGCCAGTA
1 ATTATAGATAAACTGCCAGTA
* **
2003414 AGTTATGGATAAACCACCAGTA
1 A-TTATAGATAAACTGCCAGTA
** * *
2003436 ATTGCAAAAAAACTGCCAGTA
1 ATTATAGATAAACTGCCAGTA
2003457 AGTTAT-GAATAAA-T-CACTAGTA
1 A-TTATAG-ATAAACTGC-C-AGTA
*
2003479 ATTATAGATAAATTGCCAGTA
1 ATTATAGATAAACTGCCAGTA
* * * *
2003500 ATTTGTGGATAAACCGCCAATA
1 A-TTATAGATAAACTGCCAGTA
** *
2003522 ATTGCAGATAAACTGTCAGTA
1 ATTATAGATAAACTGCCAGTA
2003543 A
1 A
2003544 CTTCCTCCTT
Statistics
Matches: 170, Mismatches: 54, Indels: 26
0.68 0.22 0.10
Matches are distributed among these distances:
20 3 0.02
21 90 0.53
22 74 0.44
23 3 0.02
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (21 bp):
ATTATAGATAAACTGCCAGTA
Found at i:2003524 original size:129 final size:129
Alignment explanation
Indices: 2003287--2003543 Score: 345
Period size: 129 Copynumber: 2.0 Consensus size: 129
2003277 ATACATTGCA
* * *
2003287 TTATGGATAAACCACCAGTAATTACAAATAAACTGCTAGTAAGTTATGGATAAACCACCAAGAAT
1 TTATGGATAAACCACCAGTAATTACAAAAAAACTGCCAGTAAGTTATGAATAAACCACCAAGAAT
* * * **
2003352 TGCAAATAAACTGTCAGTAAGTTGTGGATAAACCACCAGTAATTTTAGATAAACTGCCAGTAAG
66 TACAAATAAACTGCCAGTAAGTTGTGGATAAACCACCAATAATTGCAGATAAACTGCCAGTAAG
* * *
2003416 TTATGGATAAACCACCAGTAATTGCAAAAAAACTGCCAGTAAGTTATGAATAAATCA-CTAGTAA
1 TTATGGATAAACCACCAGTAATTACAAAAAAACTGCCAGTAAGTTATGAATAAACCACCAAG-AA
* * * * * *
2003480 TTATAGATAAATTGCCAGTAATTTGTGGATAAACCGCCAATAATTGCAGATAAACTGTCAGTAA
65 TTACAAATAAACTGCCAGTAAGTTGTGGATAAACCACCAATAATTGCAGATAAACTGCCAGTAA
2003544 CTTCCTCCTT
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 3 0.03
129 107 0.97
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (129 bp):
TTATGGATAAACCACCAGTAATTACAAAAAAACTGCCAGTAAGTTATGAATAAACCACCAAGAAT
TACAAATAAACTGCCAGTAAGTTGTGGATAAACCACCAATAATTGCAGATAAACTGCCAGTAAG
Found at i:2007696 original size:27 final size:27
Alignment explanation
Indices: 2007662--2007738 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
2007652 AATTTTACTT
*
2007662 AGGGTAAAATTGTCAAAATTTTATCGA
1 AGGGTAAAATCGTCAAAATTTTATCGA
2007689 AGGGTAAAATCGTCAAAATTTTATCGA
1 AGGGTAAAATCGTCAAAATTTTATCGA
2007716 AGGGTAAAATCGTCAAAATTTTA
1 AGGGTAAAATCGTCAAAATTTTA
2007739 CCAAAGTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (27 bp):
AGGGTAAAATCGTCAAAATTTTATCGA
Found at i:2010723 original size:23 final size:23
Alignment explanation
Indices: 2010678--2010723 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
2010668 CCCTCCTCCC
* *
2010678 TCTCTTCCATATTTTCTCTTTTT
1 TCTCATCCATATTTTCTCCTTTT
*
2010701 TCTCATCCAT-TTTTCTCCCTTT
1 TCTCATCCATATTTTCTCCTTTT
2010723 T
1 T
2010724 GCTAGCCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (23 bp):
TCTCATCCATATTTTCTCCTTTT
Found at i:2012181 original size:50 final size:49
Alignment explanation
Indices: 2012051--2012181 Score: 124
Period size: 47 Copynumber: 2.7 Consensus size: 49
2012041 TATGTGGCAA
* * * *
2012051 TTTATCTGCAAATCAGAGGTTGCTTGTCCACAAAGTATTTCAATGACAG
1 TTTATCTACAAATCAGTGGTGGCTTGTCCACAAAATATTTCAATGACAG
* * * * * *
2012100 TATATCTACATAT--GTGGTGGCGTGTCTACAAAATGTTATCAGTGGA-AG
1 TTTATCTACAAATCAGTGGTGGCTTGTCCACAAAATATT-TCAAT-GACAG
*
2012148 TTTATCTACAAATCAGTGGTGGCTTATCCACAAA
1 TTTATCTACAAATCAGTGGTGGCTTGTCCACAAA
2012182 TGGTGTTTCG
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
47 18 0.29
48 17 0.27
49 12 0.19
50 16 0.25
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (49 bp):
TTTATCTACAAATCAGTGGTGGCTTGTCCACAAAATATTTCAATGACAG
Found at i:2018135 original size:51 final size:50
Alignment explanation
Indices: 2018045--2018141 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 50
2018035 TTTTGTGGAG
* * * * *
2018045 TAAAGATTGTTTAAAGGTGTAAAGGTACGAACTTGGGGAATAGAAAGTGAA
1 TAAAAATTGTTTAAAGGTATAAAGGTACAAACATAGGGAATA-AAAGTGAA
*
2018096 TAAAAATTGTTTAAAGGTATAAAGGTATAAACATAGGGAATAAAAG
1 TAAAAATTGTTTAAAGGTATAAAGGTACAAACATAGGGAATAAAAG
2018142 ATAGAAAGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 4 0.10
51 36 0.90
ACGTcount: A:0.46, C:0.03, G:0.25, T:0.26
Consensus pattern (50 bp):
TAAAAATTGTTTAAAGGTATAAAGGTACAAACATAGGGAATAAAAGTGAA
Found at i:2031436 original size:131 final size:131
Alignment explanation
Indices: 2031199--2031461 Score: 420
Period size: 131 Copynumber: 2.0 Consensus size: 131
2031189 AGGAAGTCCA
* * * *
2031199 TACTTTTTCAAGTACTCTACTTGATCCCTTTCCAAATTATCCTTCCACCTCTTCTCCTATATTTC
1 TACTTCTTCAAGTACTCTACTTGATCCATCTCCAAATTATCATTCCACCTCTTCTCCTATATTTC
* * *
2031264 TTTTCTTCACTTAAATAAAATACTGGAGTGTAGTTTCCCCTACAACTCCTATTA-CCAATGTTTT
66 TTTTCTTCACTTAAATAAAATACTAGAGTGCAGTTTCCCCTACAACTCCTAATACCCAA-GTTTT
2031328 TC
130 TC
*
2031330 TACTTCTTCAAGTCCTCTACTTGATCCATCTCCAAATTATCATTCCACCTCTTCTCCTATATTTC
1 TACTTCTTCAAGTACTCTACTTGATCCATCTCCAAATTATCATTCCACCTCTTCTCCTATATTTC
* *
2031395 TTTTCTTCACTTAAATAAAATACTAGAGTGCATTTTTCCCTACAACTCCTAATACCCAAGTTTTT
66 TTTTCTTCACTTAAATAAAATACTAGAGTGCAGTTTCCCCTACAACTCCTAATACCCAAGTTTTT
2031460 C
131 C
2031461 T
1 T
2031462 CTTGACCATT
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
131 117 0.97
132 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (131 bp):
TACTTCTTCAAGTACTCTACTTGATCCATCTCCAAATTATCATTCCACCTCTTCTCCTATATTTC
TTTTCTTCACTTAAATAAAATACTAGAGTGCAGTTTCCCCTACAACTCCTAATACCCAAGTTTTT
C
Found at i:2033737 original size:16 final size:17
Alignment explanation
Indices: 2033710--2033744 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2033700 ATAGAGTTGA
2033710 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
2033727 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
2033743 GA
1 GA
2033745 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:2036755 original size:50 final size:50
Alignment explanation
Indices: 2036680--2036911 Score: 293
Period size: 50 Copynumber: 4.6 Consensus size: 50
2036670 NNNNNNNNNN
2036680 CATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
2036730 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * *
2036780 CATGGAAGACCAAGTTTGGGACATGGCGTTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * ** *
2036830 CCCGTAAGACCATGTTTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * *
2036880 CATGTAAGACCATATCTGGGATATGACATTGG
1 CATGTAAGACCATGTTTGGGACATGGCATTGG
2036912 TAGTATAAGA
Statistics
Matches: 156, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 156 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:2043996 original size:101 final size:102
Alignment explanation
Indices: 2043879--2044065 Score: 306
Period size: 101 Copynumber: 1.8 Consensus size: 102
2043869 TGAAAGTGAT
*
2043879 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTATACCGGAATGAT-A-GGTCACATGTGTA
1 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTATACCGG-ATGATAATGGTCACATGTATA
2043942 GTACTATGTGCAGGCTACTATGCGTACTGGATAGTTTC
65 GTACTATGTGCAGGCTACTATGCGTACTGGATAGTTTC
* * * *
2043980 GATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTATAG
1 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTATACCGGATGATAATGGTCACATGTATAG
2044045 TACTATGTGCAGGCTACTATG
66 TACTATGTGCAGGCTACTATG
2044066 TGAACCGAAC
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
100 4 0.05
101 41 0.52
102 34 0.43
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (102 bp):
GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTATACCGGATGATAATGGTCACATGTATAG
TACTATGTGCAGGCTACTATGCGTACTGGATAGTTTC
Found at i:2044011 original size:51 final size:51
Alignment explanation
Indices: 2043877--2044063 Score: 202
Period size: 51 Copynumber: 3.7 Consensus size: 51
2043867 AGTGAAAGTG
* * * *
2043877 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTATACCGGA-A-TG
1 ATGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTA
* * *
2043926 ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGT-
1 AT-GATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTA
* * * *
2043977 TTCGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA-TCGGATGGTA
1 AT-GATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATAGTA
* *
2044029 ATGGTCACATGTATAGTACTATGTGCAGGCTACTA
1 ATGATCACATGTGTAGTACTATGTGCAGGCTACTA
2044064 TGTGAACCGA
Statistics
Matches: 114, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 71 0.62
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTA
Found at i:2044139 original size:45 final size:45
Alignment explanation
Indices: 2044074--2044160 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
2044064 TGTGAACCGA
* *
2044074 ACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCCACAGG
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCACAGG
* *
2044119 ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
2044161 CGAGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (45 bp):
ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCACAGG
Found at i:2046104 original size:16 final size:17
Alignment explanation
Indices: 2046083--2046118 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2046073 TCAATCATCC
2046083 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
2046099 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
2046116 CTC
1 CTC
2046119 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:2047571 original size:17 final size:17
Alignment explanation
Indices: 2047549--2047583 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2047539 TTTTATTAAC
2047549 ATACAAATTTAAAATTT
