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 58 of 325
Found at i:17725373 original size:3 final size:3
Alignment explanation
Indices: 17725365--17725393 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17725355 TGATAGTTTG
17725365 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17725394 TTCTTTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17729702 original size:17 final size:17
Alignment explanation
Indices: 17729669--17729702 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17729659 CCATGCTTCA
* *
17729669 AATTTGAAGCTTCTATT
1 AATTTGAACCTTATATT
17729686 AATTTGAACCTTATATT
1 AATTTGAACCTTATATT
17729703 CACGTTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (17 bp):
AATTTGAACCTTATATT
Found at i:17730710 original size:13 final size:13
Alignment explanation
Indices: 17730694--17730718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17730684 AAAAGACTTG
17730694 AAAAAACTAAAAA
1 AAAAAACTAAAAA
17730707 AAAAAACTAAAA
1 AAAAAACTAAAA
17730719 CCTACTAGAG
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:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAACTAAAAA
Found at i:17753370 original size:28 final size:27
Alignment explanation
Indices: 17753317--17753370 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
17753307 TCTTTTTTTA
* *
17753317 TTTTTTAAAATTAAAAAAGTCTAATTG
1 TTTTATAAAATTAAAAAAGTATAATTG
17753344 TTTTATAAAATTATAAAATA-TATAATT
1 TTTTATAAAATTA-AAAA-AGTATAATT
17753371 ATAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 10 0.43
29 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
TTTTATAAAATTAAAAAAGTATAATTG
Found at i:17757392 original size:33 final size:33
Alignment explanation
Indices: 17757355--17757420 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
17757345 ATAAATTTTA
17757355 CATAGATAAAGCACACCCATTAAGTACTCCAAT
1 CATAGATAAAGCACACCCATTAAGTACTCCAAT
17757388 CATAGATAAAGCACACCCATTAAGTACTCCAAT
1 CATAGATAAAGCACACCCATTAAGTACTCCAAT
17757421 GGTTGTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.21
Consensus pattern (33 bp):
CATAGATAAAGCACACCCATTAAGTACTCCAAT
Found at i:17761888 original size:50 final size:48
Alignment explanation
Indices: 17761763--17761992 Score: 164
Period size: 50 Copynumber: 4.8 Consensus size: 48
17761753 GGTAGGAAGC
* *
17761763 CGATGTCATGTCCCAGATATGGTCTTACACTAGCTCACGTATCAAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCAAAGT
* * * ** * *
17761811 CAATGCAATGTCCTAGACATGGTCTTACACTAGCTCTTGTATGTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTA--TCAAAGT
* * * *** *
17761861 CGATGCCATGTCCCAAACATGGTCTTACACT-GAATCTCGTCCATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACGT--ATCAAAGT
* * * *
17761911 CGATGTCATGTCCCAGACATGGTCTTACACT-GACACAC--CTCATAG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACGTATCAAAGT
* *
17761956 CTGATGTCATGTCCCATACATGGTCTTACACTAGCTC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
17761993 TCGAATAACC
Statistics
Matches: 145, Mismatches: 30, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 34 0.23
47 1 0.01
48 34 0.23
49 1 0.01
50 73 0.50
52 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCAAAGT
Found at i:17764941 original size:35 final size:35
Alignment explanation
Indices: 17764873--17764983 Score: 96
Period size: 35 Copynumber: 3.1 Consensus size: 35
17764863 AAACCACCCA
* * * * *
17764873 AACACACCAGATACTTATAATAGCCAATTCAACCGT
1 AACACACCA-ATGCTCATAAGAGCTAATCCAACCGT
* ** * *
17764909 ATCATGCCAATGCTTATAAGAGTTAATCCAACCGT
1 AACACACCAATGCTCATAAGAGCTAATCCAACCGT
* * *
17764944 AACACATCAATGCTCATAAGAGCTAATCCAAACGA
1 AACACACCAATGCTCATAAGAGCTAATCCAACCGT
17764979 AACAC
1 AACAC
17764984 GTCAAATATA
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
35 53 0.90
36 6 0.10
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.22
Consensus pattern (35 bp):
AACACACCAATGCTCATAAGAGCTAATCCAACCGT
Found at i:17771362 original size:9 final size:9
Alignment explanation
Indices: 17771348--17771433 Score: 56
Period size: 9 Copynumber: 9.6 Consensus size: 9
17771338 CATGTGGTAA
17771348 AAAAATTAT
1 AAAAATTAT
17771357 -AAAA--AT
1 AAAAATTAT
*
17771363 AAAAATCAAT
1 AAAAAT-TAT
17771373 AAAAATTAT
1 AAAAATTAT
17771382 AAAAATTAT
1 AAAAATTAT
* * *
17771391 -TAAGTTTT
1 AAAAATTAT
17771399 AATAAA-TAT
1 AA-AAATTAT
17771408 AAAAAATTTATT
1 -AAAAA-TTA-T
17771420 AAAAATTAT
1 AAAAATTAT
17771429 AAAAA
1 AAAAA
17771434 AAGCATAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
6 2 0.03
7 4 0.07
8 9 0.15
9 22 0.37
10 15 0.25
11 7 0.12
12 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:17771785 original size:29 final size:29
Alignment explanation
Indices: 17771694--17771786 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
17771684 TTATTTACAT
** *
17771694 TTTTTATAATTTTCTTAAGAC-TTCATAAA
1 TTTTTATAATTTT-TTACTACTTTTATAAA
* * * *
17771723 ATTTTAT-ATTTTTTTCTA-TATTTCTATA
1 TTTTTATAATTTTTTACTACT-TTTATAAA
17771751 TATTTTATAATTTTTTACTACTTTTATAAA
1 T-TTTTATAATTTTTTACTACTTTTATAAA
17771781 TTTTTA
1 TTTTTA
17771787 CGATTTTCAT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
27 3 0.06
28 10 0.21
29 17 0.35
30 17 0.35
31 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTTATAATTTTTTACTACTTTTATAAA
Found at i:17771798 original size:19 final size:18
Alignment explanation
Indices: 17771752--17771799 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
17771742 ATTTCTATAT
* *
17771752 ATTTTATAATTTTTTACT
1 ATTTTATAAATTTTTACG
17771770 ACTTTTATAAATTTTTACG
1 A-TTTTATAAATTTTTACG
17771789 ATTTTCATAAA
1 ATTTT-ATAAA
17771800 AAAATTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTATAAATTTTTACG
Found at i:17771837 original size:19 final size:20
Alignment explanation
Indices: 17771813--17771866 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
17771803 ATTTCTATTT
17771813 TTTAAT-ATTTTTATTAAAA
1 TTTAATAATTTTTATTAAAA
*
17771832 TTTAATAATTTTTA-TAAAT
1 TTTAATAATTTTTATTAAAA
* *
17771851 TTTATTGATTTTTATT
1 TTTAATAATTTTTATT
17771867 TTTATCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTAATAATTTTTATTAAAA
Found at i:17774972 original size:16 final size:16
Alignment explanation
Indices: 17774939--17774972 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17774929 TTGATTTGTT
* *
17774939 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
17774955 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
17774971 AA
1 AA
17774973 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:17777796 original size:21 final size:21
Alignment explanation
Indices: 17777770--17777810 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17777760 AGACGAGCAA
* *
17777770 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
17777791 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
17777811 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:17779748 original size:16 final size:16
Alignment explanation
Indices: 17779715--17779748 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17779705 GGAGATTGTT
* *
17779715 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
17779731 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
17779747 AA
1 AA
17779749 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:17780655 original size:21 final size:20
Alignment explanation
Indices: 17780614--17780655 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
17780604 TTAAAATAGG
*
17780614 ATAAAATAAATAATTAGTTA
1 ATAAAATAAATAATTAATTA
17780634 ATAATAAT-AATAATTTAATTA
1 ATAA-AATAAATAA-TTAATTA
17780655 A
1 A
17780656 ATAACTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATAAATAATTAATTA
Found at i:17782023 original size:26 final size:25
Alignment explanation
Indices: 17781981--17782041 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
17781971 ATACATAAAT
*
17781981 TATATTATATGAGTGGGTCTTACTA
1 TATAATATATGAGTGGGTCTTACTA
* *
17782006 TGTACATATATGCA-TGGGTCTTATTA
1 TATA-ATATATG-AGTGGGTCTTACTA
17782032 TATAATATAT
1 TATAATATAT
17782042 ATAATTACGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 9 0.30
26 20 0.67
27 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.44
Consensus pattern (25 bp):
TATAATATATGAGTGGGTCTTACTA
Found at i:17785001 original size:29 final size:31
Alignment explanation
Indices: 17784964--17785032 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
