Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 100 of 150
Found at i:31382687 original size:21 final size:20
Alignment explanation
Indices: 31382663--31382716 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
31382653 GAATTTTATT
31382663 TAATATTTTTATAAATTTTAA
1 TAAT-TTTTTATAAATTTTAA
*
31382684 TAATGTTTTTATATA-TTT-A
1 TAAT-TTTTTATAAATTTTAA
31382703 TAATTTTTTA-AAAT
1 TAATTTTTTATAAAT
31382717 ATTTTTGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 6 0.21
19 5 0.17
20 3 0.10
21 13 0.45
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTTTTATAAATTTTAA
Found at i:31382697 original size:29 final size:29
Alignment explanation
Indices: 31382631--31382735 Score: 78
Period size: 29 Copynumber: 3.7 Consensus size: 29
31382621 TTTTTTATTA
31382631 ATTTTTA-ATTTTT-TAAATTTT--TGAAT
1 ATTTTTATATTTTTATAAATTTTAAT-AAT
*
31382657 TTTATTTAATATTTTTATAAATTTTAATAAT
1 ATT-TTT-ATATTTTTATAAATTTTAATAAT
* * *
31382688 GTTTTTATATATTTATAATTTTTTAA-AAT
1 ATTTTTATATTTTTATAA-ATTTTAATAAT
* *
31382717 ATTTTT-GATTTTTAAAAAT
1 ATTTTTATATTTTTATAAAT
31382736 AAGCTTTGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.03
27 4 0.06
28 9 0.14
29 25 0.40
30 17 0.27
31 5 0.08
32 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTTTATATTTTTATAAATTTTAATAAT
Found at i:31382718 original size:19 final size:20
Alignment explanation
Indices: 31382663--31382720 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
31382653 GAATTTTATT
31382663 TAATATTTTTATAAAT-TTTAA
1 TAATATTTTTA-AAATATTT-A
* *
31382684 TAATGTTTTT-ATATATTTA
1 TAATATTTTTAAAATATTTA
31382703 TAAT-TTTTTAAAATATTT
1 TAATATTTTTAAAATATTT
31382721 TTGATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 5 0.16
19 15 0.47
20 3 0.09
21 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TAATATTTTTAAAATATTTA
Found at i:31385054 original size:109 final size:109
Alignment explanation
Indices: 31384876--31385176 Score: 476
Period size: 109 Copynumber: 2.8 Consensus size: 109
31384866 ATATTTGGCA
* *
31384876 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
31384941 CAAAACATTGTCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTAAAAAGGATATTAAGCC
31384985 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
31385050 CAAAACATTGCCTTATTTTAAAATTTTAAAAAGGATATTTAGCT
66 CAAAACATTGCCTTATTTTAAAATTTTAAAAAGGATATTAAGCC
* * * * * *
31385094 ATTTAGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTCCTCGAAATTCCAAATG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
31385159 CTAAATATTGCCTTATTT
66 CAAAACATTGCCTTATTT
31385177 AGAAAAATTT
Statistics
Matches: 178, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 178 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTAAAAAGGATATTAAGCC
Found at i:31385717 original size:12 final size:14
Alignment explanation
Indices: 31385692--31385724 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
31385682 AGGAAAAAGA
31385692 GTATATAGATATAT
1 GTATATAGATATAT
31385706 GTATATA-A-ATAT
1 GTATATAGATATAT
31385718 GTATATA
1 GTATATA
31385725 TAAAAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (14 bp):
GTATATAGATATAT
Found at i:31385725 original size:14 final size:14
Alignment explanation
Indices: 31385693--31385775 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 14
31385683 GGAAAAAGAG
* *
31385693 TATATAGATATATG
1 TATATAAATATATA
*
31385707 TATATAAATATGTA
1 TATATAAATATATA
31385721 TATATAAA-A-AGTA
1 TATATAAATATA-TA
31385734 T-T-T-AATATATA
1 TATATAAATATATA
*
31385745 TAT-TAAATAAATTA
1 TATATAAATATA-TA
31385759 TATATGAAATATATA
1 TATAT-AAATATATA
31385774 TA
1 TA
31385776 AGCACTTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
10 2 0.04
11 5 0.09
12 4 0.07
13 9 0.16
14 24 0.44
15 5 0.09
16 6 0.11
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
TATATAAATATATA
Found at i:31391614 original size:69 final size:69
Alignment explanation
Indices: 31391438--31392412 Score: 742
Period size: 69 Copynumber: 14.2 Consensus size: 69
31391428 TTCGCTTGCA
* * * * * * * * * *
31391438 AACCTTATTTCTATAGCTGGGAGTTTTACTCTCGCTAACTATTTTAGATGTTGCGGCTATTCGCT
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31391503 TGCA
66 TGCG
* * ** * *
31391507 AACCTTG-TTTTATAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCAACTATTCACT
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31391571 TGTG
66 TGCG
* ** *
31391575 AACTTTGTTTTTACAGCTGGGAGCTTTGCTCTCATTAACTGTTTTA-AAGGTTCCGGCTCTTCAC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAA-GTTGCGGCTCTTCAC
*
31391639 TTGCG
65 CTGCG
* * ** * * * ** *
31391644 TACCTTGTTTTTACAACTGGGAGCTTTATTCTTGCTAACTGTTTTAGAGGTTGCGACTCTTTGCT
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31391709 TGTG
66 TGCG
** * * * * * * * *
31391713 AAATTTG-TTTTATAGTTAGGAGATTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCTTCGCT
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31391777 TGTG
66 TGCG
* * * * * **
31391781 AACATTATTTTTAAAACTTGGAGCTTTGCTCTCGCTAACTGTTTTA-AAGGTTGTTGCTCTTCAC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAA-GTTGCGGCTCTTCAC
31391845 CTGCG
65 CTGCG
* * * * * * *
31391850 AACCTTTTTTTTATAGCTAGGAGCTTTGCTTTTGCTAACTGTTTTAG-AGTTTGTGGCTCTTCGC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAG-TTGCGGCTCTTCAC
*
31391914 CTGCA
65 CTGCG
* * * * ** *
31391919 AACCTTATTTTTACAGCTGGGATCTTTGCTCTCGCTAACTATTTTAGAGGTTATGGCTCTTCACT
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31391984 TACG
66 TGCG
* * * * ** * * * *
31391988 AACCTTATTTTTACAGTTAGGAGCTTTTCTCTTACTAACTATTTTA-AAGGCTGCAGC-CATTCG
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAA-GTTGCGGCTC-TTCA
31392051 CCTGCG
64 CCTGCG
* * * * * * * * *
31392057 GACCTTGTTTTTACAACTGAGAGATTTTCTCTCGCTAACTGTTTTA-AAGGCTGTGACTGTTCAC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAA-GTTGCGGCTCTTCAC
**
31392121 CTATG
65 CTGCG
* * * * * * *
31392126 AATCTTGTTTTTACAGCTGGGAGCTTTTCTCTTGCTAACTATTTTAGAGGTTGTGGCTCTTCGCC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31392191 TGTG
66 TGCG
* * * * ** * *
31392195 AACCTTATTTTTACAGTTAGAAGCTTTATTCTTGCTAACTGTTTTAGAGGTTGCGGCTCTTCACC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31392260 TACG
66 TGCG
** * * * **
31392264 AACCTTGTTTTTACAGCTCAGAGCTTTGCTCTCACTATCTGTTTTAGAGGTTGCCACTCTTCACC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31392329 TGTG
66 TGCG
* ** * * * *
31392333 AACCTTGTTTTTACAACTACGAACTTTGCTCTCGTTAACTGTTTTAGAGGTTACGGCTCTTCACC
1 AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
*
31392398 TACG
66 TGCG
31392402 AACCTTGTTTT
1 AACCTTGTTTT
31392413 CACCGACGAT
Statistics
Matches: 726, Mismatches: 168, Indels: 24
0.79 0.18 0.03
Matches are distributed among these distances:
68 116 0.16
69 607 0.84
70 3 0.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (69 bp):
AACCTTGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCGGCTCTTCACC
TGCG
Found at i:31391720 original size:138 final size:138
Alignment explanation
Indices: 31391452--31392412 Score: 847
Period size: 138 Copynumber: 7.0 Consensus size: 138
31391442 TTATTTCTAT
* * * * * * * *
31391452 AGCTGGGAGTTTTACTCTCGCTAACTATTTTAGATGTTGCGGCTATTCGCTTGCAAACCTTG-TT
1 AGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTGTTT
* ** * * * * **
31391516 TTATAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCAACTATTCACTTGTGAACTTT
66 TTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCACCTACGAACTTT
31391581 GTTTTTAC
131 GTTTTTAC
* ** * * * * *
31391589 AGCTGGGAGCTTTGCTCTCATTAACTGTTTTAAAGGTTCCGGCTCTTCACTTGCGTACCTTGTTT
1 AGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTGTTT
** * ** * ** *
31391654 TTACAACTGGGAGCTTTATTCTTGCTAACTGTTTTAGAGGTTGCGACTCTTTGCTTGTGAAATTT
66 TTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCACCTACGAACTTT
*
31391719 G-TTTTAT
131 GTTTTTAC
* * * * * * *
31391726 AGTTAGGAGATTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCTTCGCTTGTGAACATTATTT
1 AGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTGTTT
* * * * *
31391791 TTAAAACTTGGAGCTTTGCTCTCGCTAACTGTTTTAAAGGTTGTTG-CTCTTCACCTGCGAACCT
66 TTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTG-CGACTCTTCACCTACGAA-CT
*
31391855 TT-TTTTTAT
129 TTGTTTTTAC
* * * * * *
31391864 AGCTAGGAGCTTTGCTTTTGCTAACTGTTTTAGAGTTTGTGGCTCTTCGCCTGCAAACCTTATTT
1 AGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTGTTT
* * * ** * * *
31391929 TTACAGCTGGGATCTTTGCTCTCGCTAACTATTTTAGAGGTTATGGCTCTTCACTTACGAACCTT
66 TTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCACCTACGAACTTT
*
31391994 ATTTTTAC
131 GTTTTTAC
* * ** * * * * *
31392002 AGTTAGGAGCTTTTCTCTTACTAACTATTTTAAAGGCTGCAGC-CATTCGCCTGCGGACCTTGTT
1 AGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTC-TTCGCCTGCGAACCTTGTT
* * * * * * * *
31392066 TTTACAACTGAGAGATTTTCTCTCGCTAACTGTTTTAAAGGCTGTGACTGTTCACCTATGAA-TC
65 TTTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCACCTACGAACT-
31392130 TTGTTTTTAC
129 TTGTTTTTAC
* * * * * * *
31392140 AGCTGGGAGCTTTTCTCTTGCTAACTATTTTAGAGGTTGTGGCTCTTCGCCTGTGAACCTTATTT
1 AGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTGTTT
** * * ** * * *
31392205 TTACAGTTAGAAGCTTTATTCTTGCTAACTGTTTTAGAGGTTGCGGCTCTTCACCTACGAACCTT
66 TTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCACCTACGAACTTT
31392270 GTTTTTAC
131 GTTTTTAC
* * ** * *
31392278 AGCTCA-GAGCTTTGCTCTCACTATCTGTTTTAGAGGTTGCCACTCTTCACCTGTGAACCTTGTT
1 AGCT-AGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTGTT
** * * * * *
31392342 TTTACAACTACGAACTTTGCTCTCGTTAACTGTTTTAGAGGTTACGGCTCTTCACCTACGAACCT
65 TTTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCACCTACGAACTT
31392407 TGTTTT
130 TGTTTT
31392413 CACCGACGAT
Statistics
Matches: 668, Mismatches: 145, Indels: 21
0.80 0.17 0.03
Matches are distributed among these distances:
137 161 0.24
138 506 0.76
139 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (138 bp):
AGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTGTTT
TTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCACCTACGAACTTT
GTTTTTAC
Found at i:31392035 original size:207 final size:206
Alignment explanation
Indices: 31391438--31392396 Score: 877
Period size: 207 Copynumber: 4.6 Consensus size: 206
31391428 TTCGCTTGCA
* * * * * * * * * * *
31391438 AACCTTATTTCTATAGCTGGGAGTTTTACTCTCGCTAACTATTTTAGATGTTGCGGCTATTCGCT
1 AACCTTGTTTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCGCC
* * * * *** *
31391503 TGCAAACCTTGTTTTATAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAAGTTGCAACTATTC
66 TGCAAACCTTTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCTTC
* * * * * *
31391568 ACTTGTGAACTTTGTTTTTACAGCTGGGAGCTTTGCTCTCATTAACTGTTTTAAAGGTTCCGGCT
