Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 30
Found at i:1888133 original size:14 final size:12
Alignment explanation
Indices: 1888114--1888163 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 12
1888104 ATTCGTTATA
1888114 AATATTATAATAAT
1 AATATTATAAT--T
1888128 AATATTATAATT
1 AATATTATAATT
1888140 -ATATTATAATT
1 AATATTATAATT
*
1888151 AATTATTACAATT
1 AA-TATTATAATT
1888164 TTACAAGCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
11 11 0.33
12 2 0.06
13 9 0.27
14 11 0.33
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATTATAATT
Found at i:1888150 original size:11 final size:11
Alignment explanation
Indices: 1888109--1888156 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
1888099 TCCCGATTCG
*
1888109 TTATAAATATTA
1 TTATAATTA-TA
* *
1888121 TAATAATAATA
1 TTATAATTATA
1888132 TTATAATTATA
1 TTATAATTATA
1888143 TTATAATTA-A
1 TTATAATTATA
1888153 TTAT
1 TTAT
1888157 TACAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 5 0.16
11 20 0.65
12 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATAATTATA
Found at i:1889415 original size:17 final size:18
Alignment explanation
Indices: 1889393--1889427 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1889383 TTTATATGTA
1889393 TATTTAG-GTTAAATATC
1 TATTTAGCGTTAAATATC
1889410 TATTTAGCCGTTAAATAT
1 TATTTAG-CGTTAAATAT
1889428 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
TATTTAGCGTTAAATATC
Found at i:1890305 original size:37 final size:38
Alignment explanation
Indices: 1890241--1890313 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
1890231 AAAAAAATCA
* *
1890241 GTTTTTGAAAATATACATATTATATAGTTTTGAAAATG
1 GTTTTTGAAAATAAACATATTACATAGTTTTGAAAATG
*
1890279 GTTTTTGAAAA-AAATATATTACATAGTTTTGAAAA
1 GTTTTTGAAAATAAACATATTACATAGTTTTGAAAA
1890314 CGATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 21 0.66
38 11 0.34
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (38 bp):
GTTTTTGAAAATAAACATATTACATAGTTTTGAAAATG
Found at i:1890312 original size:24 final size:25
Alignment explanation
Indices: 1890281--1890337 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
1890271 TGAAAATGGT
1890281 TTTTGAAAA-AAATATATTACATAG
1 TTTTGAAAACAAATATATTACATAG
* *
1890305 TTTTGAAAACGATATATATTATATAG
1 TTTTGAAAAC-AAATATATTACATAG
1890331 TTTTGAA
1 TTTTGAA
1890338 TACATTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.31
26 20 0.69
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (25 bp):
TTTTGAAAACAAATATATTACATAG
Found at i:1890427 original size:8 final size:8
Alignment explanation
Indices: 1890414--1890474 Score: 70
Period size: 8 Copynumber: 7.4 Consensus size: 8
1890404 TTTTAAAAAG
1890414 ATTTATTA
1 ATTTATTA
1890422 ATTTATTA
1 ATTTATTA
1890430 ATTTATTA
1 ATTTATTA
*
1890438 TTATTA-TA
1 AT-TTATTA
1890446 TATTATATTA
1 -ATT-TATTA
1890456 ATTTATTA
1 ATTTATTA
*
1890464 TTTTATTA
1 ATTTATTA
1890472 ATT
1 ATT
1890475 AATATCTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 34 0.76
9 9 0.20
10 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTATTA
Found at i:1890463 original size:20 final size:20
Alignment explanation
Indices: 1890414--1890477 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
1890404 TTTTAAAAAG
*
1890414 ATTTATTAATT-TATTAATTT
1 ATTTATT-ATTATATTAATTA
1890434 A-TTATTATTATATATTATATTA
1 ATTTATTA-T-TATATTA-ATTA
*
1890456 ATTTATTATTTTATTAATTA
1 ATTTATTATTATATTAATTA
1890476 AT
1 AT
1890478 ATCTTTCTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.03
19 6 0.16
20 8 0.22
21 11 0.30
22 5 0.14
23 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATTATTATATTAATTA
Found at i:1890479 original size:26 final size:25
Alignment explanation
Indices: 1890416--1890473 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
1890406 TTAAAAAGAT
*
1890416 TTATTAATTTATTAATTTATTATTA
1 TTATTAATATATTAATTTATTATTA
*
1890441 TTATATATTATATTAATTTATTATT-
1 TTAT-TAATATATTAATTTATTATTA
1890466 TTATTAAT
1 TTATTAAT
1890474 TAATATCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.10
25 8 0.28
26 18 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTAATATATTAATTTATTATTA
Found at i:1891719 original size:27 final size:26
Alignment explanation
Indices: 1891658--1891721 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
1891648 ATTTTAGCAT
*
1891658 TTTTTATTTTTTTAAATTATTACTTG
1 TTTTTATTTTTTTAAATTATTACTTA
**
1891684 TTTTATATTTTTTTAGTTCTTATTA-TTA
1 TTTT-TATTTTTTTA--AATTATTACTTA
1891712 TTTTTATTTT
1 TTTTTATTTT
1891722 ATTACTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.12
27 16 0.50
28 6 0.19
29 6 0.19
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (26 bp):
TTTTTATTTTTTTAAATTATTACTTA
Found at i:1893761 original size:13 final size:12
Alignment explanation
Indices: 1893743--1893801 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
1893733 ACTATCTGTT
1893743 CATCACCATCTTC
1 CATCACCAT-TTC
*
1893756 CATCACCATTTT
1 CATCACCATTTC
* *
1893768 CA-CGCCTATAT-
1 CATCACC-ATTTC
1893779 CATCACCATCTTC
1 CATCACCAT-TTC
1893792 CATCACCATT
1 CATCACCATT
1893802 GCATGCCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
11 7 0.19
12 12 0.32
13 18 0.49
ACGTcount: A:0.25, C:0.41, G:0.02, T:0.32
Consensus pattern (12 bp):
CATCACCATTTC
Found at i:1893817 original size:35 final size:35
Alignment explanation
Indices: 1893742--1893857 Score: 178
Period size: 35 Copynumber: 3.3 Consensus size: 35
1893732 TACTATCTGT
*
1893742 TCATCACCATCTTCCATCACCATTTTCACGCCTATA
1 TCATCACCATCTTCCATCACCA-TTTCATGCCTATA
*
1893778 TCATCACCATCTTCCATCACCATTGCATGCCTATA
1 TCATCACCATCTTCCATCACCATTTCATGCCTATA
* **
1893813 TCATCACTATCTTATATCACCATTTCATGCCTATA
1 TCATCACCATCTTCCATCACCATTTCATGCCTATA
1893848 TCATCACCAT
1 TCATCACCAT
1893858 TCCCTTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 51 0.70
36 22 0.30
ACGTcount: A:0.27, C:0.35, G:0.03, T:0.34
Consensus pattern (35 bp):
TCATCACCATCTTCCATCACCATTTCATGCCTATA
Found at i:1893849 original size:19 final size:19
Alignment explanation
Indices: 1893793--1893850 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
1893783 ACCATCTTCC
*
1893793 ATCACCATTGCATGCCTAT
1 ATCACCATTTCATGCCTAT
* * *
1893812 ATCATCA-CT-AT-CTTAT
1 ATCACCATTTCATGCCTAT
1893828 ATCACCATTTCATGCCTAT
1 ATCACCATTTCATGCCTAT
1893847 ATCA
1 ATCA
1893851 TCACCATTCC
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 2 0.07
19 14 0.48
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.36
Consensus pattern (19 bp):
ATCACCATTTCATGCCTAT
Found at i:1894035 original size:16 final size:16
Alignment explanation
Indices: 1893994--1894036 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1893984 TTGATATCAA
* *
1893994 TTCTTTCCATTTTCAT
1 TTCTTTCAATTTCCAT
*
1894010 TCCTTATCAATTTCCAT
1 TTCTT-TCAATTTCCAT
1894027 TTCTTTCAAT
1 TTCTTTCAAT
1894037 CCTTATTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCTTTCAATTTCCAT
Found at i:1894253 original size:6 final size:6
Alignment explanation
Indices: 1894228--1894268 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
1894218 GTGCTGCAAT
* *
1894228 AAAAAG CAAAAG AAAGAAG AAAAAG AAAAAG CAAAAG AAAA
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAA
1894269 GACTCCTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1894263 original size:12 final size:12
Alignment explanation
Indices: 1894228--1894268 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
1894218 GTGCTGCAAT
1894228 AAAAAGCAAAAG
1 AAAAAGCAAAAG
*
1894240 AAAGAAGAAAAAG
1 AAA-AAGCAAAAG
1894253 AAAAAGCAAAAG
1 AAAAAGCAAAAG
1894265 AAAA
1 AAAA
1894269 GACTCCTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGCAAAAG
Found at i:1895551 original size:24 final size:24
Alignment explanation
Indices: 1895523--1895577 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
1895513 AGATTCATGG
*
1895523 CTTTTGGAGGACAAAAAGATGTGA
1 CTTTTGGAGAACAAAAAGATGTGA
* * * *
1895547 CTTTTGAAGAACAAATAGTTGTTA
1 CTTTTGGAGAACAAAAAGATGTGA
1895571 CTTTTGG
1 CTTTTGG
1895578 TGATCAACGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (24 bp):
CTTTTGGAGAACAAAAAGATGTGA
Found at i:1897812 original size:13 final size:12
Alignment explanation
Indices: 1897794--1897852 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
1897784 ACTATCTGTT
1897794 CATCACCATCTTC
1 CATCACCAT-TTC
*
1897807 CATCACCATTTT
1 CATCACCATTTC
* *
1897819 CACTC-CTATAT-
1 CA-TCACCATTTC
1897830 CATCACCATCTTC
1 CATCACCAT-TTC
1897843 CATCACCATT
1 CATCACCATT
1897853 GCATGCCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
10 2 0.05
11 5 0.14
12 10 0.27
13 20 0.54
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (12 bp):
CATCACCATTTC
Found at i:1897871 original size:35 final size:35
Alignment explanation
Indices: 1897793--1897908 Score: 153
Period size: 35 Copynumber: 3.3 Consensus size: 35
1897783 TACTATCTGT
1897793 TCATCACCATCTTCCATCACCATTTTCACT-CCTATA
1 TCATCACCATCTTCCATCACCA-TTTCA-TGCCTATA
*
1897829 TCATCACCATCTTCCATCACCATTGCATGCCTATA
1 TCATCACCATCTTCCATCACCATTTCATGCCTATA
* ** * *
1897864 TCTTCACCATCTTTTATCTCCATTTCACGCCTATA
1 TCATCACCATCTTCCATCACCATTTCATGCCTATA
1897899 TCATCACCAT
1 TCATCACCAT
1897909 TCCCTTACCA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
34 1 0.01
35 48 0.68
36 22 0.31
ACGTcount: A:0.24, C:0.37, G:0.03, T:0.36
Consensus pattern (35 bp):
TCATCACCATCTTCCATCACCATTTCATGCCTATA
Found at i:1898086 original size:16 final size:16
Alignment explanation
Indices: 1898045--1898087 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1898035 TTGATATCAA
* *
1898045 TTCTTTCCATTTTCAT
1 TTCTTTCAATTTCCAT
*
1898061 TCCTTATCAATTTCCAT
1 TTCTT-TCAATTTCCAT
1898078 TTCTTTCAAT
1 TTCTTTCAAT
1898088 CCTCATTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCTTTCAATTTCCAT
Found at i:1902458 original size:19 final size:18
Alignment explanation
Indices: 1902436--1902493 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
1902426 AATTAAATTA
1902436 ATTATTTATTTGAAATAAT
1 ATTATTTATTT-AAATAAT
*
1902455 ATTA-TT-TTTAAATTAT
1 ATTATTTATTTAAATAAT
1902471 A-TATTTAATTTTAAATAAT
1 ATTATTT-A-TTTAAATAAT
1902490 -TTAT
1 ATTAT
1902494 ATTTAGGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
15 2 0.06
16 9 0.28
17 3 0.09
18 2 0.06
19 16 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTATTTATTTAAATAAT
Found at i:1902467 original size:34 final size:34
Alignment explanation
Indices: 1902428--1902498 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
1902418 TTTTTTAAAA
*
1902428 TTAAATTA-ATTATTT-ATTTGAAATAATATTATTT
1 TTAAATTATA-TATTTAATTTGAAATAAT-TTATAT
*
1902462 TTAAATTATATATTTAATTTTAAATAATTTATAT
1 TTAAATTATATATTTAATTTGAAATAATTTATAT
1902496 TTA
1 TTA
1902499 GGGTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 21 0.64
35 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (34 bp):
TTAAATTATATATTTAATTTGAAATAATTTATAT
Found at i:1902593 original size:67 final size:67
Alignment explanation
Indices: 1902516--1902642 Score: 227
Period size: 67 Copynumber: 1.9 Consensus size: 67
1902506 ATTATTTTAC
* *
1902516 TATCCTACTATTATTCTAGTTCCGTATAATATTATTTAAATTTAAATAGATAATTTAAAAGTAAT
1 TATCCAACTATTATTCTAGTTCCATATAATATTATTTAAATTTAAATAGATAATTTAAAAGTAAT
1902581 AT
66 AT
*
1902583 TATCCAACTATTATTTTAGTTCCATATAATATTATTTAAATTTAAATAGATAATTTAAAA
1 TATCCAACTATTATTCTAGTTCCATATAATATTATTTAAATTTAAATAGATAATTTAAAA
1902643 TTTAATATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.45
Consensus pattern (67 bp):
TATCCAACTATTATTCTAGTTCCATATAATATTATTTAAATTTAAATAGATAATTTAAAAGTAAT
AT
Found at i:1902912 original size:19 final size:21
Alignment explanation
Indices: 1902876--1902926 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
1902866 AATTATATAT
*
1902876 TATTAATTAGTTTGAATAT-TA
1 TATTAATTA-TTTGAATATGCA
1902897 TATTAATTATTT-AATATGCA
1 TATTAATTATTTGAATATGCA
1902917 TATT-ATTATT
1 TATTAATTATT
