Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 100 of 320
Found at i:32080300 original size:42 final size:42
Alignment explanation
Indices: 32080241--32080327 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
32080231 GAGTAAAGGA
32080241 CAAAGAAAATGGGAGAGCAAAAAGAGAATATATTTTATTCAT
1 CAAAGAAAATGGGAGAGCAAAAAGAGAATATATTTTATTCAT
32080283 CAAAGAAAATGGGAGAGCAAAAAGAGAATATATTTTATTCAT
1 CAAAGAAAATGGGAGAGCAAAAAGAGAATATATTTTATTCAT
32080325 CAA
1 CAA
32080328 TCGGAATAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.23
Consensus pattern (42 bp):
CAAAGAAAATGGGAGAGCAAAAAGAGAATATATTTTATTCAT
Found at i:32083109 original size:21 final size:21
Alignment explanation
Indices: 32083085--32083127 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
32083075 CATATAGTAA
32083085 TTCAATCATAT-AACATTTCAT
1 TTCAATCAT-TCAACATTTCAT
* *
32083106 TTCACTTATTCAACATTTCAT
1 TTCAATCATTCAACATTTCAT
32083127 T
1 T
32083128 ATCATTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCAATCATTCAACATTTCAT
Found at i:32085200 original size:27 final size:26
Alignment explanation
Indices: 32085183--32085252 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
32085173 ATATTAAGTC
32085183 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
32085210 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
32085238 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
32085253 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:32085246 original size:28 final size:28
Alignment explanation
Indices: 32085183--32085280 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
32085173 ATATTAAGTC
*
32085183 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32085210 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32085238 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
32085267 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32085281 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32085744 original size:12 final size:12
Alignment explanation
Indices: 32085727--32085753 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32085717 TGGGCATACT
32085727 TATGTATATATA
1 TATGTATATATA
32085739 TATGTATATATA
1 TATGTATATATA
32085751 TAT
1 TAT
32085754 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:32093163 original size:27 final size:26
Alignment explanation
Indices: 32093146--32093215 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
32093136 ATATTAAGTC
32093146 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
32093173 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
32093201 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
32093216 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:32093209 original size:28 final size:28
Alignment explanation
Indices: 32093146--32093243 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
32093136 ATATTAAGTC
*
32093146 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32093173 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32093201 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
32093230 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32093244 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32096927 original size:15 final size:16
Alignment explanation
Indices: 32096900--32096929 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32096890 AGAGTATGAG
32096900 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
32096916 ATATGA-AATGTATA
1 ATATGAGAATGTATA
32096930 ATCTTTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:32100617 original size:28 final size:27
Alignment explanation
Indices: 32100568--32100641 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
32100558 CGACAAAATG
* *
32100568 TGGCACTTAGTTTACGAAATATTGAGAA
1 TGGCACTTAGTGTGC-AAATATTGAGAA
32100596 TGGCACTTAGTGTGCAAGATATTGAGAA
1 TGGCACTTAGTGTGCAA-ATATTGAGAA
* *
32100624 TGACACTTCGTGTGCAAA
1 TGGCACTTAGTGTGCAAA
32100642 ATATCGAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (27 bp):
TGGCACTTAGTGTGCAAATATTGAGAA
Found at i:32100645 original size:28 final size:28
Alignment explanation
Indices: 32100584--32100645 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
32100574 TTAGTTTACG
*
32100584 AAATATTGAGAATGGCACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
* *
32100612 AGATATTGAGAATGACACTTCGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
32100640 AAATAT
1 AAATAT
32100646 CGAATGATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGCA
Found at i:32100961 original size:40 final size:41
Alignment explanation
Indices: 32100818--32100961 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 41
32100808 CGGGCTTCGG
* *
32100818 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGTTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGAGTTTAAA
* * * *
32100861 GCCTAGCAGGCGAAATGCCGGTGAATGAGTT-TAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAG-TTTAAA
* ***
32100902 GTCTAGCAGGCTTTGTGCCGGTG-ATGAATTCGAGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGTTTAAA
*
32100942 ACCTAGCAGGCTAAATGCCG
1 GCCTAGCAGGCTAAATGCCG
32100962 ATGATTTGAT
Statistics
Matches: 79, Mismatches: 19, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
40 27 0.34
41 29 0.37
42 11 0.14
43 12 0.15
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGTTTAAA
Found at i:32103580 original size:15 final size:15
Alignment explanation
Indices: 32103557--32103603 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
32103547 CATTTCACTA
* *
32103557 TTATGTCTTTTGTAT
1 TTATATCTTTTATAT
32103572 TTATATCTTTTATAT
1 TTATATCTTTTATAT
*
32103587 TCATATCTTTTATAT
1 TTATATCTTTTATAT
32103602 TT
1 TT
32103604 TTCATGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (15 bp):
TTATATCTTTTATAT
Found at i:32104942 original size:21 final size:21
Alignment explanation
Indices: 32104916--32104959 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
32104906 TCGAGACTAA
32104916 GGCCCAAAAACTGGTTGAACT
1 GGCCCAAAAACTGGTTGAACT
32104937 GGCCCAAAAACTGGTTGAACT
1 GGCCCAAAAACTGGTTGAACT
32104958 GG
1 GG
32104960 TCTCGGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (21 bp):
GGCCCAAAAACTGGTTGAACT
Found at i:32109215 original size:23 final size:24
Alignment explanation
Indices: 32109187--32109251 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
32109177 TAATAAGATT
32109187 AATATTAAATTTAATCTAATA-TA
1 AATATTAAATTTAATCTAATATTA
* * *
32109210 AATATTAGATTAAATATAATATTA
1 AATATTAAATTTAATCTAATATTA
*
32109234 AAGTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
32109252 ATAGTTGAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 18 0.56
24 4 0.12
25 1 0.03
26 9 0.28
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (24 bp):
AATATTAAATTTAATCTAATATTA
Found at i:32110520 original size:12 final size:12
Alignment explanation
Indices: 32110503--32110529 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32110493 CACTAACTAC
32110503 TTAGTAATTGCA
1 TTAGTAATTGCA
32110515 TTAGTAATTGCA
1 TTAGTAATTGCA
32110527 TTA
1 TTA
32110530 CACCTGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (12 bp):
TTAGTAATTGCA
Found at i:32124204 original size:46 final size:46
Alignment explanation
Indices: 32124023--32124204 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
32124013 TTTGACATGG
* * * ** *
32124023 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
32124069 TGCCATGGTATCTTTCAACCATGGTTTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
32124115 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
32124161 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
32124205 AGAGCACACT
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:32126354 original size:3 final size:3
Alignment explanation
Indices: 32126340--32126388 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
32126330 TTTTATACTA
*
32126340 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32126383 AA- AAT A
1 AAT AAT A
32126389 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:32126362 original size:11 final size:11
Alignment explanation
Indices: 32126346--32126384 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
32126336 ACTAAATAAT
32126346 TAATAATAAAA
1 TAATAATAAAA
*
32126357 TAATAATGAAA
1 TAATAATAAAA
32126368 TAATAATAAAA
1 TAATAATAAAA
32126379 TAATAA
1 TAATAA
