Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 133 of 204
Found at i:40967715 original size:34 final size:34
Alignment explanation
Indices: 40967644--40967717 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
40967634 AATGCAAGTA
* ** *
40967644 ATCAGTAGGGCCTTTGCCCAATTTCAGTAATAGT
1 ATCAGTAGGGCCTTGGCCCAATAACAGTAACAGT
*
40967678 ATCAGTGGGGCCTTGGCCC-ATAACAGTAACAGAT
1 ATCAGTAGGGCCTTGGCCCAATAACAGTAACAG-T
40967712 ATCAGT
1 ATCAGT
40967718 CATGCAGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 10 0.29
34 24 0.71
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (34 bp):
ATCAGTAGGGCCTTGGCCCAATAACAGTAACAGT
Found at i:40968199 original size:27 final size:27
Alignment explanation
Indices: 40968177--40968317 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
40968167 AGGGGTATAA
40968177 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
40968204 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
40968231 CGGTCATTTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
* *
40968258 C-GATCATTTTATCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* *
40968285 -TGATCATTTTACCCTATGCGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
40968312 CAGTCA
1 CAGTCA
40968318 GAAATAATTC
Statistics
Matches: 101, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
26 1 0.01
27 99 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:40968211 original size:54 final size:53
Alignment explanation
Indices: 40968151--40968317 Score: 157
Period size: 54 Copynumber: 3.1 Consensus size: 53
40968141 AGGTCATAAT
*
40968151 AGTCATTTCATCTCCTA-GGGGTATAACAGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTT-ATCTCCTAGGGGGTAT-TCAGTCATTTTACCCTATGAGGGTATTTC
*
40968205 AGTCATTT-TAC-CCTATGGGGGTATTTCGGTCATTTTACCCTAT-AGGGGTATTTC
1 AGTCATTTAT-CTCCTA-GGGGGTA-TTCAGTCATTTTACCCTATGA-GGGTATTTC
* ** *
40968259 -GATCATTT-TATCCTATGGGGGTATTTTGATCATTTTACCCTATGCGGGTATTTC
1 AG-TCATTTATCTCCTA-GGGGGTATTCAG-TCATTTTACCCTATGAGGGTATTTC
40968313 AGTCA
1 AGTCA
40968318 GAAATAATTC
Statistics
Matches: 97, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
52 5 0.05
53 6 0.06
54 84 0.87
55 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (53 bp):
AGTCATTTATCTCCTAGGGGGTATTCAGTCATTTTACCCTATGAGGGTATTTC
Found at i:40968253 original size:81 final size:81
Alignment explanation
Indices: 40968166--40968317 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
40968156 TTTCATCTCC
*
40968166 TAGGGGTATAAC-AGTCATTTTACCCTATGAGGGTATTTCAG-TCATTTTACCCTATGGGGGTAT
1 TAGGGGTATAACGA-TCATTTTACCCTATGAGGGTATTT-AGATCATTTTACCCTATGCGGGTAT
*
40968229 TTCGGTCATTTTACCCTA
64 TTCAGTCATTTTACCCTA
** * * *
40968247 TAGGGGTATTTCGATCATTTTATCCTATGGGGGTATTTTGATCATTTTACCCTATGCGGGTATTT
1 TAGGGGTATAACGATCATTTTACCCTATGAGGGTATTTAGATCATTTTACCCTATGCGGGTATTT
40968312 CAGTCA
66 CAGTCA
40968318 GAAATAATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.97
82 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (81 bp):
TAGGGGTATAACGATCATTTTACCCTATGAGGGTATTTAGATCATTTTACCCTATGCGGGTATTT
CAGTCATTTTACCCTA
Found at i:40969410 original size:22 final size:22
Alignment explanation
Indices: 40969385--40969444 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
40969375 GAGTCCACAG
*
40969385 AGAATGTTAGTACTAGGGACAA
1 AGAATGTCAGTACTAGGGACAA
* *
40969407 AGAATGTCA-TCACTAGGGATAG
1 AGAATGTCAGT-ACTAGGGACAA
40969429 AGAATGTCAGTACTAG
1 AGAATGTCAGTACTAG
40969445 AGGCAGTGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (22 bp):
AGAATGTCAGTACTAGGGACAA
Found at i:40972983 original size:16 final size:18
Alignment explanation
Indices: 40972964--40973000 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
40972954 TCCCAACTTC
40972964 TAAAA-TCCCCAAAT-CA
1 TAAAATTCCCCAAATCCA
40972980 TAAAATTCCCCAAATCCA
1 TAAAATTCCCCAAATCCA
40972998 TAA
1 TAA
40973001 CCTCTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 9 0.47
18 5 0.26
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAATTCCCCAAATCCA
Found at i:40973592 original size:21 final size:21
Alignment explanation
Indices: 40973520--40973592 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 21
40973510 AATTTTAAAA
40973520 TTGTAGACTTGTGTTACTGTTTT
1 TTGTAGA--TGTGTTACTGTTTT
*
40973543 GTT-T-GAT-TTTTA-TGTTTT
1 -TTGTAGATGTGTTACTGTTTT
* *
40973561 TTTTACAATGTGTTACTGTTTT
1 TTGTA-GATGTGTTACTGTTTT
40973583 TTGTAGATGT
1 TTGTAGATGT
40973593 CATCAAATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
17 2 0.05
18 7 0.18
19 4 0.10
20 3 0.08
21 8 0.21
22 12 0.31
23 1 0.03
24 2 0.05
ACGTcount: A:0.15, C:0.05, G:0.19, T:0.60
Consensus pattern (21 bp):
TTGTAGATGTGTTACTGTTTT
Found at i:40974260 original size:51 final size:51
Alignment explanation
Indices: 40974192--40974296 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
40974182 GAAGTTGCTA
* *
40974192 CTGATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGAATAATGTTG
1 CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTGAATAATGTTG
*
40974243 CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTGGATAATGTTG
1 CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTGAATAATGTTG
40974294 CTG
1 CTG
40974297 CTGCAAGTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (51 bp):
CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTGAATAATGTTG
Found at i:40977780 original size:7 final size:7
Alignment explanation
Indices: 40977768--40977797 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
40977758 CGACAAGTAA
40977768 TGTAATT
1 TGTAATT
40977775 TGTAATT
1 TGTAATT
40977782 TGTAATT
1 TGTAATT
40977789 TGTAATT
1 TGTAATT
40977796 TG
1 TG
40977798 AAATATTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (7 bp):
TGTAATT
Found at i:40984649 original size:19 final size:19
Alignment explanation
Indices: 40984614--40984650 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
40984604 AATTTATATA
*
40984614 TTTTAAAAAATTATAAAAC
1 TTTTAAAAAAATATAAAAC
*
40984633 TTTTAAAAAAATCTAAAA
1 TTTTAAAAAAATATAAAA
40984651 AATATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTTAAAAAAATATAAAAC
Found at i:40984660 original size:21 final size:19
Alignment explanation
Indices: 40984618--40984682 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
40984608 TATATATTTT
* *
40984618 AAAAAATTATAAAACTTTTA
1 AAAAAATTA-AAAAATTATA
40984638 AAAAAATCTAAAAAATATATA
1 AAAAAAT-TAAAAAAT-TATA
*
40984659 AAGAAAGTTAAAAAATTA-A
1 AA-AAAATTAAAAAATTATA
40984678 AAAAA
1 AAAAA
40984683 TGATTTGCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 14 0.36
21 15 0.38
22 4 0.10
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAAAATTAAAAAATTATA
Found at i:40986961 original size:24 final size:23
Alignment explanation
Indices: 40986917--40986963 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
40986907 CAGATTCATT
*
40986917 TTTTTATTAATTTATATTTTTAA
1 TTTTTATTAATTTATAATTTTAA
* *
40986940 TTTTTATATATTTTCTAATTTTAA
1 TTTTTAT-TAATTTATAATTTTAA
40986964 AAAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTATTAATTTATAATTTTAA
Found at i:41000418 original size:28 final size:28
Alignment explanation
Indices: 41000378--41000437 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
41000368 TTATATATAT
41000378 ATACACGAGTTGCGTACTCTATTCAATC
1 ATACACGAGTTGCGTACTCTATTCAATC
41000406 ATACACGAGTTGCGTACTCTATTCAATC
1 ATACACGAGTTGCGTACTCTATTCAATC
41000434 ATAC
1 ATAC
41000438 GAGATCACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (28 bp):
ATACACGAGTTGCGTACTCTATTCAATC
Found at i:41003940 original size:3 final size:3
Alignment explanation
Indices: 41003932--41004027 Score: 59
Period size: 3 Copynumber: 30.0 Consensus size: 3
41003922 TACATAGTGG
* * * *
41003932 TAA TAA TAA CTAA GAA TAA TAA TAAA TAA TCA TACA TTAA TAA -AC GAA
1 TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TA-A -TAA TAA TAA TAA
* * *
41003980 TAA TAG TAG TAAA TAAA TAAA TAA GAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41004028 ATTTATTTAC
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
2 1 0.01
3 55 0.72
4 18 0.24
5 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:41005671 original size:129 final size:129
Alignment explanation
Indices: 41005456--41005982 Score: 675
Period size: 129 Copynumber: 4.1 Consensus size: 129
41005446 TGTAACTTTA
* * * * *
41005456 AAGATAAGTCT-GATGCAATCTACTCTACTGCAACTTCAGAAAGATAAGATCTG-GACCTTTTAA
1 AAGATAAGACTGGATGCAATCTGCTCTACTACAACGTCAGAAAGATAAGATCTGTG--GTTTTAA
* * *
41005519 TCCACTCCACTGCAACTTTAGGGAGATAGGATTTATTTCTTCTGTCTGCTCTACTGCAACTTGAG
64 TCCACTCCACTGCAACTTCAGGGAGATAGGATTTATTTCTTCTGTCTGCTCCACTGCAACTTCAG
41005584 G
129 G
* * *
41005585 AAGATAAGACTGGATGCGATCTGCTCTACTGCAACGTCAGATAGATAAGATCTGTGGTTTTAATC
1 AAGATAAGACTGGATGCAATCTGCTCTACTACAACGTCAGAAAGATAAGATCTGTGGTTTTAATC
** * *
41005650 TGCTCCATTGCAACTTCAGGGAGATAGGATTTATTTCTTCTGTCTGCTCCACTGTAACTTCAGG
66 CACTCCACTGCAACTTCAGGGAGATAGGATTTATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
* * *
41005714 GAGATAAGACTGGGTGCAATCTGCTCTACTACAATGTCAGAAAGATAAGATCTGTGGTTTTAATC
1 AAGATAAGACTGGATGCAATCTGCTCTACTACAACGTCAGAAAGATAAGATCTGTGGTTTTAATC
* *
41005779 CACTCCACTGCAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
66 CACTCCACTGCAACTTCAGGGAGATAGGATTTATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
* * * * * *
41005843 GAGATAAGACTGGATGCGATCTGCTCAACTACAACGTCAGAGAGATAAGATCTATGGTCTTAATC
1 AAGATAAGACTGGATGCAATCTGCTCTACTACAACGTCAGAAAGATAAGATCTGTGGTTTTAATC
* ** * * * * *
41005908 CACTCCATTGCAACTTCAAAGAGATAAGA-TTATTGGCTT-TAATCTGTTCCACTGTAACTTCAG
66 CACTCCACTGCAACTTCAGGGAGATAGGATTTATT-TCTTCT-GTCTGCTCCACTGCAACTTCAG
41005971 G
129 G
*
41005972 GAGATAAGACT
1 AAGATAAGACT
41005983 TATAGCTGCA
Statistics
Matches: 354, Mismatches: 40, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
128 5 0.01
129 310 0.88
130 38 0.11
131 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
AAGATAAGACTGGATGCAATCTGCTCTACTACAACGTCAGAAAGATAAGATCTGTGGTTTTAATC
CACTCCACTGCAACTTCAGGGAGATAGGATTTATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
Found at i:41005675 original size:44 final size:44
Alignment explanation
Indices: 41005472--41005980 Score: 228
Period size: 44 Copynumber: 11.8 Consensus size: 44
41005462 AGTCTGATGC
* * ** *
41005472 AATCTACTCTACTGCAACTTCAGAAAGATAAGATCTG-GACCTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTG--GTTTT
** * * **
41005517 AATCCACTCCACTGCAACTTTAGGGAGATAGGAT-T-TATTTCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT
** * * * * **
41005560 CTGTCTGCTCTACTGCAACTTGAGGAAGATAAGA-C--TGGATGC
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTT
* * * **
41005602 GATCTGCTCTACTGCAACGTCAGATAGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTT
* * **
41005646 AATCTGCTCCATTGCAACTTCAGGGAGATAGGAT-T-TATTTCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT
** * **
41005689 CTGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-CTG-GG-TGC
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTT
* * **
41005731 AATCTGCTCTACTACAA-TGTCAGAAAGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACT-TCAGGGAGATAAGATCTGTGGTTTT
** * *
41005775 AATCCACTCCACTGCAACTTCAAGGAGATAGGAT-TGAT--TTCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-TGGTT-TT
** * **
41005818 CTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGC
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTT
* * * * * * *
41005860 GATCTGCTCAACTACAACGTCAGAGAGATAAGATCTATGGTCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTT
** * ** * *
41005904 AATCCACTCCATTGCAACTTCAAAGAGATAAGAT-TATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGTTTT
* *
41005948 AATCTGTTCCACTGTAACTTCAGGGAGATAAGA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
41005981 CTTATAGCTG
Statistics
Matches: 336, Mismatches: 102, Indels: 53
0.68 0.21 0.11
Matches are distributed among these distances:
40 1 0.00
41 79 0.24
42 12 0.04
43 16 0.05
44 199 0.59
45 29 0.09
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTT
Found at i:41005850 original size:258 final size:258
Alignment explanation
Indices: 41005469--41005982 Score: 757
Period size: 258 Copynumber: 2.0 Consensus size: 258
41005459 ATAAGTCTGA
*
41005469 TGCAATCTACTCTACTGCAACTTCAGAAAGATAAGATCTGGACCTTTTAATCCACTCCACTGCAA
1 TGCAATCTACTCTACTACAACTTCAGAAAGATAAGATCTGGA-CTTTTAATCCACTCCACTGCAA
* * * * *
41005534 CTTTAGGGAGATAGGATTTATTTCTTCTGTCTGCTCTACTGCAACTTGAGGAAGATAAGACTGGA
65 CTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGA
* * * * * **
41005599 TGCGATCTGCTCTACTGCAACGTCAGATAGATAAGATCTGTGGTTTTAATCTGCTCCATTGCAAC
130 TGCGATCTGCTCAACTACAACGTCAGAGAGATAAGATCTATGGTCTTAATCCACTCCATTGCAAC
** * * *
41005664 TTCAGGGAGATAGGATTTATT-TCTTCT-GTCTGCTCCACTGTAACTTCAGGGAGATAAGACTGG
195 TTCAAAGAGATAAGA-TTATTGGCTT-TAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTGG
41005727 G
258 G
* *
41005728 TGCAATCTGCTCTACTACAA-TGTCAGAAAGATAAGATCTGTG-GTTTTAATCCACTCCACTGCA
1 TGCAATCTACTCTACTACAACT-TCAGAAAGATAAGATCTG-GACTTTTAATCCACTCCACTGCA
*
41005791 ACTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGG
64 ACTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGG
41005856 ATGCGATCTGCTCAACTACAACGTCAGAGAGATAAGATCTATGGTCTTAATCCACTCCATTGCAA
129 ATGCGATCTGCTCAACTACAACGTCAGAGAGATAAGATCTATGGTCTTAATCCACTCCATTGCAA
*
41005921 CTTCAAAGAGATAAGATTATTGGCTTTAATCTGTTCCACTGTAACTTCAGGGAGATAAGACT
194 CTTCAAAGAGATAAGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACT
41005983 TATAGCTGCA
Statistics
Matches: 229, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
257 6 0.03
258 186 0.81
259 36 0.16
260 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (258 bp):
TGCAATCTACTCTACTACAACTTCAGAAAGATAAGATCTGGACTTTTAATCCACTCCACTGCAAC
TTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGAT
GCGATCTGCTCAACTACAACGTCAGAGAGATAAGATCTATGGTCTTAATCCACTCCATTGCAACT
TCAAAGAGATAAGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTGGG
Found at i:41006515 original size:100 final size:100
Alignment explanation
Indices: 41006357--41006614 Score: 313
Period size: 100 Copynumber: 2.6 Consensus size: 100
41006347 CATCATCGCG
* * * * * *
41006357 CTTCAATCTGCTCCGCTGCAACGCC-AGGAAAATAAGATTCACCATTGTGGGTTCAATCTATTTA
1 CTTCAATCTGTTCCACTACACCGCCAAGG-AAATAAGATTCACCGTTGTGGCTTCAATCTATTTA
*
41006421 ATTGCAATGTCGGGGAAACAAGATCC-CTGTCGTGA
65 ACTGCAATGTCGGGGAAACAAGATCCGCTGTCGTGA
* * *
41006456 TTTCAATCTGTTCCACTACACCGCCAAGGAAGGTAAGATTCACCGTTGTGGCTTTAATCTATTTA
1 CTTCAATCTGTTCCACTACACCGCCAAGGAA-ATAAGATTCACCGTTGTGGCTTCAATCTATTTA
** * * * *
41006521 ACTGTGATGTTGGGGAAACCAGATCCGCTTTCGTGG
65 ACTGCAATGTCGGGGAAACAAGATCCGCTGTCGTGA
* * *
41006557 CTTCAATCTATTCCACTACACCGCCAGGGAAAAAAGATTCACCGTTGTGGCTTCAATC
1 CTTCAATCTGTTCCACTACACCGCCAAGGAAATAAGATTCACCGTTGTGGCTTCAATC
41006615 CATTCCACTA
Statistics
Matches: 134, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
99 22 0.16
100 77 0.57
101 35 0.26
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
CTTCAATCTGTTCCACTACACCGCCAAGGAAATAAGATTCACCGTTGTGGCTTCAATCTATTTAA
CTGCAATGTCGGGGAAACAAGATCCGCTGTCGTGA
Found at i:41006614 original size:360 final size:364
Alignment explanation
Indices: 41006125--41006782 Score: 916
Period size: 360 Copynumber: 1.8 Consensus size: 364
41006115 ACAAATTCAG
* *
41006125 GGAAGTAAGATTCGCCATTGTGGCTCAATCTTTTAAGATGCCATGTTGTGGAAACAAGATCCGCC
1 GGAAGTAAGATTCACCATTGTGGCTCAATCTTTTAAGATGCCATGTTGGGGAAACAAGATCCGCC
* * * ** *
41006190 ATCGTGACTTCAATCTGTTCCACTACACTGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATC
66 ATCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAAAAAGATTCACCGTTGTGGCTTCAATC
* *
41006255 TATTCCACTGTAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAAT-C-CAC-AC-CA-CT
131 CATTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCACTACTCAGCT
* * * *
41006315 AATCCAAGTCTTAATGTCAGGGAGATAAGATTCATCATCG-CGCTTCAATCTGCTCCGCTGCAAC
196 AATCCAAGTCTTAACGCCAGGGAGATAAGATTCACCATCGTCGCTTCAATCTGCTCCGCTACAAC
* *
41006379 GCCAGGAAAATAAGATTCACCATTGTGGGTTCAATCTATTTAATTGCAATGTCGGGGAAACAAGA
261 GCCAGGAAAATAAGATTCACCATCGTGGCTTCAATCTATTTAATTGCAATGTCGGGGAAACAAGA
41006444 TCCCTGTCGTGATTTCAATCTGTTCCACTACACCGCCAA
326 TCCCTGTCGTGATTTCAATCTGTTCCACTACACCGCCAA
* * * ** *
41006483 GGAAGGTAAGATTCACCGTTGTGGCTTTAATCTATTTAA-CTGTGATGTTGGGGAAACCAGATCC
1 GGAA-GTAAGATTCACCATTGTGGC-TCAATCT-TTTAAGATGCCATGTTGGGGAAACAAGATCC
** *
41006547 GCTTTCGTGGCTTCAATCTATTCCACTACACCGCCAGGGAAAAAAGATTCACCGTTGTGGCTTCA
63 GCCATCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAAAAAGATTCACCGTTGTGGCTTCA
** * *
41006612 ATCCATTCCACTATAATGCCAAAGAGATAGGATTCGCTGGCCGCAGCTTTAATCCGCTCTACTTC
128 ATCCATTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCACTAC-TC
* * *
41006677 AGCTAATCCAAGTCTTAACGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTA
192 AGCTAATCCAAGTCTTAACGCCAGGGAGATAAGATTCACCATCGTCGCTTCAATCTGCTCCGCTA
* * *
41006742 CAACGCCAGGGAAGTAAGATTCGCCATCGTGGCTTCAATCT
257 CAACGCCAGGAAAATAAGATTCACCATCGTGGCTTCAATCT
41006783 TTTCCATTGC
Statistics
Matches: 255, Mismatches: 35, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
358 4 0.02
359 18 0.07
360 130 0.51
361 6 0.02
362 2 0.01
363 2 0.01
365 2 0.01
366 37 0.15
367 54 0.21
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (364 bp):
GGAAGTAAGATTCACCATTGTGGCTCAATCTTTTAAGATGCCATGTTGGGGAAACAAGATCCGCC
ATCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAAAAAGATTCACCGTTGTGGCTTCAATC
CATTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCACTACTCAGCT
AATCCAAGTCTTAACGCCAGGGAGATAAGATTCACCATCGTCGCTTCAATCTGCTCCGCTACAAC
GCCAGGAAAATAAGATTCACCATCGTGGCTTCAATCTATTTAATTGCAATGTCGGGGAAACAAGA
TCCCTGTCGTGATTTCAATCTGTTCCACTACACCGCCAA
Found at i:41006810 original size:50 final size:48
Alignment explanation
Indices: 41006704--41006810 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 48
41006694 ACGCCAGGGA
* * *
41006704 GATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGG
1 GATAAGATTCGCCATCGTGGCTTCAATCTGCTCCACTACAACGCAAGG
** * *
41006752 GAAGTAAGATTCGCCATCGTGGCTTCAATCTTTTCCATTGCAACGTCAAGG
1 G-A-TAAGATTCGCCATCGTGGCTTCAATCTGCTCCACTACAACG-CAAGG
41006803 CGATAAGA
1 -GATAAGA
41006811 CTGGTGTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
48 1 0.02
49 1 0.02
50 40 0.83
51 5 0.10
52 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (48 bp):
GATAAGATTCGCCATCGTGGCTTCAATCTGCTCCACTACAACGCAAGG
Found at i:41011848 original size:3 final size:3
Alignment explanation
Indices: 41011840--41011939 Score: 51
Period size: 3 Copynumber: 31.3 Consensus size: 3
41011830 TTACATAGTG
* * * **
41011840 ATA ATA ATA ACTA AGA ATA ATA ATAA ATG ATC ATA CATTA ATA A-A CGA
1 ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA ATA -A-TA ATA ATA ATA
* *
41011888 ATA ATA GTA GTAA ATAA ATAA ATA A-A AGTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A AT-A AT-A ATA ATA A-TA ATA ATA ATA ATA ATA ATA
41011936 ATA A
1 ATA A
41011940 ATTTATTTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
2 3 0.04
3 54 0.68
4 20 0.25
5 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:41016226 original size:29 final size:30
Alignment explanation
Indices: 41016194--41016252 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
41016184 TATGATTTAA
*
41016194 TGTGCAATTGTATATAT-AAATTTTAATTT
1 TGTGCAATTGTATACATGAAATTTTAATTT
* * *
41016223 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTAATTT
41016253 GATCCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTAATTT
Found at i:41016253 original size:29 final size:29
Alignment explanation
Indices: 41016172--41016252 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
41016162 AATTTTAAAA
*
41016172 TTATACATAAATTATGATTTAATGTGCAATT
1 TTATACATAAATTTTGATTT--TGTGCAATT
* * * *
41016203 GTATATATAAATTTTAATTTTGTGTAATT
1 TTATACATAAATTTTGATTTTGTGCAATT
41016232 TTATACATGAAATTTTGATTT
1 TTATACAT-AAATTTTGATTT
41016253 GATCCAATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 14 0.34
30 11 0.27
31 16 0.39
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.51
Consensus pattern (29 bp):
TTATACATAAATTTTGATTTTGTGCAATT
Found at i:41026275 original size:41 final size:39
Alignment explanation
Indices: 41026230--41026317 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 39
41026220 TAACGGTGTT
41026230 TTTAGCGGC-ATTTGGGGAAAAAATGCCGCTATAGATCGAGC
1 TTTAGCGGCGATTTGGGG--AAAATGCCGCTATAGATCGA-C
* **
41026271 TTTAGCGGCGCTTTTTGGAAAATGCCGCTATAGATCGAC
1 TTTAGCGGCGATTTGGGGAAAATGCCGCTATAGATCGAC
41026310 TATTAGCG
1 T-TTAGCG
41026318 ACGCTACTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 2 0.05
40 26 0.62
41 9 0.21
42 5 0.12
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (39 bp):
TTTAGCGGCGATTTGGGGAAAATGCCGCTATAGATCGAC
Found at i:41026297 original size:40 final size:40
Alignment explanation
Indices: 41026248--41026357 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
41026238 CATTTGGGGA
* **
41026248 AAAAATGCCGCTATAGATCGAGCT-TTAGCGGCGCTTTTTG
1 AAAAATGCCGCTATAGATCGA-CTATTAGCGACGCTACTTG
*
41026288 GAAAATGCCGCTATAGATCGACTATTAGCGACGCTACTTG
1 AAAAATGCCGCTATAGATCGACTATTAGCGACGCTACTTG
* * * *
41026328 AAAAACGCCGCTATAGGTAGACAATTAGCG
1 AAAAATGCCGCTATAGATCGACTATTAGCG
41026358 GCACTTTCTG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 58 0.97
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATCGACTATTAGCGACGCTACTTG
Found at i:41026370 original size:40 final size:40
Alignment explanation
Indices: 41026248--41026370 Score: 106
Period size: 40 Copynumber: 3.1 Consensus size: 40
41026238 CATTTGGGGA
* * * *
41026248 AAAAATGCCGCTATAGATCGAGC-TTTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATAGA-CAATTAGCGGCGCTTTCTG
* * * * * *
41026288 GAAAATGCCGCTATAGATCGACTATTAGCGACGC-TACTTG
1 AAAAACGCCGCTATAGATAGACAATTAGCGGCGCTTTC-TG
* *
41026328 AAAAACGCCGCTATAGGTAGACAATTAGCGGCACTTTCTG
1 AAAAACGCCGCTATAGATAGACAATTAGCGGCGCTTTCTG
41026368 AAA
1 AAA
41026371 CCGCCGCAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.03
40 63 0.94
41 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATAGACAATTAGCGGCGCTTTCTG
Found at i:41026483 original size:40 final size:39
Alignment explanation
Indices: 41026425--41026533 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 39
41026415 GCTTTAGTGG
* *
41026425 CATTAG-CGACGCTTTTTGAAAAACACCGCTA-ATGGTCGA-
1 CATTAGCCG-CGC-TTTTGAAAAACGCCGCTACA-GGTCAAC
*
41026464 CATTTAGCTGCGCTCTTTGAAAAACGCCGCTACAGGTCAAC
1 CA-TTAGCCGCGCT-TTTGAAAAACGCCGCTACAGGTCAAC
41026505 CATTAGCCGCGCTTTTGGAAAAACGCCGC
1 CATTAGCCGCGCTTTT-GAAAAACGCCGC
41026534 AAAAGACTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
39 6 0.10
40 50 0.83
41 4 0.07