131 ACTTGTGAACCTTATTTTTACAGTTAGGAGCTTTGCTCTCACTAACTGTTTTAAAGGTTGCGGCT
*
31391633 CTTCACTTGCG
196 CTTCACCTGCG
* * * ** * * *
31391644 TACCTTGTTTTTACAACTGGGAGCTTTATTCTTGCTAACTGTTTTAGAGGTTGCGACTCTTTGCT
1 AACCTTGTTTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCGCC
* * * * *
31391709 TGTGAAA--TTTGTTTTATAGTTAGGAGATTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCT
66 TG-CAAACCTTT-TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCT
* * * * * **
31391772 TCGCTTGTGAACATTATTTTTAAAACTT-GGAGCTTTGCTCTCGCTAACTGTTTTAAAGGTTGTT
129 TCACTTGTGAACCTTATTTTT-ACAGTTAGGAGCTTTGCTCTCACTAACTGTTTTAAAGGTTGCG
31391836 GCTCTTCACCTGCG
193 GCTCTTCACCTGCG
* * * * * * *
31391850 AACCTTTTTTTTATAGCTAGGAGCTTTGCTTTTGCTAACTGTTTTAGAGTTTGTGGCTCTTCGCC
1 AACCTTGTTTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCGCC
* * *
31391915 TGCAAACCTTATTTTTACAGCTGGGATCTTTGCTCTCGCTAACTATTTTAGAGGTTATGGCTCTT
66 TGCAAACCTT-TTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCTT
** * * * * *
31391980 CACTTACGAACCTTATTTTTACAGTTAGGAGCTTTTCTCTTACTAACTATTTTAAAGGCTGCAGC
130 CACTTGTGAACCTTATTTTTACAGTTAGGAGCTTTGCTCTCACTAACTGTTTTAAAGGTTGCGGC
*
31392045 -CATTCGCCTGCG
195 TC-TTCACCTGCG
* * * * * * * * *
31392057 GACCTTGTTTTTACAACT-GAGAGATTTTCTCTCGCTAACTGTTTTAAAGGCTGTGACTGTTCAC
1 AACCTTGTTTTTACAGCTAG-GAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCGC
*** * * * *
31392121 CTATGAATCTTGTTTTTACAGCTGGGAGCTTTTCTCTTGCTAACTATTTTAGAGGTTGTGGCTCT
65 CTGCAAACCTT-TTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCT
* * * ** ** *
31392186 TCGCCTGTGAACCTTATTTTTACAGTTAGAAGCTTTATTCTTGCTAACTGTTTTAGAGGTTGCGG
129 TCACTTGTGAACCTTATTTTTACAGTTAGGAGCTTTGCTCTCACTAACTGTTTTAAAGGTTGCGG
*
31392251 CTCTTCACCTACG
194 CTCTTCACCTGCG
* * * *
31392264 AACCTTGTTTTTACAGCTCA-GAGCTTTGCTCTCACTATCTGTTTTAGAGGTTGCCACTCTTCAC
1 AACCTTGTTTTTACAGCT-AGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCGC
** * ** * * **
31392328 CTGTGAACCTTGTTTTTACAACTACGAACTTTGCTCTCGTTAACTGTTTTAGAGGTTACGGCTCT
65 CTGCAAACCTT-TTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCT
31392393 TCAC
129 TCAC
31392397 CTACGAACCT
Statistics
Matches: 611, Mismatches: 130, Indels: 23
0.80 0.17 0.03
Matches are distributed among these distances:
205 5 0.01
206 221 0.36
207 383 0.63
208 2 0.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (206 bp):
AACCTTGTTTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCGACTCTTCGCC
TGCAAACCTTTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGTGGCTCTTC
ACTTGTGAACCTTATTTTTACAGTTAGGAGCTTTGCTCTCACTAACTGTTTTAAAGGTTGCGGCT
CTTCACCTGCG
Found at i:31400421 original size:11 final size:11
Alignment explanation
Indices: 31400407--31400436 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
31400397 TTAATTTAGT
31400407 TTTATTTTCAG
1 TTTATTTTCAG
*
31400418 TTTATTTTTAG
1 TTTATTTTCAG
31400429 TTTATTTT
1 TTTATTTT
31400437 GTACTTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTATTTTCAG
Found at i:31401763 original size:22 final size:22
Alignment explanation
Indices: 31401733--31401781 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
31401723 GAACATCCAC
31401733 ATGA-GTTCACTGGTAATTTGT
1 ATGAGGTTCACTGGTAATTTGT
31401754 ATGAGGTTCACTGGTAATTTGT
1 ATGAGGTTCACTGGTAATTTGT
31401776 ATGAGG
1 ATGAGG
31401782 CACCTGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (22 bp):
ATGAGGTTCACTGGTAATTTGT
Found at i:31405423 original size:23 final size:24
Alignment explanation
Indices: 31405382--31405437 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
31405372 CCGGGCTCAC
*
31405382 ATATGGAA-ACATAATTTTTGAGG
1 ATATGCAATACATAATTTTTGAGG
31405405 ATATGCAATACATAATTTTTGAGG
1 ATATGCAATACATAATTTTTGAGG
31405429 ATATGCAAT
1 ATATGCAAT
31405438 CTTAGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (24 bp):
ATATGCAATACATAATTTTTGAGG
Found at i:31405452 original size:19 final size:19
Alignment explanation
Indices: 31405428--31405559 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
31405418 AATTTTTGAG
31405428 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
31405447 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
31405466 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31405485 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
31405506 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
31405525 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31405544 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
31405560 ATATATGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31405498 original size:59 final size:57
Alignment explanation
Indices: 31405428--31405566 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 57
31405418 AATTTTTGAG
* *
31405428 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATACTAGATATGATATACAATCTTAGATAT
* *
31405485 GATATATGCAATCTTAGATATGATATGCAATATTAGATATGATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATACTAGATATGATATACAATCTTAGATAT
31405544 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
31405567 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 53 0.70
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATACTAGATATGATATACAATCTTAGATAT
Found at i:31406227 original size:16 final size:16
Alignment explanation
Indices: 31406208--31406238 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31406198 TTTTCTCATA
*
31406208 TATATATATGTATATG
1 TATATATACGTATATG
31406224 TATATATACGTATAT
1 TATATATACGTATAT
31406239 TTTATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (16 bp):
TATATATACGTATATG
Found at i:31407165 original size:98 final size:98
Alignment explanation
Indices: 31407045--31407241 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
31407035 TAAAAAATAA
* *
31407045 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
31407110 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
*
31407143 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
31407208 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
31407241 T
1 T
31407242 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
Found at i:31411432 original size:12 final size:12
Alignment explanation
Indices: 31411416--31411464 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
31411406 AAAATATTTC
*
31411416 AAAAAAAAAGAGG
1 AAAAAGAAA-AGG
31411429 AAAAAGAAAAGG
1 AAAAAGAAAAGG
*
31411441 AAAAAGGAAAAAAG
1 AAAAA-G-AAAAGG
31411455 AAAAAGAAAA
1 AAAAAGAAAA
31411465 AGTAAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:31411447 original size:7 final size:7
Alignment explanation
Indices: 31411421--31411471 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
31411411 ATTTCAAAAA
31411421 AAAAGAGG
1 AAAA-AGG
31411429 AAAAA-G
1 AAAAAGG
31411435 -AAAAGG
1 AAAAAGG
31411441 AAAAAGG
1 AAAAAGG
*
31411448 AAAAAAG
1 AAAAAGG
31411455 AAAAA-G
1 AAAAAGG
*
31411461 AAAAAGT
1 AAAAAGG
31411468 AAAA
1 AAAA
31411472 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.11
6 8 0.21
7 22 0.58
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAAAAGG
Found at i:31411452 original size:20 final size:20
Alignment explanation
Indices: 31411416--31411471 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
31411406 AAAATATTTC
31411416 AAAAA-AAAAGAGG-AAAAAG
1 AAAAAGAAAA-AGGAAAAAAG
*
31411435 AAAAGGAAAAAGGAAAAAAG
1 AAAAAGAAAAAGGAAAAAAG
*
31411455 AAAAAGAAAAAGTAAAA
1 AAAAAGAAAAAGGAAAA
31411472 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGGAAAAAAG
Found at i:31412862 original size:44 final size:44
Alignment explanation
Indices: 31412686--31412862 Score: 103
Period size: 44 Copynumber: 4.0 Consensus size: 44
31412676 ATCAGTGAAA
* *
31412686 ATTGTAGATCTTATCTCCCTAAACAATAGTGGAGCAGATCGAAG
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
* * * * **
31412730 ATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG
1 ATTGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAG
** * * * * * * * * *
31412774 CCA-TCAAG-CCTTGTTTCCCTGAGCAGCAGCGGAGTAGGTTGAAG
1 --ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
31412818 ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
31412862 A
1 A
31412863 CGACAAATCA
Statistics
Matches: 91, Mismatches: 32, Indels: 20
0.64 0.22 0.14
Matches are distributed among these distances:
42 5 0.05
43 9 0.10
44 67 0.74
45 7 0.08
46 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
Found at i:31412946 original size:44 final size:44
Alignment explanation
Indices: 31412894--31413459 Score: 279
Period size: 44 Copynumber: 13.1 Consensus size: 44
31412884 GATAGTGGGA
* *
31412894 AGCAGATTAAAGTCGACAATCCTATCTCCCTGAAGTTTCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
31412938 AGCGGATTAAAATC-ACAGATCTTATC-CCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCC-CTGAAGTTGCAGTGG
*** * * *
31412981 AGCAGATCGCA-TC--TAGTCTTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
31413022 AGCAGACT-AAGT-AAGCAAGTCTTATC-CTTCTAAAGTTACAGT-G
1 AGCAGATTAAAGTCGA-CAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
31413065 AGGCAGACTGAAGAT-GGCAAATCTTATCTTCCTGAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTGAAGTTGCAGTGG
*
31413111 AGCAGATTAAAG-CTGACAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTC-GACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * *
31413155 AGCGGATTAAAAT-TACAGATCTTATCTCTCTGAAGTTACAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGG
*** * * * *
31413198 AGCAGATCGCA-TC--TAGTCTTATCTCCTTGAAGTTGCGGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
31413239 A-CAAGACT-AAGT-AAGCAAGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAAAGTCGA-CAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
31413282 AGGCAAACTGAAGAT-GGCAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGACAA-TCTTATCTCCCTGAAGTTGCAGTGG
* * * *
31413328 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
** * * *
31413372 AGTGGATTAAAATC-ACAGATCTTATCTCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGG
*** * *
31413415 AGCAGATCGCA-TC--TAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
31413456 AGCA
1 AGCA
31413460 NNNNNNNNNN
Statistics
Matches: 397, Mismatches: 87, Indels: 79
0.71 0.15 0.14
Matches are distributed among these distances:
40 60 0.15
41 24 0.06
42 5 0.01
43 42 0.11
44 185 0.47
45 72 0.18
46 9 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
Found at i:31413136 original size:217 final size:217
Alignment explanation
Indices: 31412894--31413459 Score: 956
Period size: 217 Copynumber: 2.6 Consensus size: 217
31412884 GATAGTGGGA
*
31412894 AGCAGATTAAAG-TCGACAATCCTATCTCCCTGAAGTTTCAGTGGAGCGGATTAAAATCACAGAT
1 AGCAGATTAAAGCT-GACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGAT
* *