1 ATACAAATTTAAAATTT
2047566 ATACAAATTTAAAATTT
1 ATACAAATTTAAAATTT
2047583 A
1 A
2047584 AACAGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
ATACAAATTTAAAATTT
Found at i:2055294 original size:33 final size:33
Alignment explanation
Indices: 2055231--2055314 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
2055221 GGACTTACTT
*
2055231 TATTCTGTGTTTACTGTCCCAGCAAACTATCTC
1 TATTCTGTGTTTACTGTCCCAACAAACTATCTC
* * **
2055264 TATTTTGTGTTTACTGTTCCAACAGGCTATCTC
1 TATTCTGTGTTTACTGTCCCAACAAACTATCTC
* **
2055297 TGTTCCATGTTTACTGTC
1 TATTCTGTGTTTACTGTC
2055315 TTGGAAGACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (33 bp):
TATTCTGTGTTTACTGTCCCAACAAACTATCTC
Found at i:2056982 original size:20 final size:18
Alignment explanation
Indices: 2056947--2056985 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
2056937 CTTGTGATGC
2056947 TAATATGTTTAATTTAAT
1 TAATATGTTTAATTTAAT
2056965 TAATATGTCTTAAATTTAAT
1 TAATATGT-TT-AATTTAAT
2056985 T
1 T
2056986 CGTGTTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 9 0.47
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
TAATATGTTTAATTTAAT
Found at i:2065146 original size:15 final size:15
Alignment explanation
Indices: 2065126--2065158 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2065116 ATAACTAGTA
2065126 TATAAT-TATATTTAT
1 TATAATATATA-TTAT
2065141 TATAATATATATTAT
1 TATAATATATATTAT
2065156 TAT
1 TAT
2065159 CAACTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATAATATATATTAT
Found at i:2067290 original size:51 final size:51
Alignment explanation
Indices: 2067229--2067390 Score: 263
Period size: 51 Copynumber: 3.2 Consensus size: 51
2067219 TACATCACAT
* *
2067229 TTATCACTTGTCACTTGTCACTGAACAAATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGAACAGATAAGTGTAGCTAAAGCTACTAC
* *
2067280 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTAA
1 TTATCACTTGTCACTTGTCACTGAACAGATAAGTGTAGCTAAAGCTACTAC
*
2067331 TTATCACTTGTCACTTGTCACT-AATCAGATAAGTGTAGCTGAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTGAA-CAGATAAGTGTAGCTAAAGCTACTAC
2067382 TTATCACTT
1 TTATCACTT
2067391 ATTACTGATC
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 102 0.99
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGAACAGATAAGTGTAGCTAAAGCTACTAC
Found at i:2067340 original size:44 final size:44
Alignment explanation
Indices: 2067290--2067403 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 44
2067280 TTATCACTTG
2067290 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTAATTA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTAATTA
* *
2067334 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTACTACTTA
1 TCACTTGTCAC-TG------ATCAGATAAGTGTAGCTAAAGCTACTAATTA
* *
2067385 TCACTTATTACTGATCAGA
1 TCACTTGTCACTGATCAGA
2067404 AGTACTCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
44 17 0.29
45 2 0.03
50 2 0.03
51 38 0.64
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (44 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTAATTA
Found at i:2069109 original size:12 final size:12
Alignment explanation
Indices: 2069092--2069117 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2069082 AACACTCCAT
2069092 AAATATTTATAA
1 AAATATTTATAA
2069104 AAATATTTATAA
1 AAATATTTATAA
2069116 AA
1 AA
2069118 TCTTTGAGGT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:2071787 original size:10 final size:10
Alignment explanation
Indices: 2071772--2071831 Score: 57
Period size: 10 Copynumber: 5.6 Consensus size: 10
2071762 TAACATGTTG
2071772 AATTTTAATT
1 AATTTTAATT
*
2071782 AATTTTATAATA
1 AA-TTT-TAATT
2071794 AATTTTAATT
1 AATTTTAATT
*
2071804 AATTTTATAATA
1 AA-TTT-TAATT
*
2071816 AATTTTGATT
1 AATTTTAATT
2071826 AATTTT
1 AATTTT
2071832 GATTGATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 17 0.41
11 12 0.29
12 12 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:2071797 original size:12 final size:12
Alignment explanation
Indices: 2071777--2071821 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
2071767 TGTTGAATTT
*
2071777 TAATTAATTTTA
1 TAATAAATTTTA
2071789 TAATAAA-TTT-
1 TAATAAATTTTA
*
2071799 TAATTAATTTTA
1 TAATAAATTTTA
2071811 TAATAAATTTT
1 TAATAAATTTT
2071822 GATTAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 6 0.21
11 6 0.21
12 16 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAATAAATTTTA
Found at i:2071797 original size:22 final size:22
Alignment explanation
Indices: 2071772--2071831 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
2071762 TAACATGTTG
2071772 AATTTTAATTAATTTTATAATA
1 AATTTTAATTAATTTTATAATA
2071794 AATTTTAATTAATTTTATAATA
1 AATTTTAATTAATTTTATAATA
*
2071816 AATTTTGATTAATTTT
1 AATTTTAATTAATTTT
2071832 GATTGATCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTTTAATTAATTTTATAATA
Found at i:2072949 original size:15 final size:17
Alignment explanation
Indices: 2072918--2072951 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
2072908 AAGTTGTATG
2072918 TAATTATTATATTGTTA
1 TAATTATTATATTGTTA
2072935 TAATTATT-T-TTGTTA
1 TAATTATTATATTGTTA
2072950 TA
1 TA
2072952 TTTCGTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TAATTATTATATTGTTA
Found at i:2073285 original size:102 final size:100
Alignment explanation
Indices: 2073102--2073423 Score: 341
Period size: 102 Copynumber: 3.2 Consensus size: 100
2073092 TAATGGTCAC
* * * *
2073102 ATGTGAAGGCTACTATGTGTACCA-AAAAGCTTTAAG-CACGTGTGTAGTACTGTGTGAATGCTA
1 ATGTGAAGGCTACTATGTGTA-CAGAAAAGCTTT-GGTCACGTATGTAGTACTATGTGAAGGCTA
* * * * *
2073165 CTACGTGTATCGGT-AAACTACGGTTACATGTGTAGTACT
64 CTACGTG-AACCGTAAAACT--GATCACGTGTGTAGTACT
* * * * *
2073204 AAGTGAAGGCTACAATGGGTACAGAAAAGCTTTGGTCACATATGTAATACTATGTGAAGGCTACT
1 ATGTGAAGGCTACTATGTGTACAGAAAAGCTTTGGTCACGTATGTAGTACTATGTGAAGGCTACT
*
2073269 ACGTGAGCCGTAAAACTTGATCACGTGTGTAGTACT
66 ACGTGAACCGTAAAAC-TGATCACGTGTGTAGTACT
* * * *
2073305 ATGTGAAGGCTACTACGTGAACTGTAAAA-C--TGATCACGTATGTAGTACTATGTGAAGGCTAC
1 ATGTGAAGGCTACTATGTGTACAG-AAAAGCTTTGGTCACGTATGTAGTACTATGTGAAGGCTAC
*
2073367 TACGTGAACTGTAAAACTGATCACGTGTGTAGTACT
65 TACGTGAACCGTAAAACTGATCACGTGTGTAGTACT
* *
2073403 ATGTGAAGGTTACTACGTGTA
1 ATGTGAAGGCTACTATGTGTA
2073424 TCGAATGATA
Statistics
Matches: 188, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
98 38 0.20
99 44 0.23
101 41 0.22
102 64 0.34
103 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (100 bp):
ATGTGAAGGCTACTATGTGTACAGAAAAGCTTTGGTCACGTATGTAGTACTATGTGAAGGCTACT
ACGTGAACCGTAAAACTGATCACGTGTGTAGTACT
Found at i:2073358 original size:49 final size:49
Alignment explanation
Indices: 2073239--2073421 Score: 294
Period size: 49 Copynumber: 3.7 Consensus size: 49
2073229 AAAGCTTTGG
* * * *
2073239 TCACATATGTAATACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGA
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TGA
*
2073289 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
2073338 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
* *
2073387 TCACGTGTGTAGTACTATGTGAAGGTTACTACGTG
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG
2073422 TATCGAATGA
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.67
50 41 0.33
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (49 bp):
TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
Found at i:2073371 original size:99 final size:98
Alignment explanation
Indices: 2073239--2073421 Score: 312
Period size: 99 Copynumber: 1.9 Consensus size: 98
2073229 AAAGCTTTGG
*
2073239 TCACATATGTAATACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTAC
1 TCACATATGTAATACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TGATCACGTGTGTAGTAC
2073304 TATGTGAAGGCTACTACGTGAACTGTAAAACTGA
65 TATGTGAAGGCTACTACGTGAACTGTAAAACTGA
* * *
2073338 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACGTGTGTAGTACT
1 TCACATATGTAATACTATGTGAAGGCTACTACGTGAACCGTAAAACTGATCACGTGTGTAGTACT
*
2073403 ATGTGAAGGTTACTACGTG
66 ATGTGAAGGCTACTACGTG
2073422 TATCGAATGA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 37 0.47
99 42 0.53
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (98 bp):
TCACATATGTAATACTATGTGAAGGCTACTACGTGAACCGTAAAACTGATCACGTGTGTAGTACT
ATGTGAAGGCTACTACGTGAACTGTAAAACTGA
Found at i:2080810 original size:51 final size:51
Alignment explanation
Indices: 2080724--2081066 Score: 294
Period size: 51 Copynumber: 6.8 Consensus size: 51
2080714 TATCGATAAA
* * *
2080724 CACGTGTGTAGTACTGTGTGAAGGCGACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
* * * * * * *
2080775 CACATGTCTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GT
* * * *
2080826 CACGTGTGTAGTATTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGT
* * * * * * *
2080877 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TATC-GATAA-ATATTGGT
* * *
2080928 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATA-TTGGT
* * *
2080978 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGT
2081027 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
2081067 ATGATAAAAA
Statistics
Matches: 233, Mismatches: 44, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
49 40 0.17
50 52 0.22
51 137 0.59
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
Found at i:2080900 original size:102 final size:102
Alignment explanation
Indices: 2080724--2081065 Score: 369
Period size: 102 Copynumber: 3.4 Consensus size: 102
