Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 200 of 325
Found at i:64824061 original size:23 final size:25
Alignment explanation
Indices: 64824016--64824062 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
64824006 AATAAATATA
*
64824016 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
64824041 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
64824063 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:64825359 original size:45 final size:45
Alignment explanation
Indices: 64825305--64825426 Score: 192
Period size: 45 Copynumber: 2.7 Consensus size: 45
64825295 TTTCATCGGT
64825305 ATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCACCGGC
1 ATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGGC
* *
64825350 ATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTTACTGGC
1 ATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGC
* *
64825395 ATTATAGCATGCTAGGCTCAAAGGCCCAAATA
1 ATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
64825427 ATACTGTGCG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 3 0.04
45 69 0.96
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (45 bp):
ATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGC
Found at i:64828795 original size:47 final size:47
Alignment explanation
Indices: 64828736--64828869 Score: 160
Period size: 47 Copynumber: 2.9 Consensus size: 47
64828726 TATCTGCTCG
* *
64828736 ACCAGTGGTTTATCCACAATGTATTTTAGTCGGCAGTCACCTGCTTA
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
* * * * * * *
64828783 ACTAGTGATTTATCCACAACGTATCTTAGTCGACAATCATCTCCTTG
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
* * *
64828830 ACCAATGGTTTATCCACAACGTATTTTAGTCAGTAGTCAC
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCAC
64828870 TTGATCGAGT
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (47 bp):
ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
Found at i:64830821 original size:57 final size:57
Alignment explanation
Indices: 64830733--64830848 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 57
64830723 ATTGACCTCA
** * *
64830733 TTATAGAAAGGATTTAGTCTGGACTGGTAATCC-AATATAAGCCCTCT-TGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAAT-TAAGCCCT-TATGAGCATATG
* *
64830790 TTATAGATAGGATTTAACCCGGACGGGTAATCCTAATTAAGCTCTTATGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
64830847 TT
1 TT
64830849 GGAAACATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
56 1 0.02
57 47 0.92
58 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (57 bp):
TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
Found at i:64833005 original size:21 final size:21
Alignment explanation
Indices: 64832970--64833011 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64832960 ATCTATCTTC
*
64832970 TTTATTTTCTTTTTTA-TTGT
1 TTTATTTTCTATTTTACTTGT
64832990 TTTATTGTTCTATTTTACTTGT
1 TTTATT-TTCTATTTTACTTGT
64833012 CTTAGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTATTTTCTATTTTACTTGT
Found at i:64841489 original size:25 final size:25
Alignment explanation
Indices: 64841460--64841509 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
64841450 GAGGTTTATC
64841460 AAGGTCATTTAGGAGTATAATTAGG
1 AAGGTCATTTAGGAGTATAATTAGG
64841485 AAGGTCATTTAGGAGTATAATTAGG
1 AAGGTCATTTAGGAGTATAATTAGG
64841510 CCATGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (25 bp):
AAGGTCATTTAGGAGTATAATTAGG
Found at i:64847966 original size:9 final size:9
Alignment explanation
Indices: 64847916--64847968 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
64847906 ATAAACATGG
64847916 TATGTATGA
1 TATGTATGA
64847925 TATGCTCATGA
1 TATG-T-ATGA
*
64847936 CATGTATGA
1 TATGTATGA
*
64847945 TATGCACATGA
1 TATG--TATGA
64847956 TATGTATGA
1 TATGTATGA
64847965 TATG
1 TATG
64847969 CACATGATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 19 0.53
10 2 0.06
11 15 0.42
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:64847976 original size:20 final size:20
Alignment explanation
Indices: 64847910--64847976 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
64847900 ATTTTGATAA
*
64847910 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
64847930 TCATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
64847950 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
64847970 ACATGAT
1 ACATGAT
64847977 GCATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:64848139 original size:25 final size:24
Alignment explanation
Indices: 64848026--64848143 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
64848016 GAGGAAGTGA
*
64848026 AAAAGGGCTTATG-CACAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64848049 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
64848072 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
64848096 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64848120 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
64848144 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
22 12 0.14
23 8 0.10
24 53 0.63
25 11 0.13
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:64848372 original size:31 final size:31
Alignment explanation
Indices: 64848337--64848400 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
64848327 CGTTCACAGT
*
64848337 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
64848368 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
64848399 AA
1 AA
64848401 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:64854475 original size:11 final size:11
Alignment explanation
Indices: 64854439--64854494 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64854429 CATGGTATGT
64854439 ATGATATGCAC
1 ATGATATGCAC
* *
64854450 ATGACATG--T
1 ATGATATGCAC
64854459 ATGATATGCAC
1 ATGATATGCAC
*
64854470 ATGATATG--T
1 ATGATATGCAC
64854479 ATGATATGCAC
1 ATGATATGCAC
64854490 ATGAT
1 ATGAT
64854495 GTATTTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:64854494 original size:20 final size:20
Alignment explanation
Indices: 64854428--64854494 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
64854418 ATTTTGATAG
*
64854428 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
64854448 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
64854468 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
64854488 ACATGAT
1 ACATGAT
64854495 GTATTTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:64854661 original size:25 final size:24
Alignment explanation
Indices: 64854544--64854662 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
64854534 GAGGAAGTGA
64854544 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
64854568 -AAAGGGCTTATGCCCCAGTAATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
64854591 AAAAGGGCTTACGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
* *
64854615 AAAAGGGCTTTTGCCCCGGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64854639 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
64854663 ATGATAAAGT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
23 21 0.26
24 49 0.61
25 10 0.12
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:64854891 original size:31 final size:31
Alignment explanation
Indices: 64854856--64854919 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
64854846 CGTTCACAAT
* *
64854856 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
64854887 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
64854918 AA
1 AA
64854920 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:64867792 original size:48 final size:48
Alignment explanation
Indices: 64867738--64868003 Score: 290
Period size: 48 Copynumber: 5.6 Consensus size: 48
64867728 ATATTGGTGT
** * *
64867738 CGATGCCATGTCTTAGACATGGTATTACACTAGCACACATATC-ATCGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAT-GC
** * *
64867786 TAATGCCATGTTCCAGACATGGTCTTACACTGGTACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* *
64867834 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* * **
64867882 CGATGTCATGTCCCAGACATGATCTTACACTGGCACACATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* * * * * *
64867930 CGATGCCATGTTCCAGACATGG---T-CACTGGCTCTCATCTCGGATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AATGC
*
64867975 TGATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
64868004 TGGGATCTCA
Statistics
Matches: 180, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
44 13 0.07
45 22 0.12
48 141 0.78
49 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
Found at i:64874486 original size:8 final size:8
Alignment explanation
Indices: 64874473--64874497 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
64874463 TTATCAGCTC
64874473 TTATTATT
1 TTATTATT
64874481 TTATTATT
1 TTATTATT
64874489 TTATTATT
1 TTATTATT
64874497 T
1 T
64874498 CAAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:64875152 original size:13 final size:14
Alignment explanation
Indices: 64875136--64875168 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
64875126 ATATGATTTT
64875136 TATTTTA-AAAATC
1 TATTTTATAAAATC
64875149 TATTTTATAAAATC
1 TATTTTATAAAATC
64875163 TATTTT
1 TATTTT
64875169 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTATAAAATC
Found at i:64875257 original size:16 final size:17