31412958 CTTATCCCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGA
65 CTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
* *
31413023 GCAGACTAAGTAAGCAAGTCTTATCCTTCTAAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
130 GCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAAACTGAAGATGGCAAATC
*
31413088 TTATCTTCCTGAAGTTGCAGTGG
195 TTATCTCCCTGAAGTTGCAGTGG
*
31413111 AGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTACAGATC
1 AGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* * *
31413176 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCGGTGGA-
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
31413240 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGGCAAGTC
131 C-AGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAAACTGAAGATGGCAAATC
31413305 TTATCTCCCTGAAGTTGCAGTGG
195 TTATCTCCCTGAAGTTGCAGTGG
* * * *
31413328 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATCACAGATC
1 AGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
31413393 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
31413458 CA
131 CA
31413460 NNNNNNNNNN
Statistics
Matches: 326, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
216 1 0.00
217 323 0.99
218 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAAACTGAAGATGGCAAATCT
TATCTCCCTGAAGTTGCAGTGG
Found at i:31413729 original size:98 final size:98
Alignment explanation
Indices: 31413560--31413773 Score: 428
Period size: 98 Copynumber: 2.2 Consensus size: 98
31413550 NNNNNNNNNN
31413560 TGGATGTTCTTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAAC
1 TGGATGTTCTTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAAC
31413625 GTATTGGGTGTGATTTCTTAAATCTTGAATAAG
66 GTATTGGGTGTGATTTCTTAAATCTTGAATAAG
31413658 TGGATGTTCTTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAAC
1 TGGATGTTCTTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAAC
31413723 GTATTGGGTGTGATTTCTTAAATCTTGAATAAG
66 GTATTGGGTGTGATTTCTTAAATCTTGAATAAG
31413756 TGGATGTTCTTTTAAAGT
1 TGGATGTTCTTTTAAAGT
31413774 TTTATTGTAC
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TGGATGTTCTTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAAC
GTATTGGGTGTGATTTCTTAAATCTTGAATAAG
Found at i:31414700 original size:33 final size:33
Alignment explanation
Indices: 31414653--31414879 Score: 117
Period size: 33 Copynumber: 6.5 Consensus size: 33
31414643 ATATGGTGGG
*
31414653 ATCAACACTTAGCAACCACCAATGATTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
31414686 ATCAGCACTTAGCAACC-CC------TCGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTC-GGGGA
* * * *
31414713 ATCAACACTTAGAAACCCCCTTCACATTTAAGATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGA
*
31414755 ATCAGCACTTAGCAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
* * * *
31414788 ATCAACAATTAGCAACCCCTTTCACATTTAAGATACGGCGGA
1 ATCAGCACTTAGCAACCAC---CA-A--T--GATTCGG-GGA
* * *
31414830 ATCAGCACTTAGTAACCACCAATGAATCAGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
31414863 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
31414880 CCCTTTATAT
Statistics
Matches: 146, Mismatches: 22, Indels: 52
0.66 0.10 0.24
Matches are distributed among these distances:
26 2 0.01
27 18 0.12
28 2 0.01
29 1 0.01
31 1 0.01
32 2 0.01
33 54 0.37
34 9 0.06
36 4 0.03
37 1 0.01
38 2 0.01
39 5 0.03
41 10 0.07
42 35 0.24
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGATTCGGGGA
Found at i:31414730 original size:102 final size:102
Alignment explanation
Indices: 31414606--31414807 Score: 332
Period size: 102 Copynumber: 2.0 Consensus size: 102
31414596 CCAATGAGTC
* * * *
31414606 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATATGGTGGGATCAACACTTAGCAACCA
1 GGGGAATCAACACTTAGAAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
* * *
31414671 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAGTCGGGGAATCAACAATTAGCAACCCCTCG
*
31414708 GGGGAATCAACACTTAGAAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGAAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
31414773 CCAATGAGTCGGGGAATCAACAATTAGCAACCCCT
66 CCAATGAGTCGGGGAATCAACAATTAGCAACCCCT
31414808 TTCACATTTA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATCAACACTTAGAAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
CCAATGAGTCGGGGAATCAACAATTAGCAACCCCTCG
Found at i:31414812 original size:75 final size:75
Alignment explanation
Indices: 31414708--31414884 Score: 282
Period size: 75 Copynumber: 2.4 Consensus size: 75
31414698 CAACCCCTCG
* *
31414708 GGGGAATCAACACTTAGAAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGCGGAATCAGCACTTAGCAACCA
*
31414773 CCAATGAGTC
66 CCAATGAATC
* * *
31414783 GGGGAATCAACAATTAGCAACCCCTTTCACATTTAAGATACGGCGGAATCAGCACTTAGTAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGCGGAATCAGCACTTAGCAACCA
31414848 CCAATGAATC
66 CCAATGAATC
* *
31414858 AGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAACACTTAGCAACCCCCTT
31414885 TATATTCAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 92 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (75 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGCGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:31422258 original size:75 final size:75
Alignment explanation
Indices: 31422134--31422413 Score: 249
Period size: 75 Copynumber: 3.8 Consensus size: 75
31422124 TATCCGTTAT
* * *
31422134 CGGTGGATTCAGCACTTAGCAACCACCAGTGAGTCGGGGAATCAACACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTCAC
31422199 ATTTAAGATA
66 ATTTAAGATA
* *
31422209 CGGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC--TCAG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTCA-
* * *
31422272 GGGA-ATCAGA-A
65 --CATTTAAGATA
* * * * * ** * * *
31422283 C-TTAGAAAC-CCCCTT--C-A-CATTTAA-GATACGGTGGAATCAGCACTTAGCAACCACTTTC
1 CGGTGGAATCAGCACTTAGCAACCA-CCAATGATTCGG-GGAATCAACACTTAGCAACCCCTTTC
31422341 ACATTTAAGATA
64 ACATTTAAGATA
* * *
31422353 TGGTGGAATCAGCACTTAGCAACCACAAATGAATCGGGGAATCAACACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTT
31422414 GTGGGAATTA
Statistics
Matches: 156, Mismatches: 33, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
68 9 0.06
69 28 0.18
70 2 0.01
71 8 0.05
72 8 0.05
73 7 0.04
74 3 0.02
75 83 0.53
76 8 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:31422342 original size:42 final size:42
Alignment explanation
Indices: 31422273--31422378 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
31422263 ACCCCTCAGG
* * *
31422273 GGAATCAGAACTTAGAAACCCCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCACCTTCACATTTAAGATACGGT
* *
31422315 GGAATCAGCACTTAGCAACCACTTTCACATTTAAGATATGGT
1 GGAATCAGCACTTAGCAACCACCTTCACATTTAAGATACGGT
31422357 GGAATCAGCACTTAGCAACCAC
1 GGAATCAGCACTTAGCAACCAC
31422379 AAATGAATCG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTCACATTTAAGATACGGT
Found at i:31443466 original size:30 final size:31
Alignment explanation
Indices: 31443411--31443468 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
31443401 ACCCTTAAAA
** *
31443411 TATTTACACTATTGGTCCTTCAAATTTTTCG
1 TATTTACACTATTAATCCCTCAAATTTTTCG
31443442 TATTTACACT-TTAATCCCTCAAATTTT
1 TATTTACACTATTAATCCCTCAAATTTT
31443469 GAGTACTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTTCG
Found at i:31444934 original size:32 final size:33
Alignment explanation
Indices: 31444875--31444937 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
31444865 CATGCTAAAT
*
31444875 TTTGACAATTTTGTATAAAATTTTTTTTTTGGTA
1 TTTGAAAATTTTGTAT-AAATTTTTTTTTTGGTA
31444909 TTTGAAAATTTTGTAT-AATTTTTTTTTTG
1 TTTGAAAATTTTGTATAAATTTTTTTTTTG
31444938 ATGTTCTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 13 0.46
34 15 0.54
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (33 bp):
TTTGAAAATTTTGTATAAATTTTTTTTTTGGTA
Found at i:31445228 original size:107 final size:108
Alignment explanation
Indices: 31445042--31445254 Score: 365
Period size: 107 Copynumber: 2.0 Consensus size: 108
31445032 TATTTGGTAT
* *
31445042 TTGACAATTTTGTATAATATACAAGTATTATAATAAACATAAATTCTTAACTACAACTTTATTAA
1 TTGACAATTTTGTATAATATACAAGTATTATAATAAACATAAACTCTTAACTACAACTTTATCAA
*
31445107 AGATGGGTAGAATTTTCTT-TCTTTTCATTAATTTTGTTTAGG
66 AAATGGGTAGAATTTTCTTCTCTTTTCATTAATTTTGTTTAGG
* * *
31445149 TTGACAATTTTGTATAATATACAAGTATTATGATAAATATCAACTCTTAACTACAACTTTATCAA
1 TTGACAATTTTGTATAATATACAAGTATTATAATAAACATAAACTCTTAACTACAACTTTATCAA
31445214 AAATGGGTAGAATTTTCTTCTCTTTTCATTAATTTTGTTTA
66 AAATGGGTAGAATTTTCTTCTCTTTTCATTAATTTTGTTTA
31445255 AGTAGGGATG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 78 0.79
108 21 0.21
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (108 bp):
TTGACAATTTTGTATAATATACAAGTATTATAATAAACATAAACTCTTAACTACAACTTTATCAA
AAATGGGTAGAATTTTCTTCTCTTTTCATTAATTTTGTTTAGG
Found at i:31447245 original size:28 final size:29
Alignment explanation
Indices: 31447202--31447258 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
31447192 TTAAAATTTT
*
31447202 AAAAATAAAAAGATTAAATTCTTAAAATA
1 AAAAATAAAAAGATTAAATTCTAAAAATA
* *
31447231 AAAAAT-AAAATATTAAATTGTAAAAATA
1 AAAAATAAAAAGATTAAATTCTAAAAATA
31447259 GGAAGCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (29 bp):
AAAAATAAAAAGATTAAATTCTAAAAATA
Found at i:31450841 original size:8 final size:8
Alignment explanation
Indices: 31450830--31450861 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
31450820 TATATTGTTA
31450830 TATTATAT
1 TATTATAT
*
31450838 TATTATAA
1 TATTATAT
31450846 TATTATAT
1 TATTATAT
31450854 TATTATAT
1 TATTATAT
31450862 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:31450848 original size:16 final size:15
Alignment explanation
Indices: 31450828--31450864 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
31450818 AGTATATTGT
31450828 TATATTATATTATTA
1 TATATTATATTATTA
31450843 TAATATTATATTATTA
1 T-ATATTATATTATTA
31450859 TATATT
1 TATATT
31450865 TATAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTATATTATTA
Found at i:31450867 original size:8 final size:9
Alignment explanation
Indices: 31450828--31450868 Score: 54
Period size: 8 Copynumber: 5.0 Consensus size: 9
31450818 AGTATATTGT
31450828 TATATTATA
1 TATATTATA
31450837 T-TATTATA
1 TATATTATA
31450845 -ATATTATA
1 TATATTATA
31450853 T-TATTATA
1 TATATTATA
31450861 TAT-TTATA
1 TATATTATA
31450869 AAACAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 27 0.93
9 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATATTATA
Found at i:31450899 original size:20 final size:19
Alignment explanation
Indices: 31450874--31450941 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
31450864 TTATAAAACA
31450874 AAAGAAAGAATAGAAATGGG
1 AAAGAAAGAATAGAAAT-GG
*
31450894 AAAGAAAGAA-ACAAA--G
1 AAAGAAAGAATAGAAATGG
