Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 33 of 770
Found at i:9559563 original size:18 final size:18
Alignment explanation
Indices: 9559529--9559581 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
9559519 TATAAAATAA
*
9559529 TATATATTATT-TTTTATT
1 TATATATTATTATTATA-T
9559547 TATATATTATTCATTATAT
1 TATATATTATT-ATTATAT
*
9559566 TAT-TTTTATTATTATA
1 TATATATTATTATTATA
9559582 CATTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 17 0.55
19 4 0.13
20 4 0.13
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATATTATTATTATAT
Found at i:9559566 original size:12 final size:12
Alignment explanation
Indices: 9559549--9559614 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
9559539 TTTTTATTTA
*
9559549 TATATTATTCAT
1 TATATTATACAT
**
9559561 TATATTAT-TTT
1 TATATTATACAT
9559572 TATTATTATACAT
1 TA-TATTATACAT
* *
9559585 TTTATTTATAAAT
1 TATA-TTATACAT
*
9559598 TTTATTATACAT
1 TATATTATACAT
9559610 TATAT
1 TATAT
9559615 GTTTTACTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
11 3 0.07
12 27 0.63
13 13 0.30
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTATACAT
Found at i:9559593 original size:25 final size:25
Alignment explanation
Indices: 9559535--9559610 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
9559525 ATAATATATA
* *
9559535 TTATTTTTTATTTATATATTATTCATT
1 TTATTTATT-TTTAT-TATTATACATT
*
9559562 ATA-TTATTTTTATTATTATACATT
1 TTATTTATTTTTATTATTATACATT
**
9559586 TTATTTATAAATT-TTATTATACATT
1 TTATTTAT-TTTTATTATTATACATT
9559611 ATATGTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 12 0.29
25 21 0.51
26 6 0.15
27 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTATTTTTATTATTATACATT
Found at i:9559594 original size:30 final size:30
Alignment explanation
Indices: 9559531--9559612 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
9559521 TAAAATAATA
*
9559531 TATATTATTTTTTATTTATATATTATTCAT
1 TATATTATTTTTTATTTATACATTATTCAT
9559561 TATATTA-TTTTTATTATTATACATT-TT-AT
1 TATATTATTTTTTA-T-TTATACATTATTCAT
**
9559590 T-TA-TAAATTTTA-TTATACATTAT
1 TATATTATTTTTTATTTATACATTAT
9559613 ATGTTTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
25 9 0.20
26 1 0.02
27 2 0.04
28 7 0.15
29 9 0.20
30 10 0.22
31 8 0.17
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (30 bp):
TATATTATTTTTTATTTATACATTATTCAT
Found at i:9559780 original size:23 final size:21
Alignment explanation
Indices: 9559754--9559806 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
9559744 TATATTATCC
9559754 TTATTTATATGACAGTTATCATA
1 TTATTTATATGACA-TTAT-ATA
** *
9559777 TTA-TTATATTTCATTATATT
1 TTATTTATATGACATTATATA
9559797 TTATTTATAT
1 TTATTTATAT
9559807 TTTTATTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 8 0.31
23 3 0.12
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (21 bp):
TTATTTATATGACATTATATA
Found at i:9559836 original size:10 final size:10
Alignment explanation
Indices: 9559769--9559851 Score: 64
Period size: 10 Copynumber: 8.1 Consensus size: 10
9559759 TATATGACAG
9559769 TTATCATATTA
1 TTAT-ATATTA
9559780 TTATAT-TTCA
1 TTATATATT-A
*
9559790 TTATATTTTA
1 TTATATATTA
*
9559800 TT-TATATTT
1 TTATATATTA
*
9559809 TTAT-TACATA
1 TTATATA-TTA
*
9559819 TCATATATTA
1 TTATATATTA
9559829 TTATATATTA
1 TTATATATTA
9559839 TTACCTATATTA
1 TTA--TATATTA
9559851 T
1 T
9559852 CTTCCTTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
9 11 0.19
10 31 0.53
11 8 0.14
12 8 0.14
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATATATTA
Found at i:9563947 original size:12 final size:12
Alignment explanation
Indices: 9563930--9563954 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9563920 CAGAAAGAAA
9563930 TGCAGGAGCAAT
1 TGCAGGAGCAAT
9563942 TGCAGGAGCAAT
1 TGCAGGAGCAAT
9563954 T
1 T
9563955 AGCAAATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (12 bp):
TGCAGGAGCAAT
Found at i:9576242 original size:44 final size:44
Alignment explanation
Indices: 9576163--9576712 Score: 805
Period size: 44 Copynumber: 12.5 Consensus size: 44
9576153 AAGATAATGT
9576163 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * * *
9576207 AAATCAAAGAGAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
9576251 AGATCGAAGATAGCAGATTTGACATCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
9576295 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * **
9576339 AGATCGAAGAGAACAGATTTTACGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* ** *
9576383 AGATCAAAGATAGCAGATTTGGCACCTCTGTATTGTTAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * *
9576427 AGATCGAA-ATAGCAGATTTGGTGTTTTTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
9576470 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
9576514 AGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
9576558 AGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * * **
9576602 AGATTGAAGATAACATATTTGGTATCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * * *
9576646 ATATCAAAGATAACAGATTCGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * *
9576690 AGGTCGGAGATAACAGATTTGGC
1 AGATCGAAGATAGCAGATTTGGC
9576713 ATTCTTGAGT
Statistics
Matches: 448, Mismatches: 57, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
43 37 0.08
44 411 0.92
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
Found at i:9578362 original size:18 final size:18
Alignment explanation
Indices: 9578328--9578380 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
9578318 TATAAAATAA
*
9578328 TATATATTATT-TTTTATT
1 TATATATTATTATTATA-T
9578346 TATATATTATTCATTATAT
1 TATATATTATT-ATTATAT
*
9578365 TAT-TTTTATTATTATA
1 TATATATTATTATTATA
9578381 CATTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 17 0.55
19 4 0.13
20 4 0.13
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATATTATTATTATAT
Found at i:9578384 original size:24 final size:24
Alignment explanation
Indices: 9578328--9578412 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
9578318 TATAAAATAA
* * *
9578328 TATATATTATTTTTTATTTATATAT
1 TATACATTATATTATATTTAT-TAT
* *
9578353 TATTCATTATATTATTTTTATTAT
1 TATACATTATATTATATTTATTAT
* *
9578377 TATACATTTTATTTATAATT-TTAT
1 TATACATTATA-TTATATTTATTAT
9578401 TATACATTATAT
1 TATACATTATAT
9578413 GTTTTACTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
23 1 0.02
24 26 0.53
25 22 0.45
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TATACATTATATTATATTTATTAT
Found at i:9578393 original size:30 final size:30
Alignment explanation
Indices: 9578330--9578410 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
9578320 TAAAATAATA
*
9578330 TATATTATTTTTTATTTATATATTATTCAT
1 TATATTATTTTTTATTTATACATTATTCAT
9578360 TATATTA-TTTTTATTATTATACATT-TT-AT
1 TATATTATTTTTTA-T-TTATACATTATTCAT
*
9578389 T-TA-TA-ATTTTA-TTATACATTAT
1 TATATTATTTTTTATTTATACATTAT
9578411 ATGTTTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
24 9 0.20
25 1 0.02
27 7 0.15
28 2 0.04
29 9 0.20
30 10 0.22
31 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (30 bp):
TATATTATTTTTTATTTATACATTATTCAT
Found at i:9578633 original size:10 final size:10
Alignment explanation
Indices: 9578618--9578669 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
9578608 TTACATATCT
9578618 TATATTATTA
1 TATATTATTA
9578628 TATATTATTA
1 TATATTATTA
*
9578638 CCTATATTATCTT
1 --TATATTAT-TA
* *
9578651 TCTTTTATTA
1 TATATTATTA
9578661 TATATTATT
1 TATATTATT
9578670 TCATTATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 18 0.55
11 6 0.18
12 8 0.24
13 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (10 bp):
TATATTATTA
Found at i:9578668 original size:7 final size:7
Alignment explanation
Indices: 9578654--9578689 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
9578644 TTATCTTTCT
9578654 TTTATTA
1 TTTATTA
*
9578661 TATATTA
1 TTTATTA
9578668 TTTCATTA
1 TTT-ATTA
9578676 TTTATTA
1 TTTATTA
9578683 TTTATTA
1 TTTATTA
9578690 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:9579791 original size:26 final size:26
Alignment explanation
Indices: 9579754--9579837 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9579744 TGATACAAAT
* *
9579754 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9579780 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9579806 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9579832 TGATAA
1 TGATAA
9579838 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9581348 original size:26 final size:26
Alignment explanation