1902927 ATTATACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 8 0.29
21 9 0.32
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
TATTAATTATTTGAATATGCA
Found at i:1903567 original size:21 final size:21
Alignment explanation
Indices: 1903543--1903588 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1903533 AGAAAATGAA
* *
1903543 GAAATCGAACAAGAATAAAAG
1 GAAATCGAAAAAGAAGAAAAG
*
1903564 GAAATCGAAAAAGAGGAAAAG
1 GAAATCGAAAAAGAAGAAAAG
1903585 GAAA
1 GAAA
1903589 CAAAAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.07, G:0.24, T:0.07
Consensus pattern (21 bp):
GAAATCGAAAAAGAAGAAAAG
Found at i:1904377 original size:17 final size:18
Alignment explanation
Indices: 1904353--1904394 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
1904343 AGTTTGTGTG
1904353 ATATTTTTGTTTATGGCC
1 ATATTTTTGTTTATGGCC
1904371 ATATTTTTGTTTATGGCC
1 ATATTTTTGTTTATGGCC
1904389 ATATTT
1 ATATTT
1904395 ATGTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (18 bp):
ATATTTTTGTTTATGGCC
Found at i:1905424 original size:20 final size:20
Alignment explanation
Indices: 1905399--1905454 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1905389 GTTGGGGCCT
1905399 TATGGTATCGATACTATGCC
1 TATGGTATCGATACTATGCC
1905419 TATGGTATCGATACTATGCC
1 TATGGTATCGATACTATGCC
1905439 TATGGTATCGATACTA
1 TATGGTATCGATACTA
1905455 CTATACAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TATGGTATCGATACTATGCC
Found at i:1905583 original size:51 final size:51
Alignment explanation
Indices: 1905503--1905605 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
1905493 ACCATTTTTG
1905503 CATTATGAAATTGGAGCAATGCTGATAGT-ATCGATACTACCTAGTGAGTAT
1 CATTATGAAATTGGAGCAATGCTGATAGTAAT-GATACTACCTAGTGAGTAT
* *
1905554 CATTATGAAATTTGAGCAATGCTGGTAGTAATGATACTACCTAGTGAGTAT
1 CATTATGAAATTGGAGCAATGCTGATAGTAATGATACTACCTAGTGAGTAT
1905605 C
1 C
1905606 GATACTTCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 47 0.96
52 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (51 bp):
CATTATGAAATTGGAGCAATGCTGATAGTAATGATACTACCTAGTGAGTAT
Found at i:1908623 original size:13 final size:13
Alignment explanation
Indices: 1908605--1908640 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
1908595 AGTAATTACT
1908605 TTTATAATTTTTA
1 TTTATAATTTTTA
1908618 TTTATAATTTTTA
1 TTTATAATTTTTA
1908631 TTTATAATTT
1 TTTATAATTT
1908641 AATTTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATAATTTTTA
Found at i:1909378 original size:34 final size:34
Alignment explanation
Indices: 1909330--1909406 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 34
1909320 AAGATAAAAA
*
1909330 TATTATTTAAATTATTTATTT-ATTTGAAATAATAT
1 TATT-TTTAAATTATCTATTTAATTTGAAATAAT-T
*
1909365 TATTTTTAAATTATCTATTTAATTTTAAATAATT
1 TATTTTTAAATTATCTATTTAATTTGAAATAATT
*
1909399 TATATTTA
1 TATTTTTA
1909407 GGTAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 23 0.61
35 15 0.39
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (34 bp):
TATTTTTAAATTATCTATTTAATTTGAAATAATT
Found at i:1909392 original size:19 final size:19
Alignment explanation
Indices: 1909335--1909394 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
1909325 AAAAATATTA
*
1909335 TTTAAATTATTTATTT-AT
1 TTTAAATTATATATTTAAT
* *
1909353 TTGAAA-TA-ATA-TTATT
1 TTTAAATTATATATTTAAT
*
1909369 TTTAAATTATCTATTTAAT
1 TTTAAATTATATATTTAAT
1909388 TTTAAAT
1 TTTAAAT
1909395 AATTTATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 2 0.06
16 8 0.25
17 4 0.12
18 7 0.22
19 11 0.34
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTAAATTATATATTTAAT
Found at i:1913362 original size:39 final size:39
Alignment explanation
Indices: 1913233--1913381 Score: 192
Period size: 39 Copynumber: 3.8 Consensus size: 39
1913223 TACACCCAGA
* *
1913233 AAGGTCTTACCCTGTGCATAAAGCAGAGGAGCCTGCAGT
1 AAGGACTTACCCTGAGCATAAAGCAGAGGAGCCTGCAGT
* * * *
1913272 AAGGTCTTATCC-AATGCATAAAGTAGAGGAGCCTGCAGT
1 AAGGACTTACCCTGA-GCATAAAGCAGAGGAGCCTGCAGT
* *
1913311 AAGGAATTACCCTGAGCATAAAGCCGAGGAGCCTGCAGT
1 AAGGACTTACCCTGAGCATAAAGCAGAGGAGCCTGCAGT
* *
1913350 AAGGACTTACCCTGAGCACAAAGCCGAGGAGC
1 AAGGACTTACCCTGAGCATAAAGCAGAGGAGC
1913382 TTGTGGAAAG
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 95 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (39 bp):
AAGGACTTACCCTGAGCATAAAGCAGAGGAGCCTGCAGT
Found at i:1914897 original size:29 final size:30
Alignment explanation
Indices: 1914841--1914900 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
1914831 TTGGATCCAA
* *
1914841 AATTTAATCAAAATTTCACTTTGGTTCTCG
1 AATTTAATCAAAATTTCAATTTAGTTCTCG
1914871 AATTTAATCAAAA-TTCAATTTAGTTCTCG
1 AATTTAATCAAAATTTCAATTTAGTTCTCG
1914900 A
1 A
1914901 GAAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (30 bp):
AATTTAATCAAAATTTCAATTTAGTTCTCG
Found at i:1920352 original size:24 final size:24
Alignment explanation
Indices: 1920301--1920352 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1920291 AATTCAATGG
* *
1920301 ACATGACTTTTGGAAAACCACGGG
1 ACATGACTTTTGGAAAACCAAGGA
* *
1920325 ACATGACTTTTGGGATACCAAGGA
1 ACATGACTTTTGGAAAACCAAGGA
1920349 ACAT
1 ACAT
1920353 AATCATTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (24 bp):
ACATGACTTTTGGAAAACCAAGGA
Found at i:1924934 original size:44 final size:44
Alignment explanation
Indices: 1924871--1925038 Score: 191
Period size: 44 Copynumber: 3.9 Consensus size: 44
1924861 TTTGTTCGAC
1924871 CTTTGCTCGATTCCATCACATAAGGAGTTGGATCAACATCATCA
1 CTTTGCTCGATTCCATCACATAAGGAGTTGGATCAACATCATCA
* * * * *
1924915 CTTTGCTCAATTCCATCACATAAGGAGATGG-TTAAGCAACACCA
1 CTTTGCTCGATTCCATCACATAAGGAGTTGGATCAA-CATCATCA
** *
1924959 CTTCACTCGATTCCATCACATAAGGAGTTGGAAC-A-AT-ATCA
1 CTTTGCTCGATTCCATCACATAAGGAGTTGGATCAACATCATCA
* * * *
1925000 CTTTGCTTGATTCCATGATATAAGGAGTTGGACCAACAT
1 CTTTGCTCGATTCCATCACATAAGGAGTTGGATCAACAT
1925039 TATCTTTCTC
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 31 0.31
42 2 0.02
43 5 0.05
44 63 0.62
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (44 bp):
CTTTGCTCGATTCCATCACATAAGGAGTTGGATCAACATCATCA
Found at i:1925235 original size:41 final size:43
Alignment explanation
Indices: 1925131--1925244 Score: 144
Period size: 41 Copynumber: 2.7 Consensus size: 43
1925121 TTCAACATTT
* *
1925131 GCTCGATTCCATCACATAAGGAGTTGGATTAGCATTACCACTTC
1 GCTCGATTTCATCACATAAGGAGTTGGATCAGCATTA-CACTTC
* *
1925175 ACTCGA-TTCTATCATATAAGGAGTTGGATCAGCA-T-CACTTC
1 GCTCGATTTC-ATCACATAAGGAGTTGGATCAGCATTACACTTC
*
1925216 GCTCGATTTCATCACATAAGGATTTGGAT
1 GCTCGATTTCATCACATAAGGAGTTGGAT
1925245 TACGCTCGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
41 28 0.46
42 3 0.05
43 3 0.05
44 27 0.44
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (43 bp):
GCTCGATTTCATCACATAAGGAGTTGGATCAGCATTACACTTC
Found at i:1930156 original size:24 final size:23
Alignment explanation
Indices: 1930105--1930156 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
1930095 AGGTTATGTC
*
1930105 CGGGTCAGGTTTGGTTTGGGTTT
1 CGGGTCAGGTTTGGTTTGGGTCT
1930128 CGGGTCAGGTTCTGGTTTGGG-CT
1 CGGGTCAGGTT-TGGTTTGGGTCT
1930151 CAGGGT
1 C-GGGT
1930157 ATGGGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.06, C:0.13, G:0.44, T:0.37
Consensus pattern (23 bp):
CGGGTCAGGTTTGGTTTGGGTCT
Found at i:1930569 original size:24 final size:23
Alignment explanation
Indices: 1930519--1930569 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
1930509 GGTTATGTCC
* **
1930519 GGGTCAGGTTTGGTTTGGGTTTT
1 GGGTCAGGTTTGGTTTGGGCTCA
1930542 GGGTCAGGTTCTGGTTTGGGCTCA
1 GGGTCAGGTT-TGGTTTGGGCTCA
1930566 GGGT
1 GGGT
1930570 ATGGGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.06, C:0.10, G:0.45, T:0.39
Consensus pattern (23 bp):
GGGTCAGGTTTGGTTTGGGCTCA
Found at i:1930678 original size:413 final size:413
Alignment explanation
Indices: 1930082--1930908 Score: 1591
Period size: 413 Copynumber: 2.0 Consensus size: 413
1930072 CTGGGGTGGT
1930082 TACACTAGGGTTAAGGTTATGTCCGGGTCAGGTTTGGTTTGGGTTTCGGGTCAGGTTCTGGTTTG
1 TACACTAGGGTTAAGGTTATGTCCGGGTCAGGTTTGGTTTGGGTTTCGGGTCAGGTTCTGGTTTG
1930147 GGCTCAGGGTATGGGTTTTGTTTTGGGTTTAAATTTAGGATTTGTTTGCGGTTGGTTAGGTTTGA
66 GGCTCAGGGTATGGGTTTTGTTTTGGGTTTAAATTTAGGATTTGTTTGCGGTTGGTTAGGTTTGA
* *
1930212 GGCCCATTTGATATTGTAAATGGGGTATGTATGATAAAAAAATGGCGATTACAGCTGCCATTCTT
131 GGCCCATTTGATATTGTAAATGGGGTATATATGATAAAAAAATGGCAATTACAGCTGCCATTCTT
*
1930277 TTTTTATTGTTGTGGAACGGAATAAAGCAAATATATAAAGCGCCATTTTTGTCTCAATCTTTGTT
196 TTTTTATTATTGTGGAACGGAATAAAGCAAATATATAAAGCGCCATTTTTGTCTCAATCTTTGTT
1930342 CTTTAAGCTACATGTTCTTCTCATTACGAGCTCTCTACTGGAAATGTTGGTTCCTCTAGTGAGGC
261 CTTTAAGCTACATGTTCTTCTCATTACGAGCTCTCTACTGGAAATGTTGGTTCCTCTAGTGAGGC
1930407 GTCGCTAATTCAACTCCAAATGCATTGAATCGAGAAAAGGTTGAACAAGTTCTTCTCATTATGAA
326 GTCGCTAATTCAACTCCAAATGCATTGAATCGAGAAAAGGTTGAACAAGTTCTTCTCATTATGAA
1930472 CTTTTCTCCCTCTATCGGATGAG
391 CTTTTCTCCCTCTATCGGATGAG
*
1930495 TACACTAGGGTTAAGGTTATGTCCGGGTCAGGTTTGGTTTGGGTTTTGGGTCAGGTTCTGGTTTG
1 TACACTAGGGTTAAGGTTATGTCCGGGTCAGGTTTGGTTTGGGTTTCGGGTCAGGTTCTGGTTTG
1930560 GGCTCAGGGTATGGGTTTTGTTTTGGGTTTAAATTTAGGATTTGTTTGCGGTTGGTTAGGTTTGA
66 GGCTCAGGGTATGGGTTTTGTTTTGGGTTTAAATTTAGGATTTGTTTGCGGTTGGTTAGGTTTGA
* *
1930625 GGCCCATTTGATGTTGTAAATGGGGTATATATGATAAAAAAATGGCAATTACAGCTGCCCTTCTT
131 GGCCCATTTGATATTGTAAATGGGGTATATATGATAAAAAAATGGCAATTACAGCTGCCATTCTT
1930690 TTTTTATTATTGTGGAACGGAATAAAGCAAATATATAAAGCGCCATTTTTGTCTCAATCTTTGTT
196 TTTTTATTATTGTGGAACGGAATAAAGCAAATATATAAAGCGCCATTTTTGTCTCAATCTTTGTT
*
1930755 CTTTAAGCTACATGTTCTTCTCATTACGAGCTCTCTACTGGAAATGTTGGTTTCTCTAGTGAGGC
261 CTTTAAGCTACATGTTCTTCTCATTACGAGCTCTCTACTGGAAATGTTGGTTCCTCTAGTGAGGC
1930820 GTCGCTAATTCAACTCCAAATGCATTGAATCGAGAAAAGGTTGAACAAGTTCTTCTCATTATGAA
326 GTCGCTAATTCAACTCCAAATGCATTGAATCGAGAAAAGGTTGAACAAGTTCTTCTCATTATGAA
1930885 CTTTTCTCCCTCTATCGGATGAG
391 CTTTTCTCCCTCTATCGGATGAG
1930908 T
1 T
1930909 TCTTCTCATT
Statistics
Matches: 407, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
413 407 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (413 bp):
TACACTAGGGTTAAGGTTATGTCCGGGTCAGGTTTGGTTTGGGTTTCGGGTCAGGTTCTGGTTTG
GGCTCAGGGTATGGGTTTTGTTTTGGGTTTAAATTTAGGATTTGTTTGCGGTTGGTTAGGTTTGA
GGCCCATTTGATATTGTAAATGGGGTATATATGATAAAAAAATGGCAATTACAGCTGCCATTCTT
TTTTTATTATTGTGGAACGGAATAAAGCAAATATATAAAGCGCCATTTTTGTCTCAATCTTTGTT
CTTTAAGCTACATGTTCTTCTCATTACGAGCTCTCTACTGGAAATGTTGGTTCCTCTAGTGAGGC
GTCGCTAATTCAACTCCAAATGCATTGAATCGAGAAAAGGTTGAACAAGTTCTTCTCATTATGAA
CTTTTCTCCCTCTATCGGATGAG
Found at i:1931587 original size:20 final size:19
Alignment explanation
Indices: 1931529--1931588 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
1931519 AGGCTGAACA
1931529 AGTTCTTCTCATTATGAA-
1 AGTTCTTCTCATTATGAAT
* *
1931547 A-TACTTCTCCCTCTATCGAAT
1 AGTTCTTCT-CAT-TAT-GAAT
1931568 GAGTTCTTCTCATTATGAAT
1 -AGTTCTTCTCATTATGAAT
1931588 A
1 A
1931589 CTCCATTGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
17 6 0.19
18 3 0.09
19 4 0.12
20 7 0.22
21 3 0.09
22 3 0.09
23 6 0.19
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (19 bp):
AGTTCTTCTCATTATGAAT
Found at i:1931689 original size:135 final size:135
Alignment explanation
Indices: 1931404--1932009 Score: 783
Period size: 135 Copynumber: 4.5 Consensus size: 135
1931394 AAAGGTTGAA
* * * * * * * *
1931404 CATTATGAACTTATTCTCCCCCTTTGGGATAAGTTC-TCTCATTATGAACTATCCATTTGAAATG
1 CATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATG
* * * * * *
1931468 TTAGTCCCTCAAGTGAGGCATTGTTGATTCGAAATGCAGTGAATCGAGCAAAGGCTGAACAAGTT
66 TTAATCCCTCAAGTGAGGCATCGCTAATTCGAAATGCGGTGAATCGAGCAAAGGTTGAACAAGTT
1931533 CTTCT
131 CTTCT
* *
1931538 CATTATGAAATACTTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAA-TACTCCATTGGAAAT
1 CATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAACT-CTCCATTGGAAAT
* *
1931602 GTTAATCCCTCAAGTGAGGCATCGCTAATTTGAAATGTGGTGAATCGAGCAAA-GTGTGAACAAG
65 GTTAATCCCTCAAGTGAGGCATCGCTAATTCGAAATGCGGTGAATCGAGCAAAGGT-TGAACAAG
1931666 TTCTTCT