*
31450910 AAGGAGAAAGGATAGAAATGAG
1 AA--AGAAAGAATAGAAATG-G
31450932 AAAGAAAGAA
1 AAAGAAAGAA
31450942 ACAAAGAAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
16 3 0.08
18 7 0.18
19 8 0.21
20 17 0.45
22 3 0.08
ACGTcount: A:0.65, C:0.01, G:0.28, T:0.06
Consensus pattern (19 bp):
AAAGAAAGAATAGAAATGG
Found at i:31450927 original size:38 final size:38
Alignment explanation
Indices: 31450876--31450959 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
31450866 ATAAAACAAA
* * *
31450876 AGAAAGAATAGAAATGGGAAAGAAAGAAACAAAGAAGG
1 AGAAAGGATAGAAATGAGAAAGAAAGAAACAAAGAAGC
31450914 AGAAAGGATAGAAATGAGAAAGAAAGAAACAAAGAAGC
1 AGAAAGGATAGAAATGAGAAAGAAAGAAACAAAGAAGC
31450952 AGAAAGGA
1 AGAAAGGA
31450960 GAAAGAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.63, C:0.04, G:0.29, T:0.05
Consensus pattern (38 bp):
AGAAAGGATAGAAATGAGAAAGAAAGAAACAAAGAAGC
Found at i:31450972 original size:38 final size:37
Alignment explanation
Indices: 31450876--31450979 Score: 112
Period size: 38 Copynumber: 2.9 Consensus size: 37
31450866 ATAAAACAAA
* *
31450876 AGAAA-GAATAGAAATGGGAAAGAAAGAAACAAAGAAGG
1 AGAAAGGAA-AGAAA-GAGAAAGAAAGAAACAAAGAAGC
*
31450914 AGAAAGGATAGAAATGAGAAAGAAAGAAACAAAGAAGC
1 AGAAAGGAAAGAAA-GAGAAAGAAAGAAACAAAGAAGC
31450952 AGAAAGG--AGAAAGA-AAAGAAA-AAA-AAAG
1 AGAAAGGAAAGAAAGAGAAAGAAAGAAACAAAG
31450980 GAGAATTGGG
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
32 4 0.06
33 3 0.05
34 7 0.11
35 2 0.03
36 5 0.08
38 39 0.63
39 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.27, T:0.04
Consensus pattern (37 bp):
AGAAAGGAAAGAAAGAGAAAGAAAGAAACAAAGAAGC
Found at i:31450984 original size:29 final size:29
Alignment explanation
Indices: 31450923--31450984 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
31450913 GAGAAAGGAT
* *
31450923 AGAAATGAGAAAGAAAGAAACAAAGAAGC
1 AGAAAGGAGAAAGAAAGAAACAAAAAAGC
*
31450952 AGAAAGGAGAAAGAAAAGAAA-AAAAAAGG
1 AGAAAGGAGAAAG-AAAGAAACAAAAAAGC
31450981 AGAA
1 AGAA
31450985 TTGGGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.69, C:0.03, G:0.26, T:0.02
Consensus pattern (29 bp):
AGAAAGGAGAAAGAAAGAAACAAAAAAGC
Found at i:31456211 original size:15 final size:15
Alignment explanation
Indices: 31456176--31456214 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
31456166 ATATATATAC
*
31456176 ATGTAGTGAAAAAAA
1 ATGTATTGAAAAAAA
*
31456191 AT-TATTGAAAAAAG
1 ATGTATTGAAAAAAA
31456205 ATGTATTGAA
1 ATGTATTGAA
31456215 TTGTTGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (15 bp):
ATGTATTGAAAAAAA
Found at i:31456306 original size:28 final size:28
Alignment explanation
Indices: 31456270--31456341 Score: 144
Period size: 28 Copynumber: 2.6 Consensus size: 28
31456260 TAATGAGATT
31456270 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
31456298 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
31456326 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
31456342 ACTTATTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTGATTATTA
Found at i:31457178 original size:23 final size:23
Alignment explanation
Indices: 31457073--31457335 Score: 119
Period size: 23 Copynumber: 11.2 Consensus size: 23
31457063 AATGTTCCCC
*
31457073 AATTCGTTGTATTTATGCTGCCTA
1 AATT-GTTGTATATATGCTGCCTA
31457097 AATTGTTGTATATATGCTGTCC-A
1 AATTGTTGTATATATGCTG-CCTA
* * * * * *
31457120 ATTTTGATGTAAAAATGTTG-CTC
1 A-ATTGTTGTATATATGCTGCCTA
*
31457143 AATT-TGGTATATATGTGCTGCCTA
1 AATTGTTGTATATA--TGCTGCCTA
*
31457167 AATTGTTGTATATATACTGTCC-A
1 AATTGTTGTATATATGCTG-CCTA
* * * * *
31457190 ATTTTGATGTAAAAATGTTG-CTCA
1 A-ATTGTTGTATATATGCTGCCT-A
* * * *
31457214 ATTTGGTATATATATGCTGCCCA
1 AATTGTTGTATATATGCTGCCTA
*
31457237 ATTTGTTGTATATATGCTGTCC-A
1 AATTGTTGTATATATGCTG-CCTA
* * * *
31457260 ATTTTTGGTGTAAAAATGCTG-CTCA
1 A--ATTGTTGTATATATGCTGCCT-A
* *
31457285 ATTTTGTTGTATATATGCTGCCCA
1 A-ATTGTTGTATATATGCTGCCTA
31457309 AATTGTTGTATATATGCTGTCC-A
1 AATTGTTGTATATATGCTG-CCTA
31457332 AATT
1 AATT
31457336 TTGGTGTGAA
Statistics
Matches: 182, Mismatches: 38, Indels: 39
0.70 0.15 0.15
Matches are distributed among these distances:
21 5 0.03
22 4 0.02
23 83 0.46
24 64 0.35
25 26 0.14
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
AATTGTTGTATATATGCTGCCTA
Found at i:31457315 original size:72 final size:70
Alignment explanation
Indices: 31457086--31457389 Score: 430
Period size: 70 Copynumber: 4.3 Consensus size: 70
31457076 TCGTTGTATT
*
31457086 TATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGATGTAAAAATGTTGCTCAATTTGGT
1 TATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATGTAAAAATGTTGCTCAATTTGGT
31457151 ATATA
66 ATATA
* * *
31457156 TGTGCTGCCTAAATTGTTGTATATATACTGTCCAATTTTGATGTAAAAATGTTGCTCAATTTGGT
1 TATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATGTAAAAATGTTGCTCAATTTGGT
31457221 ATATA
66 ATATA
* * *
31457226 TATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAATTTTG
1 TATGCTGCCCAAATTGTTGTATATATGCTGTCCAA-TTTTGATGTAAAAATGTTGCTCAA-TTTG
* *
31457291 TTGTATA
64 GTATATA
* * *
31457298 TATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAAATGTTG-TCTAGTTTG
1 TATGCTGCCCAAATTGTTGTATATATGCTGTCC-AATTTTGATGTAAAAATGTTGCTC-AATTTG
31457362 GTATATA
64 GTATATA
* * *
31457369 AATGCTGTCCAAATTGATGTA
1 TATGCTGCCCAAATTGTTGTA
31457390 CAAGGGCTGT
Statistics
Matches: 211, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
70 99 0.47
71 51 0.24
72 59 0.28
73 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (70 bp):
TATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATGTAAAAATGTTGCTCAATTTGGT
ATATA
Found at i:31457968 original size:54 final size:54
Alignment explanation
Indices: 31457879--31458191 Score: 428
Period size: 54 Copynumber: 5.8 Consensus size: 54
31457869 AGACCCTAAA
* * * *
31457879 ATAGGGTAAAATGATCGAAATACCCTGATAGGGTAAAAAGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
* * * * *
31457933 ATAGGGTAAAATGACCAAAATACCCCCATAAGGTAAAATGATCGCAATACCCCTA
1 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCC-C
* *
31457988 ATAGAGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
* * *
31458042 AATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGATCAAAATACTCCC
1 -ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
* * * * *
31458097 ATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAACACCCCT
1 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
*
31458151 ATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGA
1 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGA
31458192 CTGTTATACC
Statistics
Matches: 230, Mismatches: 27, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
54 134 0.58
55 96 0.42
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (54 bp):
ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
Found at i:31458202 original size:27 final size:27
Alignment explanation
Indices: 31457879--31458192 Score: 389
Period size: 27 Copynumber: 11.6 Consensus size: 27
31457869 AGACCCTAAA
* *
31457879 ATAGGGTAAAATGATCGAAATACCCTG
1 ATAGGGTAAAATGACCGAAATACCCTC
* *
31457906 ATAGGGTAAAAAGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTC
* *
31457933 ATAGGGTAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTC
* * * *
31457960 ATAAGGTAAAATGATCGCAATACCCCTA
1 ATAGGGTAAAATGACCGAAATA-CCCTC
*
31457988 ATAGAGTAAAATGACCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCTC
** *
31458015 ATAGGGTAAAATGATTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTC
*
31458042 AATAGGGTAAAATGATCGAAATACCCTC
1 -ATAGGGTAAAATGACCGAAATACCCTC
* *
31458070 ATAGGGTAAAATGATCAAAATACTCC-C
1 ATAGGGTAAAATGACCGAAATAC-CCTC
*
31458097 ATAGGATAAAATGACCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCTC
* *
31458124 ATAGGGTAAAATGACCAAAACACCC-C
1 ATAGGGTAAAATGACCGAAATACCCTC
*
31458150 TATAGGATAAAATGACCGAAATACCCTC
1 -ATAGGGTAAAATGACCGAAATACCCTC
31458178 ATAGGGTAAAATGAC
1 ATAGGGTAAAATGAC
31458193 TGTTATACCC
Statistics
Matches: 247, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 195 0.79
28 49 0.20
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCTC
Found at i:31488517 original size:24 final size:25
Alignment explanation
Indices: 31488490--31488536 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
31488480 ACTGGTCATA
31488490 GAGAGAATTGAGGAG-GGATATTTG
1 GAGAGAATTGAGGAGAGGATATTTG
*
31488514 GAGAGATTTGAGGAGAGGATATT
1 GAGAGAATTGAGGAGAGGATATT
31488537 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.40, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGGATATTTG
Found at i:31489943 original size:27 final size:27
Alignment explanation
Indices: 31489652--31489933 Score: 393
Period size: 27 Copynumber: 10.4 Consensus size: 27
31489642 CCCAAAATAA
31489652 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
31489679 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
31489706 GGTAAAATGATCGAAATACCCCTAATAG
1 GGTAAAATGACCGAAATACCCC-CATAG
**
31489734 GGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
31489761 GGTAAAATGATCGAAGTACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
31489788 GTTAAAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
31489815 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* ** *
31489842 GATAAAATGACCGAAATACCCTAATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
31489869 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
31489896 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
31489923 GGTAAAATGAC
1 GGTAAAATGAC
31489934 TATTATACCC
Statistics
Matches: 220, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 197 0.90
28 23 0.10
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:31492102 original size:42 final size:42
Alignment explanation
Indices: 31492055--31492140 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
31492045 AATCTAACGA
31492055 GTAAGTTCGTAAATATTATTATTTAATATTTATGAGTCAAAT
1 GTAAGTTCGTAAATATTATTATTTAATATTTATGAGTCAAAT
31492097 GTAAGTTCGTAAATATTATTATTTAATATTTATGAGTCAAAT
1 GTAAGTTCGTAAATATTATTATTTAATATTTATGAGTCAAAT
31492139 GT
1 GT
31492141 GATTTTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (42 bp):
GTAAGTTCGTAAATATTATTATTTAATATTTATGAGTCAAAT
Found at i:31496233 original size:44 final size:44
Alignment explanation
Indices: 31496198--31496673 Score: 619
Period size: 44 Copynumber: 11.0 Consensus size: 44
31496188 TGACAGGATC
* * *
31496198 TACAATCTTCCACCTATTCCACTGTTGTTCAGGGTGAC-AAGATC-
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAG-CTAGGA-CA
* * *
31496242 TACAATCTTCCACCTATTCCACCGCTGTTCAAGGAGATAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * *
31496286 TGCAATATTCCACCTATTCCACTGCTGTTCTGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