2080714 TATCGATAAA
* * *
2080724 CACGTGTGTAGTACTGTGTGAAGGCGACTACGTGTATCGATAAA-TAATGGTCACATGTCTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
* *
2080788 CTAAGTGAAGGCTACTATGTG-TATC-GAGAAGTTTTGAG-
65 CTAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTG-GT
* * * *
2080826 CACGTGTGTAGTATTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
2080891 TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
* * * * * *
2080928 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTA
* * * * * *
2080991 CTATGTGAAGGCTACTACGTGA-ACTGTAAAAC--TGAT
65 CTAAGTGAAGGCTACTATG-GATACCGGAAAGCTTTGGT
*
2081027 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCG
2081066 AATGATAAAA
Statistics
Matches: 205, Mismatches: 28, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
99 36 0.18
100 2 0.01
101 43 0.21
102 121 0.59
103 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
Found at i:2082899 original size:221 final size:222
Alignment explanation
Indices: 2082506--2082948 Score: 861
Period size: 221 Copynumber: 2.0 Consensus size: 222
2082496 TTAATTTTAA
* *
2082506 TCCAATTTATTTTGGGTTAAATTATAATTATTAATTAGTTATTAAATGAGGCCCAGTTTTGCTAA
1 TCCAATTTATTTTGGGTTAAATTATAATTATTAATTAATTATTAAAGGAGGCCCAGTTTTGCTAA
2082571 ACCGAGAAGATTGATCCAACCGAGCAATGGGCTACCCAGAACCGTCCCACATCCTGACCCAATCA
66 ACCGAGAAGATTGATCCAACCGAGCAATGGGCTACCCAGAACCGTCCCACATCCTGACCCAATCA
2082636 GCTTGTTTAGCTGATAATTTGGCTTGCAGCCCTTGAAGCTTCCTTAAAATTGCATTCAAACCCCT
131 GCTTGTTTAGCTGATAATTTGGCTTGCAGCCCTTGAAGCTTCCTTAAAATTGCATTCAAACCCCT
2082701 CCACTATTCAAGGCTTTATAGATTTGC
196 CCACTATTCAAGGCTTTATAGATTTGC
2082728 TCCAATTTA-TTTGGGTTAAATTATAATTATTAATTAATTATTAAAGGAGGCCCAGTTTTGCTAA
1 TCCAATTTATTTTGGGTTAAATTATAATTATTAATTAATTATTAAAGGAGGCCCAGTTTTGCTAA
2082792 ACCGAGAAGATTGATCCAACCGAGCAATGGGCTACCCAGAACCGTCCCACATCCTGACCCAATCA
66 ACCGAGAAGATTGATCCAACCGAGCAATGGGCTACCCAGAACCGTCCCACATCCTGACCCAATCA
2082857 GCTTGTTTAGCTGATAATTTGGCTTGCAGCCCTTGAAGCTTCCTTAAAATTGCATTCAAACCCCT
131 GCTTGTTTAGCTGATAATTTGGCTTGCAGCCCTTGAAGCTTCCTTAAAATTGCATTCAAACCCCT
2082922 CCACTATTCAAGGCTTTATAGATTTGC
196 CCACTATTCAAGGCTTTATAGATTTGC
2082949 CCCTAGCTAA
Statistics
Matches: 219, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
221 210 0.96
222 9 0.04
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (222 bp):
TCCAATTTATTTTGGGTTAAATTATAATTATTAATTAATTATTAAAGGAGGCCCAGTTTTGCTAA
ACCGAGAAGATTGATCCAACCGAGCAATGGGCTACCCAGAACCGTCCCACATCCTGACCCAATCA
GCTTGTTTAGCTGATAATTTGGCTTGCAGCCCTTGAAGCTTCCTTAAAATTGCATTCAAACCCCT
CCACTATTCAAGGCTTTATAGATTTGC
Found at i:2094478 original size:7 final size:7
Alignment explanation
Indices: 2094465--2094500 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2094455 TGGAACTTTC
2094465 TTTTGGA
1 TTTTGGA
*
2094472 CTTTGGA
1 TTTTGGA
2094479 TTTTGGA
1 TTTTGGA
*
2094486 TTTTGGT
1 TTTTGGA
2094493 TTTTGGA
1 TTTTGGA
2094500 T
1 T
2094501 GGTTTTTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.11, C:0.03, G:0.28, T:0.58
Consensus pattern (7 bp):
TTTTGGA
Found at i:2095220 original size:16 final size:16
Alignment explanation
Indices: 2095153--2095226 Score: 66
Period size: 16 Copynumber: 4.9 Consensus size: 16
2095143 AGTATAGAAT
*
2095153 ACTATAGATTATG-AA
1 ACTATAGATTCTGAAA
*
2095168 ACTCTAGATTCTGAAA
1 ACTATAGATTCTGAAA
* *
2095184 ACTAT--ACTGTG-AA
1 ACTATAGATTCTGAAA
*
2095197 ACTTTAGATTCTGAAA
1 ACTATAGATTCTGAAA
*
2095213 ACTATAGATACTGA
1 ACTATAGATTCTGA
2095227 TACTATAGTG
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 15 0.33
16 20 0.44
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (16 bp):
ACTATAGATTCTGAAA
Found at i:2125847 original size:92 final size:94
Alignment explanation
Indices: 2125751--2125923 Score: 242
Period size: 95 Copynumber: 1.9 Consensus size: 94
2125741 ATGCACCCAC
* * * * ** *
2125751 ATGTGCATGAACAAAGGGAGC-TTTTTTGT-GGCTGGAAATTCATGTATTTAGCTTATACATTAA
1 ATGTGCATGAACAAAGGGAACATTTTTTGTCAGCTAGAAATTCATGCATCCAGCTGATACATTAA
*
2125814 AGCTATTTAATGAAGAGCAATGTACCCGA
66 AGCTAGTTAATGAAGAGCAATGTACCCGA
*
2125843 ATGTGCATGAACAAAGGGAACTATTTTTTTTCAGCTAGAAATTCATGCATCCAGCTGATACATTA
1 ATGTGCATGAACAAAGGGAAC-ATTTTTTGTCAGCTAGAAATTCATGCATCCAGCTGATACATTA
2125908 AAGCTAGTTAATGAAG
65 AAGCTAGTTAATGAAG
2125924 GACCATGCAC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
92 20 0.29
94 7 0.10
95 42 0.61
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (94 bp):
ATGTGCATGAACAAAGGGAACATTTTTTGTCAGCTAGAAATTCATGCATCCAGCTGATACATTAA
AGCTAGTTAATGAAGAGCAATGTACCCGA
Found at i:2125945 original size:95 final size:92
Alignment explanation
Indices: 2125741--2125946 Score: 218
Period size: 95 Copynumber: 2.2 Consensus size: 92
2125731 TTGTGGAAGC
* * * * * ** *
2125741 ATGCACCC-ACATGTGCATGAACAAAGGGAGCTTTTTTGTGGCTGGAAATTCATGTATTTAGCTT
1 ATGCACCCGA-ATATGCATGAACAAAGGGAACTTTTTTGTAGCTAGAAATTCATGCATCCAGCTG
*
2125805 ATACATTAAAGCTATTTAATGAAGAGCA
65 ATACATTAAAGCTAGTTAATGAAGAGCA
* * *
2125833 ATGTACCCGAATGTGCATGAACAAAGGGAACTATTTTTTTTCAGCTAGAAATTCATGCATCCAGC
1 ATGCACCCGAATATGCATGAACAAAGGGAAC--TTTTTTGT-AGCTAGAAATTCATGCATCCAGC
*
2125898 TGATACATTAAAGCTAGTTAATGAAG-GACC
63 TGATACATTAAAGCTAGTTAATGAAGAG-CA
* *
2125928 ATGCACTCGATTATGCATG
1 ATGCACCCGAATATGCATG
2125947 TAACTTAGGA
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
92 27 0.29
93 1 0.01
94 8 0.09
95 58 0.62
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (92 bp):
ATGCACCCGAATATGCATGAACAAAGGGAACTTTTTTGTAGCTAGAAATTCATGCATCCAGCTGA
TACATTAAAGCTAGTTAATGAAGAGCA
Found at i:2130174 original size:830 final size:831
Alignment explanation
Indices: 2128565--2130228 Score: 3321
Period size: 830 Copynumber: 2.0 Consensus size: 831
2128555 TTTTATTATT
2128565 ATTCTTATACTTAAATTTTAATTTTTTTAATATTTCTTCTATTTCTATTATTTTTAGTATTATCT
1 ATTCTTATACTTAAATTTTAATTTTTTTAATATTTCTTCTATTTCTATTATTTTTAGTATTATCT
2128630 TTTTACTATTATTCTTATAATTACCTTTAATTTTATTGGTATCATTTAGTTTATTTTTTTTCTTC
66 TTTTACTATTATTCTTATAATTACCTTTAATTTTATTGGTATCATTTAGTTTATTTTTTTTCTTC
2128695 ATTTTCATTTTCATTTTATTTTTTTTTTAGTTGCTTTATTTATTTTCTTAGACTTATTTAATTTA
131 ATTTTCATTTTCATTTTATTTTTTTTTTAGTTGCTTTATTTATTTTCTTAGACTTATTTAATTTA
2128760 TTATCTTTTGAACTATGTTTTTATTTTTATTTGTATGGTTGTTTCTAATTTAGTTGTAATCTTTT
196 TTATCTTTTGAACTATGTTTTTATTTTTATTTGTATGGTTGTTTCTAATTTAGTTGTAATCTTTT
2128825 AATCTTCTTCATTATTTGTGTTTATTTTCTTCTTAGTTTGCACAGAGTCTTACACTTCACTTTCA
261 AATCTTCTTCATTATTTGTGTTTATTTTCTTCTTAGTTTGCACAGAGTCTTACACTTCACTTTCA
2128890 ATTGTCTACATTTCCACTTTTCACCATTCTGGCGATTTCATCCAATATTCAAAGCAATTTTAGTT
326 ATTGTCTACATTTCCACTTTTCACCATTCTGGCGATTTCATCCAATATTCAAAGCAATTTTAGTT
2128955 TTCTCCCTCTCTTATGATATTCTACATACACTGTGATTATATTTGTTTGTACATTGAGGACAATG
391 TTCTCCCTCTCTTATGATATTCTACATACACTGTGATTATATTTGTTTGTACATTGAGGACAATG
2129020 TACATATTAAGTGTGGGGAGGTTATTTATATGACTATTAGAAAATCCCTGAATTATTCTCGTGCT
456 TACATATTAAGTGTGGGGAGGTTATTTATATGACTATTAGAAAATCCCTGAATTATTCTCGTGCT
2129085 TAAGTAATTTTCTCCTACTTCCATTAGAATGAATTTATTTCAATTTGGGATTTTTGTTGATGTGT
521 TAAGTAATTTTCTCCTACTTCCATTAGAATGAATTTATTTCAATTTGGGATTTTTGTTGATGTGT
2129150 TTTTGATTAATTTGTAGATATTTGTGCATTGGTTGGTTTAAACTTTAAGACATTAGAGAATAAAG
586 TTTTGATTAATTTGTAGATATTTGTGCATTGGTTGGTTTAAACTTTAAGACATTAGAGAATAAAG
2129215 CATGATAACTTTATTTTCAGAATTAAAAATTTTAGGTTGTTTACCTGAATTAAGGTATTATCTTG
651 CATGATAACTTTATTTTCAGAATTAAAAATTTTAGGTTGTTTACCTGAATTAAGGTATTATCTTG
2129280 AAGTTTTAAATTTACAAGTTTGACATCAAAAACCATGATTTTTTGTAAGATTTTGAGCCTTTAGA
716 AAGTTTTAAATTTACAAGTTTGACATCAAAAACCATGATTTTTTGTAAGATTTTGAGCCTTTAGA
2129345 GCATACATTTTTATTGCTCATTTTATTATTGGTTATGAGTATGTCAATTTG
781 GCATACATTTTTATTGCTCATTTTATTATTGGTTATGAGTATGTCAATTTG
2129396 ATTCTTATAC-TAAATTTTAATTTTTTTAATATTTCTTCTATTTCTATTATTTTTAGTATTATCT
1 ATTCTTATACTTAAATTTTAATTTTTTTAATATTTCTTCTATTTCTATTATTTTTAGTATTATCT
2129460 TTTTACTATTATTCTTATAATTACCTTTAATTTTATTGGTATCATTTAGTTTATTTTTTTTCTTC
66 TTTTACTATTATTCTTATAATTACCTTTAATTTTATTGGTATCATTTAGTTTATTTTTTTTCTTC
2129525 ATTTTCATTTTCATTTTATTTTTTTTTTAGTTGCTTTATTTATTTTCTTAGACTTATTTAATTTA
131 ATTTTCATTTTCATTTTATTTTTTTTTTAGTTGCTTTATTTATTTTCTTAGACTTATTTAATTTA
2129590 TTATCTTTTGAACTATGTTTTTATTTTTATTTGTATGGTTGTTTCTAATTTAGTTGTAATCTTTT
196 TTATCTTTTGAACTATGTTTTTATTTTTATTTGTATGGTTGTTTCTAATTTAGTTGTAATCTTTT
2129655 AATCTTCTTCATTATTTGTGTTTATTTTCTTCTTAGTTTGCACAGAGTCTTACACTTCACTTTCA
261 AATCTTCTTCATTATTTGTGTTTATTTTCTTCTTAGTTTGCACAGAGTCTTACACTTCACTTTCA
2129720 ATTGTCTACATTTCCACTTTTCACCATTCTGGCGATTTCATCCAATATTCAAAGCAATTTTAGTT
326 ATTGTCTACATTTCCACTTTTCACCATTCTGGCGATTTCATCCAATATTCAAAGCAATTTTAGTT
2129785 TTCTCCCTCTCTTATGATATTCTACATACACTGTGATTATATTTGTTTGTACATTGAGGACAATG
391 TTCTCCCTCTCTTATGATATTCTACATACACTGTGATTATATTTGTTTGTACATTGAGGACAATG
2129850 TACATATTAAGTGTGGGGAGGTTATTTATATGACTATTAGAAAATCCCTGAATTATTCTCGTGCT
456 TACATATTAAGTGTGGGGAGGTTATTTATATGACTATTAGAAAATCCCTGAATTATTCTCGTGCT
2129915 TAAGTAATTTTCTCCTACTTCCATTAGAATGAATTTATTTCAATTTGGGATTTTTGTTGATGTGT
521 TAAGTAATTTTCTCCTACTTCCATTAGAATGAATTTATTTCAATTTGGGATTTTTGTTGATGTGT
2129980 TTTTGATTAATTTGTAGATATTTGTGCATTGGTTGGTTTAAACTTTAAGACATTAGAGAATAAAG
586 TTTTGATTAATTTGTAGATATTTGTGCATTGGTTGGTTTAAACTTTAAGACATTAGAGAATAAAG
2130045 CATGATAACTTTATTTTCAGAATTAAAAATTTTAGGTTGTTTACCTGAATTAAGGTATTATCTTG
651 CATGATAACTTTATTTTCAGAATTAAAAATTTTAGGTTGTTTACCTGAATTAAGGTATTATCTTG
2130110 AAGTTTTAAATTTACAAGTTTGACATCAAAAACCATGATTTTTTGTAAGATTTTGAGCCTTTAGA
