Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 218 of 349
Found at i:71316557 original size:26 final size:26
Alignment explanation
Indices: 71316528--71316577 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
71316518 TATTTTTTTA
71316528 TATTATTTATT-TTTATAAATATTAGT
1 TATTATTT-TTATTTATAAATATTAGT
*
71316554 TATTATTTTTATTTATATATATTA
1 TATTATTTTTATTTATAAATATTA
71316578 TCCATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTTTTATTTATAAATATTAGT
Found at i:71316571 original size:22 final size:19
Alignment explanation
Indices: 71316520--71316633 Score: 56
Period size: 22 Copynumber: 5.7 Consensus size: 19
71316510 ATTTTAAATA
71316520 TTTT-TTTATATTATTTAT
1 TTTTATTTATATTATTTAT
**
71316538 TTTTATAAATATTAGTTATTAT
1 TTTTATTTATATTA--T-TTAT
71316560 TTTTATTTATA-TATATTAT
1 TTTTATTTATATTAT-TTAT
**
71316579 CCATTATATTATATTATATTAT
1 -TTTTAT-TTATATTAT-TTAT
* *
71316601 ATTTTATCTATA--AATTAT
1 -TTTTATTTATATTATTTAT
71316619 ATTTTATTATATATT
1 -TTTTATT-TATATT
71316634 TCATTATAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 17
0.72 0.12 0.17
Matches are distributed among these distances:
18 15 0.20
19 18 0.24
20 4 0.05
21 12 0.16
22 25 0.34
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATTTATATTATTTAT
Found at i:71316584 original size:26 final size:26
Alignment explanation
Indices: 71316529--71316603 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 26
71316519 ATTTTTTTAT
* *
71316529 ATTATTTATT-TTTATAAATATTAGTT
1 ATTATTT-TTATTTATATATATTAGTC
71316555 ATTATTTTTATTTATATATATTA-TCC
1 ATTATTTTTATTTATATATATTAGT-C
*
71316581 ATTA-TATTATATTATATTATATT
1 ATTATTTTTAT-TTATA-TATATT
71316604 TTATCTATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 8 0.19
26 28 0.67
27 6 0.14
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (26 bp):
ATTATTTTTATTTATATATATTAGTC
Found at i:71316594 original size:10 final size:10
Alignment explanation
Indices: 71316562--71316630 Score: 61
Period size: 10 Copynumber: 6.6 Consensus size: 10
71316552 GTTATTATTT
71316562 TTAT-TTATA
1 TTATATTATA
71316571 -TATATTATCCA
1 TTATATTAT--A
71316582 TTATATTATA
1 TTATATTATA
71316592 TTATATTATA
1 TTATATTATA
*
71316602 TTTTATCTATAAA
1 TTATAT-TAT--A
*
71316615 TTATATTTTA
1 TTATATTATA
71316625 TTATAT
1 TTATAT
71316631 ATTTCATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 23 0.46
11 4 0.08
12 10 0.20
13 6 0.12
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATATTATA
Found at i:71316619 original size:18 final size:17
Alignment explanation
Indices: 71316581--71316629 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
71316571 TATATTATCC
*
71316581 ATTATATTATATTAT--
1 ATTATATTTTATTATAA
71316596 ATTATATTTTATCTATAA
1 ATTATATTTTAT-TATAA
71316614 ATTATATTTTATTATA
1 ATTATATTTTATTATA
71316630 TATTTCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 11 0.37
16 3 0.10
17 4 0.13
18 12 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATATTTTATTATAA
Found at i:71316647 original size:28 final size:27
Alignment explanation
Indices: 71316565--71316653 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 27
71316555 ATTATTTTTA
*
71316565 TTTA-TATATATTATCCATTATATTATAT
1 TTTATTATATATT-T-CATTATAATATAT
*
71316593 TATATTATAT-TTT-ATCTATAAATTATAT
1 TTTATTATATATTTCAT-TAT-AA-TATAT
71316621 TTTATTATATATTTCATTATAGATATAT
1 TTTATTATATATTTCATTATA-ATATAT
*
71316649 CTTAT
1 TTTAT
71316654 GCATATAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 2 0.04
28 29 0.58
29 12 0.24
30 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTATTATATATTTCATTATAATATAT
Found at i:71325248 original size:48 final size:47
Alignment explanation
Indices: 71325137--71325254 Score: 173
Period size: 48 Copynumber: 2.5 Consensus size: 47
71325127 ATGTTTAACT
* *
71325137 GTGGTATATCCACTTAGCACCACGTTAATGAATCGATATATGTAAAC
1 GTGGAATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAAC
* * * *
71325184 GTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATC
1 GTGGAATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAAAC
71325232 GTGGAATATCCACTTAGCACCAC
1 GTGGAATATCCACTTAGCACCAC
71325255 ATTTTTTCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
47 26 0.41
48 38 0.59
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (47 bp):
GTGGAATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAAC
Found at i:71328259 original size:13 final size:13
Alignment explanation
Indices: 71328241--71328265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71328231 TAATTATACT
71328241 AGGATAATTATTA
1 AGGATAATTATTA
71328254 AGGATAATTATT
1 AGGATAATTATT
71328266 TAGATTTAGA
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
AGGATAATTATTA
Found at i:71328305 original size:10 final size:10
Alignment explanation
Indices: 71328289--71328327 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
71328279 AAGATTTATT
71328289 TTTATCTTTA
1 TTTATCTTTA
*
71328299 ATTATCTTTA
1 TTTATCTTTA
71328309 TTTAT-TTGTA
1 TTTATCTT-TA
71328319 TTTATCTTT
1 TTTATCTTT
71328328 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:71331225 original size:26 final size:25
Alignment explanation
Indices: 71331179--71331278 Score: 73
Period size: 26 Copynumber: 4.1 Consensus size: 25
71331169 TAATAGTTAT
71331179 AATAAAAAA-AAATAT--AAATTAA
1 AATAAAAAATAAATATCCAAATTAA
71331201 AATAAAGAAATAAATATCCAAATT-A
1 AATAAA-AAATAAATATCCAAATTAA
* * * ** * * *
71331226 AATATAATACAGCTATACAAATCAT
1 AATAAAAAATAAATATCCAAATTAA
*
71331251 AATAAAGATATAAATATCCAAATTAA
1 AATAAA-AAATAAATATCCAAATTAA
71331277 AA
1 AA
71331279 AAATTTCACT
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
22 6 0.11
23 3 0.05
24 17 0.30
25 11 0.19
26 20 0.35
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (25 bp):
AATAAAAAATAAATATCCAAATTAA
Found at i:71333224 original size:47 final size:47
Alignment explanation
Indices: 71333153--71333757 Score: 1005
Period size: 47 Copynumber: 12.7 Consensus size: 47
71333143 CCCTTCGGGA
* * * * * *
71333153 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
71333200 CCTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71333247 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71333294 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71333341 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71333388 CTTATCACATATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71333437 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71333484 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71333533 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71333580 CTTATCACATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71333627 CTTATCACATATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71333676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71333723 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
71333758 AGAATCCTAA
Statistics
Matches: 533, Mismatches: 18, Indels: 14
0.94 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 394 0.74
49 138 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71333430 original size:96 final size:94
Alignment explanation
Indices: 71333153--71333757 Score: 1005
Period size: 96 Copynumber: 6.4 Consensus size: 94
71333143 CCCTTCGGGA
* * * * * * * *
71333153 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATACATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
71333218 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
71333247 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
71333312 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
71333341 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
71333406 ACTTTCACACTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
71333437 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
71333502 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
71333533 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
71333598 TTTCACACTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
71333627 CTTATCACATATATATACAGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71333692 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
71333723 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
71333758 AGAATCCTAA
Statistics
Matches: 489, Mismatches: 17, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 208 0.43
96 280 0.57
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:71333467 original size:143 final size:142
Alignment explanation
Indices: 71333153--71333757 Score: 1009
Period size: 143 Copynumber: 4.2 Consensus size: 142
71333143 CCCTTCGGGA
* * * * * * * *
71333153 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC-ATACATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
* *
71333217 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
71333282 CGGCCATTAGGC
131 CGGCCATTAGGC
71333294 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
*
71333358 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACACTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
71333423 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
71333437 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
71333502 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
71333567 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
71333580 CTTATCACATATATACACTTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
71333645 AGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
71333710 TCGGCCATTAGGC
130 TCGGCCATTAGGC
* *
71333723 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
71333758 AGAATCCTAA
Statistics
Matches: 442, Mismatches: 17, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
141 92 0.21
142 1 0.00
143 302 0.68
145 47 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:71337543 original size:40 final size:40
Alignment explanation
Indices: 71337510--71337741 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
71337500 CCAGCATGAT
* * * *
71337510 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
71337550 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
71337590 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
71337630 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
71337670 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
71337710 TGCTCTTTGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
71337742 CTCAATTCTC
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:71339263 original size:47 final size:47