31496330 TACAATATTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
31496374 TACAATCTTCCACCTATTCCACTACTGTTCAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
31496418 TGCAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * *
31496462 TACAATTTTCTACCTATTCCA---CTGTT---GGAGATAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * * * *
31496500 TATAGTTTTCCA-CTATTCCACTGTTGTTCAGGGAGTTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
31496543 TACAATCTTCCACCTATTCCACTGCTGTTCATGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * * *
31496587 TGCAATCTTCCTCCTATTCCACTGCTATTTAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * *
31496631 TACAATCTTTCACCTATTCCACTACTGTTCAGGGAGATAGGAC
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGAC
31496674 TTATAGTTTC
Statistics
Matches: 378, Mismatches: 45, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
37 8 0.02
38 20 0.05
40 4 0.01
41 5 0.01
43 21 0.06
44 320 0.85
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (44 bp):
TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
Found at i:31515891 original size:22 final size:22
Alignment explanation
Indices: 31515837--31515891 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
31515827 TGCCAGTAGT
*
31515837 CAGAATGGCTAAGAGCCGTAAA
1 CAGAATGGCTAAGAGCCATAAA
* * *
31515859 CAGGATAGCTATA-AGCTATAAA
1 CAGAATGGCTA-AGAGCCATAAA
31515881 CAGAATGGCTA
1 CAGAATGGCTA
31515892 CAAGACATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (22 bp):
CAGAATGGCTAAGAGCCATAAA
Found at i:31515961 original size:32 final size:32
Alignment explanation
Indices: 31515913--31516161 Score: 229
Period size: 32 Copynumber: 7.8 Consensus size: 32
31515903 TACAGTAATG
*
31515913 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
* *
31515945 TGATCGGCACACAGCCATCAGTAGTAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
* * * * * *
31515977 TGATCGACACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
*
31516009 TGATCGGCACAAAGCCGTCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
* * * *
31516041 TGACCGGCACACAA-CCATCAGTAACAGGGAAA
1 TGATCGGCACA-AAGCCATCAGTAGCAGTGATA
* * *
31516073 TGATTGGCACACAA-CCATCAATA--AGGTAATA
1 TGATCGGCACA-AAGCCATCAGTAGCA-GTGATA
***
31516104 TGATCGGCACAAAGCCATCAGTAATGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGA-TA
* *
31516136 TGACCGACACAAAGCCATCAGTAGCA
1 TGATCGGCACAAAGCCATCAGTAGCA
31516162 TCGCAGCAAA
Statistics
Matches: 176, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
30 3 0.02
31 22 0.12
32 149 0.85
33 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATA
Found at i:31516084 original size:96 final size:95
Alignment explanation
Indices: 31515913--31516126 Score: 302
Period size: 96 Copynumber: 2.2 Consensus size: 95
31515903 TACAGTAATG
* * * ** * *
31515913 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAGTAGTGATAT
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAACCATCAGTAACAGGGAAAT
* *
31515978 GATCGACACACAGCCATCAGTAACGGTAACA
66 GATCGACACACAACCATCAATAA-GGTAACA
*
31516009 TGATCGGCACAAAGCCGTCAGTAGCAGTGATATGACCGGCACACAACCATCAGTAACAGGGAAAT
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAACCATCAGTAACAGGGAAAT
* * *
31516074 GATTGGCACACAACCATCAATAAGGTAATA
66 GATCGACACACAACCATCAATAAGGTAACA
31516104 TGATCGGCACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
31516127 ATGGTACTAT
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 28 0.27
96 76 0.73
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.18
Consensus pattern (95 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAACCATCAGTAACAGGGAAAT
GATCGACACACAACCATCAATAAGGTAACA
Found at i:31516190 original size:26 final size:26
Alignment explanation
Indices: 31516161--31516214 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
31516151 CATCAGTAGC
31516161 ATCGCAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
31516187 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
31516213 AT
1 AT
31516215 ATGTGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:31516232 original size:27 final size:27
Alignment explanation
Indices: 31516202--31516265 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
31516192 AGCAAAGCTG
*
31516202 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
31516229 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
31516256 CCAGT-ACAGT
1 CCAGTAACAGT
31516266 TATTCCTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.21
27 25 0.74
28 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:31516362 original size:24 final size:23
Alignment explanation
Indices: 31516330--31516411 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
31516320 TCATGCTCAG
31516330 AATCAGTCATTCAAATCAAAGACA
1 AATCAGTCATTCAAA-CAAAGACA
* *
31516354 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACAAAGACA
* * *
31516378 AATCAGTCATTTAACCATAGACA
1 AATCAGTCATTCAAACAAAGACA
* *
31516401 AAACAATCATT
1 AATCAGTCATT
31516412 TGACCTCAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 18 0.37
24 27 0.55
25 4 0.08
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (23 bp):
AATCAGTCATTCAAACAAAGACA
Found at i:31516489 original size:27 final size:27
Alignment explanation
Indices: 31516452--31516576 Score: 205
Period size: 27 Copynumber: 4.6 Consensus size: 27
31516442 CCACCAGAGC
31516452 ATTACGGTCATTTTACCATACAGGGGT
1 ATTACGGTCATTTTACCATACAGGGGT
* * *
31516479 ATTACGATCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCATACAGGGGT
*
31516506 ATTACGATCATTTTACCATACAGGGGT
1 ATTACGGTCATTTTACCATACAGGGGT
*
31516533 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCATACAGGGGT
31516560 ATTACGGTCATTTTACC
1 ATTACGGTCATTTTACC
31516577 TATGAGGGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
ATTACGGTCATTTTACCATACAGGGGT
Found at i:31516517 original size:54 final size:54
Alignment explanation
Indices: 31516450--31516576 Score: 227
Period size: 54 Copynumber: 2.4 Consensus size: 54
31516440 ACCCACCAGA
31516450 GCATTACGGTCATTTTACCATACAGGGGTATTACGATCATTTTACCCTACAGGG
1 GCATTACGGTCATTTTACCATACAGGGGTATTACGATCATTTTACCCTACAGGG
* *
31516504 GCATTACGATCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGG
1 GCATTACGGTCATTTTACCATACAGGGGTATTACGATCATTTTACCCTACAGGG
*
31516558 GTATTACGGTCATTTTACC
1 GCATTACGGTCATTTTACC
31516577 TATGAGGGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (54 bp):
GCATTACGGTCATTTTACCATACAGGGGTATTACGATCATTTTACCCTACAGGG
Found at i:31516613 original size:26 final size:26
Alignment explanation
Indices: 31516584--31516634 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
31516574 ACCTATGAGG
* *
31516584 GTATTATACCCTACAGGGGTATTTCA
1 GTATTATACACTACAGGGGCATTTCA
* *
31516610 GTATTCTACACTACGGGGGCATTTC
1 GTATTATACACTACAGGGGCATTTC
31516635 GGTCATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
GTATTATACACTACAGGGGCATTTCA
Found at i:31520197 original size:24 final size:23
Alignment explanation
Indices: 31520142--31520198 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
31520132 GGAATGGCAA
*
31520142 TTTATCGCATTTTTACTAGAAACT
1 TTTAT-GCATTTTTACTAGAAAAT
* *
31520166 TGTCTGCATTTTTACTAGCAAAAT
1 TTTATGCATTTTTACTAG-AAAAT
31520190 TTTATGCAT
1 TTTATGCAT
31520199 ATTGTTATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.46
Consensus pattern (23 bp):
TTTATGCATTTTTACTAGAAAAT
Found at i:31524775 original size:15 final size:15
Alignment explanation
Indices: 31524755--31524785 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31524745 GGATGTTGTA
*
31524755 TGTAATTCGTCTATT
1 TGTAATTCATCTATT
31524770 TGTAATTCATCTATT
1 TGTAATTCATCTATT
31524785 T
1 T
31524786 CGATAAATGT
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:0.23, C:0.13, G:0.10, T:0.55
Consensus pattern (15 bp):
TGTAATTCATCTATT
Found at i:31524964 original size:19 final size:19
Alignment explanation
Indices: 31524942--31524980 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
31524932 CATTTTATTG
*
31524942 TTTTATCTTTTTTTTCTTT
1 TTTTATCTTTCTTTTCTTT
* *
31524961 TTTTTTGTTTCTTTTCTTT
1 TTTTATCTTTCTTTTCTTT
31524980 T
1 T
31524981 CTGTATGTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (19 bp):
TTTTATCTTTCTTTTCTTT
Found at i:31524971 original size:14 final size:14
Alignment explanation
Indices: 31524947--31524980 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
31524937 TATTGTTTTA
31524947 TCTTTTTTTTCTTT
1 TCTTTTTTTTCTTT
31524961 T-TTTTTGTTTCTTT
1 TCTTTTT-TTTCTTT
31524975 TCTTTT
1 TCTTTT
31524981 CTGTATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 9 0.50
15 4 0.22
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:31528918 original size:41 final size:41
Alignment explanation
Indices: 31528810--31528951 Score: 126
Period size: 43 Copynumber: 3.4 Consensus size: 41
31528800 GAGGTGTGAT
*
31528810 TTCATGTAAGACCATGTCTAGGACATTGGCATTGA-AGTGAGAA
1 TTCATGTAAGACCATGTCTAGGACATTGGCATCGATA-T--GAA
** * *
31528853 AACATGTAAGACCATTTCTGGGACATTGGCATCGTATATG-A
1 TTCATGTAAGACCATGTCTAGGACATTGGCATCG-ATATGAA
* * * **
31528894 TTCATATAAGACCCTGTCTAGGACACTGGCATCGATATGCG
1 TTCATGTAAGACCATGTCTAGGACATTGGCATCGATATGAA
31528935 TTAACATGTAAGACCAT
1 TT--CATGTAAGACCAT
31528952 ATCCGGGATA
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
40 5 0.06
41 30 0.38
42 1 0.01
43 40 0.51
44 2 0.03
45 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (41 bp):
TTCATGTAAGACCATGTCTAGGACATTGGCATCGATATGAA
Found at i:31532611 original size:21 final size:21
Alignment explanation
Indices: 31532545--31532734 Score: 109
Period size: 21 Copynumber: 9.0 Consensus size: 21
31532535 TATCGAAAGT
* *
31532545 TGAACAGAAGCTCATGAGTGC
1 TGAACAGAAGCTCATAAGAGC
* * * *
31532566 TAAATAGAAAGC-CATAAGGGT
1 TGAACAG-AAGCTCATAAGAGC
*
31532587 TGAACAGAAGCTCGTAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* *
31532608 TGAAC-GAAAACTCATATA-AGT
1 TGAACAG-AAGCTCATA-AGAGC
* *
31532629 TAAACAAAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* *
31532650 TGAACAGAAACTCATAAGAGT
1 TGAACAGAAGCTCATAAGAGC
* *
31532671 TCAACAAAAGCTCGA-AAGAGC
1 TGAACAGAAGCTC-ATAAGAGC
* * * * *
31532692 TAAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGC
* * *
31532713 TAAACAAAATCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
31532734 T
1 T
31532735 AAACGGAAAG
Statistics
Matches: 125, Mismatches: 36, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
20 7 0.06
21 112 0.90
22 6 0.05
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.18
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGC
Found at i:31532684 original size:84 final size:84
Alignment explanation
Indices: 31532541--31532744 Score: 257
Period size: 84 Copynumber: 2.4 Consensus size: 84
31532531 AGAATATCGA
* * * * * * * * *