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CATTAGCCGCGCTTTTGAAAAACGCCGCTACAGGTCAAC
Found at i:41026857 original size:7 final size:7
Alignment explanation
Indices: 41026835--41027037 Score: 81
Period size: 7 Copynumber: 28.4 Consensus size: 7
41026825 TTAATTATCA
*
41026835 TTATAGT
1 TTATGGT
*
41026842 TTAGGGT
1 TTATGGT
*
41026849 TTATAGT
1 TTATGGT
*
41026856 TTACGGT
1 TTATGGT
41026863 TTATGGT
1 TTATGGT
*
41026870 TTAGGGT
1 TTATGGT
* *
41026877 ATATAGT
1 TTATGGT
*
41026884 TTAGGGT
1 TTATGGT
*
41026891 TTAGGGT
1 TTATGGT
*
41026898 TTAGGAGT
1 TTATG-GT
41026906 TACTAT--T
1 T--TATGGT
*
41026913 TTAAGGT
1 TTATGGT
* *
41026920 CTATGGA
1 TTATGGT
41026927 TTATGGGT
1 TTAT-GGT
* *
41026935 TTAGGGA
1 TTATGGT
*
41026942 TAATGGT
1 TTATGGT
41026949 TTATGGT
1 TTATGGT
*
41026956 TTAGGGT
1 TTATGGT
*
41026963 TTAAGGT
1 TTATGGT
*
41026970 TTAAGAGT
1 TTATG-GT
41026978 TAGTAT--T
1 T--TATGGT
*
41026985 TTAAGGT
1 TTATGGT
*
41026992 TTATGGG
1 TTATGGT
41026999 TTATGGGT
1 TTAT-GGT
* *
41027007 TTAGGGA
1 TTATGGT
*
41027014 TAATGGT
1 TTATGGT
41027021 TTATGGT
1 TTATGGT
*
41027028 TTAGGGT
1 TTATGGT
41027035 TTA
1 TTA
41027038 AGGGTTGGGG
Statistics
Matches: 143, Mismatches: 41, Indels: 24
0.69 0.20 0.12
Matches are distributed among these distances:
5 4 0.03
7 119 0.83
8 16 0.11
10 4 0.03
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (7 bp):
TTATGGT
Found at i:41026899 original size:14 final size:14
Alignment explanation
Indices: 41026840--41027087 Score: 92
Period size: 14 Copynumber: 17.4 Consensus size: 14
41026830 TATCATTATA
**
41026840 GTTTAGGGTTTATA
1 GTTTAGGGTTTAGG
* *
41026854 GTTTACGGTTTATG
1 GTTTAGGGTTTAGG
* **
41026868 GTTTAGGGTATATA
1 GTTTAGGGTTTAGG
41026882 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
41026896 GTTTAGGAGTTACTA--
1 GTTTAGG-GTT--TAGG
* * * *
41026911 TTTTAAGGTCTATG
1 GTTTAGGGTTTAGG
*
41026925 GATTATGGGTTTAGG
1 GTTTA-GGGTTTAGG
* * * *
41026940 GATAATGGTTTATG
1 GTTTAGGGTTTAGG
*
41026954 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAGG
* *
41026968 GTTTAAGAG-TTAGTA
1 GTTT-AGGGTTTAG-G
* *
41026983 TTTTAAGGTTTATGG
1 GTTTAGGGTTTA-GG
41026998 G-TTATGGGTTTAGG
1 GTTTA-GGGTTTAGG
* * * *
41027012 GATAATGGTTTATG
1 GTTTAGGGTTTAGG
41027026 GTTTAGGGTTTAAGG
1 GTTTAGGGTTT-AGG
* *
41027041 G-TTGGGGTTTAAG
1 GTTTAGGGTTTAGG
* *
41027054 TTTTAAGGTTTAGG
1 GTTTAGGGTTTAGG
* *
41027068 GGTTAGGGGTTTAAG
1 GTTTA-GGGTTTAGG
41027083 GTTTA
1 GTTTA
41027088 TATTTTATGA
Statistics
Matches: 169, Mismatches: 50, Indels: 29
0.68 0.20 0.12
Matches are distributed among these distances:
12 2 0.01
13 2 0.01
14 113 0.67
15 49 0.29
16 1 0.01
17 2 0.01
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:41026978 original size:72 final size:72
Alignment explanation
Indices: 41026882--41027040 Score: 273
Period size: 72 Copynumber: 2.2 Consensus size: 72
41026872 AGGGTATATA
* *
41026882 GTTTAGGGTTTAGGGTTTAGGAGTTACTATTTTAAGGTCTATGGATTATGGGTTTAGGGATAATG
1 GTTTAGGGTTTAAGGTTTAAGAGTTACTATTTTAAGGTCTATGGATTATGGGTTTAGGGATAATG
41026947 GTTTATG
66 GTTTATG
* * *
41026954 GTTTAGGGTTTAAGGTTTAAGAGTTAGTATTTTAAGGTTTATGGGTTATGGGTTTAGGGATAATG
1 GTTTAGGGTTTAAGGTTTAAGAGTTACTATTTTAAGGTCTATGGATTATGGGTTTAGGGATAATG
41027019 GTTTATG
66 GTTTATG
41027026 GTTTAGGGTTTAAGG
1 GTTTAGGGTTTAAGG
41027041 GTTGGGGTTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 82 1.00
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (72 bp):
GTTTAGGGTTTAAGGTTTAAGAGTTACTATTTTAAGGTCTATGGATTATGGGTTTAGGGATAATG
GTTTATG
Found at i:41027009 original size:22 final size:21
Alignment explanation
Indices: 41026989--41027075 Score: 52
Period size: 21 Copynumber: 4.1 Consensus size: 21
41026979 AGTATTTTAA
* *
41026989 GGTTTATGGGTTATGGGTTTAG
1 GGTTTAAGGTTTATGGGT-TAG
* *
41027011 GG-ATAATGGTTTATGGTTTAG
1 GGTTTAA-GGTTTATGGGTTAG
* * *
41027032 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGTTTATGGG-TTAG
* *
41027053 GTTTTAAGGTTTAGGGGTTAG
1 GGTTTAAGGTTTATGGGTTAG
41027074 GG
1 GG
41027076 GTTTAAGGTT
Statistics
Matches: 48, Mismatches: 13, Indels: 9
0.69 0.19 0.13
Matches are distributed among these distances:
20 2 0.04
21 28 0.58
22 18 0.38
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.41
Consensus pattern (21 bp):
GGTTTAAGGTTTATGGGTTAG
Found at i:41027060 original size:7 final size:7
Alignment explanation
Indices: 41027018--41027087 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
41027008 TAGGGATAAT
*
41027018 GGTTTAT
1 GGTTTAA
*
41027025 GGTTTAG
1 GGTTTAA
41027032 GGTTTAA
1 GGTTTAA
* **
41027039 GGGTTGG
1 GGTTTAA
41027046 GGTTTAA
1 GGTTTAA
*
41027053 GTTTTAA
1 GGTTTAA
*
41027060 GGTTTAG
1 GGTTTAA
* *
41027067 GGGTTAGG
1 GGTTTA-A
41027075 GGTTTAA
1 GGTTTAA
41027082 GGTTTA
1 GGTTTA
41027088 TATTTTATGA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
7 42 0.88
8 6 0.12
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:41028023 original size:114 final size:115
Alignment explanation
Indices: 41027677--41028089 Score: 329
Period size: 114 Copynumber: 3.6 Consensus size: 115
41027667 AAAAATGGCA
* * * * * *
41027677 CCGTTTTATTAGATTTCTTAGTGGCGGTTTTGGTGAAACACTGTAATATGTCGGGCTGTAGCGGC
1 CCGTTTTATTTGATTTTTTAGTGGCAGTTTTGGTGAAACACTGCAATAGGTCGGGCTTTAGCGGC
* * * * * *
41027742 GCTATCCTAAAAACGCCACAAAAAGTTATTCTGTTTTTATCAAAACGAAA
66 GCTAGCCAAAAAACGCCGCAAAAAGTTATTTTGTTTTAATCAAAACGAAG
** * * ** * * *
41027792 CATTTTTATTTG-TTTTTTAGTGGCATTTTTGGTAAAATGCCGCAATAGGTCAGGCTTTAGCGGT
1 CCGTTTTATTTGATTTTTTAGTGGCAGTTTTGGTGAAACACTGCAATAGGTCGGGCTTTAGCGGC
*** * * * * *
41027856 GCTAGGTGAAAAACGCTGCAAAAGGTTAATTTGTTTTAATCAAAA-TAGTG
66 GCTAGCCAAAAAACGCCGCAAAAAGTTATTTTGTTTTAATCAAAACGA-AG
* * * *
41027906 CCGTTTTATTTGATTTTTTAGTGGC-GTTTTCGTCGAAACACTGCAAAAGGTCGGGCTTTAGTGA
1 CCGTTTTATTTGATTTTTTAGTGGCAGTTTTGGT-GAAACACTGCAATAGGTCGGGCTTTAGCGG
* ** *
41027970 CGCTA-CCAAAAAATGCCGCAAACTGTTATTTTGTTTTAATCAAAACGACG
65 CGCTAGCCAAAAAACGCCGCAAAAAGTTATTTTGTTTTAATCAAAACGAAG
* * * * * *
41028020 CCGTTTT-TGTAGGA-TTTTTAGTGGC-GTTTTTAGTTAAACGA-TGCAATATGTAGGGATTTAG
1 CCGTTTTAT-T-TGATTTTTTAGTGGCAG-TTTTGGTGAAAC-ACTGCAATAGGTCGGGCTTTAG
41028081 CGGCGCTAG
62 CGGCGCTAG
41028090 TGGATAAACG
Statistics
Matches: 229, Mismatches: 60, Indels: 18
0.75 0.20 0.06
Matches are distributed among these distances:
113 2 0.01
114 170 0.74
115 57 0.25
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (115 bp):
CCGTTTTATTTGATTTTTTAGTGGCAGTTTTGGTGAAACACTGCAATAGGTCGGGCTTTAGCGGC
GCTAGCCAAAAAACGCCGCAAAAAGTTATTTTGTTTTAATCAAAACGAAG
Found at i:41028082 original size:229 final size:228
Alignment explanation
Indices: 41027654--41028089 Score: 491
Period size: 229 Copynumber: 1.9 Consensus size: 228
41027644 AGGGCAAAAA
* *
41027654 TAATTTTTTTAATAAAAATGGCACCGTTTTATTAGATTTCTTAGTGGCGGTTTTGGTGAAACACT
1 TAATTTTTTTAATAAAAATAGCACCGTTTTATTAGATTTCTTAGTGGCGGTTTTCGTGAAACACT
* * * * * *
41027719 GTAATATGTCGGGCTGTAGCGGCGCTATCCTAAAAACGCCACAAAAAGTTATTCTGTTTTTATCA
66 GCAAAAGGTCGGGCTGTAGCGACGCTATCCAAAAAACGCCACAAAAAGTTATTCTGTTTTAATCA
** * * * * *
41027784 AAACGAAACATTTTTATTTGTTTTTTAGTGGCATTTTTGGTAAAATGCCGCAATAGGTCAGGCTT
131 AAACGAAACATTTTTATAGGATTTTTAGTGGCATTTTTAGTAAAACGACGCAATAGGTCAGGATT
*
41027849 TAGCGGTGCTAGGTGAAAAACGCTGCAAAAGGT
196 TAGCGGCGCTAGGTGAAAAACGCTGCAAAAGGT
* ** * *
41027882 TAATTTGTTTTAATCAAAATAGTGCCGTTTTATTTGATTTTTTAGTGGC-GTTTTCGTCGAAACA
1 TAATTT-TTTTAATAAAAATAGCACCGTTTTATTAGATTTCTTAGTGGCGGTTTTCGT-GAAACA
* * * * ** *
41027946 CTGCAAAAGGTCGGGCTTTAGTGACGCTA-CCAAAAAATGCCGCAAACTGTTATTTTGTTTTAAT
64 CTGCAAAAGGTCGGGCTGTAGCGACGCTATCCAAAAAACGCCACAAAAAGTTATTCTGTTTTAAT
** * * * * * *
41028010 CAAAACGACGCCGTTTTTGTAGGATTTTTAGTGGCGTTTTTAGTTAAACGATGCAATATGT-AGG
129 CAAAACGA-AACATTTTTATAGGATTTTTAGTGGCATTTTTAGTAAAACGACGCAATAGGTCA-G
41028074 GATTTAGCGGCGCTAG
192 GATTTAGCGGCGCTAG
41028090 TGGATAAACG
Statistics
Matches: 168, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
228 50 0.30
229 118 0.70
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (228 bp):
TAATTTTTTTAATAAAAATAGCACCGTTTTATTAGATTTCTTAGTGGCGGTTTTCGTGAAACACT
GCAAAAGGTCGGGCTGTAGCGACGCTATCCAAAAAACGCCACAAAAAGTTATTCTGTTTTAATCA
AAACGAAACATTTTTATAGGATTTTTAGTGGCATTTTTAGTAAAACGACGCAATAGGTCAGGATT
TAGCGGCGCTAGGTGAAAAACGCTGCAAAAGGT
Found at i:41028572 original size:20 final size:20
Alignment explanation
Indices: 41028535--41028573 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41028525 AAAAATGGAT
* *
41028535 ATGGGTGTTCATGGTTGTTC
1 ATGGCTGTTCATAGTTGTTC
*
41028555 ATGGCTGTTCATATTTGTT
1 ATGGCTGTTCATAGTTGTT
41028574 TCCATAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.28, T:0.49
Consensus pattern (20 bp):
ATGGCTGTTCATAGTTGTTC
Found at i:41033241 original size:43 final size:43
Alignment explanation
Indices: 41033188--41033625 Score: 270
Period size: 43 Copynumber: 10.2 Consensus size: 43
41033178 CATTTTTTGT
* * *
41033188 AAAACACCGCTAAAGAAC-GGTACTTTTAGCGGCGTTTGTGAAA
1 AAAACGCCGCTAAAGGACAGGT-CTTTTAGCGGCGTTTGTGATA
* * *
41033231 AAAACGCCGCTAAAGGTCATGT-TATTTAGCGGCGTTTGTGCTA
1 AAAACGCCGCTAAAGGACAGGTCT-TTTAGCGGCGTTTGTGATA
* * * * *
41033274 AAAGCGCCGTTAAAGGTCATGTTTTTTAGCGGCGTTTGTGATA
1 AAAACGCCGCTAAAGGACAGGTCTTTTAGCGGCGTTTGTGATA
** ** * *
41033317 AAAGTGTTGCTAAA-GA-TGCTC-TTTAGCGGCGTTTGTGATA
1 AAAACGCCGCTAAAGGACAGGTCTTTTAGCGGCGTTTGTGATA
* * * * *
41033357 AAAA-GCCGCTAAAGGTCATGT-TCTTTAGCAGTGTTTGTGCTA
1 AAAACGCCGCTAAAGGACAGGTCT-TTTAGCGGCGTTTGTGATA
* * * * *
41033399 AAAGCACCACTAAAGGTCATGT-TCTTTAGCGGCGTTTGTGATA
1 AAAACGCCGCTAAAGGACAGGTCT-TTTAGCGGCGTTTGTGATA
* * * * *
41033442 AAAGCGCCGCAAAAGGTCATGT-TGTTTAGCGGCGTTTGTAATA
1 AAAACGCCGCTAAAGGACAGGTCT-TTTAGCGGCGTTTGTGATA
* * * * *
41033485 AAAGCGCCACTAAAGGTCATGT-TCTTTAGCGGCGTTTGTGATG
1 AAAACGCCGCTAAAGGACAGGTCT-TTTAGCGGCGTTTGTGATA
* * * * *
41033528 AAAACGCCGCTAAAGGTCATGT-TCTTTAGCGACGATTGTGACA
1 AAAACGCCGCTAAAGGACAGGTCT-TTTAGCGGCGTTTGTGATA
** * * *
41033571 AAAGTGCCGCTAAAGGTCATGT-TCTTTAGCGGCGTTTATGTGAAAA
1 AAAACGCCGCTAAAGGACAGGTCT-TTTAGCGGCG-TT-TGTG-ATA
41033617 AAAACGCCG
1 AAAACGCCG
41033626 TCAAAATTAG
Statistics
Matches: 327, Mismatches: 57, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
39 7 0.02
40 23 0.07
41 2 0.01
42 21 0.06
43 257 0.79
44 4 0.01
45 4 0.01
46 9 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
AAAACGCCGCTAAAGGACAGGTCTTTTAGCGGCGTTTGTGATA
Found at i:41033307 original size:86 final size:85
Alignment explanation
Indices: 41033212--41033607 Score: 512
Period size: 86 Copynumber: 4.7 Consensus size: 85
41033202 GAACGGTACT
* * *
41033212 TTTAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGTCATGTTATTTAGCGGCGTTTGTGCTAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAA
* *
41033277 GCGCCGTTAAAGGTCATGTTT
66 -CGCCGCTAAAGGTCATGTTC
* * ** *
41033298 TTTAGCGGCGTTTGTGATAAAAGTGTTGCTAAA-G--ATGCTCTTTAGCGGCGTTTGTGATAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAA
*
41033360 AGCCGCTAAAGGTCATGTTC
66 CGCCGCTAAAGGTCATGTTC
* * ** * *
41033380 TTTAGCAGTGTTTGTGCTAAAAGCACCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAA
* *
41033445 GCGCCGCAAAAGGTCATGTTG
66 -CGCCGCTAAAGGTCATGTTC
*
41033466 TTTAGCGGCGTTTGT-AATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATGAA
1 TTTAGCGGCGTTTGTGAA-AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT-AA
41033530 AACGCCGCTAAAGGTCATGTTC