Alignment explanation
Indices: 64875236--64875267 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
64875226 TCTACATAGA
64875236 TTTTTAATTTT-AATAT
1 TTTTTAATTTTGAATAT
64875252 TTTTTAATTTTGAATA
1 TTTTTAATTTTGAATA
64875268 AAACATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTAATTTTGAATAT
Found at i:64887522 original size:19 final size:19
Alignment explanation
Indices: 64887498--64887535 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64887488 TTAATTAGGC
*
64887498 CTTAATTAAGTGAAATTAG
1 CTTAATTAAGAGAAATTAG
64887517 CTTAATTAAGAGAAATTAG
1 CTTAATTAAGAGAAATTAG
64887536 GAAAAAGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (19 bp):
CTTAATTAAGAGAAATTAG
Found at i:64887871 original size:7 final size:7
Alignment explanation
Indices: 64887859--64887883 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64887849 AGTAAATATA
64887859 TATTTAT
1 TATTTAT
64887866 TATTTAT
1 TATTTAT
64887873 TATTTAT
1 TATTTAT
64887880 TATT
1 TATT
64887884 ACTAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:64888207 original size:14 final size:15
Alignment explanation
Indices: 64888190--64888218 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64888180 GAAATGAAAT
64888190 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
64888204 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
64888219 GAAGCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:64889101 original size:13 final size:14
Alignment explanation
Indices: 64889080--64889119 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
64889070 ATTCGATTGG
64889080 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
64889093 AATATGAATTAAAT
1 AAAATGAATTAAAT
64889107 AAAAGTGAATTAA
1 AAAA-TGAATTAA
64889120 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:64890018 original size:7 final size:7
Alignment explanation
Indices: 64890006--64890035 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
64889996 ATATATACAT
64890006 AACCCTA
1 AACCCTA
64890013 AACCCTA
1 AACCCTA
64890020 AACCCTA
1 AACCCTA
64890027 AACCCTA
1 AACCCTA
64890034 AA
1 AA
64890036 TAATATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:64890772 original size:26 final size:26
Alignment explanation
Indices: 64890743--64890846 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
64890733 TGGTACAAAT
*
64890743 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
64890769 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
64890795 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
64890821 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
64890847 AGATGGGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:64898333 original size:43 final size:43
Alignment explanation
Indices: 64898267--64898537 Score: 389
Period size: 43 Copynumber: 6.3 Consensus size: 43
64898257 CATAGGATTT
* * *
64898267 TCGAAATGTGATTACATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
64898310 TCGATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
64898353 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
64898396 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
64898439 TCGATATGTGATTACGTGTAAGACCGCGTCTGGAATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * * * ***
64898482 TCGATATGCGATTACGAGTAATACCATGTTTAATACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
64898525 TCAATATGTGATT
1 TCGATATGTGATT
64898538 TCGATATGTG
Statistics
Matches: 206, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 206 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:64898569 original size:56 final size:56
Alignment explanation
Indices: 64898496--64898646 Score: 223
Period size: 56 Copynumber: 2.7 Consensus size: 56
64898486 TATGCGATTA
* * *
64898496 CGAGTAATACCATGTTTAATACGTTGGCATCAATATGTGATT-TCGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCT-GATATGTGTGTG
*
64898552 CGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCTGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTG
* * *
64898608 CAAGTAAGACCGCGTTTAATACGTTGGCATTGATATGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTG
64898647 TGTGTGAGTA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
56 85 0.99
57 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (56 bp):
CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTG
Found at i:64898657 original size:43 final size:43
Alignment explanation
Indices: 64898595--64898685 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
64898585 TAGGTGATTC
* *
64898595 TGATATGTGTGTGCAAGTAAGACCGCGTTTAATACGTTGGCAT
1 TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
** * *
64898638 TGATATGTGTGTGTGAGTAAGACCATGCTTAATATGTTGGCAT
1 TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
*
64898681 CGATA
1 TGATA
64898686 GGTGATTCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.34
Consensus pattern (43 bp):
TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
Found at i:64898742 original size:99 final size:99
Alignment explanation
Indices: 64898538--64898744 Score: 254
Period size: 99 Copynumber: 2.1 Consensus size: 99
64898528 ATATGTGATT
*
64898538 TCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
1 TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
* * * * * * *
64898603 GTGTGCAAGTAAGACCGCGTTTAATACGTTGGCA
66 GTGTACAAGAAAAACCGCGTCTAAGACCTTGACA
* * * *
64898637 TTGATATGTGTGTGTGAGTAAGACCATGCTTAATATGTTGGCATCGATAGGTGATTCTGATATGT
1 TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
* * **
64898702 GTTTACGAGAAAAACC-CTGTCTGGGACCTTGACA
66 GTGTACAAGAAAAACCGC-GTCTAAGACCTTGACA
64898736 TCGATATGT
1 TCGATATGT
64898745 AATTACATGT
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
98 1 0.01
99 89 0.99
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (99 bp):
TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
GTGTACAAGAAAAACCGCGTCTAAGACCTTGACA
Found at i:64900981 original size:31 final size:31
Alignment explanation
Indices: 64900849--64900981 Score: 221
Period size: 31 Copynumber: 4.3 Consensus size: 31
64900839 TTACTAGGCT
64900849 GAAGCCTTTTCATAAATCATATCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
**
64900880 GAAGCCTCATCATAAATCATATCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
*
64900911 GAAGCCTTATCATAAATCATATCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
* *
64900942 GAAGCCTTTTCATAAATCATATCATTGGGCT
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
64900973 GAAGCCTTT
1 GAAGCCTTT
64900982 ACTGTAAACG
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 96 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTGGGCC
Found at i:64901218 original size:23 final size:24
Alignment explanation
Indices: 64901192--64901243 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
64901182 AGCCTAGCCT
64901192 CTTTTAATAA-CTAGGGCAAAACC
1 CTTTTAATAAGCTAGGGCAAAACC
* * *
64901215 CTTTTGATAAGCTGGGGCAAAGCC
1 CTTTTAATAAGCTAGGGCAAAACC
64901239 CTTTT
1 CTTTT
64901244 CGGTAAACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (24 bp):
CTTTTAATAAGCTAGGGCAAAACC
Found at i:64901259 original size:25 final size:25
Alignment explanation
Indices: 64901200--64901293 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
64901190 CTCTTTTAAT
* *
64901200 AACTAGGGCAAAACCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
64901224 AGCTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
64901249 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
64901274 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
64901294 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 17 0.27
25 45 0.73
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:64902164 original size:27 final size:27
Alignment explanation
Indices: 64902102--64902203 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 27
64902092 GGGCATATTC
*
64902102 GTCATTTTACCATACAGGGGTATTATG
1 GTCATTTTACCATACAGGGGTATTATA
* *
64902129 GTCACTTTACCCTACAGGGGCT-TTATA
1 GTCATTTTACCATACAGGGG-TATTATA
* *
64902156 GTCTTTTTACCTAATA-A-GGGTATTTTA
1 GTCATTTTACC--ATACAGGGGTATTATA
* * *
64902183 GTCATTTCACCCTACAAGGGT
1 GTCATTTTACCATACAGGGGT
64902204 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
25 2 0.03
26 2 0.03
27 51 0.86
28 2 0.03
29 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTATA
Found at i:64902250 original size:27 final size:27
Alignment explanation
Indices: 64902217--64902513 Score: 181
Period size: 27 Copynumber: 11.0 Consensus size: 27
64902207 TTGGTAAATC
64902217 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
64902244 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* *
64902272 TAGAAAGTCAAGGGTATTTCTA-TAATTT
1 TACAAA-CCAAGGGTATTTC-AGTAATTT
** ** * **
64902300 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
64902327 TACAAATTAAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * **
64902354 CACAAA-CTAGTGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* * **
64902381 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
64902408 TACAAACCAGGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * **
64902435 TACAGA-CTAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * *
64902461 TACTAATCAAGGGTATTT-TGATAATTT
1 TACAAACCAAGGGTATTTCAG-TAATTT
** * *
64902488 TACAAGTCGAGGGTATTTCAATAATT