Alignment explanation
Indices: 71339192--71339749 Score: 902
Period size: 47 Copynumber: 11.7 Consensus size: 47
71339182 CCCTTCGGGA
* * * * * *
71339192 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
71339239 CCTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71339286 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71339333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71339380 CTTATCACATATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71339429 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71339478 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71339525 CTTATCACATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71339572 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71339621 CTTATCACATATATACACTTTCACATTCATCATATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71339668 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71339715 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
71339750 AGAATCCTAA
Statistics
Matches: 486, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 345 0.71
49 140 0.29
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71339789 original size:143 final size:142
Alignment explanation
Indices: 71339192--71339749 Score: 906
Period size: 143 Copynumber: 3.9 Consensus size: 142
71339182 CCCTTCGGGA
* * * * * * * *
71339192 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATACATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
71339257 TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
66 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
71339321 CGGCCATTAGGC
131 CGGCCATTAGGC
71339333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
71339398 ACTTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACACTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
71339463 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
71339478 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
71339543 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
71339608 TCGGCCATTAGGC
130 TCGGCCATTAGGC
* *
71339621 CTTATCACATATATACACTTTCACATTCATCATATTGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
71339686 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATGCA-TGTTCACATCCATCACA
66 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACAATATATACACT-TTCACATTCATCACA
71339749 T
130 T
71339750 AGAATCCTAA
Statistics
Matches: 396, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
140 1 0.00
141 71 0.18
143 230 0.58
145 94 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACACTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:71348747 original size:18 final size:18
Alignment explanation
Indices: 71348724--71348764 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
71348714 GTAGGTAGGT
71348724 TGTGTGGTCACACACGCC
1 TGTGTGGTCACACACGCC
71348742 TGTGTGGTCACACACGCC
1 TGTGTGGTCACACACGCC
*
71348760 CGTGT
1 TGTGT
71348765 TCCTAACCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (18 bp):
TGTGTGGTCACACACGCC
Found at i:71359142 original size:13 final size:13
Alignment explanation
Indices: 71359124--71359152 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71359114 TTTAGTTTAA
71359124 TTAGTTAATTAGT
1 TTAGTTAATTAGT
71359137 TTAGTTAATTAGT
1 TTAGTTAATTAGT
71359150 TTA
1 TTA
71359153 ATAAACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:71367923 original size:30 final size:30
Alignment explanation
Indices: 71367887--71367948 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
71367877 TGTTGTAGGT
71367887 TAAAGGTTAAATTTGGGCGAGAAATAAGGC
1 TAAAGGTTAAATTTGGGCGAGAAATAAGGC
*
71367917 TAAAGGTTAAATTTGGGTGAGAAATAAGGC
1 TAAAGGTTAAATTTGGGCGAGAAATAAGGC
71367947 TA
1 TA
71367949 GGAAATAGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.29, T:0.26
Consensus pattern (30 bp):
TAAAGGTTAAATTTGGGCGAGAAATAAGGC
Found at i:71374626 original size:50 final size:49
Alignment explanation
Indices: 71374510--71374698 Score: 175
Period size: 49 Copynumber: 3.8 Consensus size: 49
71374500 TGTGAGGTTG
* * * * *
71374510 CATGTGTAGTACTAACTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-AC--AGACTGTAGGTCA
* * **
71374561 CGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATTAGA-TGGTGAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGACT-GT-AGGTCA
* ** * *
71374611 CATGTGTAGTACTAAGTACAGGCTACTACATGTAACAGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGACTGTAGGTCA
* *
71374660 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGA
71374699 TAGCTTCGGC
Statistics
Matches: 112, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 38 0.34
50 38 0.34
51 31 0.28
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGACTGTAGGTCA
Found at i:71374682 original size:49 final size:50
Alignment explanation
Indices: 71374558--71374687 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
71374548 AAAACTGTGA
* * ** **
71374558 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATTAGATGGTGAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAGATGGTGAGG
* *
71374608 TCACATGTGTAGTACTAAGTACAGGCTACTACATGTAACAGACT-GT-TGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAGA-TGGTGAGG
*
71374657 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
71374688 TGCGTACCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 31 0.45
50 37 0.54
51 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAGATGGTGAGG
Found at i:71377723 original size:15 final size:15
Alignment explanation
Indices: 71377703--71377767 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
71377693 GTATCTTGGG
71377703 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
71377718 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
71377733 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
71377748 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
71377762 TTTCTT
1 TTTCTT
71377768 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:71377735 original size:30 final size:31
Alignment explanation
Indices: 71377699--71377767 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
71377689 TATCGTATCT
71377699 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
71377729 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
71377759 -GGTTTTCTT
1 TGGGTTTCTT
71377768 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:71379008 original size:50 final size:50
Alignment explanation
Indices: 71378894--71379080 Score: 186
Period size: 50 Copynumber: 3.7 Consensus size: 50
71378884 TGAGGTCGCA
* * * * *
71378894 TGTGTAGTACTAACTGCAGGCTACTATGCGTACCCGAAAACT-GT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGGTGGGTCACG
**
71378945 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTG-GGTCACG
* * *
71378995 TGTGTAGTACTAAGTGCACGCTACTACGTGTACCAGACTGTTGGTTGCA--
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTGGGT-CACG
* *
71379044 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
71379081 TAGCTTCGGC
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 34 0.29
50 42 0.36
51 35 0.30
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTGGGTCACG
Found at i:71382870 original size:48 final size:48
Alignment explanation
Indices: 71382845--71382936 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
71382835 TGTCAATGTT
* *
71382845 GATGCCATGTCCTAGACATGGTCTTATACTAGCACACATATCATCGCC
1 GATGCCATGTCCCAGACATGGTCTTATACAAGCACACATATCATCGCC
* * *
71382893 GATGCCATGTCCCAGACATGGTCTTACACAGGCACAAATATCAT
1 GATGCCATGTCCCAGACATGGTCTTATACAAGCACACATATCAT
71382937 TAATCACAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTATACAAGCACACATATCATCGCC
Found at i:71385601 original size:20 final size:20
Alignment explanation
Indices: 71385576--71385662 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
71385566 CCAAATTATG
*
71385576 GACAAGCCACCAGTAATGCA
1 GACAAGCCACCAATAATGCA
** ***
71385596 GACAAGTAACTGGTAATGC-
1 GACAAGCCACCAATAATGCA
*
71385615 GATCGAGCCACCAATAATGCA
1 GA-CAAGCCACCAATAATGCA
* * **
71385636 GATAAACTGCCAATAATGCA
1 GACAAGCCACCAATAATGCA
71385656 GACAAGC
1 GACAAGC
71385663 TCTCAATATT
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
GACAAGCCACCAATAATGCA
Found at i:71391200 original size:71 final size:71
Alignment explanation
Indices: 71391062--71391202 Score: 156
Period size: 71 Copynumber: 2.0 Consensus size: 71
71391052 AGGTCAGGAA
* ** * *
71391062 GTTTAGCTACTGTCTTCGAGATTGCGATACCAAGCCCTAGATATCATGATACCCACATGACAGAT
1 GTTTAGCTACTGTCTTCGAGATCGCGATACCAAGCCCTAGATATCACAATACCCACATCACACAT
71391127 TTTGAT
66 TTTGAT
* * * * * * * * *
71391133 GTTTAGCTACTGTCTTTGAGATCGTGGTATCAAGCCTTGGATATCACAATACCCTCTTCTCACAT
1 GTTTAGCTACTGTCTTCGAGATCGCGATACCAAGCCCTAGATATCACAATACCCACATCACACAT
71391198 TTTGA
66 TTTGA
71391203 AAATTTTAAT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (71 bp):
GTTTAGCTACTGTCTTCGAGATCGCGATACCAAGCCCTAGATATCACAATACCCACATCACACAT
TTTGAT
Found at i:71391707 original size:18 final size:17
Alignment explanation
Indices: 71391670--71391709 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
71391660 AATACATATA
71391670 TCATTTCTCATTCAATT
1 TCATTTCTCATTCAATT
71391687 TCATATTCTCATTTCAA-T
1 TCAT-TTCTCA-TTCAATT
71391705 TCATT
1 TCATT
71391710 ATCAATTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.53
Consensus pattern (17 bp):
TCATTTCTCATTCAATT
Found at i:71392952 original size:43 final size:44
Alignment explanation
Indices: 71392904--71393016 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
71392894 CCGGCATTTC
* * * * *
71392904 GCCTGCTAGGCTCGAGGCTCG-ATA-TCATGTCACCAGTATTATA
1 GCCTGCTAGGCTCAAGGCCCGAATAGT-ATCTCACCAGCATAATA
*
71392947 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATAATA
1 GCCTGCTAGGCTC-AAGGCCCGAATAGTATCTCACCAGCATAATA
*
71392992 GCCTGCTAGGCTCAAGGCCTGAATA
1 GCCTGCTAGGCTCAAGGCCCGAATA
71393017 TAATATCAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 13 0.22
44 17 0.28
45 29 0.48
46 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAGGCCCGAATAGTATCTCACCAGCATAATA
Found at i:71393057 original size:38 final size:38
Alignment explanation
Indices: 71393014--71393284 Score: 407
Period size: 38 Copynumber: 7.1 Consensus size: 38
71393004 CAAGGCCTGA
* * * *
71393014 ATATAATATCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
71393052 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
71393090 ATATAATACCAGCATGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** *