17784954 TATAAATAGA
*
17784964 CTAAATAAAATAATAAAAT-AATAA-AA-TAT
1 CTAATTAAAAT-ATAAAATAAATAATAATTAT
* *
17784993 CTTATTAAAATATTAAATAAATAATAATTAT
1 CTAATTAAAATATAAAATAAATAATAATTAT
17785024 CTAATTAAA
1 CTAATTAAA
17785033 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATATAAAATAAATAATAATTAT
Found at i:17785009 original size:8 final size:8
Alignment explanation
Indices: 17784967--17784991 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17784957 AAATAGACTA
17784967 AATAAAAT
1 AATAAAAT
17784975 AATAAAAT
1 AATAAAAT
17784983 AATAAAAT
1 AATAAAAT
17784991 A
1 A
17784992 TCTTATTAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:17786990 original size:37 final size:39
Alignment explanation
Indices: 17786940--17787027 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 39
17786930 CCATTCAATA
* ** *
17786940 TCATTCAATATAACAGTATGATTT-GCTCGATTGAGC-T
1 TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
17786977 TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
1 TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
* *
17787016 ACTTTCAGTATA
1 TCATTCAGTATA
17787028 TGAAACAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 21 0.49
38 11 0.26
39 11 0.26
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
TCATTCAGTATAACAGTAAAATTTGGCTCGATAGAGCAT
Found at i:17787854 original size:22 final size:23
Alignment explanation
Indices: 17787813--17787873 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
17787803 TTTTAACTTT
* *
17787813 CTTAATTAAGCTTTAA-TAAATCA
1 CTTAATTAAGC-ATAATTAAACCA
17787836 -TTAATTAAGCATAATTAAACCA
1 CTTAATTAAGCATAATTAAACCA
*
17787858 CTTTATTAAGCATAAT
1 CTTAATTAAGCATAAT
17787874 CTCATCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 14 0.42
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (23 bp):
CTTAATTAAGCATAATTAAACCA
Found at i:17800433 original size:15 final size:15
Alignment explanation
Indices: 17800413--17800464 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
17800403 ACTATAAAAC
17800413 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
17800428 ATTTATAATTCTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
17800447 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
17800462 ATT
1 ATT
17800465 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:17800528 original size:16 final size:16
Alignment explanation
Indices: 17800497--17800533 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17800487 ATGTGAAGAA
17800497 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
17800513 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
17800529 TATTA
1 TATTA
17800534 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:17800568 original size:13 final size:12
Alignment explanation
Indices: 17800548--17800590 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
17800538 AAAATTAAAA
17800548 TATTAAATAATT
1 TATTAAATAATT
17800560 TATTAAAATAAATT
1 TATT-AAAT-AATT
17800574 ATATT-AATAATT
1 -TATTAAATAATT
17800586 TATTA
1 TATTA
17800591 TATGACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.15
12 8 0.30
13 7 0.26
14 4 0.15
15 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTAAATAATT
Found at i:17800582 original size:26 final size:29
Alignment explanation
Indices: 17800528--17800590 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 29
17800518 TTAAAATTTA
17800528 TTATTAAAATAAAATTAAAATATTAAATAAT
1 TTATTAAAATAAAATT--AATATTAAATAAT
17800559 TTATTAAAAT-AAATT-ATATT-AATAAT
1 TTATTAAAATAAAATTAATATTAAATAAT
17800585 TTATTA
1 TTATTA
17800591 TATGACTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 12 0.38
27 5 0.16
30 5 0.16
31 10 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTATTAAAATAAAATTAATATTAAATAAT
Found at i:17802457 original size:20 final size:20
Alignment explanation
Indices: 17802428--17802502 Score: 55
Period size: 20 Copynumber: 3.7 Consensus size: 20
17802418 ATTGAATCAC
* *
17802428 TAAAATTTATAATTTTTTAG
1 TAAAAATTATAATTTTTTAA
* *
17802448 TAAAAATTATAGTTTTGTT-T
1 TAAAAATTATAATTTT-TTAA
*
17802468 TAAATATTAATTAA-TTTTTAA
1 TAAAAATT-A-TAATTTTTTAA
*
17802489 CAAAAATTATAATT
1 TAAAAATTATAATT
17802503 GAGGAAATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.07
20 25 0.60
21 12 0.29
22 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (20 bp):
TAAAAATTATAATTTTTTAA
Found at i:17806110 original size:48 final size:48
Alignment explanation
Indices: 17805993--17806129 Score: 179
Period size: 48 Copynumber: 2.9 Consensus size: 48
17805983 TAGTTGGCAA
* *
17805993 TTTATCTGCTCGACCAACGGTTTATGCGCAATGTATTTTA-T-AGCAG
1 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTCAGCAG
* *
17806039 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATATTAGTCAGTAG
1 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTCAGCAG
* * ** *
17806087 TTTATTTGTTCGACCAATAGTTTATCCACAACGTATTTTAGTC
1 TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTC
17806130 GGGAGTCATC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 37 0.47
47 1 0.01
48 41 0.52
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (48 bp):
TTTATCTGCTCGACCAACGGTTTATGCACAACGTATTTTAGTCAGCAG
Found at i:17810696 original size:44 final size:44
Alignment explanation
Indices: 17810633--17810721 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
17810623 CATATTTGTT
*
17810633 AGATCCAATTCAGTTATTAGTCTCATATTATGTCTAAGTTATGG
1 AGATCCAATTCAGCTATTAGTCTCATATTATGTCTAAGTTATGG
17810677 AGATCCAATTCAGCTATTAGTCTCATATTATGTCTAAGTTATGG
1 AGATCCAATTCAGCTATTAGTCTCATATTATGTCTAAGTTATGG
17810721 A
1 A
17810722 TTTTAGTCCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (44 bp):
AGATCCAATTCAGCTATTAGTCTCATATTATGTCTAAGTTATGG
Found at i:17810785 original size:14 final size:14
Alignment explanation
Indices: 17810768--17810794 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17810758 CTCTATATTT
17810768 TTTTAATTTTAAAA
1 TTTTAATTTTAAAA
17810782 TTTTAATTTTAAA
1 TTTTAATTTTAAA
17810795 TTAAACGGTT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAATTTTAAAA
Found at i:17822715 original size:18 final size:17
Alignment explanation
Indices: 17822694--17822739 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
17822684 AGTTAAAATT
17822694 TTTTTATTTTATATAATA
1 TTTTTATTTTATATAA-A
17822712 TTTTTATTTT-TA-AAA
1 TTTTTATTTTATATAAA
17822727 -TTTTA-TTTATATA
1 TTTTTATTTTATATA
17822740 TTTTAGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 2 0.08
16 2 0.08
17 2 0.08
18 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTATTTTATATAAA
Found at i:17822733 original size:20 final size:21
Alignment explanation
Indices: 17822710--17822760 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
17822700 TTTTATATAA
*
17822710 TATTTTTAT-TTTTAAAATTT
1 TATTTATATATTTTAAAATTT
*
17822730 TATTTATATATTTTAGAA--T
1 TATTTATATATTTTAAAATTT
17822749 TATTTATATATT
1 TATTTATATATT
17822761 ATATATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 8 0.29
21 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTTATATATTTTAAAATTT
Found at i:17822749 original size:21 final size:19
Alignment explanation
Indices: 17822686--17822760 Score: 61
Period size: 19 Copynumber: 4.0 Consensus size: 19
17822676 TTTTTAAAAG
17822686 TTAAAATT-TTT-T-TATT
1 TTAAAATTATTTATATATT
*
17822702 TTATATAA-TATTTTTAT-TT
1 TTA-A-AATTATTTATATATT
17822721 TTAAAATTTTATTTATATATT
1 TTAAAA--TTATTTATATATT
*
17822742 TTAGAATTATTTATATATT
1 TTAAAATTATTTATATATT
17822761 ATATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
16 3 0.06
17 4 0.08
18 6 0.12
19 19 0.40
20 9 0.19
21 7 0.15
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (19 bp):
TTAAAATTATTTATATATT
Found at i:17825568 original size:18 final size:18
Alignment explanation
Indices: 17825545--17825582 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17825535 ATTAAAATTA
17825545 AAAAATCAAATTTAAACT
1 AAAAATCAAATTTAAACT
*
17825563 AAAAATTAAATTTAAACT
1 AAAAATCAAATTTAAACT
17825581 AA
1 AA
17825583 TTACATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATCAAATTTAAACT
Found at i:17827056 original size:21 final size:20
Alignment explanation
Indices: 17827032--17827072 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17827022 TTTCTTTTTG
*
17827032 AATTTTATGAGTTTATTTTAT
1 AATTTTATGA-ATTATTTTAT
*
17827053 AATTTTTTGAATTATTTTAT
1 AATTTTATGAATTATTTTAT