1 TACAAACCAAGGGTATTTCAGTAATT
64902514 GGTAAACTGA
Statistics
Matches: 221, Mismatches: 40, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
26 24 0.11
27 165 0.75
28 16 0.07
29 16 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:64902369 original size:54 final size:53
Alignment explanation
Indices: 64902196--64902492 Score: 256
Period size: 54 Copynumber: 5.5 Consensus size: 53
64902186 ATTTCACCCT
* * * * * **
64902196 ACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAA
* * * * ** **
64902249 ACCAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAA
1 A-CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTACAA
* * * *
64902305 ATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAA
1 A-CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAA
* * *
64902359 ACTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAA
* * * *
64902413 ACCAGGGGTATTTTAGTAATTTTACAGACT-AGGGTATTTTGGTAATTTTACTAA
1 A-CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTAC-AA
* *
64902467 TCAAGGGTATTTTGATAATTTTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
64902493 GTCGAGGGTA
Statistics
Matches: 197, Mismatches: 39, Indels: 16
0.78 0.15 0.06
Matches are distributed among these distances:
53 43 0.22
54 101 0.51
55 19 0.10
56 34 0.17
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (53 bp):
ACAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAA
Found at i:64902400 original size:81 final size:79
Alignment explanation
Indices: 64902307--64902513 Score: 270
Period size: 80 Copynumber: 2.6 Consensus size: 79
64902297 TTTTGTAAAT
* *
64902307 TAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAACTAG-GGTATTT
64902372 TGGTAATTTTACAAA
65 TGGTAATTTTACAAA
* * * * *
64902387 CTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTAGGGTATTT
1 -TAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAACTAGGGTATTT
*
64902452 TGGTAATTTTACTAA
65 TGGTAATTTTACAAA
* * * * *
64902467 TCAAGGGTATTTTGATAATTTTACAAGTCGAGGGTATTTCAATAATT
1 T-AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATT
64902514 GGTAAACTGA
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
79 1 0.01
80 58 0.53
81 50 0.46
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (79 bp):
TAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAACTAGGGTATTTT
GGTAATTTTACAAA
Found at i:64911398 original size:43 final size:43
Alignment explanation
Indices: 64911284--64911452 Score: 123
Period size: 43 Copynumber: 4.0 Consensus size: 43
64911274 ATAAAGCTCG
* * * ** *
64911284 TACAATGCC-ATATCCCAGATATGGTCTTGCATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAA
* * * * *
64911325 TATCGATGCCATTATCCC-GACAGGGTCTTACACGA-AAT-AGAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCACAA
* *
64911367 TAACGATGCCAATGTCCCAGATATGGTCTTACACATAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAA
** **
64911411 TACAATTTCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACATAATCACA
64911453 TCTTGATAAC
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.03
42 35 0.35
43 58 0.58
44 4 0.04
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAA
Found at i:64939533 original size:48 final size:48
Alignment explanation
Indices: 64939477--64939572 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
64939467 CTTGGAGGAG
* *
64939477 TTAGTTTGTTAAAGAAGTTGTTAAGTTGTTGAGTCAGTTATTGAAGCT
1 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
64939525 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
1 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
64939573 CTTTGCTTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.28, C:0.05, G:0.24, T:0.43
Consensus pattern (48 bp):
TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
Found at i:64940694 original size:26 final size:26
Alignment explanation
Indices: 64940658--64940710 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
64940648 CAATGCTAAG
64940658 TTCTCCTTGAAAGATCTTGGTTGTCT
1 TTCTCCTTGAAAGATCTTGGTTGTCT
64940684 TTCTCCTTGAAAGATCTTGGTTGTCT
1 TTCTCCTTGAAAGATCTTGGTTGTCT
64940710 T
1 T
64940711 GCATACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (26 bp):
TTCTCCTTGAAAGATCTTGGTTGTCT
Found at i:64943565 original size:68 final size:68
Alignment explanation
Indices: 64943490--64943623 Score: 187
Period size: 68 Copynumber: 2.0 Consensus size: 68
64943480 TAGACATGGG
* * * ** *
64943490 GTTGTATTATGTAAGACCACAGCTTGGTTATGGTAGCATATGGAGTCCGCTGGGACAGTAAACAC
1 GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
64943555 GGA
66 GGA
* * *
64943558 GTTGTATTGTGTAAAACCATATCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
1 GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
64943623 G
66 G
64943624 AGGTAGTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (68 bp):
GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
GGA
Found at i:64951523 original size:13 final size:13
Alignment explanation
Indices: 64951505--64951529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64951495 TATTTTAATA
64951505 TTATTTTGTGTGT
1 TTATTTTGTGTGT
64951518 TTATTTTGTGTG
1 TTATTTTGTGTG
64951530 CATTCGATGG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:64953266 original size:41 final size:41
Alignment explanation
Indices: 64953059--64953255 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
64953049 TTTATCGTTA
* * * *
64953059 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
64953100 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
64953141 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
64953182 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
64953223 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
64953256 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:64953526 original size:33 final size:32
Alignment explanation
Indices: 64953470--64953533 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
64953460 ATAGATATGT
64953470 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
64953502 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
64953534 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:64953550 original size:33 final size:33
Alignment explanation
Indices: 64953477--64953550 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
64953467 TGTATATATA
* * **
64953477 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
64953509 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
64953542 TGTATGTAT
1 TATATGTAT
64953551 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:64971111 original size:3 final size:3
Alignment explanation
Indices: 64971103--64971181 Score: 67
Period size: 3 Copynumber: 27.3 Consensus size: 3
64971093 GAATTTTTTC
* * * *
64971103 TCT TCT TCT TC- TCC TCC TCT TCT TTT TCT TAT T-T TCT T-T TCAT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T
* *
64971146 TCT TCT TCT TTT TCT TCT TCT TC- TCT ACT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
64971182 TTTATTTTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
2 8 0.13
3 52 0.83
4 3 0.05
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:64971151 original size:20 final size:19
Alignment explanation
Indices: 64971122--64971183 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
64971112 TCTCCTCCTC
*
64971122 TTCTTTTTCTTATTTTCTT
1 TTCTTCTTCTTATTTTCTT
* *
64971141 TTCATTCTTCTTCTTTT-TC
1 TTC-TTCTTCTTATTTTCTT
64971160 TTCTTCTTCTCTACTTCTTCTT
1 TTCTTCTTCT-TA-TT-TTCTT
64971182 TT
1 TT
64971184 TATTTTACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 13 0.39
21 2 0.06
22 3 0.09
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (19 bp):
TTCTTCTTCTTATTTTCTT
Found at i:64971156 original size:15 final size:14
Alignment explanation
Indices: 64971098--64971181 Score: 73
Period size: 14 Copynumber: 5.9 Consensus size: 14
64971088 CTCTAGAATT
64971098 TTTTC-TCTTCTTC
1 TTTTCTTCTTCTTC
* * *
64971111 TTCTCCTCCTCTTC
1 TTTTCTTCTTCTTC
*
64971125 TTTTTCTTATT-TTC
1 -TTTTCTTCTTCTTC
64971139 TTTTCATTCTTCTTC
1 TTTTC-TTCTTCTTC
64971154 TTTTTCTTCTTCTTC
1 -TTTTCTTCTTCTTC
* *
64971169 TCTACTTCTTCTT
1 TTTTCTTCTTCTT
64971182 TTTATTTTAC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.16
14 25 0.44
15 18 0.32
16 5 0.09
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTCTTCTTCTTC
Found at i:64971179 original size:17 final size:16
Alignment explanation
Indices: 64971100--64971181 Score: 58
Period size: 17 Copynumber: 4.9 Consensus size: 16
64971090 CTAGAATTTT
*
64971100 TTCTCTTCTTCTTCTCC
1 TTCTC-TCTTCTTCTTC
* * *
64971117 TCCTCTTCTTTTTCTTA
1 TTCTC-TCTTCTTCTTC
* *
64971134 TTTTCTTTTCATTCTTC
1 TTCTCTCTTC-TTCTTC
*
64971151 TTCT-TTTTCTTCTTC
1 TTCTCTCTTCTTCTTC
64971166 TTCTCTACTTCTTCTT
1 TTCTCT-CTTCTTCTT
64971182 TTTATTTTAC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
15 10 0.20
16 9 0.18
17 32 0.63
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (16 bp):
TTCTCTCTTCTTCTTC
Found at i:64973626 original size:30 final size:30
Alignment explanation
Indices: 64973590--64973649 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
64973580 GAGGTAAAAG
64973590 TTTGTTCATCATTCTTATTCTTTCCAATTC
1 TTTGTTCATCATTCTTATTCTTTCCAATTC
64973620 TTTGTTCATCATTCTTATTCTTTCCAATTC
1 TTTGTTCATCATTCTTATTCTTTCCAATTC