64 AACGCCGCTAAAGGTCATGTTC
* * * *
41033552 TTTAGCGACGATTGTGACAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
41033608 ATGTGAAAAA
Statistics
Matches: 268, Mismatches: 35, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
82 42 0.16
83 26 0.10
85 28 0.10
86 167 0.62
87 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAA
CGCCGCTAAAGGTCATGTTC
Found at i:41044237 original size:28 final size:28
Alignment explanation
Indices: 41044197--41044253 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
41044187 ACATCTGACC
*
41044197 AATTTCTTTCTTTTGGGAAATTCAACTA
1 AATTTCTTCCTTTTGGGAAATTCAACTA
41044225 AATTTCTTCCTTTTGGGAAATTCAACTA
1 AATTTCTTCCTTTTGGGAAATTCAACTA
41044253 A
1 A
41044254 CTCTCATGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (28 bp):
AATTTCTTCCTTTTGGGAAATTCAACTA
Found at i:41044464 original size:16 final size:16
Alignment explanation
Indices: 41044443--41044481 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
41044433 GTTTGGTTCA
41044443 CTGTAATGGAAAAGAG
1 CTGTAATGGAAAAGAG
*
41044459 CTGTAATGGAATAGAG
1 CTGTAATGGAAAAGAG
*
41044475 TTGTAAT
1 CTGTAAT
41044482 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAAAAGAG
Found at i:41044515 original size:45 final size:44
Alignment explanation
Indices: 41044464--41044551 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
41044454 AAGAGCTGTA
* *
41044464 ATGGAATAGAGTTGTAATAGTAATTCAAT-TGTTTGCTTGAATGGG
1 ATGGAATAGAGCTATAATAGT-ATT-AATGTGTTTGCTTGAATGGG
* *
41044509 ATGGAATAGAGCTATAATAGTATTATTGTGTTTGGTTGAATGG
1 ATGGAATAGAGCTATAATAGTATTAATGTGTTTGCTTGAATGG
41044552 AATGATATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 2 0.05
44 17 0.45
45 19 0.50
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (44 bp):
ATGGAATAGAGCTATAATAGTATTAATGTGTTTGCTTGAATGGG
Found at i:41044780 original size:57 final size:56
Alignment explanation
Indices: 41044664--41044797 Score: 144
Period size: 57 Copynumber: 2.3 Consensus size: 56
41044654 AATAAGATTA
* * *
41044664 TTAATAAAAATAATAAATAATTTAATCATATTTTAACATAATTAGTATTAAATATAAT
1 TTAAT-AAAATAATATATAATTTAATAAAATTTTAACATAATTAGTATT-AATATAAT
* * *
41044722 TTAATAAAATAATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATATATAATTTAATAAAATT-TTAACATAATTAGTATTAATAT-AAT
* *
41044779 TTACTAAAATCATAATATA
1 TTAATAAAATAAT-ATATA
41044798 TAATACTATA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 4 0.06
57 37 0.57
58 24 0.37
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (56 bp):
TTAATAAAATAATATATAATTTAATAAAATTTTAACATAATTAGTATTAATATAAT
Found at i:41045416 original size:46 final size:46
Alignment explanation
Indices: 41045366--41045456 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
41045356 TTTTGTAGTG
* *
41045366 TTAATTATAATTTTTAATCAAACAATATATGTAATATAAAATATTT
1 TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAATATTT
*
41045412 TTAATTATAATTTTCAATCATACAATATAAGTAATATAAAATATT
1 TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAATATT
41045457 GTTTGAAGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (46 bp):
TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAATATTT
Found at i:41046294 original size:4 final size:4
Alignment explanation
Indices: 41046282--41046316 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
41046272 TAAAATTAGT
41046282 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
41046317 AATGATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:41046713 original size:31 final size:31
Alignment explanation
Indices: 41046620--41046715 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
41046610 GGCAAATTAC
*
41046620 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
*
41046651 AAGAGTAATTGAATCCTACTAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
*
41046683 AAGAGTGATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
41046714 AA
1 AA
41046716 ATTATCTAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:41052293 original size:44 final size:44
Alignment explanation
Indices: 41052221--41052338 Score: 211
Period size: 44 Copynumber: 2.7 Consensus size: 44
41052211 GAGAGGTAGG
41052221 CAACTTTTTTTTTGCGCTGTTTGC-TTTTTTTTCAGATTTTTCT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTCAGATTTTTCT
*
41052264 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTTAGATTTTTCT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTCAGATTTTTCT
*
41052308 CAACTTTTTTTTTGCGCTTTTTGCTTTTTTT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTT
41052339 ATTAACTAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
43 24 0.33
44 48 0.67
ACGTcount: A:0.08, C:0.15, G:0.11, T:0.65
Consensus pattern (44 bp):
CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTCAGATTTTTCT
Found at i:41052535 original size:14 final size:15
Alignment explanation
Indices: 41052502--41052565 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
41052492 CACAAATTAG
41052502 AAATAAAATGAGAAT
1 AAATAAAATGAGAAT
* *
41052517 AAATAAAATTAG-TT
1 AAATAAAATGAGAAT
41052531 AAATAATAAAT-A-AAT
1 AAAT-A-AAATGAGAAT
41052546 AAAT-AAAT-A-AAT
1 AAATAAAATGAGAAT
41052558 AAATAAAA
1 AAATAAAA
41052566 ATGATAGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
12 12 0.29
13 3 0.07
14 5 0.12
15 18 0.43
16 4 0.10
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
AAATAAAATGAGAAT
Found at i:41052542 original size:4 final size:4
Alignment explanation
Indices: 41052530--41052564 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
41052520 TAAAATTAGT
41052530 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
41052565 AATGATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:41053530 original size:13 final size:13
Alignment explanation
Indices: 41053512--41053541 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
41053502 GAAATATAGT
41053512 AGAATATTTTATC
1 AGAATATTTTATC
41053525 AGAATATTTTATC
1 AGAATATTTTATC
41053538 AGAA
1 AGAA
41053542 CATCTGCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (13 bp):
AGAATATTTTATC
Found at i:41057736 original size:13 final size:13
Alignment explanation
Indices: 41057718--41057756 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
41057708 ATGAAAAAGA
41057718 AAGAAAAATAAAT
1 AAGAAAAATAAAT
*
41057731 AAGAAAAAGAAAAT
1 AAGAAAAA-TAAAT
41057745 AAGAGAAAATAA
1 AAGA-AAAATAA
41057757 GGGAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 8 0.36
14 10 0.45
15 4 0.18
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
AAGAAAAATAAAT
Found at i:41060027 original size:75 final size:75
Alignment explanation
Indices: 41059904--41060053 Score: 273
Period size: 75 Copynumber: 2.0 Consensus size: 75
41059894 AGAGTAATAG
*
41059904 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAATCTAGTGTGGAGGAAAATTCGTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAATCTAGTGTGGAGGAAAATTCCTCT
41059969 GATGCTGATT
66 GATGCTGATT
* *
41059979 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCCTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAATCTAGTGTGGAGGAAAATTCCTCT
41060044 GATGCTGATT
66 GATGCTGATT
41060054 CCTCAATGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (75 bp):
TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAATCTAGTGTGGAGGAAAATTCCTCT
GATGCTGATT
Found at i:41063250 original size:40 final size:39
Alignment explanation
Indices: 41063194--41063312 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 39
41063184 GGCGTTTGGA
*
41063194 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGC-TTC
1 TAAAAAACGCCACTAAAAAT-AAGCATTAGCGGCGCTTTC
* * *
41063233 TAATAAAACGCCACTAAAGATAGAGTATTAGCGGCGCTTTT
1 TAA-AAAACGCCACTAAAAATA-AGCATTAGCGGCGCTTTC
* * *
41063274 TAAAAAATGCCACTAAAAATGAGCATTAGCGGCGTTTTC
1 TAAAAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTC
41063313 CACAAAGCGC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 19 0.28
40 43 0.64
41 5 0.07
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (39 bp):
TAAAAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTC
Found at i:41063436 original size:41 final size:41
Alignment explanation
Indices: 41063363--41063691 Score: 392
Period size: 41 Copynumber: 8.0 Consensus size: 41
41063353 AAGTTTTTGG
* * * * *
41063363 GGGCATTAGCGGCGTTTTTTAAAAAGCACCGCTAATGCTAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* *
41063404 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAAAGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* ***
41063445 GGTCTTTAGCGATATTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
41063486 GGGCTTTAGCGGTGTTTCTGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
** *
41063527 GTTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
* *
41063569 --TCTTTAGCGGCGTTTATGAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
41063608 GGGCTTTAGCGGCGTTTTTTGGAGAAGCGCCACTAATGCTTA
1 GGGCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
41063650 GGGATTTAGCGGCGTTTTTTGAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCA
41063692 AATTTATCAT
Statistics
Matches: 249, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.00
40 36 0.14
41 152 0.61
42 60 0.24
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:41064662 original size:14 final size:15
Alignment explanation
Indices: 41064643--41064687 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
41064633 AGGACAGTTA
41064643 TAAGGGTT-GGGGTT
1 TAAGGGTTAGGGGTT
41064657 TAAGGGTTAGGGG-T
1 TAAGGGTTAGGGGTT
*
41064671 TAGGGGTTAGGGGTT
1 TAAGGGTTAGGGGTT
41064686 TA
1 TA
41064688 TGGTTTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (15 bp):
TAAGGGTTAGGGGTT
Found at i:41064672 original size:7 final size:7
Alignment explanation
Indices: 41064646--41064685 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
41064636 ACAGTTATAA
41064646 GGGTT-G
1 GGGTTAG
*
41064652 GGGTTTAA
1 GGG-TTAG
41064660 GGGTTAG
1 GGGTTAG
41064667 GGGTTAG
1 GGGTTAG
41064674 GGGTTAG
1 GGGTTAG
41064681 GGGTT
1 GGGTT
41064686 TATGGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 3 0.10
7 24 0.80
8 3 0.10
ACGTcount: A:0.12, C:0.00, G:0.55, T:0.33
Consensus pattern (7 bp):
GGGTTAG
Found at i:41064692 original size:14 final size:14
Alignment explanation
Indices: 41064645--41064692 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
41064635 GACAGTTATA
41064645 AGGGTT-GGGGTTT
1 AGGGTTAGGGGTTT
41064658 AAGGGTTAGGGG-TT
1 -AGGGTTAGGGGTTT
41064672 AGGGGTTAGGGGTTT
1 A-GGGTTAGGGGTTT
*
41064687 ATGGTT
1 AGGGTT
41064693 TATGTTTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.03
14 22 0.73
15 7 0.23
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (14 bp):
AGGGTTAGGGGTTT
Found at i:41065789 original size:17 final size:17
Alignment explanation
Indices: 41065769--41065801 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
41065759 ACTGAAACCT
41065769 TAGATGAGAAGAAATCC
1 TAGATGAGAAGAAATCC
41065786 TAGATGAGAAGAAATC
1 TAGATGAGAAGAAATC
41065802 GGAGGAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.24, T:0.18
Consensus pattern (17 bp):
TAGATGAGAAGAAATCC
Found at i:41067843 original size:23 final size:23
Alignment explanation
Indices: 41067809--41068235 Score: 349
Period size: 23 Copynumber: 18.7 Consensus size: 23
41067799 GAATGTTGTT
41067809 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