32126385 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:32126371 original size:19 final size:19
Alignment explanation
Indices: 32126347--32126388 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
32126337 CTAAATAATT
*
32126347 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
32126366 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
32126385 AATA
1 AATA
32126389 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:32126411 original size:20 final size:21
Alignment explanation
Indices: 32126358--32126422 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 21
32126348 ATAATAAAAT
* *
32126358 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
32126377 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
32126398 AATAAT-ATATATCTAATT-A
1 AATAATAAAATATCTAATTAA
32126417 AATAAT
1 AATAAT
32126423 CTTAAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 18 0.46
20 12 0.31
21 9 0.23
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:32131415 original size:16 final size:17
Alignment explanation
Indices: 32131381--32131422 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
32131371 GAAAATAATA
32131381 AAAAATATATAAATTAAAT
1 AAAAAT-TATAAA-TAAAT
32131400 AAAAATTATAAA-AAAT
1 AAAAATTATAAATAAAT
*
32131416 AGAAATT
1 AAAAATT
32131423 TTTTATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
18 6 0.27
19 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAATAAAT
Found at i:32131651 original size:18 final size:17
Alignment explanation
Indices: 32131613--32131651 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
32131603 CACGTGGAGG
*
32131613 AAAATGATAAAAAAATT
1 AAAATGATAAAAAAATA
*
32131630 AAAATGAATAAAAATATA
1 AAAATG-ATAAAAAAATA
32131648 AAAA
1 AAAA
32131652 ATTTGAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAATGATAAAAAAATA
Found at i:32131660 original size:18 final size:18
Alignment explanation
Indices: 32131639--32131673 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32131629 TAAAATGAAT
32131639 AAAAATATAAAAAATTTG
1 AAAAATATAAAAAATTTG
* *
32131657 AAAAGTATAGAAAATTT
1 AAAAATATAAAAAATTT
32131674 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (18 bp):
AAAAATATAAAAAATTTG
Found at i:32131717 original size:41 final size:41
Alignment explanation
Indices: 32131647--32131731 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
32131637 ATAAAAATAT
* * * * *
32131647 AAAAAATTTGAAAAGTATAGAAAATTTATTAAAATTTTTAGA
1 AAAAAATATGAAAAATATAAAAAAATTATTAAAA-TTATAGA
32131689 AAAAAATAT-AAAAATATAAAAAAATTATTAAAATTATAGA
1 AAAAAATATGAAAAATATAAAAAAATTATTAAAATTATAGA
32131729 AAA
1 AAA
32131732 TTATAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 9 0.24
41 21 0.55
42 8 0.21
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (41 bp):
AAAAAATATGAAAAATATAAAAAAATTATTAAAATTATAGA
Found at i:32131721 original size:9 final size:10
Alignment explanation
Indices: 32131709--32131741 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
32131699 AAAATATAAA
*
32131709 AAAATTAT-T
1 AAAATTATAG
32131718 AAAATTATAG
1 AAAATTATAG
32131728 AAAATTATAG
1 AAAATTATAG
32131738 AAAA
1 AAAA
32131742 AATATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (10 bp):
AAAATTATAG
Found at i:32131743 original size:41 final size:41
Alignment explanation
Indices: 32131657--32131746 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
32131647 AAAAAATTTG
* * * * *
32131657 AAAAGTATAGAAAATTTATTAAAATTTTTAGAAAAAAATAT
1 AAAAATATAAAAAAATTATTAAAATTTATAGAAAAAAATAA
**
32131698 AAAAATATAAAAAAATTATTAAAA-TTATAGAAAATTATAGA
1 AAAAATATAAAAAAATTATTAAAATTTATAGAAAAAAATA-A
32131739 AAAAATAT
1 AAAAATAT
32131747 TTATATATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 12 0.29
41 29 0.71
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (41 bp):
AAAAATATAAAAAAATTATTAAAATTTATAGAAAAAAATAA
Found at i:32131766 original size:16 final size:17
Alignment explanation
Indices: 32131733--32131784 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
32131723 TATAGAAAAT
32131733 TATAGAAAAAATATTTA
1 TATAGAAAAAATATTTA
* *
32131750 TATATAAAAATTATTATA
1 TATAGAAAAAATATT-TA
* *
32131768 GAATAGAAAAAAAATTT
1 -TATAGAAAAAATATTT
32131785 GAACATTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 13 0.48
18 3 0.11
19 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TATAGAAAAAATATTTA
Found at i:32132275 original size:22 final size:22
Alignment explanation
Indices: 32132249--32132290 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
32132239 TAATTAAATT
32132249 TATATTTTTCAATATTTTTATA
1 TATATTTTTCAATATTTTTATA
*
32132271 TATATTTTTCTATATTTTTA
1 TATATTTTTCAATATTTTTA
32132291 ACGTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (22 bp):
TATATTTTTCAATATTTTTATA
Found at i:32132288 original size:50 final size:50
Alignment explanation
Indices: 32132197--32132291 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
32132187 TATTTTCTAT
* *
32132197 TTTATAATTTTTTAATATTTTTAACATTTTTTTCTAAATTTTTAATTAAA
1 TTTATAATTTTTCAATATTTTTAACATATTTTTCTAAATTTTTAATTAAA
* *
32132247 TTTAT-ATTTTTCAATATTTTTATATATATTTTTCTATATTTTTAA
1 TTTATAATTTTTCAATATTTTTA-ACATATTTTTCTAAATTTTTAA
32132292 CGTTTTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 16 0.40
50 24 0.60
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (50 bp):
TTTATAATTTTTCAATATTTTTAACATATTTTTCTAAATTTTTAATTAAA
Found at i:32132300 original size:49 final size:46
Alignment explanation
Indices: 32132196--32132315 Score: 125
Period size: 49 Copynumber: 2.5 Consensus size: 46
32132186 ATATTTTCTA
*
32132196 TTTTATAATTTTTTAATATTTTTAACATTTTTTTCTAAATTTTTAAT
1 TTTTAT-ATTTTTTAATATTTTTAACATATTTTTCTAAATTTTTAAT
* * *
32132243 TAAATTTATATTTTTCAATATTTTTATATATATTTTTCTATATTTTTAACGT
1 T---TTTATATTTTTTAATATTTTTA-ACATATTTTTCTAAATTTTTAA--T
32132295 TTTTAT-TTATTTTAATATTTT
1 TTTTATATT-TTTTAATATTTT
32132316 ATCTTTTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
47 1 0.02
48 2 0.03
49 32 0.52
50 24 0.39
52 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (46 bp):
TTTTATATTTTTTAATATTTTTAACATATTTTTCTAAATTTTTAAT
Found at i:32133290 original size:90 final size:90
Alignment explanation
Indices: 32133132--32133297 Score: 224
Period size: 90 Copynumber: 1.8 Consensus size: 90
32133122 AACCACAAAG
* * * *
32133132 TTGCAGGTTAATATGTTGCTAAATAGTTGGGAATACACAACATAATTGCATATAAAAGCTGCCAG
1 TTGCAGGTTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAG
32133197 ATAATAGGTGGGCGAACCACCAGTT
66 ATAATAGGTGGGCGAACCACCAGTT
* * * * * **
32133222 TTGCTGGTTAATATGCTGCTAGATGGTTATGAATACACAACATAATTGCAGATAATAGCTACTGG
1 TTGCAGGTTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAG
*
32133287 ATAATATGTGG
66 ATAATAGGTGG
32133298 ATGAATCTCC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (90 bp):
TTGCAGGTTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAG
ATAATAGGTGGGCGAACCACCAGTT
Found at i:32133323 original size:90 final size:90
Alignment explanation
Indices: 32133139--32133324 Score: 192
Period size: 90 Copynumber: 2.1 Consensus size: 90
32133129 AAGTTGCAGG
* * * *
32133139 TTAATATGTTGCTAAATAGTTGGGAATACACAACATAATTGCATATAAAAGCTGCCAGATAATAG
1 TTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAGATAATAG
* ** ** *
32133204 GTGGGCGAACCACCAGTTTTGCTGG
66 GTGGACGAACCACCAGAATTGAAGA
* * * * ** *
32133229 TTAATATGCTGCTAGATGGTTATGAATACACAACATAATTGCAGATAATAGCTACTGGATAATAT
1 TTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAGATAATAG
* * *
32133294 GTGGATGAATCTCCAGAATTGAAGA
66 GTGGACGAACCACCAGAATTGAAGA
32133319 TTAATA
1 TTAATA
32133325 ATCTGTCAGA
Statistics
Matches: 76, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (90 bp):
TTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAGATAATAG
GTGGACGAACCACCAGAATTGAAGA
Found at i:32137765 original size:28 final size:29
Alignment explanation
Indices: 32137732--32137787 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
32137722 TTTGTAAAAA
* *
32137732 TGTAAA-TTAGGGGCTAAATTGTGAAATG
1 TGTAAATTTAGGGGCTAAAATATGAAATG
*
32137760 TGTAAATTTAGGGGTTAAAATATGAAAT
1 TGTAAATTTAGGGGCTAAAATATGAAAT
32137788 AAATGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (29 bp):
TGTAAATTTAGGGGCTAAAATATGAAATG
Found at i:32141111 original size:12 final size:12
Alignment explanation
Indices: 32141094--32141120 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32141084 ACACACGCAT
32141094 GTGTGCTAGGCC
1 GTGTGCTAGGCC