64973650 ACTCAAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.23, G:0.03, T:0.57
Consensus pattern (30 bp):
TTTGTTCATCATTCTTATTCTTTCCAATTC
Found at i:64974863 original size:9 final size:9
Alignment explanation
Indices: 64974849--64974890 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
64974839 CATGCAAATT
64974849 AGAAAAGAA
1 AGAAAAGAA
64974858 AGAAAAAGAA
1 AG-AAAAGAA
64974868 A-ACAAAGAA
1 AGA-AAAGAA
*
64974877 AGAAAAGAG
1 AGAAAAGAA
64974886 AGAAA
1 AGAAA
64974891 GGGGTTCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.66
10 9 0.31
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:64975951 original size:6 final size:6
Alignment explanation
Indices: 64975932--64975969 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
64975922 TGAGTATCCA
* *
64975932 TCCGAG TCCAAG TCCGAG TCCGAG TCTGAG TCCGAG TC
1 TCCGAG TCCGAG TCCGAG TCCGAG TCCGAG TCCGAG TC
64975970 GCGTTAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (6 bp):
TCCGAG
Found at i:64976047 original size:18 final size:18
Alignment explanation
Indices: 64976024--64976096 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 18
64976014 TGAAATGGCC
64976024 AAGATGAGAAATGAATAT
1 AAGATGAGAAATGAATAT
64976042 AAGATGAGAAATATTGAAT-T
1 AAGATGAG-AA-A-TGAATAT
64976062 GGCAAAGATGAGAAATGAATAT
1 ----AAGATGAGAAATGAATAT
64976084 AAGATGAGAAATG
1 AAGATGAGAAATG
64976097 TGATATGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
18 21 0.45
19 2 0.04
20 2 0.04
21 10 0.21
22 2 0.04
23 2 0.04
24 8 0.17
ACGTcount: A:0.52, C:0.01, G:0.25, T:0.22
Consensus pattern (18 bp):
AAGATGAGAAATGAATAT
Found at i:64976070 original size:42 final size:42
Alignment explanation
Indices: 64976010--64976095 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
64976000 TATGTGATTG
*
64976010 ATATTGAAATGGCCAAGATGAGAAATGAATATAAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
*
64976052 ATATTGAATTGGCAAAGATGAGAAATGAATATAAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
64976094 AT
1 AT
64976096 GTGATATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
Found at i:64976080 original size:21 final size:21
Alignment explanation
Indices: 64976014--64976081 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
64976004 TGATTGATAT
* *
64976014 TGAAATGGCCAAGATGAGAAA
1 TGAATTGGCAAAGATGAGAAA
64976035 TGAA-T---ATAAGATGAGAAATA
1 TGAATTGGCA-AAGATGAG-AA-A
64976055 TTGAATTGGCAAAGATGAGAAA
1 -TGAATTGGCAAAGATGAGAAA
64976077 TGAAT
1 TGAAT
64976082 ATAAGATGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
18 8 0.21
19 2 0.05
20 2 0.05
21 13 0.34
22 2 0.05
23 2 0.05
24 8 0.21
25 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.25, T:0.22
Consensus pattern (21 bp):
TGAATTGGCAAAGATGAGAAA
Found at i:64976116 original size:20 final size:19
Alignment explanation
Indices: 64976069--64976126 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
64976059 ATTGGCAAAG
64976069 ATGAGAAATGA-ATAT-AA
1 ATGAGAAATGAGATATGAA
*
64976086 GATGAGAAATGTGATATGAA
1 -ATGAGAAATGAGATATGAA
*
64976106 ATGATGAAATGAGATGTGAA
1 ATGA-GAAATGAGATATGAA
64976126 A
1 A
64976127 CCTGAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.29
19 8 0.24
20 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (19 bp):
ATGAGAAATGAGATATGAA
Found at i:64977006 original size:42 final size:42
Alignment explanation
Indices: 64976951--64977031 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
64976941 CACACACGGG
*
64976951 TGTGTGATCCAAGTCAGCGAGTTACACGGGCTAAAACACAGT
1 TGTGTGATCCAAGTCAGCGAGTTACACGGGCAAAAACACAGT
* *
64976993 TGTGTG-TCTCAAGTCAGTGAGTTACATGGGCAAAAACAC
1 TGTGTGATC-CAAGTCAGCGAGTTACACGGGCAAAAACAC
64977032 GGGCTGGGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (42 bp):
TGTGTGATCCAAGTCAGCGAGTTACACGGGCAAAAACACAGT
Found at i:64988512 original size:40 final size:40
Alignment explanation
Indices: 64988450--64988667 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
64988440 AAACCAAGAA
* * *
64988450 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
** *
64988489 CCTTCGGGACTTAGCCCGGATATAGTAGTTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
64988529 CCTTTGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64988569 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
64988609 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
64988649 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
64988668 TTATCATCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 147 0.91
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:64999387 original size:45 final size:45
Alignment explanation
Indices: 64999287--64999452 Score: 215
Period size: 45 Copynumber: 3.6 Consensus size: 45
64999277 AGGAATTGAT
* * * * *
64999287 TAAGACCATAGTTCAAAGACACTATGGCAACACGACGGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCAAGAC-G-AGAATGAA
*
64999334 TAAGATCATGGTTGAAAGACACTATGGCATCAAGACGAGAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAATGAA
* * * *
64999379 TAAGATCATGGCTGAAAGACACTATGACATCAAGACGAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAATGAA
*
64999424 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATGGTTGAAAGACACTATGGCA
64999453 CACTCCAATA
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 74 0.70
46 1 0.01
47 31 0.29
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAATGAA
Found at i:65000990 original size:19 final size:21
Alignment explanation
Indices: 65000966--65001010 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
65000956 ACATCGTTTT
*
65000966 CAAAAGCCCA-AAG-GCTAAA
1 CAAAAGCACATAAGTGCTAAA
65000985 CAAAAGCACATAAGTGCTAAA
1 CAAAAGCACATAAGTGCTAAA
65001006 CAAAA
1 CAAAA
65001011 ACCTGTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 3 0.13
21 11 0.48
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (21 bp):
CAAAAGCACATAAGTGCTAAA
Found at i:65001040 original size:21 final size:21
Alignment explanation
Indices: 65001016--65001127 Score: 100
Period size: 21 Copynumber: 5.4 Consensus size: 21
65001006 CAAAAACCTG
* *
65001016 TAAGGGTTGAACAGAAGCTCA
1 TAAGAGTTGAACAGAAACTCA
* *
65001037 TAAGAGTTGAACGGAAACCCA
1 TAAGAGTTGAACAGAAACTCA
* *
65001058 TAAG-GTTAAACAGAAGCTCA
1 TAAGAGTTGAACAGAAACTCA
* * *
65001078 AAAGAGATGAACAGAAACTAA
1 TAAGAGTTGAACAGAAACTCA
* * *
65001099 TTAGGGTTGAACGGAAACTCA
1 TAAGAGTTGAACAGAAACTCA
*
65001120 TATGAGTT
1 TAAGAGTT
65001128 AAATAGAAGC
Statistics
Matches: 68, Mismatches: 22, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
20 15 0.22
21 53 0.78
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (21 bp):
TAAGAGTTGAACAGAAACTCA
Found at i:65019187 original size:20 final size:19
Alignment explanation
Indices: 65019164--65019213 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 19
65019154 TTATTTATTT
65019164 TATATTTATAATAATAATAA
1 TATATTTATAATAAT-ATAA
65019184 TATATAATATATAATAATATAA
1 TATAT--T-TATAATAATATAA
65019206 TATATTTA
1 TATATTTA
65019214 CTTATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
20 6 0.22
22 10 0.37
23 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATTTATAATAATATAA
Found at i:65019199 original size:17 final size:17
Alignment explanation
Indices: 65019170--65019248 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
65019160 ATTTTATATT
65019170 TATAATA-ATAATAATA
1 TATAATATATAATAATA
65019186 TATAATATATAATAATA
1 TATAATATATAATAATA
* * *
65019203 TA-ATATATTTACTTATA
1 TATA-ATATATAATAATA
*
65019220 TTATAAGTAAATAATAAT-
1 -TATAA-TATATAATAATA
65019238 TACTAATATAT
1 TA-TAATATAT
65019249 GTATTTAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
16 8 0.16
17 27 0.55
18 6 0.12
19 8 0.16
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
TATAATATATAATAATA
Found at i:65027994 original size:26 final size:26
Alignment explanation
Indices: 65027965--65028068 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
65027955 ATTCCCATCT
*
65027965 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
65027991 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
65028017 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
*
65028043 TGGAATATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
65028069 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:65036558 original size:22 final size:22
Alignment explanation
Indices: 65036526--65036570 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
65036516 ACACGGTTGT
* * *
65036526 GTCCTAGCCCCTGTCCAATTTA
1 GTCCTAACCCCTATCCAACTTA
65036548 GTCCTAACCCCTATCCAACTTA
1 GTCCTAACCCCTATCCAACTTA
65036570 G
1 G
65036571 GGTGCTTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.38, G:0.11, T:0.29
Consensus pattern (22 bp):
GTCCTAACCCCTATCCAACTTA
Found at i:65037430 original size:21 final size:21
Alignment explanation
Indices: 65037406--65037467 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
65037396 ATAAGTGCTA
*
65037406 AACAAAAACCCGTAAGGGTTG
1 AACAAAAACCCATAAGGGTTG
* * * * *
65037427 AACAGAAGCTCATAAGAGCTG
1 AACAAAAACCCATAAGGGTTG
*
65037448 AACGAAAACCCATAAGGGTT
1 AACAAAAACCCATAAGGGTT
65037468 AAGCAGAAGC
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (21 bp):
AACAAAAACCCATAAGGGTTG
Found at i:65037432 original size:42 final size:41
Alignment explanation