41067832 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
41067855 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
41067878 AATTGAAGTGTTTAAGTGCAGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* * *
41067901 AATTGAAGTGCTT-AGTTGTTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
41067924 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
41067946 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
41067969 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* *
41067992 AATTTAAGTGTTTAAATGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
41068015 AATTTAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
41068038 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
41068061 AATTG-AGATGTTTTA-TCGTTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * * **
41068083 AACTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
41068106 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
41068129 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
41068152 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
41068175 AATTGAAGTGTTT-AGTTGCTGAA
1 AATTGAAGTGTTTAAG-TGCTGCA
*
41068198 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAGTGCTGCA
41068221 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
41068236 ATTTAACTTG
Statistics
Matches: 327, Mismatches: 54, Indels: 46
0.77 0.13 0.11
Matches are distributed among these distances:
22 43 0.13
23 278 0.85
24 6 0.02
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:41068054 original size:137 final size:137
Alignment explanation
Indices: 41067840--41068209 Score: 632
Period size: 137 Copynumber: 2.7 Consensus size: 137
41067830 CAAATTTAAG
* * * * *
41067840 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCAGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
* *
41067905 GAAGTGCTTAGTTGTTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAACTGAGGTGTATAAATGTTGTTA
41067970 ATTGATA
131 ATTGATA
*
41067977 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
*
41068042 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGTTGTAACTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAACTGAGGTGTATAAATGTTGTTA
41068107 ATTGATA
131 ATTGATA
*
41068114 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
* *
41068179 GAAGTGTTTAGTTGCTGAAAATTGAGATGTT
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTT
41068210 AAAGTGCTGC
Statistics
Matches: 220, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 220 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (137 bp):
TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAACTGAGGTGTATAAATGTTGTTA
ATTGATA
Found at i:41068111 original size:160 final size:160
Alignment explanation
Indices: 41067800--41068230 Score: 475
Period size: 160 Copynumber: 2.7 Consensus size: 160
41067790 AGCAGCATCG
*
41067800 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGTG
* * *
41067865 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCAGCAAATTGAAGTGCTTAGTTGTTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGCTTAAGTGCAGCAAATTGAAGTGCTTAGTCGTTGGAAACTGA
** *
41067930 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTAAATCGCTGTAATTGAGATGTATA
*
41067960 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTTAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGTG
* * * *
41068025 TTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTG-AGATGTTTTA-TCGTT-GTAAC
66 TTTAAGTGCTGCAAATTGAAGTGCTTAAG-TGCAGCAAATTGAAG-TG-CTTAGTCGTTGGAAAC
* * * *
41068086 TGAGGTGTATAAAT-GTTGTTAATTGATATGTTTA
128 TGAGATGT-TAAATCGCTG-TAATTGAGATGTATA
* * ** * * * * *
41068120 AGTGCTGCAAATTTA-AGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGT
1 AATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGT
* *
41068184 GTTT-AGTTGCTGAAAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTG
65 GTTTAAG-TGCTGCAAATTGAAG-TGCTT-AAGTGCAGCAAATTGAAGTG
41068231 TTTAAATTTA
Statistics
Matches: 232, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
159 24 0.10
160 201 0.87
161 7 0.03
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.39
Consensus pattern (160 bp):
AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGCAAATTGAAGTG
TTTAAGTGCTGCAAATTGAAGTGCTTAAGTGCAGCAAATTGAAGTGCTTAGTCGTTGGAAACTGA
GATGTTAAATCGCTGTAATTGAGATGTATA
Found at i:41068910 original size:43 final size:43
Alignment explanation
Indices: 41068838--41069130 Score: 388
Period size: 43 Copynumber: 6.8 Consensus size: 43
41068828 TTTTCGTGAC
* * *
41068838 CTTTAGTGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
* * * ** **
41068881 CTTTAGCGGGGTTTGTAGGAAAAATGCCGCTAAAGGTCCTAAT
1 CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
* * * * *
41068924 CTTTAGCGGCGTTTATGGGAAAAGCGACGCTAAAGGTCTTGAT
1 CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
* *
41068967 CTTTAGCGGCGTTTGTGGGTAAAGCGCCACTAAAGGTTCTGGT
1 CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
* **
41069010 CTTTAGCGGCATTTGTGGGTAAAGTACCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
*
41069053 ATTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
*
41069096 CTTTAGTGGCGTTTGTGGGTAAAGCGCCGCTAAAG
1 CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAG
41069131 TTAGCGACGC
Statistics
Matches: 215, Mismatches: 35, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 215 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGT
Found at i:41071211 original size:26 final size:29
Alignment explanation
Indices: 41071182--41071242 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 29
41071172 TTTGTTAGGA
* *
41071182 CTTTGAAT-ATTTCCTC-TTTGAAC-TTT
1 CTTTGAATAATATCATCTTTTGAACTTTT
41071208 CTTTG-ATAATATCATCTTTTGAACTTTT
1 CTTTGAATAATATCATCTTTTGAACTTTT
41071236 CTTTGAA
1 CTTTGAA
41071243 ACATTACCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 11 0.38
27 7 0.24
28 8 0.28
29 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.08, T:0.52
Consensus pattern (29 bp):
CTTTGAATAATATCATCTTTTGAACTTTT
Found at i:41074983 original size:19 final size:19
Alignment explanation
Indices: 41074946--41074981 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
41074936 TTTTGACTAA
41074946 CATCTATGATTTCTATTTT
1 CATCTATGATTTCTATTTT
41074965 CATC-ATGATTTCT-TTTT
1 CATCTATGATTTCTATTTT
41074982 TTATAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.58
Consensus pattern (19 bp):
CATCTATGATTTCTATTTT
Found at i:41076925 original size:13 final size:13
Alignment explanation
Indices: 41076907--41076931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41076897 TTTTACAAAG
41076907 AAAAATAAAAAAT
1 AAAAATAAAAAAT
41076920 AAAAATAAAAAA
1 AAAAATAAAAAA
41076932 CCAAAACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:41090636 original size:43 final size:43
Alignment explanation
Indices: 41090584--41090822 Score: 149
Period size: 43 Copynumber: 5.6 Consensus size: 43
41090574 AGATTGAAGA
41090584 TCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAAGTACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAAGTACCAG
* * * *
41090627 TCTTATCTCCCTTAGCAATAGTGGAGCAGA--GAGAAGAAACC-G
1 TCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGA-AAG-TACCAG
* * * * *
41090669 ATCTTATCTCTCTAA--AGTTACAGTAGAGCAGATCG-TA-T-CCAA
1 -TCTTATCTCCCTAAGCAG-T--AGTGGAGCGGATCGAAAGTACCAG
* * * * * * * *
41090711 CCTTATCTTCCTAAGCAGCAGCGAAGTAGG-TCCAAGATTGA--AG
1 TCTTATCTCCCTAAGCAGTAGTGGAG-CGGATCGAA-AGT-ACCAG
41090754 ATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAAGTACCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAAGTACCAG
*
41090798 TCTTATCTCCTTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGA
41090823 ACAGACAGAA
Statistics
Matches: 143, Mismatches: 32, Indels: 42
0.66 0.15 0.19
Matches are distributed among these distances:
40 6 0.04
41 17 0.12
42 7 0.05
43 74 0.52
44 38 0.27
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAAGTACCAG
Found at i:41090813 original size:87 final size:87
Alignment explanation
Indices: 41090553--41090815 Score: 260
Period size: 87 Copynumber: 3.1 Consensus size: 87
41090543 TATCTCTCTG
41090553 AGCAGCAGCGGAGTAGGTCCAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGA
1 AGCAGCAGCGGAGTAGGTCCAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGA
41090618 AAGTACCAGTCTTATCTCCCTT-
66 AAGTACCAGTCTTATCT-CCTTA
** * * ** * * *
41090640 AGCAATAGTGGAGCAGAG-AGAAGA---AACCGATCTTATCTCTCTAA--AGTTACAGTAGAGCA
1 AGCAGCAGCGGAGTAG-GTCCAAGATTGAA--GATCTTATCTCCCTAAGCAG-T--AGTGGAGCG
* **
41090699 GATCG-TA-T-CCAACCTTATCTTCC-TA
60 GATCGAAAGTACCAGTCTTATC-TCCTTA
*
41090724 AGCAGCAGCGAAGTAGGTCCAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGA
1 AGCAGCAGCGGAGTAGGTCCAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGA
41090789 AAGTACCAGTCTTATCTCCTTA
66 AAGTACCAGTCTTATCTCCTTA
41090811 AGCAG
1 AGCAG
41090816 TAGTGGAACA
Statistics
Matches: 133, Mismatches: 25, Indels: 36
0.69 0.13 0.19
Matches are distributed among these distances:
83 2 0.02
84 42 0.32
85 19 0.14
86 21 0.16
87 48 0.36
88 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (87 bp):
AGCAGCAGCGGAGTAGGTCCAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGA
AAGTACCAGTCTTATCTCCTTA
Found at i:41090835 original size:171 final size:175
Alignment explanation
Indices: 41090533--41090892 Score: 570
Period size: 171 Copynumber: 2.1 Consensus size: 175
41090523 CAAGTCATCA
* * *
41090533 TATCAAACCTTATC-TCTCTGAGCAGCAGCGGAGTAGGTCCAAGATTGAAGATCTTATCTCCCTA
1 TATCCAACCTTATCTTCTCTAAGCAGCAGCGAAGTAGGTCCAAGATTGAAGATCTTATCTCCCTA
* *
41090597 AGCAGTAGTGGAGCGGATCGAAAGTACCAGTCTTATCTCCCTTAGCAATAGTGGAGCAGAGAGAA
66 AGCAGTAGTGGAGCGGATCGAAAGTACCAGTCTTATCTCCCTTAGCAATAGTGGAACAGACAGAA
41090662 GAAA-C-C-GATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCG
131 GAAACCACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCG
41090704 TATCCAACCTTATCTTC-CTAAGCAGCAGCGAAGTAGGTCCAAGATTGAAGATCTTATCTCCCTA
1 TATCCAACCTTATCTTCTCTAAGCAGCAGCGAAGTAGGTCCAAGATTGAAGATCTTATCTCCCTA
*
41090768 AGCAGTAGTGGAGCGGATCGAAAGTACCAGTCTTATCT-CCTTAAGCAGTAGTGGAACAGACAGA
66 AGCAGTAGTGGAGCGGATCGAAAGTACCAGTCTTATCTCCCTT-AGCAATAGTGGAACAGACAGA
* *
41090832 AGAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCG
130 AGAAACCACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCG
* **
41090878 CATCCAGTCTTATCT
1 TATCCAACCTTATCT
41090893 CCCTGAAGTT
Statistics
Matches: 173, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
170 4 0.02
171 119 0.69
172 3 0.02
173 1 0.01
174 46 0.27
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (175 bp):
TATCCAACCTTATCTTCTCTAAGCAGCAGCGAAGTAGGTCCAAGATTGAAGATCTTATCTCCCTA
AGCAGTAGTGGAGCGGATCGAAAGTACCAGTCTTATCTCCCTTAGCAATAGTGGAACAGACAGAA
GAAACCACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCG
Found at i:41090885 original size:87 final size:85
Alignment explanation
Indices: 41090581--41090894 Score: 214
Period size: 87 Copynumber: 3.6 Consensus size: 85
41090571 CCAAGATTGA
* * * *
41090581 AGATCTTATCTCCCTAAG-CAGTAGTGGAGCGGATCGAAAGTACCAGTCTTATCTCCCTT-AGCA
1 AGATCTTATCTCTCTAAGTTA-CAGTAGAGCGGATCG-AA-T-CCAGTCTTATCT-CCTTAAGCA
* * *
41090644 ATAGTGGAGCAGAGAGAAGAAAC-C
61 GTAGTGGAACAGACAGAAGAAACAC
* * ** *
41090668 -GATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCGTATCCAACCTTATCTTCC-TAAGCAGCA