71393128 ATATGTTACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
71393166 ATATAATACCAACACAAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
71393204 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
71393242 ATATAATACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
71393282 ATA
1 ATA
71393285 CACATCAAAT
Statistics
Matches: 210, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 198 0.94
39 5 0.02
40 7 0.03
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:71402526 original size:41 final size:42
Alignment explanation
Indices: 71402475--71402575 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 42
71402465 TCCTAGATAG
* * *
71402475 GGTCTTACACGAAATCAGATA-CGATTCGAA-GTCCCAGACAT
1 GGTCTTACACGAAATCAGA-AGCGATGCCAACATCCCAGACAT
* *
71402516 GGTCTTACACGTAAAACAGAAGTCGATGCCAACATCCCAGACGT
1 GGTCTTACACG-AAATCAGAAG-CGATGCCAACATCCCAGACAT
71402560 GGTCTTACACGAAATC
1 GGTCTTACACGAAATC
71402576 CTATAACAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 12 0.24
42 7 0.14
43 11 0.22
44 20 0.40
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGAAGCGATGCCAACATCCCAGACAT
Found at i:71408939 original size:42 final size:44
Alignment explanation
Indices: 71408873--71408998 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 44
71408863 TTTTCTCAAA
* *
71408873 TCACCGGCATT-TTGCCTGTTAGGCTCG-AGGCCCGAATCAG-T-
1 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAAT-AGATC
71408914 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATAG-ATC
** * * *
71408959 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATA
71408999 ATCAGGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 11 0.15
42 16 0.22
43 10 0.14
44 1 0.01
45 35 0.48
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATAGATC
Found at i:71409389 original size:43 final size:43
Alignment explanation
Indices: 71409328--71409503 Score: 266
Period size: 43 Copynumber: 4.1 Consensus size: 43
71409318 CTGGCATTAC
* *
71409328 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
*
71409371 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
* *
71409414 GCCTACTAAGCACGAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
* * *
71409457 GCCTGCTAGGCACGAAGGCCCAAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
71409498 GCCTGC
1 GCCTGC
71409504 GGGATTTATC
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 107 0.86
ACGTcount: A:0.32, C:0.34, G:0.22, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
Found at i:71409529 original size:38 final size:38
Alignment explanation
Indices: 71409480--71409554 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
71409470 GAAGGCCCAA
* * *
71409480 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
71409518 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
71409555 AATACACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:71410982 original size:42 final size:43
Alignment explanation
Indices: 71410875--71410992 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
71410865 TTGGCCAATA
* ** *
71410875 AATATCCCAGATATGGTCTTACATGGGATCTCTTATCGATGCC
1 AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
* * * *
71410918 AATAGCCCAGCTATGGCCTTACACAAAATCTCATATCGATGCC
1 AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
*
71410961 -ATATCCCAGATATGGTCTTACACGTAATCTCA
1 AATATCCCAGATATGGTCTTACACGAAATCTCA
71410993 ACTAACCCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
Found at i:71420794 original size:43 final size:42
Alignment explanation
Indices: 71420720--71420829 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 42
71420710 GTCATATACT
* **
71420720 AGATATGGTCTTACATGGGATCTCATATCGATACCAATAGCCA
1 AGATATGGTCTTACACGAAATCTCATATCGATACC-ATAGCCA
* * * * * *
71420763 AGCTATGGTCTTACACGAAATCTTATGTCGATGCCATATCCT
1 AGATATGGTCTTACACGAAATCTCATATCGATACCATAGCCA
*
71420805 AGATATGGTCTAACAC-ATAATCTCA
1 AGATATGGTCTTACACGA-AATCTCA
71420830 ACTAACCTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
41 1 0.02
42 25 0.46
43 28 0.52
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (42 bp):
AGATATGGTCTTACACGAAATCTCATATCGATACCATAGCCA
Found at i:71424988 original size:46 final size:46
Alignment explanation
Indices: 71424922--71425046 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
71424912 TAGGCATCCG
*
71424922 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCA
1 AGCTCGTTGAGTTGATTCCGAGTTCACTTATAGATGCGAACGCCCA
* *
71424968 AGCTCGTTGATTTGATTCCGAGTTCACTTATAGATGCGAACGCCCG
1 AGCTCGTTGAGTTGATTCCGAGTTCACTTATAGATGCGAACGCCCA
*
71425014 AGCTCGTTGAGTTGATTCTGAGTTCACTTATAG
1 AGCTCGTTGAGTTGATTCCGAGTTCACTTATAG
71425047 GTGGGTTACA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (46 bp):
AGCTCGTTGAGTTGATTCCGAGTTCACTTATAGATGCGAACGCCCA
Found at i:71432516 original size:20 final size:20
Alignment explanation
Indices: 71432485--71432562 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
71432475 ACTAAGATAT
71432485 TTGAGTTCCGAGCTCGTTGAG
1 TTGAG-TCCGAGCTCGTTGAG
* * *
71432506 TTGAGTCCGAGTTCACTTATAG
1 TTGAGTCCGAGCTC-GTT-GAG
*
71432528 ATGTGAATGCCCGAGCTCGTTGAG
1 -T-TG-A-GTCCGAGCTCGTTGAG
71432552 TTGAGTCCGAG
1 TTGAGTCCGAG
71432563 TTCACTTATA
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
20 14 0.33
21 8 0.19
22 4 0.09
23 2 0.05
24 4 0.09
25 3 0.07
26 8 0.19
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (20 bp):
TTGAGTCCGAGCTCGTTGAG
Found at i:71434853 original size:46 final size:47
Alignment explanation
Indices: 71434732--71434951 Score: 190
Period size: 47 Copynumber: 4.7 Consensus size: 47
71434722 ATAGGGTATA
* *
71434732 ATGTCGATGCCATATCCCAAACATGGTCTTACACTGGCTCATCCATC
1 ATGTCGATGCCATATCCCAGACATGGTCTTACACTAGCTCATCCATC
* *
71434779 AAGTCGATGCCATATCCCAGACATGGTCTTACACTAGCTC-TCAATATCC
1 ATGTCGATGCCATATCCCAGACATGGTCTTACACTAGCTCATC--CAT-C
* * *
71434828 ATGTCGATG-C-T-TCCCAGACATGGTCTTACACT-GGTACCTCTATAC
1 ATGTCGATGCCATATCCCAGACATGGTCTTACACTAGCT-CATCCAT-C
* * * *
71434873 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACAT--ATC
1 ATGTCGATGCCATATCCCAGACATGGTCTTACACTAG-CTCATCCATC
* *
71434918 ATAGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 AT-GTCGATGCCATATCCCAGACATGGTCTTACACT
71434952 GGCTTACATC
Statistics
Matches: 150, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
44 10 0.07
45 29 0.19
46 34 0.23
47 41 0.27
48 27 0.18
49 9 0.06
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGTCGATGCCATATCCCAGACATGGTCTTACACTAGCTCATCCATC
Found at i:71434986 original size:46 final size:46
Alignment explanation
Indices: 71434736--71435094 Score: 215
Period size: 46 Copynumber: 7.7 Consensus size: 46
71434726 GGTATAATGT
* * * *
71434736 CGATGCCATATCCCAAACATGGTCTTACACTGG--CTCATCCATC-AAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-C-TCGAGGC
* * * * * *
71434783 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAATATCCATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCGAGGC
* *
71434832 CGATGC-T-TCCCAGACATGGTCTTACACTGG-TACCTCTAT-ACG-TGC
1 CGATGCATGTCCCAGACAT-GTCTTACACTGGCT--CTC-ATCTCGAGGC
* *
71434877 CGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-ATCAT--A-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCATC-TCGAGGC
71434923 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGC
* * * * **
71434969 TGATGCATGTCCTAGACATGTCTTACTCTGGCTCTCATCTCAATAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
* * * *
71435015 CGATGCCATGTCCCAGGCATGGTCTTACATTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGC
* *
71435063 CGATGCATGTCCTAGACATGTCTTACATTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
71435095 ACACAAATAA
Statistics
Matches: 257, Mismatches: 32, Indels: 47
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 15 0.06
45 23 0.09
46 90 0.35
47 64 0.25
48 49 0.19
49 12 0.05
50 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
Found at i:71435068 original size:94 final size:90
Alignment explanation
Indices: 71434875--71435089 Score: 238
Period size: 94 Copynumber: 2.3 Consensus size: 90
71434865 CTCTATACGT
*
71434875 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCATAGCCGATGCATGTCCCAGAC
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGACACATATCATAGCCGATGCATGTCCCAGAC
*
71434940 ATGTCTTACACTGGCTTACATCTCGAG
64 ATGTCTTACACTGGCTTACATATCGAG
* * * * *
71434967 GCTGATGCATGTCCTAGACATGTCTTACTCTGGCTCTCATCTCAATA-CCGATGCCATGTCCCAG
1 GCCGATGCATGTCCTAGACATGTCTTACACT-G-ACACATATC-ATAGCCGATG-CATGTCCCAG
* * *
71435031 GCATGGTCTTACATTGGCTCT-CATAAT-GTG
62 ACAT-GTCTTACACTGGCT-TACAT-ATCGAG
71435061 GCCGATGCATGTCCTAGACATGTCTTACA
1 GCCGATGCATGTCCTAGACATGTCTTACA
71435090 TTGGCACACA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
90 9 0.09
91 14 0.13
92 18 0.17
93 16 0.15
94 45 0.43
95 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (90 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGACACATATCATAGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCTTACATATCGAG
Found at i:71453202 original size:38 final size:38
Alignment explanation
Indices: 71453117--71453277 Score: 182
Period size: 38 Copynumber: 4.2 Consensus size: 38
71453107 GAATCCAATC
** * *
71453117 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACAAGGCCTGCGGGA-TTTAA-CCCGGATATAAT
* * *
71453157 ACCAGCACTAGGCCTGCGGGATTTAACTCGGATATGAT
1 ACCAGCACAAGGCCTGCGGGATTTAACCCGGATATAAT
*
71453195 ACAAGCACGAA-GCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCAC-AAGGCCTGCGGGATTTAACCCGGATATAAT
*
71453233 ACCAGCACGAAGG-CTGCGGGATTTAACCCGGATATATT
1 ACCAGCAC-AAGGCCTGCGGGATTTAACCCGGATATAAT
*
71453271 TCCAGCA
1 ACCAGCA
71453278 TATAGCCTAC
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
38 82 0.77
39 7 0.07
40 18 0.17
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (38 bp):
ACCAGCACAAGGCCTGCGGGATTTAACCCGGATATAAT
Found at i:71453238 original size:76 final size:78
Alignment explanation
Indices: 71453120--71453267 Score: 212
Period size: 76 Copynumber: 1.9 Consensus size: 78
71453110 TCCAATCACC
* *
71453120 AGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATACCAGCAC-TAGGCCTGCGGGATTTAAC
1 AGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGG-CTGCGGGATTTAAC
*
71453184 TCGGATATGATACA
65 CCGGATATGATACA
* * *
71453198 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGAAGGCTGCGGGATTTAACC
1 AGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGGCTGCGGGATTTAACC
71453261 CGGATAT
66 CGGATAT