Indices: 65037385--65037488 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 41
65037375 TCAAAGGCTA
* *
65037385 AACAGAAGCAT-ATAAGTGCTAAACAAAAACCCGTAAGGGTT
1 AACAGAAGC-TCATAAGAGCTAAACAAAAACCCATAAGGGTT
* *
65037426 GAACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTT
1 -AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGGGTT
*
65037468 AAGCAGAAGCTCAAAAGAGCT
1 AA-CAGAAGCTCATAAGAGCT
65037489 GAACGGAAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 3 0.05
42 52 0.95
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (41 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGGGTT
Found at i:65037489 original size:42 final size:42
Alignment explanation
Indices: 65037410--65037517 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
65037400 GTGCTAAACA
* *
65037410 AAAACCCGTAAGGGTTGAACAGAAGCTCATAAGAGCTGAACG
1 AAAACCCATAAGGGTTGAACAGAAGCTCAAAAGAGCTGAACG
65037452 AAAACCCATAAGGGTT-AAGCAGAAGCTCAAAAGAGCTGAACG
1 AAAACCCATAAGGGTTGAA-CAGAAGCTCAAAAGAGCTGAACG
* * * *
65037494 GAAACCAATTAGGGGTGAACAGAA
1 AAAACCCATAAGGGTTGAACAGAA
65037518 ATTCATATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.03
42 54 0.93
43 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.13
Consensus pattern (42 bp):
AAAACCCATAAGGGTTGAACAGAAGCTCAAAAGAGCTGAACG
Found at i:65040376 original size:13 final size:13
Alignment explanation
Indices: 65040358--65040389 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
65040348 GACACATGGG
65040358 CGTGTGGCTTGGC
1 CGTGTGGCTTGGC
65040371 CGTGTGGCTTGGC
1 CGTGTGGCTTGGC
65040384 CGTGTG
1 CGTGTG
65040390 ACCTAAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.47, T:0.31
Consensus pattern (13 bp):
CGTGTGGCTTGGC
Found at i:65040546 original size:24 final size:24
Alignment explanation
Indices: 65040514--65040565 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
65040504 CACGGTCGTG
65040514 TAACCGCTGCAGTTTAAATTTTTC
1 TAACCGCTGCAGTTTAAATTTTTC
65040538 TAACCGCTGCAGTTTAAATTTTTC
1 TAACCGCTGCAGTTTAAATTTTTC
65040562 TAAC
1 TAAC
65040566 TTTTTCCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (24 bp):
TAACCGCTGCAGTTTAAATTTTTC
Found at i:65041518 original size:24 final size:24
Alignment explanation
Indices: 65041486--65041556 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
65041476 GGGTGTGACA
65041486 TGAAATGTGGCACTTCAGTGCAAT
1 TGAAATGTGGCACTTCAGTGCAAT
*
65041510 TGAAATGTGGCACTTCAGTGCAAA
1 TGAAATGTGGCACTTCAGTGCAAT
* **
65041534 TGAAA-ATGGCACTTTGGTGCAAT
1 TGAAATGTGGCACTTCAGTGCAAT
65041557 ACTGTGACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 14 0.33
24 28 0.67
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (24 bp):
TGAAATGTGGCACTTCAGTGCAAT
Found at i:65042543 original size:28 final size:28
Alignment explanation
Indices: 65042512--65042568 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
65042502 CTTTGGTACC
65042512 TGTACTGTT-TTATTATCAGTTTGACCTT
1 TGTACT-TTATTATTATCAGTTTGACCTT
* * *
65042540 TGTACTTTATTTTTTTTAGTTTGACCTT
1 TGTACTTTATTATTATCAGTTTGACCTT
65042568 T
1 T
65042569 ATATTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.60
Consensus pattern (28 bp):
TGTACTTTATTATTATCAGTTTGACCTT
Found at i:65042707 original size:9 final size:10
Alignment explanation
Indices: 65042682--65042706 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65042672 TAAAAGATAC
65042682 AAAAAATTAA
1 AAAAAATTAA
65042692 AAAAAATTAA
1 AAAAAATTAA
65042702 AAAAA
1 AAAAA
65042707 TCCAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:65042955 original size:20 final size:19
Alignment explanation
Indices: 65042930--65042976 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
65042920 TTTTTCAAGG
65042930 AAAAAATACCATAAAATTCT
1 AAAAAAT-CCATAAAATTCT
* *
65042950 AAAAAAGTTCATAATATTCT
1 AAAAAA-TCCATAAAATTCT
65042970 AAAAAAT
1 AAAAAAT
65042977 TCTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAAATCCATAAAATTCT
Found at i:65042989 original size:9 final size:10
Alignment explanation
Indices: 65042942--65042992 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
65042932 AAAATACCAT
65042942 AAAATTCTAA
1 AAAATTCTAA
*
65042952 AAAAGTTC-AT
1 AAAA-TTCTAA
*
65042962 AATATTCTAA
1 AAAATTCTAA
65042972 AAAATTCTAA
1 AAAATTCTAA
65042982 AAAA-TCTAA
1 AAAATTCTAA
65042991 AA
1 AA
65042993 TTCTCAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 10 0.29
10 22 0.63
11 3 0.09
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:65043949 original size:114 final size:114
Alignment explanation
Indices: 65043717--65044009 Score: 306
Period size: 114 Copynumber: 2.6 Consensus size: 114
65043707 AGAGTCATTT
* * * * * *
65043717 AAAAAAAATTTTGGGTGCTGACTAGTAGATGGCCGGCACTAGGTATATTTTTCAGGTCCCAAGGC
1 AAAAAAAATTTTGGGTGTTGGCCAGTAGATGGCCGGCACCAGGTACATTTTTCGGGTCCCAAGGC
* ** * *
65043782 AATTTTTTTTTGTACTTTTGGACTTTGATGACCGGCACTAGTGTCAAT-T
66 AA-TTTTTTTTGTACTTTGGGACAATGATGACCGACACTAGTGTCAATAA
*
65043831 AAAAAAAATTTTGGGTGTTGGCCAATAGATGGCCGGCACCAGGTACATTTTTCGGGTCCCAAGGC
1 AAAAAAAATTTTGGGTGTTGGCCAGTAGATGGCCGGCACCAGGTACATTTTTCGGGTCCCAAGGC
***
65043896 -A-TTTTTTT-TACTTTGGGACAATGATGGTTGACACTAGTGTCCCAAAGTAA
66 AATTTTTTTTGTACTTTGGGACAATGATGACCGACACTAGTGT--C-AA-TAA
** * * * * * *
65043946 AAAAAAAAAATTGAGTGTTAGCCAGTAAATGACCGGCACCAAGTACATTTTTTGGGTCCCAAGG
1 AAAAAAAATTTTGGGTGTTGGCCAGTAGATGGCCGGCACCAGGTACATTTTTCGGGTCCCAAGG
65044010 TTTACTTTGG
Statistics
Matches: 150, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
110 25 0.17
111 7 0.05
112 1 0.01
113 3 0.02
114 59 0.39
115 55 0.37
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (114 bp):
AAAAAAAATTTTGGGTGTTGGCCAGTAGATGGCCGGCACCAGGTACATTTTTCGGGTCCCAAGGC
AATTTTTTTTGTACTTTGGGACAATGATGACCGACACTAGTGTCAATAA
Found at i:65044877 original size:90 final size:90
Alignment explanation
Indices: 65044585--65044868 Score: 453
Period size: 90 Copynumber: 3.2 Consensus size: 90
65044575 TTTGTATCTG
* * *
65044585 TAAATTTACTTTAGTTTGTATTATATGTAGCTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
65044650 ATCTG-TTGTAGTTTGTTGGATGTT
66 ATCTGTTTGTAGTTTGTTGGATGTT
* * * * *
65044674 TAAATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAAAAATTTCGTGCACTAATTTTATCC
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
*
65044739 ATCTGTTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGATGTT
* *
65044764 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCATATATTAATTTTACCC
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
*
65044829 ATCTGTTTGTAGTTTGTTGAATGTT
66 ATCTGTTTGTAGTTTGTTGGATGTT
65044854 TAAATTTAATTTAGT
1 TAAATTTAATTTAGT
65044869 GAATATTATT
Statistics
Matches: 176, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 62 0.35
90 114 0.65
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.51
Consensus pattern (90 bp):
TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
ATCTGTTTGTAGTTTGTTGGATGTT
Found at i:65044927 original size:179 final size:175
Alignment explanation
Indices: 65044533--65044954 Score: 486
Period size: 179 Copynumber: 2.4 Consensus size: 175
65044523 AAGGTTTCAT
* * * *
65044533 TTTTATATTTTCGTGTATTAATTTCTTAAAATGTTTGTATTTTTTGTATCTGTAAATTTACTTTA
1 TTTTATATTTTCGTGTATTAATTT-ATAAAATGTTTGTATTTATTGTAT-TTTAAATTTAATTTA
* * *
65044598 GTTTGTATTATATGTAGCTTGAATTTAAAATTTTCGTGTATTAATTTTACCCATCTGTTGTAGTT
64 GTCTGTATTATATGTAGCTTGAATTTAAAATTTTCATATATTAATTTTACCCATCTGTTGTAGTT
* **
65044663 TGTTGGATGTTTAAATTTAATTTAGTCTGTATTATATATAGTTTGAA
129 TGTTGAATGTTTAAATTTAATTTAGTCAATATTATATATAGTTTGAA
* * * * * * ** * **
65044710 TTTAAAAATTTCGTGCACTAATTTTATCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATT
1 TTTTATATTTTCGTGTATTAA-TTTAT-AAAATGTTTGTA-TTTATTGTAT-TTTAAATTTAATT
*
65044775 TAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCATATATTAATTTTACCCATCTGTTTGTA
62 TAGTCTGTATTATATGTAGCTTGAATTTAAAATTTTCATATATTAATTTTACCCATCTG-TTGTA
* * *
65044840 GTTTGTTGAATGTTTAAATTTAATTTAGTGAATATTAT-TTTTGTTTGAA
126 GTTTGTTGAATGTTTAAATTTAATTTAGTCAATATTATATATAGTTTGAA
* * *
65044889 TTTTATATTTTTTGTGTATTAATATTGTAGAATGTTTGTATTTTATTGTATTTGTAAATTTAATT
1 TTTTATA-TTTTCGTGTATTAAT-TTATAAAATGTTTGTA-TTTATTGTATTT-TAAATTTAATT
65044954 T
62 T
65044955 GTTGTGTACT
Statistics
Matches: 198, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
177 17 0.09
178 14 0.07
179 115 0.58
180 52 0.26
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (175 bp):
TTTTATATTTTCGTGTATTAATTTATAAAATGTTTGTATTTATTGTATTTTAAATTTAATTTAGT
CTGTATTATATGTAGCTTGAATTTAAAATTTTCATATATTAATTTTACCCATCTGTTGTAGTTTG
TTGAATGTTTAAATTTAATTTAGTCAATATTATATATAGTTTGAA
Found at i:65045570 original size:21 final size:19
Alignment explanation
Indices: 65045544--65045616 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 19
65045534 GTGGAAATAA
65045544 ATTTAATTTTTTTCTCATTTC
1 ATTTAATTTTTTT-TC-TTTC
* *
65045565 ATTTAAATTATCTTTCTTTC
1 ATTT-AATTTTTTTTCTTTC
*
65045585 TATTTTAATTTATTTT-TTTC
1 -A-TTTAATTTTTTTTCTTTC
65045605 ATATTAATTTTT
1 AT-TTAATTTTT
65045617 CTCTCATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
18 1 0.02
19 9 0.21
20 8 0.19
21 14 0.33
22 10 0.24
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTAATTTTTTTTCTTTC
Found at i:65045591 original size:22 final size:21
Alignment explanation
Indices: 65045566--65045609 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