1 AGATCTTATCTCTCT-AAGTTACAGTAGAGCGGATCGAATCCAGTCTTATC-TCCTTAAGCAGTA
* * * * ***
41090731 G-CGAAGTAGGTC-CAAGATTGA-
64 GTGGAA-CA-GACAGAAGAAACAC
* * * *
41090752 AGATCTTATCTCCCTAAG-CAGTAGTGGAGCGGATCGAAAGTACCAGTCTTATCTCCTTAAGCAG
1 AGATCTTATCTCTCTAAGTTA-CAGTAGAGCGGATCG-AA-T-CCAGTCTTATCTCCTTAAGCAG
41090816 TAGTGGAACAGACAGAAGAAACCAC
62 TAGTGGAACAGACAGAAGAAA-CAC
*
41090841 AGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCATCCAGTCTTATCTCC
1 AGATCTTATCTCTCT-AAGTTACAGTAGAGCGGATCGAATCCAGTCTTATCTCC
41090895 CTGAAGTTGC
Statistics
Matches: 168, Mismatches: 40, Indels: 38
0.68 0.16 0.15
Matches are distributed among these distances:
83 4 0.02
84 37 0.22
85 17 0.10
86 20 0.12
87 52 0.31
88 6 0.04
89 15 0.09
90 16 0.10
91 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (85 bp):
AGATCTTATCTCTCTAAGTTACAGTAGAGCGGATCGAATCCAGTCTTATCTCCTTAAGCAGTAGT
GGAACAGACAGAAGAAACAC
Found at i:41095537 original size:19 final size:18
Alignment explanation
Indices: 41095504--41095550 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
41095494 TTCACTTCGT
*
41095504 ATTTCATCATTTCATATTAC
1 ATTTC-TCATCTCATATT-C
41095524 ATTTCTCATCTCATATTC
1 ATTTCTCATCTCATATTC
*
41095542 ATTTATCAT
1 ATTTCTCAT
41095551 TTTTGCCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 11 0.44
20 5 0.20
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTCTCATCTCATATTC
Found at i:41095575 original size:43 final size:43
Alignment explanation
Indices: 41095525--41095610 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
41095515 TCATATTACA
41095525 TTTCTCATCTCATATTCATTTATCAT-TTTTGCCATTTCAATAT
1 TTTCTCATCTCATATTCATTTATCATCTTTT-CCATTTCAATAT
* * *
41095568 TTTCTCATCTTATATTCATTTCTCATCTTTTCTATTTCAATAT
1 TTTCTCATCTCATATTCATTTATCATCTTTTCCATTTCAATAT
41095611 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.22, C:0.21, G:0.01, T:0.56
Consensus pattern (43 bp):
TTTCTCATCTCATATTCATTTATCATCTTTTCCATTTCAATAT
Found at i:41098469 original size:7 final size:7
Alignment explanation
Indices: 41098457--41098484 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
41098447 AAATTAAGTA
41098457 ATAAAAT
1 ATAAAAT
41098464 ATAAAAT
1 ATAAAAT
41098471 ATAAAAT
1 ATAAAAT
41098478 ATAAAAT
1 ATAAAAT
41098485 TTAGAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAAAT
Found at i:41099250 original size:32 final size:33
Alignment explanation
Indices: 41099179--41099253 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
41099169 TTTTAAATTT
41099179 TAATATTTTTATAAATTTTTTTTTACAATGTTAA
1 TAATATTTTTATAAA-TTTTTTTTACAATGTTAA
* * *
41099213 AAATATTCTTTAT-AA-TTTTTTTACAATTTTTA
1 TAATATT-TTTATAAATTTTTTTTACAATGTTAA
41099245 TAATATTTT
1 TAATATTTT
41099254 ATTAGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.06
32 21 0.58
34 8 0.22
35 5 0.14
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (33 bp):
TAATATTTTTATAAATTTTTTTTACAATGTTAA
Found at i:41109771 original size:16 final size:16
Alignment explanation
Indices: 41109745--41109785 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
41109735 TTTCATCAAC
*
41109745 ATCACTAATAAAAAAA
1 ATCATTAATAAAAAAA
*
41109761 ATTATTAAT-AAAAAA
1 ATCATTAATAAAAAAA
41109776 ATCATTAATA
1 ATCATTAATA
41109786 CATTTGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (16 bp):
ATCATTAATAAAAAAA
Found at i:41110153 original size:6 final size:6
Alignment explanation
Indices: 41110127--41110183 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
41110117 AACTCTCTAC
* * * * *
41110127 AATATT AA-ATT TATATT AATATG AATATG ACTATG AATATT AATATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
41110174 AATATT AATA
1 AATATT AATA
41110184 AAAGTGTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
5 4 0.09
6 40 0.91
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (6 bp):
AATATT
Found at i:41113918 original size:100 final size:100
Alignment explanation
Indices: 41113745--41113945 Score: 341
Period size: 100 Copynumber: 2.0 Consensus size: 100
41113735 AAAAGGCTAA
*
41113745 ACTCGTAGATAATCATTCTATTCCTAGAAAAGTACTTAGTAAATCAAACATGATAATATAACTTT
1 ACTCGTAAATAATCATTCTATTCCTAGAAAAGTACTTAGTAAATCAAACATGATAATATAACTTT
* * *
41113810 TCTAATATTTTAGTCAATACTTTCCCATGTATACC
66 TCTAATATTTTAATCAATACCTTCCCATATATACC
*
41113845 ACTCGTAAATAATCATT-TCGTTCCTAGAAAAGTACTTAGTAAATCAAACATGATAATATAACTT
1 ACTCGTAAATAATCATTCT-ATTCCTAGAAAAGTACTTAGTAAATCAAACATGATAATATAACTT
41113909 TTCTAATATTTTAATCAATACCTTCCCATATATACC
65 TTCTAATATTTTAATCAATACCTTCCCATATATACC
41113945 A
1 A
41113946 AATGTTTTAA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 1 0.01
100 94 0.99
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.36
Consensus pattern (100 bp):
ACTCGTAAATAATCATTCTATTCCTAGAAAAGTACTTAGTAAATCAAACATGATAATATAACTTT
TCTAATATTTTAATCAATACCTTCCCATATATACC
Found at i:41116426 original size:12 final size:12
Alignment explanation
Indices: 41116404--41116432 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41116394 AAAATGAAGT
41116404 TATTT-AAATAC
1 TATTTAAAATAC
41116415 TATTTAAAATAC
1 TATTTAAAATAC
41116427 TATTTA
1 TATTTA
41116433 GGCAATACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (12 bp):
TATTTAAAATAC
Found at i:41117291 original size:26 final size:26
Alignment explanation
Indices: 41117259--41117311 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
41117249 AACATGGGAT
*
41117259 ATAAGAAATTAAGATCAAAATATAAA
1 ATAAGAAATTAACATCAAAATATAAA
* *
41117285 ATAAGAAATTAACATTAGAATATAAA
1 ATAAGAAATTAACATCAAAATATAAA
41117311 A
1 A
41117312 CAAATTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (26 bp):
ATAAGAAATTAACATCAAAATATAAA
Found at i:41117699 original size:50 final size:50
Alignment explanation
Indices: 41117624--41117726 Score: 161
Period size: 50 Copynumber: 2.1 Consensus size: 50
41117614 AAAATACAAA
* **
41117624 AAAAATATTTACAAATATAATTCATTGATAAAAGAATAAGTGTTAGTATG
1 AAAAATATATACAAATATAATTCATTGATAAAAGAATAAGCATTAGTATG
* *
41117674 AAAATTATATACAAGTATAATTCATTGATAAAAGAATAAGCATTAGTATG
1 AAAAATATATACAAATATAATTCATTGATAAAAGAATAAGCATTAGTATG
41117724 AAA
1 AAA
41117727 TAAACTTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (50 bp):
AAAAATATATACAAATATAATTCATTGATAAAAGAATAAGCATTAGTATG
Found at i:41119812 original size:43 final size:43
Alignment explanation
Indices: 41119723--41119877 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
41119713 CGAGATAACG
* *
41119723 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAATTT-G
1 TGTAAGACCATGTCTGGGATATTGGCATCGATATGAG-ATTTCA
* *
41119765 TGTAAGACCATGTCTGGGAAATTGGCATCGATATGTGATTTCA
1 TGTAAGACCATGTCTGGGATATTGGCATCGATATGAGATTTCA
* * * *
41119808 TGTAAGACCATGGCTGGGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATGTCTGGGATATTGGCATCGATATGAGATTTCA
* * *
41119851 TGTAAGATCATATCTAGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGATATTGGCAT
41119878 TGTTACGGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 29 0.30
43 67 0.70
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGATATTGGCATCGATATGAGATTTCA
Found at i:41125551 original size:25 final size:25
Alignment explanation
Indices: 41125490--41125553 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
41125480 TTTTAGATCA
* *
41125490 CTTGATTCATCAACTTCGTTCCTTT
1 CTTGATTCATCGACTTCGCTCCTTT
41125515 CTTGATTCATCGACTTCGCTCCTTT
1 CTTGATTCATCGACTTCGCTCCTTT
41125540 CTTGATTCATCGAC
1 CTTGATTCATCGAC
41125554 CATTCCGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.44
Consensus pattern (25 bp):
CTTGATTCATCGACTTCGCTCCTTT
Found at i:41127061 original size:20 final size:20
Alignment explanation
Indices: 41127036--41127075 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41127026 CGTAAAATGA
*
41127036 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
41127056 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
41127076 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:41127065 original size:34 final size:35
Alignment explanation
Indices: 41127021--41127087 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
41127011 CAGTAAAATA
*
41127021 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
41127055 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
41127088 CTGCTGCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:41127625 original size:21 final size:21
Alignment explanation
Indices: 41127601--41127650 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
41127591 TCAACAAGGG
* *
41127601 TGTTTTCAAAATTCAATACTT
1 TGTTTTCAAAACTCAACACTT
*
41127622 TGTTTTCGAAACTCAACACTT
1 TGTTTTCAAAACTCAACACTT
*
41127643 TGTGTTCA
1 TGTTTTCA
41127651 TAAAATTGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (21 bp):
TGTTTTCAAAACTCAACACTT
Found at i:41131113 original size:24 final size:24
Alignment explanation
Indices: 41131063--41131124 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
41131053 AAGAGTCAAA
* ***
41131063 AACTGTATTTACAGAAATGTTGGG
1 AACTGTATTTATAGAAATGTCACG
*
41131087 AACTGTATTTATAGGAATGTCACG
1 AACTGTATTTATAGAAATGTCACG
*
41131111 AACTATATTGTATA
1 AACTGTATT-TATA
41131125 ATTATTACGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (24 bp):
AACTGTATTTATAGAAATGTCACG
Found at i:41131586 original size:39 final size:39
Alignment explanation
Indices: 41131505--41131586 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
41131495 TTAGAAAACG
* * *
41131505 GAAGGTCGAGATTGTAAATCAGTAGACTATAAGAAAGCT
1 GAAGGTCGAGATTGTAAATCAGCAGACCATAAAAAAGCT
** *
41131544 GAAGGTCTTGATTGTAAATCAGCAGACCATAAAAAAGTT
1 GAAGGTCGAGATTGTAAATCAGCAGACCATAAAAAAGCT
41131583 GAAG
1 GAAG
41131587 CTCATGATCG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (39 bp):
GAAGGTCGAGATTGTAAATCAGCAGACCATAAAAAAGCT
Found at i:41131602 original size:39 final size:39
Alignment explanation
Indices: 41131520--41131603 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 39
41131510 TCGAGATTGT
* * * * * * *
41131520 AAATCAGTAGACTATAAGAAAGCTGAAGGTCTTGATTGT
1 AAATCAGCAGACCATAAAAAAGCTGAAGCTCATGATCGA
*
41131559 AAATCAGCAGACCATAAAAAAGTTGAAGCTCATGATCGA
1 AAATCAGCAGACCATAAAAAAGCTGAAGCTCATGATCGA
41131598 AAATCA
1 AAATCA
41131604 ATGGATCGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (39 bp):
AAATCAGCAGACCATAAAAAAGCTGAAGCTCATGATCGA
Found at i:41134437 original size:14 final size:13
Alignment explanation
Indices: 41134384--41134437 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
41134374 AACTTTAATT
*
41134384 AATTAAAGATAAA
1 AATTAAAGAAAAA
* *
41134397 AATAATAAGAATAA
1 AATTA-AAGAAAAA
*
41134411 AATTAAAGTAAAAC
1 AATTAAAG-AAAAA
41134425 AATTAAAGAAAAA
1 AATTAAAGAAAAA
41134438 GAAAGATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTAAAGAAAAA
Found at i:41142682 original size:16 final size:15
Alignment explanation
Indices: 41142661--41142691 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
41142651 TCGTAGATTA
41142661 TTGGAAGCTTGATCAG
1 TTGGAAGCTTG-TCAG
41142677 TTGGAAGCTTGTCAG
1 TTGGAAGCTTGTCAG
41142692 AGATCTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (15 bp):
TTGGAAGCTTGTCAG
Found at i:41148132 original size:39 final size:39
Alignment explanation
Indices: 41148070--41148300 Score: 232
Period size: 39 Copynumber: 5.9 Consensus size: 39
41148060 AATCTCATGA
* *
41148070 TCTGTTGATTTAAGATCACGACCTTTGGCTTTCTTACGG
1 TCTGTTGATTTACGATCACGACCTTCGGCTTTCTTACGG
