Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 38 of 199
Found at i:10813455 original size:3 final size:3
Alignment explanation
Indices: 10813447--10813517 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
10813437 TGTTATTAAT
* ** *
10813447 TTA TTA TTA TTA TTA TAA TTA TTAA TTA TTA TTA TCG TTT TCTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA
* * *
10813493 TAA ATA TTA TTA TTA ATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
10813518 AGTATTTAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
2 1 0.02
3 46 0.88
4 5 0.10
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10814173 original size:17 final size:18
Alignment explanation
Indices: 10814151--10814184 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10814141 GAAATGAGTT
10814151 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
10814168 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
10814185 AAAATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:10820991 original size:3 final size:3
Alignment explanation
Indices: 10820983--10821028 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
10820973 ATGAATTAAA
* *
10820983 TAT TAT TA- TAT TA- TAT TAT TAT AAT GTAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
10821027 TA
1 TA
10821029 ACTAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:10821000 original size:13 final size:13
Alignment explanation
Indices: 10820982--10821028 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
10820972 TATGAATTAA
10820982 ATATTATTATATT
1 ATATTATTATATT
*
10820995 ATATTATTATAAT
1 ATATTATTATATT
* *
10821008 GTATTATTAT-TA
1 ATATTATTATATT
10821020 ATATTATTA
1 ATATTATTA
10821029 ACTAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:10821144 original size:19 final size:20
Alignment explanation
Indices: 10821095--10821146 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
10821085 AGAAGCTTTC
*
10821095 GAAACAGGGAGAAAGGAAAGAA
1 GAAA-AGGGA-AAAAGAAAGAA
10821117 GAAAA--GAAAAAGAAA-AA
1 GAAAAGGGAAAAAGAAAGAA
10821134 GAAAAGGGAAAAA
1 GAAAAGGGAAAAA
10821147 TAGGGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 8 0.30
21 1 0.04
22 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (20 bp):
GAAAAGGGAAAAAGAAAGAA
Found at i:10827379 original size:23 final size:23
Alignment explanation
Indices: 10827350--10827416 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
10827340 TAAATGACAT
10827350 TTTTATTAAATAATAATTTAATA
1 TTTTATTAAATAATAATTTAATA
*
10827373 TTTTATTTAA-AATAA--TAATA
1 TTTTATTAAATAATAATTTAATA
* *
10827393 TTTTAATAAGTAAT-ATTATAATA
1 TTTTATTAAATAATAATT-TAATA
10827416 T
1 T
10827417 ATGTAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 5 0.14
23 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTTATTAAATAATAATTTAATA
Found at i:10833506 original size:18 final size:18
Alignment explanation
Indices: 10833473--10833525 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
10833463 ATTCACCTAA
*
10833473 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
10833492 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
10833510 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
10833526 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:10833643 original size:9 final size:9
Alignment explanation
Indices: 10833629--10833674 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
10833619 GTAGTGATTC
10833629 AATTCGGTT
1 AATTCGGTT
*
10833638 AATTCGGGT
1 AATTCGGTT
10833647 AATTCGGTT
1 AATTCGGTT
*
10833656 AATTCAAG-T
1 AATTC-GGTT
10833665 AATTCGGTT
1 AATTCGGTT
10833674 A
1 A
10833675 TTTTTAACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 1 0.03
9 29 0.94
10 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10833652 original size:18 final size:18
Alignment explanation
Indices: 10833629--10833674 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
10833619 GTAGTGATTC
**
10833629 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCAAGT
10833647 AATTCGGTTAATTCAAGT
1 AATTCGGTTAATTCAAGT
10833665 AATTCGGTTA
1 AATTCGGTTA
10833675 TTTTTAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (18 bp):
AATTCGGTTAATTCAAGT
Found at i:10837694 original size:44 final size:45
Alignment explanation
Indices: 10837646--10837737 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
10837636 GTCTTACCCG
* * * *
10837646 TTTTGGTT-TAATGCCATAGTATCATTCAA-CTATGTTCTTTTCTT
1 TTTTGATTATAATGACATAGTATCATTCAATC-ATGGTCTTTCCTT
*
10837690 TTTTGATTATAATGACATAGTATCTTTCAATCATGGTCTTTCCTT
1 TTTTGATTATAATGACATAGTATCATTCAATCATGGTCTTTCCTT
10837735 TTT
1 TTT
10837738 CTCAAACAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 7 0.17
45 33 0.80
46 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (45 bp):
TTTTGATTATAATGACATAGTATCATTCAATCATGGTCTTTCCTT
Found at i:10846847 original size:4 final size:4
Alignment explanation
Indices: 10846838--10846868 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
10846828 CATCACCTTG
10846838 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