17827073 TTTTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (20 bp):
AATTTTATGAATTATTTTAT
Found at i:17830582 original size:84 final size:84
Alignment explanation
Indices: 17830326--17830623 Score: 261
Period size: 84 Copynumber: 3.5 Consensus size: 84
17830316 TTGAGGCCTG
* * * * * * *
17830326 TACTCCAAGGAGACTCAAGTTCAAGCAAAGGGT-ATATGTT-A-ATAGCATAAATGATGAAAACC
1 TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAAT-TGTTGACA-ACCA-AAATGGTGATAACC
* **
17830388 AAAACAGTAGAGTCAAGGAGTT
63 AAAACAGTAGAATCAAGGAACT
* * * * *
17830410 TACCCCGAA-GAGACTCAAGTTCAGACGAAGAGAAATTGTTGACAACCAAAATGGTAATAACCAA
1 TACTCC-AAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAA
* *
17830474 AACGGTA-AAGTCAAGG-AGT
65 AACAGTAGAA-TCAAGGAACT
*
17830493 GTACTCCAAGGAGACTGAAGTTTC-GGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACAA
1 -TACTCCAAGGAGACTGAAG-TTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCA
*
17830557 AAACAGTAGAATCGAGGAACT
64 AAACAGTAGAATCAAGGAACT
* * * *
17830578 TACTCCAAGGATACACG-AGTTCAGGCGAAAATTAATTGTTGACAAC
1 TACTCCAAGGAGAC-TGAAGTTCAGGCGAAGAGTAATTGTTGACAAC
17830624 ATAGATGATC
Statistics
Matches: 175, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
83 7 0.04
84 151 0.86
85 16 0.09
86 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (84 bp):
TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAAA
ACAGTAGAATCAAGGAACT
Found at i:17831083 original size:81 final size:81
Alignment explanation
Indices: 17830665--17831082 Score: 660
Period size: 81 Copynumber: 5.2 Consensus size: 81
17830655 AGGAGTTTAG
* * *
17830665 TCCAAGGAAACTTGAGTCCCGCCAAAGAAATCTTGACAACAGAAATTCTGATGTTCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
17830730 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
* * *
17830746 TCC-AGCGAAATTTGATTCCTGCCGAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAAG-GAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
17830810 AGAGGTGAGGACTCTGC
65 AGAGGTGAGGACTCTGC
*
17830827 TCCAACGG-CACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAA-GGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
*
17830891 AGAGGTGAGGACACTGC
65 AGAGGTGAGGACTCTGC
** *
17830908 TCCAACAAAACTTGAGTCCTGCCAAAGAGCTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
17830973 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
** *
17830989 TCCAACAAAACTTAAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
* *
17831054 GAGTTGAGGATTCTGC
66 GAGGTGAGGACTCTGC
17831070 TCCAAGGAAACTT
1 TCCAAGGAAACTT
17831083 ATCTTCAGGC
Statistics
Matches: 311, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
80 2 0.01
81 306 0.98
82 2 0.01
83 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (81 bp):
TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
GAGGTGAGGACTCTGC
Found at i:17842416 original size:56 final size:55
Alignment explanation
Indices: 17842286--17842422 Score: 141
Period size: 56 Copynumber: 2.4 Consensus size: 55
17842276 ATTACCGTAC
* ** * *
17842286 ATGTGGAAGTTCGCTGAGACGATCTTAAATGTGGAAGTCTGGTAGAATAATCTTAA
1 ATGTGGAAGTTCGCAG-GACGATCTTAAACATGGAAGTCTCGTAGAATAATATTAA
* * * *
17842342 ACGTGGAAGTCCACCAGGACGATCTTAAACATGGAAGT-TCGTCAGAATGATATTAA
1 ATGTGGAAGTTC-GCAGGACGATCTTAAACATGGAAGTCTCGT-AGAATAATATTAA
*
17842398 ATGTGGAAGTTCGTCAGGACAATCT
1 ATGTGGAAGTTCG-CAGGACGATCT
17842423 AATGTGGAAG
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
55 3 0.05
56 60 0.92
57 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (55 bp):
ATGTGGAAGTTCGCAGGACGATCTTAAACATGGAAGTCTCGTAGAATAATATTAA
Found at i:17842437 original size:26 final size:26
Alignment explanation
Indices: 17842397--17842451 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
17842387 AATGATATTA
*
17842397 AATGTGGAAGTTCGTCAGGACAATCT
1 AATGTGGAAGCTCGTCAGGACAATCT
* * *
17842423 AATGTGGAAGCTCGTGAGGTCTATCT
1 AATGTGGAAGCTCGTCAGGACAATCT
17842449 AAT
1 AAT
17842452 ATGGGGTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (26 bp):
AATGTGGAAGCTCGTCAGGACAATCT
Found at i:17845436 original size:14 final size:15
Alignment explanation
Indices: 17845389--17845441 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
17845379 AATCCAAGTC
17845389 AGATAAA-AAATTTGA
1 AGATAAATAAA-TTGA
*
17845404 AGAAAAAT-AATTGA
1 AGATAAATAAATTGA
17845418 A-ATAAATAAATT-A
1 AGATAAATAAATTGA
*
17845431 AGATAAGTAAA
1 AGATAAATAAA
17845442 ATAGAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.22
14 17 0.53
15 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (15 bp):
AGATAAATAAATTGA
Found at i:17845731 original size:27 final size:25
Alignment explanation
Indices: 17845679--17845731 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
17845669 AAACTCTTCT
*
17845679 AAAAGAAACTCAAGAGAAATTCTTG
1 AAAAGAAACTCAAGAGAAATTATTG
*
17845704 AAAAGAAAACTCAAAGAGAATTTATTG
1 AAAAG-AAACTC-AAGAGAAATTATTG
17845731 A
1 A
17845732 CTCAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTG
Found at i:17845961 original size:16 final size:17
Alignment explanation
Indices: 17845942--17845975 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
17845932 AAATTCGGAA
17845942 TAATAAAA-TGATAAAT
1 TAATAAAAGTGATAAAT
17845958 TAATAAAAGTTGATAAAT
1 TAATAAAAG-TGATAAAT
17845976 ACAATATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
TAATAAAAGTGATAAAT
Found at i:17858418 original size:199 final size:199
Alignment explanation
Indices: 17858059--17858418 Score: 571
Period size: 199 Copynumber: 1.8 Consensus size: 199
17858049 TGACCCATAT
* * *
17858059 GGCCTGGCCACATGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTGTGGGATCTCACATGG
1 GGCCTGGCCACACGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTATGGAATCTCACATGG
*
17858124 GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACATAGCCTA
66 GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCTA
* *
17858189 GGCACACGGGCGTGTCCTAGGCCGTGTGAAACCCGGAGCTAATTTTTTTTCAAAGTTAGAGAGTT
131 GGCACACGGGCATGTCCTAGGCCATGTGAAACCCGGAGCTAATTTTTTTTCAAAGTTAGAGAGTT
17858254 ACAC
196 ACAC
* * *
17858258 GGCCTGGCTACACGGGTGTGTGGAGCACACGGCCTGACCACATGGGCGTATGGAATTTCACATGG
1 GGCCTGGCCACACGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTATGGAATCTCACATGG
**
17858323 GTGTGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCT-
66 GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCTA
* *
17858387 GGACTCACGGGCATGTCC-ACGTCCATGTGAAA
131 GG-CACACGGGCATGTCCTA-GGCCATGTGAAA
17858419 ACTGGGTTAA
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
198 3 0.02
199 143 0.98
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (199 bp):
GGCCTGGCCACACGGGTGTGTGGAGCACACGGCCTGACCACACGGGCGTATGGAATCTCACATGG
GCATGGGAGAAGTGAAGGAAAACACACATGGCCTGGCGACATGGCCATGTGACCCACACAGCCTA
GGCACACGGGCATGTCCTAGGCCATGTGAAACCCGGAGCTAATTTTTTTTCAAAGTTAGAGAGTT
ACAC
Found at i:17858461 original size:15 final size:15
Alignment explanation
Indices: 17858438--17858489 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
17858428 ATCACCCCAA
17858438 TTTTATTTTATTT-T
1 TTTTATTTTATTTAT
* *
17858452 ATTTA-TTT-TTAAT
1 TTTTATTTTATTTAT
*
17858465 TTTTATATTATTTAT
1 TTTTATTTTATTTAT
17858480 TTTTATTTTA
1 TTTTATTTTA
17858490 CTAATTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
12 2 0.07
13 8 0.28
14 6 0.21
15 13 0.45
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:17858469 original size:22 final size:21
Alignment explanation
Indices: 17858438--17858488 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
17858428 ATCACCCCAA
*
17858438 TTTTA-TTTTATTTTATTTAT
1 TTTTATTTTTATATTATTTAT
17858458 TTTTAATTTTTATATTATTTAT
1 TTTT-ATTTTTATATTATTTAT
17858480 TTTTATTTT
1 TTTTATTTT
17858489 ACTAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 18 0.64
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTATATTATTTAT
Found at i:17858496 original size:22 final size:21
Alignment explanation
Indices: 17858438--17858496 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
17858428 ATCACCCCAA
*
17858438 TTTTATTTTAT-TTTATTTAT
1 TTTTATTTTATAATTATTTAT
17858458 TTTTAATTTT-TATATTATTTAT
1 TTTT-ATTTTATA-ATTATTTAT
17858480 TTTTATTTTACTAATTA
1 TTTTATTTTA-TAATTA
17858497 ATTAATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 5 0.15
21 10 0.30
22 16 0.48
23 2 0.06
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTATTTTATAATTATTTAT
Found at i:17858599 original size:21 final size:22
Alignment explanation