71453268 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
76 39 0.62
77 8 0.13
78 16 0.25
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (78 bp):
AGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGGCTGCGGGATTTAACC
CGGATATGATACA
Found at i:71457234 original size:50 final size:49
Alignment explanation
Indices: 71457120--71457295 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
71457110 TGAGGTCGCA
* * * * *
71457120 TGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
71457171 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * * *
71457221 TGTGTAGTACTAAGTGCGGGTTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
71457270 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
71457296 TGCATACCAG
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 29 0.28
50 41 0.39
51 30 0.29
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:71469551 original size:19 final size:19
Alignment explanation
Indices: 71469527--71469563 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
71469517 AAAAAAGGTT
71469527 AAAGTGATACGTGATTGTC
1 AAAGTGATACGTGATTGTC
71469546 AAAGTGATACGTGATTGT
1 AAAGTGATACGTGATTGT
71469564 TTGAAAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (19 bp):
AAAGTGATACGTGATTGTC
Found at i:71476834 original size:40 final size:40
Alignment explanation
Indices: 71476744--71476947 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
71476734 TCGAATGATG
* *
71476744 TCCGGGCTAAGTCCCGAACGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATA
* *
71476784 TCTGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTATA
* *
71476823 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
* **
71476863 TCCGGGTTAAGTCCCGAAGGCATTTGTGGGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
* * ** *
71476903 ACCGGGCTATGTCCCGAAGGCATTTGAACAAGTTGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
71476943 TCCGG
1 TCCGG
71476948 TTAAATTTCG
Statistics
Matches: 137, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 35 0.26
40 94 0.69
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
Found at i:71476886 original size:79 final size:81
Alignment explanation
Indices: 71476744--71476926 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
71476734 TCGAATGATG
* * * *
71476744 TCCGGGCTAAGTCCCGAACGC-TTTGTGCTAAGTGACTATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
71476808 TGTGCAAGTTACTA-A
66 TGTGCAAGTTACTATA
* **
71476823 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
**
71476885 TTTGTGGGAGTTACTATA
64 TTTGTGCAAGTTACTATA
* *
71476903 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71476927 TGAACAAGTT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGTTACTATA
Found at i:71476950 original size:79 final size:79
Alignment explanation
Indices: 71476797--71476951 Score: 197
Period size: 79 Copynumber: 2.0 Consensus size: 79
71476787 GGACTAAGAT
* **
71476797 CCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCAAGTTACTAA
1 CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAA
71476862 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
** * * *
71476876 CCGAAGGCATTTGTGGGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACAAGTTGCT
1 CCGAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTTACT
*
71476940 ATATCC-GGTTAA
64 AAATCCGGGTTAA
71476952 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.03
79 37 0.57
80 26 0.40
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAA
ATCCGGGTTAAGTC
Found at i:71480678 original size:18 final size:18
Alignment explanation
Indices: 71480636--71480678 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
71480626 GCCCATTCCG
* *
71480636 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
71480654 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
71480672 AAGTATG
1 AAGTATG
71480679 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:71481207 original size:28 final size:28
Alignment explanation
Indices: 71481150--71481329 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
71481140 TAAATTGTGC
*
71481150 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
71481177 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
71481205 AGCACTAAGTGTGCAAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
71481233 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
71481260 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
71481288 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
71481315 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71481330 GACTTATTAT
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 67 0.46
28 78 0.54
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:71481214 original size:55 final size:54
Alignment explanation
Indices: 71481150--71481329 Score: 263
Period size: 55 Copynumber: 3.3 Consensus size: 54
71481140 TAAATTGTGC
71481150 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
71481205 AGCACTAAGTGTGC-AAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAA--TTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * * *
71481260 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
71481315 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71481330 GACTTATTAT
Statistics
Matches: 115, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
54 2 0.02
55 85 0.74
56 28 0.24
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:71481291 original size:83 final size:82
Alignment explanation
Indices: 71481150--71481329 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
71481140 TAAATTGTGC
*
71481150 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
*
71481215 GTGCAAGTTTGACTATGT
66 GTGCAAG-TTGACTATAT
* *
71481233 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
* *
71481298 GTGCGAGTTGATTATAT
66 GTGCAAGTTGACTATAT
*
71481315 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71481330 GACTTATTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 22 0.24
83 68 0.76
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
GTGCAAGTTGACTATAT
Found at i:71488439 original size:40 final size:40
Alignment explanation
Indices: 71488242--71488425 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
71488232 CGAATGATGT
* * *
71488242 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
71488282 CCAGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
71488322 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
71488360 TCCGGGTTAAGTCCCGAAGGCATTTGTGGGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
71488401 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
71488426 AACAAGTTGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:71488447 original size:79 final size:79
Alignment explanation
Indices: 71488297--71488458 Score: 193
Period size: 79 Copynumber: 2.1 Consensus size: 79
71488287 CTAAGATCCA
* ** *
71488297 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAATC
*
71488362 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * * * *
71488376 AAGGCATTTGTGGGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACAAGTTGCTATA
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTTACTAAA
*
71488440 TCC-GGTTAAATTCCG
64 TCCGGGTTAAATCCCG
71488455 AAGG
1 AAGG
71488459 TACGTGATTC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.03
79 43 0.61
80 25 0.36
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:71495558 original size:88 final size:88
Alignment explanation
Indices: 71495386--71495558 Score: 222
Period size: 89 Copynumber: 2.0 Consensus size: 88
71495376 CTTCACTCCA
* * *
71495386 CTGTTCCTAGTACTGACATTCCATGCAAACTTCAGGCTTGTTGGACACGTGTTTCACTCTGGGTT
1 CTGTTCCTAGTACTGACATTCCATGCAAACTTCAGGCCTGCTAGACACGTGTTTCACTCTGGGTT
*
71495451 ACCTGCAAAGCAGGGGGTCCTTT
66 ACCTGCAAAGCACGGGGTCCTTT
*** * *
71495474 CTGTTCCTAGTACTGACATTCCATGCGGGGCTTCAGGCCTGCTAGACATGTGTTTCACTCTGGTT
1 CTGTTCCTAGTACTGACATTCCATGC-AAACTTCAGGCCTGCTAGACACGTGTTTCACTCTGGGT
* * *
71495539 TTCCTGCGAAG-ACGTGGTCC
65 TACCTGCAAAGCACGGGGTCC
71495559 ACCTTTTTCG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 33 0.46
89 39 0.54
ACGTcount: A:0.17, C:0.26, G:0.25, T:0.32
Consensus pattern (88 bp):
CTGTTCCTAGTACTGACATTCCATGCAAACTTCAGGCCTGCTAGACACGTGTTTCACTCTGGGTT
ACCTGCAAAGCACGGGGTCCTTT
Found at i:71497382 original size:30 final size:30
Alignment explanation
Indices: 71497334--71497392 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
71497324 TTTACGAGCC
* * *
71497334 TAGGGGCTAATTTGTAATTATGTAAAAGTT
1 TAGGGGCAAAATTATAATTATGTAAAAGTT
* *
71497364 TAGGGGCAAAATTATAATTTTGTCAAAGT
1 TAGGGGCAAAATTATAATTATGTAAAAGT
71497393 ATGATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (30 bp):
TAGGGGCAAAATTATAATTATGTAAAAGTT
Found at i:71497814 original size:48 final size:48
Alignment explanation
Indices: 71497732--71497829 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
71497722 GAGGGTTATG
*
71497732 TGTGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATATCTGAGACATGGCATTGGCATCAATA
* * * *
71497780 TGTGATCCCATGTAAGATCATATCTGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGAGACATGGCATTGGCATCAATA
71497828 TG
1 TG
71497830 AGACATTGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGAGACATGGCATTGGCATCAATA
Found at i:71502082 original size:214 final size:213
Alignment explanation
Indices: 71501717--71502262 Score: 535
Period size: 214 Copynumber: 2.6 Consensus size: 213
71501707 TAAGGCTCAC
** * * * * * ** **
71501717 AAGTTTAAGACTGCAACTCCCC-AAATAGTTAGCGAGAGTTAAAAACTCCCAGGTGTCATATTAA
1 AAGTTTAAGACCACAAC-CCCCTAAACAGTTAGCAAAAGTTAAAAAATCTCAATTGTCACCTTAA
* * * * * *
71501781 GGCTTGCAGGTTCAATACCGTATCCCCCCAAACAGTTAGTGAGAGTTAAAAGCTCCCCCAACTAT
65 AGCTTGTAGGTTTAAGACCGTAACCCCCCAAATAGTTAGTGAGAGTTAAAAGCT-CCCCAACTAT
* * ** * * * * * *
71501846 TACTTTAAGAATCACGGTTTAAGACCGCAGCAGCCCAAATAGTTAGCGAGAGTTAAAAGCTCTCA
129 CACTTTAAGAACCAAAGTTTAAGACCACAGCACCCCAAATAGTTAGAGAAAGTAAAAAGCTCCCA
* * *
71501911 GCTATCACTTTAAGGCTCGA
194 ACTAGCACTTTAAGGATCGA
* * * * *
71501931 AGGTTTAAGGCCGCAACCCTCC-AAGCAGTTAGCAAAAGTTAAAAAAAATC-CTAATTGTCACTT
1 AAGTTTAAGACCACAACCC-CCTAAACAGTTAGCAAAAGTT--AAAAAATCTC-AATTGTCACCT
* * *
71501994 TAATG-TTCGTAGGTTTAAGACCGTAGCCCCCCAAATAGTTAGTGAGAGCTAAAAGCT-CCCAAC
62 TAAAGCTT-GTAGGTTTAAGACCGTAACCCCCCAAATAGTTAGTGAGAGTTAAAAGCTCCCCAAC
** * *
71502057 TATCACTTTAAGGCCCAAAGTTTAAGACCACAGCCCCCCAAATAGTTGGAGAAAGTAAAAAGCTC
126 TATCACTTTAAGAACCAAAGTTTAAGACCACAGCACCCCAAATAGTTAGAGAAAGTAAAAAGCTC