10846869 AAAACTACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:10847071 original size:30 final size:29
Alignment explanation
Indices: 10847032--10847183 Score: 98
Period size: 30 Copynumber: 5.6 Consensus size: 29
10847022 AATTTAAATC
10847032 TATTATTATATTTTTTTAAAAATATTTATA
1 TATT-TTATATTTTTTTAAAAATATTTATA
*
10847062 TACTTTTATATATTTTT--AAA-ATTTATA
1 TA-TTTTATATTTTTTTAAAAATATTTATA
* * * *
10847089 TATTAT-TATTTTTTCAATAATCATTTTTA
1 TATTTTATATTTTTTTAAAAAT-ATTTATA
10847118 -ATTTTTATATTTTTTT--AAAT-TTTAT-
1 TA-TTTTATATTTTTTTAAAAATATTTATA
* *
10847143 TA--TTATA---TTTTAAAATTATTTATT
1 TATTTTATATTTTTTTAAAAATATTTATA
10847167 TATTTTAATATTTTTTT
1 TATTTT-ATATTTTTTT
10847184 TGAATTTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 36
0.66 0.08 0.26
Matches are distributed among these distances:
20 4 0.04
22 3 0.03
23 10 0.11
24 2 0.02
25 7 0.08
26 10 0.11
27 14 0.15
28 7 0.08
29 9 0.10
30 25 0.27
31 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTATATTTTTTTAAAAATATTTATA
Found at i:10847124 original size:55 final size:53
Alignment explanation
Indices: 10847027--10847181 Score: 160
Period size: 55 Copynumber: 3.0 Consensus size: 53
10847017 TATAAAATTT
* *
10847027 AAATCTATTATTATATTTTTTTAAAAATATTTATATACTTTTATATATTTTTA
1 AAATTTATTATTATATTTTTTCAAAAATATTTATATACTTTTATATATTTTTA
* * * *
10847080 AAATTTATATATTATTATTTTTTCAATAATCATTTTTA-ATTTTTATATTTTTTTA
1 AAATTTAT-TATTA-TATTTTTTCAAAAAT-ATTTATATACTTTTATATATTTTTA
* * *
10847135 AATTTTATTATTATA--TTTT-AAAATTATTTATTTA-TTTTA-ATATTTTT
1 AAATTTATTATTATATTTTTTCAAAAATATTTATATACTTTTATATATTTTT
10847182 TTTGAATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
48 7 0.08
49 10 0.12
50 5 0.06
51 4 0.05
53 9 0.10
54 10 0.12
55 35 0.41
56 6 0.07
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (53 bp):
AAATTTATTATTATATTTTTTCAAAAATATTTATATACTTTTATATATTTTTA
Found at i:10847170 original size:19 final size:20
Alignment explanation
Indices: 10847125--10847174 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
10847115 TTAATTTTTA
*
10847125 TATTT-TTTT-AAATTTTAT
1 TATTTATTTTAAAATTATAT
10847143 TATTATATTTTAAAATTAT-T
1 TATT-TATTTTAAAATTATAT
10847163 TATTTATTTTAA
1 TATTTATTTTAA
10847175 TATTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.14
19 9 0.32
20 9 0.32
21 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTATTTTAAAATTATAT
Found at i:10847241 original size:51 final size:51
Alignment explanation
Indices: 10847186--10847296 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
10847176 ATTTTTTTTG
* * *
10847186 AATTTTTTAGAATTAGGA-TCAAATTGAGATCATTTGTAAATTTTGAGGGTT-
1 AATTTTTTAAAATTAGGACT-AAATTGAGATAATTTGTAAA-TTTAAGGGTTA
* *
10847237 AATTTTTTAAAATTATGACTAAATTGATATAATTTGTAAATTTAAGGGTTA
1 AATTTTTTAAAATTAGGACTAAATTGAGATAATTTGTAAATTTAAGGGTTA
10847288 AATTTTTTA
1 AATTTTTTA
10847297 TTATACCAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
50 9 0.17
51 43 0.81
52 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (51 bp):
AATTTTTTAAAATTAGGACTAAATTGAGATAATTTGTAAATTTAAGGGTTA
Found at i:10855263 original size:8 final size:8
Alignment explanation
Indices: 10855234--10855262 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10855224 CATCTTAAGA
10855234 TTAAAATT
1 TTAAAATT
10855242 TTAAAATT
1 TTAAAATT
10855250 TTAAAA-T
1 TTAAAATT
10855257 TTAAAA
1 TTAAAA
10855263 AGTATAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATT
Found at i:10858361 original size:16 final size:16
Alignment explanation
Indices: 10858340--10858375 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10858330 TTTGGTTCGC
10858340 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10858356 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10858372 TGTA
1 TGTA
10858376 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:10858440 original size:44 final size:45
Alignment explanation
Indices: 10858356--10858446 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
10858346 GGATTAGAGG
* * *
10858356 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
10858401 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
10858445 TG
1 TG
10858447 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:10858628 original size:16 final size:16
Alignment explanation
Indices: 10858591--10858645 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
10858581 TTAATCATAT
*
10858591 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
10858607 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
10858622 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
10858640 -TAAAAT
1 TTAAAAT
10858646 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:10858638 original size:18 final size:18
Alignment explanation
Indices: 10858597--10858645 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
10858587 ATATTTAAAC
10858597 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
10858615 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
10858631 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
10858646 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:10858782 original size:156 final size:156