Indices: 17858564--17858615 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
17858554 ATTATTATTA
*
17858564 TTATTTTTCTATTTC-TATTTTT
1 TTATTTTT-TCTTTCGTATTTTT
*
17858586 TTCTTTTTTCTTTCGTATTTTT
1 TTATTTTTTCTTTCGTATTTTT
17858608 TTATTTTT
1 TTATTTTT
17858616 ACTATTAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (22 bp):
TTATTTTTTCTTTCGTATTTTT
Found at i:17858665 original size:18 final size:18
Alignment explanation
Indices: 17858642--17858676 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17858632 TTACCTTTTA
17858642 AGTTTATTGA-TATTATTG
1 AGTTTATT-ATTATTATTG
17858660 AGTTTATTATTATTATT
1 AGTTTATTATTATTATT
17858677 ATTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (18 bp):
AGTTTATTATTATTATTG
Found at i:17862663 original size:12 final size:12
Alignment explanation
Indices: 17862646--17862671 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17862636 GCTGTTATAT
17862646 GGCCTAGCACAC
1 GGCCTAGCACAC
17862658 GGCCTAGCACAC
1 GGCCTAGCACAC
17862670 GG
1 GG
17862672 GCGTGTGGTT
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:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:17870007 original size:40 final size:40
Alignment explanation
Indices: 17869923--17870106 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
17869913 TTGAATGCTG
* * * *
17869923 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
17869962 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
17870003 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
17870043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
17870083 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17870107 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:17870060 original size:80 final size:81
Alignment explanation
Indices: 17869923--17870103 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
17869913 TTGAATGCTG
* * *
17869923 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
17869987 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
17870003 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
17870064 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
17870083 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
17870104 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:17870127 original size:39 final size:38
Alignment explanation
Indices: 17870004--17870153 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
17869994 GTTATTAATT
* ** * *
17870004 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
17870044 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
17870083 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
17870123 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
17870154 GAGCTATATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:17870161 original size:40 final size:39
Alignment explanation
Indices: 17870044--17870166 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
17870034 GATACTAATT
* ** ** *
17870044 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
17870083 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
17870123 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
17870163 CCGG
1 CCGG
17870167 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:17877972 original size:40 final size:40
Alignment explanation
Indices: 17877928--17878058 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
17877918 GAACTAAGAT
*
17877928 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
17877968 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
17878008 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
17878048 CCGAAGGCATT
1 CCGAAGGCATT
17878059 GAATGAGTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:17878079 original size:39 final size:38
Alignment explanation
Indices: 17877956--17878105 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
17877946 GTTATTAATT
* ** * *
17877956 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
17877996 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
17878035 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
17878075 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
17878106 GAGCTATATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:17878113 original size:40 final size:39
Alignment explanation
Indices: 17877996--17878118 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
17877986 GATACTAATT
* ** ** *
17877996 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
17878035 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
17878075 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
17878115 CCGG
1 CCGG
17878119 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:17881145 original size:22 final size:22
Alignment explanation
Indices: 17881120--17881163 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17881110 ATCAGAACAG
*
17881120 GAGCCTGAGTTAGAACAGACTT
1 GAGCCTGAGTCAGAACAGACTT
*
17881142 GAGCCTGAGTCAGAATAGACTT
1 GAGCCTGAGTCAGAACAGACTT
17881164 AAGCTTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (22 bp):
GAGCCTGAGTCAGAACAGACTT
Found at i:17884445 original size:7 final size:7
Alignment explanation
Indices: 17884433--17884462 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17884423 TAAGTAAGTA
17884433 AAAAACC
1 AAAAACC
17884440 AAAAACC
1 AAAAACC
17884447 AAAAACC
1 AAAAACC
*
17884454 CAAAACC
1 AAAAACC
17884461 AA
1 AA
17884463 TGTCAAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACC
Found at i:17886268 original size:15 final size:15
Alignment explanation
Indices: 17886248--17886279 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17886238 TGAAAAAAAG
*
17886248 AGGAAATGTTAGGTT
1 AGGAAATGATAGGTT
17886263 AGGAAATGATAGGTT
1 AGGAAATGATAGGTT
17886278 AG
1 AG
17886280 TGGATTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (15 bp):
AGGAAATGATAGGTT
Found at i:17889871 original size:21 final size:22
Alignment explanation
Indices: 17889829--17889872 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
17889819 TTTAATAGCT
* **
17889829 CTCCAAATCCCTCTAATTACTC
1 CTCCAAATCCCTCAAAACACTC
17889851 CTCC-AATCCCTCAAAACACTC
1 CTCCAAATCCCTCAAAACACTC
17889872 C
1 C
17889873 CACTACCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (22 bp):
CTCCAAATCCCTCAAAACACTC
Found at i:17894836 original size:42 final size:42
Alignment explanation
Indices: 17894789--17894873 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
17894779 CCACAACCTC
* *
17894789 TAGTACCCCGTCCATGAGTACCACTTGCACTCATCGTGGATT
1 TAGTACCCCGTCCATGAGCACCACTTGCACTCATCGTAGATT
*
17894831 TAGTACCCCGTCCATGAGCAGCACTTGCACTCATCGTAGATT
1 TAGTACCCCGTCCATGAGCACCACTTGCACTCATCGTAGATT
17894873 T
1 T
17894874 CAGAATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (42 bp):
TAGTACCCCGTCCATGAGCACCACTTGCACTCATCGTAGATT
Found at i:17896906 original size:30 final size:30
Alignment explanation
Indices: 17896872--17896931 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17896862 TTCCTGAGCC
*
17896872 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
17896902 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
17896932 CATATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:17902956 original size:20 final size:20
Alignment explanation
Indices: 17902933--17903001 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 20
17902923 AGTTCCGAAC
17902933 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
*
17902953 TCG-TGAGATGTAAGTAGGCATCCGAGC
1 TCGTTGAG-T-T--G-A-G--TCCGAGT
17902980 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
17903000 TC
1 TC
17903002 ACTTATGGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 1 0.03
22 1 0.03
23 2 0.05
24 2 0.05
25 1 0.03
26 1 0.03
27 10 0.26
28 4 0.11
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (20 bp):
TCGTTGAGTTGAGTCCGAGT
Found at i:17912712 original size:30 final size:29
Alignment explanation
Indices: 17912678--17912757 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 29
17912668 CTTCACAAGC
*
17912678 CACTCAATGAAACCATCCTTACCTAAGCAA
1 CACTCAAT-AAACCATCCTCACCTAAGCAA
17912708 CACTCCAATAAACCATCCTCACCTAAGCAA
1 CACT-CAATAAACCATCCTCACCTAAGCAA
17912738 CACTCTAATAAACCATCCTC
1 CACTC-AATAAACCATCCTC
17912758 TTCACCGACT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 1 0.02
30 42 0.89
31 4 0.09