32141106 GTGTGCTAGGCC
1 GTGTGCTAGGCC
32141118 GTG
1 GTG
32141121 CCAAACTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:32161307 original size:15 final size:16
Alignment explanation
Indices: 32161274--32161336 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
32161264 TATTTATATC
**
32161274 AACAAAATAAAAAATTT
1 AACAAAATTTAAAA-TT
32161291 AA-AAAATTTAAAATT
1 AACAAAATTTAAAATT
** *
32161306 AACTTAATTGAAAA-T
1 AACAAAATTTAAAATT
32161321 AACAAAATTTAAAATT
1 AACAAAATTTAAAATT
32161337 TTTCCTTACG
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
15 16 0.44
16 18 0.50
17 2 0.06
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (16 bp):
AACAAAATTTAAAATT
Found at i:32164552 original size:24 final size:24
Alignment explanation
Indices: 32164520--32164568 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
32164510 CCATTTTATT
*
32164520 TTATATAATATACATAATTCATAC
1 TTATATAATATACATAATCCATAC
* *
32164544 TTATATAATATCCATGATCCATAC
1 TTATATAATATACATAATCCATAC
32164568 T
1 T
32164569 AAAAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATATAATATACATAATCCATAC
Found at i:32168522 original size:42 final size:42
Alignment explanation
Indices: 32168452--32168599 Score: 129
Period size: 42 Copynumber: 3.5 Consensus size: 42
32168442 TGTGATTTCG
* * *
32168452 TGTAAAACCATATCTTGGATATGACATCGATATTTGATCTCC
1 TGTAAGACCATATCTAGGACATGACATCGATATTTGATCTCC
* * *** * *
32168494 TGTAAGACCATGTCTAGGACATGGCATCGATACGAGATATCG
1 TGTAAGACCATATCTAGGACATGACATCGATATTTGATCTCC
* *
32168536 TGTAAGACCATAGCT-GGGCTATCGACATCGATATATGTGATC-CC
1 TGTAAGACCATATCTAGGAC-AT-GACATCGATAT-T-TGATCTCC
32168580 ATGTAAGACCATATCTAGGA
1 -TGTAAGACCATATCTAGGA
32168600 TATGGCATTG
Statistics
Matches: 79, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
41 3 0.04
42 47 0.59
43 9 0.11
44 1 0.01
45 17 0.22
46 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGACATGACATCGATATTTGATCTCC
Found at i:32168597 original size:87 final size:84
Alignment explanation
Indices: 32168449--32168607 Score: 221
Period size: 87 Copynumber: 1.9 Consensus size: 84
32168439 ATGTGTGATT
* * *
32168449 TCGTGTAAAACCATATCTTGGATATGACATCGATATTTGATCTCCTGTAAGACCATGTCTAGGAC
1 TCGTGTAAAACCATAGCTGGGATATGACATCGATATTTGATCTCCTGTAAGACCATATCTAGGAC
32168514 ATGGCATCGATACGAGATA
66 ATGGCATCGATACGAGATA
* *
32168533 TCGTGTAAGACCATAGCTGGGCTATCGACATCGATATATGTGATC-CCATGTAAGACCATATCTA
1 TCGTGTAAAACCATAGCTGGGATAT-GACATCGATAT-T-TGATCTCC-TGTAAGACCATATCTA
*
32168597 GGATATGGCAT
62 GGACATGGCAT
32168608 TGGCATCTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
84 21 0.32
85 11 0.17
86 3 0.05
87 30 0.46
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (84 bp):
TCGTGTAAAACCATAGCTGGGATATGACATCGATATTTGATCTCCTGTAAGACCATATCTAGGAC
ATGGCATCGATACGAGATA
Found at i:32174198 original size:40 final size:40
Alignment explanation
Indices: 32174168--32174417 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
32174158 GGACTAAGAT
* * * *
32174168 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
32174208 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
32174248 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
32174288 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
32174328 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
32174368 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
32174407 CCGAAGGCATT
1 CCGAAGGCATT
32174418 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:32174328 original size:120 final size:119
Alignment explanation
Indices: 32174115--32174417 Score: 383
Period size: 120 Copynumber: 2.5 Consensus size: 119
32174105 TTGAATGCTG
* * * ** * * * * *
32174115 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
32174179 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32174235 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* ** *
32174300 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32174355 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
32174418 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
119 35 0.22
120 121 0.76
121 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:32176373 original size:55 final size:55
Alignment explanation
Indices: 32176236--32176381 Score: 157
Period size: 55 Copynumber: 2.7 Consensus size: 55
32176226 TGTGTGACAT
* * * * **
32176236 AGCCGTGGGCGAACTTGCCAAAACAACACGGGTGTACAACATGCCCGTGCCTTGA
1 AGCCGTGGGCGAACTTGCCAAAATAACACGGGCGTGCAACACGCCCGTGCCAAGA
* ** * * * *
32176291 AACCGTGACCGAACTTGTCAAATTAACACTGGCGTGCGACACGCCCGTGCCAAGA
1 AGCCGTGGGCGAACTTGCCAAAATAACACGGGCGTGCAACACGCCCGTGCCAAGA
* *
32176346 AGCCGTGGGTGAACCTGCCAAAATAACACGGGCGTG
1 AGCCGTGGGCGAACTTGCCAAAATAACACGGGCGTG
32176382 GACCTTTATA
Statistics
Matches: 70, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (55 bp):
AGCCGTGGGCGAACTTGCCAAAATAACACGGGCGTGCAACACGCCCGTGCCAAGA
Found at i:32187682 original size:23 final size:23
Alignment explanation
Indices: 32187627--32187685 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
32187617 CCAATATCGT
* *
32187627 AGCATAGCTACTAATAGTAACGC
1 AGCAAAGCTGCTAATAGTAACGC
32187650 AGCAAAGCTGCTAATAGTAACGC
1 AGCAAAGCTGCTAATAGTAACGC
32187673 AGCAAAGCTGCTA
1 AGCAAAGCTGCTA
32187686 GTATATATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (23 bp):
AGCAAAGCTGCTAATAGTAACGC
Found at i:32188592 original size:20 final size:18
Alignment explanation
Indices: 32188545--32188592 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
32188535 ATGTGGGGCC
*
32188545 CATGAGCCCATTGGGCCCA
1 CATG-GCCCATTAGGCCCA
*
32188564 CACGGCCCATCTAGGCCCAA
1 CATGGCCCAT-TAGGCCC-A
32188584 CATGGCCCA
1 CATGGCCCA
32188593 GAACTACCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.23, C:0.42, G:0.23, T:0.12
Consensus pattern (18 bp):
CATGGCCCATTAGGCCCA
Found at i:32192831 original size:80 final size:79
Alignment explanation
Indices: 32192747--32192918 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
32192737 GGACTAAGAT
* *
32192747 CCGAAGGCTTTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
32192811 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
32192827 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
32192892 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
32192906 CCGAAGGCATTTG
1 CCGAAGGCATTTG
32192919 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 38 0.49
80 36 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:32192898 original size:39 final size:39
Alignment explanation
Indices: 32192694--32192916 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
32192684 TTGAATGCTG
* * * * * * *
32192694 TCCGGGCTAAGTCTCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
32192734 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
32192773 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
32192814 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
32192854 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
32192893 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32192917 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 39 0.25
40 104 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:32192936 original size:79 final size:80
Alignment explanation
Indices: 32192774--32192951 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
32192764 AGATACAAAT
* * * *
32192774 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
32192839 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
32192854 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
32192918 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
32192933 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32192952 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:32199874 original size:39 final size:39
Alignment explanation
Indices: 32199723--32199892 Score: 173
Period size: 40 Copynumber: 4.3 Consensus size: 39
32199713 GGACTAAGAT
* * *
32199723 CCGAAGGCTTTTGTGCGAGATAC-AAATTCCGGGTTAAG-C
1 CCGAAGGC-ATTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * * *
32199762 TCCAAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 -CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
32199803 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
32199843 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
32199882 CCGAAGGCATT
1 CCGAAGGCATT
32199893 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 37 0.32