129 TTCTTCT
1931673 CATTATGAACTTCTTCTCCCTCTATC-AGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
1 CATTATGAACTTCTTCTCCCTCTATCGA-ATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
* * * * *
1931737 GTTTATCCCTCAAGTGAGGCATCGTTGAA-TCGAAATACGGTGAATCGAACAAAGGTTTAACAAG
65 GTTAATCCCTCAAGTGAGGCATCGCT-AATTCGAAATGCGGTGAATCGAGCAAAGGTTGAACAAG
1931801 TTCTTCT
129 TTCTTCT
* ** *
1931808 CATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAGTTCTCTATTGGAAATG
1 CATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATG
* * * * * *
1931873 TTAATCCCTCAAGTGAGGCATTGCTGATTCGAAATGTGATGAATTGAGTAAAGGTTGAACAAGTT
66 TTAATCCCTCAAGTGAGGCATCGCTAATTCGAAATGCGGTGAATCGAGCAAAGGTTGAACAAGTT
*
1931938 CTTTT
131 CTTCT
* * * *
1931943 CATTATGAACTTCTTCTCCCTCTATC-AGATTAGTTCTTATCATTATGAACTCTGCATTAGAAAT
1 CATTATGAACTTCTTCTCCCTCTATCGA-ATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
1932007 GTT
65 GTT
1932010 GATAGGTTAA
Statistics
Matches: 411, Mismatches: 51, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
134 32 0.08
135 374 0.91
136 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (135 bp):
CATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATG
TTAATCCCTCAAGTGAGGCATCGCTAATTCGAAATGCGGTGAATCGAGCAAAGGTTGAACAAGTT
CTTCT
Found at i:1931934 original size:270 final size:270
Alignment explanation
Indices: 1930845--1932009 Score: 1396
Period size: 270 Copynumber: 4.4 Consensus size: 270
1930835 CCAAATGCAT
* *
1930845 TGAATCGAGAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTCCCTCTATCGGATGAGT
1 TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
* * * *
1930909 TCTTCTCATTATGAACTCTCCATTTGAAATGTTAATCCTTCAAGTGAGGCGTCACTGATTCAACT
66 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCAT--C-G-TTGAA-T
* * * ** * * *
1930974 CCATATGCGATGAATCGAGCAAAGGTCAAACAAGTTTTTCTCATTATGAACTTATTCTCCCTATA
126 CGAAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTA
* * * * *
1931039 TCGGATGAGTTCTTCTCATTATGAAATCTCCCTTGGAAA-ATTAATCCTTCGAGTGAGGCATCAC
191 TCGGATGAGTTCTTCTCATTATGAATTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCAC
*
1931103 TGATTCAAAATACGA
256 TGATTCGAAATACGA
* * * * *
1931118 TTAATCGAGCAAATGTTGAGCAAGTTCATCTCATTATGAACTTCTTCTCTCTCTATCAGATGAGT
1 TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
* * * * * *
1931183 TCTTCTCATTATGAA--C-CCATTGGAAATGTTAATCCCTCAAATGATGCATTGATGATTCAAAA
66 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTGAATCGAAA
* * * * *
1931245 TGCGGTGAATTGAGCAAAGGTTGAACAATTTGTTCTCATTATAAACTTCTTCTCCTTCTATCGGA
131 TGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGA
* ** *
1931310 TGAGTTATTCTCATTACAAACTCTCCATTGG-AATGTTAATCCCTCAAGTGAGGCATCACTGATT
196 TGAGTTCTTCTCATTATGAATTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATT
*
1931374 CGAAATACGT
261 CGAAATACGA
* * * * * ** *
1931384 TGAATTGAGTAAAGGTTG---AA--------CATTATGAACTTATTCTCCCCCTTTGGGATAAGT
1 TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
* * * * *
1931438 TC-TCTCATTATGAACTATCCATTTGAAATGTTAGTCCCTCAAGTGAGGCATTGTTGATTCGAAA
66 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTGAATCGAAA
* * * * *
1931502 TGCAGTGAATCGAGCAAAGGCTGAACAAGTTCTTCTCATTATGAAATACTTCTCCCTCTATCGAA
131 TGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGA
* * *
1931567 TGAGTTCTTCTCATTATGAATACTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGCTAATT
196 TGAGTTCTTCTCATTATGAATTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATT
* ** *
1931632 TGAAATGTGG
261 CGAAATACGA
1931642 TGAATCGAGCAAA-GTGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAG
1 TGAATCGAGCAAAGGT-TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAG
*
1931706 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTTATCCCTCAAGTGAGGCATCGTTGAATCGAA
65 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTGAATCGAA
* * *
1931771 ATACGGTGAATCGAACAAAGGTTTAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGG
130 ATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGG
* * **
1931836 ATGAGTTCTTCTCATTATGAGTTCTCTATTGGAAATGTTAATCCCTCAAGTGAGGCATTGCTGAT
195 ATGAGTTCTTCTCATTATGAATTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGAT
**
1931901 TCGAAATGTGA
260 TCGAAATACGA
* * * *
1931912 TGAATTGAGTAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTCCCTCTATCAGATTAGT
1 TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
* * *
1931977 TCTTATCATTATGAACTCTGCATTAGAAATGTT
66 TCTTCTCATTATGAACTCTCCATTGGAAATGTT
1932010 GATAGGTTAA
Statistics
Matches: 759, Mismatches: 113, Indels: 43
0.83 0.12 0.05
Matches are distributed among these distances:
254 12 0.02
255 29 0.04
257 123 0.16
258 50 0.07
261 2 0.00
263 2 0.00
265 2 0.00
266 134 0.18
267 2 0.00
268 1 0.00
269 30 0.04
270 269 0.35
271 30 0.04
272 1 0.00
273 38 0.05
274 34 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (270 bp):
TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTGAATCGAAA
TGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGA
TGAGTTCTTCTCATTATGAATTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATT
CGAAATACGA
Found at i:1931988 original size:405 final size:403
Alignment explanation
Indices: 1930845--1932009 Score: 1398
Period size: 405 Copynumber: 2.9 Consensus size: 403
1930835 CCAAATGCAT
*
1930845 TGAATCGAGAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTCCCTCTATCGGATGAGT
1 TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT
* * * *
1930909 TCTTCTCATTATGAACTCTCCATTTGAAATGTTAATCCTTCAAGTGAGGCGTCACTGATTCAACT
66 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCAT--C-G-TTGAA-T
* * * ** *
1930974 CCATATGCGATGAATCGAGCAAAGGTCAAACAAGTTTTTCTCATTATGAACTTATTCTCCCTATA
126 CGAAATACGATGAATCGAGCAAAGGTTTAACAAG-TTTTCTCATTATGAACTTATTCTCCCTCTA
* * * * **
1931039 TCGGATGAGTTCTTCTCATTATGAAATCTCCCTTGGAAA-ATTAATCCTTCGAGTGAGGCATCAC
190 TCGGATGAGTTCTTCTCATTATGAAATCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATTGC
* * * * * * *
1931103 TGATTCAAAATACGATTAATCGAGCAAATGTTGAGCAAGTTCATCTCATTATGAACTTCTTCTCT
255 TGATTCGAAAT-GGATGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
*
1931168 CTCTATCAGATGAGTTCTTCTCATTATG-A-AC-CCATTGGAAATGTTAATCCCTCAAATGATGC
319 CTCTATCAGATGAGTTCTTCTCATTATGAATACTCCATTGGAAATGTTAATCCCTCAAATGAGGC
* *
1931230 ATTGATGATTCAAAATGCGG
384 ATCGATAATTCAAAATGCGG
* * * * *
1931250 TGAATTGAGCAAAGGTTGAACAATTTGTTCTCATTATAAACTTCTTCTCCTTCTATCGGATGAGT
1 TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT
* ** ** *
1931315 TATTCTCATTACAAACTCTCCATTGG-AATGTTAATCCCTCAAGTGAGGCATCACTGATTCGAAA
66 TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTGAATCGAAA
* * * * * * *
1931379 TACGTTGAATTGAGTAAAGG-TT--GAA-------CATTATGAACTTATTCTCCCCCTTTGGGAT
131 TACGATGAATCGAGCAAAGGTTTAACAAGTTTTCTCATTATGAACTTATTCTCCCTCTATCGGAT
* * * * * *
1931434 AAGTTC-TCTCATTATGAACTATCCATTTGAAATGTTAGTCCCTCAAGTGAGGCATTGTTGATTC
196 GAGTTCTTCTCATTATGAAATCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATTGCTGATTC
* * * *
1931498 GAAATGCAGTGAATCGAGCAAAGGCTGAACAAGTTCTTCTCATTATGAAATACTTCTCCCTCTAT
261 GAAATGGA-TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTAT
* *
1931563 C-GAATGAGTTCTTCTCATTATGAATACTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGC
325 CAG-ATGAGTTCTTCTCATTATGAATACTCCATTGGAAATGTTAATCCCTCAAATGAGGCATCGA
** *
1931627 TAATTTGAAATGTGG
389 TAATTCAAAATGCGG
*
1931642 TGAATCGAGCAAA-GTGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAG
1 TGAATCGAGCAAAGGT-TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAG
*
1931706 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTTATCCCTCAAGTGAGGCATCGTTGAATCGAA
65 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTGAATCGAA
* * *
1931771 ATACGGTGAATCGAACAAAGGTTTAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGG
130 ATACGATGAATCGAGCAAAGGTTTAACAAGTT-TTCTCATTATGAACTTATTCTCCCTCTATCGG
** *
1931836 ATGAGTTCTTCTCATTATGAGTTCTCTATTGGAAATGTTAATCCCTCAAGTGAGGCATTGCTGAT
194 ATGAGTTCTTCTCATTATGAAATCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATTGCTGAT
* * *
1931901 TCGAAATGTGATGAATTGAGTAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTCCCTCT
259 TCGAAATG-GATGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCT
* * * *
1931966 ATCAGATTAGTTCTTATCATTATGAACT-CTGCATTAGAAATGTT
323 ATCAGATGAGTTCTTCTCATTATGAA-TACTCCATTGGAAATGTT
1932010 GATAGGTTAA
Statistics
Matches: 635, Mismatches: 101, Indels: 48
0.81 0.13 0.06
Matches are distributed among these distances:
388 24 0.04
389 127 0.20
390 1 0.00
391 4 0.01
392 122 0.19
393 50 0.08
394 2 0.00
396 2 0.00
397 2 0.00
400 20 0.03
401 2 0.00
403 1 0.00
404 31 0.05
405 202 0.32
406 45 0.07
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (403 bp):
TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT
TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCGTTGAATCGAAA
TACGATGAATCGAGCAAAGGTTTAACAAGTTTTCTCATTATGAACTTATTCTCCCTCTATCGGAT
GAGTTCTTCTCATTATGAAATCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATTGCTGATTC
GAAATGGATGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATC
AGATGAGTTCTTCTCATTATGAATACTCCATTGGAAATGTTAATCCCTCAAATGAGGCATCGATA
ATTCAAAATGCGG
Found at i:1933359 original size:57 final size:53
Alignment explanation
Indices: 1933325--1933425 Score: 150
Period size: 54 Copynumber: 1.9 Consensus size: 53
1933315 TATGGTTATC
* *
1933325 ATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCATTAGAAGTA
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTCAAAAATTCATTAG-AGTA
*
1933379 ATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTCTC-AAAATTCATT
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCT-TCAAAAATTCATT
1933426 TGAAAACATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 42 0.98
55 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (53 bp):
ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTCAAAAATTCATTAGAGTA
Found at i:1935425 original size:19 final size:21
Alignment explanation
Indices: 1935401--1935451 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
1935391 TTCTTTAATC
1935401 TTCTCTCTCTTTT-CTTT-TA
1 TTCTCTCTCTTTTACTTTCTA
*
1935420 TTCTCTCTCTTTTACTTTCTT
1 TTCTCTCTCTTTTACTTTCTA
*
1935441 TTCTCTTTCTT
1 TTCTCTCTCTT
1935452 CATTTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
21 11 0.39
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCTCTCTCTTTTACTTTCTA
Found at i:1942789 original size:34 final size:34
Alignment explanation
Indices: 1942742--1942810 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1942732 TTGTGCCCTA
*
1942742 TAATTTGATATTTATTTCATTTTAGTCCTTTGGT
1 TAATTTGAGATTTATTTCATTTTAGTCCTTTGGT
1942776 TAATTTGAGATTTATTTCATTTTAGTCCTTTGGT
1 TAATTTGAGATTTATTTCATTTTAGTCCTTTGGT
1942810 T
1 T
1942811 TGTTATATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.58
Consensus pattern (34 bp):
TAATTTGAGATTTATTTCATTTTAGTCCTTTGGT
Found at i:1943472 original size:17 final size:16
Alignment explanation
Indices: 1943443--1943481 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1943433 TTCATTTTTT
1943443 TTATTTTAGTATTTCG
1 TTATTTTAGTATTTCG
* *
1943459 TTATTTTATTTATTTCT
1 TTATTTTA-GTATTTCG
1943476 TTATTT
1 TTATTT
1943482 GTTATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (16 bp):
TTATTTTAGTATTTCG
Found at i:1944653 original size:5 final size:5
Alignment explanation
Indices: 1944645--1944678 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
1944635 AATATCAAAT
1944645 AATAA AATAA AATAA AATAA AATAGA AATTAA AA
1 AATAA AATAA AATAA AATAA AATA-A AA-TAA AA
1944679 AAGAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 19 0.70
6 6 0.22
7 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:1944663 original size:15 final size:17
Alignment explanation
Indices: 1944645--1944710 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 17
1944635 AATATCAAAT
1944645 AATAAAATA-AAA-TAA
1 AATAAAATAGAAATTAA