Alignment explanation
Indices: 10858498--10858981 Score: 905
Period size: 156 Copynumber: 3.1 Consensus size: 156
10858488 TAGAATACCC
* *
10858498 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
10858563 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
10858628 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
10858654 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
10858719 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
10858784 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
10858810 TTAGCAGAAAATTGTGTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
10858875 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTTTTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
*
10858940 TATATAATTTAATAAAATTTTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
10858966 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
10858982 ATTGTTATTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 320 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:10858788 original size:18 final size:17
Alignment explanation
Indices: 10858767--10858801 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10858757 TTATTATTAA
*
10858767 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10858785 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10858802 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10858792 original size:137 final size:148
Alignment explanation
Indices: 10858535--10859099 Score: 751
Period size: 156 Copynumber: 3.8 Consensus size: 148
10858525 TTATTGTTAT
10858535 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
1 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
*
10858600 ATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAAA
66 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-ATTAG-AGAAAA
*
10858665 TTGTTTTGGTAAATGATTATTGTTAA
129 TTG-TAT-GTAAATGA-TA---TTAA
10858691 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
1 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
10858756 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAAA
66 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-ATTAG-AGAAAA
*
10858821 TTGTGTTGGTAAATGATTATTGTTAA
129 TTGT-AT-GTAAATGA-TA---TTAA
10858847 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
1 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
* *
10858912 ATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTATAATTAGCAG-AAA
66 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-ATTAG-AGAAAA
10858976 -T-T-TG----T--TA-T--
129 TTGTATGTAAATGATATTAA
* * *
10858984 TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATA
1 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
* * ****
10859049 ATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTA
66 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
10859100 ATAATTCATA
Statistics
Matches: 394, Mismatches: 14, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
137 105 0.27
139 1 0.00
143 2 0.01
146 1 0.00
150 1 0.00
151 1 0.00
153 1 0.00
154 1 0.00
155 4 0.01
156 277 0.70
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (148 bp):
TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATATTAGAGAAAATT
GTATGTAAATGATATTAA
Found at i:10858943 original size:16 final size:16
Alignment explanation
Indices: 10858903--10858957 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
10858893 TTAATCATAT
*
10858903 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
10858919 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
10858934 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
10858952 -TAAAAT
1 TTAAAAT
10858958 TTTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:10858950 original size:18 final size:17
Alignment explanation
Indices: 10858923--10858957 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10858913 TTTTTATTAA
*
10858923 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10858941 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10858958 TTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10859057 original size:67 final size:66
Alignment explanation
Indices: 10858849--10859061 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
10858839 ATTGTTAATG
*
10858849 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATCA-TAATAAATATTTTAATCATATTTAAACATAAT
*
10858914 TT
65 TA
* * * * ***
10858916 TTATTAAATATATTTTAATTAA-AATATATAAT-T--TAATAAA-ATTTTTATAATTAGCAGAAA
1 TTATT---TAAATTTTAA-TAAGATTAT-TAATATCATAATAAATATTTTAATCA-TA-TTTAAA
** * *
10858976 TTTGTTATTG
59 --CATAATTA
*
10858986 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATC-ATAATAAATATTTTAATCATATTTAAACATAAT
10859051 TA
65 TA
10859053 TTA-TTAAAT
1 TTATTTAAAT
10859062 ACATTATAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 31
0.66 0.15 0.19
Matches are distributed among these distances:
66 21 0.20
67 35 0.33
68 3 0.03
69 3 0.03
70 32 0.30
71 13 0.12
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (66 bp):
TTATTTAAATTTTAATAAGATTATTAATATCATAATAAATATTTTAATCATATTTAAACATAATT
A