40 72 0.63
41 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:32199912 original size:79 final size:78
Alignment explanation
Indices: 32199773--32199927 Score: 175
Period size: 79 Copynumber: 2.0 Consensus size: 78
32199763 CCAAAGGCCT
* * ** ** *
32199773 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTT
1 TTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCC-GGTT
**
32199838 ATGTCCCGAAGGCA
65 AAATCCCGAAGGCA
* * * * *
32199852 TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTA
1 TTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGTTA
32199917 AATCCCGAAGG
66 AATCCCGAAGG
32199928 TACGTGATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
78 14 0.23
79 48 0.77
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (78 bp):
TTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGTTA
AATCCCGAAGGCA
Found at i:32203506 original size:21 final size:22
Alignment explanation
Indices: 32203480--32203520 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32203470 AAAACGGGCG
*
32203480 TGTCCC-AGGGTCACACAGGCA
1 TGTCCCTAGGATCACACAGGCA
*
32203501 TGTCCCTTGGATCACACAGG
1 TGTCCCTAGGATCACACAGG
32203521 TGTGTGAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.20
Consensus pattern (22 bp):
TGTCCCTAGGATCACACAGGCA
Found at i:32205234 original size:30 final size:30
Alignment explanation
Indices: 32205200--32205261 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
32205190 ACGTCATTAC
32205200 TAGTACATTCTTTCTACTTGATACTGATGT
1 TAGTACATTCTTTCTACTTGATACTGATGT
*
32205230 TAGTACATTTTTTCTACTTGATACTGATGT
1 TAGTACATTCTTTCTACTTGATACTGATGT
32205260 TA
1 TA
32205262 CTGCTTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (30 bp):
TAGTACATTCTTTCTACTTGATACTGATGT
Found at i:32213598 original size:22 final size:22
Alignment explanation
Indices: 32213565--32213616 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
32213555 TTGATAAGTA
32213565 AAGATAGA-ACTAGAAAGATATC
1 AAGAT-GATACTAGAAAGATATC
*
32213587 AGGATGATACTAGAAAGATATC
1 AAGATGATACTAGAAAGATATC
32213609 AAGATGAT
1 AAGATGAT
32213617 TTAAAGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (22 bp):
AAGATGATACTAGAAAGATATC
Found at i:32214189 original size:15 final size:14
Alignment explanation
Indices: 32214168--32214206 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
32214158 GATATTTTCT
*
32214168 TTTGGATTTCTTTA
1 TTTGGATTTCTATA
32214182 TGTTGGATTTCTATA
1 T-TTGGATTTCTATA
32214197 TTGTGGATTT
1 TT-TGGATTT
32214207 TTCTGTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.15, C:0.05, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTGGATTTCTATA
Found at i:32219461 original size:46 final size:46
Alignment explanation
Indices: 32219409--32219686 Score: 378
Period size: 46 Copynumber: 6.0 Consensus size: 46
32219399 AGTGTGCTCT
*
32219409 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
32219455 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
32219501 CTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
32219547 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
32219593 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
32219639 CTGACA-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATG--T--GTAAGACCATGGTTGAAAGATACCATGGCA
32219687 TCATGTCAAA
Statistics
Matches: 212, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 1 0.00
46 185 0.87
50 26 0.12
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:32223125 original size:15 final size:15
Alignment explanation
Indices: 32223105--32223135 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32223095 ACAACCTCCC
32223105 CCACCTCCCCCGATT
1 CCACCTCCCCCGATT
*
32223120 CCACCTCCCCTGATT
1 CCACCTCCCCCGATT
32223135 C
1 C
32223136 TTCAACCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.58, G:0.06, T:0.23
Consensus pattern (15 bp):
CCACCTCCCCCGATT
Found at i:32228452 original size:30 final size:30
Alignment explanation
Indices: 32228394--32228453 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
32228384 TTCCCGAGCC
* ***
32228394 TAGGGGCAAAAGTGTAATTATGTGAAAGTT
1 TAGGGGCAAAAATGTAATTATCCCAAAGTT
*
32228424 TAGGGGCAAAAATGTAATTTTCCCAAAGTT
1 TAGGGGCAAAAATGTAATTATCCCAAAGTT
32228454 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATCCCAAAGTT
Found at i:32233809 original size:20 final size:20
Alignment explanation
Indices: 32233784--32233827 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
32233774 CATGGGTAGA
32233784 CACACGGGCGTGTATCTTGC
1 CACACGGGCGTGTATCTTGC
*
32233804 CACACGGGCGTGTGTCTTGC
1 CACACGGGCGTGTATCTTGC
32233824 CACA
1 CACA
32233828 TAGCCTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.23
Consensus pattern (20 bp):
CACACGGGCGTGTATCTTGC
Found at i:32238313 original size:45 final size:45
Alignment explanation
Indices: 32238249--32238429 Score: 238
Period size: 45 Copynumber: 4.0 Consensus size: 45
32238239 TTTCGTATAG
32238249 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAA
* * ** * * *
32238294 TACTATTCGGGCCTTTGAGCCTATCAAGCTATGATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAA
*
32238339 TACTATTCGGGCCTTTGATCCTAGCAGGCTACAATGCC-AGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGA-TGAAA
* * * *
32238384 TACTATTTGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAA
32238429 T
1 T
32238430 GAACTCGGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
45 114 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAA
Found at i:32238415 original size:90 final size:90
Alignment explanation
Indices: 32238249--32238426 Score: 279
Period size: 90 Copynumber: 2.0 Consensus size: 90
32238239 TTTCGTATAG
32238249 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAATACTATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAATACTATTCGGGCCTTTGAGC
* *
32238314 CTATCAAGCTATGATGCTGGTGAGA
66 CTATCAAGCTATAATGCCGGTGAGA
* *
32238339 TACTATTCGGGCCTTTGATCCTAGCAGGCTACAATGCC-AGTGAAATACTATTTGGGCCTTTGAG
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGA-TGAAATACTATTCGGGCCTTTGAG
*
32238403 CCTAGT-AGGCTATAATGCCGGTGA
65 CCTA-TCAAGCTATAATGCCGGTGA
32238427 AATGAACTCG
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
89 1 0.01
90 79 0.98
91 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (90 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGATGAAATACTATTCGGGCCTTTGAGC
CTATCAAGCTATAATGCCGGTGAGA
Found at i:32238987 original size:16 final size:18
Alignment explanation
Indices: 32238956--32238988 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
32238946 AACTCGTCAC
32238956 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
32238974 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
32238989 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:32242345 original size:30 final size:30
Alignment explanation
Indices: 32242311--32242372 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
32242301 TCCTTAACTC
*
32242311 AAACTTTTGAAAAATTACAATTTTTCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
32242341 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
32242371 AA
1 AA
32242373 GCTCGGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:32247525 original size:43 final size:43
Alignment explanation
Indices: 32247477--32247562 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
32247467 GAAACATAAC
32247477 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
1 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
32247520 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
1 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
32247563 TCCATAATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (43 bp):
ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
Found at i:32255163 original size:28 final size:29
Alignment explanation
Indices: 32255120--32255234 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
32255110 TACTTGTATC
** *
32255120 TGGCCCATTAAACCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
32255148 TAGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
32255177 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
32255206 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
32255234 T
1 T
32255235 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.34
29 48 0.65
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:32261749 original size:22 final size:22