65045556 TCTCATTTCA
65045566 TTTAAATTATCTTTCTTTC-TAT
1 TTTAAATTAT-TTT-TTTCATAT
*
65045588 TTTAATTTATTTTTTTCATAT
1 TTTAAATTATTTTTTTCATAT
65045609 T
1 T
65045610 AATTTTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTAAATTATTTTTTTCATAT
Found at i:65045616 original size:15 final size:14
Alignment explanation
Indices: 65045587--65045643 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
65045577 TTTCTTTCTA
*
65045587 TTTTAATTT-ATTT
1 TTTTCATTTAATTT
65045600 TTTTCATATTAATTT
1 TTTTCAT-TTAATTT
65045615 TTCTCTCATTGTAATTT
1 TT-T-TCATT-TAATTT
*
65045632 ATTTCATTTAAT
1 TTTTCATTTAAT
65045644 GTGTTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 6 0.16
14 6 0.16
15 11 0.30
16 3 0.08
17 11 0.30
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTCATTTAATTT
Found at i:65045678 original size:22 final size:22
Alignment explanation
Indices: 65045653--65045722 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
65045643 TGTGTTTTAA
*
65045653 ATTAAATATTTATGTATATTCT
1 ATTAAATATTTATGTATATTAT
* * * *
65045675 ATTATAAT-TTAATGTGTTTTAA
1 ATTA-AATATTTATGTATATTAT
* * *
65045697 AATAAATATGTATGTATATTGT
1 ATTAAATATTTATGTATATTAT
65045719 ATTA
1 ATTA
65045723 TAATTTAATG
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
21 3 0.09
22 27 0.82
23 3 0.09
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTAAATATTTATGTATATTAT
Found at i:65045685 original size:44 final size:44
Alignment explanation
Indices: 65045637--65045744 Score: 171
Period size: 44 Copynumber: 2.5 Consensus size: 44
65045627 AATTTATTTC
*
65045637 ATTTAATGTGTTTTAAATTAAATATTTATGTATATTCTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTCTATTATA
* *
65045681 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTCTATTATA
* *
65045725 ATTTAATGGGCTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
65045745 GGAATAAGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGTATGTATATTCTATTATA
Found at i:65049372 original size:40 final size:41
Alignment explanation
Indices: 65049322--65049408 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
65049312 GCCTGATAGC
* * * *
65049322 TGAATAGAAGCACATAAGTGCT-AACGGAAGCCCATAGGAT
1 TGAACAGAAGCACATAAGAGCTGAACGGAAACCCACAGGAT
** * *
65049362 TGAACAGAAGCTTATAGGAGCTGAACGGAAACCCACAGGGT
1 TGAACAGAAGCACATAAGAGCTGAACGGAAACCCACAGGAT
65049403 TGAACA
1 TGAACA
65049409 TAAACTCATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 17 0.45
41 21 0.55
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.16
Consensus pattern (41 bp):
TGAACAGAAGCACATAAGAGCTGAACGGAAACCCACAGGAT
Found at i:65049428 original size:41 final size:41
Alignment explanation
Indices: 65049344--65049434 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
65049334 CATAAGTGCT
* * * *
65049344 AACGGAAGCCCATAGGATTGAACAGAAGCTTATAGGAGCTG
1 AACGGAAACCCACAGGATTGAACAGAAACTCATAGGAGCTG
* * * *
65049385 AACGGAAACCCACAGGGTTGAACATAAACTCATATGAGTTG
1 AACGGAAACCCACAGGATTGAACAGAAACTCATAGGAGCTG
*
65049426 AACGAAAAC
1 AACGGAAAC
65049435 TCATAAGGGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (41 bp):
AACGGAAACCCACAGGATTGAACAGAAACTCATAGGAGCTG
Found at i:65049458 original size:21 final size:20
Alignment explanation
Indices: 65049398--65049492 Score: 55
Period size: 21 Copynumber: 4.5 Consensus size: 20
65049388 GGAAACCCAC
*
65049398 AGGGTTGAACATAAACTCATA
1 AGGGTTAAAC-TAAACTCATA
* * * *
65049419 TGAGTTGAACGAAAACTCATA
1 AGGGTTAAAC-TAAACTCATA
*
65049440 AGGGTTAAACTAAAGCTCAAA
1 AGGGTTAAACTAAA-CTCATA
** * * *
65049461 AAAGCTAAACGAGAACCCATA
1 AGGGTTAAACTA-AACTCATA
65049482 AGGGTTAAACT
1 AGGGTTAAACT
65049493 GAAGCTTAAA
Statistics
Matches: 53, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
20 3 0.06
21 48 0.91
22 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (20 bp):
AGGGTTAAACTAAACTCATA
Found at i:65049472 original size:42 final size:42
Alignment explanation
Indices: 65049426--65049513 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
65049416 ATATGAGTTG
*
65049426 AACGAAAACTCATAAGGGTTAAACTAAAGCTCAAAAAAGCTA
1 AACGAAAACCCATAAGGGTTAAACTAAAGCTCAAAAAAGCTA
* * * *
65049468 AACGAGAACCCATAAGGGTTAAACTGAAGCTTAAAAGAGCTA
1 AACGAAAACCCATAAGGGTTAAACTAAAGCTCAAAAAAGCTA
65049510 AACG
1 AACG
65049514 GAAAGAAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (42 bp):
AACGAAAACCCATAAGGGTTAAACTAAAGCTCAAAAAAGCTA
Found at i:65050339 original size:17 final size:17
Alignment explanation
Indices: 65050317--65050351 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
65050307 CACTTGTAGA
*
65050317 AAAAAATATGAAAAACC
1 AAAAAACATGAAAAACC
65050334 AAAAAACATGAAAAACC
1 AAAAAACATGAAAAACC
65050351 A
1 A
65050352 GCTTATAGGA
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:0.71, C:0.14, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAACATGAAAAACC
Found at i:65051947 original size:120 final size:118
Alignment explanation
Indices: 65051786--65052077 Score: 435
Period size: 120 Copynumber: 2.5 Consensus size: 118
65051776 AGTGCTGGCC
* *
65051786 ATTAGTGTCCCAAAGT--AAAAAAATTACATTGGGACCAAAAAAATGTACTTGGTGCCAACTATT
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
* * * * *
65051849 TACTGGCCAGCATTCAAAATTTTTTTTCTTACTTTGGGATACTGGTGTCGGCT
66 TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACACTAGTATCGACT
* *
65051902 ATTAGTGTCCCAAAGTAAAAAAAAAAATTATATTGGGACCCAAAAAATGTACTTGGTGTCAACCA
1 ATTAGTGTCCCAAAGT--AAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCA
* *
65051967 TTTACTGGCTAGCAATCAAATTTTTTTTTCTTACTTTGGGACACTAGTATCGACT
64 TTTACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACACTAGTATCGACT
* *
65052022 ATGAGTGTCCCAAAGTAAAAAAAAATTACATTAGGACCCAAAAAATGTACTTGGTG
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTG
65052078 TGCCGACCAT
Statistics
Matches: 158, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
116 16 0.10
118 38 0.24
120 104 0.66
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (118 bp):
ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACACTAGTATCGACT
Found at i:65056655 original size:15 final size:15
Alignment explanation
Indices: 65056635--65056666 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
65056625 CATGAAAATA
65056635 AAATATTTCCGAACG
1 AAATATTTCCGAACG
65056650 AAATATTTCCGAACG
1 AAATATTTCCGAACG
65056665 AA
1 AA
65056667 CTGTTGGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (15 bp):
AAATATTTCCGAACG
Found at i:65057814 original size:17 final size:16
Alignment explanation
Indices: 65057784--65057818 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
65057774 GTATAATAAA
*
65057784 TTTAATTTTCAAAATT
1 TTTAATTTTAAAAATT
65057800 TTTACATTTTAAAAATT
1 TTTA-ATTTTAAAAATT
65057817 TT
1 TT
65057819 ATTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAATTTTAAAAATT
Found at i:65068260 original size:18 final size:18
Alignment explanation
Indices: 65068237--65068271 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
65068227 TGAAAGAAAT
65068237 ATAAATGCCTAA-AAATAA
1 ATAAATG-CTAAGAAATAA
65068255 ATAAATGCTAAGAAATA
1 ATAAATGCTAAGAAATA
65068272 GAAATTCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (18 bp):
ATAAATGCTAAGAAATAA
Found at i:65072272 original size:12 final size:12
Alignment explanation
Indices: 65072255--65072279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65072245 GTAGTGAAAG
65072255 AATTATGGTGTA
1 AATTATGGTGTA
65072267 AATTATGGTGTA
1 AATTATGGTGTA
65072279 A
1 A
65072280 CCAACTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATTATGGTGTA
Found at i:65075405 original size:21 final size:21
Alignment explanation
Indices: 65075380--65075444 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 21
65075370 TAGCCTTCAG
65075380 GCTTCCATTTAGCACTTATGT
1 GCTTCCATTTAGCACTTATGT
* * *
65075401 GCTT-CAGTTAGC-CTT-CGG
1 GCTTCCATTTAGCACTTATGT
*
65075419 GCTTCCGTTTAGCACTTATGT
1 GCTTCCATTTAGCACTTATGT
65075440 GCTTC
1 GCTTC
65075445 AGTTAGATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.15
19 9 0.26
20 10 0.29
21 10 0.29
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCATTTAGCACTTATGT
Found at i:65075458 original size:39 final size:39
Alignment explanation
Indices: 65075362--65075450 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
65075352 GCTCTGATGA
*
65075362 GCTTCAGTTAGCCTTCAGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
*
65075401 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
65075440 GCTTCAGTTAG
1 GCTTCAGTTAG
65075451 ATTTCGGGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
Found at i:65081054 original size:70 final size:70
Alignment explanation
Indices: 65080952--65081547 Score: 474
Period size: 70 Copynumber: 8.5 Consensus size: 70
65080942 TAATATCAGT
* * * * * * *
65080952 TGGGAACGTAAGCACGTGCTAAGTGTTTTGGAGACTGCGGTATTGAACCTGCAAGCCTTAAGATA
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
*
65081017 CCAAC
66 CCAGC
* * * * * * * * *
65081022 TGGGAGTGTAGGCTCGCACTAACTGTTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATA
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
*
65081087 CCAGT
66 CCAGC
* * * * * * *
65081092 TGGGAGCATAGGCTTGCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATA
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