ACGTcount: A:0.39, C:0.38, G:0.04, T:0.20
Consensus pattern (29 bp):
CACTCAATAAACCATCCTCACCTAAGCAA
Found at i:17913756 original size:21 final size:18
Alignment explanation
Indices: 17913716--17913751 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17913706 CTTCCTACTT
17913716 GTTCATCATTACAAATAA
1 GTTCATCATTACAAATAA
17913734 GTTCATCATTACAAATAA
1 GTTCATCATTACAAATAA
17913752 TAAGTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
GTTCATCATTACAAATAA
Found at i:17915749 original size:69 final size:69
Alignment explanation
Indices: 17915645--17915775 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
17915635 TTAAAAAAAC
** *
17915645 GCCGCTAAAGACCATAACTTTTAGCGGTACTTTTTTCTCAAACATCGCCAAAAACCACAACTAAA
1 GCCGCTAAAGACCATAACTTTTAGCGACACTTTTTTCTCAAACATCCCCAAAAACCACAACTAAA
17915710 AAGT
66 AAGT
* *
17915714 GCCGCTAAAGACCATGACTTTTAGCGACACTTTTTTCTCAAACGTCCCCAAAAACCACAACT
1 GCCGCTAAAGACCATAACTTTTAGCGACACTTTTTTCTCAAACATCCCCAAAAACCACAACT
17915776 CTTAGCGGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.24
Consensus pattern (69 bp):
GCCGCTAAAGACCATAACTTTTAGCGACACTTTTTTCTCAAACATCCCCAAAAACCACAACTAAA
AAGT
Found at i:17915814 original size:43 final size:43
Alignment explanation
Indices: 17915714--17915814 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
17915704 ACTAAAAAGT
** * * *
17915714 GCCGCTAAAGACCATGACTTTTAGCGACACTTTTTTCTCAAAC
1 GCCGCTAAAGACCACAACTCTTAGCGACACTTTCTTCGCAAAC
* * * *
17915757 GTCC-CCAAAAACCACAACTCTTAGCGGCACTTTCTTCGCAAGC
1 G-CCGCTAAAGACCACAACTCTTAGCGACACTTTCTTCGCAAAC
17915800 GCCGCTAAAGACCAC
1 GCCGCTAAAGACCAC
17915815 GACCTAGCGC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.04
43 41 0.91
44 2 0.04
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGACCACAACTCTTAGCGACACTTTCTTCGCAAAC
Found at i:17920321 original size:21 final size:22
Alignment explanation
Indices: 17920292--17920355 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
17920282 TTTTTAGTCC
* *
17920292 CTTCATCTTCACTC-TCTTTTT
1 CTTCCTCTTCACTCTTCTTCTT
*
17920313 CTTCCTCTTC-TTCTTCTTCTT
1 CTTCCTCTTCACTCTTCTTCTT
17920334 CTTCCTCGTTCAC-CTTC-TCTT
1 CTTCCTC-TTCACTCTTCTTCTT
17920355 C
1 C
17920356 AACATCTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.06
21 27 0.75
22 7 0.19
ACGTcount: A:0.05, C:0.39, G:0.02, T:0.55
Consensus pattern (22 bp):
CTTCCTCTTCACTCTTCTTCTT
Found at i:17921081 original size:14 final size:14
Alignment explanation
Indices: 17921043--17921088 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
17921033 CACTAAAAAC
17921043 TAAACCTTAAACCA
1 TAAACCTTAAACCA
**
17921057 TAAGTCTTAAACCA
1 TAAACCTTAAACCA
* *
17921071 TAAACCCTAAACTA
1 TAAACCTTAAACCA
17921085 TAAA
1 TAAA
17921089 TATAATTAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:17921191 original size:7 final size:7
Alignment explanation
Indices: 17921179--17921230 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
17921169 ACTAATTAAT
17921179 CTAAACC
1 CTAAACC
17921186 CTAAACTC
1 CTAAAC-C
*
17921194 CTAATCC
1 CTAAACC
17921201 CTAAACC
1 CTAAACC
* *
17921208 ATAAATC
1 CTAAACC
*
17921215 CTAAAAC
1 CTAAACC
*
17921222 ATAAACC
1 CTAAACC
17921229 CT
1 CT
17921231 GGATCATGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:17921256 original size:14 final size:14
Alignment explanation
Indices: 17921239--17921296 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
17921229 CTGGATCATG
17921239 AACCCCTAACCCTT
1 AACCCCTAACCCTT
* *
17921253 AACCCATAACCCCT
1 AACCCCTAACCCTT
* *
17921267 AACACCTAAACCTT
1 AACCCCTAACCCTT
*
17921281 AAATCCC-AACCCTT
1 -AACCCCTAACCCTT
17921295 AA
1 AA
17921297 ACCACACTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
13 2 0.06
14 28 0.82
15 4 0.12
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCCTAACCCTT
Found at i:17921310 original size:32 final size:32
Alignment explanation
Indices: 17921268--17921329 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
17921258 ATAACCCCTA
* *
17921268 ACACCTAAACCTTAAATCCC-AACCCTTAAACC
1 ACACCTAAACCAT-AATCCCTAAACCTTAAACC
*
17921300 ACACTTAAACCATAATCCCTAAACCTTAAA
1 ACACCTAAACCATAATCCCTAAACCTTAAA
17921330 ATAGTAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (32 bp):
ACACCTAAACCATAATCCCTAAACCTTAAACC
Found at i:17921918 original size:41 final size:41
Alignment explanation
Indices: 17921854--17922078 Score: 288
Period size: 41 Copynumber: 5.5 Consensus size: 41
17921844 GGTTATATGA
* * * *
17921854 CTTTTAGTGGCGTTTTACCAAAAGTGCCGCTAATGATCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* * *
17921895 TTTTTAGTGGCGTTTTATAAAAAGCGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* *
17921936 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAGTGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* * *
17921977 CTTATAGCGGCTTTTTACAAAAAGTGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* * * **
17922018 CTTCTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTTTAA
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
*
17922059 TTTTTAGCGGCGTTTTACAA
1 CTTTTAGCGGCGTTTTACAA
17922079 TTTTTGCGGC
Statistics
Matches: 159, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 159 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
Found at i:17922087 original size:19 final size:20
Alignment explanation
Indices: 17922057--17922094 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
17922047 CTAATGCTTT
17922057 AATTTTTAGCGGCGTTTTAC
1 AATTTTTAGCGGCGTTTTAC
17922077 AATTTTT-GCGGCGTTTTA
1 AATTTTTAGCGGCGTTTTA
17922095 TGAAGCCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (20 bp):
AATTTTTAGCGGCGTTTTAC
Found at i:17922407 original size:23 final size:25
Alignment explanation
Indices: 17922372--17922424 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
17922362 AATTATTAAC
17922372 ATAAAAAATATATATAAGTACAATA
1 ATAAAAAATATATATAAGTACAATA
17922397 ATAAAAAATATATATAAGTACAATA
1 ATAAAAAATATATATAAGTACAATA
17922422 ATA
1 ATA
17922425 TTTCTTCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (25 bp):
ATAAAAAATATATATAAGTACAATA
Found at i:17922425 original size:16 final size:15
Alignment explanation
Indices: 17922378--17922425 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
17922368 TAACATAAAA
17922378 AATATATATAAGTAC
1 AATATATATAAGTAC
17922393 AATA-ATA-AA--A-
1 AATATATATAAGTAC
17922403 AATATATATAAGTAC
1 AATATATATAAGTAC
17922418 AATA-ATAT
1 AATATATAT
17922426 TTCTTCCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
10 4 0.14
11 4 0.14
12 2 0.07
13 2 0.07
14 8 0.29
15 8 0.29
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (15 bp):
AATATATATAAGTAC
Found at i:17926302 original size:143 final size:143
Alignment explanation
Indices: 17926110--17926443 Score: 454
Period size: 143 Copynumber: 2.3 Consensus size: 143
17926100 GTTTGCAGCC
* * ** * * *** * *
17926110 TTCAATCTGCTTCACTGTAACTTCAAGAAGATAAGATTTGTCATAATTTGTAGCTTTAATCTGTC
1 TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
* * * *
17926175 CCACTATAACTTC-AGGTGAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGTAATTTTAGGGAG
66 CCACTACAACTTCAAGG-GAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAG
17926239 ATAAGACTTGTGGA
130 ATAAGACTTGTGGA
* * *
17926253 TTCAATCTGCTCCATTGCGGCTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
1 TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
*
17926318 CCACTACAACTTCAAGGGAATGAGATTCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGA
66 CCACTACAACTTCAAGGGAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGA
*
17926383 TAAGACTTGTGGC
131 TAAGACTTGTGGA
* *
17926396 TTCAATCTCCTCCACTGTGACTTCTGGGAGATAAGATTCACCATGATT
1 TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATT
17926444 ACTCAATCTG
Statistics
Matches: 167, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
143 164 0.98
144 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (143 bp):
TTCAATCTCCTCCACTGCGACTTCAGGGAGATAAGATTCACCATGATTTGTAACTTTAATCTGTC
CCACTACAACTTCAAGGGAATGAGATCCGTTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGA
TAAGACTTGTGGA
Found at i:17929712 original size:79 final size:81
Alignment explanation
Indices: 17929576--17929760 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
17929566 TTGAATGATG
*
17929576 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17929640 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