* * *
41148109 TGC-GTTGATTTATGATCATGACCTTCAGCTTTCTTACGG
1 T-CTGTTGATTTACGATCACGACCTTCGGCTTTCTTACGG
* * * * *
41148148 TCTGCTGATTTACGATCATGACCTTCGACTTTCTGACAG
1 TCTGTTGATTTACGATCACGACCTTCGGCTTTCTTACGG
* * * *
41148187 TTTGCTAATTTACGATCACGACCTTCGGCTTTCTTACGA
1 TCTGTTGATTTACGATCACGACCTTCGGCTTTCTTACGG
* ** **
41148226 TCTGCTT-ATTTACGACCACGACCTTTAGCTTTCTTATAG
1 TCTG-TTGATTTACGATCACGACCTTCGGCTTTCTTACGG
* * *
41148265 TCTGTTGATTTATGATTACGACCTTTGGCTTTCTTA
1 TCTGTTGATTTACGATCACGACCTTCGGCTTTCTTA
41148301 TAGTTACAAA
Statistics
Matches: 159, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
38 3 0.02
39 154 0.97
40 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (39 bp):
TCTGTTGATTTACGATCACGACCTTCGGCTTTCTTACGG
Found at i:41148288 original size:117 final size:115
Alignment explanation
Indices: 41148077--41148356 Score: 276
Period size: 117 Copynumber: 2.4 Consensus size: 115
41148067 TGATCTGTTG
* * * * *
41148077 ATTTAAGATCACGACCTTTGGCTTTCTTACG-GTGCGTTGATTTATGATCATGACCTTCAGCTTT
1 ATTTAAGATCACGACCTTCGGCTTTCTTACGTCTGC-TT-ATTTACGACCACGACCTTCAGCTTT
* * * *
41148141 CTTACGGTCTGCTGATTTACGATCATGACCTTCGACTTTCTGACAGTTTGCTA
64 CTTACAGTCTGCTGATTTACGATCACGACCTTCGACTTTCTGACAG-TTACAA
* *
41148194 ATTTACGATCACGACCTTCGGCTTTCTTACGATCTGCTTATTTACGACCACGACCTTTAGCTTTC
1 ATTTAAGATCACGACCTTCGGCTTTCTTACG-TCTGCTTATTTACGACCACGACCTTCAGCTTTC
* * * * * * * *
41148259 TTATAGTCTGTTGATTTATGATTACGACCTTTGGCTTTCTTATAGTTACAA
65 TTACAGTCTGCTGATTTACGATCACGACCTTCGACTTTCTGACAGTTACAA
* * * * *
41148310 ATTTATGGTCATGACCTTC-GCATTTCTTACGGTCTACTAATTTACGA
1 ATTTAAGATCACGACCTTCGGC-TTTCTTAC-GTCTGCTTATTTACGA
41148357 TCGCAACTCC
Statistics
Matches: 135, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
115 2 0.01
116 41 0.30
117 87 0.64
118 2 0.01
119 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.40
Consensus pattern (115 bp):
ATTTAAGATCACGACCTTCGGCTTTCTTACGTCTGCTTATTTACGACCACGACCTTCAGCTTTCT
TACAGTCTGCTGATTTACGATCACGACCTTCGACTTTCTGACAGTTACAA
Found at i:41148535 original size:98 final size:98
Alignment explanation
Indices: 41148420--41148626 Score: 290
Period size: 98 Copynumber: 2.1 Consensus size: 98
41148410 AAGCTAGCTA
* * * * * * *
41148420 ATTTACAATCACGGCTTCAGTTCATTGATTTACGATCATGAACACTTCATAAAGAGCTCATTGAT
1 ATTTACGATCACAGCTTCAGCTCAATGATTTACGATAATGAACACTTCATAAAGAGCTCACTAAT
** *
41148485 TTATGATCGT-GACTCCACTTAAACAGTTCACTG
66 TTACAATC-TCAACTCCACTTAAACAGTTCACTG
*
41148518 ATTTACGATCACAGCTTCAGCTCAATGATTTACGATAATGAACACTTCATAAAGAGTTCACTAAT
1 ATTTACGATCACAGCTTCAGCTCAATGATTTACGATAATGAACACTTCATAAAGAGCTCACTAAT
*
41148583 TTACAATCTCAACTCCACTTAAATAGTTCACTG
66 TTACAATCTCAACTCCACTTAAACAGTTCACTG
41148616 ATTTACGATCA
1 ATTTACGATCA
41148627 TGACTGTCGC
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 1 0.01
98 95 0.99
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (98 bp):
ATTTACGATCACAGCTTCAGCTCAATGATTTACGATAATGAACACTTCATAAAGAGCTCACTAAT
TTACAATCTCAACTCCACTTAAACAGTTCACTG
Found at i:41149331 original size:48 final size:49
Alignment explanation
Indices: 41149273--41149381 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 49
41149263 AAGGGAGGAT
41149273 CTCCAAACTC-TCTACTTTTTTCCATCTTC-TCT-ACCAAAAAACCCATTC
1 CTCCAAACTCTTC-ACTTTTTT-CATCTTCTTCTCACCAAAAAACCCATTC
* * * * *
41149321 CTCCAGACTCTTCACTTTTTTTATCTTCTTCTCCACCAAAACACTCATTT
1 CTCCAAACTCTTCACTTTTTTCATCTTCTTCT-CACCAAAAAACCCATTC
41149371 CTCCAAACTCT
1 CTCCAAACTCT
41149382 AACCACCTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
47 6 0.12
48 20 0.39
49 2 0.04
50 23 0.45
ACGTcount: A:0.25, C:0.37, G:0.01, T:0.38
Consensus pattern (49 bp):
CTCCAAACTCTTCACTTTTTTCATCTTCTTCTCACCAAAAAACCCATTC
Found at i:41151233 original size:49 final size:49
Alignment explanation
Indices: 41151135--41151276 Score: 140
Period size: 49 Copynumber: 2.9 Consensus size: 49
41151125 GCATGAAACG
* * * * *
41151135 TGAACTCGTGACTGTATAACCACTGTCAATTGAGAGCTCAAGTTGTACT
1 TGAACCCGTGACTGTATAACCACCGTCAATTGGGAGCCCAAGTTATACT
* * * * *
41151184 TGAACCCGTGACTGCATAACCACCATCAACTGGGAGCCCTATTTATACT
1 TGAACCCGTGACTGTATAACCACCGTCAATTGGGAGCCCAAGTTATACT
* * * * * *
41151233 TCAACCCATAACTGTATAACTACCGTGAATTGGGAGCCCGAGTT
1 TGAACCCGTGACTGTATAACCACCGTCAATTGGGAGCCCAAGTT
41151277 GCAATTCAAC
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TGAACCCGTGACTGTATAACCACCGTCAATTGGGAGCCCAAGTTATACT
Found at i:41152174 original size:23 final size:23
Alignment explanation
Indices: 41152129--41152181 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
41152119 TAAACTAGTA
* **
41152129 GAGAGAATTGAGAGAATTTGATT
1 GAGAGAATTGAAAGAATAGGATT
41152152 GAGAGAATTGAAAGAATAGGATT
1 GAGAGAATTGAAAGAATAGGATT
*
41152175 GAAAGAA
1 GAGAGAA
41152182 GACAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (23 bp):
GAGAGAATTGAAAGAATAGGATT
Found at i:41152321 original size:16 final size:17
Alignment explanation
Indices: 41152300--41152332 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
41152290 TTCATATTTT
41152300 TGATTGTTGGAT-AAAA
1 TGATTGTTGGATGAAAA
41152316 TGATTGTTGGATGAAAA
1 TGATTGTTGGATGAAAA
41152333 CGTTTCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (17 bp):
TGATTGTTGGATGAAAA
Found at i:41157141 original size:105 final size:105
Alignment explanation
Indices: 41156935--41157127 Score: 332
Period size: 105 Copynumber: 1.8 Consensus size: 105
41156925 ACTTGTTCTA
* * *
41156935 AAAAAATATTTCCCATAACATAAAAAAGGTTGGGTCATAGTAACATATTGAGTATTTTATAATTT
1 AAAAAATATTTCCCATAACATAAAAAAGGTTGGGTCATACTAACATATTGAATATCTTATAATTT
41157000 CAATCATAGGTAGAATTGAGATGATCCATACATCAAATCT
66 CAATCATAGGTAGAATTGAGATGATCCATACATCAAATCT
* * *
41157040 AAAAAATATTTCCCATAGCATAAAAAAGGTTGGGTCGTACTGACATATTGAATATCTTATAATTT
1 AAAAAATATTTCCCATAACATAAAAAAGGTTGGGTCATACTAACATATTGAATATCTTATAATTT
41157105 CAATCATAGGTAGAATTGAGATG
66 CAATCATAGGTAGAATTGAGATG
41157128 GTCTATTCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 82 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (105 bp):
AAAAAATATTTCCCATAACATAAAAAAGGTTGGGTCATACTAACATATTGAATATCTTATAATTT
CAATCATAGGTAGAATTGAGATGATCCATACATCAAATCT
Found at i:41171776 original size:44 final size:45
Alignment explanation
Indices: 41171720--41172110 Score: 224
Period size: 44 Copynumber: 8.5 Consensus size: 45
41171710 AGTCAGATCT
41171720 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAAGTAATCC
* ** ** * *
41171764 TATCTCCTTGAGATTACAGTGGAGTGGATT-AAAATAAAG-GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AAGTAATCC
* *** * * * *
41171808 TATCTCTCTGA-AGTTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--AG-CT-AAGT-A-ATCC
* *
41171860 TATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT-AGTAGTCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAAGTAATCC
* * ** * *
41171904 TATCTCCTTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AAGTAATCC
* * *** * * * *
41171948 TATCTCTCTGAAATTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTG-A--AG-CT-AAGT-A-ATCC
41172000 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAA-TAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAAGTAATCC
* * * *
41172044 TACCTCCCTGAGATTACAGCGGAGCAGACTGAAACT-AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAAGTAATCC
* *
41172088 TACCTCCCTAAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
41172111 TCGAAGCTCC
Statistics
Matches: 262, Mismatches: 62, Indels: 46
0.71 0.17 0.12
Matches are distributed among these distances:
43 8 0.03
44 165 0.63
45 6 0.02
46 6 0.02
47 2 0.01
48 4 0.02
49 12 0.05
51 2 0.01
52 56 0.21
53 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAAGTAATCC
Found at i:41171885 original size:52 final size:51
Alignment explanation
Indices: 41171803--41172028 Score: 149
Period size: 52 Copynumber: 4.7 Consensus size: 51
41171793 TAAAATAAAG
* **
41171803 GATCTTATCTCTCTGA-AGTTACAACAGAGTAGATCGCATCAGATTGAAGTCA
1 GATCTTATCTCCCTGAGA-TTACAGTAGAGTAGATCGCATCAGATTGAAGT-A
* * *
41171855 GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTG-A--AG-CT--AGTA
1 GATCTTATCTCCCTGAGATTACAGTAGAGTAGATCGCATCAGATTGAAGTA
* * * * * * *
41171900 G-TCCTATCTCCTTGAGATTACAGT-G-G-AG--CGGATTAAAATAAAG--
1 GATCTTATCTCCCTGAGATTACAGTAGAGTAGATCGCATCAGATTGAAGTA
* * **
41171943 GATCTTATCTCTCTGAAATTACAACAGAGTAGATCGCATCAGATTGAAGTCA
1 GATCTTATCTCCCTGAGATTACAGTAGAGTAGATCGCATCAGATTGAAGT-A
* *
41171995 GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
1 GATCTTATCTCCCTGAGATTACAGTAGAGTAGAT
41172029 TGAAGCTAAT
Statistics
Matches: 130, Mismatches: 28, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 2 0.02
42 2 0.02
43 3 0.02
44 38 0.29
45 5 0.04
46 4 0.03
47 2 0.02
48 1 0.01
49 12 0.09
51 1 0.01
52 57 0.44
53 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (51 bp):
GATCTTATCTCCCTGAGATTACAGTAGAGTAGATCGCATCAGATTGAAGTA
Found at i:41171915 original size:140 final size:140
Alignment explanation
Indices: 41171662--41172068 Score: 715
Period size: 140 Copynumber: 2.9 Consensus size: 140
41171652 CATTATACAT
* *
41171662 GATCTTATCTCTCTGAAGTTATAGCAGAGTAGATCGCATCAGATTGAAAGTCAGATCTTATCTCC
1 GATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGATTG-AAGTCAGATCTTATCTCC
*
41171727 CTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGA
65 CTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGA
41171792 TTAAAATAAAG
130 TTAAAATAAAG
41171803 GATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCC
1 GATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCC
* *
41171868 TGAGATTACAGTGGAGTAGATTGAAGCTAGTAGTCCTATCTCCTTGAGATTACAGTGGAGCGGAT
66 TGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGAT
41171933 TAAAATAAAG
131 TAAAATAAAG
*
41171943 GATCTTATCTCTCTGAAATTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCC
1 GATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCC
* * * *
41172008 TGAGATTACAGTGGAGCAGATTGAAGCTAATAATCCTACCTCCCTGAGATTACAGCGGAGC
66 TGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGC
41172069 AGACTGAAAC
Statistics
Matches: 254, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
140 210 0.83
141 44 0.17
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (140 bp):
GATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCC
TGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGAT
TAAAATAAAG
Found at i:41180580 original size:19 final size:20
Alignment explanation
Indices: 41180539--41180585 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
41180529 TTTTTTAAAG
* *
41180539 TAATTTTAGTCTTTAATTTTT
1 TAATTTTAG-CTTAAATTGTT
41180560 TAATTTTAG-TTAAATTGTT
1 TAATTTTAGCTTAAATTGTT
41180579 TAATTTT
1 TAATTTT
41180586 CACTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
21 9 0.38
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
TAATTTTAGCTTAAATTGTT
Found at i:41180731 original size:21 final size:20
Alignment explanation
Indices: 41180701--41180739 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
41180691 ATTTAAAATT
41180701 TAAAAATTTTAAAAAAATCA
1 TAAAAATTTTAAAAAAATCA
*
41180721 TAAAAACTTTTAGAAAAAT
1 TAAAAA-TTTTAAAAAAAT
41180740 TATTCATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
TAAAAATTTTAAAAAAATCA
Found at i:41181667 original size:14 final size:15
Alignment explanation
Indices: 41181645--41181721 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
41181635 CAATCAAACA