Alignment explanation
Indices: 32261724--32261765 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32261714 AGATAATCTT
32261724 TAATATATA-ATTATATCTATTA
1 TAATATATATATTA-ATCTATTA
*
32261746 TAATTTATATATTAATCTAT
1 TAATATATATATTAATCTAT
32261766 ATCAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATATATATTAATCTATTA
Found at i:32275966 original size:29 final size:29
Alignment explanation
Indices: 32275906--32276014 Score: 91
Period size: 28 Copynumber: 3.9 Consensus size: 29
32275896 TACTTGTATC
* * * * *
32275906 TGGCCCATTAAGCTC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATT
*
32275934 TGGCCCATTAGGCCCAAATCACCTATT-TT
1 TGGCCCATTAGGCCCAAATCACAT-TTATT
**
32275963 TGGCCCA-TATTCCCAAATCACATTTATT
1 TGGCCCATTAGGCCCAAATCACATTTATT
* *
32275991 TGGCCCGTTAGGCCC-AGTCACATT
1 TGGCCCATTAGGCCCAAATCACATT
32276015 CATCTTCATG
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
27 2 0.03
28 42 0.66
29 19 0.30
30 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATT
Found at i:32277457 original size:16 final size:16
Alignment explanation
Indices: 32277436--32277466 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32277426 AAAATTCAAG
32277436 ATTTCGGGATTTTTGA
1 ATTTCGGGATTTTTGA
32277452 ATTTCGGGATTTTTG
1 ATTTCGGGATTTTTG
32277467 GGCCGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.26, T:0.52
Consensus pattern (16 bp):
ATTTCGGGATTTTTGA
Found at i:32282955 original size:29 final size:29
Alignment explanation
Indices: 32282867--32282967 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
32282857 TACCTGTATC
* * *
32282867 TGGCCGATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTTATA
* * *
32282895 TGGCCCATTAGGCCCAAATAATATGTAGA
1 TGGCCCATTAGGCCCAAATCATATTTATA
*
32282924 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCATATTTATA
*
32282953 TGGCAC-TTAGGCCCA
1 TGGCCCATTAGGCCCA
32282968 GTTACATTCA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 22 0.36
29 39 0.64
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTTATA
Found at i:32282997 original size:18 final size:17
Alignment explanation
Indices: 32282971--32283013 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
32282961 AGGCCCAGTT
* *
32282971 ACATTCAAATTCATGCTC
1 ACATACAAATTCAT-ATC
*
32282989 ACATACAAATTCCTATC
1 ACATACAAATTCATATC
32283006 ACATACAA
1 ACATACAA
32283014 TCAATATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (17 bp):
ACATACAAATTCATATC
Found at i:32287924 original size:21 final size:21
Alignment explanation
Indices: 32287899--32287983 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
32287889 TAAATTTAAC
* *
32287899 TCAATTTAATGAAATTCATAT
1 TCAATTCAATCAAATTCATAT
* *
32287920 TCAATTCAATCAAATTAAATTTAAC
1 TCAATTCAATCAAATT-CA--T-AT
* *
32287945 TCAATTTAATAAAATTCATAT
1 TCAATTCAATCAAATTCATAT
32287966 TCAATTCAATCAAATTCA
1 TCAATTCAATCAAATTCA
32287984 CATTTTAGGG
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
21 31 0.62
22 2 0.04
24 2 0.04
25 15 0.30
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (21 bp):
TCAATTCAATCAAATTCATAT
Found at i:32287942 original size:46 final size:46
Alignment explanation
Indices: 32287889--32287981 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
32287879 ATCTATCGAG
*
32287889 TAAATTTAACTCAATTTAATGAAATTCATATTCAATTCAATCAAAT
1 TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
32287935 TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
1 TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
32287981 T
1 T
32287982 CACATTTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (46 bp):
TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
Found at i:32288814 original size:34 final size:33
Alignment explanation
Indices: 32288766--32288857 Score: 96
Period size: 34 Copynumber: 2.8 Consensus size: 33
32288756 GTTTTAGTTA
* *
32288766 GGGCCTTAGCCCATTTCAGAATCAGAAATAGTG
1 GGGCCTAAGCCCATTTCAGAATCAGAAACAGTG
* * * *
32288799 TGGGCCTGAGTCCATTTTAGTAA-CAGTAACAGTG
1 -GGGCCTAAGCCCATTTCAG-AATCAGAAACAGTG
*
32288833 GGGCCTAAGCCCATTACAGAATCAG
1 GGGCCTAAGCCCATTTCAGAATCAG
32288858 CACAGTATGC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
32 2 0.04
33 18 0.38
34 25 0.53
35 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGAATCAGAAACAGTG
Found at i:32292194 original size:46 final size:46
Alignment explanation
Indices: 32292141--32292306 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
32292131 TCTGAGCTCA
32292141 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCCGAACTCG
* * *
32292187 TTGAGTTGAGTCCGAGTTTG-TGA--GATG-TAATTAGGCATCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAA-T--GC--CCGAACTCG
** * * * *
32292234 TTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCCGAGCTCA
1 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCCGAACTCG
*
32292280 TTGAGTTGAGTCTGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCGCTTATGG
32292307 GCGGGTTACA
Statistics
Matches: 97, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 51 0.53
47 25 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCCGAACTCG
Found at i:32292204 original size:93 final size:93
Alignment explanation
Indices: 32292048--32292298 Score: 322
Period size: 93 Copynumber: 2.7 Consensus size: 93
32292038 TCTGAACTTG
* * * ** * *
32292048 TTGAATTGAGTCCTAGTGCACTTATGGATGCGAACGTTCGAACTTGTTGAGTTAAGTCTGAGTTC
1 TTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCTGAGTTC
* *
32292113 ATGAGATGTAACTAGGCATCTGAGCTCA
66 ATGAGATGTAACTAGGCATCCGAACTCA
* * * * *
32292141 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAGTTT
1 TTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCTGAGTTC
* * *
32292206 GTGAGATGTAATTAGGCATCCGAACTCG
66 ATGAGATGTAACTAGGCATCCGAACTCA
* * *
32292234 TTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCTGAGTTC
32292299 GCTTATGGGC
Statistics
Matches: 134, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 134 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (93 bp):
TTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCTGAGTTC
ATGAGATGTAACTAGGCATCCGAACTCA
Found at i:32292242 original size:47 final size:46
Alignment explanation
Indices: 32292086--32292245 Score: 148
Period size: 47 Copynumber: 3.4 Consensus size: 46
32292076 TGCGAACGTT
* * * *
32292086 CGAACTTGTTGAGTTAAGTCTGAGTTCATGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAA-TAGGCATC
* * * * *
32292133 TGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAAT--GC--C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCG-TGA--GATG-TAATAGGCATC
*
32292179 CGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAATTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAA-TAGGCATC
32292226 CGAACTCGTTGAGTTGAGTC
1 CGAACTCGTTGAGTTGAGTC
32292246 TAAGTTCACT
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.06
45 4 0.04
46 25 0.28
47 42 0.47
48 4 0.04
50 5 0.06
51 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAATAGGCATC
Found at i:32297979 original size:46 final size:46
Alignment explanation
Indices: 32297911--32298038 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
32297901 AACTAGGTAT
*
32297911 CCGAGCTCGTTGAGTTGGGTCCGAGTTCGCTTATGGATGC-AAATGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAAA-GC
* *
32297957 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAAAGC
* *
32298003 CCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
32298039 GTGGGTTACA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
46 71 0.96
47 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAAAGC
Found at i:32298412 original size:25 final size:25
Alignment explanation
Indices: 32298384--32298434 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
32298374 TGAGAATGAT
*
32298384 TATCTATTGGAGTGGCTAATCGAGA
1 TATCCATTGGAGTGGCTAATCGAGA
32298409 TATCCATTGGAGTGGCTAATCGAGA
1 TATCCATTGGAGTGGCTAATCGAGA
32298434 T
1 T
32298435 TATATTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (25 bp):
TATCCATTGGAGTGGCTAATCGAGA
Found at i:32318779 original size:33 final size:33
Alignment explanation
Indices: 32318686--32318783 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 33
32318676 GTTTCAGTTA
* * *
32318686 GGGCCTTAGCCCATTTCAGAATTAGAAACAGTGT
1 GGGCCTAAGCCCATTTCAGAATCAG-TACAGTGT
* *
32318720 GGGCCTGAGCCCATTTCA-ATAACAGTATCAGTG-
1 GGGCCTAAGCCCATTTCAGA-ATCAGTA-CAGTGT
*