Indices: 9581319--9581371 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9581309 TTTACAGTTT
9581319 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
9581345 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
9581371 T
1 T
9581372 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:9585541 original size:26 final size:26
Alignment explanation
Indices: 9585504--9585587 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9585494 TGATACAAAT
* *
9585504 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9585530 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9585556 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9585582 TGATAA
1 TGATAA
9585588 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9587094 original size:26 final size:26
Alignment explanation
Indices: 9587065--9587117 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9587055 TTTACAGTTT
9587065 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
9587091 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
9587117 T
1 T
9587118 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:9592117 original size:20 final size:21
Alignment explanation
Indices: 9592078--9592125 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
9592068 TCAATCCAAC
*
9592078 ATCGATA-CTTTTCTTAAGGT
1 ATCGATATATTTTCTTAAGGT
*
9592098 ATCTATATATTTTC-TAAGGT
1 ATCGATATATTTTCTTAAGGT
9592118 ATCGATAT
1 ATCGATAT
9592126 TCCTGCTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (21 bp):
ATCGATATATTTTCTTAAGGT
Found at i:9597156 original size:36 final size:39
Alignment explanation
Indices: 9597115--9597187 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
9597105 GGGTTAATCC
9597115 TTAAGA-TTT-AGGCAAAAACCTTAAGAGAG-TTGTATA
1 TTAAGATTTTGAGGCAAAAACCTTAAGAGAGATTGTATA
* * *
9597151 TTAAGATTTTGGGGCATAAATCTTAAGAGAGATTGTA
1 TTAAGATTTTGAGGCAAAAACCTTAAGAGAGATTGTA
9597188 AGTTTAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 3 0.10
38 17 0.55
39 5 0.16
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (39 bp):
TTAAGATTTTGAGGCAAAAACCTTAAGAGAGATTGTATA
Found at i:9598742 original size:43 final size:43
Alignment explanation
Indices: 9598694--9598796 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
9598684 AACGCCGCAA
*
9598694 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCC
*
9598737 AAAAAACGCAGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCC
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCC
***
9598780 CGCAAACGCCGCTAAAG
1 AAAAAACGCCGCTAAAG
9598797 GTCATAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCC
Found at i:9603267 original size:7 final size:7
Alignment explanation
Indices: 9603255--9603427 Score: 71
Period size: 7 Copynumber: 23.7 Consensus size: 7
9603245 ACTAACTAAT
9603255 CTAAACC
1 CTAAACC
9603262 CTAAACTC
1 CTAAAC-C
*
9603270 CTAATCC
1 CTAAACC
*
9603277 CTAAACA
1 CTAAACC
*
9603284 TTAAACC
1 CTAAACC
*
9603291 CTAAAAC
1 CTAAACC
*
9603298 ATAAACC
1 CTAAACC
* *
9603305 CTGAATC
1 CTAAACC
*
9603312 CTGAACC
1 CTAAACC
* *
9603319 ATGAACC
1 CTAAACC
*
9603326 CTGAACCC
1 CT-AAACC
*
9603334 CTAACCC
1 CTAAACC
*
9603341 CTAACCC
1 CTAAACC
9603348 CT-AACAC
1 CTAAAC-C
9603355 CTAAACC
1 CTAAACC
*
9603362 TTAAACC
1 CTAAACC
*
9603369 C-CAACC
1 CTAAACC
9603375 CTTAAACTAC
1 C-TAAAC--C
9603385 CTTTAAACC
1 C--TAAACC
* *
9603394 ATAATCC
1 CTAAACC
9603401 CTAAACC
1 CTAAACC
*
9603408 CATAATCC
1 C-TAAACC
*
9603416 ATAAACC
1 CTAAACC
*
9603423 TTAAA
1 CTAAA
9603428 ATAGTGAGAC
Statistics
Matches: 126, Mismatches: 30, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
6 7 0.06
7 88 0.70
8 22 0.17
9 1 0.01
10 2 0.02
11 6 0.05
ACGTcount: A:0.40, C:0.37, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:9603294 original size:14 final size:14
Alignment explanation
Indices: 9603256--9603306 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
9603246 CTAACTAATC
9603256 TAAACCCTAAAC-T
1 TAAACCCTAAACAT
*
9603269 CCTAATCCCTAAACAT
1 --TAAACCCTAAACAT
9603285 TAAACCCTAAAACA-
1 TAAACCCT-AAACAT
9603299 TAAACCCT
1 TAAACCCT
9603307 GAATCCTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 15 0.47
15 16 0.50
16 1 0.03
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACAT
Found at i:9603412 original size:15 final size:15
Alignment explanation
Indices: 9603388--9603422 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9603378 AAACTACCTT
*
9603388 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
9603402 TAAACCCATAATCCA
1 TAAACCCATAATCCA
9603417 TAAACC
1 TAAACC
9603423 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:9603588 original size:41 final size:41
Alignment explanation
Indices: 9603462--9603588 Score: 150
Period size: 41 Copynumber: 3.1 Consensus size: 41
9603452 AGTTGGTATC
* * *
9603462 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTG-GT
1 TTTAGCGGCGTTTTAACAAAAACGCCGCTAATGCTCTGTGT
*
9603502 CTTTAGCGGCGTTTTAACAAAAAACGCCGCTAATGCTCAGT-T
1 -TTTAGCGGCGTTTTAAC-AAAAACGCCGCTAATGCTCTGTGT
* * * *
9603544 TTTAGCGGTGTTTTGACAAAAACGCCGCTATTGCACTGTGT
1 TTTAGCGGCGTTTTAACAAAAACGCCGCTAATGCTCTGTGT
9603585 TTTA
1 TTTA
9603589 CAATTTTTGC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
40 19 0.26
41 35 0.47
42 20 0.27
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTAACAAAAACGCCGCTAATGCTCTGTGT
Found at i:9605505 original size:14 final size:15
Alignment explanation
Indices: 9605486--9605541 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
9605476 AATCTTCAAT
9605486 GATATG-CAATCTTA
1 GATATGACAATCTTA
9605500 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
9605517 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
9605535 GATATGA
1 GATATGA
9605542 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:9605530 original size:35 final size:37
Alignment explanation
Indices: 9605484--9605562 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
9605474 ATAATCTTCA
9605484 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
9605520 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
9605556 A-GATATG
1 ATGATATG
9605563 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:9605562 original size:17 final size:19
Alignment explanation
Indices: 9605484--9605555 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
9605474 ATAATCTTCA
9605484 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9605503 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9605520 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9605538 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
9605556 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9605577 original size:23 final size:22
Alignment explanation
Indices: 9605484--9605564 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 22
9605474 ATAATCTTCA
9605484 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
9605503 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
9605520 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
9605538 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
9605560 ATGAT
1 ATGAT
9605565 TTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
17 16 0.29
18 16 0.29
19 15 0.27
22 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:9607052 original size:14 final size:15
Alignment explanation
Indices: 9607023--9607128 Score: 62
Period size: 14 Copynumber: 7.0 Consensus size: 15
9607013 ATTAGTAAAA
9607023 AAGAATATATACATAAT
1 AAGAATATAT--ATAAT
9607040 AA-AATATATATAA-
1 AAGAATATATATAAT
9607053 AAGAATATATA-AGA-
1 AAGAATATATATA-AT
* *
9607067 AA-AATAAATATTAT
1 AAGAATATATATAAT
*
9607081 AAGGAATGTTATATAAT
1 AA-GAAT-ATATATAAT
*
9607098 AAGATATAGTATGTAAT
1 AAGA-ATA-TATATAAT
*
9607115 AA-AATATAAATAAT
1 AAGAATATATATAAT
9607129 TATAGTGAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
13 11 0.15
14 23 0.32
15 3 0.04
16 13 0.18
17 21 0.30
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.31
Consensus pattern (15 bp):
AAGAATATATATAAT
Found at i:9607917 original size:11 final size:12
Alignment explanation
Indices: 9607895--9607929 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
9607885 TCTAAAGGTA
9607895 TTCCATTTTTTT
1 TTCCATTTTTTT
9607907 TTCCATTTTTTT
1 TTCCATTTTTTT
*
9607919 TATCTATTTTT
1 T-TCCATTTTT
9607930 AACATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.74
Consensus pattern (12 bp):
TTCCATTTTTTT
Found at i:9608871 original size:15 final size:15
Alignment explanation
Indices: 9608853--9608882 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9608843 GCTTACTTTG