*
71502122 CCAACTAGCACTTTAAGGATTGA
191 CCAACTAGCACTTTAAGGATCGA
* * * *
71502145 AAGTTTAAGACTACAGCCCCCTAAACAGTTAGCAAGAGTTAAAAACTCTCAATTGTCACCTTAAA
1 AAGTTTAAGACCACAACCCCCTAAACAGTTAGCAAAAGTTAAAAAATCTCAATTGTCACCTTAAA
* * **
71502210 GCTTGTAGGTTTAAGACTGTAACCCCCTAAATAGTTAGCAAGAGTTAAAAGCT
66 GCTTGTAGGTTTAAGACCGTAACCCCCCAAATAGTTAGTGAGAGTTAAAAGCT
71502263 TCTGCCTGTT
Statistics
Matches: 271, Mismatches: 53, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
212 64 0.24
213 7 0.03
214 136 0.50
215 3 0.01
216 61 0.23
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (213 bp):
AAGTTTAAGACCACAACCCCCTAAACAGTTAGCAAAAGTTAAAAAATCTCAATTGTCACCTTAAA
GCTTGTAGGTTTAAGACCGTAACCCCCCAAATAGTTAGTGAGAGTTAAAAGCTCCCCAACTATCA
CTTTAAGAACCAAAGTTTAAGACCACAGCACCCCAAATAGTTAGAGAAAGTAAAAAGCTCCCAAC
TAGCACTTTAAGGATCGA
Found at i:71502092 original size:70 final size:70
Alignment explanation
Indices: 71501719--71502262 Score: 327
Period size: 71 Copynumber: 7.6 Consensus size: 70
71501709 AGGCTCACAA
* * * * * ** *
71501719 GTTTAAGACTGCAACTCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAGGTGTCA-TATTAAGG
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTATCACT-TTAAGG
* *
71501783 CTTGCAG
65 C-CGAAG
* * * * * *
71501790 GTTCAATACCGTATCCCCCCAAACAGTTAGTGAGAGTTAAAAGCTCCCCCAACTATTACTTTAAG
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCT--CCCAACTATCACTTTAAG
** *
71501855 AATC-ACG
64 -GCCGAAG
** * * *
71501862 GTTTAAGACCGCAGCAGCCCAAATAGTTAGCGAGAGTTAAAAGCTCTCAGCTATCACTTTAAGGC
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGC
71501927 TCGAAG
66 -CGAAG
* * * * * * ** * * *
71501933 GTTTAAGGCCGCAACCCTCCAAGCAGTTAGCAAAAGTTAAAAAAAATCCTAATTGTCACTTTAAT
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTT--AAAAGCTCCCAACTATCACTTTAA-
** *
71501998 GTTCGTAG
63 GGCCGAAG
* * * *
71502006 GTTTAAGACCGTAGCCCCCCAAATAGTTAGTGAGAGCTAAAAGCTCCCAACTATCACTTTAAGGC
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGC
* *
71502071 CCAAA
66 CGAAG
* * * * * * *
71502076 GTTTAAGACCACAGCCCCCCAAATAGTTGGAGAAAGTAAAAAGCTCCCAACTAGCACTTTAAGGA
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTATCACTTTAAGG-
** *
71502141 TTGAAA
65 CCGAAG
** * * * * * * * *
71502147 GTTTAAGACTACAGCCCCCTAAACAGTTAGCAAGAGTTAAAAACTCTCAATTGTCACCTTAAAGC
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGC
* *
71502212 TTGTAG
66 -CGAAG
* * * * * *
71502218 GTTTAAGACTGTAACCCCCTAAATAGTTAGCAAGAGTTAAAAGCT
1 GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCT
71502263 TCTGCCTGTT
Statistics
Matches: 357, Mismatches: 105, Indels: 22
0.74 0.22 0.05
Matches are distributed among these distances:
70 75 0.21
71 181 0.51
72 38 0.11
73 61 0.17
74 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (70 bp):
GTTTAAGACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGC
CGAAG
Found at i:71502421 original size:71 final size:71
Alignment explanation
Indices: 71502273--71502406 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 71
71502263 TCTGCCTGTT
** *
71502273 CTCCAAATAGTTAACGGGAGTTAAAAACTCCCAACTGTCATATTAAGGCTCACAGGTTCAATATC
1 CTCCAAATAGTTAACAAGAGTTAAAAACTCCCAACTGTCATATTAAGGCTCACAGGTTCAAGATC
71502338 ACAGCC
66 ACAGCC
* * * *
71502344 CTCCAAATAGTTAACAAGAGTTAAAAAC-CCTTAGCTGTCATTTTAAGGCTCACAGGTTTAAGA
1 CTCCAAATAGTTAACAAGAGTTAAAAACTCC-CAACTGTCATATTAAGGCTCACAGGTTCAAGA
71502407 CTGCAAGCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 2 0.04
71 53 0.96
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (71 bp):
CTCCAAATAGTTAACAAGAGTTAAAAACTCCCAACTGTCATATTAAGGCTCACAGGTTCAAGATC
ACAGCC
Found at i:71502632 original size:58 final size:58
Alignment explanation
Indices: 71502558--71502700 Score: 173
Period size: 58 Copynumber: 2.4 Consensus size: 58
71502548 AATTCTCAGA
*
71502558 TGATGATTTTAGAAAATTTCTTTAAG-TCCAAAACAGCTCGC-GAACTAATATTCCAAGC
1 TGATGATTTTAGAAAATTTCCTTAAGCT-CAAAACAGCTCGCAG-ACTAATATTCCAAGC
* * * *
71502616 TGTTGATTTTTGAAAATTTCCTTAAGCTCAAAATAGCTCGCAGACTAATATTCCTAGC
1 TGATGATTTTAGAAAATTTCCTTAAGCTCAAAACAGCTCGCAGACTAATATTCCAAGC
* * *
71502674 TGACGATTTTGGAAAAAATTCCTTAAG
1 TGATGATTTTAG-AAAATTTCCTTAAG
71502701 TGTAAAATTG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 58 0.79
59 15 0.21
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (58 bp):
TGATGATTTTAGAAAATTTCCTTAAGCTCAAAACAGCTCGCAGACTAATATTCCAAGC
Found at i:71504863 original size:13 final size:13
Alignment explanation
Indices: 71504845--71504879 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
71504835 CGGCTAACCT
71504845 ACATAATTAAATA
1 ACATAATTAAATA
71504858 ACATAATTAAATA
1 ACATAATTAAATA
*
71504871 AAATAATTA
1 ACATAATTA
71504880 TTCATCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:71505129 original size:20 final size:21
Alignment explanation
Indices: 71505093--71505138 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
71505083 AAGAAGAAAT
71505093 GAGCTAAATTCGAGCTCAAGC
1 GAGCTAAATTCGAGCTCAAGC
* *
71505114 GAGCTAAA-TGGAGCTCAAGT
1 GAGCTAAATTCGAGCTCAAGC
71505134 GAGCT
1 GAGCT
71505139 GATTGGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (21 bp):
GAGCTAAATTCGAGCTCAAGC
Found at i:71507192 original size:18 final size:18
Alignment explanation
Indices: 71507171--71507229 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
71507161 GATCTCGATC
71507171 TCTTTTTC-CTTCTCTTTT
1 TCTTTTTCACTT-TCTTTT
71507189 TCTTTTTCACTTTCTTTT
1 TCTTTTTCACTTTCTTTT
** *
71507207 TCAATTTCATTTTTCTTTT
1 TCTTTTTCA-CTTTCTTTT
71507226 TCTT
1 TCTT
71507230 GCTTTCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 21 0.62
19 13 0.38
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (18 bp):
TCTTTTTCACTTTCTTTT
Found at i:71507194 original size:6 final size:6
Alignment explanation
Indices: 71507171--71507240 Score: 59
Period size: 6 Copynumber: 11.2 Consensus size: 6
71507161 GATCTCGATC
* * ** **
71507171 TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TCAATT TCATTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT
71507220 TCTTTT TCTTGCTT TCTTTT T
1 TCTTTT TCTT--TT TCTTTT T
71507241 GCTCTCTTTC
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
6 39 0.80
7 4 0.08
8 6 0.12
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:71507290 original size:18 final size:17
Alignment explanation
Indices: 71507257--71507292 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
71507247 TTTCACACTC
*
71507257 TTTTTCTTTCATTTCTT
1 TTTTTCTTTCAATTCTT
71507274 TTTTTCTTTCAAATTCTT
1 TTTTTCTTTC-AATTCTT
71507292 T
1 T
71507293 CTCATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTCTTTCAATTCTT
Found at i:71508451 original size:14 final size:14
Alignment explanation
Indices: 71508432--71508495 Score: 85
Period size: 14 Copynumber: 4.6 Consensus size: 14
71508422 AGGAATGGTC
71508432 GAAATGGTATGAAT
1 GAAATGGTATGAAT
71508446 GAAATGGTATGAAT
1 GAAATGGTATGAAT
*
71508460 GAAATGGTATGAAC
1 GAAATGGTATGAAT
*
71508474 G-AAGGGATATGAAT
1 GAAATGG-TATGAAT
*
71508488 GAATTGGT
1 GAAATGGT
71508496 CGATTTAGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
13 4 0.09
14 36 0.84
15 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.31, T:0.27
Consensus pattern (14 bp):
GAAATGGTATGAAT
Found at i:71509409 original size:13 final size:13
Alignment explanation
Indices: 71509391--71509425 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
71509381 CGGCTAACCT
71509391 ACATAATTAAATA
1 ACATAATTAAATA
71509404 ACATAATTAAATA
1 ACATAATTAAATA
*
71509417 AAATAATTA
1 ACATAATTA
71509426 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:71509676 original size:20 final size:20
Alignment explanation
Indices: 71509651--71509694 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
71509641 GCTAAATTCA
71509651 AGCTCAAGCGAGCTAAATGG
1 AGCTCAAGCGAGCTAAATGG
* * *
71509671 AGCTCAAGTGAGCTGATTGG
1 AGCTCAAGCGAGCTAAATGG
71509691 AGCT
1 AGCT
71509695 GAATGGCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (20 bp):
AGCTCAAGCGAGCTAAATGG
Found at i:71511439 original size:16 final size:16
Alignment explanation
Indices: 71511420--71511450 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71511410 CTTCTTCACT
71511420 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
71511436 TACTTACTTACTTAA
1 TACTCACTTACTTAA
71511451 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:71511456 original size:20 final size:20
Alignment explanation
Indices: 71511417--71511456 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
71511407 AAACTTCTTC
* *
71511417 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
71511437 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
71511457 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:71511845 original size:55 final size:54
Alignment explanation
Indices: 71511700--71511897 Score: 208
Period size: 55 Copynumber: 3.6 Consensus size: 54
71511690 AACTTTCCAT
* * * *
71511700 TGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACTAG
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTAC-AA
* *
71511753 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAACTTA-CAA
* * *
71511808 TGCCATGTCTTGACATGGTCTTACACGATATCCTTGCC-T-TAGAAACCTTACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA-CTTA-CAA
* *
71511862 TTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
71511898 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 41 0.34
54 9 0.07
55 66 0.55
56 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTACAA
Found at i:71514268 original size:31 final size:31
Alignment explanation
Indices: 71514197--71514261 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
71514187 TGACCCGAGT
* * **
71514197 CCTAAATAGGATTCGAGTGACCTACCTGTGA
1 CCTAAATAGGATTAGAGTCACCTACCCATGA
71514228 CCTAAATAGGATTAGAGTCACCTACCCATGA
1 CCTAAATAGGATTAGAGTCACCTACCCATGA
71514259 CCT
1 CCT
71514262 GGATAGGTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (31 bp):
CCTAAATAGGATTAGAGTCACCTACCCATGA
Found at i:71515481 original size:18 final size:17
Alignment explanation
Indices: 71515454--71515492 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
71515444 ATGATCTATG
*
71515454 AATTTTTTATATTTTAA
1 AATTTTTTATATTTAAA
71515471 AATTTTCTTATATTTAAA
1 AATTTT-TTATATTTAAA
71515489 AATT
1 AATT
71515493 GTAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTTATATTTAAA
Found at i:71515509 original size:19 final size:18
Alignment explanation
Indices: 71515460--71515510 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