1944660 AATAAAATAGAAATTAA
1 AATAAAATAGAAATTAA
*
1944677 AA-AAGAAT-TAAATTAA
1 AATAA-AATAGAAATTAA
* * *
1944693 AAGAAAACAAAAATTAA
1 AATAAAATAGAAATTAA
1944710 A
1 A
1944711 GCAGAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
15 9 0.21
16 16 0.37
17 18 0.42
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
AATAAAATAGAAATTAA
Found at i:1944707 original size:33 final size:33
Alignment explanation
Indices: 1944652--1944721 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1944642 AATAATAAAA
* * *
1944652 TAAAATAAAATAAAATAGAAATTAAAAAAGAAT
1 TAAAATAAAAGAAAACAAAAATTAAAAAAGAAT
* **
1944685 TAAATTAAAAGAAAACAAAAATTAAAGCAGAAT
1 TAAAATAAAAGAAAACAAAAATTAAAAAAGAAT
1944718 TAAA
1 TAAA
1944722 GAATTAGGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (33 bp):
TAAAATAAAAGAAAACAAAAATTAAAAAAGAAT
Found at i:1948425 original size:19 final size:18
Alignment explanation
Indices: 1948396--1948432 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1948386 ACATAATGCA
*
1948396 ATATGGGTATCGGTACCT
1 ATATGGGTATCGATACCT
1948414 ATATGAGGTATCGATACCT
1 ATATG-GGTATCGATACCT
1948433 CTCAAGTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (18 bp):
ATATGGGTATCGATACCT
Found at i:1949080 original size:24 final size:24
Alignment explanation
Indices: 1949035--1949080 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1949025 TTCCTACGTG
* * *
1949035 GTCCTTAGGGATAACTTTTACGCA
1 GTCCTTAGGGACAAATTCTACGCA
*
1949059 GTCCTTCGGGACAAATTCTACG
1 GTCCTTAGGGACAAATTCTACG
1949081 TGGTACTTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (24 bp):
GTCCTTAGGGACAAATTCTACGCA
Found at i:1956408 original size:117 final size:117
Alignment explanation
Indices: 1956258--1956492 Score: 470
Period size: 117 Copynumber: 2.0 Consensus size: 117
1956248 TATATGACAC
1956258 TTTTGCAGTTAAAATTAAAAGTGTTATATTTTATCTTTTATCCATTGTAAAAACGTATATTGTTC
1 TTTTGCAGTTAAAATTAAAAGTGTTATATTTTATCTTTTATCCATTGTAAAAACGTATATTGTTC
1956323 AAAAGAATATTTTATTCTCAACTATTTTTCTAAAAGTCAAAGATTTGAAAAG
66 AAAAGAATATTTTATTCTCAACTATTTTTCTAAAAGTCAAAGATTTGAAAAG
1956375 TTTTGCAGTTAAAATTAAAAGTGTTATATTTTATCTTTTATCCATTGTAAAAACGTATATTGTTC
1 TTTTGCAGTTAAAATTAAAAGTGTTATATTTTATCTTTTATCCATTGTAAAAACGTATATTGTTC
1956440 AAAAGAATATTTTATTCTCAACTATTTTTCTAAAAGTCAAAGATTTGAAAAG
66 AAAAGAATATTTTATTCTCAACTATTTTTCTAAAAGTCAAAGATTTGAAAAG
1956492 T
1 T
1956493 CAATGTAGCA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (117 bp):
TTTTGCAGTTAAAATTAAAAGTGTTATATTTTATCTTTTATCCATTGTAAAAACGTATATTGTTC
AAAAGAATATTTTATTCTCAACTATTTTTCTAAAAGTCAAAGATTTGAAAAG
Found at i:1956968 original size:22 final size:21
Alignment explanation
Indices: 1956940--1956983 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
1956930 GTATTATGAG
1956940 GATGAGGTGTGTCCAGTGCTTT
1 GATGAGGTGTGTCCAGTG-TTT
*
1956962 GATGAGGTGTTTCCAGTGTTT
1 GATGAGGTGTGTCCAGTGTTT
1956983 G
1 G
1956984 TTCAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.14, C:0.11, G:0.36, T:0.39
Consensus pattern (21 bp):
GATGAGGTGTGTCCAGTGTTT
Found at i:1962263 original size:67 final size:62
Alignment explanation
Indices: 1962185--1962309 Score: 196
Period size: 62 Copynumber: 1.9 Consensus size: 62
1962175 ATTATATGCT
1962185 TACTATCCAACTATTATTCTAGTTCCGTATAATATTATTTAAATTTAAATAGATAATTTAAAAGT
1 TACTATCCAACTATTATTCTAGTTCC--AT-ATA--ATTTAAATTTAAATAGATAATTTAAAAGT
1962250 AA
61 AA
*
1962252 TACTATCCAACTATTATTTTAGTTCCATATAATTTAAATTTAAATAGATAATTTAAAA
1 TACTATCCAACTATTATTCTAGTTCCATATAATTTAAATTTAAATAGATAATTTAAAA
1962310 TTTAATTTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
62 27 0.47
64 3 0.05
65 2 0.04
67 25 0.44
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (62 bp):
TACTATCCAACTATTATTCTAGTTCCATATAATTTAAATTTAAATAGATAATTTAAAAGTAA
Found at i:1962570 original size:21 final size:20
Alignment explanation
Indices: 1962546--1962591 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1962536 AATTATATAT
*
1962546 TATTAATTAGTTTGAATAT-TA
1 TATTAATT-CTTT-AATATGTA
1962567 TATTAATTCTTTAATATGTA
1 TATTAATTCTTTAATATGTA
1962587 TATTA
1 TATTA
1962592 TTATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 10 0.43
21 8 0.35
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
TATTAATTCTTTAATATGTA
Found at i:1969094 original size:15 final size:15
Alignment explanation
Indices: 1969074--1969102 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1969064 ATTTTATCTT
1969074 TTAAAATTATTTTTC
1 TTAAAATTATTTTTC
1969089 TTAAAATTATTTTT
1 TTAAAATTATTTTT
1969103 AAAAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAAATTATTTTTC
Found at i:1976061 original size:42 final size:42
Alignment explanation
Indices: 1976002--1976806 Score: 954
Period size: 42 Copynumber: 19.2 Consensus size: 42
1975992 GAAGCATCGA
* *
1976002 CTTGACTCCCTCGTGAAGAGGAGTCAACCTTTCTATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
*
1976044 CTTGACTCCCTCATGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
1976086 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* * ** ** * *
1976128 ATTAACTTTCTCGTGAAGATAAGACAATCTTTCAATGATT-CT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATG-TTATT
* *
1976170 CTTGACTCCCTCGTGTAGAGGAGTCAATCTTTCAATTTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* * * *
1976212 CTTGACTCCCTCATAAAGAGGAATCAATCTATCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
*
1976254 CTTGACTCCCTCGTGAAGAGGAGTCAATATTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* ** * * * *
1976296 CTTAACTTTCTCGTGAAGAGAATTCAATTTTTCAATGATT-CT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATG-TTATT
* * * *
1976338 CTTGACTCCCTCTTGAAGATGAGTCACTCTTTTAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* *
1976380 CTTGACTCCCTCGTGAAGAGGAGTAAATCTTTCAACGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* * * *
1976422 CTTGACTCTCC-CATGAAGAGGAGTTAATCTTTTAATGTAATT
1 CTTGACTC-CCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
*** * * *
1976464 CTTGACTTTATCTTGAAGAGAAGTCAATCTTTCAATGATT-CT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATG-TTATT
*
1976506 CTTGACTCCCTCGTGAAGAGGAGACAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* * *
1976548 CTTGACTCCCTCGTGATGAGGAGTCAATCTTTTAATGTTACT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* * *
1976590 CTTGACTCCCTCGTAAAGAGAAGTCAATATTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
** * * * * *
1976632 CTTGACTTTCTCGTAAACAGAAGTTAATCTTTCAATGATT-CT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATG-TTATT
*
1976674 CTTGACTCCCTCGTGAATAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* * *
1976716 ATTGACTCCCTCATGAAGATGAGTCAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
* * * *
1976758 ATTGACTCCCTCATGAAGATGAGTCAATATTTCAATGTTATT
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
*
1976800 ATTGACT
1 CTTGACT
1976807 TTCTAGTTAA
Statistics
Matches: 647, Mismatches: 106, Indels: 20
0.84 0.14 0.03
Matches are distributed among these distances:
41 8 0.01
42 630 0.97
43 9 0.01
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (42 bp):
CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
Found at i:1976280 original size:168 final size:168
Alignment explanation
Indices: 1976002--1976831 Score: 1194
Period size: 168 Copynumber: 4.9 Consensus size: 168
1975992 GAAGCATCGA
* *
1976002 CTTGACTCCCTCGTGAAGAGGAGTCAACCTTTCTATGTTATTCTTGACTCCCTCATGAAGAGGAG
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTCCCTCATGAAGAGGAG
* * *
1976067 TCAATCTTTCAATGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTATTA
66 TCAATCTTTCAATGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTCAATGTTATTCTTG
* *
1976132 ACTTTCTCGTGAAGATAAGACAATCTTTCAATGATTCT
131 ACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGATTCT
* * * *
1976170 CTTGACTCCCTCGTGTAGAGGAGTCAATCTTTCAATTTTATTCTTGACTCCCTCATAAAGAGGAA
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTCCCTCATGAAGAGGAG
* *
1976235 TCAATCTATCAATGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTCAATGTTATTCTTA
66 TCAATCTTTCAATGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTCAATGTTATTCTTG
* *
1976300 ACTTTCTCGTGAAGAGAATTCAATTTTTCAATGATTCT
131 ACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGATTCT
* * * * *
1976338 CTTGACTCCCTCTTGAAGATGAGTCACTCTTTTAATGTTATTCTTGACTCCCTCGTGAAGAGGAG
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTCCCTCATGAAGAGGAG
* * * * * * *
1976403 TAAATCTTTCAACGTTATTCTTGACTCTCC-CATGAAGAGGAGTTAATCTTTTAATGTAATTCTT
66 TCAATCTTTCAATGTTATTCTTGACTC-CCTCGTGAAGAGGAGTCAATATTTCAATGTTATTCTT
* *
1976467 GACTTTATCTTGAAGAGAAGTCAATCTTTCAATGATTCT
130 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGATTCT
* * *
1976506 CTTGACTCCCTCGTGAAGAGGAGACAATCTTTCAATGTTATTCTTGACTCCCTCGTGATGAGGAG
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTCCCTCATGAAGAGGAG
* * * *
1976571 TCAATCTTTTAATGTTACTCTTGACTCCCTCGTAAAGAGAAGTCAATATTTCAATGTTATTCTTG
66 TCAATCTTTCAATGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTCAATGTTATTCTTG
* * *
1976636 ACTTTCTCGTAAACAGAAGTTAATCTTTCAATGATTCT
131 ACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGATTCT
* * *
1976674 CTTGACTCCCTCGTGAATAGGAGTCAATCTTTCAATGTTATTATTGACTCCCTCATGAAGATGAG
1 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTCCCTCATGAAGAGGAG
* * * *
1976739 TCAATCTTTCAATGTTATTATTGACTCCCTCATGAAGATGAGTCAATATTTCAATGTTATTATTG
66 TCAATCTTTCAATGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTCAATGTTATTCTTG
* * * *
1976804 ACTTTCTAGTTAAGAGAAATCAACCTTT
131 ACTTTCTCGTGAAGAGAAGTCAATCTTT
1976832 TAGTATTATC
Statistics
Matches: 583, Mismatches: 77, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
167 2 0.00
168 579 0.99
169 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (168 bp):
CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTCCCTCATGAAGAGGAG
TCAATCTTTCAATGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATATTTCAATGTTATTCTTG
ACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGATTCT
Found at i:1978228 original size:3 final size:3
Alignment explanation
Indices: 1978220--1978251 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1978210 TTAATATGTA
1978220 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1978252 CACGAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1981982 original size:21 final size:21
Alignment explanation
Indices: 1981944--1982001 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
1981934 TTAATAGTAT
*
1981944 AAAT-ATATTATCTATTTTTAA
1 AAATAATATTAT-TTTTTTTAA
**
1981965 AAATTAA-ATTATTTTTTTTTG
1 AAA-TAATATTATTTTTTTTAA
1981986 AAATAATATTATTTTT
1 AAATAATATTATTTTT
1982002 AAATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 6 0.19
23 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
AAATAATATTATTTTTTTTAA
Found at i:1982214 original size:24 final size:23
Alignment explanation
Indices: 1982164--1982223 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
1982154 ACTAATTTTT
*
1982164 TAAATATTTTCAGAATATTATAAA
1 TAAATATTTT-ATAATATTATAAA
1982188 TAAATATTTTATAATAATT-T-AA
1 TAAATATTTTATAAT-ATTATAAA
1982210 TATAA-ATTTTATAA
1 TA-AATATTTTATAA
1982224 AAACATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 13 0.39
23 7 0.21
24 13 0.39
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAATATTTTATAATATTATAAA
Found at i:1984806 original size:21 final size:20
Alignment explanation
Indices: 1984758--1984811 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1984748 AACTACCTTA
* * *
1984758 AGTATCGGTACTCTTGGGAT
1 AGTATCGATACTCTTAGAAT
*
1984778 AATATCGATACTCTTAGAAT
1 AGTATCGATACTCTTAGAAT
1984798 GAGTATCGATACTC
1 -AGTATCGATACTC
1984812 GCAGCTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTCTTAGAAT
Found at i:1986315 original size:26 final size:24
Alignment explanation
Indices: 1986267--1986315 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1986257 ATATTAGAAT
* *