9608853 TTGACCGGTACTTGA
1 TTGACCGGTACTTGA
9608868 TTGACCGGTACTTGA
1 TTGACCGGTACTTGA
9608883 CTAAAGGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
TTGACCGGTACTTGA
Found at i:9612043 original size:53 final size:53
Alignment explanation
Indices: 9611958--9612060 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
9611948 TCTATCCCAA
*
9611958 TTATATAAGATTTTGGGACTTGTTAACATAATGAAGATCCATCACAACCCGTT
1 TTATATAAGATTTTGGGACTTGTTAACATAATGAAGATCAATCACAACCCGTT
*
9612011 TTATATAAGATTTTGGGACTTGTTAACCTAATGAAGATCAATCACAACCC
1 TTATATAAGATTTTGGGACTTGTTAACATAATGAAGATCAATCACAACCC
9612061 CTTCTATTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (53 bp):
TTATATAAGATTTTGGGACTTGTTAACATAATGAAGATCAATCACAACCCGTT
Found at i:9613706 original size:36 final size:37
Alignment explanation
Indices: 9613665--9613745 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 37
9613655 GCATATCATA
*
9613665 TCATATCATATCTAAGATTG-TATCATATCTAAGATT
1 TCATATCACATCTAAGATTGATATCATATCTAAGATT
*
9613701 TCATATCACATCTAAGATTGCATATCATATTTAAGATT
1 TCATATCACATCTAAGATTG-ATATCATATCTAAGATT
*
9613739 GCATATC
1 TCATATC
9613746 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 19 0.47
38 21 0.52
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (37 bp):
TCATATCACATCTAAGATTGATATCATATCTAAGATT
Found at i:9613713 original size:19 final size:19
Alignment explanation
Indices: 9613665--9613745 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 19
9613655 GCATATCATA
9613665 TCATATCATATCTAAGA-T
1 TCATATCATATCTAAGATT
*
9613683 T-GTATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
9613701 TCATATCACATCTAAGATT
1 TCATATCATATCTAAGATT
* *
9613720 GCATATCATATTTAAGATT
1 TCATATCATATCTAAGATT
*
9613739 GCATATC
1 TCATATC
9613746 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.25
18 3 0.05
19 38 0.69
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (19 bp):
TCATATCATATCTAAGATT
Found at i:9613755 original size:17 final size:18
Alignment explanation
Indices: 9613695--9613755 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
9613685 TATCATATCT
*
9613695 AAGATTTCATATCACATCT-
1 AAGATTGCATATCA-AT-TA
*
9613714 AAGATTGCATATCATATTT
1 AAGATTGCATATCA-ATTA
*
9613733 AAGATTGCATATC-CTTA
1 AAGATTGCATATCAATTA
9613750 AAGATT
1 AAGATT
9613756 ATATTTCCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.22
18 1 0.03
19 28 0.76
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
AAGATTGCATATCAATTA
Found at i:9617423 original size:14 final size:14
Alignment explanation
Indices: 9617403--9617436 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9617393 AACTCAATCA
9617403 ATTTTTTTT-TTGT
1 ATTTTTTTTATTGT
9617416 ATTTTTTTTATTGT
1 ATTTTTTTTATTGT
*
9617430 GTTTTTT
1 ATTTTTT
9617437 AAAACAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (14 bp):
ATTTTTTTTATTGT
Found at i:9619447 original size:25 final size:24
Alignment explanation
Indices: 9619405--9619451 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
9619395 TTCTTTTTCC
*
9619405 TTTATCTTTTCTCTTTTTTGGTTCT
1 TTTATCTTTTCTC-ATTTTGGTTCT
9619430 TTTAT-TTTTCTTCATTTTGGTT
1 TTTATCTTTTC-TCATTTTGGTT
9619452 ACTGTCGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.06, C:0.13, G:0.09, T:0.72
Consensus pattern (24 bp):
TTTATCTTTTCTCATTTTGGTTCT
Found at i:9619877 original size:3 final size:3
Alignment explanation
Indices: 9619869--9619917 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
9619859 GTTAATTTGT
9619869 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9619916 TT
1 TT
9619918 TGGTTCTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9621075 original size:14 final size:14
Alignment explanation
Indices: 9621056--9621089 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9621046 TGAGTTGGTG
*
9621056 CATTTGCATTCATA
1 CATTTGCATACATA
*
9621070 CATTTGCATACATC
1 CATTTGCATACATA
9621084 CATTTG
1 CATTTG
9621090 TAAAAACCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (14 bp):
CATTTGCATACATA
Found at i:9624017 original size:29 final size:29
Alignment explanation
Indices: 9623984--9624055 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
9623974 TAAAGTACAT
*
9623984 AATAAAATAAAATAAAGCACAGAATTCTG
1 AATAAAATAAAATAAAGCACAAAATTCTG
*
9624013 AATAAAATAAAATAAAGCACAAAATTTTG
1 AATAAAATAAAATAAAGCACAAAATTCTG
9624042 -A-AAAATAAAATAAA
1 AATAAAATAAAATAAA
9624056 AAAATAACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 13 0.32
28 1 0.02
29 27 0.66
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (29 bp):
AATAAAATAAAATAAAGCACAAAATTCTG
Found at i:9624057 original size:6 final size:6
Alignment explanation
Indices: 9624042--9624120 Score: 67
Period size: 6 Copynumber: 13.5 Consensus size: 6
9624032 CAAAATTTTG
* * * *
9624042 AAAAAT AAAATAA AAAAAT AACAAG AAAAAT -AAAAG AAAAAT AAAAAT
1 AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
9624090 AAAAAT -AAAAT --AAAT AAAACAT AAAACT AAA
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAA
9624121 TAAAATTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
4 4 0.07
5 9 0.15
6 35 0.59
7 11 0.19
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:9624070 original size:12 final size:12
Alignment explanation
Indices: 9624041--9624099 Score: 75
Period size: 12 Copynumber: 4.9 Consensus size: 12
9624031 ACAAAATTTT
9624041 GAAAAATAAAATA
1 GAAAAATAAAA-A
* *
9624054 AAAAAATAACAA
1 GAAAAATAAAAA
9624066 GAAAAAT-AAAA
1 GAAAAATAAAAA
9624077 GAAAAATAAAAA
1 GAAAAATAAAAA
*
9624089 TAAAAATAAAA
1 GAAAAATAAAA
9624100 TAAATAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
11 10 0.25
12 21 0.52
13 9 0.22
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (12 bp):
GAAAAATAAAAA
Found at i:9624087 original size:17 final size:17
Alignment explanation
Indices: 9624043--9624120 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 17
9624033 AAAATTTTGA
*
9624043 AAAATAAAATAAAAAAAT
1 AAAATAAAA-ATAAAAAT
*
9624061 AACAAGAAAAATAAAAGA-
1 AA-AATAAAAATAAAA-AT
9624079 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
9624096 AAAAT--AAATAAAACAT
1 AAAATAAAAATAAAA-AT
9624112 AAAACTAAA
1 AAAA-TAAA
9624121 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
15 8 0.16
16 7 0.14
17 18 0.36
18 9 0.18
19 8 0.16
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:9624100 original size:11 final size:11
Alignment explanation
Indices: 9624042--9624125 Score: 73
Period size: 11 Copynumber: 7.4 Consensus size: 11
9624032 CAAAATTTTG
9624042 AAAAATAAAAT
1 AAAAATAAAAT
*
9624053 AAAAAAATAACAAG
1 --AAAAATAA-AAT
*
9624067 AAAAATAAAAG
1 AAAAATAAAAT
9624078 AAAAATAAAAAT
1 AAAAAT-AAAAT
9624090 AAAAATAAAAT
1 AAAAATAAAAT
*
9624101 AAATAA-AACAT
1 AAA-AATAAAAT
*
9624112 AAAACT-AAAT
1 AAAAATAAAAT
9624122 AAAA
1 AAAA
9624126 TTTAAATAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
10 8 0.13
11 24 0.39
12 20 0.32
13 8 0.13
14 2 0.03
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:9624131 original size:17 final size:15
Alignment explanation
Indices: 9624042--9624149 Score: 76
Period size: 15 Copynumber: 6.9 Consensus size: 15
9624032 CAAAATTTTG
*
9624042 AAAAATAAAATAAAA
1 AAAAATAAAATAAAT
*
9624057 AAATAACAAGAA-AAAT
1 AAA-AATAA-AATAAAT
9624073 AAAAGA-AAAATAAAAAT
1 AAAA-ATAAAAT--AAAT
9624090 AAAAATAAAATAAAT
1 AAAAATAAAATAAAT
9624105 AAAACATAAAACTAAAT
1 AAAA-ATAAAA-TAAAT
* * *
9624122 AAAATTTAAATAATT
1 AAAAATAAAATAAAT
* *
9624137 CAAAAGAAAATAA
1 AAAAATAAAATAA
9624150 CAAAAAAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
14 2 0.03
15 27 0.36
16 22 0.29
17 24 0.32
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:9627879 original size:9 final size:9
Alignment explanation
Indices: 9627851--9627884 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9627841 TGAGTTAAAT
9627851 TGAATTTTG
1 TGAATTTTG
* *
9627860 TGAACTATG
1 TGAATTTTG
9627869 TGAATTTTG
1 TGAATTTTG
9627878 TGAATTT
1 TGAATTT
9627885 ATGAAATAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (9 bp):
TGAATTTTG
Found at i:9628411 original size:47 final size:47
Alignment explanation
Indices: 9628343--9628472 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
9628333 GTGCAAATAA
* * * ** *
9628343 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTTTGAGAA-GAGC
1 TACCTTGATTTGGTTACGGGCCATGGTATAGGTA-CTCCAGAATAAGC
*
9628390 TACCTTGATTTGGTTACGGGCCATGGTATAGGTACTCCAGAATAAGT
1 TACCTTGATTTGGTTACGGGCCATGGTATAGGTACTCCAGAATAAGC
9628437 TACCTTGATTTGGTTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGTTACGGGCCATGGTATAGGTACT
9628473 TATCGATTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
46 5 0.07
47 70 0.93
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGTTACGGGCCATGGTATAGGTACTCCAGAATAAGC
Found at i:9635781 original size:29 final size:29
Alignment explanation
Indices: 9635739--9635796 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
9635729 CGTTTCGCGC
9635739 GCTTCACTTCCTCGGCTATCTTTACCTTA
1 GCTTCACTTCCTCGGCTATCTTTACCTTA
*
9635768 GCTTCACTTCCTCGGCTATCTTTGCCTTA
1 GCTTCACTTCCTCGGCTATCTTTACCTTA
9635797 TCAACTAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.12, C:0.34, G:0.12, T:0.41
Consensus pattern (29 bp):
GCTTCACTTCCTCGGCTATCTTTACCTTA
Found at i:9642606 original size:26 final size:26
Alignment explanation
Indices: 9642569--9642678 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
9642559 TGATACAAAT
* * *
9642569 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAAAGGGCTAGGTAAATGTTTCA
*
9642595 TGATAAAGGGTTAGGTAAATGTTTCA
1 TGATAAAGGGCTAGGTAAATGTTTCA
*
9642621 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAAAGGGCTAGGTAAATGTTTCA
*
9642647 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAAAGGGCTAGGTAAATGTTTCA
9642673 TGATAA
1 TGATAA
9642679 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATAAAGGGCTAGGTAAATGTTTCA
Found at i:9645912 original size:42 final size:42
Alignment explanation
Indices: 9645853--9645935 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
9645843 ACAGGGCCCA
* * * * * *
9645853 TGACATGGGCTTGTCTTATAGCTGTGTGAGGCATACGGCCTG
1 TGACACGGGCATGTCTTATACCCGTGTAAGGCACACGGCCTG
9645895 TGACACGGGCATGTCTTATACCCGTGTAAGGCACACGGCCT
1 TGACACGGGCATGTCTTATACCCGTGTAAGGCACACGGCCT
9645936 ATTCACACTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (42 bp):
TGACACGGGCATGTCTTATACCCGTGTAAGGCACACGGCCTG
Found at i:9650497 original size:25 final size:25
Alignment explanation
Indices: 9650459--9650564 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 25
9650449 TGATACAAAT
9650459 TGATAATGGTTAGGTAAATG-TTCA
1 TGATAATGGTTAGGTAAATGTTTCA
9650483 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
9650508 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTTCA
9650533 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
9650559 TGATAA
1 TGATAA
9650565 GAATCATGTC
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
24 20 0.25
25 35 0.44
26 24 0.30
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:9656322 original size:26 final size:26
Alignment explanation
Indices: 9656260--9656368 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
9656250 TGATACAAAT
9656260 TGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
9656285 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9656311 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9656337 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9656363 TGATAA
1 TGATAA
9656369 GAATTTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 20 0.25
26 59 0.75
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9660782 original size:25 final size:25
Alignment explanation
Indices: 9660746--9660797 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
9660736 AAGAATAATT
* *
9660746 TGAATATTTGATGTTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
9660771 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
9660796 TG
1 TG
9660798 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (25 bp):
TGAATATCTGATATTGCCTAATAAA
Found at i:9662531 original size:23 final size:23
Alignment explanation
Indices: 9662501--9662555 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
9662491 GGGTTTGCCG
9662501 ATCAGGCACTTTATGTGTAGTAT
1 ATCAGGCACTTTATGTGTAGTAT
*
9662524 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTAGTAT
* *
9662547 TTTAGGCAC
1 ATCAGGCAC
9662556 CTCGTGTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTAGTAT
Found at i:9662597 original size:21 final size:21
Alignment explanation
Indices: 9662523--9662610 Score: 52
Period size: 21 Copynumber: 4.1 Consensus size: 21
9662513 ATGTGTAGTA
* **
9662523 TATCAGGCACTTTATGTGTCG
1 TATCAGGCACCTCGTGTGTCG
*
9662544 TATTTTAGGCACCTCGTGTGTCG
1 TA--TCAGGCACCTCGTGTGTCG
* * * *
9662567 TATCAAGCACCTTGTGTTTTG
1 TATCAGGCACCTCGTGTGTCG
* **
9662588 TTTCAGGCA-CTTTTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
9662608 TAT
1 TAT
9662611 ACTGATCAGG
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
20 10 0.20
21 23 0.46
23 17 0.34
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (21 bp):
TATCAGGCACCTCGTGTGTCG
Found at i:9672209 original size:31 final size:31
Alignment explanation
Indices: 9672149--9672210 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
9672139 CACGGGCGTT
* * * *
9672149 GGAGAAGCGAATGATCGTAGACATAGCTGTG
1 GGAGAAGAGAACGATCGTACACACAGCTGTG
*
9672180 GGAGAAGAGAACGATCGTACACACGGCTGTG
1 GGAGAAGAGAACGATCGTACACACAGCTGTG
9672211 CGATGCGACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (31 bp):
GGAGAAGAGAACGATCGTACACACAGCTGTG
Found at i:9678816 original size:28 final size:28
Alignment explanation
Indices: 9678776--9678854 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
9678766 GCAATCAAAT
* * *
9678776 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
9678804 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
9678832 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
9678855 CAAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:9679067 original size:43 final size:43
Alignment explanation
Indices: 9678966--9679094 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 43
9678956 TTTATAATGG
* * * *
9678966 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
9679011 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
9679054 TGATATCGGGCTTCAAGCCTAGTAGGC-AAAATGCCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
9679095 TGAGTTCAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 13 0.18
43 24 0.33
44 26 0.36
45 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:9680204 original size:27 final size:27
Alignment explanation
Indices: 9680174--9680314 Score: 155
Period size: 27 Copynumber: 5.2 Consensus size: 27
9680164 GTGATGAAGT
9680174 CACCAGATACAGTTATTGTGGCAGAGC
1 CACCAGATACAGTTATTGTGGCAGAGC
*
9680201 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGTTAT-TGTGGCAGAGC
* *
9680228 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAG-TTATTGTGGCAGAGC
* *
9680255 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGTTAT-TGTGGCAGAGC
* *
9680282 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAG-TTATTGTGGCAGAGC
9680309 CACCAG
1 CACCAG
9680315 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
26 9 0.09
27 82 0.86
28 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGTTATTGTGGCAGAGC
Found at i:9680315 original size:54 final size:54
Alignment explanation
Indices: 9680174--9680317 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
9680164 GTGATGAAGT
* * *
9680174 CACCAGATACAG-TTATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
9680228 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
9680282 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
9680318 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 3 0.03
54 83 0.97
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:9681972 original size:26 final size:26
Alignment explanation
Indices: 9681934--9682017 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
9681924 CATGAAATTC
* *
9681934 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
9681960 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
9681986 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
9682012 TTATCA
1 TTATCA
9682018 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:9684994 original size:19 final size:19
Alignment explanation
Indices: 9684970--9685011 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
9684960 TGTTGAAGGC
9684970 CATTTGTAATATGCAAAGT
1 CATTTGTAATATGCAAAGT
9684989 CATTTGTAATATGCAAAGT
1 CATTTGTAATATGCAAAGT
9685008 CATT
1 CATT
9685012 GTTAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
CATTTGTAATATGCAAAGT
Found at i:9685350 original size:18 final size:19
Alignment explanation
Indices: 9685311--9685375 Score: 96
Period size: 19 Copynumber: 3.5 Consensus size: 19
9685301 ATAGAAATAT
*
9685311 AATCTTAGATGTGATATGC
1 AATCTTAGATATGATATGC
9685330 AATCTTAGATATGAT-TGC
1 AATCTTAGATATGATATGC
*