32318753 GGGCCTAAGCCCATTACAGAATCAGTACAGT
1 GGGCCTAAGCCCATTTCAGAATCAGTACAGT
32318784 ATGTAATCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
32 4 0.07
33 24 0.44
34 26 0.48
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGAATCAGTACAGTGT
Found at i:32330835 original size:104 final size:102
Alignment explanation
Indices: 32330714--32330916 Score: 237
Period size: 104 Copynumber: 2.0 Consensus size: 102
32330704 GAATTCTAGA
* *** * *
32330714 AATAAAAAATAAATTAGGAGT-GTGTTGGGCTGAGTAGCCAGGGTGAGGTGCTTAGGTTGTCATT
1 AATAAAAAATAAATTAGGA-TCATGTCAAGCTGAGTAACCAGGGTGAGGTGCTTAGGTTGTCATC
* *
32330778 CCACTTCGCGTCAAAAGGTCCAATACATTCTTAAAAAT
65 CCACTTCACGTCAAAAGGACCAATACATTCTTAAAAAT
*** * * *
32330816 AATAATAATAATAAATTAGGATCATGTCAAGCTGAGTAATTGGGGTGGGGTGCTTGGGTTGTTAT
1 AATAA-AA-AATAAATTAGGATCATGTCAAGCTGAGTAACCAGGGTGAGGTGCTTAGGTTGTCAT
*
32330881 CCCACTTCACGTCAAAAGGACCACTACATTCTTAAA
64 CCCACTTCACGTCAAAAGGACCAATACATTCTTAAA
32330917 TAAAATATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
102 5 0.06
103 3 0.04
104 75 0.90
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (102 bp):
AATAAAAAATAAATTAGGATCATGTCAAGCTGAGTAACCAGGGTGAGGTGCTTAGGTTGTCATCC
CACTTCACGTCAAAAGGACCAATACATTCTTAAAAAT
Found at i:32331255 original size:42 final size:42
Alignment explanation
Indices: 32331196--32331280 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
32331186 AATCTAAATT
32331196 ACATAGTGGAATAGAACCATACTTGTGGGCAAGCATGGGCTA
1 ACATAGTGGAATAGAACCATACTTGTGGGCAAGCATGGGCTA
32331238 ACATAGTGGAATAGAACCATACTTGTGGGCAAGCATGGGCTA
1 ACATAGTGGAATAGAACCATACTTGTGGGCAAGCATGGGCTA
32331280 A
1 A
32331281 GTAGGGGGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (42 bp):
ACATAGTGGAATAGAACCATACTTGTGGGCAAGCATGGGCTA
Found at i:32335151 original size:43 final size:43
Alignment explanation
Indices: 32335090--32335173 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
32335080 TGTGATTCCG
* **
32335090 ATATGTGTTTAAAAGTAAGACCTTGTCTGGGACAG-TGGCATCA
1 ATATGTGGTTAAAAGTAAGACCACGTCTGGGAC-GTTGGCATCA
* *
32335133 ATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGGTTAAAAGTAAGACCACGTCTGGGACGTTGGCAT
32335174 TGTACGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
ATATGTGGTTAAAAGTAAGACCACGTCTGGGACGTTGGCATCA
Found at i:32335382 original size:13 final size:13
Alignment explanation
Indices: 32335364--32335389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32335354 TGAAAAGTAT
32335364 ATGTATAAATAGG
1 ATGTATAAATAGG
32335377 ATGTATAAATAGG
1 ATGTATAAATAGG
32335390 TCATGTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
ATGTATAAATAGG
Found at i:32336537 original size:25 final size:25
Alignment explanation
Indices: 32336492--32336539 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32336482 TGGTGCAATG
* *
32336492 TATTAAATATTTATATGTGATTACT
1 TATTAAATATATATATATGATTACT
32336517 TATTAAAT-TATATAATATGATTA
1 TATTAAATATATAT-ATATGATTA
32336540 AATGATTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (25 bp):
TATTAAATATATATATATGATTACT
Found at i:32339172 original size:18 final size:18
Alignment explanation
Indices: 32339149--32339185 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
32339139 AACCTCAATG
32339149 TCATGGTTTCATATTCCA
1 TCATGGTTTCATATTCCA
32339167 TCATGGTTTCATATTCCA
1 TCATGGTTTCATATTCCA
32339185 T
1 T
32339186 ACATACATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (18 bp):
TCATGGTTTCATATTCCA
Found at i:32342391 original size:41 final size:41
Alignment explanation
Indices: 32342353--32342536 Score: 199
Period size: 41 Copynumber: 4.5 Consensus size: 41
32342343 ACTTGATATA
* ** *
32342353 ATACATCGGCACGAAGCCTGCTAGGCTTTAGGCCTGATAAT
1 ATACACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATAAT
* *
32342394 ATACACCAGCACGAAGCCTGCTAGGCTCAAAGCCTAATAAT
1 ATACACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATAAT
* * *
32342435 ATACACCGGCTCGAAGCCTGCTAGGCACAAAGCCTAATAAT
1 ATACACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATAAT
* * * ** * * *
32342476 CTTCATCGGCATAAAGCCTGGTAAGCAT-AAAGCCTAATAAT
1 ATACACCGGCACGAAGCCTGCTAGGC-TCAAAGCCTGATAAT
32342517 ATACACCGGCACGAAGCCTG
1 ATACACCGGCACGAAGCCTG
32342537 TTGTAACACC
Statistics
Matches: 119, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (41 bp):
ATACACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATAAT
Found at i:32344211 original size:27 final size:27
Alignment explanation
Indices: 32344180--32344347 Score: 239
Period size: 27 Copynumber: 6.2 Consensus size: 27
32344170 TAATTTACAA
*
32344180 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
32344207 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
32344234 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
32344261 AATTACCGAAATACCCTTATAGGGTAAG
1 AATTACTGAAATACCCCTGTAGGGT-AG
*
32344289 AA-TACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
32344315 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
32344342 AATTAC
1 AATTAC
32344348 CATTTTGCCC
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
26 4 0.03
27 120 0.94
28 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:32344315 original size:81 final size:81
Alignment explanation
Indices: 32344178--32344348 Score: 263
Period size: 81 Copynumber: 2.1 Consensus size: 81
32344168 TTTAATTTAC
* * *
32344178 AAAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTGA
1 AAAATTACCGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGA
32344243 AATACCCCTGTAGGGT
66 AATACCCCTGTAGGGT
*
32344259 AGAATTACCGAAATACCCTTATAGGGTAAGAA-TACCGAAATACCCCTGTAGGGTAGAATTACTG
1 AAAATTACCGAAATACCCTTATAGGGT-AGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
* * *
32344323 AGATACCCTTGTGGGGT
65 AAATACCCCTGTAGGGT
32344340 AAAATTACC
1 AAAATTACC
32344349 ATTTTGCCCC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 77 0.95
82 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGA
AATACCCCTGTAGGGT
Found at i:32344914 original size:22 final size:22
Alignment explanation
Indices: 32344862--32344915 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
32344852 GCCAATTATT
32344862 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGCACCAAC
* **
32344884 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGCACCAAC
32344906 CTGATTATGG
1 CTGATTATGG
32344916 TTGTGTCCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTTTGCACCAAC
Found at i:32345041 original size:27 final size:26
Alignment explanation
Indices: 32345011--32345092 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
32345001 ATTCTGTTAA
*
32345011 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
32345038 GTGG-TTCTGCCACAATATCTGTATCTG
1 GTGGCTT-TGCCACAATATCTGT-TCTG
* * *
32345065 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTTTGCCACAATATCTGTTCTG
32345091 GT
1 GT
32345093 AGCCATGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.19
27 38 0.79
28 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:32345217 original size:6 final size:6
Alignment explanation
Indices: 32345208--32345273 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
32345198 TTGCATTCAC
* *
32345208 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- ATCACCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
32345257 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
32345274 AGTTTTGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
5 2 0.04
6 43 0.88
7 2 0.04
8 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:32348912 original size:41 final size:40
Alignment explanation
Indices: 32348855--32348974 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 40
32348845 AAGTCACCGA
* * *
32348855 TGGATCCACTGTCGTCAAGCAACCATGCAATCCTTAATCGG
1 TGGATCCAC-GTCGTCAAGCAACCATGCGATCCTCAATCAG
* * **
32348896 TGGATCCACAGCCGTCAAGTAACCACACGATCCTCAATCAG
1 TGGATCCAC-GTCGTCAAGCAACCATGCGATCCTCAATCAG
*
32348937 TGGATCCACGATTGTCAAGCAACCATGCGATCCTCAAT
1 TGGATCCACG-TCGTCAAGCAACCATGCGATCCTCAAT
32348975 TTCTTCCTCC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 1 0.02
41 64 0.98
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (40 bp):
TGGATCCACGTCGTCAAGCAACCATGCGATCCTCAATCAG
Found at i:32349282 original size:27 final size:27
Alignment explanation
Indices: 32349211--32349634 Score: 327
Period size: 27 Copynumber: 15.7 Consensus size: 27
32349201 TTTCACCCTA
* * * * *
32349211 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