1986267 TAAAATATTTTTAAATTTTAAAAG
1 TAAAATATTTTAAAATTCTAAAAG
1986291 TAAAATATTTATAAAAATTCTAAAA
1 TAAAATATTT-T-AAAATTCTAAAA
1986316 TTCAGTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TAAAATATTTTAAAATTCTAAAAG
Found at i:1993325 original size:31 final size:31
Alignment explanation
Indices: 1993267--1993326 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1993257 TAGTTGTATG
* **
1993267 AATTATTTAAATTTTAGTATTGTAAAACTAA
1 AATTATTTAAATTTCAGTATTACAAAACTAA
1993298 AATTATTTAAATTTCAGTATTACAAAACT
1 AATTATTTAAATTTCAGTATTACAAAACT
1993327 CTTTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTACAAAACTAA
Found at i:1998502 original size:59 final size:59
Alignment explanation
Indices: 1998410--1998528 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
1998400 CCCGGACATG
1998410 AAGACAATGATTATTAGATTGTTGTAATTGTAATACGCAGATGATAATTTCGTTTATTA
1 AAGACAATGATTATTAGATTGTTGTAATTGTAATACGCAGATGATAATTTCGTTTATTA
1998469 AAGACAATGATTATTAGATTGTTGTAATTGTAATACGCAGATGATAATTTCGTTTATTA
1 AAGACAATGATTATTAGATTGTTGTAATTGTAATACGCAGATGATAATTTCGTTTATTA
1998528 A
1 A
1998529 TAATGTACTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (59 bp):
AAGACAATGATTATTAGATTGTTGTAATTGTAATACGCAGATGATAATTTCGTTTATTA
Found at i:2000100 original size:5 final size:5
Alignment explanation
Indices: 2000092--2000117 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2000082 TTTTATTATT
2000092 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
2000118 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:2002001 original size:18 final size:18
Alignment explanation
Indices: 2001946--2002009 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
2001936 CGAAACTGGT
*
2001946 TTTTTCGGTTCGGTTCGA
1 TTTTTCGGTTCGGTTCGG
*
2001964 TTTTT---TTAACGGTTTGGG
1 TTTTTCGGTT--CGG-TTCGG
2001982 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
*
2002000 TTTATCGGTT
1 TTTTTCGGTT
2002010 TTTCAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
15 2 0.06
17 3 0.08
18 26 0.72
19 3 0.08
21 2 0.06
ACGTcount: A:0.06, C:0.12, G:0.28, T:0.53
Consensus pattern (18 bp):
TTTTTCGGTTCGGTTCGG
Found at i:2009095 original size:28 final size:29
Alignment explanation
Indices: 2009055--2009173 Score: 71
Period size: 29 Copynumber: 4.1 Consensus size: 29
2009045 TAATTCCATA
* *
2009055 TCCTGATTTTGCAAGGGATTGATT-CCCG
1 TCCTGATTCTGCAAGAGATTGATTCCCCG
* **
2009083 TCCTGGTTCTGCATTAGATTGATTCCCCG
1 TCCTGATTCTGCAAGAGATTGATTCCCCG
* * * * * * **
2009112 TCCTAATTTTGCTAGGGATTAATTACATG
1 TCCTGATTCTGCAAGAGATTGATTCCCCG
* * *
2009141 TCCTTATTCTGCATGGGATT-AGTTCCCCG
1 TCCTGATTCTGCAAGAGATTGA-TTCCCCG
2009170 TCCT
1 TCCT
2009174 ATTTCTACAT
Statistics
Matches: 66, Mismatches: 23, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
28 20 0.30
29 46 0.70
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (29 bp):
TCCTGATTCTGCAAGAGATTGATTCCCCG
Found at i:2009131 original size:29 final size:29
Alignment explanation
Indices: 2009068--2009179 Score: 72
Period size: 29 Copynumber: 3.9 Consensus size: 29
2009058 TGATTTTGCA
**
2009068 AGGGATTGATT-CCCGTCCTGGTTCTGCATT
1 AGGGATTGATTCCCCGTCCTAATTCTGC--T
*
2009098 A--GATTGATTCCCCGTCCTAATTTTGCT
1 AGGGATTGATTCCCCGTCCTAATTCTGCT
* * ** *
2009125 AGGGATTAATTACATGTCCTTATTCTGC-
1 AGGGATTGATTCCCCGTCCTAATTCTGCT
*
2009153 ATGGGATT-AGTTCCCCGTCCTATTTCT
1 A-GGGATTGA-TTCCCCGTCCTAATTCT
2009180 ACATGGGATT
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
27 2 0.03
28 10 0.16
29 50 0.79
30 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (29 bp):
AGGGATTGATTCCCCGTCCTAATTCTGCT
Found at i:2013084 original size:23 final size:23
Alignment explanation
Indices: 2013058--2013103 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2013048 ACCCTGTGAA
2013058 ATTCATAATGAGTTTATGAATTT
1 ATTCATAATGAGTTTATGAATTT
2013081 ATTCATAATGAGTTTATGAATTT
1 ATTCATAATGAGTTTATGAATTT
2013104 CCGTATTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTCATAATGAGTTTATGAATTT
Found at i:2013171 original size:55 final size:55
Alignment explanation
Indices: 2013081--2013508 Score: 614
Period size: 55 Copynumber: 7.8 Consensus size: 55
2013071 TTATGAATTT
*
2013081 ATTCATAATGAGTTTATGAATTTCCGTATTAGCACTATGTGTGCAACCCCACGAA
1 ATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
* * *
2013136 ATTCATAATGAGTTTATGAAATTCCGTAATGGCACTATGTGTGCAACCCAACG-A
1 ATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
* * * * *
2013190 ATTCATAACGAGTTTATAAAATTT-CGTATTGGCACAATGTG-GCAAGCCCACAAA
1 ATTCATAATGAGTTTAT-GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
* * * *
2013244 ATTCATAACGAGTTTATGAATTTTCGTAATGGCACTATGTGTACAACCCCACGAA
1 ATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
* *
2013299 ACTT-ATAATGAGTTTATGAATTTCCATATTGGCACTTTGTGTGCAACCCCACGAA
1 A-TTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
*
2013354 ATTCATAGA-GAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACCCCACGAA
1 ATTCATA-ATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
* * *
2013409 ATTCATAATGATTTTATGAATTTTCGTATTGGCACTATGTGTGCAACCCCACAAA
1 ATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
*
2013464 ATTCATAATGAGTTCATGAATTTCCGTATTGGCACTATGTGTGCA
1 ATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCA
2013509 GCCTACATAA
Statistics
Matches: 333, Mismatches: 32, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
53 13 0.04
54 68 0.20
55 249 0.75
56 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (55 bp):
ATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAA
Found at i:2016366 original size:23 final size:22
Alignment explanation
Indices: 2016340--2016385 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2016330 AGGTGCCAAT
*
2016340 AATGCAAGTTAGATGAAAGGTTA
1 AATGC-AGTTAGATGAAAAGTTA
**
2016363 AATGCCTTTAGATGAAAAGTTA
1 AATGCAGTTAGATGAAAAGTTA
2016385 A
1 A
2016386 TTGCCTAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (22 bp):
AATGCAGTTAGATGAAAAGTTA
Found at i:2016374 original size:22 final size:22
Alignment explanation
Indices: 2016348--2016391 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2016338 ATAATGCAAG
*
2016348 TTAGATGAAAGGTTAAATGCCT
1 TTAGATGAAAAGTTAAATGCCT
*
2016370 TTAGATGAAAAGTTAATTGCCT
1 TTAGATGAAAAGTTAAATGCCT
2016392 AACTGTGCAT
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:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (22 bp):
TTAGATGAAAAGTTAAATGCCT
Found at i:2016435 original size:81 final size:81
Alignment explanation
Indices: 2016295--2016679 Score: 607
Period size: 81 Copynumber: 4.8 Consensus size: 81
2016285 GCTCTAAAAT
2016295 AAAAGGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGG
1 AAAA-GTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGG
2016360 TTAAATGCCTTTAGATG
65 TTAAATGCCTTTAGATG
* *
2016377 AAAAGTTAATTGCCTAACTGTGCATTTGCCAGAAAGGTGCCAATAATGCAAGTTAGATGAAATGT
1 AAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
2016442 TAAATGCCTTTAGATG
66 TAAATGCCTTTAGATG
* *
2016458 AAAGGTTAATTGCCTAACTGTGCATTTGGAAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
1 AAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
*
2016523 TAAATGCCTTTAGATT
66 TAAATGCCTTTAGATG
2016539 AAAAGTTAATTGCCTAAC--T-CATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
1 AAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
*
2016601 CAAATGCCTTTAGATG
66 TAAATGCCTTTAGATG
* * * * * *
2016617 AAAGAG-TAAATGCCTAACTATGCATTTTGGTAGAAAGATGCCACTAATGCCAGTTAGATGAAA
1 AAA-AGTTAATTGCCTAACTGTGCA-TTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
2016680 AAAATATTGC
Statistics
Matches: 282, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
78 70 0.25
79 3 0.01
80 1 0.00
81 170 0.60
82 38 0.13
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
AAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
TAAATGCCTTTAGATG
Found at i:2016455 original size:22 final size:22
Alignment explanation
Indices: 2016429--2016472 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2016419 ATAATGCAAG
*
2016429 TTAGATGAAATGTTAAATGCCT
1 TTAGATGAAAGGTTAAATGCCT
*
2016451 TTAGATGAAAGGTTAATTGCCT
1 TTAGATGAAAGGTTAAATGCCT
2016473 AACTGTGCAT
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:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (22 bp):
TTAGATGAAAGGTTAAATGCCT
Found at i:2016536 original size:22 final size:22
Alignment explanation
Indices: 2016510--2016553 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2016500 ATAATGCAAG
*
2016510 TTAGATGAAAGGTTAAATGCCT
1 TTAGATGAAAAGTTAAATGCCT
* *
2016532 TTAGATTAAAAGTTAATTGCCT
1 TTAGATGAAAAGTTAAATGCCT
2016554 AACTCATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (22 bp):
TTAGATGAAAAGTTAAATGCCT
Found at i:2016614 original size:22 final size:22
Alignment explanation
Indices: 2016588--2016631 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2016578 ATAATGCAAG
2016588 TTAGATGAAAG-GTCAAATGCCT
1 TTAGATGAAAGAGT-AAATGCCT
2016610 TTAGATGAAAGAGTAAATGCCT
1 TTAGATGAAAGAGTAAATGCCT
2016632 AACTATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (22 bp):
TTAGATGAAAGAGTAAATGCCT
Found at i:2024088 original size:49 final size:49
Alignment explanation
Indices: 2023981--2024584 Score: 609
Period size: 49 Copynumber: 12.3 Consensus size: 49
2023971 CACTGTTATG
* * *
2023981 CATTTAACTTGCATTAATGGCACCTTTTCTGCCAAAAATGCACCATTTGT
1 CATTTAACTTGCATTAGTGGCACC-TTTCTACCAAAAATGCACCATTAGT
* * * * *
2024031 CATCTAACTTGCATTAGTGGCACATTTATACCAAAAATGCACCGTTAGG
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
* * ** * *
2024080 CATTTAACTTGCATTAGTGGAACCTTGCCGCAAAAAATGCACCATTTGT
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
* * * * * *
2024129 CATCTAACTTGCATTAGTGGTACCTTTGTACCAAAAATGCAACGTTAGA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
* * * *
2024178 CATTTAAATTGTATTAGTGGCACCTTTCTGCCAAAAAATGCACCATTTGT
1 CATTTAACTTGCATTAGTGGCACCTTTCTACC-AAAAATGCACCATTAGT
* * *** *
2024228 CATCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCAATGTTAGA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
** *
2024277 CATTTAACTTGCATTAGTGGCACCTTTCTGTCAAAAATGCACCATTTGT
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
* ** * * * * *
2024326 CATCTAACTTGCATTAGTGATATCTTTCTACCAAAAATACAACGTTAGG
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
* * *
2024375 CATTTAACTTGCATTAGTGGCACCTTTCTGCAAAAAATGCACCATTTGT
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
* * * * * *
2024424 CATCTAACTTGCATTAGTGGTACATTTCCACCAAAAATGTA--ATTTAGA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCA-TTAGT
* * *
2024472 CATTTAACTTGCATTTGTGGCACCTTTCTGCCAAAAATGCACCATTTGT
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
* * * * *** *
2024521 CATCTAACTTGCATTAGTGGTACCTTTCCACAAAAAATGCAATGTTAGA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
*
2024570 CATTTAACTTTCATT
1 CATTTAACTTGCATT
2024585 TTAGAGCAGT
Statistics
Matches: 438, Mismatches: 112, Indels: 9
0.78 0.20 0.02
Matches are distributed among these distances:
47 1 0.00
48 37 0.08
49 338 0.77
50 62 0.14
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (49 bp):
CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTAGT
Found at i:2024138 original size:98 final size:98
Alignment explanation
Indices: 2023981--2024584 Score: 915
Period size: 98 Copynumber: 6.2 Consensus size: 98
2023971 CACTGTTATG
* *
2023981 CATTTAACTTGCATTAATGGCACCTTTTCTGCCAAAAATGCACCATTTGTCATCTAACTTGCATT
1 CATTTAACTTGCATTAGTGGCACC-TTTCTGCAAAAAATGCACCATTTGTCATCTAACTTGCATT
* * * * *
2024046 AGTGGCACATTTATACCAAAAATGCACCGTTAGG
65 AGTGGTACCTTTCTACCAAAAATGCAACGTTAGA
* * *
2024080 CATTTAACTTGCATTAGTGGAACCTTGCCGCAAAAAATGCACCATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTGCAAAAAATGCACCATTTGTCATCTAACTTGCATTA
*
2024145 GTGGTACCTTTGTACCAAAAATGCAACGTTAGA
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGA
* *