9685348 AATCTTAGATATGATATAC
1 AATCTTAGATATGATATGC
*
9685367 AATTTTAGA
1 AATCTTAGA
9685376 AGATATGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
18 18 0.43
19 24 0.57
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (19 bp):
AATCTTAGATATGATATGC
Found at i:9690499 original size:28 final size:28
Alignment explanation
Indices: 9690438--9690506 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
9690428 TATGGTACTC
*
9690438 AGTGTACGAAATAATGAGAATGACACTT
1 AGTGTGCGAAATAATGAGAATGACACTT
* *
9690466 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATAATGAGAATGACACTT
*
9690494 AGTGTGCAAAATA
1 AGTGTGCGAAATA
9690507 TCAAATGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (28 bp):
AGTGTGCGAAATAATGAGAATGACACTT
Found at i:9690720 original size:43 final size:43
Alignment explanation
Indices: 9690619--9690747 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
9690609 TTTATAATGG
* * * *
9690619 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
9690664 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
9690707 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
9690748 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 12 0.16
43 26 0.36
44 26 0.36
45 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:9690770 original size:41 final size:40
Alignment explanation
Indices: 9690680--9690827 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 40
9690670 CGGGCTTCGG
*
9690680 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAT-TCGGGCTTAAA
* * *
9690723 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGA-TTCGGGCTTAAA
* *** *
9690764 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATG-ATTCGGGCTTAAA
*
9690804 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
9690828 TTTGATAAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
40 30 0.35
41 32 0.38
42 11 0.13
43 12 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (40 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGATTCGGGCTTAAA
Found at i:9690828 original size:40 final size:41
Alignment explanation
Indices: 9690680--9690827 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 41
9690670 CGGGCTTCGG
*
9690680 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * *
9690723 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
9690764 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
9690804 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
9690828 TTTGATAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 31 0.37
41 30 0.36
42 11 0.13
43 12 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:9692398 original size:39 final size:39
Alignment explanation
Indices: 9692339--9692425 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
9692329 GATTCCAAGC
* *
9692339 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGAACCTTAAGT
* *
9692378 CCGGATATAATTTCAGCACATAGCTTGCGAACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGAACCTTAAGT
*
9692417 CTGGATATA
1 CCGGATATA
9692426 CATCACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGAACCTTAAGT
Found at i:9702051 original size:25 final size:25
Alignment explanation
Indices: 9702022--9702073 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
9702012 AAGAATAATT
*
9702022 TGAATATTTGATATTGCCTAATAAA
1 TGAATATATGATATTGCCTAATAAA
* *
9702047 TGAATATATGATATTGCTTAGTAAA
1 TGAATATATGATATTGCCTAATAAA
9702072 TG
1 TG
9702074 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (25 bp):
TGAATATATGATATTGCCTAATAAA
Found at i:9702718 original size:10 final size:10
Alignment explanation
Indices: 9702703--9702730 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9702693 ATATTACATG
9702703 TTTACTTTGT
1 TTTACTTTGT
9702713 TTTACTTTGT
1 TTTACTTTGT
9702723 TTTACTTT
1 TTTACTTT
9702731 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:9707335 original size:2 final size:2
Alignment explanation
Indices: 9707330--9707393 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
9707320 ACATAACTGA
9707330 AT AT AT AT AT AT 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
9707372 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
9707394 CTCAATATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9709755 original size:17 final size:17
Alignment explanation
Indices: 9709733--9709772 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
9709723 CAATAACATA
9709733 ATTTAATAATATAAAAT
1 ATTTAATAATATAAAAT
9709750 ATTTAATAATATAAAAT
1 ATTTAATAATATAAAAT
9709767 ATTTAA
1 ATTTAA
9709773 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAATAATATAAAAT
Found at i:9713168 original size:19 final size:18
Alignment explanation
Indices: 9713145--9713186 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
9713135 ATTTAGCCAA
9713145 TTTTTATTTTTATTTTAAT
1 TTTTTATTTTTA-TTTAAT
*
9713164 ATTTTTGTTTTTATTTAAT
1 -TTTTTATTTTTATTTAAT
9713183 TTTT
1 TTTT
9713187 ACATTCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTTATTTAAT
Found at i:9716018 original size:2 final size:2
Alignment explanation
Indices: 9716011--9716037 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9716001 ATGCTCTTTA
9716011 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9716038 ATTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9718272 original size:15 final size:15
Alignment explanation
Indices: 9718252--9718305 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
9718242 ATCATTAAGA
9718252 TTAATTAAATAAATT
1 TTAATTAAATAAATT
* *
9718267 TTAATTAAGTAAATA
1 TTAATTAAATAAATT
* * * *
9718282 TTGACTAATTAATTT
1 TTAATTAAATAAATT
9718297 TTAATTAAA
1 TTAATTAAA
9718306 GTATAAAAGG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (15 bp):
TTAATTAAATAAATT
Found at i:9726087 original size:26 final size:26
Alignment explanation
Indices: 9726051--9726186 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
9726041 ACATGAATTC
9726051 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9726077 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9726103 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9726129 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9726155 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9726181 TTATCA
1 TTATCA
9726187 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9726896 original size:46 final size:46
Alignment explanation
Indices: 9726831--9727009 Score: 234
Period size: 46 Copynumber: 3.9 Consensus size: 46
9726821 TTATCTTTGA
* * * * *
9726831 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
** *
9726877 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *
9726923 CACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
9726969 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
9727010 TATATCAGAG
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 114 0.97
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:9727009 original size:92 final size:92
Alignment explanation
Indices: 9726836--9727009 Score: 260
Period size: 92 Copynumber: 1.9 Consensus size: 92
9726826 TTTGACATGA
* * * * *
9726836 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
**
9726901 CATGGTCTTATTCATTTCATGCCACGC
66 CATGGTCTTACACATTTCATGCCACGC
*
9726928 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTATCTTTCAA
9726992 CCATGGTCTTACACATTT
65 CCATGGTCTTACACATTT
9727010 TATATCAGAG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 4 0.05
92 69 0.95
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATGCCACGC
Found at i:9729284 original size:24 final size:24
Alignment explanation
Indices: 9729257--9729307 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
9729247 GTATTACAAA
*
9729257 TGTATGTATT-TTTATCTATACACT
1 TGTATATATTATTTA-CTATACACT
* *
9729281 TGTATATTTTATTTACTATACATT
1 TGTATATATTATTTACTATACACT
9729305 TGT
1 TGT
9729308 CTTTATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (24 bp):
TGTATATATTATTTACTATACACT
Found at i:9729381 original size:34 final size:37
Alignment explanation
Indices: 9729334--9729401 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 37
9729324 TTATCATATA
9729334 AATATCTTATATTA-TAAT-TATA-ATAAATTAATTT
1 AATATCTTATATTACTAATATATATATAAATTAATTT
*
9729368 AATATCATT-TATTACTAATATATATATTAATTAA
1 AATATC-TTATATTACTAATATATATATAAATTAA
9729402 AATCTAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 11 0.38
35 6 0.21
36 4 0.14
37 8 0.28
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (37 bp):
AATATCTTATATTACTAATATATATATAAATTAATTT