716 AAGTTTTAAATTTACAAGTTTGACATCAAAAACCATGATTTTTTGTAAGATTTTGAGCCTTTAGA
2130175 GCATACATTTTTATTGCTCATTTTATTATTGGTTATGAGTATGTCAATTTG
781 GCATACATTTTTATTGCTCATTTTATTATTGGTTATGAGTATGTCAATTTG
2130226 ATT
1 ATT
2130229 TGTTATTGTA
Statistics
Matches: 833, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
830 823 0.99
831 10 0.01
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (831 bp):
ATTCTTATACTTAAATTTTAATTTTTTTAATATTTCTTCTATTTCTATTATTTTTAGTATTATCT
TTTTACTATTATTCTTATAATTACCTTTAATTTTATTGGTATCATTTAGTTTATTTTTTTTCTTC
ATTTTCATTTTCATTTTATTTTTTTTTTAGTTGCTTTATTTATTTTCTTAGACTTATTTAATTTA
TTATCTTTTGAACTATGTTTTTATTTTTATTTGTATGGTTGTTTCTAATTTAGTTGTAATCTTTT
AATCTTCTTCATTATTTGTGTTTATTTTCTTCTTAGTTTGCACAGAGTCTTACACTTCACTTTCA
ATTGTCTACATTTCCACTTTTCACCATTCTGGCGATTTCATCCAATATTCAAAGCAATTTTAGTT
TTCTCCCTCTCTTATGATATTCTACATACACTGTGATTATATTTGTTTGTACATTGAGGACAATG
TACATATTAAGTGTGGGGAGGTTATTTATATGACTATTAGAAAATCCCTGAATTATTCTCGTGCT
TAAGTAATTTTCTCCTACTTCCATTAGAATGAATTTATTTCAATTTGGGATTTTTGTTGATGTGT
TTTTGATTAATTTGTAGATATTTGTGCATTGGTTGGTTTAAACTTTAAGACATTAGAGAATAAAG
CATGATAACTTTATTTTCAGAATTAAAAATTTTAGGTTGTTTACCTGAATTAAGGTATTATCTTG
AAGTTTTAAATTTACAAGTTTGACATCAAAAACCATGATTTTTTGTAAGATTTTGAGCCTTTAGA
GCATACATTTTTATTGCTCATTTTATTATTGGTTATGAGTATGTCAATTTG
Found at i:2139310 original size:43 final size:43
Alignment explanation
Indices: 2139180--2139442 Score: 206
Period size: 43 Copynumber: 6.1 Consensus size: 43
2139170 ATCCAGGTTA
* * ** *
2139180 TACTTCGGTATATAC-GATGATGCACTGTATGTATCAATATAGT
1 TACTTCGGTATAT-CTGATGATGCACTATGTGTGCCAGTATAGT
** * * *
2139223 TA-TATCAATATATCTGATGATGAACTATTTGTGCCAGTACAGT
1 TACT-TCGGTATATCTGATGATGCACTATGTGTGCCAGTATAGT
** ***
2139266 TACTTCAATATATCTGATGATGCACTATGTGTGGTGGTATAGT
1 TACTTCGGTATATCTGATGATGCACTATGTGTGCCAGTATAGT
* * * * * * *
2139309 TACTTTGGTATATCCGATGATGCATTGTATGTTCTAGTATAGT
1 TACTTCGGTATATCTGATGATGCACTATGTGTGCCAGTATAGT
** * *
2139352 TACTTCGGTATATCCAATGATGCATTGTGTGTGCCAGTATAGT
1 TACTTCGGTATATCTGATGATGCACTATGTGTGCCAGTATAGT
* * * * * *
2139395 TACTTCGGTGTATCTGATGATGCATTGTATGTTCAAGTATAGT
1 TACTTCGGTATATCTGATGATGCACTATGTGTGCCAGTATAGT
2139438 TACTT
1 TACTT
2139443 TAGTATATGT
Statistics
Matches: 181, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
42 2 0.01
43 178 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (43 bp):
TACTTCGGTATATCTGATGATGCACTATGTGTGCCAGTATAGT
Found at i:2139410 original size:129 final size:129
Alignment explanation
Indices: 2139180--2139418 Score: 302
Period size: 129 Copynumber: 1.9 Consensus size: 129
2139170 ATCCAGGTTA
**
2139180 TACTTCGGTATATACGATGATGCACTGTATGTATCAATATAGTTATATCAATATATCTGATGATG
1 TACTTCGGTATATACGATGATGCACTGTATGTATCAATATAGTTATATCAATATATCCAATGATG
*
2139245 AACTATTTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCACTATGTGTGGTGGTATAGT
66 AACTATGTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCACTATGTGTGGTGGTATAGT
* * * * **
2139309 TACTTTGGTATATCCGATGATGCATTGTATGT-TCTAGTATAGTTACT-TCGGTATATCCAATGA
1 TACTTCGGTATATACGATGATGCACTGTATGTATC-AATATAGTTA-TATCAATATATCCAATGA
* * * * ** *
2139372 TGCATTGTGTGTGCCAGTATAGTTACTTCGGTGTATCTGATGATGCA
64 TGAACTATGTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCA
2139419 TTGTATGTTC
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
128 2 0.02
129 89 0.97
130 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (129 bp):
TACTTCGGTATATACGATGATGCACTGTATGTATCAATATAGTTATATCAATATATCCAATGATG
AACTATGTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCACTATGTGTGGTGGTATAGT
Found at i:2139435 original size:129 final size:129
Alignment explanation
Indices: 2139180--2139450 Score: 298
Period size: 129 Copynumber: 2.1 Consensus size: 129
2139170 ATCCAGGTTA
* **
2139180 TACTTCGGTATATACGATGATGCACTGTATGTATCAATATAGTTATATCAATATATCTGATGATG
1 TACTTTGGTATATACGATGATGCACTGTATGTATCAATATAGTTATATCAATATATCCAATGATG
* * *
2139245 AACTATTTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCACTATGTGTGGTGGTATAGT
66 AACTATGTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCACTATGTATGGTAGTATAGT
* * * **
2139309 TACTTTGGTATATCCGATGATGCATTGTATGT-TCTAGTATAGTTACT-TCGGTATATCCAATGA
1 TACTTTGGTATATACGATGATGCACTGTATGTATC-AATATAGTTA-TATCAATATATCCAATGA
* * * * ** * *
2139372 TGCATTGTGTGTGCCAGTATAGTTACTTCGGTGTATCTGATGATGCA-T-TGTATGTTCAAGTAT
64 TGAACTATGTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCACTATGTATGGT--AGTAT
2139435 AGT
127 AGT
*
2139438 TACTTTAGTATAT
1 TACTTTGGTATAT
2139451 GTAGCATCCC
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
127 6 0.05
128 3 0.03
129 108 0.92
130 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (129 bp):
TACTTTGGTATATACGATGATGCACTGTATGTATCAATATAGTTATATCAATATATCCAATGATG
AACTATGTGTGCCAGTACAGTTACTTCAATATATCTGATGATGCACTATGTATGGTAGTATAGT
Found at i:2142002 original size:43 final size:42
Alignment explanation
Indices: 2141946--2142115 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 42
2141936 GGGCTGTTAC
* * *
2141946 AGTATATTCGATAATGCACTGCAAGTGGCAATATAGTTACTTC
1 AGTATATTCGATAATGCACTGTATGT-GCAATATAGTTACTTT
* * * *
2141989 CGTATA-TCTGATAATACATTGTATGTTCAAGTATAGTTACTTT
1 AGTATATTC-GATAATGCACTGTATGTGCAA-TATAGTTACTTT
* * *
2142032 GGTATATTCGATGATGCACTGTATGTGCTAGTATAGTTACTTT
1 AGTATATTCGATAATGCACTGTATGTGC-AATATAGTTACTTT
* * *
2142075 AGTATA-TCTGATGATGCACTGTGTGTGCTAGTATAGTTACT
1 AGTATATTC-GATAATGCACTGTATGTGC-AATATAGTTACT
2142116 GCGGTATATC
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 7 0.07
43 97 0.91
44 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (42 bp):
AGTATATTCGATAATGCACTGTATGTGCAATATAGTTACTTT
Found at i:2142050 original size:86 final size:86
Alignment explanation
Indices: 2141947--2142137 Score: 215
Period size: 86 Copynumber: 2.2 Consensus size: 86
2141937 GGCTGTTACA
* * *
2141947 GTATATTCGATAATGCACTGCAAGTGGC-AATATAGTTACTTCCGTATATCTGATAATACATTGT
1 GTATATTCGATGATGCACTGCAAGT-GCTAATATAGTTACTTCAGTATATCTGATAATACACTGT
* **
2142011 ATGTTCAAGTATAGTTACTTTG
65 ATGTGCAAGTATAGTTACTGCG
* * * * * * *
2142033 GTATATTCGATGATGCACTGTATGTGCTAGTATAGTTACTTTAGTATATCTGATGATGCACTGTG
1 GTATATTCGATGATGCACTGCAAGTGCTAATATAGTTACTTCAGTATATCTGATAATACACTGTA
*
2142098 TGTGCTAGTATAGTTACTGCG
66 TGTGCAAGTATAGTTACTGCG
*
2142119 GTATA-TCTAATGATGCACT
1 GTATATTC-GATGATGCACT
2142138 ATGTGTGCCA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 4 0.05
86 84 0.95
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (86 bp):
GTATATTCGATGATGCACTGCAAGTGCTAATATAGTTACTTCAGTATATCTGATAATACACTGTA
TGTGCAAGTATAGTTACTGCG
Found at i:2142123 original size:43 final size:43
Alignment explanation
Indices: 2141977--2142185 Score: 213
Period size: 43 Copynumber: 4.9 Consensus size: 43
2141967 CAAGTGGCAA
* * * * * * *
2141977 TATAGTTACTTCCGTATATCTGATAATACATTGTATGTTCAAG
1 TATAGTTACTTCAGTATATCTGATGATGCACTGTGTGTGCTAG
** *
2142020 TATAGTTACTTTGGTATAT-TCGATGATGCACTGTATGTGCTAG
1 TATAGTTACTTCAGTATATCT-GATGATGCACTGTGTGTGCTAG
*
2142063 TATAGTTACTTTAGTATATCTGATGATGCACTGTGTGTGCTAG
1 TATAGTTACTTCAGTATATCTGATGATGCACTGTGTGTGCTAG
* * * * *
2142106 TATAGTTACTGCGGTATATCTAATGATGCACTATGTGTGCCAG
1 TATAGTTACTTCAGTATATCTGATGATGCACTGTGTGTGCTAG
* * * * *
2142149 TACAGTTACTTCAATATATCTGTTGATACACTATGTG
1 TATAGTTACTTCAGTATATCTGATGATGCACTGTGTG
2142186 CCTTTGATAT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 140 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (43 bp):
TATAGTTACTTCAGTATATCTGATGATGCACTGTGTGTGCTAG
Found at i:2142145 original size:86 final size:86
Alignment explanation
Indices: 2141977--2142185 Score: 240
Period size: 86 Copynumber: 2.4 Consensus size: 86
2141967 CAAGTGGCAA
* * * * * ** *
2141977 TATAGTTACTTCCGTATATCTGATAATACATTGTATGTTCAAGTATAGTTACTTTGGTATATTCG
1 TATAGTTACTTCAGTATATCTGATGATACACTGTGTGTGCAAGTATAGTTACTGCGGTATATTCA
* *
2142042 ATGATGCACTGTATGTGCTAG
66 ATGATGCACTATATGTGCCAG
* * *
2142063 TATAGTTACTTTAGTATATCTGATGATGCACTGTGTGTGCTAGTATAGTTACTGCGGTATA-TCT
1 TATAGTTACTTCAGTATATCTGATGATACACTGTGTGTGCAAGTATAGTTACTGCGGTATATTC-
*
2142127 AATGATGCACTATGTGTGCCAG
65 AATGATGCACTATATGTGCCAG
* * * *
2142149 TACAGTTACTTCAATATATCTGTTGATACACTATGTG
1 TATAGTTACTTCAGTATATCTGATGATACACTGTGTG
2142186 CCTTTGATAT
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 2 0.02
86 100 0.98
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (86 bp):
TATAGTTACTTCAGTATATCTGATGATACACTGTGTGTGCAAGTATAGTTACTGCGGTATATTCA
ATGATGCACTATATGTGCCAG
Found at i:2142260 original size:43 final size:43
Alignment explanation
Indices: 2142193--2142317 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
2142183 GTGCCTTTGA
* * *
2142193 TATATTCGATGGTGCGCTGTGTGTGCTAGTATAGTTGTTTCGG
1 TATATTTGATGATGCACTGTGTGTGCTAGTATAGTTGTTTCGG
* **
2142236 TATATTTGATGATGCACTGCGTGTGCTAGTATAGTTACTTCGG
1 TATATTTGATGATGCACTGTGTGTGCTAGTATAGTTGTTTCGG
* * *
2142279 TATATCTGATGATGCACTGTGTATGCCAGTA-AGTTGTTT
1 TATATTTGATGATGCACTGTGTGTGCTAGTATAGTTGTTT
2142318 TGATATGTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
42 6 0.09
43 64 0.91
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (43 bp):
TATATTTGATGATGCACTGTGTGTGCTAGTATAGTTGTTTCGG
Found at i:2142283 original size:116 final size:116
Alignment explanation
Indices: 2142084--2142296 Score: 291
Period size: 116 Copynumber: 1.8 Consensus size: 116
2142074 TAGTATATCT
*
2142084 GATGATGCACTGTGTGTGCTAGTATAGTTACTGCGGTATATCTAATGATGCACTATGTGTGCCAG