65081157 CCAGC
66 CCAGC
* * * * * * * *
65081162 TGGGAGCATAAGCTCGCGCTAACTATTTTGTAGGTTGCAGTATTGAACTTGTGTGCCTTAGGATA
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
* **
65081227 TCAAT
66 CCAGC
* * * * * * *
65081232 TGGGAACGTAACCTCGTGCTAACTATTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATA
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
65081297 CCAGC
66 CCAGC
* * * * * **
65081302 TGAGAGCGTAAGCTCGCACTAACTGTTTTGGAGGTTGTGGTATTGAACCTATGAGCCTTAAGATA
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
*
65081367 TCAGC
66 CCAGC
* ** * * * * * *
65081372 TGGGAGCGTAAACTCATGTTAACAATTTTGGAGGCTGCGGTATTAAACATGCTAGCCTTAGGATA
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
*
65081437 TCAGC
66 CCAGC
* * * * * * * * * *
65081442 TAGGAGCATAGGTTGGCGTTAACTATTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTAAGAT
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCG-GTATTGAACCTGCGAGCCTTAAGAT
*
65081506 ATCAGC
65 ACCAGC
* * * * * *
65081512 TAGGAGAGTAGGTTCACGCTAACTGTTTTGGAGGCT
1 TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCT
65081548 ATGTGTAACA
Statistics
Matches: 421, Mismatches: 104, Indels: 2
0.80 0.20 0.00
Matches are distributed among these distances:
69 1 0.00
70 420 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (70 bp):
TGGGAGCGTAAGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATA
CCAGC
Found at i:65081467 original size:210 final size:210
Alignment explanation
Indices: 65080977--65081547 Score: 581
Period size: 210 Copynumber: 2.7 Consensus size: 210
65080967 GTGCTAAGTG
* * * * * * *
65080977 TTTTGGAGACTGCGGTATTGAACCTGCAAGCCTTAAGATACCAACTGGGAGTGTAGGCTCGCACT
1 TTTTGGAGGCTGCGGTATTGAACATGCTAGCCTTAGGATATCAACTGGGAGCGTAGGCTCGCGCT
* * * * * * * * *
65081042 AACTGTTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATACCAGTTGGGAGCATAGGCTT
66 AACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAAGATACCAGCTGAGAGCGTAGGCTC
* *
65081107 GCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
131 GCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
* * *
65081172 AGCTCGCGCTAACTA
196 AACTCACGCTAACAA
* * * * * * * ** *
65081187 TTTTGTAGGTTGCAGTATTGAACTTG-TGTGCCTTAGGATATCAATTGGGAACGTAACCTCGTGC
1 TTTTGGAGGCTGCGGTATTGAACATGCT-AGCCTTAGGATATCAACTGGGAGCGTAGGCTCGCGC
* * * *
65081251 TAACTATTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATACCAGCTGAGAGCGTAAGCT
65 TAACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAAGATACCAGCTGAGAGCGTAGGCT
* * * * * *
65081316 CGCACTAACTGTTTTGGAGGTTGTGGTATTGAACCTATGAGCCTTAAGATATCAGCTGGGAGCGT
130 CGCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCAT
* *
65081381 AAACTCATGTTAACAA
195 AAACTCACGCTAACAA
* * * * * * *
65081397 TTTTGGAGGCTGCGGTATTAAACATGCTAGCCTTAGGATATCAGCTAGGAGCATAGGTTGGCGTT
1 TTTTGGAGGCTGCGGTATTGAACATGCTAGCCTTAGGATATCAACTGGGAGCGTAGGCTCGCGCT
* * * * *
65081462 AACTATTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTAAGATATCAGCT-AGGAGAGTAGGT
66 AACTATTTTAGAGGCTGTG-GTATTGAACCTGCAAGCCTTAAGATACCAGCTGA-GAGCGTAGGC
* *
65081525 TCACGCTAACTGTTTTGGAGGCT
129 TCGCACTAACTGTTTTGGAGGCT
65081548 ATGTGTAACA
Statistics
Matches: 286, Mismatches: 71, Indels: 8
0.78 0.19 0.02
Matches are distributed among these distances:
209 2 0.01
210 283 0.99
211 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (210 bp):
TTTTGGAGGCTGCGGTATTGAACATGCTAGCCTTAGGATATCAACTGGGAGCGTAGGCTCGCGCT
AACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAAGATACCAGCTGAGAGCGTAGGCTC
GCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
AACTCACGCTAACAA
Found at i:65082893 original size:40 final size:40
Alignment explanation
Indices: 65082844--65082977 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 40
65082834 TACAATTAGG
* *
65082844 GGTATCGAAGTACAAACAACGGCACGTATGTGTAATCAGA
1 GGTACCGAAGTACAAACAACGGCACGTATGTGCAATCAGA
* * * * *
65082884 GGTACCGAAGTACAAATAAGGGTACGTATATGCAATCAGG
1 GGTACCGAAGTACAAACAACGGCACGTATGTGCAATCAGA
** ** *
65082924 GGTACTAAAGTACAAACAGTGACACGTATGTGCAATCA-A
1 GGTACCGAAGTACAAACAACGGCACGTATGTGCAATCAGA
*
65082963 GGCTATCGAAGTACA
1 GG-TACCGAAGTACA
65082978 GTAATTTTCT
Statistics
Matches: 74, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 2 0.03
40 72 0.97
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (40 bp):
GGTACCGAAGTACAAACAACGGCACGTATGTGCAATCAGA
Found at i:65084212 original size:70 final size:70
Alignment explanation
Indices: 65084098--65084228 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 70
65084088 GTTACACTAT
* * * * *
65084098 AGTATTGAACTTGCGAGCCTTAGGATATCAGTTAGGAGCGTAGGCTCACGCTAACTATTTTTTTG
1 AGTATTGAACTTGCGAGACTTAAGATAGCAGTTAGGAGCATAGGCTCACACTAACTATTTTTTTG
65084163 GATGC
66 GATGC
* * * *
65084168 AGTATTGAACTTGCGA-ACTTCAAGATAGCGGTTGGGAGCATAGGCTCGCACTAATTATTTT
1 AGTATTGAACTTGCGAGACTT-AAGATAGCAGTTAGGAGCATAGGCTCACACTAACTATTTT
65084229 AGAGGTTGTG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
69 3 0.06
70 48 0.94
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (70 bp):
AGTATTGAACTTGCGAGACTTAAGATAGCAGTTAGGAGCATAGGCTCACACTAACTATTTTTTTG
GATGC
Found at i:65084274 original size:70 final size:70
Alignment explanation
Indices: 65084200--65084334 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 70
65084190 AGATAGCGGT
* * *** * *
65084200 TGGGAGCATAGGCTCGCACTAATTATTTTAGAGGTTGTGGTATTGAACCTACGAGCCTTAGGATA
1 TGGGAGCATAGGCTCACACTAACTATTTTAGAGGTTACAGTATTGAACCTACAAGCCTTAAGATA
65084265 TTAGC
66 TTAGC
* * *
65084270 TGGGAGCGTAGGTTCACACTAACTATTTTAGAGGTTACAGTATTGAACCTTCAAGCCTTAAGATA
1 TGGGAGCATAGGCTCACACTAACTATTTTAGAGGTTACAGTATTGAACCTACAAGCCTTAAGATA
65084335 CCAACTGAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (70 bp):
TGGGAGCATAGGCTCACACTAACTATTTTAGAGGTTACAGTATTGAACCTACAAGCCTTAAGATA
TTAGC
Found at i:65085137 original size:19 final size:21
Alignment explanation
Indices: 65085113--65085151 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65085103 ATCCTATCAT
65085113 GAATTT-TTA-CATGATAATA
1 GAATTTATTAGCATGATAATA
*
65085132 GAATTTATTAGCATGCTAAT
1 GAATTTATTAGCATGATAAT
65085152 CACATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (21 bp):
GAATTTATTAGCATGATAATA
Found at i:65086869 original size:46 final size:44
Alignment explanation
Indices: 65086785--65086952 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 44
65086775 GTAAGGTACT
65086785 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGGCC
* * *
65086831 GATGCATGTCTCAAACATGTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGGCC
* * * *
65086877 AATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-ACTGCC
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGA-GGCC
*
65086923 GATGCTATGTACCAGACATGGTCTTACACT
1 GATGC-ATGTCCCAGACAT-GTCTTACACT
65086953 ATCTCTCATA
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 52 0.51
47 13 0.13
48 11 0.11
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGGCC
Found at i:65090278 original size:23 final size:24
Alignment explanation
Indices: 65090252--65090345 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 24
65090242 TTTCGAGCCA
**
65090252 TGAT-CGGTAAGCTCCTCTTGAGC
1 TGATACGGTAAGCTCCTAATGAGC
*
65090275 TGATAACAGTAAGCT-CTAATGAGC
1 TGAT-ACGGTAAGCTCCTAATGAGC
*
65090299 TGATATGGTAAGCT-CT-ATCGAGC
1 TGATACGGTAAGCTCCTAAT-GAGC
*
65090322 TGA-ACTAGTAAGCTCC-AATGAGC
1 TGATAC-GGTAAGCTCCTAATGAGC
65090345 T
1 T
65090346 AAAAACAGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
22 3 0.05
23 33 0.57
24 14 0.24
25 8 0.14
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
TGATACGGTAAGCTCCTAATGAGC
Found at i:65090301 original size:24 final size:24
Alignment explanation
Indices: 65090270--65090373 Score: 99
Period size: 23 Copynumber: 4.4 Consensus size: 24
65090260 AAGCTCCTCT
65090270 TGAGCTGATAACAGTAAGCTCTAA
1 TGAGCTGATAACAGTAAGCTCTAA
**
65090294 TGAGCTGAT-ATGGTAAGCTCT-A
1 TGAGCTGATAACAGTAAGCTCTAA
*
65090316 TCGAGCTG--AACTAGTAAGCTCCAA
1 T-GAGCTGATAAC-AGTAAGCTCTAA
* * **
65090340 TGAGCTAAAAACAGTAAGCTCTTT
1 TGAGCTGATAACAGTAAGCTCTAA
65090364 TGAGCTGATA
1 TGAGCTGATA
65090374 TATCGGTAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
22 3 0.05
23 29 0.46
24 28 0.44
25 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (24 bp):
TGAGCTGATAACAGTAAGCTCTAA
Found at i:65094886 original size:18 final size:17
Alignment explanation
Indices: 65094854--65094890 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
65094844 TAAAAAATTT
*
65094854 ATTATTGAGTTGGTTAA
1 ATTATTGAATTGGTTAA
65094871 ATTATATGAATTGGTTAA
1 ATTAT-TGAATTGGTTAA
65094889 AT
1 AT
65094891 GTCCAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (17 bp):
ATTATTGAATTGGTTAA
Found at i:65095919 original size:21 final size:19
Alignment explanation
Indices: 65095863--65095923 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
65095853 TAATTATTTA
65095863 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
65095882 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
65095901 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
65095922 TT
1 TT
65095924 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:65096265 original size:3 final size:3
Alignment explanation
Indices: 65096257--65096297 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