32349238 CAAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* **
32349265 CAATGGTATTTTTGTAATTTTTA-AAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-T
* * * **
32349293 CAAAGATATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
32349320 C-AGGGCTATTTCTGTAATTTTCCAAAT
1 CAAGGG-TATTTCGGTAATTTTACAAAT
*
32349347 CAAGGGTATTTCGGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
32349374 CAAGGGTATTTTGGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
32349401 CGAGGGTATTTCGGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** *
32349428 TGAGGGTATTTCGATAATTTTACAAGAT
1 CAAGGGTATTTCGGTAATTTTACAA-AT
* * * * **
32349456 GAA-AGTATTTCGATAATTTTATAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
32349482 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
32349509 CAGGGGTATTTTGGTAATTTGACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * *
32349535 CTAGGGGTATTTTGGTAATTTTTCTAAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* * * *
32349563 CGAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *
32349590 CAAGGGTA-TTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
32349616 CAAGGGTATTTCAGTAATT
1 CAAGGGTATTTCGGTAATT
32349635 CTACCTTATA
Statistics
Matches: 329, Mismatches: 58, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
26 28 0.09
27 272 0.83
28 29 0.09
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:32349647 original size:26 final size:26
Alignment explanation
Indices: 32349618--32349698 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
32349608 TTGTAAACCA
* *
32349618 AGGGTATTTCAGTAATTCTACCTTAT
1 AGGGTATTTCAGTAATTCTACCCTAC
* *
32349644 AGGGCATTTTAGTAATTCTACCCTAC
1 AGGGTATTTCAGTAATTCTACCCTAC
* *
32349670 AGGGGTATTTCAGTAATACTAGCCTAC
1 A-GGGTATTTCAGTAATTCTACCCTAC
32349697 AG
1 AG
32349699 ATATGAGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTCTACCCTAC
Found at i:32349695 original size:27 final size:26
Alignment explanation
Indices: 32349619--32349698 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
32349609 TGTAAACCAA
*
32349619 GGGTATTTCAGTAATTCTACCTTATA-
1 GGGTATTTCAGTAATTCTACC-TACAG
* *
32349645 GGGCATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTA-CCTACAG
*
32349672 GGGTATTTCAGTAATACTAGCCTACAG
1 GGGTATTTCAGTAATTCTA-CCTACAG
32349699 ATATGAGATT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 20 0.44
27 25 0.56
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
GGGTATTTCAGTAATTCTACCTACAG
Found at i:32350315 original size:15 final size:17
Alignment explanation
Indices: 32350295--32350326 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32350285 TCATTTCATT
32350295 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
32350310 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
32350327 AGATTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:32350576 original size:19 final size:19
Alignment explanation
Indices: 32350527--32350577 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
32350517 TTATATTACT
*
32350527 ATATT-AATATAAAAAAAT
1 ATATTAAATATAAAAAAAG
*
32350545 ATAACTAAGATATAAAAAAAG
1 AT-ATTAA-ATATAAAAAAAG
32350566 ATATTAAATATA
1 ATATTAAATATA
32350578 TAGATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 5 0.19
21 13 0.48
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
ATATTAAATATAAAAAAAG
Found at i:32351249 original size:36 final size:34
Alignment explanation
Indices: 32351208--32351281 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
32351198 AATGAAATTC
*
32351208 TAAATTATTAAATTAATAATTTATTTTAATTATACT
1 TAAATTATTAAATTAATAATTT-TTCTAATTA-ACT
* *
32351244 T-AA--ATTAAATTATTAATTTTTCTATTTAACT
1 TAAATTATTAAATTAATAATTTTTCTAATTAACT
32351275 TAAATTA
1 TAAATTA
32351282 AATAATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
31 4 0.12
32 9 0.28
33 15 0.47
34 1 0.03
35 2 0.06
36 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (34 bp):
TAAATTATTAAATTAATAATTTTTCTAATTAACT
Found at i:32351279 original size:31 final size:33
Alignment explanation
Indices: 32351214--32351316 Score: 115
Period size: 31 Copynumber: 3.2 Consensus size: 33
32351204 ATTCTAAATT
*
32351214 ATTAAATTAATAATTTATTTTAATTATACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
* *
32351247 ATTAAATTATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
** *
32351278 ATTAAA-TAATAATAAATTCTAAATATAC-TAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
32351309 ATATAAAT
1 AT-TAAAT
32351317 AACAACTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
30 6 0.10
31 24 0.41
32 13 0.22
33 15 0.26
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (33 bp):
ATTAAATTAATAATTTATTCTAATTATACTTAA
Found at i:32351309 original size:26 final size:28
Alignment explanation
Indices: 32351280--32351350 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 28
32351270 TAACTTAAAT
*
32351280 TAAATAATAATAAATTCTAAAT-AT-AC
1 TAAATAATAATAAATACTAAATAATAAC
32351306 TAAAT-ATAAATAACA-ACTAAATAATAAC
1 TAAATAAT-AATAA-ATACTAAATAATAAC
32351334 TAAATAATAACTAAATA
1 TAAATAATAA-TAAATA
32351351 GAAATAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
25 2 0.05
26 16 0.43
27 3 0.08
28 10 0.27
29 6 0.16
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (28 bp):
TAAATAATAATAAATACTAAATAATAAC
Found at i:32351328 original size:11 final size:11
Alignment explanation
Indices: 32351312--32351350 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
32351302 ATACTAAATA
*
32351312 TAAATAACAAC
1 TAAATAATAAC
32351323 TAAATAATAAC
1 TAAATAATAAC
32351334 TAAATAATAAC
1 TAAATAATAAC
32351345 TAAATA
1 TAAATA
32351351 GAAATAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAATAATAAC
Found at i:32352199 original size:19 final size:19
Alignment explanation
Indices: 32352177--32352215 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32352167 TTATTTACAC
32352177 AAAATAGGTATATTGCTAT
1 AAAATAGGTATATTGCTAT
32352196 AAAATAGGTATATTGCTAT
1 AAAATAGGTATATTGCTAT
32352215 A
1 A
32352216 CATGCCATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
AAAATAGGTATATTGCTAT
Found at i:32352460 original size:19 final size:20
Alignment explanation
Indices: 32352436--32352473 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32352426 GGTACCACCA
32352436 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
32352455 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
32352474 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:32354897 original size:47 final size:47
Alignment explanation
Indices: 32354828--32355167 Score: 572
Period size: 47 Copynumber: 7.2 Consensus size: 47
32354818 GAAATGATAG
*
32354828 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
32354875 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
32354922 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
32354969 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32355016 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
32355063 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
32355110 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32355157 TAAGGCCTAAT
1 TAAGGCCTAAT
32355168 TGTAACACCC
Statistics
Matches: 279, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 279 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:32354942 original size:24 final size:24
Alignment explanation
Indices: 32354914--32354989 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
32354904 GAAAGTGTAT
32354914 ATGTGTGATAAGGCCAAATGGTCG
1 ATGTGTGATAAGGCCAAATGGTCG
* **
32354938 ATGTGATGA-ATGTG--AAA-GTGTAT
1 ATGTG-TGATAAG-GCCAAATG-GTCG
*
32354961 ATGTGTGATAAGGCCAAATGGCCG
1 ATGTGTGATAAGGCCAAATGGTCG
32354985 ATGTG
1 ATGTG
32354990 ATGAATGTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 5 0.13
23 12 0.32
24 16 0.42
25 5 0.13
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (24 bp):
ATGTGTGATAAGGCCAAATGGTCG
Found at i:32356547 original size:27 final size:27
Alignment explanation
Indices: 32356517--32356694 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
32356507 ATATTGAGCC
* *
32356517 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
32356544 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
32356571 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
32356599 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
32356626 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