Found at i:10859139 original size:137 final size:135
Alignment explanation
Indices: 10858861--10859139 Score: 321
Period size: 137 Copynumber: 2.0 Consensus size: 135
10858851 ATTTAAATTT
* * * *
10858861 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTTTTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * * *
10858926 TATTTTAATTAAAATATATAATTTAATAAAATTTTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTA-CA-AAATTTCTTATTGTTACT
* **
10858991 TAAATTT
129 CAAATCA
10858998 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
**** *
10859063 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATT-TTAATAATTACAAAATTTCTTAT-TG---TT
10859125 ACTCAAATCA
126 ACTCAAATCA
10859135 TAATA
1 TAATA
10859140 TATGATACTA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 101 0.84
138 8 0.07
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:10860645 original size:31 final size:31
Alignment explanation
Indices: 10860607--10860668 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10860597 AGTTTATAAT
10860607 ATTATATCGGTAGTTCAATACTAAATTTAAA
1 ATTATATCGGTAGTTCAATACTAAATTTAAA
10860638 ATTATATCGGTAGTTCAATACTAAATTTAAA
1 ATTATATCGGTAGTTCAATACTAAATTTAAA
10860669 TCGGTAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (31 bp):
ATTATATCGGTAGTTCAATACTAAATTTAAA
Found at i:10860728 original size:10 final size:10
Alignment explanation
Indices: 10860713--10860738 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10860703 TTATAATTCA
10860713 ATAAAGTTTC
1 ATAAAGTTTC
10860723 ATAAAGTTTC
1 ATAAAGTTTC
10860733 ATAAAG
1 ATAAAG
10860739 ACCACCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (10 bp):
ATAAAGTTTC
Found at i:10862530 original size:51 final size:51
Alignment explanation
Indices: 10862454--10862607 Score: 292
Period size: 51 Copynumber: 3.0 Consensus size: 51
10862444 CTAAAATTAC
10862454 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
10862505 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
10862556 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
10862607 T
1 T
10862608 CTTTTAATTT
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
51 101 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:10862660 original size:24 final size:24
Alignment explanation
Indices: 10862633--10862710 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
10862623 ATATTTTAAA
10862633 AATATATGATAATTTTTATTAATT
1 AATATATGATAATTTTTATTAATT
** * * *
10862657 AATATAAAAATATAATTCT-TTAA-A
1 AATAT-ATGATA-ATTTTTATTAATT
10862681 AATATATGATAATTTTTATTAATT
1 AATATATGATAATTTTTATTAATT
10862705 AATATA
1 AATATA
10862711 AAAATATAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
22 4 0.10
23 8 0.20
24 16 0.40
25 8 0.20
26 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (24 bp):
AATATATGATAATTTTTATTAATT
Found at i:10862671 original size:27 final size:27
Alignment explanation
Indices: 10862641--10862721 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
10862631 AAAATATATG
10862641 ATAATTTTTATTAATTAATATAAAAAT
1 ATAATTTTTATTAATTAATATAAAAAT
10862668 ATAATTCTTTA--AA--AATAT----AT
1 ATAATT-TTTATTAATTAATATAAAAAT
10862688 GATAATTTTTATTAATTAATATAAAAAT
1 -ATAATTTTTATTAATTAATATAAAAAT
10862716 ATAATT
1 ATAATT
10862722 CTCTCCACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 20
0.69 0.00 0.31
Matches are distributed among these distances:
20 6 0.14
21 6 0.14
22 2 0.05
24 10 0.23
26 2 0.05
27 12 0.27
28 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATAATTTTTATTAATTAATATAAAAAT
Found at i:10862679 original size:48 final size:48
Alignment explanation
Indices: 10862627--10862723 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
10862617 TTACGTATAT
10862627 TTTAAAAATATATGATAATTTTTATTAATTAATATAAAAATATAATTC
1 TTTAAAAATATATGATAATTTTTATTAATTAATATAAAAATATAATTC
10862675 TTTAAAAATATATGATAATTTTTATTAATTAATATAAAAATATAATTC
1 TTTAAAAATATATGATAATTTTTATTAATTAATATAAAAATATAATTC
10862723 T
1 T
10862724 CTCCACATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (48 bp):
TTTAAAAATATATGATAATTTTTATTAATTAATATAAAAATATAATTC
Found at i:10868202 original size:18 final size:17
Alignment explanation
Indices: 10868167--10868202 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
10868157 CAATTTGGGT
*
10868167 CATGTGGGCCATACGGG
1 CATGTGGGCCACACGGG
10868184 CATGTGGGCCCACACGGG
1 CATGTGGG-CCACACGGG
10868202 C
1 C
10868203 GAACACCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.31, G:0.39, T:0.14
Consensus pattern (17 bp):
CATGTGGGCCACACGGG
Found at i:10869102 original size:18 final size:18
Alignment explanation
Indices: 10869079--10869113 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10869069 ATAAGAAAAT
10869079 GATTTG-AAATTGAATAAC
1 GATTTGTAAA-TGAATAAC
10869097 GATTTGTAAATGAATAA
1 GATTTGTAAATGAATAA
10869114 TATTTTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (18 bp):
GATTTGTAAATGAATAAC
Found at i:10871117 original size:507 final size:507
Alignment explanation
Indices: 10870191--10872172 Score: 3493
Period size: 507 Copynumber: 3.9 Consensus size: 507
10870181 ATATCCAATA
*