Found at i:9732379 original size:6 final size:6
Alignment explanation
Indices: 9732329--9732362 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
9732319 TTATATTTTG
9732329 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
9732363 ATAATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:9733025 original size:21 final size:21
Alignment explanation
Indices: 9732986--9733027 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9732976 AGTCGAATCG
*
9732986 TCACCTTTACCAGTCCCATCT
1 TCACCTTTACAAGTCCCATCT
9733007 TCACCTTTA-AAGTCGCCATCT
1 TCACCTTTACAAGTC-CCATCT
9733028 GTTTCTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.21, C:0.38, G:0.07, T:0.33
Consensus pattern (21 bp):
TCACCTTTACAAGTCCCATCT
Found at i:9739895 original size:13 final size:13
Alignment explanation
Indices: 9739873--9739915 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
9739863 AATTCTATTT
* *
9739873 ATTTATATTTTGA
1 ATTTAAATTTTAA
9739886 ATTTAAA-TTTAA
1 ATTTAAATTTTAA
9739898 ATTTAAA-TTTAA
1 ATTTAAATTTTAA
9739910 ATTTAA
1 ATTTAA
9739916 TATATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 22 0.79
13 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
ATTTAAATTTTAA
Found at i:9739914 original size:6 final size:6
Alignment explanation
Indices: 9739885--9739915 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9739875 TTATATTTTG
9739885 AATTTA AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA AATTTA A
9739916 TATATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:9740385 original size:2 final size:2
Alignment explanation
Indices: 9740374--9740406 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9740364 TTACATAAAC
9740374 AT AT -T 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
9740407 CAATCTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9742643 original size:11 final size:11
Alignment explanation
Indices: 9742607--9742662 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
9742597 CATGGTATGT
9742607 ATGATATGCAC
1 ATGATATGCAC
* *
9742618 ATGACATG--T
1 ATGATATGCAC
9742627 ATGATATGCAC
1 ATGATATGCAC
*
9742638 ATGATATG--T
1 ATGATATGCAC
9742647 ATGATATGCAC
1 ATGATATGCAC
9742658 ATGAT
1 ATGAT
9742663 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:9742662 original size:20 final size:20
Alignment explanation
Indices: 9742596--9742662 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
9742586 ATTTTGATAA
*
9742596 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
9742616 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
9742636 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
9742656 ACATGAT
1 ACATGAT
9742663 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9742745 original size:23 final size:23
Alignment explanation
Indices: 9742713--9742855 Score: 187
Period size: 23 Copynumber: 6.1 Consensus size: 23
9742703 AGGAAGTGAA
* *
9742713 AAAGGGCTTACGCCCCGGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
9742736 AAAGGTCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
9742760 AAAGGGCTTATGCCCCGGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
9742783 AAAGGTCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
9742806 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
9742829 AAAAGGGATTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
9742853 AAA
1 AAA
9742856 AGAGGCTAGG
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
23 63 0.61
24 41 0.39
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:9742766 original size:47 final size:46
Alignment explanation
Indices: 9742712--9742862 Score: 203
Period size: 47 Copynumber: 3.2 Consensus size: 46
9742702 GAGGAAGTGA
*
9742712 AAAAGGGCTTACGCCCCGGTTATTAAAGGTCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCGGTTATTAAAGGTCTTATGCCCCAGTTAT
*
9742758 CAAAAGGGCTTATGCCCCGGTTATTAAAGGTCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCGGTTATTAAAGGTCTTATGCCCCAGTTAT
* * ** *
9742805 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGATTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCGGTTATT-AAAGGTCTTATGCCCCAGTTA-T
9742853 AAAAGAGGCT
1 AAAAG-GGCT
9742863 AGGCCTCCAG
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
46 22 0.24
47 61 0.66
48 5 0.05
49 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCGGTTATTAAAGGTCTTATGCCCCAGTTAT
Found at i:9742826 original size:70 final size:70
Alignment explanation
Indices: 9742713--9742855 Score: 223
Period size: 70 Copynumber: 2.0 Consensus size: 70
9742703 AGGAAGTGAA
* * * *
9742713 AAAGGGCTTACGCCCCGGTTATTAAAGGTCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCGG
1 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCAG
9742778 TTATT
66 TTATT
* * *
9742783 AAAGGTCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGATTTTGCCCCAG
1 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCAG
9742848 TTATT
66 TTATT
9742853 AAA
1 AAA
9742856 AGAGGCTAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (70 bp):
AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCAG
TTATT
Found at i:9743104 original size:31 final size:31
Alignment explanation
Indices: 9743069--9743132 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
9743059 CATTTACAGT
* *
9743069 AAAGGCTTTGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
9743100 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
9743131 AA
1 AA
9743133 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:9746593 original size:33 final size:32
Alignment explanation
Indices: 9746474--9746599 Score: 162
Period size: 32 Copynumber: 3.9 Consensus size: 32
9746464 TTTCTGAGTG
* **
9746474 GTACACACAAAGTATACCTTTCCTTTTCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAGT
*
9746506 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAGT
* *
9746538 GTACACACAAAGTGTACATAACCTTTTCATGT
1 GTACACACAAAGTATACATAACCTTTTCAAGT
* * *
9746570 GGTATACACAAGGTATACTTAACCTTTTCA
1 -GTACACACAAAGTATACATAACCTTTTCA
9746600 CATTCGATAG
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 59 0.70
33 25 0.30
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (32 bp):
GTACACACAAAGTATACATAACCTTTTCAAGT
Found at i:9746667 original size:29 final size:29
Alignment explanation
Indices: 9746592--9746806 Score: 340
Period size: 29 Copynumber: 7.4 Consensus size: 29
9746582 GTATACTTAA
9746592 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * *
9746621 CCTTTTTTACATTTGATAGTCGAAGCTATC
1 CC-TTTTCACATTCGATAGCCGAAGCTATC
* *
9746651 CCTTTTCACATTCGATAGCTGAAGCTATT
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9746680 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9746709 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
9746738 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9746767 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9746796 CATTTTCACAT
1 CCTTTTCACAT
9746807 GGTACACACA
Statistics
Matches: 171, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
29 145 0.85
30 26 0.15
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:9750666 original size:6 final size:6
Alignment explanation
Indices: 9750616--9750649 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
9750606 TTATATTTTG
9750616 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
9750650 ATAATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:9751179 original size:31 final size:31
Alignment explanation
Indices: 9751136--9751204 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
9751126 AATCTTTTAA
9751136 TAAAAA-AGATAACAAGTAATAAAAAACTAT
1 TAAAAAGAGATAACAAGTAATAAAAAACTAT
* *
9751166 TAAAAAGAGATAACAATTAATAAGAAACTAT
1 TAAAAAGAGATAACAAGTAATAAAAAACTAT
9751197 TAAAAAGA
1 TAAAAAGA
9751205 AAAAGTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 6 0.17
31 30 0.83
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.20
Consensus pattern (31 bp):
TAAAAAGAGATAACAAGTAATAAAAAACTAT
Found at i:9751190 original size:17 final size:17
Alignment explanation
Indices: 9751142--9751190 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
9751132 TTAATAAAAA
*
9751142 AGATAACAAGTAATAA-
1 AGATAACAATTAATAAG
* *
9751158 A-A-AACTATTAAAAAG
1 AGATAACAATTAATAAG
9751173 AGATAACAATTAATAAG
1 AGATAACAATTAATAAG
9751190 A
1 A
9751191 AACTATTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
14 9 0.36
15 2 0.08
16 2 0.08
17 12 0.48
ACGTcount: A:0.63, C:0.06, G:0.10, T:0.20
Consensus pattern (17 bp):
AGATAACAATTAATAAG
Found at i:9751204 original size:14 final size:14