17929655 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
17929717 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
17929735 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17929761 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:17929774 original size:40 final size:40
Alignment explanation
Indices: 17929577--17929760 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
17929567 TGAATGATGT
* * * *
17929577 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
17929617 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
17929657 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17929695 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17929736 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17929761 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17929782 original size:79 final size:79
Alignment explanation
Indices: 17929629--17929793 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
17929619 GGACTAAGAT
* **
17929629 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
17929694 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
17929708 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
17929771 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
17929787 CCGAAGG
1 CCGAAGG
17929794 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17937650 original size:79 final size:81
Alignment explanation
Indices: 17937514--17937698 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
17937504 TTGAATGATG
*
17937514 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17937578 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
17937593 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
17937655 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
17937673 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17937699 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:17937712 original size:40 final size:40
Alignment explanation
Indices: 17937515--17937698 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
17937505 TGAATGATGT
* * * *
17937515 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
17937555 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
17937595 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17937633 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17937674 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17937699 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17937720 original size:79 final size:79
Alignment explanation
Indices: 17937567--17937731 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
17937557 GGACTAAGAT
* **
17937567 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
17937632 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
17937646 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
17937709 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
17937725 CCGAAGG
1 CCGAAGG
17937732 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17949613 original size:3 final size:3
Alignment explanation
Indices: 17949607--17949632 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17949597 CATAAAGTAG
17949607 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
17949633 GAACATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:17951236 original size:24 final size:24
Alignment explanation
Indices: 17951207--17951259 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
17951197 TTTTGCGTTC
*
17951207 ATTTTTA-AAATTTATTAAATAATAT
1 ATTTTTATAAA-TTATAAAAT-ATAT
17951232 ATTTTTATAAATTATAAAATATAT
1 ATTTTTATAAATTATAAAATATAT
17951256 ATTT
1 ATTT
17951260 ACTAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 15 0.58
26 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTTATAAATTATAAAATATAT
Found at i:17952884 original size:21 final size:20
Alignment explanation
Indices: 17952860--17952898 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17952850 ATTTTAAAAT
* *
17952860 AAATATATTTCAACAAATTGA
1 AAATAAATTT-AAAAAATTGA
17952881 AAATAAATTTAAAAAATT
1 AAATAAATTTAAAAAATT
17952899 TATTTACACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATAAATTTAAAAAATTGA
Found at i:17953049 original size:11 final size:11
Alignment explanation
Indices: 17953011--17953053 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
17953001 ATAATAACAA
17953011 CAAAATAGTAG
1 CAAAATAGTAG
*
17953022 CAACATAGTAG
1 CAAAATAGTAG
** *
17953033 TGAAATGGTAG
1 CAAAATAGTAG
17953044 CAAAATAGTA
1 CAAAATAGTA
17953054 ATAAAAAAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:17954687 original size:49 final size:48
Alignment explanation
Indices: 17954479--17954789 Score: 174
Period size: 49 Copynumber: 6.6 Consensus size: 48
17954469 TATGTGTGCT
* ** ** * *
17954479 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACAT-CATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTGATAGATGAAAGCC
* * * ** * * *
17954525 AGTGTAAGACATGTATGGGACAT-ACATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCT-GATAGATGA-AAGCC
* * * * * *
17954573 AGTGTAAAACCTGTCTGGGACATGGCATCAGCTTG-T-TATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTGATAGATGAAAGCC
* * *
17954617 AATGTAAGACCTGTGTGGGACATGGCATCAACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTGATAGATGAAAGCC
* * * * **
17954666 AGTGTAAGACCTGTCTTGGACATGGCATCGACCTTGTTATATGAAATTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACC-TGATAGATGAAAGCC
* * * **
17954715 AGTGTAAGACATGTCTGGGACATGGCATCGACTTGAT-G-TGTTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTGATAGATGAAAGCC
* *
17954761 AGTGAAAGACCATGTCTAGGACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
17954790 TAACATCTTA
Statistics
Matches: 206, Mismatches: 47, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
44 29 0.14
45 2 0.01
46 47 0.23
47 21 0.10
48 30 0.15
49 77 0.37
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACCTGATAGATGAAAGCC
Found at i:17954687 original size:93 final size:92
Alignment explanation
Indices: 17954573--17954789 Score: 240
Period size: 98 Copynumber: 2.3 Consensus size: 92
17954563 TATACAAGCT
* * * * * *
17954573 AGTGTAAAACCTGTCTGGGACATGGCATC-AGCTTGTTATGTG-TCAATGTAAGACCTGTGTGGG
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACCTTGTTATATGATCAATGTAAGACATGTCTGGG
17954636 ACATGGCATCAACACTGATAGATGAGAGCC
66 ACATGGCATCAAC-CTGAT-G-TGAGAGCC
* *
17954666 AGTGTAAGACCTGTCTTGGACATGGCATCGACCTTGTTATATGAAATTCAGTGTAAGACATGTCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACCTTGTTATATG--A-TCAATGTAAGACATGTCT
* * **
17954731 GGGACATGGCATCGACTTGATGTGTTAGCC
63 GGGACATGGCATCAACCTGATGTGAGAGCC
*
17954761 AGTGAAAGACCATGTCTAGGACATGGCAT
1 AGTGTAAGACC-TGTCTAGGACATGGCAT
17954790 TAACATCTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
93 27 0.26
94 11 0.10
95 16 0.15
96 17 0.16
97 4 0.04
98 30 0.29
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (92 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACCTTGTTATATGATCAATGTAAGACATGTCTGGG
ACATGGCATCAACCTGATGTGAGAGCC
Found at i:17956058 original size:36 final size:36
Alignment explanation
Indices: 17956011--17956085 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
17956001 GGGCAGGTCT
17956011 ACTCATGGTCAAGACTCACTATTAATATTTTAATTC
1 ACTCATGGTCAAGACTCACTATTAATATTTTAATTC
17956047 ACTCATGGTCAAGACTCACTATTAATATTTTAATTC
1 ACTCATGGTCAAGACTCACTATTAATATTTTAATTC
17956083 ACT
1 ACT
17956086 TTTACCCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (36 bp):
ACTCATGGTCAAGACTCACTATTAATATTTTAATTC
Found at i:17956635 original size:29 final size:28
Alignment explanation
Indices: 17956593--17956665 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
17956583 AAGTTAGGAA
17956593 AAAATATTAAAAAAT-ATATAAAAATTGT
1 AAAATATTAAAAAATCAT-TAAAAATTGT
* *
17956621 AAAATTTTATAAAAATCATTAAAGATTGT
1 AAAATATTA-AAAAATCATTAAAAATTGT
17956650 AAAATGCATTAAAAAA
1 AAAAT--ATTAAAAAA
17956666 ACCCCTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.21
29 20 0.53
30 7 0.18
31 3 0.08
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAATATTAAAAAATCATTAAAAATTGT
Found at i:17956853 original size:9 final size:9
Alignment explanation
Indices: 17956839--17957033 Score: 73
Period size: 9 Copynumber: 21.0 Consensus size: 9
17956829 TTTTGGCACG
17956839 ATAATTTTT
1 ATAATTTTT
17956848 ATAATTTCTTTT
1 ATAA--T-TTTT
17956860 ATGAA-TTTT
1 AT-AATTTTT