10870191 AGGATATGGAGGTAGTCATTATCGGAGAACATCGAAACTACTTATCTAATGTGATCTCTGCACTG
1 AGGATATGGAGGTAGTCATGATCGGAGAACATCGAAACTACTTATCTAATGTGATCTCTGCACTG
*
10870256 GTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATTCTTGGCATATGTAAGTGTTTCGGATTC
66 GTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCGGATTC
* * *
10870321 TAGGGACTCTATAGTTAAGGATATCAGAACAAAAAAGGATGTTCCAGACATTTTTCCTGATGAGC
131 TAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGGATGTTCCAGACATTTTTCCTGATGAGC
*
10870386 TATCGGGTTTACCTCCGAATCGTGAAGCGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCG
196 TATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCG
10870451 GTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCTTGTGGAGTTTAAAGCTCAGATTCAAGA
261 GTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCTTGTGGAGTTTAAAGCTCAGATTCAAGA
* *
10870516 GCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGAGGAGCACCAGTTCTATTTGTAA
326 GCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAA
10870581 AGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATTAAG
391 AGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATTAAG
10870646 AATAAGTAATGAAATCTTTCTGCCTTGGTCGAAAAGGCGAAAATCACCGAGG
456 AATAAGTAATGAAATCTTTCTGCCTTGGTCGAAAAGGCGAAAATCACCGAGG
10870698 AGGATATGGAGGTAGTCATGATCGGAGAACATCGAAACTACTTATCTAATGTGATCTCTGCACTG
1 AGGATATGGAGGTAGTCATGATCGGAGAACATCGAAACTACTTATCTAATGTGATCTCTGCACTG
* *
10870763 GTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGCCATTCTTGGCCTATATAAGTGTTTCGGATTC
66 GTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCGGATTC
* *
10870828 TAGGGACTCTACAGTTAAGGATATCAGAACAGAAAATGATGTTCCAGACATTTTTCCTGATGAGC
131 TAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGGATGTTCCAGACATTTTTCCTGATGAGC
*
10870893 TATCGGGTTTACCTCCAAATCGTGAAGTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCG
196 TATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCG
*
10870958 GTGTCCATCGCTTCCTATAGAATTGCACCGAAGGAGCTTGTGGAGTTTAAAGCTCAGATTCAAGA
261 GTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCTTGTGGAGTTTAAAGCTCAGATTCAAGA
10871023 GCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAA
326 GCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAA
10871088 AGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATTAAG
391 AGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATTAAG
* *
10871153 AATAAGTAATGAAATCTTTATGCCTTGGTCGAAAAGGCAAAAATCACCGAGG
456 AATAAGTAATGAAATCTTTCTGCCTTGGTCGAAAAGGCGAAAATCACCGAGG
10871205 AGGATATGGAGGTAGTCATGATCGGAGAACATCGAAACTACTTATCTAATGTGATCTCTGCACTG
1 AGGATATGGAGGTAGTCATGATCGGAGAACATCGAAACTACTTATCTAATGTGATCTCTGCACTG
10871270 GTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCGGATTC
66 GTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCGGATTC
10871335 TAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGGATGTTCCAGACATTTTTCCTGATGAGC
131 TAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGGATGTTCCAGACATTTTTCCTGATGAGC
10871400 TATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCG
196 TATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCG
10871465 GTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCTTGTGGAGTTTAAAGCTCAGATTCAAGA
261 GTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCTTGTGGAGTTTAAAGCTCAGATTCAAGA
10871530 GCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAA
326 GCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAA
10871595 AGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATTAAG
391 AGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATTAAG
* * *
10871660 AACAAGTAATGAAATCTTTCTGCCTTGGTCGAAATGGCGAAAATCACTGAGG
456 AATAAGTAATGAAATCTTTCTGCCTTGGTCGAAAAGGCGAAAATCACCGAGG
* * *
10871712 AGGATATGGAGGTAGTCATGATCGGAGAACTTC-AGAACTACTTATCTAATGTGATCTCTACATT
1 AGGATATGGAGGTAGTCATGATCGGAGAACATCGA-AACTACTTATCTAATGTGATCTCTGCACT
** *
10871776 GGTGGCGGAGAAGTTAATTCATAAGGGATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCGGATT
65 GGTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCGGATT
* * * * * *
10871841 CTAGGGACTCTACAGTTAAGGATATCAAAACGGTAAATGATGTTCC-GAACGTCTTTCCTAATGA
130 CTAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGGATGTTCCAG-ACATTTTTCCTGATGA
* * *
10871905 GCTATCGGGTTTACCTCTGAATCGTGAAGTGGAGTTTGGGATAGAGCTCTTTCCTAGTACAGCTC
194 GCTATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTC
* * * *
10871970 CGGTGTCCATCACTCCCTATAGAATGGCACCGAAGGAGCTTGAGGAGCTT-AAGACTCAGATTCA
259 CGGTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCTTGTGGAGTTTAAAG-CTCAGATTCA
* * * *
10872034 AGAGCTTTTAGATCGTGGGTTCATCTGCCCTAGTGTGTCTCCGTGGGAAGCACCGGTTCTGTTTG
323 AGAGCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTG
* * * * *
10872099 TAAAGAAAAAAGATGGATCCATGCGTATGTGCATCAACTACAGGCAGCTAAATAAATTAACCATT
388 TAAAGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATT
10872164 AAGAATAAG
453 AAGAATAAG
10872173 GGCCCCTACC
Statistics
Matches: 1418, Mismatches: 54, Indels: 6
0.96 0.04 0.00
Matches are distributed among these distances:
506 5 0.00
507 1413 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (507 bp):