Alignment explanation
Indices: 9751159--9751206 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
9751149 AAGTAATAAA
9751159 AAACTATTAAAAAGAG
1 AAACTATT-AAAA-AG
* *
9751175 ATAACAATTAATAAG
1 A-AACTATTAAAAAG
9751190 AAACTATTAAAAAG
1 AAACTATTAAAAAG
9751204 AAA
1 AAA
9751207 AAGTGAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 14 0.52
15 3 0.11
16 4 0.15
17 6 0.22
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (14 bp):
AAACTATTAAAAAG
Found at i:9752918 original size:26 final size:26
Alignment explanation
Indices: 9752881--9752964 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
9752871 TGATACAAAT
* *
9752881 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
9752907 TGATAATGGGTTTGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9752933 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9752959 TGATAA
1 TGATAA
9752965 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9755749 original size:23 final size:23
Alignment explanation
Indices: 9755702--9755749 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9755692 TGATCACATC
*
9755702 ATTGGCAACATCGTCTACATCTT
1 ATTGGCAACATCGTCTACATATT
*
9755725 ATTGGCAAC-TTGTCTACATTATT
1 ATTGGCAACATCGTCTACA-TATT
9755748 AT
1 AT
9755750 AGGTTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (23 bp):
ATTGGCAACATCGTCTACATATT
Found at i:9758056 original size:27 final size:28
Alignment explanation
Indices: 9758019--9758158 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
9758009 AGCATGGCTG
* *
9758019 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
9758045 CCAGATACAGATA-ATCGTGGCAGGGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
9758073 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
9758100 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
9758127 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
9758154 CCAGA
1 CCAGA
9758159 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 83 0.80
28 16 0.15
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:9759813 original size:26 final size:26
Alignment explanation
Indices: 9759777--9759886 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
9759767 CATGAAATTC
9759777 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9759803 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9759829 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
9759855 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9759881 TTATCA
1 TTATCA
9759887 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9760830 original size:6 final size:6
Alignment explanation
Indices: 9760807--9760831 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9760797 TTATATTTTG
9760807 AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA A
9760832 TATATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:9764346 original size:32 final size:32
Alignment explanation
Indices: 9764310--9764435 Score: 162
Period size: 32 Copynumber: 3.9 Consensus size: 32
9764300 TTTCTGAGTG
* **
9764310 GTACACACAAAGTATACCTTTCCTTTTCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAGT
*
9764342 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAGT
* * *
9764374 GTACACACAAAGTGTGCATAACCTTTTCATGT
1 GTACACACAAAGTATACATAACCTTTTCAAGT
* *
9764406 GGTATACACAAAGTATACTTAACCTTTTCA
1 -GTACACACAAAGTATACATAACCTTTTCA
9764436 CATTCGATAG
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
32 58 0.70
33 25 0.30
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (32 bp):
GTACACACAAAGTATACATAACCTTTTCAAGT
Found at i:9764470 original size:29 final size:29
Alignment explanation
Indices: 9764428--9764612 Score: 307
Period size: 29 Copynumber: 6.4 Consensus size: 29
9764418 GTATACTTAA
*
9764428 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9764457 CCTTTTTACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
9764486 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
9764515 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9764544 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9764573 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9764602 CATTTTCACAT
1 CCTTTTCACAT
9764613 GGTACACACA
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 147 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:9768573 original size:19 final size:19
Alignment explanation
Indices: 9768548--9768638 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
9768538 ATAATCTTCA
9768548 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9768567 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9768586 ATGATA--CAATCTTACAT
1 ATGATATGCAATCTTAGAT
9768603 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9768621 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
9768639 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 34 0.53
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9768617 original size:35 final size:37
Alignment explanation
Indices: 9768556--9768636 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
9768546 CAATGATATG
* *
9768556 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTACATATGATATGCAATCTTAGATATGAATA
9768592 CAATCTTACATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTACATATGATATGCAATCTTAGATATGA-ATA
9768629 CAATCTTA
1 CAATCTTA
9768637 GAAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 16 0.39
36 14 0.34
37 11 0.27
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (37 bp):
CAATCTTACATATGATATGCAATCTTAGATATGAATA
Found at i:9769147 original size:18 final size:17
Alignment explanation
Indices: 9769123--9769182 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
9769113 CCAATATACT
9769123 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
9769140 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
9769156 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
9769174 TTATATTTT
1 TTATATTTT
9769183 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:9769167 original size:15 final size:16
Alignment explanation
Indices: 9769124--9769182 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
9769114 CAATATACTT
9769124 TATATTTTTTATATAA
1 TATATTTTTTATATAA
9769140 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
9769156 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
9769174 TTATATTTT
1 -TATATTTT
9769183 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:9775162 original size:15 final size:14
Alignment explanation
Indices: 9775110--9775177 Score: 61
Period size: 15 Copynumber: 4.8 Consensus size: 14
9775100 CTTCTATTTC
9775110 AAAA-AAAAAA-AA
1 AAAAGAAAAAAGAA
*
9775122 AAAAGAAAAGAGAA
1 AAAAGAAAAAAGAA
9775136 GGAGAAA-AAAAAAGAA
1 --A-AAAGAAAAAAGAA
*
9775152 AAAAGAGAAAAAGTA
1 AAAAGA-AAAAAGAA
9775167 AAAAGAAAAAA
1 AAAAGAAAAAA
9775178 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 4 0.09
13 8 0.17
14 9 0.20
15 13 0.28
16 9 0.20
17 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:9775169 original size:25 final size:26
Alignment explanation
Indices: 9775110--9775177 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
9775100 CTTCTATTTC
9775110 AAAA-AAAAAAAAAAAAGAAAAGAGA
1 AAAAGAAAAAAAAAAAAGAAAAGAGA
** *
9775135 AGGAGAAAAAAAAAGAA-AAAAGAGA
1 AAAAGAAAAAAAAAAAAGAAAAGAGA
*
9775160 AAAAGTAAAAAGAAAAAA
1 AAAAG-AAAAAAAAAAAA
9775178 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (26 bp):
AAAAGAAAAAAAAAAAAGAAAAGAGA
Found at i:9775176 original size:7 final size:7
Alignment explanation
Indices: 9775110--9775177 Score: 61
Period size: 7 Copynumber: 9.6 Consensus size: 7
9775100 CTTCTATTTC
9775110 AAAA-AA
1 AAAAGAA
9775116 AAAA-AA
1 AAAAGAA
9775122 AAAAGAA
1 AAAAGAA
*
9775129 AAGAGAA
1 AAAAGAA
9775136 GGAGAAA-AA
1 --A-AAAGAA
9775145 AAAAGAA
1 AAAAGAA
9775152 AAAAGAGA
1 AAAAGA-A
*
9775160 AAAAGTA
1 AAAAGAA
9775167 AAAAGAA
1 AAAAGAA
9775174 AAAA
1 AAAA
9775178 TGGAGAGGCC
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
6 13 0.25
7 28 0.54
8 6 0.12
9 3 0.06
10 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (7 bp):
AAAAGAA
Found at i:9776293 original size:119 final size:119
Alignment explanation
Indices: 9776082--9776880 Score: 1287
Period size: 119 Copynumber: 6.8 Consensus size: 119
9776072 TAGGCCGTAG
* *
9776082 CATAGCAGATTGGACTCTCAGACGTTCTCAGCTATAGCAGATCTAACCTTCAGATGTTTATACTG
1 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
9776147 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
66 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