2024178 CATTTAAATTGTATTAGTGGCACCTTTCTGCCAAAAAATGCACCATTTGTCATCTAACTTGCATT
1 CATTTAACTTGCATTAGTGGCACCTTTCTG-CAAAAAATGCACCATTTGTCATCTAACTTGCATT
*
2024243 AGTGGTACCTTTCTACCAAAAATGCAATGTTAGA
65 AGTGGTACCTTTCTACCAAAAATGCAACGTTAGA
2024277 CATTTAACTTGCATTAGTGGCACCTTTCTGTC-AAAAATGCACCATTTGTCATCTAACTTGCATT
1 CATTTAACTTGCATTAGTGGCACCTTTCTG-CAAAAAATGCACCATTTGTCATCTAACTTGCATT
* * * *
2024341 AGTGATATCTTTCTACCAAAAATACAACGTTAGG
65 AGTGGTACCTTTCTACCAAAAATGCAACGTTAGA
2024375 CATTTAACTTGCATTAGTGGCACCTTTCTGCAAAAAATGCACCATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTGCAAAAAATGCACCATTTGTCATCTAACTTGCATTA
* * * *
2024440 GTGGTACATTTCCACCAAAAATGTAA-TTTAGA
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGA
* *
2024472 CATTTAACTTGCATTTGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTGCAAAAAATGCACCATTTGTCATCTAACTTGCATTA
* * *
2024537 GTGGTACCTTTCCACAAAAAATGCAATGTTAGA
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGA
*
2024570 CATTTAACTTTCATT
1 CATTTAACTTGCATT
2024585 TTAGAGCAGT
Statistics
Matches: 462, Mismatches: 40, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
97 91 0.20
98 254 0.55
99 117 0.25
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (98 bp):
CATTTAACTTGCATTAGTGGCACCTTTCTGCAAAAAATGCACCATTTGTCATCTAACTTGCATTA
GTGGTACCTTTCTACCAAAAATGCAACGTTAGA
Found at i:2024316 original size:197 final size:196
Alignment explanation
Indices: 2023981--2024584 Score: 935
Period size: 197 Copynumber: 3.1 Consensus size: 196
2023971 CACTGTTATG
*
2023981 CATTTAACTTGCATTAATGGCACCTTTTCTGCC-AAAAATGCACCATTTGTCATCTAACTTGCAT
1 CATTTAACTTGCATTAGTGGCACC-TTTCTGCCAAAAAATGCACCATTTGTCATCTAACTTGCAT
* * ** * * * *
2024045 TAGTGGCACATTTATACCAAAAATGCACCGTTAGGCATTTAACTTGCATTAGTGGAACCTTGCCG
65 TAGTGGTACATTTCTACCAAAAATGCAATGTTAGACATTTAACTTGCATTAGTGGCACCTTTCTG
*
2024110 CAAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGTACCTTTGTACCAAAAATGCAACGTT
130 C-AAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCAACGTT
2024175 AGA
194 AGA
* *
2024178 CATTTAAATTGTATTAGTGGCACCTTTCTGCCAAAAAATGCACCATTTGTCATCTAACTTGCATT
1 CATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAAATGCACCATTTGTCATCTAACTTGCATT
*
2024243 AGTGGTACCTTTCTACCAAAAATGCAATGTTAGACATTTAACTTGCATTAGTGGCACCTTTCTGT
66 AGTGGTACATTTCTACCAAAAATGCAATGTTAGACATTTAACTTGCATTAGTGGCACCTTTCTG-
* * *
2024308 CAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGATATCTTTCTACCAAAAATACAACGTTA
130 CAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCAACGTTA
*
2024373 GG
195 GA
2024375 CATTTAACTTGCATTAGTGGCACCTTTCTG-CAAAAAATGCACCATTTGTCATCTAACTTGCATT
1 CATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAAATGCACCATTTGTCATCTAACTTGCATT
* * *
2024439 AGTGGTACATTTCCACCAAAAATGTAAT-TTAGACATTTAACTTGCATTTGTGGCACCTTTCTGC
66 AGTGGTACATTTCTACCAAAAATGCAATGTTAGACATTTAACTTGCATTAGTGGCACCTTTCTG-
* * *
2024503 CAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGTACCTTTCCACAAAAAATGCAATGTTA
130 CAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCAACGTTA
2024568 GA
195 GA
*
2024570 CATTTAACTTTCATT
1 CATTTAACTTGCATT
2024585 TTAGAGCAGT
Statistics
Matches: 373, Mismatches: 32, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
195 108 0.29
196 67 0.18
197 197 0.53
198 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (196 bp):
CATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAAATGCACCATTTGTCATCTAACTTGCATT
AGTGGTACATTTCTACCAAAAATGCAATGTTAGACATTTAACTTGCATTAGTGGCACCTTTCTGC
AAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCAACGTTAG
A
Found at i:2026779 original size:55 final size:55
Alignment explanation
Indices: 2026700--2027334 Score: 957
Period size: 55 Copynumber: 11.6 Consensus size: 55
2026690 GTATATGTTG
* * * *
2026700 GAATTTCTGTATTTGAACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* * *
2026755 GAATTTCCGTATTGGCACTGTGTGTTCAACCCCACG-AATTCATAATGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* * * *
2026809 GAATTTCCGTACTGGCACTATGAGTACAACCCCATGAAATTCATAACGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* *
2026864 GAATTTCCATATTGGCACTATGTGTGCAACCCCACAAAATTCATAACGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* * *
2026919 GAATTTCTGTATTGGCACTCTGTGTGCAACCCCACGAAATTCATAATGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* * * *
2026974 GAATTTGCTTATTGGCACTATGTATGCAACCCCATGAAATTCATAACGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* *
2027029 GAATTTCTGTATTGGCACTATGTGTGCAACCCCATGAAATTCATAACGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* ** * *
2027084 GAATTTTCGTATTGTAACTATGTGTGCAACCCCACAAAATTCATAACGAGTTTGT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
*
2027139 GAATTTCCGTATTAGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* * *
2027194 GAATTTCCGTATTGACACTATGTGTGTAACCCCACGAAATTCATAATGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
*
2027249 GAATTTTCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
1 GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
* *
2027304 GAATTTCTGTATTGGCACTATGTGTGAAACC
1 GAATTTCCGTATTGGCACTATGTGTGCAACC
2027335 TACGTAATTC
Statistics
Matches: 522, Mismatches: 57, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
54 49 0.09
55 473 0.91
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (55 bp):
GAATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAACGAGTTTAT
Found at i:2030596 original size:264 final size:265
Alignment explanation
Indices: 2030114--2030646 Score: 924
Period size: 264 Copynumber: 2.0 Consensus size: 265
2030104 CTAACACATA
*
2030114 ATTTAAAATCAAAATAGTACAAACTTAGAGTTGAATAACGAAATAAAAGAGCAATGTCCTATGAA
1 ATTTAAAATCAAAATAGTACAAACTTAGAGTTGAATAACGAAATAAAAGAGCAAGGTCCTATGAA
* *
2030179 TACATAGGCACACTAAAGCTATAGTGCAATACTCTGAATGAGGTACTGGAAGTCCTGCTATGACG
66 TACATAGGCACACTAAAGCTATAGTACAATACTCTGAAGGAGGTACTGGAAGTCCTGCTATGACG
* * *
2030244 GTGCTCCATGATTGACTCTAGCTACTGAGCTACGAACAGAAAACATCCGAATGTTGAATGATAAC
131 GTGCTCCACGAATGACTCTAGCTACTGAGCTACGAACAGAAAACATCCGAATATTGAATGATAAC
*
2030309 TCTTCAAAAGAGTTATCTTTCTAGTATTTTCTTACCTAAGATTAGCTTGAACTTGAGCATTTCTA
196 TCTTCAAAAGAGTTATATTTCTAGTATTTTCTTACCTAAGATTAGCTTGAACTTGAGCATTTCTA
2030374 GGAAC
261 GGAAC
* *
2030379 ATTTATAATCAAAATAGTATAAACTTAGAGTTGAATAACGAAA-AAAAGAGCAAGGTCCTATGAA
1 ATTTAAAATCAAAATAGTACAAACTTAGAGTTGAATAACGAAATAAAAGAGCAAGGTCCTATGAA
* *
2030443 TACATAGGCACACTAAAGCTATAGTACAATACTCTGAAGGAGGTACTGGAAGTCCTGTTGTGACG
66 TACATAGGCACACTAAAGCTATAGTACAATACTCTGAAGGAGGTACTGGAAGTCCTGCTATGACG
* * *
2030508 GTGCTCCACGAATGACTCTAGCTACTGAGCTACGAACGGAAAACATCTGAATATTGAGTGATAAC
131 GTGCTCCACGAATGACTCTAGCTACTGAGCTACGAACAGAAAACATCCGAATATTGAATGATAAC
*
2030573 TCTTCAAAAGAGTTATATTTCTAGTATTTTCTTACCTAAGATTAGCTTGAACTTGAGCGTTTCTA
196 TCTTCAAAAGAGTTATATTTCTAGTATTTTCTTACCTAAGATTAGCTTGAACTTGAGCATTTCTA
2030638 GGAAC
261 GGAAC
2030643 ATTT
1 ATTT
2030647 CAGGATCATT
Statistics
Matches: 253, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
264 212 0.84
265 41 0.16
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (265 bp):
ATTTAAAATCAAAATAGTACAAACTTAGAGTTGAATAACGAAATAAAAGAGCAAGGTCCTATGAA
TACATAGGCACACTAAAGCTATAGTACAATACTCTGAAGGAGGTACTGGAAGTCCTGCTATGACG
GTGCTCCACGAATGACTCTAGCTACTGAGCTACGAACAGAAAACATCCGAATATTGAATGATAAC
TCTTCAAAAGAGTTATATTTCTAGTATTTTCTTACCTAAGATTAGCTTGAACTTGAGCATTTCTA
GGAAC
Found at i:2040051 original size:34 final size:34
Alignment explanation
Indices: 2039990--2040054 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
2039980 ACATAGAAAG
* * *
2039990 TAGGAAATAAGTTGGATTCATCTAACATAGACTT
1 TAGGAAATAAGTTGAACTCATCCAACATAGACTT
2040024 TAGGAAATAAGTTGAAACTC-TCCAACATAGA
1 TAGGAAATAAGTTG-AACTCATCCAACATAGA
2040055 TATAGCAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 24 0.89
35 3 0.11
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (34 bp):
TAGGAAATAAGTTGAACTCATCCAACATAGACTT
Found at i:2044036 original size:22 final size:23
Alignment explanation
Indices: 2043978--2044039 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2043968 CCATAACCGC
2043978 AGGGGGTATCGATTCCCCTTCAA
1 AGGGGGTATCGATTCCCCTTCAA
*
2044001 AGGGGGAATCGATTCCCCTTC-A
1 AGGGGGTATCGATTCCCCTTCAA
* *
2044023 AGGGAGTATTGATTCCC
1 AGGGGGTATCGATTCCC
2044040 TCTGCCCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (23 bp):
AGGGGGTATCGATTCCCCTTCAA
Found at i:2046867 original size:199 final size:199
Alignment explanation
Indices: 2046525--2046925 Score: 768
Period size: 199 Copynumber: 2.0 Consensus size: 199
2046515 CCATTAGAAT
2046525 TACAAAACTCAATAAATCCAAGATTTTCAAATTCAGTGCCATGATCATCATTCCTAACACTAGTT
1 TACAAAACTCAATAAATCCAAGATTTTCAAATTCAGTGCCATGA--ATCATTCCTAACACTAGTT
2046590 ATAGAGTAACCTTTTCATTTTGGATTATTTTTGAAAATATGATGAAATGTTCTAATGCTTCATCT
64 ATAGAGTAACCTTTTCATTTTGGATTATTTTTGAAAATATGATGAAATGTTCTAATGCTTCATCT
2046655 TTAGTACTTAAAAATAGAACCCAAGTATATCTAGAATAGTCATCTACCAAGACAAATGCACATTG
129 TTAGTACTTAAAAATAGAACCCAAGTATATCTAGAATAGTCATCTACCAAGACAAATGCACATTG
2046720 TTTCCA
194 TTTCCA
2046726 TACAAAACTCAATAAATCCAAGATTTTCAAATTCAGTGCCATG-ATCATTCCTAACACTAGTTAT
1 TACAAAACTCAATAAATCCAAGATTTTCAAATTCAGTGCCATGAATCATTCCTAACACTAGTTAT
2046790 AGAGTAACCTTTTTCATTTTGGATTATTTTTGAAAATATGATGAAATGTTCTAATGCTTCATCTT
66 AGAGTAACC-TTTTCATTTTGGATTATTTTTGAAAATATGATGAAATGTTCTAATGCTTCATCTT
2046855 TAGTACTTAAAAATAGAACCCAAGTATATCTAGAATAGTCATCTACCAAGACAAATGCACATTGT
130 TAGTACTTAAAAATAGAACCCAAGTATATCTAGAATAGTCATCTACCAAGACAAATGCACATTGT
2046920 TTCCA
195 TTCCA
2046925 T
1 T
2046926 CCAAGCTAGT
Statistics
Matches: 199, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
198 30 0.15
199 126 0.63
201 43 0.22
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (199 bp):
TACAAAACTCAATAAATCCAAGATTTTCAAATTCAGTGCCATGAATCATTCCTAACACTAGTTAT
AGAGTAACCTTTTCATTTTGGATTATTTTTGAAAATATGATGAAATGTTCTAATGCTTCATCTTT
AGTACTTAAAAATAGAACCCAAGTATATCTAGAATAGTCATCTACCAAGACAAATGCACATTGTT
TCCA
Found at i:2047549 original size:54 final size:54
Alignment explanation
Indices: 2047485--2047602 Score: 218
Period size: 54 Copynumber: 2.2 Consensus size: 54
2047475 GGCGTTAAGC
2047485 TCAATGAATCGGCTTTTGTCTCCGGTCATGTGTCTTGAGCATCCACTATCAAGG
1 TCAATGAATCGGCTTTTGTCTCCGGTCATGTGTCTTGAGCATCCACTATCAAGG
2047539 TCAATGAATCGGCTTTTGTCTCCGGTCATGTGTCTTGAGCATCCACTATCAAGG
1 TCAATGAATCGGCTTTTGTCTCCGGTCATGTGTCTTGAGCATCCACTATCAAGG
*
2047593 TACCATGAAT
1 T-CAATGAAT
2047603 TTGGATTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 55 0.89
55 7 0.11
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (54 bp):
TCAATGAATCGGCTTTTGTCTCCGGTCATGTGTCTTGAGCATCCACTATCAAGG
Found at i:2048109 original size:22 final size:21
Alignment explanation
Indices: 2048067--2048106 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2048057 GAGTTTATTT
*
2048067 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2048088 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2048107 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2059413 original size:50 final size:50
Alignment explanation
Indices: 2059352--2059455 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
2059342 ATGGATTTTT
* * *
2059352 GTATTGAACTCAAATGGATATGTTATATAATGTGTTGAATAGATAAACAC
1 GTATTGAACTCAAATGAATATGTTATATAATGGGTTGAATAGAAAAACAC
* * * *
2059402 GTATTGGACTCATATGAATATGTTTTATAATGGGTTGAATATAAAAACAC
1 GTATTGAACTCAAATGAATATGTTATATAATGGGTTGAATAGAAAAACAC
2059452 GTAT
1 GTAT
2059456 GGTAGTAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (50 bp):
GTATTGAACTCAAATGAATATGTTATATAATGGGTTGAATAGAAAAACAC
Found at i:2068022 original size:45 final size:44
Alignment explanation
Indices: 2067971--2068294 Score: 398
Period size: 45 Copynumber: 7.2 Consensus size: 44
2067961 TATCCTTTAT
* * *
2067971 TTTCATTTATAGTATCCTTTCATGCTTATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCGT-TAATGCACCGTTATGCA
* * *
2068016 TTTCATTTATGGCATCCTTTCATACTGATAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGC-GTTAATGCACCGTTATGCA