1 GATGATGCACTGTGTGTGCTAGTATAGTTACTGCGGTATATCTAATGATGCACTACGTGTGCCAG
*
2142149 TACAGTTACTTCAATATATCTGTTGATACACTATGTGCCTTTGATATATTC
66 TACAGTTACTTCAATATATCTGATGATACACTATGTGCCTTTGATATATTC
* * ** * * * * *
2142200 GATGGTGCGCTGTGTGTGCTAGTATAGTTGTTTCGGTATATTTGATGATGCACTGCGTGTGCTAG
1 GATGATGCACTGTGTGTGCTAGTATAGTTACTGCGGTATATCTAATGATGCACTACGTGTGCCAG
* ** *
2142265 TATAGTTACTTCGGTATATCTGATGATGCACT
66 TACAGTTACTTCAATATATCTGATGATACACT
2142297 GTGTATGCCA
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
116 82 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.38
Consensus pattern (116 bp):
GATGATGCACTGTGTGTGCTAGTATAGTTACTGCGGTATATCTAATGATGCACTACGTGTGCCAG
TACAGTTACTTCAATATATCTGATGATACACTATGTGCCTTTGATATATTC
Found at i:2142532 original size:21 final size:21
Alignment explanation
Indices: 2142506--2142549 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2142496 AGTGAAGTAT
2142506 TAGTCGGGTGAGTTACTGCAA
1 TAGTCGGGTGAGTTACTGCAA
2142527 TAGTCGGGTGAGTTACTGCAA
1 TAGTCGGGTGAGTTACTGCAA
2142548 TA
1 TA
2142550 TGCATAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.30
Consensus pattern (21 bp):
TAGTCGGGTGAGTTACTGCAA
Found at i:2151930 original size:7 final size:7
Alignment explanation
Indices: 2151920--2151970 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
2151910 TGAGAGATGA
2151920 GAGGGAT
1 GAGGGAT
*
2151927 GAGGGAA
1 GAGGGAT
*
2151934 GGGGGAT
1 GAGGGAT
*
2151941 GGGGGAT
1 GAGGGAT
*
2151948 GGGGGAT
1 GAGGGAT
2151955 GAGGGAT
1 GAGGGAT
*
2151962 GAGTGAT
1 GAGGGAT
2151969 GA
1 GA
2151971 TTGAAAAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.25, C:0.00, G:0.61, T:0.14
Consensus pattern (7 bp):
GAGGGAT
Found at i:2151970 original size:14 final size:14
Alignment explanation
Indices: 2151907--2151962 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
2151897 TTGAGAGAAA
*
2151907 GGATGAGAGATGAGAG
1 GGATGAGGGATG-G-G
*
2151923 GGATGAGGGAAGGG
1 GGATGAGGGATGGG
*
2151937 GGATGGGGGATGGG
1 GGATGAGGGATGGG
2151951 GGATGAGGGATG
1 GGATGAGGGATG
2151963 AGTGATGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 24 0.69
15 1 0.03
16 10 0.29
ACGTcount: A:0.27, C:0.00, G:0.61, T:0.12
Consensus pattern (14 bp):
GGATGAGGGATGGG
Found at i:2154601 original size:14 final size:16
Alignment explanation
Indices: 2154573--2154606 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
2154563 CGAAATAGAC
2154573 ATTATATATTAAATTA
1 ATTATATATTAAATTA
2154589 ATTATA-ATT-AATTA
1 ATTATATATTAAATTA
2154603 ATTA
1 ATTA
2154607 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 3 0.17
16 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATATATTAAATTA
Found at i:2154617 original size:16 final size:16
Alignment explanation
Indices: 2154596--2154627 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2154586 TTAATTATAA
*
2154596 TTAATTAATTAATTTT
1 TTAATTAAATAATTTT
2154612 TTAATTAAATAATTTT
1 TTAATTAAATAATTTT
2154628 CTCAATCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTAAATAATTTT
Found at i:2166890 original size:37 final size:36
Alignment explanation
Indices: 2166842--2166916 Score: 132
Period size: 37 Copynumber: 2.1 Consensus size: 36
2166832 GTAGTGTGAA
2166842 GAAAAGGTATAGGATCTTTGATCCATCTACTAAAAG
1 GAAAAGGTATAGGATCTTTGATCCATCTACTAAAAG
*
2166878 GAAAAGGGTATAGGGTCTTTGATCCATCTACTAAAAG
1 GAAAA-GGTATAGGATCTTTGATCCATCTACTAAAAG
2166915 GA
1 GA
2166917 TTGTTGTGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 5 0.14
37 32 0.86
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (36 bp):
GAAAAGGTATAGGATCTTTGATCCATCTACTAAAAG
Found at i:2171195 original size:34 final size:34
Alignment explanation
Indices: 2171121--2171289 Score: 212
Period size: 34 Copynumber: 4.9 Consensus size: 34
2171111 CTTTTCTTAT
* * * *
2171121 AGGGAATATTTCCTGTTCACACATTATTTTGTTGC
1 AGGGAATCTCTCCTGTTCACACATCA-TTTCTTGC
* *
2171156 AGGGAATCTCTCATGTTCATACATCATTTCTTGC
1 AGGGAATCTCTCCTGTTCACACATCATTTCTTGC
* * * *
2171190 AGGGAATCTTTCCTGTTCACGCATTATTTTGTTGC
1 AGGGAATCTCTCCTGTTCACACATCA-TTTCTTGC
2171225 AGGGAATCTCTCCTGTTCACACATCATTTCTTGC
1 AGGGAATCTCTCCTGTTCACACATCATTTCTTGC
* *
2171259 AGGGAATCTCTCCTGTTCATATATCATTTCT
1 AGGGAATCTCTCCTGTTCACACATCATTTCT
2171290 AGTATTATTT
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
34 64 0.56
35 51 0.44
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.40
Consensus pattern (34 bp):
AGGGAATCTCTCCTGTTCACACATCATTTCTTGC
Found at i:2171224 original size:69 final size:69
Alignment explanation
Indices: 2171121--2171277 Score: 269
Period size: 69 Copynumber: 2.3 Consensus size: 69
2171111 CTTTTCTTAT
* *
2171121 AGGGAATATTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTCTCATGTTCATACATCATTTC
1 AGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCATTTC
2171186 TTGC
66 TTGC
* *
2171190 AGGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACACATCATTTC
1 AGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCATTTC
2171255 TTGC
66 TTGC
*
2171259 AGGGAATCTCTCCTGTTCA
1 AGGGAATCTTTCCTGTTCA
2171278 TATATCATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 83 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (69 bp):
AGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCATTTC
TTGC
Found at i:2174129 original size:21 final size:22
Alignment explanation
Indices: 2174085--2174129 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2174075 GAACAAATTG
2174085 TTGATTCTATTTCTTTTTTGAT
1 TTGATTCTATTTCTTTTTTGAT
2174107 TTGATT-TA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTG-AT
2174128 TT
1 TT
2174130 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 6 0.27
22 6 0.27
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.71
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTTGAT
Found at i:2174185 original size:21 final size:23
Alignment explanation
Indices: 2174161--2174203 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
2174151 TTAATTTTTT
*
2174161 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTATTTAG
*
2174182 AAAAGAGATTTGCTTCTATTTA
1 AAAACAGATTTGCTTCTATTTA
2174204 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTATTTAG
Found at i:2181193 original size:17 final size:18
Alignment explanation
Indices: 2181171--2181205 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2181161 AATTTGTGAT
2181171 AATTATTAAGT-GTTTTA
1 AATTATTAAGTAGTTTTA
*
2181188 AATTATTTAGTAGTTTTA
1 AATTATTAAGTAGTTTTA
2181206 TGTCAACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
AATTATTAAGTAGTTTTA
Found at i:2181598 original size:17 final size:18
Alignment explanation
Indices: 2181576--2181609 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2181566 AGAAATAAAC
*
2181576 AAAGATTAA-TAAAATTG
1 AAAGATGAATTAAAATTG
2181593 AAAGATGAATTAAAATT
1 AAAGATGAATTAAAATT
2181610 CTCTTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (18 bp):
AAAGATGAATTAAAATTG
Found at i:2187410 original size:21 final size:21
Alignment explanation
Indices: 2187386--2187429 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2187376 CATGATCGTT
2187386 TGACCCA-TCCACACAACCATG
1 TGACCCACT-CACACAACCATG
2187407 TGACCCACTCACACAACCATG
1 TGACCCACTCACACAACCATG
2187428 TG
1 TG
2187430 GCCTATCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.32, C:0.41, G:0.11, T:0.16
Consensus pattern (21 bp):
TGACCCACTCACACAACCATG
Found at i:2201265 original size:41 final size:41
Alignment explanation
Indices: 2201208--2201321 Score: 176
Period size: 41 Copynumber: 2.8 Consensus size: 41
2201198 CCTTTCGGGT
* *
2201208 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTGGTGG
1 CTTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTGGGGG
* *
2201249 CTTTAGTGGCATTTTTGAGAAAGCACCGCTAATGCTGGGGG
1 CTTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTGGGGG
2201290 CTTTAGTGGCGTTTTTGA-AAAGGCGCCGCTAA
1 CTTTAGTGGCGTTTTTGAGAAA-GCGCCGCTAA
2201322 AAACATTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 63 0.95
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (41 bp):
CTTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTGGGGG
Found at i:2201553 original size:22 final size:22
Alignment explanation
Indices: 2201528--2201599 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
2201518 ATTTATATAT
2201528 TAAAAATTTTCTTATATAATTG
1 TAAAAATTTTCTTATATAATTG
** *
2201550 TAAATGTTTT-TTAATTTATATAT-
1 TAAAAATTTTCTT-ATATA-AT-TG
* *
2201573 TAAAAAATTTCTTATATAATCG
1 TAAAAATTTTCTTATATAATTG
2201595 TAAAA
1 TAAAA
2201600 GAGATAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 2 0.05
22 19 0.51
23 13 0.35
24 3 0.08
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
TAAAAATTTTCTTATATAATTG
Found at i:2201559 original size:45 final size:45
Alignment explanation
Indices: 2201509--2201598 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
2201499 GATTACTAAT
* *
2201509 TGTTTTTTAATTTATATATTAAAAATTTTCTTATATAATTGTAAA
1 TGTTTTTTAATTTATATATTAAAAAATTTCTTATATAATCGTAAA
2201554 TGTTTTTTAATTTATATATTAAAAAATTTCTTATATAATCGTAAA
1 TGTTTTTTAATTTATATATTAAAAAATTTCTTATATAATCGTAAA
2201599 AGAGATAGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (45 bp):
TGTTTTTTAATTTATATATTAAAAAATTTCTTATATAATCGTAAA
Found at i:2201776 original size:15 final size:15
Alignment explanation
Indices: 2201756--2201789 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2201746 TGGGATTTAA