*
17956869 ATATTTCTTT
1 ATAATT-TTT
*
17956879 ACAATTTTT
1 ATAATTTTT
17956888 ATAATTTTCT
1 ATAATTTT-T
17956898 -TGCAA-TTTT
1 AT--AATTTTT
*
17956907 ATAAAATTTT
1 AT-AATTTTT
* * *
17956917 AAAACTTCT
1 ATAATTTTT
17956926 AT-ATTTTT
1 ATAATTTTT
***
17956934 GCGATTTTT
1 ATAATTTTT
17956943 ATAATTTTTT
1 ATAA-TTTTT
17956953 ATAATTTTT
1 ATAATTTTT
*
17956962 A-ATAGTTTT
1 ATA-ATTTTT
*
17956971 ATATTTTTT
1 ATAATTTTT
**
17956980 ATTAAAATTT
1 A-TAATTTTT
17956990 A-ATATTTTT
1 ATA-ATTTTT
*
17956999 ATAACTTTT
1 ATAATTTTT
*
17957008 ATTATTTTT
1 ATAATTTTT
17957017 -T-ATTATTT
1 ATAATT-TTT
17957025 ATAATTTTT
1 ATAATTTTT
17957034 TTCCACATGT
Statistics
Matches: 138, Mismatches: 27, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
7 3 0.02
8 11 0.08
9 76 0.55
10 37 0.27
11 3 0.02
12 6 0.04
13 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:17956894 original size:20 final size:22
Alignment explanation
Indices: 17956841--17956894 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 22
17956831 TTGGCACGAT
*
17956841 AATTTTTATAATTTCTTTTATG
1 AATTTTTATAATTTCTTTTATC
17956863 AA-TTTTAT-ATTTC-TTTA-C
1 AATTTTTATAATTTCTTTTATC
17956881 AATTTTTATAATTT
1 AATTTTTATAATTT
17956895 TCTTGCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 2 0.07
19 10 0.34
20 9 0.31
21 6 0.21
22 2 0.07
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (22 bp):
AATTTTTATAATTTCTTTTATC
Found at i:17956906 original size:19 final size:19
Alignment explanation
Indices: 17956844--17956910 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
17956834 GCACGATAAT
*
17956844 TTTTATAATTTCTTTTATGAA
1 TTTTATAATTTC-TTTA-CAA
17956865 TTTTAT-ATTTCTTTACAA
1 TTTTATAATTTCTTTACAA
*
17956883 TTTTTATAATTT-TCTTGCAA
1 -TTTTATAATTTCT-TTACAA
17956903 TTTTATAA
1 TTTTATAA
17956911 AATTTTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.05
19 19 0.46
20 14 0.34
21 6 0.15
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTCTTTACAA
Found at i:17956951 original size:10 final size:10
Alignment explanation
Indices: 17956938--17957024 Score: 51
Period size: 10 Copynumber: 9.2 Consensus size: 10
17956928 ATTTTTGCGA
17956938 TTTTTATAAT
1 TTTTTATAAT
17956948 TTTTTATAAT
1 TTTTTATAAT
*
17956958 TTTTAAT-A-
1 TTTTTATAAT
*
17956966 GTTTTAT-AT
1 TTTTTATAAT
*
17956975 TTTTTATTAAA
1 TTTTTA-TAAT
* *
17956986 ATTTAAT-A-
1 TTTTTATAAT
17956994 TTTTTATAA-
1 TTTTTATAAT
* *
17957003 CTTTTATTAT
1 TTTTTATAAT
*
17957013 TTTTTATTAT
1 TTTTTATAAT
17957023 TT
1 TT
17957025 ATAATTTTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 11 0.18
9 15 0.25
10 29 0.48
11 5 0.08
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:17956960 original size:18 final size:18
Alignment explanation
Indices: 17956938--17957034 Score: 74
Period size: 17 Copynumber: 5.3 Consensus size: 18
17956928 ATTTTTGCGA
17956938 TTTTTATAATTTTTTATAAT
1 TTTTTATAA--TTTTATAAT
* *
17956958 TTTTAATAGTTTTAT-AT
1 TTTTTATAATTTTATAAT
**
17956975 TTTTTATTAAAATT-TAAT
1 TTTTTA-TAATTTTATAAT
*
17956993 ATTTTTATAACTTTTATTAT
1 -TTTTTATAA-TTTTATAAT
*
17957013 TTTTTATTA-TTTATAAT
1 TTTTTATAATTTTATAAT
17957030 TTTTT
1 TTTTT
17957035 TCCACATGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
17 20 0.33
18 15 0.25
19 16 0.26
20 10 0.16
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (18 bp):
TTTTTATAATTTTATAAT
Found at i:17956970 original size:28 final size:27
Alignment explanation
Indices: 17956939--17957034 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 27
17956929 TTTTTGCGAT
17956939 TTTTATAATTTTTTATAATTTTTAATA
1 TTTTATAATTTTTTATAATTTTTAATA
**
17956966 GTTTTAT-ATTTTTTATTAAAATTTAATA
1 -TTTTATAATTTTTTA-TAATTTTTAATA
*
17956994 TTTTTATAACTTTTATTAT--TTTTTATTA
1 -TTTTATAA-TTTT-TTATAATTTTTAATA
17957022 -TTTATAATTTTTT
1 TTTTATAATTTTTT
17957035 TCCACATGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 7 0.12
27 8 0.14
28 28 0.48
29 1 0.02
30 5 0.09
31 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (27 bp):
TTTTATAATTTTTTATAATTTTTAATA
Found at i:17957222 original size:16 final size:16
Alignment explanation
Indices: 17957201--17957232 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17957191 GGGCTTAATT
17957201 TTTTTTTTAAGTTTAA
1 TTTTTTTTAAGTTTAA
17957217 TTTTTTTTAAGTTTAA
1 TTTTTTTTAAGTTTAA
17957233 GGGTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTTTTTTAAGTTTAA
Found at i:17960766 original size:17 final size:17
Alignment explanation
Indices: 17960744--17960780 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17960734 TTCCAGAATA
17960744 TTTTTTCTTTCACATTT
1 TTTTTTCTTTCACATTT
* *
17960761 TTTTTTGTTTCATATTT
1 TTTTTTCTTTCACATTT
17960778 TTT
1 TTT
17960781 ACTAAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTCTTTCACATTT
Found at i:17965332 original size:24 final size:22
Alignment explanation
Indices: 17965301--17965355 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
17965291 AATAAACCCG
*
17965301 AAAAAGAAA-ATGAAAGAAAGTA
1 AAAAAGAAATAT-AAACAAAGTA
17965323 AAGTAAAGAAATATAAACAAAGTA
1 AA--AAAGAAATATAAACAAAGTA
17965347 AAAAAGAAA
1 AAAAAGAAA
17965356 GAAGGGACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.11
Consensus pattern (22 bp):
AAAAAGAAATATAAACAAAGTA
Found at i:17965962 original size:19 final size:19
Alignment explanation
Indices: 17965940--17965984 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17965930 AAAATTACAA
17965940 AAAAATT-AAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
17965958 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
17965978 AAAAATT
1 AAAAATT
17965985 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:17965984 original size:29 final size:30
Alignment explanation
Indices: 17965929--17965992 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
17965919 TCTCTCAACA
17965929 AAAAATTACAAAAAAATTAAAATAATTTTC
1 AAAAATTACAAAAAAATTAAAATAATTTTC
* * *
17965959 AAAAATT-CAAAATATTTATAAA-AATTTTT
1 AAAAATTACAAAAAAATTA-AAATAATTTTC
17965988 AAAAA
1 AAAAA
17965993 AATTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAAATTACAAAAAAATTAAAATAATTTTC
Found at i:17973750 original size:14 final size:14
Alignment explanation
Indices: 17973731--17973760 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17973721 TAATTTATTT
17973731 TATAAAAAAATTAA
1 TATAAAAAAATTAA
17973745 TATAAAAAAATTAA
1 TATAAAAAAATTAA
17973759 TA
1 TA
17973761 CAGGTGGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAAAAAAATTAA
Found at i:17979985 original size:15 final size:15
Alignment explanation
Indices: 17979960--17980030 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
17979950 GAGATGACAT
*
17979960 GAAAACCAAGACAAA
1 GAAATCCAAGACAAA
*
17979975 GAAGTCCAAGACAAA
1 GAAATCCAAGACAAA
* *
17979990 GAAATCCTAGATAAA
1 GAAATCCAAGACAAA
*
17980005 GAAATCCAAGATACAA
1 GAAATCCAAGACA-AA
17980021 -AAATCCAAGA
1 GAAATCCAAGA
17980031 TACAATATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
15 47 0.96
16 2 0.04
ACGTcount: A:0.58, C:0.18, G:0.14, T:0.10
Consensus pattern (15 bp):
GAAATCCAAGACAAA
Found at i:17982008 original size:21 final size:21
Alignment explanation
Indices: 17981964--17982008 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17981954 CTAAATCGAG
* * *
17981964 AACTTTGAAAAGTTTTGAAAA
1 AACTTAGAAAAATTTTCAAAA
*
17981985 AACTTAGAAAAATTTTCAAGA
1 AACTTAGAAAAATTTTCAAAA
17982006 AAC
1 AAC
17982009 AGGGTCACAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (21 bp):
AACTTAGAAAAATTTTCAAAA
Found at i:17991136 original size:21 final size:21
Alignment explanation
Indices: 17991112--17991153 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17991102 TGGACTTCAC
17991112 GAACAGGAGATAAATGAATCA
1 GAACAGGAGATAAATGAATCA
17991133 GAACAGGAGATAAATGAATCA
1 GAACAGGAGATAAATGAATCA
17991154 TTCCCTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.24, T:0.14
Consensus pattern (21 bp):
GAACAGGAGATAAATGAATCA
Found at i:17993538 original size:13 final size:14
Alignment explanation
Indices: 17993519--17993552 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
17993509 TTATTCCTAC
17993519 TTCTTCTTTTCTAT
1 TTCTTCTTTTCTAT
17993533 TT-TTCTTTTCTAT
1 TTCTTCTTTTCTAT
17993546 TTCTTCT
1 TTCTTCT
17993553 CCTCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTCTTTTCTAT
Found at i:17993549 original size:27 final size:28
Alignment explanation