31532541 AAGTTGAACAGAAGCTCATGAGTGCTAAATAGAAAGCCATAAGGGTTGAACAGAAGCTCGTAAGA
1 AAGTTAAACAAAAGCTCATAAGAGCTAAACAGAAAGCCATAAGAGTTCAACAAAAGCTCGAAAGA
*
31532606 GCTGAACGAAAACTCATAT
66 GCTAAACGAAAACTCATAT
*
31532625 AAGTTAAACAAAAGCTCATAAGAGCTGAACAGAAA-CTCATAAGAGTTCAACAAAAGCTCGAAAG
1 AAGTTAAACAAAAGCTCATAAGAGCTAAACAGAAAGC-CATAAGAGTTCAACAAAAGCTCGAAAG
*
31532689 AGCTAAACGGAAACTCATAT
65 AGCTAAACGAAAACTCATAT
* * *
31532709 GAGTTAAACAAAATCTCATAAGAGCTAAACGGAAAG
1 AAGTTAAACAAAAGCTCATAAGAGCTAAACAGAAAG
31532745 TAAAACATGA
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
83 1 0.01
84 101 0.99
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (84 bp):
AAGTTAAACAAAAGCTCATAAGAGCTAAACAGAAAGCCATAAGAGTTCAACAAAAGCTCGAAAGA
GCTAAACGAAAACTCATAT
Found at i:31532737 original size:21 final size:20
Alignment explanation
Indices: 31532601--31532738 Score: 118
Period size: 21 Copynumber: 6.6 Consensus size: 20
31532591 CAGAAGCTCG
*
31532601 TAAGAGCTGAACGAAAACTCA
1 TAAGAGCTAAAC-AAAACTCA
*
31532622 TATA-AGTTAAACAAAAGCTCA
1 TA-AGAGCTAAACAAAA-CTCA
*
31532643 TAAGAGCTGAACAGAAACTCA
1 TAAGAGCTAAACA-AAACTCA
* *
31532664 TAAGAGTTCAACAAAAGCTCGA
1 TAAGAGCTAAACAAAA-CTC-A
*
31532686 -AAGAGCTAAACGGAAACTCA
1 TAAGAGCTAAAC-AAAACTCA
* *
31532706 TATGAGTTAAACAAAATCTCA
1 TAAGAGCTAAACAAAA-CTCA
31532727 TAAGAGCTAAAC
1 TAAGAGCTAAAC
31532739 GGAAAGTAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.13
21 74 0.79
22 8 0.09
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (20 bp):
TAAGAGCTAAACAAAACTCA
Found at i:31532740 original size:42 final size:42
Alignment explanation
Indices: 31532589--31532743 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
31532579 ATAAGGGTTG
* * * * *
31532589 AACAGAAGCTCGTAAGAGCTGAACGAAAACTCATATAAGTTA
1 AACAAAAGCTCATAAGAGCTAAACGGAAACTCATATGAGTTA
* * * *
31532631 AACAAAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTC
1 AACAAAAGCTCATAAGAGCTAAACGGAAACTCATATGAGTTA
31532673 AACAAAAGCTCGA-AAGAGCTAAACGGAAACTCATATGAGTTA
1 AACAAAAGCTC-ATAAGAGCTAAACGGAAACTCATATGAGTTA
*
31532715 AACAAAATCTCATAAGAGCTAAACGGAAA
1 AACAAAAGCTCATAAGAGCTAAACGGAAA
31532744 GTAAAACATG
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 97 0.98
43 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (42 bp):
AACAAAAGCTCATAAGAGCTAAACGGAAACTCATATGAGTTA
Found at i:31535720 original size:16 final size:17
Alignment explanation
Indices: 31535699--31535733 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
31535689 TCTTTTTTTT
*
31535699 CTAATTTCCAAA-TTAC
1 CTAATTACCAAATTTAC
31535715 CTAATTACCAAATTTAC
1 CTAATTACCAAATTTAC
31535732 CT
1 CT
31535734 TTTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (17 bp):
CTAATTACCAAATTTAC
Found at i:31547413 original size:24 final size:25
Alignment explanation
Indices: 31547386--31547452 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
31547376 TTCTCTTCAA
*
31547386 AGCTACCCATTAATTGCTCTTTG-G
1 AGCTACCCGTTAATTGCTCTTTGTG
*
31547410 AGCTACCCGTT-ATAGGCTCTTTGTG
1 AGCTACCCGTTAAT-TGCTCTTTGTG
*
31547435 AGCTTCCCGTTATATTGC
1 AGCTACCCGTTA-ATTGC
31547453 CTAGATAAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 11 0.31
26 2 0.06
27 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
AGCTACCCGTTAATTGCTCTTTGTG
Found at i:31547443 original size:25 final size:24
Alignment explanation
Indices: 31547401--31547448 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
31547391 CCCATTAATT
31547401 GCTCTTTGGAGCTACCCGTTATAG
1 GCTCTTTGGAGCTACCCGTTATAG
*
31547425 GCTCTTTGTGAGCTTCCCGTTATA
1 GCTCTTTG-GAGCTACCCGTTATA
31547449 TTGCCTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTGGAGCTACCCGTTATAG
Found at i:31551188 original size:31 final size:31
Alignment explanation
Indices: 31551150--31551212 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
31551140 CTTGAGTGAA
31551150 AGAAAAATACTCGGGATTGATCTGATTCGGG
1 AGAAAAATACTCGGGATTGATCTGATTCGGG
31551181 AGAAAAATACTCGGGATTGATCTGATTCGGG
1 AGAAAAATACTCGGGATTGATCTGATTCGGG
31551212 A
1 A
31551213 AACAGAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (31 bp):
AGAAAAATACTCGGGATTGATCTGATTCGGG
Found at i:31552913 original size:32 final size:34
Alignment explanation
Indices: 31552849--31552924 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
31552839 TAAGATATTA
* *
31552849 AATTGTAACTAAATGCATATATATATAGGTGTTC
1 AATTGAAAATAAATGCATATATATATAGGTGTTC
31552883 AATTGAAAATAAATGCATATATATA-A-GTGTTC
1 AATTGAAAATAAATGCATATATATATAGGTGTTC
31552915 AATTGAAAAT
1 AATTGAAAAT
31552925 TTGGATGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 16 0.40
33 1 0.03
34 23 0.57
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (34 bp):
AATTGAAAATAAATGCATATATATATAGGTGTTC
Found at i:31555461 original size:29 final size:29
Alignment explanation
Indices: 31555429--31555486 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
31555419 CTGGTAATTC
31555429 CCCTTTCAATCCCTCTCTTTCCTCACGTT
1 CCCTTTCAATCCCTCTCTTTCCTCACGTT
31555458 CCCTTTCAATCCCTCTCTTTCCTCACGTT
1 CCCTTTCAATCCCTCTCTTTCCTCACGTT
31555487 TTCCTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.10, C:0.45, G:0.03, T:0.41
Consensus pattern (29 bp):
CCCTTTCAATCCCTCTCTTTCCTCACGTT
Found at i:31563488 original size:14 final size:15
Alignment explanation
Indices: 31563464--31563493 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31563454 TTACGTTATC
31563464 ATTTAAATTTTTTTA
1 ATTTAAATTTTTTTA
31563479 ATTT-AATTTTTTTA
1 ATTTAAATTTTTTTA
31563493 A
1 A
31563494 GTATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTAAATTTTTTTA
Found at i:31565923 original size:16 final size:16
Alignment explanation
Indices: 31565902--31565934 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
31565892 TAAGAAAATA
31565902 ACGTAAACCAATATAT
1 ACGTAAACCAATATAT
31565918 ACGTAAACCAATATAT
1 ACGTAAACCAATATAT
31565934 A
1 A
31565935 TATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
ACGTAAACCAATATAT
Found at i:31570673 original size:29 final size:29
Alignment explanation
Indices: 31570641--31570698 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
31570631 CCGTGACCCA
* *
31570641 CTATCTATTGGAGATAGGAACCAGTCGGT
1 CTATCTATTAGAGATAAGAACCAGTCGGT
*
31570670 CTATCTATTAGAGATAAGAACTAGTCGGT
1 CTATCTATTAGAGATAAGAACCAGTCGGT
31570699 ATAGGTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
CTATCTATTAGAGATAAGAACCAGTCGGT
Found at i:31571133 original size:32 final size:32
Alignment explanation
Indices: 31571096--31571169 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
31571086 AAAAGTAATT
*
31571096 GGTGTGAACAT-ATGGACTTGGACGGTCCCTTG
1 GGTGTGAACATCA-GGACTTGGACGGTCCATTG
*
31571128 GGTGTGAACATCAGGAGTTGGACGGTCCATTG
1 GGTGTGAACATCAGGACTTGGACGGTCCATTG
31571160 GGTGTGAACA
1 GGTGTGAACA
31571170 AAAGCAACTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 38 0.97
33 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (32 bp):
GGTGTGAACATCAGGACTTGGACGGTCCATTG
Found at i:31577944 original size:2 final size:2
Alignment explanation
Indices: 31577931--31577965 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
31577921 TTGAAACTAA
*
31577931 AT AT AA AT 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 AT AT AT AT A
31577966 AAAGTTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:31578175 original size:23 final size:23
Alignment explanation
Indices: 31578129--31578175 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31578119 ATGATGCCAC
**
31578129 ATAATAATATTAATAATATTAAA
1 ATAATAATATTAATAATAAAAAA
31578152 ATAATTAAT-TTAATAATAAAAAA
1 ATAA-TAATATTAATAATAAAAAA
31578175 A
1 A
31578176 CCAAAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAATAATATTAATAATAAAAAA
Found at i:31578610 original size:19 final size:19
Alignment explanation
Indices: 31578586--31578677 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
31578576 AATCATATCT
31578586 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31578605 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31578624 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
31578643 TCTAAGATTACATATGATA
1 TCTAAGATTGCATATCATA
31578662 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31578678 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31578635 original size:38 final size:38
Alignment explanation
Indices: 31578563--31578677 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
31578553 AAATTAAATC
*
31578563 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
31578605 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
31578643 TCTAAGATTACATATGATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
31578678 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 53 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:31579264 original size:45 final size:45
Alignment explanation
Indices: 31579105--31579484 Score: 205
Period size: 45 Copynumber: 8.6 Consensus size: 45
31579095 TTCTAATCCA
* ** * * * *
31579105 CTCCACTACAACTTTAGGGAGATGGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * * *
31579149 CCCCACTGCAATTTTAGGGGGATAAAACTTGATTTCTTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTCGATTTCTTGAGTCTG
* *
31579194 CTCCACTGCAACTTTAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * *
31579239 CTCCACTGCAACTTCAGAGAGATAAGACCCGA-TGC--GA-TCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * * **
31579280 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCA
1 CTCCACTGCAACTTTAGGGAGATAAGA-CT-CGATTTCTTGAGTCTG
* * * * *
31579323 CTCCACTGCAACTTTAGGGAGATAGGA-T-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTCGATT-TCTTGAGTCTG
* * * *** *
31579367 CTCTACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * *
31579412 C-CTCACTACAACTTCA-GGAGGATAAGGC-CTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTTAGGGA-GATAAGACTC-GATTTCTTGAGTCTG
*
31579456 CTCCACTACAACTTTAGGGAGATAAGACT
1 CTCCACTGCAACTTTAGGGAGATAAGACT
31579485 AGATGCGATC
Statistics
Matches: 261, Mismatches: 56, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
40 24 0.09
41 8 0.03
42 6 0.02
43 6 0.02
44 104 0.40
45 113 0.43
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTCGATTTCTTGAGTCTG
Found at i:31579556 original size:44 final size:44
Alignment explanation
Indices: 31579504--31579612 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
31579494 CTGTTCTCTA
* *
31579504 CAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCACTCCACTG
1 CAACTTCAGGGAGATAAGAT-TAGTGACTTTAATCCACTCCACTG
* * * **
31579548 CAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTAGTGACTTTAATCCACTCCACTG
*
31579592 TAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
31579613 CGCCATATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTAGTGACTTTAATCCACTCCACTG
Found at i:31579646 original size:44 final size:44
Alignment explanation
Indices: 31579598--31579695 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
31579588 ACTGTAACTT
* *
31579598 CAGGGAGATAAGA-TTCGCCATATTCAACATATTCCACTGCTGAC
1 CAGGGAGATAAGACTT-ACAATATTCAACATATTCCACTGCTGAC
* * *
31579642 CAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTC
1 CAGGGAGATAAGACTTACAATATTCAACATATTCCACTGCTGAC
31579686 CAGGGAGATA
1 CAGGGAGATA
31579696 GGGCTGGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (44 bp):
CAGGGAGATAAGACTTACAATATTCAACATATTCCACTGCTGAC
Found at i:31579816 original size:88 final size:88
Alignment explanation
Indices: 31579697--31580195 Score: 696
Period size: 88 Copynumber: 5.7 Consensus size: 88
31579687 AGGGAGATAG
* * ** * * *
31579697 GGCTGGGGTCATCGATCTACTTCGTTGTCGGTGCAGGAAAGCAAGATCTGCTATTTTTAACCTGT
1 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* **
31579762 TTCGCTGTAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* *
31579785 GGCTGGTGTCTTTGATCTGTTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
31579850 TCCGCTACAACCTAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * * *
31579873 GGTTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
31579938 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * *
31579961 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCAATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
31580026 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
*
31580049 GGCTGGTGTCTTCGATCTGCTTT-GCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTG-TTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
* *
31580113 CTCTGCTACAACCCAGGAAGGCAA
65 CTCCGCTACAACCCAGGGAGGCAA
* * * *
31580137 TGCTAGTGTCTTCGATCTGCTTT-GCTGTCGGTGCAGGAAGGCAAGATCTGTTATCTTTA
1 GGCTGGTGTCTTCGATCTG-TTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
31580196 CTGGTCTGCT
Statistics
Matches: 370, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
88 368 0.99
89 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:31580003 original size:44 final size:44
Alignment explanation
Indices: 31579955--31580093 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
31579945 CAACCCAGGG
31579955 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAAGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAAGA
* *** * ** * * * ** * *
31579999 AGGCAAGATCTGCAATTTTTAACCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAAGA
* *
31580043 AGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAAGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAAGA
31580087 AGGCAAG
1 AGGCAAG
31580094 ATCTGCTATT
Statistics
Matches: 63, Mismatches: 30, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 16 0.25
44 30 0.48
45 17 0.27
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAAGA
Found at i:31580133 original size:44 final size:44
Alignment explanation
Indices: 31579818--31580136 Score: 110
Period size: 44 Copynumber: 7.2 Consensus size: 44
31579808 GCTATCGGTG
*
31579818 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACC
* * * * * * ** * ****
31579862 TAGGGAGGCAAGGT-TGGTGTCTTCGATCTGCTTCACTG-T-CGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGC-T--CTGCTACAACC
* * *
31579906 CAGGAAGGCAAGATCTACTATTTTTAACTTGCTCCGCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACC
* * * * * ** * * * **
31579950 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCT-TCGCTGTCGATG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCT-GCT-ACAACC
* * * *
31579994 CAAGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACC
* * * * * ** * * * ****
31580038 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTTGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCT-ACAACC
*
31580082 CAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACC
31580126 CAGGAAGGCAA
1 CAGGAAGGCAA
31580137 TGCTAGTGTC
Statistics
Matches: 170, Mismatches: 93, Indels: 24
0.59 0.32 0.08
Matches are distributed among these distances:
42 2 0.01
43 41 0.24
44 83 0.49
45 42 0.25
46 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACC
Found at i:31581550 original size:14 final size:15
Alignment explanation
Indices: 31581527--31581559 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
31581517 ATCGACGCTT
31581527 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
31581541 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
31581556 TTCC
1 TTCC
31581560 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:31582441 original size:25 final size:26
Alignment explanation
Indices: 31582390--31582444 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
31582380 AAGAAAATCT
* **
31582390 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
31582416 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
31582441 AAAA
1 AAAA
31582445 TAAATGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.60, C:0.05, G:0.13, T:0.22
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:31583703 original size:11 final size:13
Alignment explanation
Indices: 31583687--31583720 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
31583677 AATTTTGCGG
31583687 AAAAATTTCG-T-
1 AAAAATTTCGTTC
31583698 AAAAATTTCGTTC
1 AAAAATTTCGTTC
31583711 AAAAATTTCG
1 AAAAATTTCG
31583721 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:31584648 original size:20 final size:21
Alignment explanation
Indices: 31584623--31584661 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31584613 TTTAATGCAT
31584623 TATTTTGACA-TTATTTGATA
1 TATTTTGACATTTATTTGATA
*
31584643 TATTTTGAGATTTATTTGA
1 TATTTTGACATTTATTTGA
31584662 ACATAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (21 bp):
TATTTTGACATTTATTTGATA
Found at i:31584856 original size:33 final size:33
Alignment explanation
Indices: 31584814--31584967 Score: 115
Period size: 33 Copynumber: 4.6 Consensus size: 33
31584804 TCCCCCAAGG
31584814 GGTTGCTAAGTGCTGATTCCCTTAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCTTAATCATTGGT
** * *
31584847 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATT-C-CC-T-TAAT-CAT-T---GGT
*
31584889 GGTTGCTAAGTGCTGATTCCC--GA--A--GG-
1 GGTTGCTAAGTGCTGATTCCCTTAATCATTGGT
*
31584915 GGTTGCTAAGTGCTGATTCCCTGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCTTAATCATTGGT
*
31584948 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
31584968 ACCGTATTTT
Statistics
Matches: 97, Mismatches: 8, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
26 21 0.22
27 2 0.02
28 1 0.01
30 1 0.01
32 2 0.02
33 38 0.39
34 1 0.01
35 2 0.02
36 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
40 2 0.02
41 1 0.01
42 20 0.21
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCTTAATCATTGGT
Found at i:31585059 original size:33 final size:33
Alignment explanation
Indices: 31585017--31585147 Score: 118
Period size: 33 Copynumber: 3.7 Consensus size: 33
31585007 TCCCCCAAGG
* *
31585017 GGTTGCTAAGTGTTGATTCCTCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCACGAATCATTGGT
*
31585050 GGTTGCTAAGTGCTGATTCCACGATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACGA-ATC-----AT-TG---GT
* *
31585093 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACGAATCATTGGT
*
31585126 GGTTGCTAAGTGCTGAATCCAC
1 GGTTGCTAAGTGCTGATTCCAC
31585148 CGATAACGGT
Statistics
Matches: 80, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
33 43 0.54
34 3 0.04
36 2 0.03
37 1 0.01
39 2 0.03
40 2 0.03
42 3 0.04
43 24 0.30
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCACGAATCATTGGT
Found at i:31585067 original size:102 final size:102
Alignment explanation
Indices: 31584782--31585114 Score: 564
Period size: 101 Copynumber: 3.3 Consensus size: 102
31584772 ATTGAATATA
*
31584782 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCTTAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGT
31584847 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
31584884 AAGGGGGTTGCTAAGTGCTGATT-CCCGAAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGT
*
31584948 GGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
31584985 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATT-CCTCGAATCATTGG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCT-GAATCATTGG
*
31585049 TGGTTGCTAAGTGCTGATTCCA-CGATATCTTTGAATGTG
65 TGGTTGCTAAGTGCTGATTCCACCG-TAT-TTTAAATGTG
*
31585088 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
31585115 GAATCACTGG
Statistics
Matches: 219, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
101 103 0.47
102 81 0.37
103 35 0.16
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
Found at i:31589264 original size:2 final size:2
Alignment explanation
Indices: 31589245--31589284 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
31589235 ATAAAGAAAA
* *
31589245 AT AT AT AA AT AT AC AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31589285 ACATATGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:31590099 original size:19 final size:19
Alignment explanation
Indices: 31590075--31590128 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
31590065 AATCATATCT
31590075 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31590094 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31590113 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31590129 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31590124 original size:38 final size:40
Alignment explanation
Indices: 31590052--31590128 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
31590042 GAATTAAATC
31590052 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
31590094 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
31590129 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:31592550 original size:14 final size:15
Alignment explanation
Indices: 31592533--31592570 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
31592523 TCATTTATTG
31592533 ATATATTTTT-ATAA
1 ATATATTTTTAATAA
31592547 ATATATTTTTAATAA
1 ATATATTTTTAATAA
*
31592562 AAATATTTT
1 ATATATTTT
31592571 CATTCACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATTTTTAATAA
Found at i:31592902 original size:88 final size:88
Alignment explanation
Indices: 31592765--31592967 Score: 243
Period size: 88 Copynumber: 2.3 Consensus size: 88
31592755 AACTTAAAAA
* * *
31592765 AAAAAAAAGCAATTAAGCTCTTCT-TTTTTTTTCATTCAATTGAGCACTTGAACTTTCAAAATGC
1 AAAAAAAAGCAATTAAGC-C-CCTGATTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGC
* ** * *
31592829 ATCAAACAGGCCCTCAGACTTCTCC
64 ATCAAAAAAACCCTCAAAATTCTCC
*
31592854 AAAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATT-AGGTACTTGAACTTTCAAAATGCA