32356653 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
32356680 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32356695 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:32356656 original size:82 final size:81
Alignment explanation
Indices: 32356538--32356693 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
32356528 TGCTATATAA
* * *
32356538 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
32356603 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32356620 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
32356684 CACTTAGTGC
65 CACTTAGTGC
32356694 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32358474 original size:46 final size:47
Alignment explanation
Indices: 32358401--32358538 Score: 179
Period size: 46 Copynumber: 3.0 Consensus size: 47
32358391 GGCTGTCACA
32358401 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * *
32358448 CTAATGGCCGATATG-TGAATGTGAAAGTGTATATATGTGACAGGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * * * * *
32358494 CGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
32358539 TCCCGAAGGG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 39 0.51
47 38 0.49
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:32361085 original size:23 final size:22
Alignment explanation
Indices: 32361034--32361085 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
32361024 CCTCGTCTTT
*
32361034 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
32361056 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
32361079 TTCTTTT
1 TTCTTTT
32361086 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:32365024 original size:46 final size:46
Alignment explanation
Indices: 32364957--32365078 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
32364947 CGCCCCTAAG
* * *
32364957 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * * *
32365003 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCGTAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
32365049 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
32365079 TGCTCAACCA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:32366396 original size:13 final size:13
Alignment explanation
Indices: 32366374--32366411 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
32366364 ATATTACAAT
32366374 AAAA-AATATATA
1 AAAATAATATATA
32366386 AAAATAATATATA
1 AAAATAATATATA
32366399 AATAGATAATATA
1 AA-A-ATAATATA
32366412 ATAATAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 1 0.04
15 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATAATATATA
Found at i:32366397 original size:15 final size:16
Alignment explanation
Indices: 32366371--32366417 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
32366361 AGGATATTAC
32366371 AATAAA-AA-ATATAT
1 AATAAATAATATATAT
32366385 AA-AAATAATATATA-
1 AATAAATAATATATAT
*
32366399 AATAGATAATATA-AT
1 AATAAATAATATATAT
32366414 AATA
1 AATA
32366418 GATAGAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 18 0.64
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AATAAATAATATATAT
Found at i:32366412 original size:20 final size:19
Alignment explanation
Indices: 32366389--32366483 Score: 59
Period size: 20 Copynumber: 4.7 Consensus size: 19
32366379 ATATATAAAA
32366389 ATAATATATAAATAGATAAT
1 ATAATATATAAATAGA-AAT
* *
32366409 ATAATA-ATAGATAGAATAAC
1 ATAATATATAAATAG-A-AAT
* *
32366429 AAAATAAATAATATAGAAAT
1 ATAATATATAA-ATAGAAAT
*
32366449 ATAGATTTATAAATCA-AAAT
1 ATA-ATATATAAAT-AGAAAT
*
32366469 ATATTAATATAAATA
1 ATAAT-ATATAAATA
32366484 TAAGAATATT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.15
20 35 0.59
21 11 0.19
22 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
ATAATATATAAATAGAAAT
Found at i:32366418 original size:15 final size:15
Alignment explanation
Indices: 32366378--32366421 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
32366368 TACAATAAAA
32366378 AATATATAAA-A-AT
1 AATATATAAATAGAT
32366391 AATATATAAATAGAT
1 AATATATAAATAGAT
32366406 AATATA-ATAATAGAT
1 AATATATA-AATAGAT
32366421 A
1 A
32366422 GAATAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.36
14 2 0.07
15 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AATATATAAATAGAT
Found at i:32366682 original size:17 final size:17
Alignment explanation
Indices: 32366660--32366698 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
32366650 CTGACTCCAT
*
32366660 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
32366677 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
32366694 TTTTA
1 TTTTA
32366699 CATCTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:32366858 original size:15 final size:17
Alignment explanation
Indices: 32366828--32366859 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
32366818 GTCAAAATCT
32366828 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
32366845 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
32366860 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:32366987 original size:27 final size:28
Alignment explanation
Indices: 32366957--32367013 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
32366947 AAATGAATGG
*
32366957 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
32366984 AATAATTAGTTCTAGCTATTATATTATA
1 AATAATTAGTTCTAGCTATTATAATATA
32367012 AA
1 AA
32367014 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:32369124 original size:27 final size:26
Alignment explanation
Indices: 32369076--32369135 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
32369066 GTGAGGCTGC
* *
32369076 CAGATATTGTGACGAAGTCACCAGATG
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
32369103 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
32369129 CAGATAT
1 CAGATAT
32369136 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32374837 original size:27 final size:26
Alignment explanation
Indices: 32374789--32374848 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
32374779 GCGAGGCTCC
*
32374789 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
32374816 CAGATATTGTGACTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
32374842 CAAATAT
1 CAGATAT
32374849 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32377165 original size:30 final size:29
Alignment explanation
Indices: 32377105--32377165 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
32377095 CAAGTAGCCG
* *
32377105 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTACTACCA
32377134 AAGCTAGTTTAAATCGCACACTTACTACCA
1 AAGCTAG-TTAAATCGCACACTTACTACCA
32377164 AA
1 AA
32377166 ACTTCCGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTACTACCA
Found at i:32384362 original size:30 final size:29
Alignment explanation
Indices: 32384314--32384374 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
32384304 CAAGTAGCCG
* *
32384314 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATAGCACACTTACTGCCA
32384343 AAGCTAGTTTAAATAGCACACTTACTGCCA
1 AAGCTAG-TTAAATAGCACACTTACTGCCA
32384373 AA
1 AA
32384375 ACTTCTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATAGCACACTTACTGCCA
Found at i:32387280 original size:29 final size:29
Alignment explanation
Indices: 32387214--32387309 Score: 158
Period size: 29 Copynumber: 3.3 Consensus size: 29
32387204 AAGTCTACAT
* *
32387214 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
32387242 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
32387271 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
32387300 ACATTCATAT
1 ACATTCATAT
32387310 ACATGCTTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 21 0.33
29 42 0.67
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:32398134 original size:82 final size:81
Alignment explanation
Indices: 32398017--32398172 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
32398007 AAATTGTACA
* * * *
32398017 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGAACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
32398081 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32398098 GCACTAAGTGTGCGAGTCTGACTATGTAGAACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGAACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
32398163 TGCGAGTTGA
65 TGCGAATTGA
32398173 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGAACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Done.