* * * * *
9776201 CATAGTAGATTTGGCTCTCAGATGTTCTCAGATATAGTAGATCTAACCTTCAGATGTTTAGACTG
1 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
*
9776266 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGA
66 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
*
9776320 CATAGCAGATTTGACTCTCAGACATTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
1 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
9776385 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
66 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
* *
9776439 CATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATCTAATCTTCAGATGTTTATACTG
1 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
*
9776504 AAGCAGATCCAAGATGATTTGATATTCTTGTGTTTACAAGGAAA-AAATCGAGGA
66 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAA-GAAACAAATCGAGGA
9776558 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
1 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
*
9776623 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGA
66 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
* * *
9776677 CATAGCACA--T---T-T--GAC--TCTCAGATATAGTAGATCTAGCCTTCAGATGTTTATACTG
1 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
* * * * *
9776732 AAGAAAATCCAAGAAGATTTGGTATTCTTGTGTTTACAAGGAACAAATCAAGGA
66 AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
* * *
9776786 CATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATCTAGCCTTCAGATGTTTATACTA
1 CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
*
9776851 AAGCAGATCCAAGATGATTTGGCATTCTTG
66 AAGCAGATCCAAGATGATTTGGTATTCTTG
9776881 CAAGGACATA
Statistics
Matches: 630, Mismatches: 38, Indels: 24
0.91 0.05 0.03
Matches are distributed among these distances:
109 96 0.15
111 4 0.01
113 1 0.00
114 2 0.00
115 1 0.00
117 3 0.00
118 3 0.00
119 516 0.82
120 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (119 bp):
CATAGCAGATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTG
AAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGA
Found at i:9776774 original size:109 final size:111
Alignment explanation
Indices: 9776583--9776880 Score: 429
Period size: 109 Copynumber: 2.6 Consensus size: 111
9776573 TCTCAGACGT
*
9776583 TCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
1 TCTCAGATATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
*
9776648 TCTTGTGTTTACAAGGAACAAATCGAGGACATAGCACATTTGA-C-
66 TCTTGTGTTTACAAGGAACAAATCAAGGACATAGCACATTTGACCA
* * * *
9776692 TCTCAGATATAGTAGATCTAGCCTTCAGATGTTTATACTGAAGAAAATCCAAGAAGATTTGGTAT
1 TCTCAGATATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
*
9776757 TCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGA
66 TCTTGTGTTTACAAGGAACAAATCAAGGACATAGCACATTTGA--C-C--A
*
9776808 TGTTCTCAGATATAGCAGATCTAGCCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGG
1 ---TCTCAGATATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGG
*
9776873 CATTCTTG
63 TATTCTTG
9776881 CAAGGACATA
Statistics
Matches: 166, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
109 101 0.61
113 1 0.01
119 64 0.39
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (111 bp):
TCTCAGATATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
TCTTGTGTTTACAAGGAACAAATCAAGGACATAGCACATTTGACCA
Found at i:9778725 original size:26 final size:27
Alignment explanation
Indices: 9778691--9778784 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 27
9778681 CATGATATAC
*
9778691 ATAACATATAA-AAAAATAATATAAAA
1 ATAAAATATAATAAAAATAATATAAAA
* *
9778717 ATAAAATATAATAAAGAT--TAT-ATA
1 ATAAAATATAATAAAAATAATATAAAA
* * *
9778741 ATAAAATGTAATATAAATATATGAGAAAA
1 ATAAAATATAATAAAAATA-AT-ATAAAA
9778770 ATAATAGATATAATA
1 ATAA-A-ATATAATA
9778785 TAAAGTAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
24 17 0.33
25 3 0.06
26 10 0.20
27 6 0.12
28 1 0.02
29 6 0.12
30 1 0.02
31 7 0.14
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (27 bp):
ATAAAATATAATAAAAATAATATAAAA
Found at i:9778835 original size:26 final size:25
Alignment explanation
Indices: 9778749--9778856 Score: 75
Period size: 26 Copynumber: 4.3 Consensus size: 25
9778739 TAATAAAATG
9778749 TAATATAAATATATG-AGAAAA-ATAA
1 TAATAT-AATATATGTA-AAAATATAA
* *
9778774 TAGATATAATATAAAGT-AACATATAA
1 TA-ATATAATAT-ATGTAAAAATATAA
*
9778800 -AACA-ATATATATGTAAATAAT-TAA
1 TAATATA-ATATATGTAAA-AATATAA
*
9778824 TGAATATAATATATGTGAAAATATAA
1 T-AATATAATATATGTAAAAATATAA
9778850 TAATATA
1 TAATATA
9778857 TAAAAGAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
23 4 0.06
24 11 0.17
25 22 0.34
26 27 0.42
27 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.32
Consensus pattern (25 bp):
TAATATAATATATGTAAAAATATAA
Found at i:9778930 original size:20 final size:20
Alignment explanation
Indices: 9778894--9778933 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9778884 GGAAAATAAC
*
9778894 ATATATAATAAGTAATAATA
1 ATATATAATAAGAAATAATA
9778914 ATATATAATCAA-AAATAATA
1 ATATATAAT-AAGAAATAATA
9778934 CTCATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
ATATATAATAAGAAATAATA
Found at i:9780528 original size:29 final size:29
Alignment explanation
Indices: 9780494--9780625 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
9780484 TAATCGATCA
*
9780494 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
9780523 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
9780552 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
9780581 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
9780610 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
9780626 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:9784296 original size:119 final size:119
Alignment explanation
Indices: 9783586--9784268 Score: 1161
Period size: 119 Copynumber: 5.7 Consensus size: 119
9783576 CTTGAGTCTG
* * * * * * *
9783586 TTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
* *
9783651 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTTAGATCTGCTATT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* * *
9783705 TTTGAGAATGTCTGAGAGTCAAATTTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
* *
9783770 CAAATCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* * * *
9783824 TTTG-GAAATGTCCGAGAGTCAAATCTGCTATGTCCTCTATTTGTTTCTTGTAAACACAAGAATA
1 TTTGAG-AACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATA
9783888 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
9783943 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
9784008 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
*
9784062 TTTGAGAACGTCTGAGAGTCAAATATGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
9784127 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* *
9784181 TTTGAGAACGTCTGAGAGTCAAATATGCTATGTCCTTGACTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
9784246 CAAATCATCTTGGATCTGCTTCA
66 CAAATCATCTTGGATCTGCTTCA
9784269 TCATAAATGT
Statistics
Matches: 540, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
118 1 0.00
119 538 1.00
120 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
Found at i:9796300 original size:26 final size:27
Alignment explanation
Indices: 9796266--9796359 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 27
9796256 CATGATATAC
*
9796266 ATAACATATAA-AAAAATAATATAAAA
1 ATAAAATATAATAAAAATAATATAAAA
* *
9796292 ATAAAATATAATAAAGAT--TAT-ATA
1 ATAAAATATAATAAAAATAATATAAAA
* * *
9796316 ATAAAATGTAATATAAATATATGAGAAAA
1 ATAAAATATAATAAAAATA-AT-ATAAAA
9796345 ATAATAGATATAATA
1 ATAA-A-ATATAATA
9796360 TAAAGTAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
24 17 0.33
25 3 0.06
26 10 0.20
27 6 0.12
28 1 0.02
29 6 0.12
30 1 0.02
31 7 0.14
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (27 bp):
ATAAAATATAATAAAAATAATATAAAA
Found at i:9796410 original size:26 final size:25
Alignment explanation
Indices: 9796324--9796431 Score: 75
Period size: 26 Copynumber: 4.3 Consensus size: 25
9796314 TAATAAAATG
9796324 TAATATAAATATATG-AGAAAA-ATAA
1 TAATAT-AATATATGTA-AAAATATAA
* *
9796349 TAGATATAATATAAAGT-AACATATAA
1 TA-ATATAATAT-ATGTAAAAATATAA
*
9796375 -AACA-ATATATATGTAAATAAT-TAA
1 TAATATA-ATATATGTAAA-AATATAA
*
9796399 TGAATATAATATATGTGAAAATATAA
1 T-AATATAATATATGTAAAAATATAA
9796425 TAATATA
1 TAATATA
9796432 TAAAAGAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
23 4 0.06
24 11 0.17
25 22 0.34
26 27 0.42
27 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.32
Consensus pattern (25 bp):
TAATATAATATATGTAAAAATATAA
Done.