71515450 TATGAATTTT
**
71515460 TTATATTTTAAAATTTTC
1 TTATATTTTAAAATTTAA
*
71515478 TTATATTTAAAAATTGTAA
1 TTATATTTTAAAATT-TAA
*
71515497 TTTTATTTTAAAAT
1 TTATATTTTAAAAT
71515511 ATTGTTACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTATATTTTAAAATTTAA
Found at i:71515868 original size:2 final size:2
Alignment explanation
Indices: 71515861--71515888 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71515851 TGAATTACCA
71515861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71515889 TATTTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71516767 original size:53 final size:53
Alignment explanation
Indices: 71516687--71516795 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
71516677 TTTTCTGCAA
71516687 TTACTTATGTTTTAAAGTAATTTAGCTAGAGTTTAGAGAGGAAATTGAATATG
1 TTACTTATGTTTTAAAGTAATTTAGCTAGAGTTTAGAGAGGAAATTGAATATG
71516740 TTACTTATGTTTTAAAGTAATTTAGCTAGAGTTTAGAGAGGAAATTGAATATG
1 TTACTTATGTTTTAAAGTAATTTAGCTAGAGTTTAGAGAGGAAATTGAATATG
71516793 TTA
1 TTA
71516796 GGTATGTTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (53 bp):
TTACTTATGTTTTAAAGTAATTTAGCTAGAGTTTAGAGAGGAAATTGAATATG
Found at i:71519626 original size:46 final size:46
Alignment explanation
Indices: 71519576--71519751 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
71519566 TGGTTGAGCA
71519576 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71519622 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71519667 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71519715 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71519752 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71519732 original size:93 final size:93
Alignment explanation
Indices: 71519573--71519744 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
71519563 GGATGGTTGA
* *
71519573 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71519638 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71519666 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71519731 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
71519745 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71522023 original size:97 final size:95
Alignment explanation
Indices: 71521866--71522080 Score: 231
Period size: 97 Copynumber: 2.3 Consensus size: 95
71521856 AAGTCAATGC
* * *
71521866 CATGTCCCA-ACAGGTCTTACACTAACTTTCATATATCGAGGCCGACACCATGTCCTAGACAGGT
1 CATGTCCCAGACAAGTCTTACACTAACTTTCATATACCGAGGCCGACACCATGTCCCAGACAGGT
* * * **
71521930 CTTACATTGGCTCTCATTTATAG-GTGTTGATG
66 CTTACACTGGCACTCA-TGAT-GTG-GCCGATG
* * ** *
71521962 CTATGTCCCAGACAAGTCTTACACTAGCTTGT-ATATCCCGAGGCCGA-TGCATGTCCCAGACAT
1 C-ATGTCCCAGACAAGTCTTACACTAACTT-TCATATACCGAGGCCGACACCATGTCCCAGACAG
71522025 GTCTTACACTGGCACTCATGATGTGGCCGATG
64 GTCTTACACTGGCACTCATGATGTGGCCGATG
*
71522057 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAAGTCTTACACT
71522081 GGCTCACATA
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
94 22 0.22
95 7 0.07
96 5 0.05
97 36 0.36
98 30 0.30
99 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (95 bp):
CATGTCCCAGACAAGTCTTACACTAACTTTCATATACCGAGGCCGACACCATGTCCCAGACAGGT
CTTACACTGGCACTCATGATGTGGCCGATG
Found at i:71522029 original size:48 final size:46
Alignment explanation
Indices: 71521958--71522080 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 46
71521948 TATAGGTGTT
* * *
71521958 GATGCTATGTCCCAGACAAGTCTTACACTAGC-TTGTAT-ATCCCGAGGCC
1 GATGC-ATGTCCCAGACATGTCTTACACTAGCACT-CATGAT---GAGGCC
* *
71522007 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATGATGAGGCC
71522053 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
71522081 GGCTCACATA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 33 0.49
48 26 0.39
49 8 0.12
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATGATGAGGCC
Found at i:71523225 original size:21 final size:21
Alignment explanation
Indices: 71523199--71523242 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
71523189 ATTATGCCAC
71523199 AACACATAAAATAATATAAAA
1 AACACATAAAATAATATAAAA
*
71523220 AACACATAAAATAATATCAAA
1 AACACATAAAATAATATAAAA
71523241 AA
1 AA
71523243 TAATTTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.18
Consensus pattern (21 bp):
AACACATAAAATAATATAAAA
Found at i:71527082 original size:3 final size:3
Alignment explanation
Indices: 71527043--71527152 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
71527033 ATGTATTAGT
* * *
71527043 ATA ATA GTA ATAA ATA AAA AGA A-A ATA A-A ACTA ATA ATA ATTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA
* **
71527089 ATA GTA ATA ATA ATA ATA ACC ATA ATA ATA ATA AGCTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA
71527135 AT- ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
71527153 GAGCAAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.11
3 66 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:71529024 original size:44 final size:43
Alignment explanation
Indices: 71528952--71529519 Score: 154
Period size: 44 Copynumber: 12.8 Consensus size: 43
71528942 ACCTGATGCG
* * *
71528952 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* * * * *
71528996 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCA
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTA-TTTTA
* **
71529040 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCA
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTATT-TT-A
* * * * ** ***
71529086 GTCTGTTCCACTGTAATCTTAGGGAAATAAGA-CC--TGGTGCG
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCTTTATTTTA
* * * **
71529127 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* * * *
71529171 ATCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCA
1 ATC---T--G--CT-C-C-ACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* * ** * * *
71529225 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTTG
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* *** *
71529268 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTATTTTA
* ** *
71529312 ATCAGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCG
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTATT-TT-A
* * * * * ***
71529358 GTCTACTCCACTGTAACCTCAAGAAGATAAGA-CC-TGA-TGCG
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCTTTATTTTA
* ** *
71529399 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
** * * ** * *
71529443 ATCCACTCCACTGTAACTTTAGGGAGATAGGATAGTGT-CTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* *
71529486 ATCTGCTCCGCTGCAATCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATC
71529520 TCTGGCTTCA
Statistics
Matches: 383, Mismatches: 109, Indels: 65
0.69 0.20 0.12
Matches are distributed among these distances:
40 2 0.01
41 49 0.13
42 5 0.01
43 65 0.17
44 157 0.41
45 6 0.02
46 58 0.15
47 3 0.01
49 2 0.01
51 2 0.01
52 1 0.00
54 33 0.09
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACTCAGGGAGATAAGATCCTTTATTTTA
Found at i:71529103 original size:46 final size:44
Alignment explanation
Indices: 71528995--71529117 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 44
71528985 CCTTTATTTT
* * *
71528995 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATAGCTTC
* *
71529039 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA-ATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-AATA-GCTTC
* * * *
71529085 AGTCTGTTCCACTGTAATCTTAGGGAAATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
71529118 CCTGGTGCGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 31 0.47
45 2 0.03
46 33 0.50
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATAGCTTC
Found at i:71529326 original size:87 final size:87
Alignment explanation
Indices: 71529180--71529340 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 87
71529170 AATCTGATGC
* * * * * *
71529180 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCAATCCGCTCCACTGTAACTTC
1 GATCTACTCCGCTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCAGCTCCACTGTAACCTC
71529245 AGGGAGATAGGATAGTGTCTTT
66 AGGGAGATAGGATAGTGTCTTT
* * *
71529267 GATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCAGCTCCACTGTAACCT
1 GATCTACTCCGCTGTAACT-TCAGAGAGATAAGATCTCTGACTTCAATCAGCTCCACTGTAACCT
71529331 CAGGGAGATA
65 CAGGGAGATA
71529341 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.02
87 63 0.98
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (87 bp):
GATCTACTCCGCTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCAGCTCCACTGTAACCTC
AGGGAGATAGGATAGTGTCTTT
Found at i:71529428 original size:218 final size:213
Alignment explanation
Indices: 71528914--71529547 Score: 729
Period size: 218 Copynumber: 2.9 Consensus size: 213
71528904 GGCTTCTATG
* * * * * *
71528914 TACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 TACTCCACTGTAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
* *
71528979 TAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTCAAT
66 TAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGA-TAGT-GTCTTTAAT
* * * * * * *
71529042 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCAGTCTGTTCCACTGTAATCTT
128 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCAGCTCCACTGTAACCTC
*
71529106 AGGGAAATAAGACCTGGTGCGATC
190 AGGGAAATAAGACCTGCTGCGATC
* * *
71529130 TGCTCTACTGTAACTTC-AGAGAGATAAGATCATTGGTTTTAATCTGATGCGATCTACTCTGCTG
1 TACTCCACTGTAACCTCAAGA-AGATAAGA-C------------CTGATGCGATCTACTCTGCTG
* *
71529194 TAACTTCAGAGAGATAAGATCTTTTATTTCAATCCGCTCCACTGTAACTTCAGGGAGATAGGATA
52 TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATA
*
71529259 GTGTCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCAGCTCCACT
117 GTGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCAGCTCCACT
* * * *
71529324 GTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTC
182 GTAACCTCAGGGAAATAAGACCTG-----CTGCGATC
71529361 TACTCCACTGTAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
1 TACTCCACTGTAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
* *
71529426 TAAGATCCTTTATTTTAATCCACTCCACTGTAACTTTAGGGAGATAGGATAGTGTCTTTAATCTG
66 TAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTTAATCTG
* *
71529491 CTCCGCTGCAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTA-CTCCACTGCAACC
131 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATC-AGCTCCACTGTAACC
71529548 GATGGAGGCA
Statistics
Matches: 358, Mismatches: 36, Indels: 46
0.81 0.08 0.10
Matches are distributed among these distances:
215 1 0.00
216 19 0.05
217 1 0.00
218 148 0.41
219 1 0.00
225 1 0.00
226 34 0.09
227 1 0.00
228 41 0.11
229 79 0.22
230 2 0.01
231 27 0.08
232 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (213 bp):
TACTCCACTGTAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
TAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTTAATCTG
CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCAGCTCCACTGTAACCTCAGGGAA
ATAAGACCTGCTGCGATC
Found at i:71529545 original size:44 final size:43
Alignment explanation
Indices: 71529181--71529542 Score: 164
Period size: 44 Copynumber: 8.3 Consensus size: 43
71529171 ATCTGATGCG
** * * ***
71529181 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCA
1 ATCTACTCCACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTCA
** * ** * **
71529225 ATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTTG
1 ATCTACTCCACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTCA
* *
71529268 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCA
* * *
71529312 ATC-AGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCG
1 ATCTA-CTCCACTGTAA-CTCAGGGAGATAAGATCT---CTGGCTTCA
* * * * * *
71529358 GTCTACTCCACTGTAACCTCAAGAAGATAAGA-C-CT-GATGCG
1 ATCTACTCCACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCA
** * *** *
71529399 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATC-CTTTATTTTA
1 ATCTACTCCACTGTAAC-TCAGGGAGATAAGATCTC-TGGCTTCA
* * * ** * *
71529443 ATCCACTCCACTGTAACTTTAGGGAGATAGGAT-AGTGTCTTTA
1 ATCTACTCCACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTCA
* * *
71529486 ATCTGCTCCGCTGCAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTACTCCACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCA
71529530 ATCTACTCCACTG
1 ATCTACTCCACTG
71529543 CAACCGATGG
Statistics
Matches: 237, Mismatches: 67, Indels: 28
0.71 0.20 0.08
Matches are distributed among these distances:
40 1 0.00
41 28 0.12
42 2 0.01
43 62 0.26
44 110 0.46
45 1 0.00
46 31 0.13
47 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
ATCTACTCCACTGTAACTCAGGGAGATAAGATCTCTGGCTTCA
Found at i:71529837 original size:86 final size:87
Alignment explanation
Indices: 71529535--71529873 Score: 529
Period size: 87 Copynumber: 3.9 Consensus size: 87
71529525 CTTCAATCTA
* *
71529535 CTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
* *
71529600 AAGATCTGCTATCTTCAACTAG
66 AAGATCTGCTATCTTTAACCAG
* * * * *
71529622 CTCCATTGCAGCCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAAGAATGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
* *
71529687 AAGATATGCTATCTTTGACCAG
66 AAGATCTGCTATCTTTAACCAG
*
71529709 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
*
71529774 AAGACCTGCT-TCTTTAACCAG
66 AAGATCTGCTATCTTTAACCAG
* *
71529795 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
71529860 AAGATCTGCT-TCTT
66 AAGATCTGCTATCTT
71529874 CACTGATCTG
Statistics
Matches: 230, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
86 85 0.37
87 145 0.63
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
AAGATCTGCTATCTTTAACCAG
Found at i:71529858 original size:43 final size:42
Alignment explanation
Indices: 71529553--71529862 Score: 112
Period size: 43 Copynumber: 7.2 Consensus size: 42
71529543 CAACCGATGG
*
71529553 AGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAC-CAGGA
* * * * ** * * *
71529596 AGGCAA-GATCTGCTATCTTC-AACTAGCTCCATTG-CAGCCAATGA
1 AGGCAAGGCTTTG-T-T-TTCGATCT-GCTTCGCTGTTAACC-AGGA
* * *
71529640 AGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAAGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA-CCAGGA
* * * * * * * * * *
71529683 ATGCAA-GATATGCTATCTTTGACCAGCTCCACTG-CAACCAATGA
1 AGGCAAGGCTTTG-T-T-TTCGATCTGCTTCGCTGTTAACC-AGGA
* *
71529727 AGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA-CCAGGA
* * ** * * * * * *
71529770 AGGCAAGAC-CTGCTTCTTTAACCAGCTCCACTG-CAACCAATGA
1 AGGCAAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAACC-AGGA
71529813 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAC-CAGGA
71529856 AGGCAAG
1 AGGCAAG
71529863 ATCTGCTTCT
Statistics
Matches: 182, Mismatches: 63, Indels: 44
0.63 0.22 0.15
Matches are distributed among these distances:
42 43 0.24
43 67 0.37
44 43 0.24
45 29 0.16
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (42 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACCAGGA
Found at i:71530957 original size:21 final size:21
Alignment explanation
Indices: 71530931--71530977 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
71530921 GGTATAGCAG
71530931 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
71530952 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
71530973 GATCA
1 GATCA
71530978 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:71531988 original size:9 final size:9
Alignment explanation
Indices: 71531976--71532006 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
71531966 CTATTTTGAC
71531976 TTTGATTTT
1 TTTGATTTT
71531985 TTTGA-TTT
1 TTTGATTTT
71531993 TTTGATTTT
1 TTTGATTTT
71532002 TTTGA
1 TTTGA
71532007 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (9 bp):
TTTGATTTT
Found at i:71536682 original size:3 final size:3
Alignment explanation
Indices: 71536643--71536752 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
71536633 ATGTATTAGT
* * *
71536643 ATA ATA GTA ATAA ATA AAA AGA A-A ATA A-A ACTA ATA ATA ATTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA
* **
71536689 ATA GTA ATA ATA ATA ATA ACC ATA ATA ATA ATA AGCTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA
71536735 AT- ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
71536753 GAGCAAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.11
3 66 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:71538295 original size:13 final size:14
Alignment explanation
Indices: 71538279--71538320 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
71538269 TTTCAATTTT
71538279 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
71538292 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
71538307 ATTTTAAATAATAT
1 ATTTT-AATAATAT
71538321 TCATCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:71538305 original size:16 final size:16
Alignment explanation
Indices: 71538283--71538319 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
71538273 AATTTTATTT
71538283 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
71538300 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
71538315 TAATA
1 TAATA
71538320 TTCATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:71538369 original size:25 final size:24
Alignment explanation
Indices: 71538301--71538369 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
71538291 AATTTTAAAA
71538301 ATAATAATTTTAAATAATATTCATC
1 ATAAT-ATTTTAAATAATATTCATC
*
71538326 AT-ATATTATTGAAAAAATATTCAAT-
1 ATAATATT-TT-AAATAATATTC-ATC
71538351 ATTAATATTTTAAATAATA
1 A-TAATATTTTAAATAATA
71538370 AATATCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 3 0.08
24 4 0.11
25 20 0.54
26 5 0.14
27 5 0.14
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (24 bp):
ATAATATTTTAAATAATATTCATC
Found at i:71538398 original size:17 final size:18
Alignment explanation
Indices: 71538362--71538407 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
71538352 TTAATATTTT
71538362 AAATAATAAATATCTATTA
1 AAATAATAAATA-CTATTA
*
71538381 AAATTATAAATA-TATT-
1 AAATAATAAATACTATTA
71538397 -AATAATAAATA
1 AAATAATAAATA
71538408 TTTTGTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 10 0.40
17 4 0.16
19 11 0.44
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAATAAATACTATTA
Found at i:71538406 original size:15 final size:16
Alignment explanation
Indices: 71538354--71538408 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 16
71538344 ATTCAATATT
*
71538354 AATATTTTAAATAATA
1 AATATATTAAATAATA
*
71538370 AATATCTATTAAAATTATA
1 AATA--TATT-AAATAATA
71538389 AATATATT-AATAATA
1 AATATATTAAATAATA
71538404 AATAT
1 AATAT
71538409 TTTGTAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 11 0.33
16 4 0.12
17 4 0.12
18 3 0.09
19 11 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATATTAAATAATA
Found at i:71538806 original size:27 final size:26
Alignment explanation
Indices: 71538765--71538815 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
71538755 TACAAGGACT
*
71538765 TATGACATATTTTAATCTATTATAAAAA
1 TATGACATACTTTAAT-TA-TATAAAAA
71538793 TATGA-ATACTTTAATTATATAAA
1 TATGACATACTTTAATTATATAAA
71538816 TATGCGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (26 bp):
TATGACATACTTTAATTATATAAAAA
Found at i:71543549 original size:31 final size:32
Alignment explanation
Indices: 71543514--71543574 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
71543504 CTTTTAATTA
*
71543514 AATTTGACTC-TCAATCTTTT-AAAAAGAGTCC
1 AATTTG-CTCTTCAACCTTTTGAAAAAGAGTCC
*
71543545 AATTTGTTCTTCAACCTTTTGAAAAAGAGT
1 AATTTGCTCTTCAACCTTTTGAAAAAGAGT
71543575 TGATTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.58
32 9 0.35
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (32 bp):
AATTTGCTCTTCAACCTTTTGAAAAAGAGTCC
Found at i:71544216 original size:13 final size:12
Alignment explanation
Indices: 71544194--71544245 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
71544184 ATAATGATAT
*
71544194 TATAATATTTTA
1 TATAAAATTTTA
71544206 TAATAAAATTTTA
1 T-ATAAAATTTTA
71544219 T-TAACTAATTTTA
1 TATAA--AATTTTA
*
71544232 TTTAAAATTTTA
1 TATAAAATTTTA
71544244 TA
1 TA
71544246 AATAATGGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 3 0.09
12 9 0.26
13 19 0.56
14 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TATAAAATTTTA
Found at i:71545266 original size:18 final size:18
Alignment explanation
Indices: 71545233--71545267 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71545223 CATCACAGAA
* *
71545233 ACAACATCGTAGTTTCAC
1 ACAACATCATAATTTCAC
71545251 ACAACATCATAATTTCA
1 ACAACATCATAATTTCA
71545268 TAAATTGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (18 bp):
ACAACATCATAATTTCAC
Found at i:71547154 original size:31 final size:31
Alignment explanation
Indices: 71547097--71547198 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
71547087 TACGCCAAGT
*
71547097 TGGGCGTGT-GGCCTACACGGGCATGCCACA
1 TGGGCGTGTGGGCCCACACGGGCATGCCACA
* *
71547127 TGGGCGTGTGGGCCCACACAGGCATGCCATA
1 TGGGCGTGTGGGCCCACACGGGCATGCCACA
* **
71547158 TGGGCGTGTGGGCCCATACGGGCATGTTACA