1 AAAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATTGA-GCACTTGAACTTTCAAAATGCA
* *
31592918 TCAAAAAAACCCTCAAAATTTTTC
65 TCAAAAAAACCCTCAAAATTCTCC
*
31592942 -AAAAAAA-CAATTAAGCCCCTGCTTTT
1 AAAAAAAAGCAATTAAGCCCCTGATTTT
31592968 ATTAAAAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
86 18 0.18
87 10 0.10
88 54 0.54
89 18 0.18
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (88 bp):
AAAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCAT
CAAAAAAACCCTCAAAATTCTCC
Found at i:31593074 original size:17 final size:19
Alignment explanation
Indices: 31593040--31593086 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
31593030 TTTAATAAAA
31593040 ATATAAAAAATTTGGAATTT
1 ATAT-AAAAATTTGGAATTT
31593060 AT-TAAAAATTT-GAATTT
1 ATATAAAAATTTGGAATTT
*
31593077 TTATAAAAAT
1 ATATAAAAAT
31593087 ATAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 15 0.60
19 1 0.04
20 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (19 bp):
ATATAAAAATTTGGAATTT
Found at i:31593104 original size:29 final size:29
Alignment explanation
Indices: 31593063--31593124 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
31593053 GGAATTTATT
*
31593063 AAAAATTTGAATTTTTATAAAAAT-ATAA
1 AAAAATTTAAATTTTTATAAAAATCATAA
31593091 AAAAATTGTAAATTTTTATAAAAATCATAA
1 AAAAATT-TAAATTTTTATAAAAATCATAA
31593121 AAAA
1 AAAA
31593125 TTAATGACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 7 0.23
29 16 0.52
30 8 0.26
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAAATTTAAATTTTTATAAAAATCATAA
Found at i:31593369 original size:9 final size:9
Alignment explanation
Indices: 31593330--31593419 Score: 58
Period size: 9 Copynumber: 9.8 Consensus size: 9
31593320 TTTATAAAAC
31593330 TTTATAACTT
1 TTTATAA-TT
31593340 TTT-TATATT
1 TTTATA-ATT
*
31593349 TCTAT-ATAT
1 TTTATAAT-T
31593358 TTTATAATT
1 TTTATAATT
**
31593367 TTTACGATT
1 TTTATAATT
*
31593376 TTTATAAAT
1 TTTATAATT
*
31593385 TTTACAATTT
1 TTTATAA-TT
*
31593395 TTTATATTT
1 TTTATAATT
**
31593404 TTTACGATT
1 TTTATAATT
31593413 TTTATAA
1 TTTATAA
31593420 AAAAATTCTA
Statistics
Matches: 59, Mismatches: 16, Indels: 11
0.69 0.19 0.13
Matches are distributed among these distances:
8 2 0.03
9 44 0.75
10 13 0.22
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:31593378 original size:18 final size:18
Alignment explanation
Indices: 31593357--31593419 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
31593347 TTTCTATATA
31593357 TTTTATAATTTTTACGAT
1 TTTTATAATTTTTACGAT
* *
31593375 TTTTATAAATTTTACAATT
1 TTTTATAATTTTTACGA-T
*
31593394 TTTTATATTTTTTACGAT
1 TTTTATAATTTTTACGAT
31593412 TTTTATAA
1 TTTTATAA
31593420 AAAAATTCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTTACGAT
Found at i:31593403 original size:27 final size:27
Alignment explanation
Indices: 31593320--31593405 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
31593310 TTCTTACAAC
*
31593320 TTTATAAAACTTTATAACTTTTTTATATT
1 TTTAT-AAATTTTATAA-TTTTTTATATT
* * *
31593349 TCTATATATTTTATAA-TTTTTACGATT
1 TTTATAAATTTTATAATTTTTTA-TATT
*
31593376 TTTATAAATTTTACAATTTTTTATATT
1 TTTATAAATTTTATAATTTTTTATATT
31593403 TTT
1 TTT
31593406 TACGATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.13
27 22 0.47
28 15 0.32
29 4 0.09
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTATAAATTTTATAATTTTTTATATT
Found at i:31594240 original size:18 final size:18
Alignment explanation
Indices: 31594207--31594250 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
31594197 AAATTTTAAT
31594207 TTATAGAAAATAAAAATAA
1 TTATA-AAAATAAAAATAA
*
31594226 TTATAAAAATTAAAATAA
1 TTATAAAAATAAAAATAA
*
31594244 ATATAAA
1 TTATAAA
31594251 CATTCAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
TTATAAAAATAAAAATAA
Found at i:31594337 original size:26 final size:25
Alignment explanation
Indices: 31594292--31594340 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
31594282 ATATTTTTAC
*
31594292 TTTTATATATGATTTATTTATTATT
1 TTTTATATATAATTTATTTATTATT
31594317 TTTTCATATATAA-TTATTTTATTA
1 TTTT-ATATATAATTTA-TTTATTA
31594341 CATTAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTATATATAATTTATTTATTATT
Found at i:31594928 original size:20 final size:20
Alignment explanation
Indices: 31594903--31594944 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31594893 CTTTCTTTGA
*
31594903 TTTTCTTT-TTCTCCATTTTT
1 TTTTCTTTGTT-TCAATTTTT
31594923 TTTTCTTTGTTTCAATTTTT
1 TTTTCTTTGTTTCAATTTTT
31594943 TT
1 TT
31594945 ATAGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCTTTGTTTCAATTTTT
Found at i:31596582 original size:19 final size:19
Alignment explanation
Indices: 31596546--31596583 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31596536 TTTTTATAAT
*
31596546 TTATTAATTATAACTTAAA
1 TTATTAATGATAACTTAAA
31596565 TTATGTAATGATAA-TTAAA
1 TTAT-TAATGATAACTTAAA
31596584 ACATATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
TTATTAATGATAACTTAAA
Found at i:31602329 original size:18 final size:20
Alignment explanation
Indices: 31602289--31602356 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 20
31602279 TATATAAATA
* *
31602289 ATAAATATATATTATATTTT
1 ATAAATATATATTATAGTAT
31602309 ATAAATAT-T-TTATAGTAT
1 ATAAATATATATTATAGTAT
* * *
31602327 ATAATATAAATATTTTAATAAT
1 ATAA-ATATATATTATAGT-AT
31602349 ATAAATAT
1 ATAAATAT
31602357 GAGTATTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
18 11 0.29
19 4 0.11
20 9 0.24
21 8 0.21
22 6 0.16
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
ATAAATATATATTATAGTAT
Found at i:31602364 original size:23 final size:23
Alignment explanation
Indices: 31602308--31602356 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
31602298 TATTATATTT
*
31602308 TATAAATATTTTATAGTATATAA
1 TATAAATATTTTATAATATATAA
31602331 TATAAATATTTTAATAATATA-AA
1 TATAAATATTTT-ATAATATATAA
31602354 TAT
1 TAT
31602357 GAGTATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATAAATATTTTATAATATATAA
Found at i:31602503 original size:17 final size:18
Alignment explanation
Indices: 31602481--31602516 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
31602471 TATTAACTGT
*
31602481 TTATAAAATTTTAT-TTA
1 TTATAAAATATTATCTTA
31602498 TTATAAAATATTATCTTA
1 TTATAAAATATTATCTTA
31602516 T
1 T
31602517 GATATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATAAAATATTATCTTA
Found at i:31602525 original size:18 final size:17
Alignment explanation
Indices: 31602483--31602525 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
31602473 TTAACTGTTT
* *
31602483 ATAAAATTTTATTTATT
1 ATAAAATATTATTTATG
31602500 ATAAAATATTATCTTATG
1 ATAAAATATTAT-TTATG
*
31602518 ATATAATA
1 ATAAAATA
31602526 AATTTTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
ATAAAATATTATTTATG
Found at i:31605741 original size:27 final size:27
Alignment explanation
Indices: 31605703--31605755 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
31605693 CTAAAGTACC
31605703 ATGATTGAGCTCTCTTTATTATATACT
1 ATGATTGAGCTCTCTTTATTATATACT
31605730 ATGATTGAGCTCTCTTTATTATATAC
1 ATGATTGAGCTCTCTTTATTATATAC
31605756 CATTTCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (27 bp):
ATGATTGAGCTCTCTTTATTATATACT
Found at i:31608285 original size:19 final size:20
Alignment explanation
Indices: 31608256--31608300 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
31608246 CACCTAATTA
*
31608256 AATTAATTTAAT-CATACTTT
1 AATTAACTTAATCCAT-CTTT
31608276 -ATTAACTTAATCCATCTTT
1 AATTAACTTAATCCATCTTT
31608295 AATTAA
1 AATTAA
31608301 TATAAGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAACTTAATCCATCTTT
Found at i:31617884 original size:25 final size:26
Alignment explanation
Indices: 31617829--31617878 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
31617819 ATCAAATTAG
* *
31617829 TATTAATTTTTAAATTCAATGTAAAA
1 TATTAATATTTAAATTAAATGTAAAA
*
31617855 TATTAATATTT-AATTAAATTTAAA
1 TATTAATATTTAAATTAAATGTAAA
31617879 CAATTATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TATTAATATTTAAATTAAATGTAAAA
Found at i:31620113 original size:21 final size:21
Alignment explanation
Indices: 31620087--31620128 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31620077 GCCAAGATTT
31620087 TAAGCCATGGTTTCACCATTG
1 TAAGCCATGGTTTCACCATTG
31620108 TAAGCCATGGTTTCACCATTG
1 TAAGCCATGGTTTCACCATTG
31620129 GTGTTAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (21 bp):
TAAGCCATGGTTTCACCATTG
Found at i:31623808 original size:21 final size:20
Alignment explanation
Indices: 31623773--31623874 Score: 89
Period size: 21 Copynumber: 4.8 Consensus size: 20
31623763 ATATAATTTA
31623773 TATTTCTTTTGATTCTTGTTAT
1 TATTT-TTTT-ATTCTTGTTAT
*
31623795 TTTTTGTTTTATTCTTGTTAT
1 TATTT-TTTTATTCTTGTTAT
* *
31623816 TATTTTTTTATTTTTAGTTTT
1 TATTTTTTTATTCTT-GTTAT
*
31623837 TATTATTTTTATTCATTTTTAT
1 TATT-TTTTTATTC-TTGTTAT
31623859 TAGTATTTTTT-TTCTT
1 TA-T-TTTTTTATTCTT
31623875 CTCATTATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
20 9 0.13
21 25 0.37
22 24 0.36
23 8 0.12
24 1 0.01
ACGTcount: A:0.15, C:0.05, G:0.06, T:0.75
Consensus pattern (20 bp):
TATTTTTTTATTCTTGTTAT
Found at i:31623818 original size:12 final size:12
Alignment explanation
Indices: 31623784--31623819 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
31623774 ATTTCTTTTG
31623784 ATTCTTGTTATT
1 ATTCTTGTTATT
31623796 -TT-TTGTT-TT
1 ATTCTTGTTATT
31623805 ATTCTTGTTATT
1 ATTCTTGTTATT
31623817 ATT
1 ATT
31623820 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.10
10 7 0.33
11 7 0.33
12 5 0.24
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (12 bp):
ATTCTTGTTATT
Found at i:31623838 original size:33 final size:33
Alignment explanation
Indices: 31623791--31623856 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
31623781 TTGATTCTTG
* *
31623791 TTATTTTTTGTTTTATTCTTGTTATT-ATTTTT
1 TTATTTTTAGTTTTATTATTGTTATTCATTTTT
*
31623823 TTATTTTTAGTTTTTATTATTTTTATTCATTTTT
1 TTATTTTTAG-TTTTATTATTGTTATTCATTTTT
31623857 ATTAGTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 9 0.31
33 14 0.48
34 6 0.21
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (33 bp):
TTATTTTTAGTTTTATTATTGTTATTCATTTTT
Found at i:31623854 original size:10 final size:9
Alignment explanation
Indices: 31623801--31623860 Score: 63
Period size: 9 Copynumber: 6.9 Consensus size: 9
31623791 TTATTTTTTG
*
31623801 TTTTATTCT
1 TTTTATTAT
*
31623810 TGTTATTAT
1 TTTTATTAT
31623819 TTTT-TTAT
1 TTTTATTAT
*
31623827 TTTTA--GT
1 TTTTATTAT
31623834 TTTTATTAT
1 TTTTATTAT
31623843 TTTTATTCAT
1 TTTTATT-AT
31623853 TTTTATTA
1 TTTTATTA
31623861 GTATTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 6 0.14
8 8 0.19
9 19 0.45
10 9 0.21
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTATTAT
Done.