* * * **
2068061 -TTCATTTATGGCATCATTTCATGCCATTAATGCACCGTCACACA
1 TTTCATTTATGGCATCCTTTCATG-CGTTAATGCACCGTTATGCA
* * * ** *
2068105 TTTCATTTATGGCATCCTTTTATACCGTTAATGAACAATTATACA
1 TTTCATTTATGGCATCCTTTCAT-GCGTTAATGCACCGTTATGCA
* *
2068150 TTTTAGTTATGGCATCCTTTCATGTCGTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATG-CGTTAATGCACCGTTATGCA
2068195 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATG-CGTTAATGCACCGTTATGCA
*
2068240 TTTCATTTATGGCATACTTTCATGACGTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATG-CGTTAATGCACCGTTATGCA
2068285 TTTCATTTAT
1 TTTCATTTAT
2068295 TCATTCATTT
Statistics
Matches: 238, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
44 34 0.14
45 204 0.86
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (44 bp):
TTTCATTTATGGCATCCTTTCATGCGTTAATGCACCGTTATGCA
Found at i:2079818 original size:55 final size:55
Alignment explanation
Indices: 2079759--2079867 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
2079749 ACGTATCGAT
* ** *
2079759 ACACAAAATTCATTCGATGTAGGGAGTGTATCGGTACATACAATAGTGTATCGGC
1 ACACAAAATACATTCGATGTAGGGAGTGTATCAATACATACAAGAGTGTATCGGC
* *
2079814 ACACAAAATACATTCGATGTAGGGGGTGTATCAATACATCCAAGAGTGTATCGG
1 ACACAAAATACATTCGATGTAGGGAGTGTATCAATACATACAAGAGTGTATCGG
2079868 TACATCCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (55 bp):
ACACAAAATACATTCGATGTAGGGAGTGTATCAATACATACAAGAGTGTATCGGC
Found at i:2079823 original size:20 final size:20
Alignment explanation
Indices: 2079783--2079823 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2079773 CGATGTAGGG
* * *
2079783 AGTGTATCGGTACATACAAT
1 AGTGTATCGGCACACAAAAT
2079803 AGTGTATCGGCACACAAAAT
1 AGTGTATCGGCACACAAAAT
2079823 A
1 A
2079824 CATTCGATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (20 bp):
AGTGTATCGGCACACAAAAT
Found at i:2080244 original size:16 final size:16
Alignment explanation
Indices: 2080223--2080256 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2080213 TTGAAAACTG
* *
2080223 AAAATTATTCCCCTTT
1 AAAATTACTCCCCCTT
2080239 AAAATTACTCCCCCTT
1 AAAATTACTCCCCCTT
2080255 AA
1 AA
2080257 TTTATTCTCC
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:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTACTCCCCCTT
Found at i:2085409 original size:53 final size:54
Alignment explanation
Indices: 2085301--2085422 Score: 165
Period size: 53 Copynumber: 2.3 Consensus size: 54
2085291 TACACCAGCC
* * * *
2085301 AGTGTATCGATACAAAAAATGCATTCGATGTAGGGAGTGTATCGGTACATACAAG
1 AGTGTATCGGTAC-AAAAATACATTCAATGTAGGGAGTGTATCGATACATACAAG
* *
2085356 AGTGTATCGGTACACAAATACATTCAATGTAGGG-GTGTATCGATACATCCAAG
1 AGTGTATCGGTACAAAAATACATTCAATGTAGGGAGTGTATCGATACATACAAG
*
2085409 AGTGTATCAGTACA
1 AGTGTATCGGTACA
2085423 TCCATTAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 30 0.50
54 18 0.30
55 12 0.20
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (54 bp):
AGTGTATCGGTACAAAAATACATTCAATGTAGGGAGTGTATCGATACATACAAG
Found at i:2093040 original size:17 final size:17
Alignment explanation
Indices: 2093014--2093074 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 17
2093004 TTGATACATA
*
2093014 TACAACAGTCTTTTAGC
1 TACAAAAGTCTTTTAGC
2093031 TACAAAAGTCTTTTAGC
1 TACAAAAGTCTTTTAGC
2093048 TAAGTTCACAAAGTCTTTTAGC
1 T-A---CA-AAAGTCTTTTAGC
2093070 TACAA
1 TACAA
2093075 CAGTATCTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 18 0.47
18 3 0.08
21 3 0.08
22 14 0.37
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (17 bp):
TACAAAAGTCTTTTAGC
Found at i:2094817 original size:54 final size:54
Alignment explanation
Indices: 2094734--2095396 Score: 919
Period size: 54 Copynumber: 12.4 Consensus size: 54
2094724 CTATGTGTAC
* * * * *
2094734 TATAGGCACTAAGTGTGCAACCTACGGAATTCATAATGTGTTTATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
** *
2094788 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTAATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
2094842 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATATTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * * *
2094896 TATAGGCACTAAGTGTGCAACCCACATAATTCATAATGTGTTTATG-A--A-CT
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * *
2094946 TATAGGCACAAAGTGTGGAACCCAC-GAAATTCAACATATATTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* * *
2095000 TATAGGCATTAAATGTGCAACCCAC-GAAATTCATCATATATTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* * * *
2095054 TATAGGCACTAAGTGTGCAACCCACAGAATTCATAATGTGTTTATGAACGACCA
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * *
2095108 TATAGGCAGTAAGTGTTCAACCCATAGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
2095162 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
2095216 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCAG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACC-G
* *
2095271 -ATAGGCACTAAGTGTGCAACCCAC-GTAATTCATCATATGTTAATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* *
2095324 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGATCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
2095378 CATAGGCACTATGTGTGCA
1 TATAGGCACTAAGTGTGCA
2095397 TCTCAAAGAA
Statistics
Matches: 545, Mismatches: 54, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
50 38 0.07
51 2 0.00
53 4 0.01
54 499 0.92
55 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
Found at i:2097675 original size:44 final size:44
Alignment explanation
Indices: 2097612--2097713 Score: 168
Period size: 44 Copynumber: 2.3 Consensus size: 44
2097602 AAAAATCTAA
*
2097612 TTTCACTACTCTTCCATGAATATCAGATTCAAAGATGAATTTGC
1 TTTCACTACTCTTCCATGAATATCAAATTCAAAGATGAATTTGC
* *
2097656 TTTCACTACTCTTCCATGAATATCAAATTCAAAGTTGATTTTGC
1 TTTCACTACTCTTCCATGAATATCAAATTCAAAGATGAATTTGC
*
2097700 TTCCACTACTCTTC
1 TTTCACTACTCTTC
2097714 TGTGGAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (44 bp):
TTTCACTACTCTTCCATGAATATCAAATTCAAAGATGAATTTGC
Found at i:2097791 original size:20 final size:19
Alignment explanation
Indices: 2097766--2097827 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
2097756 AAACTGACAG
2097766 ATGACCCAAAATATTTACAA
1 ATGACCC-AAATATTTACAA
**
2097786 ATGACCCGAAGGATTTACAA
1 ATGACCC-AAATATTTACAA
* *
2097806 ATTACCCGAATGATTTACAA
1 ATGACCCAAAT-ATTTACAA
2097826 AT
1 AT
2097828 TTGTGATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (19 bp):
ATGACCCAAATATTTACAA
Found at i:2097828 original size:20 final size:20
Alignment explanation
Indices: 2097778--2097828 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
2097768 GACCCAAAAT
*
2097778 ATTTACAAATGACCCGAAGG
1 ATTTACAAATTACCCGAAGG
*
2097798 ATTTACAAATTACCCGAATG
1 ATTTACAAATTACCCGAAGG
2097818 ATTTACAAATT
1 ATTTACAAATT
2097829 TGTGATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (20 bp):
ATTTACAAATTACCCGAAGG
Found at i:2098610 original size:22 final size:22
Alignment explanation
Indices: 2098585--2098639 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
2098575 TGGGTAAACA
2098585 AATCTATCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
2098607 AATCTATCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
2098629 AATCTATCATC
1 AATCTATCATC
2098640 CTTGCAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:2110290 original size:11 final size:11
Alignment explanation
Indices: 2110266--2110298 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2110256 GTTATAATAA
2110266 TAAAAC-AA-T
1 TAAAACAAATT
2110275 TAAAACAAATT
1 TAAAACAAATT
2110286 TAAAACAAATT
1 TAAAACAAATT
2110297 TA
1 TA
2110299 TTATTTACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 2 0.09
11 14 0.64
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAACAAATT
Found at i:2111108 original size:13 final size:13
Alignment explanation
Indices: 2111090--2111114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2111080 TAAATAAACA
2111090 AAATTGAAATACC
1 AAATTGAAATACC
2111103 AAATTGAAATAC
1 AAATTGAAATAC
2111115 GAAGAAACCT
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:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
AAATTGAAATACC
Found at i:2113700 original size:16 final size:16
Alignment explanation
Indices: 2113671--2113722 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
2113661 AATAAGATAT
*
2113671 AATATATGTCTATGTG
1 AATAAATGTCTATGTG
2113687 AA-AAATGATCTATGTG
1 AATAAATG-TCTATGTG
*
2113703 AATAATTGTCTATGT-
1 AATAAATGTCTATGTG
2113718 AATAA
1 AATAA
2113723 GTAATGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 9 0.28
16 19 0.59
17 4 0.12
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (16 bp):
AATAAATGTCTATGTG
Found at i:2113902 original size:24 final size:24
Alignment explanation
Indices: 2113875--2113928 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2113865 CTTCGAGACA
*
2113875 TCTATGTGGCACTTCTATGCAATT
1 TCTATGTGGCACTTCGATGCAATT
* *
2113899 TCTATGTGGTACTTCGGTGCAATT
1 TCTATGTGGCACTTCGATGCAATT
*
2113923 TATATG
1 TCTATG
2113929 AGTTGTGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TCTATGTGGCACTTCGATGCAATT
Found at i:2118897 original size:22 final size:23
Alignment explanation
Indices: 2118847--2118904 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
2118837 TTCTTCACGA
* * *
2118847 TCCTTTAGGACAATTCTACGTGG
1 TCCTTCAGGACATTTCTACGTCG
*
2118870 TCCTTCGGGACATTTCTACG-CG
1 TCCTTCAGGACATTTCTACGTCG
2118892 TCCTTCAGGACAT
1 TCCTTCAGGACAT
2118905 CTATATGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (23 bp):
TCCTTCAGGACATTTCTACGTCG
Found at i:2118939 original size:22 final size:22
Alignment explanation
Indices: 2118872--2118942 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
2118862 CTACGTGGTC
* *
2118872 CTTCGGGACATTTCTACGCGTC-
1 CTTCGGGACA-TTATACGCGGCA
* *
2118894 CTTCAGGACATCTATA--TGGCA
1 CTTCGGGACAT-TATACGCGGCA
2118915 CTTCGGGACATTATACGCGGCA
1 CTTCGGGACATTATACGCGGCA
2118937 CTTCGG
1 CTTCGG
2118943 TGCAATTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 6 0.15
21 11 0.28
22 22 0.56
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (22 bp):
CTTCGGGACATTATACGCGGCA
Found at i:2118963 original size:24 final size:24
Alignment explanation
Indices: 2118932--2119018 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
2118922 ACATTATACG
**
2118932 CGGCACTTCGGTGCAATTTCTATG
1 CGGCACTTCGGTGCAATTTCTACA
2118956 CGGCACTTCGGTGCAATTTCTACA
1 CGGCACTTCGGTGCAATTTCTACA
* *
2118980 CGACATTTCGGTGCAATTTCTACA
1 CGGCACTTCGGTGCAATTTCTACA
*
2119004 CGGTACTTCGGTGCA
1 CGGCACTTCGGTGCA
2119019 GTTTATACGA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (24 bp):
CGGCACTTCGGTGCAATTTCTACA
Found at i:2118963 original size:46 final size:48
Alignment explanation
Indices: 2118925--2119026 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
2118915 CTTCGGGACA
* *
2118925 TTATACGCGGCACTTCGGTGCAATTTCTATGCGGCACTTCGGTGCAAT
1 TTATACACGACACTTCGGTGCAATTTCTATGCGGCACTTCGGTGCAAT
* * ** * *
2118973 TTCTACACGACATTTCGGTGCAATTTCTACACGGTACTTCGGTGCAGT
1 TTATACACGACACTTCGGTGCAATTTCTATGCGGCACTTCGGTGCAAT
2119021 TTATAC
1 TTATAC
2119027 GAGCTGTGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.33
Consensus pattern (48 bp):
TTATACACGACACTTCGGTGCAATTTCTATGCGGCACTTCGGTGCAAT
Found at i:2119392 original size:31 final size:31
Alignment explanation
Indices: 2119333--2119393 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2119323 TGCTTAACTT
* *
2119333 TATATGTTATGGTTGTTTAAATGCATGATGA
1 TATATGTTATGGTTGATTAAATACATGATGA
* *
2119364 TATATGTTCTGGTTGATTAAATATATGATG
1 TATATGTTATGGTTGATTAAATACATGATG
2119394 TTTTTGTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (31 bp):
TATATGTTATGGTTGATTAAATACATGATGA
Found at i:2124690 original size:44 final size:46
Alignment explanation
Indices: 2124607--2124692 Score: 124
Period size: 44 Copynumber: 1.9 Consensus size: 46
2124597 GAGGGTTATT
2124607 CGCGGTCTTTCGGGACAATTCTACGTAGTCCTTCGGGACATTTCTA