*
2201756 GGTTTAAGGGTTATG
1 GGTTTAAGGGTTAGG
*
2201771 GGTTTATGGGTTAGG
1 GGTTTAAGGGTTAGG
2201786 GGTT
1 GGTT
2201790 AGATGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:2202022 original size:7 final size:7
Alignment explanation
Indices: 2202012--2202104 Score: 64
Period size: 7 Copynumber: 13.1 Consensus size: 7
2202002 TATAGATTAT
2202012 GGGTTTA
1 GGGTTTA
2202019 GGGTTTA
1 GGGTTTA
*
2202026 TGGTTTA
1 GGGTTTA
**
2202033 TAGTTTA
1 GGGTTTA
*
2202040 CGGTTTAA
1 GGGTTT-A
*
2202048 GGG-TTG
1 GGGTTTA
2202054 GGGTTTA
1 GGGTTTA
* *
2202061 AGATTTA
1 GGGTTTA
*
2202068 GGGGTTA
1 GGGTTTA
*
2202075 GGGGTTAA
1 -GGGTTTA
2202083 GGG-TTA
1 GGGTTTA
2202089 GGGGTTTA
1 -GGGTTTA
2202097 GGGTTTA
1 GGGTTTA
2202104 G
1 G
2202105 ATTAATTAGT
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
6 5 0.08
7 50 0.76
8 11 0.17
ACGTcount: A:0.18, C:0.01, G:0.41, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:2202035 original size:29 final size:29
Alignment explanation
Indices: 2201993--2202052 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2201983 AAGATGCTAT
*
2201993 TTTAAGGTTTATAGATTATGGGTTT-AGGG
1 TTTAAGGTTTATAGATTA-CGGTTTAAGGG
* *
2202022 TTTATGGTTTATAGTTTACGGTTTAAGGG
1 TTTAAGGTTTATAGATTACGGTTTAAGGG
2202051 TT
1 TT
2202053 GGGGTTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (29 bp):
TTTAAGGTTTATAGATTACGGTTTAAGGG
Found at i:2202736 original size:148 final size:150
Alignment explanation
Indices: 2202579--2202851 Score: 426
Period size: 148 Copynumber: 1.8 Consensus size: 150
2202569 GCGTTTTTCA
** * *
2202579 TAAAAACGCCACTATTGCTTACCTTTTGTTGCGTTTTTCATAAAAACGCTA-AAAAAATCATTTC
1 TAAAAACGCCACTATTGCTTACCTTTTGCGGCATTTTTCATAAAAACGCCACAAAAAATCATTTC
2202643 ATTTTGAACAAAA-GGACGTCATTTT-TTATGCTAAAAATCCTTTATTTTATCTACTAAAAATTA
66 ATTTTGAACAAAATGG-CGTCATTTTGTTATGCTAAAAATCCTTTATTTTATCTACTAAAAATTA
2202706 TTAGTTTGCGGCGTTTTTTTG
130 TTAGTTTGCGGCGTTTTTTTG
*
2202727 TAAAAACGCCGCTATTGCTTACCTTTTGCGGCATTTTTCATAAAAACGCCACAAAAAATCATTTC
1 TAAAAACGCCACTATTGCTTACCTTTTGCGGCATTTTTCATAAAAACGCCACAAAAAATCATTTC
* ** * *
2202792 ATTTTGAACAAAATGGTGTTGTTTTGTTATGCTAAAAATCTTTTATTTTATCTGCTAAAA
66 ATTTTGAACAAAATGGCGTCATTTTGTTATGCTAAAAATCCTTTATTTTATCTACTAAAA
2202852 TGAAATGATT
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
148 46 0.41
149 32 0.29
150 34 0.30
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (150 bp):
TAAAAACGCCACTATTGCTTACCTTTTGCGGCATTTTTCATAAAAACGCCACAAAAAATCATTTC
ATTTTGAACAAAATGGCGTCATTTTGTTATGCTAAAAATCCTTTATTTTATCTACTAAAAATTAT
TAGTTTGCGGCGTTTTTTTG
Found at i:2202922 original size:150 final size:148
Alignment explanation
Indices: 2202609--2202932 Score: 352
Period size: 151 Copynumber: 2.2 Consensus size: 148
2202599 ACCTTTTGTT
*
2202609 GCGTTTTTCATAAAAACGCTA-AAAAAATCATTTCATTTTGAACAAAAGGACGTCATTTTTTATG
1 GCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAAGGACGTCATTTTTTATG
* * *
2202673 CTAAAAATCCTTTATTTTATCTACTAAAAATTATTAGTTTGCGGCGTTTTTTTGTAAAAACGCCG
66 CTAAAAATCCTTTATTTTATCTACTAAAAATGATTA-TTTGCGGCATTTTTATGTAAAAACGCCG
* ** * ** *
2202738 CTATTGCTTACCTTTTGCG
130 CAAAAGCTAACCAATAGCG
* * **
2202757 GCATTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAATGG-TGTTGTTTTGTTA
1 GCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAA-GGACGTCATTTT-TTA
* * *
2202821 TGCTAAAAATCTTTTATTTTATCTGCTAAAATGAAATGATT-TTTGTGGCATTTTTATG-AAAAA
64 TGCTAAAAATCCTTTATTTTATCTACT--AA--AAATGATTATTTGCGGCATTTTTATGTAAAAA
* *
2202884 CGCCGCAAAAGGTAAGCAATAGCG
125 CGCCGCAAAAGCTAACCAATAGCG
*
2202908 GCGTTTTTACA-AAAAACGCCGCAAA
1 GCGTTTTT-CATAAAAACGCCACAAA
2202933 TACTTTTTAA
Statistics
Matches: 146, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
148 19 0.13
149 32 0.22
150 30 0.21
151 40 0.27
152 18 0.12
154 7 0.05
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (148 bp):
GCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAAGGACGTCATTTTTTATG
CTAAAAATCCTTTATTTTATCTACTAAAAATGATTATTTGCGGCATTTTTATGTAAAAACGCCGC
AAAAGCTAACCAATAGCG
Found at i:2204592 original size:193 final size:191
Alignment explanation
Indices: 2204332--2204706 Score: 449
Period size: 193 Copynumber: 2.0 Consensus size: 191
2204322 GTAATCTATA
* *
2204332 ATGGGTTTAAGTCATGGTTTACATTTGGAGCTTTGTGATTAAAAAACATATTATTACTTGAATGG
1 ATGGGTTCAAGTCATGGTTTACATTTGGAACTTTGTGATTAAAAAACATATTATTACTTGAATGG
* * * * * * * *
2204397 AAATGCATTTGCATTTGT-GGATCCTGCAATGCTT-TTTAATTGAACTTTGGGGTTGGAATTGTT
66 AAATGCACTTG-ATTTGTCAGATCCTACAAAGCTTCTTT-AGTCAACTTTGGAGTTGAAATTGTT
* * *
2204460 ATTAGGAAGTAATTGATG-TTTTTATCTTGATGTTAATGAAGACAATAGACTAAGTTGAATTTTT
129 ATTAGGAAGTAATTGATGATTTTT-T-ATGATGTTAAT-AACACAATAGACCAAGTTGAATTTTT
2204524 T
191 T
*
2204525 ATGGGTTCAAGTCATTGGTTTTCATTT-GAACTTTGTGATTACAACACAACA-A-T-TTACTTGA
1 ATGGGTTCAAGTCA-TGGTTTACATTTGGAACTTTGTGATTA-AA-A-AACATATTATTACTTGA
* * *
2204586 ATGGAAATGCACTTGTTTTTTCATATCCTACAAAGCTTCTTTAGTCAACTTTGGAGTTGAAATTG
62 ATGGAAATGCACTTGATTTGTCAGATCCTACAAAGCTTCTTTAGTCAACTTTGGAGTTGAAATTG
* *
2204651 TTATTAGGATGTAATTGATGATTTTTTATGATGTTAATAACATAATAGACCAAGTT
127 TTATTAGGAAGTAATTGATGATTTTTTATGATGTTAATAACACAATAGACCAAGTT
2204707 TGGGACCTTT
Statistics
Matches: 156, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
191 15 0.10
192 14 0.09
193 99 0.63
194 22 0.14
195 2 0.01
196 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (191 bp):
ATGGGTTCAAGTCATGGTTTACATTTGGAACTTTGTGATTAAAAAACATATTATTACTTGAATGG
AAATGCACTTGATTTGTCAGATCCTACAAAGCTTCTTTAGTCAACTTTGGAGTTGAAATTGTTAT
TAGGAAGTAATTGATGATTTTTTATGATGTTAATAACACAATAGACCAAGTTGAATTTTTT
Found at i:2205788 original size:43 final size:43
Alignment explanation
Indices: 2205723--2206014 Score: 372
Period size: 43 Copynumber: 6.8 Consensus size: 43
2205713 TTTTTGTAAA
* * *
2205723 CGCCGCTAAAGGACATGATCTTTAGCGGCATTTGTGATAAAAG
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAG
* * * *
2205766 CGCTGCTAAAGGTAATGATCTTTAGCGGCGTTTGTGGGT-AAAG
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGT-GATAAAAG
* * * *
2205809 CGCCGCCAAAGATCATGTTATTTTAGCGGCGTTTGTGGGT-AAAG
1 CGCCGCTAAAGGTCATGTT-CTTTAGCGGCGTTTGT-GATAAAAG
* *
2205853 CGCCACTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAG
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAG
* *
2205896 AGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAG
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAG
* *
2205939 AGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAG
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAG
* *
2205982 CGCCGCTAAAGATCATGTTCTATAGCGGCGTTT
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
2206015 TTTCACATAA
Statistics
Matches: 223, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
42 2 0.01
43 179 0.80
44 42 0.19
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAG
Found at i:2208391 original size:18 final size:18
Alignment explanation
Indices: 2208364--2208398 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2208354 GTTTCTTTTT
*
2208364 AAAAATTATTTTAGAAAA
1 AAAAAGTATTTTAGAAAA
*
2208382 AAAAAGTATTTTTGAAA
1 AAAAAGTATTTTAGAAA
2208399 TATGTGGTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
AAAAAGTATTTTAGAAAA
Found at i:2212941 original size:19 final size:20
Alignment explanation
Indices: 2212887--2212934 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2212877 ACTTTGGTGT
*
2212887 CCCTGTTTGCACATCTGTGC
1 CCCTGTTTGCACATCTCTGC
*
2212907 CCCTATTTGCACATCTCTGC
1 CCCTGTTTGCACATCTCTGC
2212927 CCCTGTTT
1 CCCTGTTT
2212935 TACATCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.10, C:0.38, G:0.15, T:0.38
Consensus pattern (20 bp):
CCCTGTTTGCACATCTCTGC
Found at i:2218606 original size:19 final size:20
Alignment explanation
Indices: 2218552--2218599 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2218542 ACTTTGGTGT
*
2218552 CCCTGTTTGCACATCTGTGC
1 CCCTGTTTGCACATCTCTGC
*
2218572 CCCTATTTGCACATCTCTGC
1 CCCTGTTTGCACATCTCTGC
2218592 CCCTGTTT
1 CCCTGTTT
2218600 TACATCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.10, C:0.38, G:0.15, T:0.38
Consensus pattern (20 bp):
CCCTGTTTGCACATCTCTGC
Found at i:2222438 original size:46 final size:44
Alignment explanation
Indices: 2222335--2222510 Score: 208
Period size: 45 Copynumber: 3.9 Consensus size: 44
2222325 GCTATATGCC
* *
2222335 TAAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGA
* **
2222379 TATAATTTTGTAAGACCATAGCTGAAAGATGCCTATGGCATCATGA
1 TA-AAATGAGTAAGACCATAGCTGAAAGATG-CTATGGCATCATGA
* * *
2222425 CAGAAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGG
1 TA-AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGA
* * * *
2222470 TAAACAAGACTAAGACCATAGCTGAGAGATGCTATGACATC
1 TAAA-ATGAGTAAGACCATAGCTGAAAGATGCTATGGCATC
2222511 CTTTGATAGT
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
44 4 0.04
45 69 0.62
46 38 0.34
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGA
Found at i:2222492 original size:91 final size:90
Alignment explanation
Indices: 2222337--2222510 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 90
2222327 TATATGCCTA
* ***
2222337 AAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGATATAATTTTGTAAGACCATAGCT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGATATAATCAAGTAAGACCATAGCT
*
2222402 GAAAGATGCCTATGGCATCATGACAG
66 GAAAGATG-CTATGACATCATGACAG
*