AGGATATGGAGGTAGTCATGATCGGAGAACATCGAAACTACTTATCTAATGTGATCTCTGCACTG
GTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCGGATTC
TAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGGATGTTCCAGACATTTTTCCTGATGAGC
TATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCG
GTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCTTGTGGAGTTTAAAGCTCAGATTCAAGA
GCTTTTAGATCGTGGGTTCATCTACCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAA
AGAAAAAGGATGGATACATGCGTATGTGCATCGACTACAAGCAGCTGAATAAATTAACCATTAAG
AATAAGTAATGAAATCTTTCTGCCTTGGTCGAAAAGGCGAAAATCACCGAGG
Found at i:10873643 original size:19 final size:20
Alignment explanation
Indices: 10873619--10873664 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
10873609 CATCCAAACA
10873619 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
10873638 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
10873658 CCAGAAA
1 CCAGAAA
10873665 TTATTTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:10874630 original size:16 final size:14
Alignment explanation
Indices: 10874595--10874628 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10874585 CTTTTCTATG
*
10874595 TTTTTAATTAATGT
1 TTTTTAATTAATAT
10874609 TTTTTAATTAATAT
1 TTTTTAATTAATAT
10874623 ATTTTT
1 -TTTTT
10874629 TATTTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTTTAATTAATAT
Found at i:10877554 original size:47 final size:48
Alignment explanation
Indices: 10877454--10877587 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 48
10877444 AGGCTAATTG
* * *
10877454 TTGTGTAGGTTTAA-CTTAACAGGTGACCAGGCACTATTATTCATTAT
1 TTGTGTAGGTTTAACCCTAACAGGTAACCAGACACTATTATTCATTAT
* * *
10877501 TCGTGTAGGTTTAACCCTGACAGGTAACCAAACACTATTATTCATT-T
1 TTGTGTAGGTTTAACCCTAACAGGTAACCAGACACTATTATTCATTAT
* **
10877548 TTGTGTAGGTTTAACCCAAATGGGTAACCAGACACTATTA
1 TTGTGTAGGTTTAACCCTAACAGGTAACCAGACACTATTA
10877588 CTTTCACCTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 48 0.65
48 26 0.35
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (48 bp):
TTGTGTAGGTTTAACCCTAACAGGTAACCAGACACTATTATTCATTAT
Found at i:10879506 original size:16 final size:16
Alignment explanation
Indices: 10879485--10879515 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10879475 GGATCTATAG
10879485 GAAGAAGAGAAATGTA
1 GAAGAAGAGAAATGTA
10879501 GAAGAAGAGAAATGT
1 GAAGAAGAGAAATGT
10879516 GAAAGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.32, T:0.13
Consensus pattern (16 bp):
GAAGAAGAGAAATGTA
Found at i:10884792 original size:54 final size:55
Alignment explanation
Indices: 10884679--10885072 Score: 238
Period size: 54 Copynumber: 7.4 Consensus size: 55
10884669 TGCTAATTAC
* * * *
10884679 AAGATTTTTCT-AGTCTTG-TGACTTGTCGA-TTAAGATTGCAA-CCTTATACTTAT
1 AAGATTTTTCTGAATCTTGCAG-CTTGTCGATTTAAGATCG-AAGCCTTATACTTAA
** * * *
10884732 TGGATTTTTC-GAATCTTGCAGTTTGTCGATTTAAGATCGTAA-TCTTATGCTTAA
1 AAGATTTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCG-AAGCCTTATACTTAA
*
10884786 AAGA-TTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCGAAGCCTTATACTTAC
1 AAGATTTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCGAAGCCTTATACTTAA
* * * * * * * * * * *
10884840 AAGATTTTT-TGTATCTTACGGCTCGCCAATTTAATATTGTAGCCTTATACTCAT
1 AAGATTTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCGAAGCCTTATACTTAA
* * * *
10884894 AAGATTTTTC-GAATCTTGCAGC-TCTCTGATTTAAGATTGCAGCCTTATACTTAC
1 AAGATTTTTCTGAATCTTGCAGCTTGTC-GATTTAAGATCGAAGCCTTATACTTAA
* * * * *
10884948 AAGA-TTTTCTGAATCTTG-TGGTT-T-G---CAATATCGTAA-CCTTATACTTAC
1 AAGATTTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCG-AAGCCTTATACTTAA
* * * * *
10884996 AAGATTTTTC-GTATCTTG-TGACTTTTCGATTTAAGATC-ACAACCTTATACTTAC
1 AAGATTTTTCTGAATCTTGCAG-CTTGTCGATTTAAGATCGA-AGCCTTATACTTAA
* *
10885050 AAGA-TTCTCAGAATCTTGCAGCT
1 AAGATTTTTCTGAATCTTGCAGCT
10885073 CGTTGATGTA
Statistics
Matches: 268, Mismatches: 51, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
48 30 0.11
49 8 0.03
50 1 0.00
51 2 0.01
52 1 0.00
53 41 0.15
54 180 0.67
55 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (55 bp):
AAGATTTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCGAAGCCTTATACTTAA
Found at i:10884872 original size:108 final size:108
Alignment explanation
Indices: 10884760--10885066 Score: 276
Period size: 108 Copynumber: 2.9 Consensus size: 108
10884750 CAGTTTGTCG
* * * *
10884760 ATTTAAGATCGTAATCTTATGCTTAAAAGA-TTTTCTGAATCTTGCAGCT-TGTCGATTTAAGAT
1 ATTTAAGATCGTAACCTTATACTCAAAAGATTTTTC-GAATCTTGCAGCTCTCT-GATTTAAGAT
* *
10884823 CGAAGCCTTATACTTACAAGATTTTTTGTATCTTACGGCTCGCCA
64 CGAAGCCTTATACTTACAAGATTTTCTGAATCTTACGGCTCGCCA
* * * * *
10884868 ATTTAATATTGTAGCCTTATACTCATAAGATTTTTCGAATCTTGCAGCTCTCTGATTTAAGATTG
1 ATTTAAGATCGTAACCTTATACTCAAAAGATTTTTCGAATCTTGCAGCTCTCTGATTTAAGATCG
* ** * *
10884933 CAGCCTTATACTTACAAGATTTTCTGAATCTTGTGGTTTG-CA
66 AAGCCTTATACTTACAAGATTTTCTGAATCTTACGGCTCGCCA
* * * * *
10884975 A--T---ATCGTAACCTTATACTTACAAGATTTTTCGTATCTTG-TGACT-TTTCGATTTAAGAT
1 ATTTAAGATCGTAACCTTATACTCAAAAGATTTTTCGAATCTTGCAG-CTCTCT-GATTTAAGAT
* * *
10885033 C-ACAACCTTATACTTACAAGATTCTCAGAATCTT