65096247 TTTGATTCAC
* *
65096257 CAT CAT CAT CAC CAT CAT CAT CGT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
65096298 CTTTCTTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (3 bp):
CAT
Found at i:65097892 original size:72 final size:72
Alignment explanation
Indices: 65097719--65098000 Score: 404
Period size: 72 Copynumber: 3.9 Consensus size: 72
65097709 ATAATTTAGT
* ** * *
65097719 ATAAATAAGTAGAACATAAATTTAATATCTGAAAATCAAACATAAACAATTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
*
65097784 CTCTA-AGC
66 AT-TACA-C
* * * *
65097792 ATAAATAAGTAGACCATAAATTCAATATCCAAAGACCAAACATAAACAAATATTAATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
65097857 ATTACAC
66 ATTACAC
*
65097864 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
*
65097929 ATTACAT
66 ATTACAC
* * *
65097936 ATAAATAAGTAGAACGTAAATTCAATATCCAAAAACCAAACATAAATAACTATTGAGAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
65098001 TTTAGCATTG
Statistics
Matches: 189, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
72 130 0.69
73 59 0.31
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (72 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
ATTACAC
Found at i:65097976 original size:144 final size:145
Alignment explanation
Indices: 65097719--65098000 Score: 406
Period size: 145 Copynumber: 2.0 Consensus size: 145
65097709 ATAATTTAGT
* ** * **
65097719 ATAAATAAGTAGAACATAAATTTAATATCTGAAAATCAAACATAAACAATTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
* * * *
65097784 CTCTAAGCATAAATAAGTAGACCATAAATTCAATATCCAAAGACCAAACATAAACAAATATTAAT
66 ATCTAAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAAATATTAAG
65097849 AAAACTAGATTACAC
131 AAAACTAGATTACAC
65097864 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
* * * * *
65097929 AT-TACA-TATAAATAAGTAGAACGTAAATTCAATATCCAAAAACCAAACATAAATAACTATTGA
66 ATCTA-AGCATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAAATATTAA
65097992 GAAAACTAG
130 GAAAACTAG
65098001 TTTAGCATTG
Statistics
Matches: 121, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
144 60 0.50
145 61 0.50
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (145 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
ATCTAAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAAATATTAAG
AAAACTAGATTACAC
Found at i:65098460 original size:18 final size:18
Alignment explanation
Indices: 65098437--65098498 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
65098427 TCAATTTGAA
65098437 CATCATTTGAAATGTGAG
1 CATCATTTGAAATGTGAG
65098455 CATCATTTGAAATGTGAG
1 CATCATTTGAAATGTGAG
* * *
65098473 CATTATTTGAAATGTAAA
1 CATCATTTGAAATGTGAG
65098491 CATCATTT
1 CATCATTT
65098499 CTCACATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (18 bp):
CATCATTTGAAATGTGAG
Found at i:65099651 original size:26 final size:26
Alignment explanation
Indices: 65099615--65099668 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
65099605 AATGCTAAAA
65099615 CATATACAAGCTAATACCAAGGTAAT
1 CATATACAAGCTAATACCAAGGTAAT
*
65099641 CATATACAAGCTAATACCAGGGTAAT
1 CATATACAAGCTAATACCAAGGTAAT
65099667 CA
1 CA
65099669 CGCACATAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.22
Consensus pattern (26 bp):
CATATACAAGCTAATACCAAGGTAAT
Found at i:65100297 original size:41 final size:41
Alignment explanation
Indices: 65100217--65100419 Score: 280
Period size: 41 Copynumber: 4.9 Consensus size: 41
65100207 TTGTAAAACA
* * * *
65100217 CAGAGCAATAGCGGCGTTTTTTGTTAAAATGCCGCTAAAGAC
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAGAC
*
65100259 CAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
65100300 CAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* **
65100341 TAGAGCATTAGCGGCGCTTTTCATAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * *
65100382 CAGAGCATTAGCGGCGCTTTTAGTAAAATGCCACTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
65100420 AGTTATATAA
Statistics
Matches: 143, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 128 0.90
42 15 0.10
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:65101465 original size:18 final size:19
Alignment explanation
Indices: 65101442--65101480 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
65101432 AGATCTTTTT
65101442 TATTTTT-TATCAAAATAA
1 TATTTTTATATCAAAATAA
*
65101460 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAATAA
65101479 TA
1 TA
65101481 AATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTTATATCAAAATAA
Found at i:65104217 original size:13 final size:14
Alignment explanation
Indices: 65104199--65104228 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
65104189 ATCTAAATTC
65104199 AAAAAAGAAAAA-A
1 AAAAAAGAAAAAGA
65104212 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
65104226 AAA
1 AAA
65104229 TGCATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:65105633 original size:43 final size:43
Alignment explanation
Indices: 65105585--65105734 Score: 232
Period size: 43 Copynumber: 3.5 Consensus size: 43
65105575 TTTTTGAATT
*
65105585 TCATGA-CTTTTAGCGGCGTTT-TTGAGAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGG
65105628 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
*
65105671 TCATGATCTTTAACGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
* *
65105714 TCATGATCTTTAACTGCGTTT
1 TCATGATCTTTAGCGGCGTTT
65105735 ATTTGAAAAA
Statistics
Matches: 102, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
43 98 0.96
44 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
Found at i:65108379 original size:30 final size:29
Alignment explanation
Indices: 65108330--65108396 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 29
65108320 TGTGCAAAAT
* *
65108330 TCGGTTAACCGACTGAATTCAGTTAATTGG
1 TCGGTTAACCGAATGAATTCAGTTAA-GGG
* * * *
65108360 TCGGTTAACTGAATTAATTCGGTTGAGGG
1 TCGGTTAACCGAATGAATTCAGTTAAGGG
65108389 TCGGTTAA
1 TCGGTTAA
65108397 ATTTTTTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.34
Consensus pattern (29 bp):
TCGGTTAACCGAATGAATTCAGTTAAGGG
Found at i:65108654 original size:7 final size:6
Alignment explanation
Indices: 65108613--65108653 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
65108603 ATAATTTAAT
*
65108613 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
65108654 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:65108654 original size:20 final size:20
Alignment explanation
Indices: 65108616--65108655 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
65108606 ATTTAATAAA
**
65108616 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
65108636 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
65108656 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:65108687 original size:9 final size:9
Alignment explanation
Indices: 65108673--65108722 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
65108663 TTTATACAAA
65108673 TAATTCGGT
1 TAATTCGGT
**
65108682 TAATTCAAT
1 TAATTCGGT
* *
65108691 TAATTTGGG
1 TAATTCGGT
*
65108700 TAATTCGGG
1 TAATTCGGT
65108709 TAATTCGGT
1 TAATTCGGT
65108718 TAATT
1 TAATT
65108723 TTATACTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:65109979 original size:31 final size:31
Alignment explanation
Indices: 65109941--65110003 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
65109931 TCTTGGTGGA
*
65109941 GGGGGTGGGGGAAAG-GGAGAGGGAAAGGGAC
1 GGGGGTGGGGG-AAGTGGAGAAGGAAAGGGAC
*
65109972 GGGGGTGGGGGAAGTGGAGAAGGAGAGGGAC
1 GGGGGTGGGGGAAGTGGAGAAGGAAAGGGAC
65110003 G
1 G
65110004 AGTTATGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.27, C:0.03, G:0.65, T:0.05
Consensus pattern (31 bp):
GGGGGTGGGGGAAGTGGAGAAGGAAAGGGAC
Found at i:65113867 original size:27 final size:27
Alignment explanation
Indices: 65113829--65113883 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
65113819 GACTGCCGAA
65113829 CTAATCTCCTCTTCGGTAAATAGTTTG
1 CTAATCTCCTCTTCGGTAAATAGTTTG
65113856 CTAATCTCCTCTTCGGTAAATAGTTTG
1 CTAATCTCCTCTTCGGTAAATAGTTTG
65113883 C
1 C
65113884 GAAGGGAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (27 bp):
CTAATCTCCTCTTCGGTAAATAGTTTG
Found at i:65116888 original size:130 final size:132
Alignment explanation
Indices: 65116741--65116977 Score: 327
Period size: 130 Copynumber: 1.8 Consensus size: 132
65116731 GGCAATTTGC
* * * *
65116741 GGAATCGTGCCCTAACGTATTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATA-CCACTT
1 GGAATCGTGCCCCAACGTATTGGGTAGCAATTTCCCATTTGCTCAAAATAATCAAATATCC-CTT
** *
65116805 CAAAATTTCACTCATGTCTT-TTAAAATCC-CTAAAACGAAGGCGATATGCGATATTTGGCAATT
65 CAAAATTTCACTCAAATCTTCTGAAAATCCTCTAAAACGAAGGCGATATGCGATATTTGGCAATT
65116868 CAT
130 CAT
* * * *
65116871 GGAATCGTGCCCCAACGTGTTGGGTAGTAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTC
1 GGAATCGTGCCCCAACGTATTGGGTAGCAATTTCCCATTTGCTCAAAATAATCAAATATCCCTTC
* *
65116936 AAAATTTTACTCAAATCTTCTGAAAATCCTTTAAAACGAAGG
66 AAAATTTCACTCAAATCTTCTGAAAATCCTCTAAAACGAAGG
65116978 TAATACTCGG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
130 70 0.77
131 10 0.11
132 11 0.12
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (132 bp):
GGAATCGTGCCCCAACGTATTGGGTAGCAATTTCCCATTTGCTCAAAATAATCAAATATCCCTTC
AAAATTTCACTCAAATCTTCTGAAAATCCTCTAAAACGAAGGCGATATGCGATATTTGGCAATTC
AT
Done.