1 CGCGGTCTTTCGGGACAATTCTACGTAGTCCTTCGGGACATTTCTA
* *
2124653 CGCGGTCCTTT-GGGAC-A-TCTATGTGGTCCTTCGGGACATT
1 CGCGGT-CTTTCGGGACAATTCTACGTAGTCCTTCGGGACATT
2124693 CTATGTGGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 21 0.57
45 1 0.03
46 11 0.30
47 4 0.11
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.33
Consensus pattern (46 bp):
CGCGGTCTTTCGGGACAATTCTACGTAGTCCTTCGGGACATTTCTA
Found at i:2124698 original size:22 final size:22
Alignment explanation
Indices: 2124610--2124708 Score: 103
Period size: 23 Copynumber: 4.5 Consensus size: 22
2124600 GGTTATTCGC
*
2124610 GGTCTTTCGGGACAATTCTACGT
1 GGTCCTTCGGGAC-ATTCTACGT
* *
2124633 AGTCCTTCGGGACATTTCTACGC
1 GGTCCTTCGGGACA-TTCTACGT
* *
2124656 GGTCCTTTGGGACA-TCTATGT
1 GGTCCTTCGGGACATTCTACGT
*
2124677 GGTCCTTCGGGACATTCTATGT
1 GGTCCTTCGGGACATTCTACGT
2124699 GG-CACTTCGG
1 GGTC-CTTCGG
2124709 TGCAATTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
21 19 0.29
22 16 0.25
23 30 0.46
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.33
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTACGT
Found at i:2125104 original size:31 final size:31
Alignment explanation
Indices: 2125045--2125105 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2125035 TGCTTAACGT
* *
2125045 TATATGTTATGGTTGGTTAAATGCATGATGA
1 TATATGTTATGGTTGATTAAATACATGATGA
* *
2125076 TATATGTTCTGGTTGATTAAATATATGATG
1 TATATGTTATGGTTGATTAAATACATGATG
2125106 TTTTTGTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (31 bp):
TATATGTTATGGTTGATTAAATACATGATGA
Found at i:2125413 original size:23 final size:24
Alignment explanation
Indices: 2125387--2125439 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
2125377 AACCTCACCA
*
2125387 TATTTAT-GCAAATTA-TTAAGTTC
1 TATTTATAG-AAATTAGTTAAATTC
*
2125410 TATTT-TAGAATTTAGTTAAATTC
1 TATTTATAGAAATTAGTTAAATTC
2125433 TATTTAT
1 TATTTAT
2125440 TCACTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 6 0.24
23 18 0.72
24 1 0.04
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (24 bp):
TATTTATAGAAATTAGTTAAATTC
Found at i:2130438 original size:20 final size:21
Alignment explanation
Indices: 2130396--2130440 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2130386 GAAGTATCAG
*
2130396 TACCATAGTATAAAAGTATCGA
1 TACCATAG-ATAAAAGTACCGA
*
2130418 TACCATAG-TAAAGGTACCGA
1 TACCATAGATAAAAGTACCGA
2130438 TAC
1 TAC
2130441 TATCGAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
22 8 0.38
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (21 bp):
TACCATAGATAAAAGTACCGA
Found at i:2130850 original size:54 final size:54
Alignment explanation
Indices: 2130765--2131266 Score: 597
Period size: 54 Copynumber: 9.4 Consensus size: 54
2130755 CTATGTGTAC
* * * * *
2130765 TATAGGCACTAAGTGTGCAACTCAC-GAAATTCATAATGTGTTTATGAATGACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* * *
2130819 TATAGGCACTAAGTGTGCAACCCATAGAATTCATCATATGTTGATGAATGACTG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
** *
2130873 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATATTGATGAAC-AGCCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGA-CCG
* * * *
2130927 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATGAT-TTTATGAACGGCCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCAT-ATGTTGATGAACGACCG
* * * ***
2130981 TATTA-GTACTAAGTGTGCAACCCACATAATTCAACATATGTTGATGAACGATTA
1 TA-TAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
2131035 TATAGGCACTAAGTGTG---CCCACAAAATTCATCATATGTTGATGAACGACTG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
2131086 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAATGATCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
2131140 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATATTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
** * * *
2131194 TATAGGCACTAAGTGTGCAACCCATGGAATTCATAACATGATT-ATGAACGACCA
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATG-TTGATGAACGACCG
* *
2131248 TATCGGCACTATGTGTGCA
1 TATAGGCACTAAGTGTGCA
2131267 TCTCAAAGAA
Statistics
Matches: 391, Mismatches: 46, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
51 47 0.12
53 5 0.01
54 332 0.85
55 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
Found at i:2131144 original size:213 final size:215
Alignment explanation
Indices: 2130765--2131217 Score: 616
Period size: 213 Copynumber: 2.1 Consensus size: 215
2130755 CTATGTGTAC
* * * * ***
2130765 TATAGGCACTAAGTGTGCAACTCACGA-AATTCATA-ATGTGTTTATGAATGACCGTATAGGCAC
1 TATAGGCACTAAGTGTGCAACCCAC-ATAATTCA-ACATATGTTGATGAACGATTATATAGGCAC
*
2130828 TAAGTGTGCAACCCATAGAATTCATCATATGTTGATGAATGACTGTATAGGCACTAAGTGTGCAA
64 TAAGTGTGC-ACCCATAGAATTCATCATATGTTGATGAACGACTGTATAGGCACTAAGTGTGCAA
** *
2130893 CCCATGGAATTCATCATATATTGATGAACAGCCGTATAGGCACTAAGTGTGCAACCCACGGAATT
128 CCCACAGAATTCATCATATATTGATGAACAGCCGTATAGGCACTAAGTGTGCAACCCACAGAATT
* *
2130958 CATAATGAT-TTTATGAACGGCCG
193 CATAAT-ATATTGATGAACGACCG
*
2130981 TATTA-GTACTAAGTGTGCAACCCACATAATTCAACATATGTTGATGAACGATTATATAGGCACT
1 TA-TAGGCACTAAGTGTGCAACCCACATAATTCAACATATGTTGATGAACGATTATATAGGCACT
2131045 AAGTGTGC-CCACA-A-AATTCATCATATGTTGATGAACGACTGTATAGGCACTAAGTGTGCAAC
65 AAGTGTGCACC-CATAGAATTCATCATATGTTGATGAACGACTGTATAGGCACTAAGTGTGCAAC
* * * *
2131107 CCACAGAATTCATCATATGTTGATGAA-TGATCGTATAGGCACTAAGTGTGCAACCCACATAATT
129 CCACAGAATTCATCATATATTGATGAACAG-CCGTATAGGCACTAAGTGTGCAACCCACAGAATT
*
2131171 CATCATATATTGATGAACGACCG
193 CATAATATATTGATGAACGACCG
2131194 TATAGGCACTAAGTGTGCAACCCA
1 TATAGGCACTAAGTGTGCAACCCA
2131218 TGGAATTCAT
Statistics
Matches: 210, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
212 5 0.02
213 139 0.66
214 3 0.01
215 4 0.02
216 57 0.27
217 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (215 bp):
TATAGGCACTAAGTGTGCAACCCACATAATTCAACATATGTTGATGAACGATTATATAGGCACTA
AGTGTGCACCCATAGAATTCATCATATGTTGATGAACGACTGTATAGGCACTAAGTGTGCAACCC
ACAGAATTCATCATATATTGATGAACAGCCGTATAGGCACTAAGTGTGCAACCCACAGAATTCAT
AATATATTGATGAACGACCG
Found at i:2131266 original size:267 final size:268
Alignment explanation
Indices: 2130765--2131266 Score: 762
Period size: 267 Copynumber: 1.9 Consensus size: 268
2130755 CTATGTGTAC
* * * *
2130765 TATAGGCACTAAGTGTGCAACTCACGAAATTCATAATGTGTTTATGAATGACCGTATAGGCACTA
1 TATAGGCACTAAGTGTGC-ACTCACAAAATTCATAATATGTTGATGAACGACCGTATAGGCACTA
*
2130830 AGTGTGCAACCCATAGAATTCATCATATGTTGATGAATGACTGTATAGGCACTAAGTGTGCAACC
65 AGTGTGCAACCCACAGAATTCATCATATGTTGATGAATGACTGTATAGGCACTAAGTGTGCAACC
**
2130895 CATGGAATTCATCATATATTGATGAACAGCCGTATAGGCACTAAGTGTGCAACCCACGGAATTCA
130 CACAGAATTCATCATATATTGATGAACAGCCGTATAGGCACTAAGTGTGCAACCCACGGAATTCA
* * * *
2130960 TAATGATTTTATGAACGGCCGTATTAGTACTAAGTGTGCAACCCACATAATTCAACATATGTTGA
195 TAATGA-TTTATGAACGACCATATCAGCACTAAGTGTGCAACCCACATAATTCAACATATGTTGA
2131025 TGAACGATTA
259 TGAACGATTA
* *
2131035 TATAGGCACTAAGTGTGC-C-CACAAAATTCATCATATGTTGATGAACGACTGTATAGGCACTAA
1 TATAGGCACTAAGTGTGCACTCACAAAATTCATAATATGTTGATGAACGACCGTATAGGCACTAA
2131098 GTGTGCAACCCACAGAATTCATCATATGTTGATGAATGA-TCGTATAGGCACTAAGTGTGCAACC
66 GTGTGCAACCCACAGAATTCATCATATGTTGATGAATGACT-GTATAGGCACTAAGTGTGCAACC
* *
2131162 CACATAATTCATCATATATTGATGAAC-GACCGTATAGGCACTAAGTGTGCAACCCATGGAATTC
130 CACAGAATTCATCATATATTGATGAACAG-CCGTATAGGCACTAAGTGTGCAACCCACGGAATTC
* *
2131226 ATAACATGA-TTATGAACGACCATATCGGCACTATGTGTGCA
194 AT-A-ATGATTTATGAACGACCATATCAGCACTAAGTGTGCA
2131267 TCTCAAAGAA
Statistics
Matches: 211, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
266 2 0.01
267 185 0.88
268 2 0.01
269 4 0.02
270 18 0.09
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (268 bp):
TATAGGCACTAAGTGTGCACTCACAAAATTCATAATATGTTGATGAACGACCGTATAGGCACTAA
GTGTGCAACCCACAGAATTCATCATATGTTGATGAATGACTGTATAGGCACTAAGTGTGCAACCC
ACAGAATTCATCATATATTGATGAACAGCCGTATAGGCACTAAGTGTGCAACCCACGGAATTCAT
AATGATTTATGAACGACCATATCAGCACTAAGTGTGCAACCCACATAATTCAACATATGTTGATG
AACGATTA
Found at i:2133330 original size:2 final size:2
Alignment explanation
Indices: 2133323--2133366 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2133313 AGTAATCATA
*
2133323 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2133365 AT
1 AT
2133367 TCATCAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2138577 original size:89 final size:90
Alignment explanation
Indices: 2138416--2138697 Score: 386
Period size: 89 Copynumber: 3.1 Consensus size: 90
2138406 GAACTACAAA
* ** * *
2138416 CGTAGGGCTTACCCTCAGCACACAACAAAAAGGGAGGCAACCTAAGGATATACCTTGGGGACTAT
1 CGTAGGG-TTACCTTCAGCACACAAC-AAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
* *
2138481 GGGCCTACCCAAGGATATCATTAGATC
64 GGGCCTACCCAAGGGTATCCTTAGATC
* * * * *
2138508 CGTAGGGTTACCTTCAGCACACAGC-GAAGGGAATCAACCTAAGAATATGCTTTGGGGCCTATGG
1 CGTAGGGTTACCTTCAGCACACAACAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGG
2138572 GCCTACCCAAGGGTATCCTTAGATC
66 GCCTACCCAAGGGTATCCTTAGATC
* * *
2138597 CGTAAGTTTACCTTAAGCACACAACAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGG
1 CGTAGGGTTACCTTCAGCACACAACAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGG
2138662 GCCTACCCAAGGGTATCCTTAGATC
66 GCCTACCCAAGGGTATCCTTAGATC
* *
2138687 CATATGGTTAC
1 CGTAGGGTTAC
2138698 TAGCTGGATC
Statistics
Matches: 167, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
89 76 0.46
90 68 0.41
91 16 0.10
92 7 0.04
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (90 bp):
CGTAGGGTTACCTTCAGCACACAACAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGG
GCCTACCCAAGGGTATCCTTAGATC
Found at i:2150252 original size:21 final size:21
Alignment explanation
Indices: 2150228--2150267 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2150218 GTTGAATGAT
*
2150228 TATAACCAGGATGAAGATGCC
1 TATAACCAGGATAAAGATGCC
*
2150249 TATAATCAGGATAAAGATG
1 TATAACCAGGATAAAGATG
2150268 GATACAACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (21 bp):
TATAACCAGGATAAAGATGCC
Found at i:2150344 original size:275 final size:276
Alignment explanation
Indices: 2149837--2150379 Score: 822
Period size: 275 Copynumber: 2.0 Consensus size: 276
2149827 TAATGCAATT
*
2149837 ATAATGCCATTAACCATTTTAATAATGTTGCTTTTGTTTATGTTTGTGAAAATACATATTTTTTC
1 ATAATGCCATTAACCAGTTTAATAATGTTGCTTTTGTTTATGTTTGTGAAAATACATATTTTTTC
* * *
2149902 GAGATGGTTGATAATAAAGATACTAAAATTCAAAATACAGAGTTGGATGATTATAATCAGGATGA
66 GAGATGGTTGATAATAAAGATACCAAAATTCAAAATACAGAGTTGAATGATTATAACCAGGATGA
* *
2149967 AAATGACCATAATCAGGATAAAGATGGATACAATAGTTAATCAAATTGTGAAACTTATACTAAAT
131 AAATGACCATAATCAGGATAAAGATGGATACAACAGTAAATCAAATTGTGAAACTTATACTAAAT
* * * **
2150032 AAGAACAAACTAATTATCCTATCGATGATGACAAACATAGGGATGATGAAAAGACAATTTACAAC
196 AAGAACAAACTAATTATCCTATCGATAATGACAAACATAGAGATGATAAAAAGACAATCGACAAC
*
2150097 TTTATTGAAAACTTTA
261 TTCATTGAAAACTTTA
* *
2150113 ATAATGTCATTAACCAGTTTAATAATGTTGTTTTTGTTTATGTTTGTGAAAATACATA-TTTTTC
1 ATAATGCCATTAACCAGTTTAATAATGTTGCTTTTGTTTATGTTTGTGAAAATACATATTTTTTC
*
2150177 GAGATGGTTGATAATAAAGATACCAAAATTCAAATTACAGAGTTGAATGATTATAACCAGGATGA
66 GAGATGGTTGATAATAAAGATACCAAAATTCAAAATACAGAGTTGAATGATTATAACCAGGATGA
* * * * * * *
2150242 AGATG-CCTATAATCAGGATAAAGATGGATACAACCGTAAATTAGATTGTGAAAGTTGTACTGAA
131 AAATGACC-ATAATCAGGATAAAGATGGATACAACAGTAAATCAAATTGTGAAACTTATACTAAA
* * *
2150306 TAAGAACAAA-TAGATTATCCTATCGATAATGGCAAACATATAGATGATAAAAAGGCAATCGACA
195 TAAGAACAAACTA-ATTATCCTATCGATAATGACAAACATAGAGATGATAAAAAGACAATCGACA
2150370 ACTTCATTGA
259 ACTTCATTGA
2150380 CACATTGGAT
Statistics
Matches: 240, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
274 4 0.02
275 181 0.75
276 55 0.23
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (276 bp):
ATAATGCCATTAACCAGTTTAATAATGTTGCTTTTGTTTATGTTTGTGAAAATACATATTTTTTC
GAGATGGTTGATAATAAAGATACCAAAATTCAAAATACAGAGTTGAATGATTATAACCAGGATGA
AAATGACCATAATCAGGATAAAGATGGATACAACAGTAAATCAAATTGTGAAACTTATACTAAAT
AAGAACAAACTAATTATCCTATCGATAATGACAAACATAGAGATGATAAAAAGACAATCGACAAC
TTCATTGAAAACTTTA
Done.