64 CGA-AGCCTTATACTTACAAGATTTTCTGAATCTT
10885067 GCAGCTCGTT
Statistics
Matches: 166, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
101 3 0.02
102 72 0.43
105 1 0.01
107 3 0.02
108 80 0.48
109 7 0.04
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (108 bp):
ATTTAAGATCGTAACCTTATACTCAAAAGATTTTTCGAATCTTGCAGCTCTCTGATTTAAGATCG
AAGCCTTATACTTACAAGATTTTCTGAATCTTACGGCTCGCCA
Found at i:10885397 original size:23 final size:23
Alignment explanation
Indices: 10885370--10885413 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10885360 GAAATTTCAT
10885370 TGTACAGCTCGCCGAATTTTTGA
1 TGTACAGCTCGCCGAATTTTTGA
**
10885393 TGTACAGCTCGCTTAATTTTT
1 TGTACAGCTCGCCGAATTTTT
10885414 CGATTTATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (23 bp):
TGTACAGCTCGCCGAATTTTTGA
Found at i:10886382 original size:52 final size:49
Alignment explanation
Indices: 10886319--10886464 Score: 125
Period size: 52 Copynumber: 2.8 Consensus size: 49
10886309 TTAAATCTAT
* **
10886319 TATAATATTTTTAAAAAAATATTTATGTAGTTTTATATATTTTTAAGTTTTA
1 TATATTATTTTTAA--AAATATTTATGTA-TTTTATATATTTTTAAAATTTA
* * *
10886371 TATATTATTTTTGTTAATAAT-TTTTTTTATTTTTATATGATTTTTAAAATTTA
1 TATATTA--TTT-TTAAAAATATTTATGTA-TTTTATAT-ATTTTTAAAATTTA
* *
10886424 T-TATTATATTTTAAAAAGATTTATGTATCTTATATATTTTT
1 TATATTAT-TTTTAAAAATATTTATGTATTTTATATATTTTT
10886465 TGAATTTTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
49 6 0.08
50 14 0.18
51 8 0.11
52 25 0.33
53 16 0.21
54 3 0.04
55 4 0.05
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (49 bp):
TATATTATTTTTAAAAATATTTATGTATTTTATATATTTTTAAAATTTA
Found at i:10886427 original size:21 final size:20
Alignment explanation
Indices: 10886399--10886440 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
10886389 AATTTTTTTT
*
10886399 ATTTTTA-TATGATTTTTAAA
1 ATTTTTATTAT-ATTTTAAAA
10886419 ATTTATTATTATATTTTAAAA
1 ATTT-TTATTATATTTTAAAA
10886440 A
1 A
10886441 GATTTATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTTATTATATTTTAAAA
Found at i:10891204 original size:11 final size:11
Alignment explanation
Indices: 10891197--10891238 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
10891187 GAAAAAAAAC
*
10891197 CAAGAAAATAA
1 CAAGAAAACAA
10891208 CAAGAAAACAA
1 CAAGAAAACAA
* *
10891219 TAATAAAA-AA
1 CAAGAAAACAA
10891229 CAAGAAAACA
1 CAAGAAAACA
10891239 GTAGAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.74, C:0.12, G:0.07, T:0.07
Consensus pattern (11 bp):
CAAGAAAACAA
Found at i:10891248 original size:20 final size:21
Alignment explanation
Indices: 10891198--10891251 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
10891188 AAAAAAAACC
10891198 AAGAAAATAACAAGAAAACAAT
1 AAGAAAA-AACAAGAAAACAAT
* *
10891220 AATAAAAAACAAGAAAACAGT
1 AAGAAAAAACAAGAAAACAAT
10891241 -AGAAAAAACAA
1 AAGAAAAAACAA
10891252 ATTTTTTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.34
21 13 0.45
22 6 0.21
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.07
Consensus pattern (21 bp):
AAGAAAAAACAAGAAAACAAT
Found at i:10901884 original size:23 final size:23
Alignment explanation
Indices: 10901850--10902064 Score: 195
Period size: 23 Copynumber: 9.3 Consensus size: 23
10901840 TTAAGCATCA
*
10901850 AAATTGGACAGCATATATGTAAC
1 AAATTGGACAGCATTTATGTAAC
* * *
10901873 AAATT-GAGCAGCATTTAAGCATC
1 AAATTGGA-CAGCATTTATGTAAC
10901896 AAAATTGGACAGCA-TTATGTAAC
1 -AAATTGGACAGCATTTATGTAAC
* * * *
10901919 AAATTGGGCAGCTTTTATGCATC
1 AAATTGGACAGCATTTATGTAAC
*
10901942 AAAATTGGACATCA-TTATGTAAC
1 -AAATTGGACAGCATTTATGTAAC
* * * *
10901965 AAATTGGGCAGCTTTTATGCATC
1 AAATTGGACAGCATTTATGTAAC
10901988 AAAATTGGACAGCA-TTATGTAAC
1 -AAATTGGACAGCATTTATGTAAC
* * *
10902011 AAATTGGGCAGCATTTATGCATC
1 AAATTGGACAGCATTTATGTAAC
* *
10902034 AAAATTGGACAGCATATATGTAAT
1 -AAATTGGACAGCATTTATGTAAC
10902058 AAATTGG
1 AAATTGG
10902065 TTCAACTCAT
Statistics
Matches: 150, Mismatches: 33, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
22 35 0.23
23 64 0.43
24 49 0.33
25 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (23 bp):
AAATTGGACAGCATTTATGTAAC
Found at i:10901941 original size:46 final size:46
Alignment explanation
Indices: 10901829--10902064 Score: 391
Period size: 46 Copynumber: 5.1 Consensus size: 46
10901819 ATAAAACAGT
*
10901829 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCAT-TATGTAACAAA
* *
10901876 TTGAGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAA
* *
10901922 TTGGGCAGCTTTTATGCATCAAAATTGGACATCATTATGTAACAAA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAA
*
10901968 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATTATGTAACAAA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAA
*
10902014 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCAT-TATGTAACAAA
10902061 TTGG
1 TTGG
10902065 TTCAACTCAT
Statistics
Matches: 180, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 132 0.73
47 48 0.27
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (46 bp):
TTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAA
Found at i:10903018 original size:43 final size:43