2222428 AAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGGTA-AA-CAAGACTAAGACCATAG
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGATATAATCAAG--TAAGACCATAG
*
2222491 CTGAGAGATGCTATGACATC
64 CTGAAAGATGCTATGACATC
2222511 CTTTGATAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 1 0.01
90 11 0.15
91 62 0.84
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (90 bp):
AAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGATATAATCAAGTAAGACCATAGCT
GAAAGATGCTATGACATCATGACAG
Found at i:2222630 original size:27 final size:28
Alignment explanation
Indices: 2222587--2222670 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 28
2222577 ATGGCATCAT
*
2222587 AGATAGCCCAATAGGACGTTAAACAAAG
1 AGATAGCCTAATAGGACGTTAAACAAAG
* ** *
2222615 -GATAGCCTAATGGGACACTAAAC-ACG
1 AGATAGCCTAATAGGACGTTAAACAAAG
* * *
2222641 AGATAGTCTAATAGGATGTTAAACACAG
1 AGATAGCCTAATAGGACGTTAAACAAAG
2222669 AG
1 AG
2222671 TGGTCCACCG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
26 2 0.05
27 37 0.88
28 3 0.07
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.18
Consensus pattern (28 bp):
AGATAGCCTAATAGGACGTTAAACAAAG
Found at i:2225609 original size:13 final size:13
Alignment explanation
Indices: 2225591--2225615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2225581 TAAGTACAAA
2225591 TTAATATAATTTG
1 TTAATATAATTTG
2225604 TTAATATAATTT
1 TTAATATAATTT
2225616 TACAAATTAA
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:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTAATATAATTTG
Found at i:2234735 original size:14 final size:15
Alignment explanation
Indices: 2234716--2234745 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2234706 AAAATTTCTT
2234716 AAAAATCAAG-CAAA
1 AAAAATCAAGTCAAA
2234730 AAAAATCAAGTCAAA
1 AAAAATCAAGTCAAA
2234745 A
1 A
2234746 GCCACTACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.13, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAATCAAGTCAAA
Found at i:2237404 original size:14 final size:14
Alignment explanation
Indices: 2237385--2237411 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2237375 CATTTCTTGG
2237385 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
2237399 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
2237412 ACCGGACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:2239272 original size:20 final size:20
Alignment explanation
Indices: 2239247--2239354 Score: 56
Period size: 20 Copynumber: 5.3 Consensus size: 20
2239237 ATGTGTAATT
2239247 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* ** * * *
2239267 CAGGGGCACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAA-A
* *
2239288 TAGGGGTATCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * ** * *
2239308 TAGGGGCACGTATGTGA-AATT
1 CAGGGGTACCAAAGT-ACAA-A
2239329 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
2239349 CAGGGG
1 CAGGGG
2239355 CACATATGTG
Statistics
Matches: 58, Mismatches: 26, Indels: 8
0.63 0.28 0.09
Matches are distributed among these distances:
20 33 0.57
21 25 0.43
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.18
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:2239272 original size:41 final size:41
Alignment explanation
Indices: 2239227--2239415 Score: 270
Period size: 41 Copynumber: 4.6 Consensus size: 41
2239217 GAATGTAACT
*
2239227 AGGGGCACGTATGTGTAATTCAGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
* * *
2239268 AGGGGCACGTATGTGCAATTTAGGGGTATCAAAGTACAAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
*
2239309 AGGGGCACGTATGTGAAATTCAGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
* **
2239350 AGGGGCACATATGTGCAATTCAGGGGTACTGAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
* ** *
2239391 AGGTGCAATTATGTGCAATTTAGGG
1 AGGGGCACGTATGTGCAATTCAGGG
2239416 TAAAATTAAT
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 132 1.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.22
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
Found at i:2251639 original size:16 final size:18
Alignment explanation
Indices: 2251612--2251645 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2251602 ATGATAATAT
2251612 TGTGCAAATGATA-TAAA
1 TGTGCAAATGATAGTAAA
2251629 TGTGC-AATGATAGTAAA
1 TGTGCAAATGATAGTAAA
2251646 CGAAAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (18 bp):
TGTGCAAATGATAGTAAA
Found at i:2260079 original size:26 final size:25
Alignment explanation
Indices: 2260041--2260112 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
2260031 TGGAGGAAGT
*
2260041 ATACTGTACTGGCAGCTTTGCTACG
1 ATACTGTACTGGCAGCTTTGCTACA
* *
2260066 ATACTGTTACTGGCAGCTTTACTGCA
1 ATACTG-TACTGGCAGCTTTGCTACA
*
2260092 ATACTAATACTGGCAGCTTTG
1 ATACT-GTACTGGCAGCTTTG
2260113 TTGCGATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 6 0.15
26 34 0.85
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (25 bp):
ATACTGTACTGGCAGCTTTGCTACA
Found at i:2266401 original size:33 final size:33
Alignment explanation
Indices: 2266333--2266403 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
2266323 AGGCTCGATC
**
2266333 ATAGGCTAGAGGCTCGCATTATCGACACTGGGA
1 ATAGGCTAGAGGCTCGCATTATCGACACTAAGA
* *
2266366 ATAGGCTAGAGGCTTGCATTGTC-ACCACTAAGA
1 ATAGGCTAGAGGCTCGCATTATCGA-CACTAAGA
2266399 ATAGG
1 ATAGG
2266404 AAAGTCCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (33 bp):
ATAGGCTAGAGGCTCGCATTATCGACACTAAGA
Found at i:2267123 original size:277 final size:277
Alignment explanation
Indices: 2266624--2267457 Score: 1301
Period size: 277 Copynumber: 3.0 Consensus size: 277
2266614 ACTGGTACAC
*
2266624 TTGCGGACACCATCGATTTAATTTAATTTATATTTAGTGTGAGATTTAATTATAAACGGTAACAT
1 TTGCGGACACCACCGATTTAATTTAATTTATATTTAGTGTGAGATTTAATTATAAACGGTAACAT
* * *
2266689 GTTTATAGGCGGTCACTCTCTACAATAAAGAAATCGTCACCGCGTGAAGTGGAACTTCGCAGTAT
66 GTTTATAGGCAGTCACTCTCTACAACAAAGAAATCGTCACCCCGTGAAGTGGAACTTCGCAGTAT
* *
2266754 AGACGAAGTTTAACGAAGTACTTTGCCACAAAGTTACCAACCTTATCTCATCTAAGTCTCACGAC
131 AGACGAAGTTCAACGAAGTACTTTGCCACAAAGTTACCAACCTTATCTCGTCTAAGTCTCACGAC
2266819 TTAGGCGATCTTCACCAGTGCAGTCTCCCAAACAGTACCAGCTCTCCAAAAGAGGGTATGACAAT
196 TTAGGCGATCTTCACCAGTGCAGTCTCCCAAACAGTACCAGCTCTCCAAAAGAGGGTATGACAAT
2266884 ATTATAGTGGAATGAAT
261 ATTATAGTGGAATGAAT
*
2266901 TTGCAGACACCACCGATTTAATTTAATTTATATTTAGTGTGAGATTTAATTATAAACGGTAACAT
1 TTGCGGACACCACCGATTTAATTTAATTTATATTTAGTGTGAGATTTAATTATAAACGGTAACAT
* *
2266966 GTTTATAGGCAGTCACTCTCTATAACAAAGAAATCGTCACCCCGTGAAGTGGAACTTCGCAATAT
66 GTTTATAGGCAGTCACTCTCTACAACAAAGAAATCGTCACCCCGTGAAGTGGAACTTCGCAGTAT
* * *
2267031 AGACAAAGTTCAACGAAGTACTTTGCCACGAAGTTACCAACCTTATCTCGTCTAAGTCTTACGAC
131 AGACGAAGTTCAACGAAGTACTTTGCCACAAAGTTACCAACCTTATCTCGTCTAAGTCTCACGAC
* * *
2267096 TTAGGCGATCTTCTCCAATGCAGTCTCCCAAACATTACCAGCT-TGCCAAAAGAGGGTATGACAA
196 TTAGGCGATCTTCACCAGTGCAGTCTCCCAAACAGTACCAGCTCT-CCAAAAGAGGGTATGACAA
*
2267160 TATTCTAGTGGAATGAAT
260 TATTATAGTGGAATGAAT
* * * * *
2267178 TTGTGGAAACCACTGATTTAATTTAATTTATATTTAGTGTGAGATTTGATTATAAATGGTAACAT
1 TTGCGGACACCACCGATTTAATTTAATTTATATTTAGTGTGAGATTTAATTATAAACGGTAACAT
* * * * * * *
2267243 GTTTATAGGCAGTCACTCTCCAGAACAAACAAATAGTCACCTCGCGAAGTGGAACTTCGTAGTAT
66 GTTTATAGGCAGTCACTCTCTACAACAAAGAAATCGTCACCCCGTGAAGTGGAACTTCGCAGTAT
* * * * *
2267308 AGACGAATTTCAATGAAGTACTTTGCCACAAAGTTACCTACCTTATCCCGTCTAAGTCTCATGAC
131 AGACGAAGTTCAACGAAGTACTTTGCCACAAAGTTACCAACCTTATCTCGTCTAAGTCTCACGAC
* * * * *
2267373 TTAGGCGATCTTCGCCAGTGCAGTCTCCCAAACAGTACTAGCTCGCAAAAAGAGAGTATGACAAT
196 TTAGGCGATCTTCACCAGTGCAGTCTCCCAAACAGTACCAGCTCTCCAAAAGAGGGTATGACAAT
*
2267438 ATTATAGTAGAATGAAT
261 ATTATAGTGGAATGAAT
2267455 TTG
1 TTG
2267458 TGACTAAATG
Statistics
Matches: 508, Mismatches: 47, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
276 1 0.00
277 507 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (277 bp):
TTGCGGACACCACCGATTTAATTTAATTTATATTTAGTGTGAGATTTAATTATAAACGGTAACAT
GTTTATAGGCAGTCACTCTCTACAACAAAGAAATCGTCACCCCGTGAAGTGGAACTTCGCAGTAT
AGACGAAGTTCAACGAAGTACTTTGCCACAAAGTTACCAACCTTATCTCGTCTAAGTCTCACGAC
TTAGGCGATCTTCACCAGTGCAGTCTCCCAAACAGTACCAGCTCTCCAAAAGAGGGTATGACAAT
ATTATAGTGGAATGAAT
Found at i:2271571 original size:32 final size:32
Alignment explanation
Indices: 2271535--2271598 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
2271525 AGCTCTTAGT
*
2271535 TTTTTCATGTTTTCAAAGAGTAGAACAATGAA
1 TTTTTCATGTTGTCAAAGAGTAGAACAATGAA
* *
2271567 TTTTTCGTGTTGTCAAAGAGTTGAACAATGAA
1 TTTTTCATGTTGTCAAAGAGTAGAACAATGAA
2271599 AATAGATGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTAGAACAATGAA
Found at i:2274316 original size:105 final size:105
Alignment explanation
Indices: 2274147--2274355 Score: 409
Period size: 105 Copynumber: 2.0 Consensus size: 105
2274137 TTTGTCCGTC
2274147 CACATATTGGTACCTGAGCCTAATGCCGTTAAATTTTTACTAACGTGGTAGCACTGGCCAATCAC
1 CACATATTGGTACCTGAGCCTAATGCCGTTAAATTTTTACTAACGTGGTAGCACTGGCCAATCAC
2274212 GTGCCACCACGTGGCATCCTCTTGTACTTTTTTTTCTTTA
66 GTGCCACCACGTGGCATCCTCTTGTACTTTTTTTTCTTTA
2274252 CACATATTGGTACCTGAGCCTAATGCCGTTAAATTTTTACTAACGTGGTAGCACTGGCCAATCAC
1 CACATATTGGTACCTGAGCCTAATGCCGTTAAATTTTTACTAACGTGGTAGCACTGGCCAATCAC
*
2274317 GTGCCACCACGTGGCATCCTCTTGTTCTTTTTTTTCTTT
66 GTGCCACCACGTGGCATCCTCTTGTACTTTTTTTTCTTT
2274356 TTCTTTTTCA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (105 bp):