41181645 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
41181659 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
41181674 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
41181694 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
41181708 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
41181722 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:41181686 original size:20 final size:20
Alignment explanation
Indices: 41181661--41181700 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41181651 AATATTTTCC
*
41181661 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
41181681 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
41181701 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:41181706 original size:34 final size:35
Alignment explanation
Indices: 41181649--41181715 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
41181639 CAAACACCAG
*
41181649 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
41181684 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
41181716 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:41182030 original size:49 final size:49
Alignment explanation
Indices: 41181973--41182072 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
41181963 GCGATTTTCT
* * *
41181973 TCCCTTCTTATAAAATGAGACTGTCGGAGTCGCGCGATATATAATTTAA
1 TCCCTTCTTATAAAATGAGACCGGCGGAGTCGCGCGATACATAATTTAA
*
41182022 TCCCTTCTTATAAAATGAGACCGGGGGAGTCGCGCGATACATAATTTAA
1 TCCCTTCTTATAAAATGAGACCGGCGGAGTCGCGCGATACATAATTTAA
41182071 TC
1 TC
41182073 GCCCTTACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (49 bp):
TCCCTTCTTATAAAATGAGACCGGCGGAGTCGCGCGATACATAATTTAA
Found at i:41182671 original size:20 final size:19
Alignment explanation
Indices: 41182643--41182704 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
41182633 ATCTGAATTC
41182643 CGAACCTTGAACTTTAAACT
1 CGAA-CTTGAACTTTAAACT
**
41182663 CGAATCTTGAACTTCGAACT
1 CGAA-CTTGAACTTTAAACT
*
41182683 CGAACTTGAAC-CTAAACT
1 CGAACTTGAACTTTAAACT
41182701 CGAA
1 CGAA
41182705 ACCTGAACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 21 0.58
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (19 bp):
CGAACTTGAACTTTAAACT
Found at i:41182726 original size:20 final size:19
Alignment explanation
Indices: 41182679--41182719 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41182669 TTGAACTTCG
*
41182679 AACTCG-AACTTGAACCTA
1 AACTCGAAACCTGAACCTA
41182697 AACTCGAAACCTGAACCATA
1 AACTCGAAACCTGAACC-TA
41182717 AAC
1 AAC
41182720 CTCAAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 9 0.45
20 5 0.25
ACGTcount: A:0.44, C:0.29, G:0.10, T:0.17
Consensus pattern (19 bp):
AACTCGAAACCTGAACCTA
Found at i:41198612 original size:17 final size:17
Alignment explanation
Indices: 41198590--41198622 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41198580 TTGTATAAAA
41198590 TTTATT-TTATTGTTAAT
1 TTTATTATTATT-TTAAT
41198607 TTTATTATTATTTTAA
1 TTTATTATTATTTTAA
41198623 AGACATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTAAT
Found at i:41198633 original size:30 final size:30
Alignment explanation
Indices: 41198599--41198661 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
41198589 ATTTATTTTA
41198599 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* * *
41198629 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
41198659 TTG
1 TTG
41198662 ATTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:41198815 original size:12 final size:12
Alignment explanation
Indices: 41198785--41198818 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
41198775 TACATATTTT
41198785 AAAATT-ATATA
1 AAAATTAATATA
41198796 AAAA-TAATATA
1 AAAATTAATATA
41198807 AAAATTAATATA
1 AAAATTAATATA
41198819 GGCAGGTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:41199977 original size:66 final size:67
Alignment explanation
Indices: 41199902--41200044 Score: 234
Period size: 66 Copynumber: 2.1 Consensus size: 67
41199892 CATTTCTTTG
* *
41199902 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATT-GAATCACCATCCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCACCATGATAACTATATTAGAATCACCATCCATTTGCATT
41199966 TA
66 TA
* * *
41199968 TAAAATTTTAGTATTGTATTGGAATCACCATGATAACTATATTAGAATCACCATTCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCACCATGATAACTATATTAGAATCACCATCCATTTGCATT
41200033 TA
66 TA
41200035 CAAAATTTTA
1 CAAAATTTTA
41200045 ATACTGTAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
66 39 0.56
67 31 0.44
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (67 bp):
CAAAATTTTAGTATTGTATTGAAATCACCATGATAACTATATTAGAATCACCATCCATTTGCATT
TA
Found at i:41199990 original size:104 final size:105
Alignment explanation
Indices: 41199797--41199991 Score: 302
Period size: 104 Copynumber: 1.9 Consensus size: 105
41199787 ATATTGGGTA
* * * ** *
41199797 CAAAATTTTAGTATTGTATTGGAATCATCATGGTAATTGTATTAGAATCATTATTCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATT
41199862 TACAAAATCTTACTATTGTATTGGAAATATCATTTCTTTG
66 TACAAAATCTTACTATTGTATTGGAAATATCATTTCTTTG
41199902 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATT-GAATCACCATCCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATT
* * *
41199966 TATAAAATTTTAGTATTGTATTGGAA
66 TACAAAATCTTACTATTGTATTGGAA
41199992 TCACCATGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 41 0.51
105 40 0.49
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (105 bp):
CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATT
TACAAAATCTTACTATTGTATTGGAAATATCATTTCTTTG
Found at i:41202313 original size:27 final size:27
Alignment explanation
Indices: 41202184--41202313 Score: 127
Period size: 27 Copynumber: 4.8 Consensus size: 27
41202174 TGGCATTTTA
* * *
41202184 ATAGCCTTTGTGGCGAGCTCTGAAAGG
1 ATAGCCTTTATGGTGAACTCTGAAAGG
** **
41202211 AT-GACCTTTATGGCAAACTCCAAAAGG
1 ATAG-CCTTTATGGTGAACTCTGAAAGG
* *
41202238 ATAACCTTTATGGTGAACTCTAAAAGG
1 ATAGCCTTTATGGTGAACTCTGAAAGG
* * *
41202265 ATGGTCTTTATGGTGAACTCTGAAAGA
1 ATAGCCTTTATGGTGAACTCTGAAAGG
*
41202292 ATAGCCTTTGTGGTGAACTCTG
1 ATAGCCTTTATGGTGAACTCTG
41202314 TATTAACTGC
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.99
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (27 bp):
ATAGCCTTTATGGTGAACTCTGAAAGG
Found at i:41206102 original size:23 final size:23
Alignment explanation
Indices: 41206071--41206136 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
41206061 ATACTCGGAT
41206071 TCCAACCAAACACACCAGAATGA
1 TCCAACCAAACACACCAGAATGA
*
41206094 TCCACCCAAACACACCAGAATGA
1 TCCAACCAAACACACCAGAATGA
*
41206117 TCCAACCAAACACACTAGAA
1 TCCAACCAAACACACCAGAA
41206137 CGGCACCCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.47, C:0.36, G:0.08, T:0.09
Consensus pattern (23 bp):
TCCAACCAAACACACCAGAATGA
Found at i:41206290 original size:17 final size:17
Alignment explanation
Indices: 41206248--41206290 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
41206238 ATTCCAATTC
*
41206248 TCAATTCAATTTCACTT
1 TCAATTCAAATTCACTT
41206265 TC-ATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
41206282 TCAATTCAA
1 TCAATTCAA
41206291 CATACAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:41207088 original size:16 final size:16
Alignment explanation
Indices: 41207069--41207099 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41207059 GTGTCGAATG
41207069 TTCTCTGTTTCTTTTC
1 TTCTCTGTTTCTTTTC
*
41207085 TTCTTTGTTTCTTTT
1 TTCTCTGTTTCTTTT
41207100 ATTATTTTAC
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:0.00, C:0.19, G:0.06, T:0.74
Consensus pattern (16 bp):
TTCTCTGTTTCTTTTC
Found at i:41208086 original size:21 final size:21
Alignment explanation
Indices: 41208060--41208102 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
41208050 ATATGATAAG
*
41208060 GATCTGATCTGTATCTCTGAA
1 GATCTGATCTATATCTCTGAA
41208081 GATCTGATCTATATCTCTGAA
1 GATCTGATCTATATCTCTGAA
41208102 G
1 G
41208103 CATAGAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (21 bp):
GATCTGATCTATATCTCTGAA
Found at i:41214198 original size:87 final size:90
Alignment explanation
Indices: 41214077--41214244 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 90
41214067 ATGCTATCTC
* *
41214077 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-AATCA-A-ATA-CGATGCCAAAT-GTCC
1 ATATCGATGCCACTGTCCAAGACAGGGTCATACACGTAATCACATATATCGATGCC--ATCGTCC
*
41214137 TAGACATGGTCTTACACGTAATCACAT
64 CAGACATGGTCTTACACGTAATCACAT
41214164 ATATCGATGCCA-TCGTCCAAGAC-GTGGTCATACACGTAATCACATATATCGATGCCATCGTCC
1 ATATCGATGCCACT-GTCCAAGACAG-GGTCATACACGTAATCACATATATCGATGCCATCGTCC
*
41214227 CAGACGTGGTCTTACACG
64 CAGACATGGTCTTACACG
41214245 AGAACACATA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
86 2 0.03
87 30 0.43
88 5 0.07
89 3 0.04
90 23 0.33
91 7 0.10
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (90 bp):
ATATCGATGCCACTGTCCAAGACAGGGTCATACACGTAATCACATATATCGATGCCATCGTCCCA
GACATGGTCTTACACGTAATCACAT
Found at i:41214255 original size:45 final size:45
Alignment explanation
Indices: 41214077--41214244 Score: 215
Period size: 45 Copynumber: 3.8 Consensus size: 45
41214067 ATGCTATCTC
41214077 ATATCGATGCCA-CTGTCCCAGACAG-GGTCTTACACG-AATCA-A-
1 ATATCGATGCCATC-GTCCCAGAC-GTGGTCTTACACGTAATCACAT
* *
41214119 ATA-CGATGCCAAAT-GTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCC--ATCGTCCCAGACGTGGTCTTACACGTAATCACAT
* *
41214164 ATATCGATGCCATCGTCCAAGACGTGGTCATACACGTAATCACAT
1 ATATCGATGCCATCGTCCCAGACGTGGTCTTACACGTAATCACAT
41214209 ATATCGATGCCATCGTCCCAGACGTGGTCTTACACG
1 ATATCGATGCCATCGTCCCAGACGTGGTCTTACACG
41214245 AGAACACATA
Statistics
Matches: 110, Mismatches: 7, Indels: 15
0.83 0.05 0.11
Matches are distributed among these distances:
41 7 0.06
42 22 0.20
43 6 0.05
44 3 0.03
45 65 0.59
46 7 0.06
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (45 bp):
ATATCGATGCCATCGTCCCAGACGTGGTCTTACACGTAATCACAT
Found at i:41217162 original size:43 final size:43
Alignment explanation
Indices: 41217101--41217205 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
41217091 TGTCCCAGAC
* ** *
41217101 ATGGTCTTACATGGAAATCTCGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACA-CGAAATCTCAAATCAATGCCAATAGCCCAGCT
* *
41217145 ATGGTCTTACACAAAATCTCAAATCAATGCCAATAGCCTAGCT
1 ATGGTCTTACACGAAATCTCAAATCAATGCCAATAGCCCAGCT
41217188 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGAAATC
41217206 AAACCTCGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 43 0.80
44 11 0.20
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCAATGCCAATAGCCCAGCT
Found at i:41217392 original size:31 final size:31
Alignment explanation
Indices: 41217324--41217455 Score: 171
Period size: 31 Copynumber: 4.3 Consensus size: 31
41217314 TCCAATTTGG
*
41217324 CAATGTATATCTATATACAAATC-AATTCGT
1 CAATGTATATCTATATACAAATCAAATTCGA
*
41217354 CAATGTATATCCATATACAAATCAAATTCGA
1 CAATGTATATCTATATACAAATCAAATTCGA
* * * *
41217385 CACTGTATATCTATA-AAAAATTCAAATTTGG
1 CAATGTATATCTATATACAAA-TCAAATTCGA
41217416 CAATGTATATCTATATACAAATCAAATTCGGA
1 CAATGTATATCTATATACAAATCAAATTC-GA
41217448 -AATGTATA
1 CAATGTATA
41217456 AAACATATAC
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
30 26 0.30
31 56 0.64
32 5 0.06
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (31 bp):
CAATGTATATCTATATACAAATCAAATTCGA
Done.