1 TGGGCGTGTGGGCCCACACGGGCATGCCACA
71547189 TGGGCGTGTG
1 TGGGCGTGTG
71547199 AATTTTGGGC
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 9 0.14
31 54 0.86
ACGTcount: A:0.16, C:0.25, G:0.39, T:0.20
Consensus pattern (31 bp):
TGGGCGTGTGGGCCCACACGGGCATGCCACA
Found at i:71554892 original size:22 final size:22
Alignment explanation
Indices: 71554852--71554893 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
71554842 AGGACCAATT
*
71554852 TGTAAAAATGTTATAAAATGTG
1 TGTAAAAATGTGATAAAATGTG
* *
71554874 TGTAAAAGTGTGATTAAATG
1 TGTAAAAATGTGATAAAATG
71554894 AAAAATGTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTAAAAATGTGATAAAATGTG
Found at i:71555420 original size:42 final size:42
Alignment explanation
Indices: 71555361--71555514 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
71555351 TAAGTCTATA
*
71555361 TGTAAGATCATATCTGGGATATGGCATCAATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCG
* *
71555403 TGTAAGACCATACCTGGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCG
** * * * * * *
71555445 CATAAGACTATAACTGGGCTATTGGCATCGAA-ACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATC-AATATGAGATTTCG
71555488 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
71555515 TGGCATGGTA
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
42 61 0.66
43 31 0.33
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCG
Found at i:71558651 original size:20 final size:20
Alignment explanation
Indices: 71558626--71558665 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
71558616 AATAAGTTCG
71558626 TATAATAGGAATTAAACTTA
1 TATAATAGGAATTAAACTTA
71558646 TATAATAGGAATTAAACTTA
1 TATAATAGGAATTAAACTTA
71558666 CCAATCATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (20 bp):
TATAATAGGAATTAAACTTA
Found at i:71562213 original size:7 final size:7
Alignment explanation
Indices: 71562201--71562315 Score: 131
Period size: 7 Copynumber: 16.0 Consensus size: 7
71562191 CACCAAGCCA
*
71562201 TAAACCT
1 TAAACCC
71562208 TAAACCC
1 TAAACCC
71562215 TAAACCC
1 TAAACCC
*
71562222 TAAACCT
1 TAAACCC
*
71562229 TATGAACCT
1 TA--AACCC
71562238 TAAACCC
1 TAAACCC
71562245 TAAACCC
1 TAAACCC
71562252 TAAACCC
1 TAAACCC
*
71562259 TAAACAC
1 TAAACCC
**
71562266 TAAACAT
1 TAAACCC
*
71562273 TAAACCT
1 TAAACCC
*
71562280 TAAACCT
1 TAAACCC
71562287 TAAACCC
1 TAAACCC
71562294 TAAACCC
1 TAAACCC
71562301 TAAAACCC
1 T-AAACCC
71562309 TAAACCC
1 TAAACCC
71562316 CAAATCCACC
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
7 84 0.86
8 7 0.07
9 7 0.07
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:71564365 original size:42 final size:42
Alignment explanation
Indices: 71564254--71564378 Score: 144
Period size: 43 Copynumber: 3.0 Consensus size: 42
71564244 TACCATACCA
* * **
71564254 ATGCCATGTCCCAAATATGGTCTTACATGGGATCTCAAATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAAATCG
* * *
71564296 ATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCAAATCG
* *
71564339 ATTCCATATCCCAGATATGGTCTTACACGTAAA-CTCAAAT
1 ATGCCATATCCCAGATATGGTCTTACATG-AAATCTCAAAT
71564379 AACCCTAATG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAAATCG
Found at i:71566251 original size:30 final size:30
Alignment explanation
Indices: 71566192--71566252 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
71566182 TTATTACTAC
71566192 CAGGATGAATAGACATGTTACTATTATGAG
1 CAGGATGAATAGACATGTTACTATTATGAG
71566222 CAGGATGAATAGACATGTTACTATTATGAG
1 CAGGATGAATAGACATGTTACTATTATGAG
71566252 C
1 C
71566253 TTCATGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (30 bp):
CAGGATGAATAGACATGTTACTATTATGAG
Found at i:71569646 original size:55 final size:54
Alignment explanation
Indices: 71569533--71569723 Score: 235
Period size: 55 Copynumber: 3.5 Consensus size: 54
71569523 AACTTACCAT
* * * * * *
71569533 TGCCATGTCTTGACATGGTTTTACGTGGT-ATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGA-CCTTGCCTTATAGAACTCATCAA
71569586 TGCCATGCCTTGGCATGGTCTTACATGA-GACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGACC-TTGCCTTATAG-AACTCATCAA
* * ** *
71569641 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGACCTTGCCTTATAGAACTCATCAA
71569695 TGCCATGCCTTGGCATGGTCTTACATGAT
1 TGCCATGCCTTGGCATGGTCTTACATGAT
71569724 ATCCTTATCT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 37 0.31
55 46 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATGACCTTGCCTTATAGAACTCATCAA
Found at i:71569765 original size:47 final size:47
Alignment explanation
Indices: 71569712--71569829 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
71569702 CCTTGGCATG
* * * *
71569712 GTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAACGTA
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
*
71569759 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
*
71569806 GTCTAACATGGTATCCTTGTCTTA
1 GTCTTACATGGTATCCTTGTCTTA
71569830 GTACCAATAC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
Found at i:71570635 original size:30 final size:31
Alignment explanation
Indices: 71570592--71570649 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
71570582 CTAACTCAAA
71570592 CTTTGGCAAAATTACAATTTTACCCTTAAAC
1 CTTTGGCAAAATTACAATTTTACCCTTAAAC
* ** *
71570623 CTTT-GCAGAATTATGATTTTGCCCTTA
1 CTTTGGCAAAATTACAATTTTACCCTTA
71570650 GGATAGCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTACCCTTAAAC
Found at i:71574342 original size:25 final size:25
Alignment explanation
Indices: 71574308--71574360 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
71574298 GTAAGTTCGT
71574308 ATAACAGGAATTAAACTTACCAATC
1 ATAACAGGAATTAAACTTACCAATC
*
71574333 ATAATAGGAATTAAACTTACCAATC
1 ATAACAGGAATTAAACTTACCAATC
71574358 ATA
1 ATA
71574361 CTCTTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (25 bp):
ATAACAGGAATTAAACTTACCAATC
Found at i:71576487 original size:26 final size:25
Alignment explanation
Indices: 71576440--71576521 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 25
71576430 TGGCTATTTG
*
71576440 GAGCTTCTAATTAAAGGCTCTTTAT
1 GAGCTTCTAATTAAAAGCTCTTTAT
* * *
71576465 GAGCTTGCTGATTAAAAGTTCTTTGT
1 GAGCTT-CTAATTAAAAGCTCTTTAT
* **
71576491 GAACTTCTTAATT-ATGGCT-TTTAT
1 GAGCTTC-TAATTAAAAGCTCTTTAT
71576515 GAGCTTC
1 GAGCTTC
71576522 CTGTTATATA
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
24 10 0.23
25 10 0.23
26 24 0.55
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (25 bp):
GAGCTTCTAATTAAAAGCTCTTTAT
Found at i:71577223 original size:12 final size:12
Alignment explanation
Indices: 71577206--71577230 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71577196 CATGTTCTTT
71577206 AATGTTTAATGA
1 AATGTTTAATGA
71577218 AATGTTTAATGA
1 AATGTTTAATGA
71577230 A
1 A
71577231 GGAATATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AATGTTTAATGA
Found at i:71577992 original size:90 final size:90
Alignment explanation
Indices: 71577895--71578062 Score: 219
Period size: 90 Copynumber: 1.9 Consensus size: 90
71577885 GTTAAGTGAT
* * * * * * *
71577895 TTTGTATAAGACTATGTTTAGGATATGGCATTGATATGTAGTCCCGTATAAGACCCTGTCTGGGA
1 TTTGTATAAGACCATATCTAGGATATGGCATCGATATGAAGTCCCATATAAGACCATGTCTGGGA
*
71577960 CATGGCATTGGCACCGATTCGAGAC
66 CATAGCATTGGCACCGATTCGAGAC
* * * *
71577985 TTTGTATAAGACCATATCTGGGATATGGCATCGATGTGAAGTTCCATGTAAGACCATGTCTGGGA
1 TTTGTATAAGACCATATCTAGGATATGGCATCGATATGAAGTCCCATATAAGACCATGTCTGGGA
*
71578050 CATAGCTTTGGCA
66 CATAGCATTGGCA
71578063 TCCTATTTGG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 65 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (90 bp):
TTTGTATAAGACCATATCTAGGATATGGCATCGATATGAAGTCCCATATAAGACCATGTCTGGGA
CATAGCATTGGCACCGATTCGAGAC
Found at i:71585718 original size:90 final size:90
Alignment explanation
Indices: 71585624--71585788 Score: 203
Period size: 90 Copynumber: 1.8 Consensus size: 90
71585614 TTGATTCCAT
* *
71585624 ATAAGACCATGTTTAGGACATGGCATC-GAT-A-TGAGGT-CATGTATAAGACCATGTCTGGGAC
1 ATAAGACCATATCTAGGACATGGCATCTG-TGAGT-AGGTCCATG--TAAGACCATGTCTGGGAC
71585685 ATGGCGTGGGCACCGATTTGTGACTTCGA
62 ATGGCGTGGGCACCGATTTGTGACTTCGA
* * *
71585714 ATAAGACCATATCTGGGATATGGCATCTGTGAGTAGTTCCATGTAAGACCATGTCTGGGACATGG
1 ATAAGACCATATCTAGGACATGGCATCTGTGAGTAGGTCCATGTAAGACCATGTCTGGGACATGG
* *
71585779 CTTTGGCACC
66 CGTGGGCACC
71585789 CTATTTGGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
90 54 0.84
91 5 0.08
92 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (90 bp):
ATAAGACCATATCTAGGACATGGCATCTGTGAGTAGGTCCATGTAAGACCATGTCTGGGACATGG
CGTGGGCACCGATTTGTGACTTCGA
Found at i:71587578 original size:16 final size:16
Alignment explanation
Indices: 71587557--71587596 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
71587547 TCTGCCTGAA
71587557 ATACATGAAAATGTTG
1 ATACATGAAAATGTTG
71587573 ATACATGAAAATGTTG
1 ATACATGAAAATGTTG
71587589 ATACATGA
1 ATACATGA
71587597 TATATGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (16 bp):
ATACATGAAAATGTTG
Found at i:71590717 original size:29 final size:29
Alignment explanation
Indices: 71590659--71590787 Score: 217
Period size: 29 Copynumber: 4.5 Consensus size: 29
71590649 ATAGTAAGTC
*
71590659 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
71590687 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
71590716 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
71590745 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
71590773 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71590788 ATGCAATTTA
Statistics
Matches: 96, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
28 39 0.41
29 57 0.59
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:71590810 original size:29 final size:28
Alignment explanation
Indices: 71590660--71590815 Score: 151
Period size: 29 Copynumber: 5.5 Consensus size: 28
71590650 TAGTAAGTCC
* *
71590660 GCACACTTAGTGTTATATAATCAAA-CT
1 GCACACTTAGTGCTATACAATCAAACCT
71590687 CGCACACTTAGTGCT-TACATAATCAAA-CT
1 -GCACACTTAGTGCTATAC--AATCAAACCT
71590716 CGCACACTTAGTGCT-TACATAATCAAA-CT
1 -GCACACTTAGTGCTATAC--AATCAAACCT
* *
71590745 CGCACACTTAGTGCTATATAATCAAACTT
1 -GCACACTTAGTGCTATACAATCAAACCT
* *
71590774 GCACACTTAGTGCTATGCAATTTAAACCT
1 GCACACTTAGTGCTATACAA-TCAAACCT
71590803 GCACACTTAGTGC
1 GCACACTTAGTGC
71590816 CAATCTCATG
Statistics
Matches: 115, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
27 2 0.02
28 38 0.33
29 73 0.63
30 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
GCACACTTAGTGCTATACAATCAAACCT
Done.