Indices: 17993530--17993583 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
17993520 TCTTCTTTTC
*
17993530 TATTTTT-CTTTTCTATTTCTTCTCCTCT
1 TATTTTTCCTTCTCT-TTTCTTCTCCTCT
17993558 TATTTTTCCTTCTCTTTTCTT-TCCTC
1 TATTTTTCCTTCTCTTTTCTTCTCCTC
17993584 CCTTTTCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTTTTCCTTCTCTTTTCTTCTCCTCT
Found at i:18004319 original size:46 final size:46
Alignment explanation
Indices: 18004269--18004441 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
18004259 TGGTTGAGCA
*
18004269 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
18004315 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
18004362 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
18004408 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18004442 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18004425 original size:93 final size:93
Alignment explanation
Indices: 18004266--18004436 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
18004256 GGATGGTTGA
* *
18004266 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18004331 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
18004359 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18004424 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18004437 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18007260 original size:13 final size:13
Alignment explanation
Indices: 18007242--18007267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18007232 TCTACTCATG
18007242 CATATGTATGCAT
1 CATATGTATGCAT
18007255 CATATGTATGCAT
1 CATATGTATGCAT
18007268 GAAACTGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATATGTATGCAT
Found at i:18011435 original size:30 final size:30
Alignment explanation
Indices: 18011377--18011436 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18011367 TTCCCGAGCC
*
18011377 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
* *
18011407 TAGGGGCAAAAGTGTAATTTTACCAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
18011437 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATACAAAAGTT
Found at i:18016711 original size:32 final size:32
Alignment explanation
Indices: 18016675--18016739 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18016665 TGTATGCATT
*
18016675 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
18016707 TTAGCATTTTAATAGTTAACGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
18016739 T
1 T
18016740 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAACGGATGATGGGCA
Found at i:18027805 original size:6 final size:6
Alignment explanation
Indices: 18027787--18027825 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
18027777 AGGTTTCCAA
18027787 AAATGG AAAATGG AAATGG AAAT-G AAATGG AAATGG AAA
1 AAATGG -AAATGG AAATGG AAATGG AAATGG AAATGG AAA
18027826 CTTGTAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:18027815 original size:11 final size:11
Alignment explanation
Indices: 18027787--18027821 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
18027777 AGGTTTCCAA
18027787 AAATGGAAAATGG
1 AAATGG-AAAT-G
18027800 AAATGGAAATG
1 AAATGGAAATG
18027811 AAATGGAAATG
1 AAATGGAAATG
18027822 GAAACTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.55
12 4 0.18
13 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (11 bp):
AAATGGAAATG
Found at i:18028011 original size:26 final size:25
Alignment explanation
Indices: 18027967--18028037 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
18027957 TATTTTCTTG
*
18027967 AAATTTTACT-AGGGCAAAATTGTCA
1 AAATTTTA-TAAGGGTAAAATTGTCA
* *
18027992 AATTTTTATAAAGGGTAAAATTGTTA
1 AAATTTTAT-AAGGGTAAAATTGTCA
* *
18028018 AAATTTTGTCAGGGTAAAAT
1 AAATTTTATAAGGGTAAAAT
18028038 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 17 0.45
26 20 0.53
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.37
Consensus pattern (25 bp):
AAATTTTATAAGGGTAAAATTGTCA
Found at i:18030311 original size:45 final size:45
Alignment explanation
Indices: 18030113--18030322 Score: 196
Period size: 46 Copynumber: 4.6 Consensus size: 45
18030103 TGATTCTATC
* * * * *
18030113 AAGACCATAGCTGAAAGACGCTATGGCATCATGAAT-CAAA-GAAAT
1 AAGACCATGGTTGAAAGACACTATGGCATCACG-ATGAAAATG-AAT
* *
18030158 AAGACCATAGTTGAAAGAAACTATGGCAATACAACG--GAAAATGAAT
1 AAGACCATGGTTGAAAGACACTATGGC-AT-C-ACGATGAAAATGAAT
* * * *
18030204 AAGACCGTGGTTGAAAAACACTATGGCAACACGACGAAAAATGAAT
1 AAGACCATGGTTGAAAGACACTATGGCATCACGATG-AAAATGAAT
*
18030250 AAGACCATGGTTGAAAGACACTATGGCATCACGATGAGAAT-AACT
1 AAGACCATGGTTGAAAGACACTATGGCATCACGATGAAAATGAA-T
* *
18030295 AAGACCATGGTTGAAAGATACCATGGCA
1 AAGACCATGGTTGAAAGACACTATGGCA
18030323 CACTCCGATC
Statistics
Matches: 139, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.02
44 3 0.02
45 57 0.41
46 72 0.52
47 2 0.01
48 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (45 bp):
AAGACCATGGTTGAAAGACACTATGGCATCACGATGAAAATGAAT
Found at i:18032430 original size:29 final size:29
Alignment explanation
Indices: 18032385--18032548 Score: 116
Period size: 29 Copynumber: 5.7 Consensus size: 29
18032375 GTCCTGACGA
* * **
18032385 ACTTTATCTTC-TATTTATTATCCTAGTGG
1 ACTTTATC-TCGTGTTTACTATCCTAGCAG
* * *
18032414 ATTTTATCTCGTGTTTACTGTCCCAGCAG
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
* *
18032443 ACTTTATCTCTTGTTTACTATCCTTA-CTG
1 ACTTTATCTCGTGTTTACTATCC-TAGCAG
* * * * *
18032472 ACTTTATCCCATGTTTACTATCTTGGCAA
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
* * * * *
18032501 ACTTTATCTCATGTTTACTGTCCCATCAA
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
*
18032530 ACTTTATCCCGTGTTTACT
1 ACTTTATCTCGTGTTTACT
18032549 GTCTCGATGA
Statistics
Matches: 106, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
28 3 0.03
29 102 0.96
30 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (29 bp):
ACTTTATCTCGTGTTTACTATCCTAGCAG
Found at i:18032549 original size:29 final size:29
Alignment explanation
Indices: 18032416--18032551 Score: 121
Period size: 29 Copynumber: 4.7 Consensus size: 29
18032406 CCTAGTGGAT
* *
18032416 TTTATCTCGTGTTTACTGTCCCAGCAGAC
1 TTTATCTCATGTTTACTGTCCCAGCAAAC
* * * **
18032445 TTTATCTCTTGTTTACTATCCTTA-CTGAC
1 TTTATCTCATGTTTACTGTCC-CAGCAAAC
* * ***
18032474 TTTATCCCATGTTTACTATCTTGGCAAAC
1 TTTATCTCATGTTTACTGTCCCAGCAAAC
*
18032503 TTTATCTCATGTTTACTGTCCCATCAAAC
1 TTTATCTCATGTTTACTGTCCCAGCAAAC
* *
18032532 TTTATCCCGTGTTTACTGTC
1 TTTATCTCATGTTTACTGTC
18032552 TCGATGAACT
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
28 1 0.01
29 85 0.98
30 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (29 bp):
TTTATCTCATGTTTACTGTCCCAGCAAAC
Found at i:18032561 original size:29 final size:29
Alignment explanation
Indices: 18032472--18032561 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
18032462 ATCCTTACTG
* * **
18032472 ACTTTATCCCATGTTTACTATCTTGGCAA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
* *
18032501 ACTTTATCTCATGTTTACTGTC-CCATCAA
1 ACTTTATCCCATGTTTACTGTCTCGAT-AA
* *
18032530 ACTTTATCCCGTGTTTACTGTCTCGATGA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
18032559 ACT
1 ACT
18032562 ATTTATGTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 46 0.94
30 3 0.06
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (29 bp):
ACTTTATCCCATGTTTACTGTCTCGATAA
Found at i:18034701 original size:21 final size:21
Alignment explanation
Indices: 18034675--18034719 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18034665 AAATAATTTT
* *
18034675 TTTTTATAATTTTTGAAAAGA
1 TTTTTATAATTTTTAAAAAAA
*
18034696 TTTTTATACTTTTTAAAAAAA
1 TTTTTATAATTTTTAAAAAAA
18034717 TTT
1 TTT
18034720 AAGAATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTTATAATTTTTAAAAAAA
Found at i:18055923 original size:45 final size:48
Alignment explanation
Indices: 18055870--18055971 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 48
18055860 TCATAAAAAA
* * *
18055870 ACTACACTTCTTTTA-TTT-TATT-TTA-AATTAAAATTTTTCAACCTT
1 ACTACACTTCATCTATTTTATATTATTAGAA-TAAAATGTTTCAACCTT
*
18055915 ATTACACTTCATCTATTTTATATTAATTAGAATAAAATGTTTCAACCTT
1 ACTACACTTCATCTATTTTATATT-ATTAGAATAAAATGTTTCAACCTT
18055964 ACTACACT
1 ACTACACT
18055972 CCTATTAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
45 12 0.26
46 3 0.06
47 4 0.09
49 26 0.55
50 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (48 bp):
ACTACACTTCATCTATTTTATATTATTAGAATAAAATGTTTCAACCTT
Done.