CACATATTGGTACCTGAGCCTAATGCCGTTAAATTTTTACTAACGTGGTAGCACTGGCCAATCAC
GTGCCACCACGTGGCATCCTCTTGTACTTTTTTTTCTTTA
Found at i:2275524 original size:26 final size:25
Alignment explanation
Indices: 2275506--2275599 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 25
2275496 AGAAGAGCAG
*
2275506 GAAAAAGAAAAAAGGAAGAAAGAAA
1 GAAAAAAAAAAAAGGAAGAAAGAAA
* *
2275531 GAAAAAAAAAAAA-AAAAAAGAGGAACAA
1 GAAAAAAAAAAAAGGAAGAA-A-G-A-AA
2275559 GAGGAAAAAGAAAAAAGGAAGAAAGAAA
1 GA--AAAAA-AAAAAAGGAAGAAAGAAA
2275587 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
2275600 AAAAAAGAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
24 4 0.07
25 19 0.34
26 6 0.11
27 1 0.02
28 8 0.14
29 1 0.02
30 6 0.11
31 7 0.12
32 4 0.07
ACGTcount: A:0.79, C:0.01, G:0.20, T:0.00
Consensus pattern (25 bp):
GAAAAAAAAAAAAGGAAGAAAGAAA
Found at i:2275524 original size:29 final size:27
Alignment explanation
Indices: 2275491--2275602 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
2275481 GAAGAAGAGT
2275491 GAAGAAGAAGAGCAGGAAAAAGAAAAAAG
1 GAAGAAGAA-AG-AGGAAAAAGAAAAAAG
* * *
2275520 GAAGAAAGAAAGA-AAAAAAAAAAAAAA
1 GAAG-AAGAAAGAGGAAAAAGAAAAAAG
* *
2275547 AAAGAGGAACAAGAGGAAAAAGAAAAAAG
1 GAAGAAG-A-AAGAGGAAAAAGAAAAAAG
** *
2275576 GAAGAAAGAAAGAAAAAAAAAAAAAAA
1 GAAG-AAGAAAGAGGAAAAAGAAAAAA
2275603 AAAGAGGTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
26 2 0.03
27 15 0.23
28 20 0.31
29 21 0.32
30 7 0.11
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (27 bp):
GAAGAAGAAAGAGGAAAAAGAAAAAAG
Found at i:2275587 original size:56 final size:56
Alignment explanation
Indices: 2275504--2275619 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
2275494 GAAGAAGAGC
2275504 AGGAAAAAGAAAAAAGGAAGAAAGAAAGAAAAAAAAAAAAAAAAAAGAGGAACAAG
1 AGGAAAAAGAAAAAAGGAAGAAAGAAAGAAAAAAAAAAAAAAAAAAGAGGAACAAG
*
2275560 AGGAAAAAGAAAAAAGGAAGAAAGAAAGAAAAAAAAAAAAAAAAAAGAGGTACAAG
1 AGGAAAAAGAAAAAAGGAAGAAAGAAAGAAAAAAAAAAAAAAAAAAGAGGAACAAG
2275616 AGGA
1 AGGA
2275620 TTCCACGTGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.01
Consensus pattern (56 bp):
AGGAAAAAGAAAAAAGGAAGAAAGAAAGAAAAAAAAAAAAAAAAAAGAGGAACAAG
Found at i:2275777 original size:31 final size:31
Alignment explanation
Indices: 2275739--2275806 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
2275729 CCATAAAAAT
2275739 CAATTTGGGAGAAGTGAATAAATTCGAGTAC
1 CAATTTGGGAGAAGTGAATAAATTCGAGTAC
*
2275770 CAATTTGGGAGAAGTGAATAAATTTGAGTAC
1 CAATTTGGGAGAAGTGAATAAATTCGAGTAC
2275801 CAATTT
1 CAATTT
2275807 ATGTCATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (31 bp):
CAATTTGGGAGAAGTGAATAAATTCGAGTAC
Found at i:2276390 original size:8 final size:8
Alignment explanation
Indices: 2276377--2276402 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2276367 TTAAGTTGTA
2276377 TAATATTT
1 TAATATTT
2276385 TAATATTT
1 TAATATTT
2276393 TAATATTT
1 TAATATTT
2276401 TA
1 TA
2276403 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:2277526 original size:15 final size:15
Alignment explanation
Indices: 2277506--2277545 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
2277496 TTTTTTAAAA
2277506 ATTGAAATTATTTTT
1 ATTGAAATTATTTTT
2277521 ATTGAAATTATTTTT
1 ATTGAAATTATTTTT
*
2277536 ATTTAAATTA
1 ATTGAAATTA
2277546 ATAAACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
ATTGAAATTATTTTT
Found at i:2279107 original size:112 final size:113
Alignment explanation
Indices: 2278952--2279177 Score: 445
Period size: 112 Copynumber: 2.0 Consensus size: 113
2278942 TAATTTAAAG
2278952 AAAATAAATGTAATTATCTAAAAAAAAGGTTTCAAAATGACTGTATAGGTTTGTTTACGGAGAGG
1 AAAATAAATGTAATTATCTAAAAAAAAGGTTTCAAAATGACTGTATAGGTTTGTTTACGGAGAGG
2279017 TTTGAAAAATATAATCAATAAATCAAACCGAAAATGCTGAATGTGTGC
66 TTTGAAAAATATAATCAATAAATCAAACCGAAAATGCTGAATGTGTGC
2279065 AAAATAAATG-AATTATCTAAAAAAAAGGTTTCAAAATGACTGTATAGGTTTGTTTACGGAGAGG
1 AAAATAAATGTAATTATCTAAAAAAAAGGTTTCAAAATGACTGTATAGGTTTGTTTACGGAGAGG
2279129 TTTGAAAAATATAATCAATAAATCAAACCGAAAATGCTGAATGTGTGC
66 TTTGAAAAATATAATCAATAAATCAAACCGAAAATGCTGAATGTGTGC
2279177 A
1 A
2279178 TTCATTTTGA
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 103 0.91
113 10 0.09
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.29
Consensus pattern (113 bp):
AAAATAAATGTAATTATCTAAAAAAAAGGTTTCAAAATGACTGTATAGGTTTGTTTACGGAGAGG
TTTGAAAAATATAATCAATAAATCAAACCGAAAATGCTGAATGTGTGC
Found at i:2283391 original size:17 final size:18
Alignment explanation
Indices: 2283369--2283407 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2283359 GCACATACAC
2283369 TTCATGTAAAA-CTTTAT
1 TTCATGTAAAATCTTTAT
*
2283386 TTCATGTAAAATTTTTAT
1 TTCATGTAAAATCTTTAT
2283404 TTCA
1 TTCA
2283408 CAAAGCCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (18 bp):
TTCATGTAAAATCTTTAT
Found at i:2283493 original size:23 final size:23
Alignment explanation
Indices: 2283450--2283500 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2283440 AGGATACACG
*
2283450 AAATAACATGAGCAATGAAGTCA
1 AAATAACATGAGCAACGAAGTCA
* *
2283473 AAATAACATGGGC-ACGAAAGTGA
1 AAATAACATGAGCAACG-AAGTCA
2283496 AAATA
1 AAATA
2283501 TCACTAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.16
Consensus pattern (23 bp):
AAATAACATGAGCAACGAAGTCA
Found at i:2291001 original size:20 final size:20
Alignment explanation
Indices: 2290976--2291019 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2290966 AATAGTTATA
*
2290976 AAAAATCAAAACTTTGTTTT
1 AAAAATCAAAACTTTCTTTT
**
2290996 AAAAATTTAAACTTTCTTTT
1 AAAAATCAAAACTTTCTTTT
2291016 AAAA
1 AAAA
2291020 TGACTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATCAAAACTTTCTTTT
Found at i:2291197 original size:151 final size:154
Alignment explanation
Indices: 2290919--2291296 Score: 487
Period size: 158 Copynumber: 2.4 Consensus size: 154
2290909 ATCAAAGTTC
* * * * * * * *
2290919 TTTAGAAAAAATTATTACTTTTCTTAAAAATCAAAA-TCTTATTTTAAAATAG-TTATAAAAAAT
1 TTTA-AAAAAAATACTATTTTTCTTAAAGATTAAAACTTTTATTTTGAAATAGTTTAAAAAAAAT
* * *
2290982 CAAAACTTTGTTTTAAAAATTTAAACTTTCTTTTAAAATGACTTAAAAAAAATAGATTTTTATTT
65 AAAAACATTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTTAAAAAAAATAGATTTTTATTT
2291047 TTCAAAATCTAAACTTTCTCC-TTT
130 TTCAAAATCTAAACTTTCTCCTTTT
* * *
2291071 TTT-AAAAGAATACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAGTAGTTTAAAAAAAATA
1 TTTAAAAAAAATACTATTTTTCTTAAAGATTAAAACTTTTATTTTGAAATAGTTTAAAAAAAATA
* *
2291135 AAAACATTGTTTTAAAATTTTAAACTTTCCTTTAAAATGAC-TAAAAACAATAGATTTTTATTTT
66 AAAACATTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTTAAAAAAAATAGATTTTTATTTT
2291199 TCAAAATCTAAACTTTCTCCTTTTTTTTT
131 TCAAAATCTAAACTTTCTCC-----TTTT
* * * *
2291228 TTTAAAAAAAATACTATTTTTCTTAAAGATTAAAACTTTTACTTTGAAATAGTTGAAAACAATTA
1 TTTAAAAAAAATACTATTTTTCTTAAAGATTAAAACTTTTATTTTGAAATAGTTTAAAAAAAATA
2291293 AAAA
66 AAAA
2291297 TTTCCTTTAA
Statistics
Matches: 194, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
150 24 0.12
151 55 0.28
152 51 0.26
157 6 0.03
158 58 0.30
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (154 bp):
TTTAAAAAAAATACTATTTTTCTTAAAGATTAAAACTTTTATTTTGAAATAGTTTAAAAAAAATA
AAAACATTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTTAAAAAAAATAGATTTTTATTTT
TCAAAATCTAAACTTTCTCCTTTT
Found at i:2291568 original size:18 final size:18
Alignment explanation
Indices: 2291536--2291570 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2291526 CCTATGGCAA
*
2291536 AAAAAAAACAGATAGAAG
1 AAAAAAAACAAATAGAAG
*
2291554 AAAAAAAAGAAATAGAA
1 AAAAAAAACAAATAGAA
2291571 TGCCTGTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAAAAAACAAATAGAAG
Found at i:2292208 original size:42 final size:42
Alignment explanation
Indices: 2292087--2292361 Score: 315
Period size: 42 Copynumber: 6.5 Consensus size: 42
2292077 AGATACCAAA
* *
2292087 CTGGGCCTCTAAATGCAATGAAAAGTCACTGCAAT-AATCTCCACAC
1 CTGGGCCTCTAAATGCAATGAAAAGT-A----AATGGACCTCCACAC
* *
2292133 CTGGGCCTCT-AA-CCTA-GAAAAGTAAATGGACCTCCACAC
1 CTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
* * *
2292172 CTGGGTCTCTAAATGCAATGAAAAGTGAATGGACCTCCAAAC
1 CTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
* * *
2292214 CTGGGTCTCTAAATGCAATGAAAAGTAAATAGACCTCTACAC
1 CTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
* * *
2292256 CTGAGCCTCTAAATGAAATGAAAAGCAAATGGACCTCCACAC
1 CTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
* * *
2292298 ATGGGCCTCTAAATGAAATGAAAAGTAAATAGACCTCCACAC
1 CTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
* *
2292340 CTGGACCTCTAAATACAATGAA
1 CTGGGCCTCTAAATGCAATGAA
2292362 TGTTTTCCTT
Statistics
Matches: 198, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.02
39 18 0.09
40 2 0.01
41 2 0.01
42 152 0.77
43 7 0.04
44 2 0.01
45 2 0.01
46 10 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (42 bp):
CTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
Found at i:2301678 original size:25 final size:26
Alignment explanation
Indices: 2301628--2301683 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
2301618 AAAAAAATGC
* *
2301628 AAAATTAAATCATAAAGCATTGCGAA
1 AAAATTAAATCATAAAACATTACGAA
2301654 AAAATTCAAAT-ATAAAACA-TACGAA
1 AAAATT-AAATCATAAAACATTACGAA
*
2301679 TAAAT
1 AAAAT
2301684 GCTCATGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 9 0.35
26 13 0.50
27 4 0.15
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (26 bp):
AAAATTAAATCATAAAACATTACGAA
Done.