Alignment explanation
Indices: 10902909--10903038 Score: 151
Period size: 43 Copynumber: 3.0 Consensus size: 43
10902899 AAATCGTACA
* *
10902909 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
** *
10902952 ATGCC-ACTGTAGCAGATAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAACACATA-TCG
10902995 ATGCCAACGTCCCAGACGTGGTCTTACACG-ATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-AACACATATCG
10903038 A
1 A
10903039 AAATCCTATG
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
42 5 0.07
43 63 0.88
44 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:10909394 original size:28 final size:28
Alignment explanation
Indices: 10909357--10909417 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
10909347 GAATTTAGAA
*
10909357 GAATGGCGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
10909385 GAATGACGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
10909413 GAATG
1 GAATG
10909418 TTATTTTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.41
Consensus pattern (28 bp):
GAATGACGTTGAATGCTATTTTGAATTT
Found at i:10915582 original size:9 final size:9
Alignment explanation
Indices: 10915564--10915618 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
10915554 TTGGGTAATT
10915564 TTCGGGTAA
1 TTCGGGTAA
*
10915573 TTCGGTTAA
1 TTCGGGTAA
*
10915582 TTCGGTTAA
1 TTCGGGTAA
*
10915591 TTCGGTTAA
1 TTCGGGTAA
10915600 -TCGGGTAA
1 TTCGGGTAA
10915608 TTCGGGTAA
1 TTCGGGTAA
10915617 TT
1 TT
10915619 TTTAACTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
8 7 0.16
9 36 0.84
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:10915591 original size:18 final size:18
Alignment explanation
Indices: 10915564--10915618 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
10915554 TTGGGTAATT
10915564 TTCGGGTAATTCGGTTAA
1 TTCGGGTAATTCGGTTAA
*
10915582 TTCGGTTAATTCGGTTAA
1 TTCGGGTAATTCGGTTAA
*
10915600 -TCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGTTAA
10915617 TT
1 TT
10915619 TTTAACTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 15 0.45
18 18 0.55
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (18 bp):
TTCGGGTAATTCGGTTAA
Found at i:10917778 original size:20 final size:18
Alignment explanation
Indices: 10917731--10917787 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
10917721 GACGACAAGG
*
10917731 ATGAGAAATGGATATGAT
1 ATGAGAAATGGATATGAA
*
10917749 ATGGGAAATGGAATATGAA
1 ATGAGAAATGG-ATATGAA
10917768 ATGATGAAATGGGATATGAA
1 ATGA-GAAAT-GGATATGAA
10917788 TATTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 12 0.36
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGGATATGAA
Found at i:10917779 original size:27 final size:27
Alignment explanation
Indices: 10917744--10917798 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
10917734 AGAAATGGAT
*
10917744 ATGATATGGGAAATGGAATA-TGAAATG
1 ATGAAATGGGAAAT-GAATATTGAAATG
*
10917771 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
10917798 A
1 A
10917799 ATTCATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:10917796 original size:19 final size:20
Alignment explanation
Indices: 10917735--10917797 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 20
10917725 ACAAGGATGA
*
10917735 GAAAT-GGATATG-ATATGG
1 GAAATGGGATATGAATATGT
*
10917753 GAAATGGAATATGAA-ATGAT
1 GAAATGGGATATGAATATG-T
10917773 GAAATGGGATATGAATAT-T
1 GAAATGGGATATGAATATGT
10917792 GAAATG
1 GAAATG
10917798 AATTCATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 15 0.39
21 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (20 bp):
GAAATGGGATATGAATATGT
Found at i:10931429 original size:3 final size:3
Alignment explanation
Indices: 10931423--10931483 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
10931413 AGCTGCAATT
* * *
10931423 GCA GCA GCA GCA GCA GCA GCA GCA G-A TGCA GCC CCA GTTA -CA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA -GCA GCA GCA G-CA GCA GCA
*
10931468 GCA GCA ACA GCA GCA G
1 GCA GCA GCA GCA GCA G
10931484 AATCCACAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.33, C:0.33, G:0.30, T:0.05
Consensus pattern (3 bp):
GCA
Found at i:10931559 original size:30 final size:30
Alignment explanation
Indices: 10931523--10931589 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
10931513 GCACTTGCAG
* *
10931523 CAGCAGCAGCAACTTCCTCAGCTACAACAA
1 CAGCAGCAGCAACTACCACAGCTACAACAA
* * *
10931553 CAGCAGCAGCAGCTACCACAGCTGCAACAG
1 CAGCAGCAGCAACTACCACAGCTACAACAA
10931583 CAGCAGC
1 CAGCAGC
10931590 TTTCCCAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.37, G:0.19, T:0.09
Consensus pattern (30 bp):
CAGCAGCAGCAACTACCACAGCTACAACAA
Found at i:10931580 original size:27 final size:27
Alignment explanation
Indices: 10931475--10931589 Score: 94
Period size: 27 Copynumber: 4.3 Consensus size: 27
10931465 GCAGCAGCAA
**
10931475 CAGCAGCAGAATCCACAGCTGCAACA-
1 CAGCAGCAGCTTCCACAGCTGCAACAG
* *
10931501 -A-CAGCAGCTTCCGCA-CTTGCAGCAG
1 CAGCAGCAGCTTCCACAGC-TGCAACAG
* * *
10931526 CAGCAGCAACTTCCTCAGCTACAACAACAG
1 CAGCAGCAGCTTCCACAGCT---GCAACAG
*
10931556 CAGCAGCAGCTACCACAGCTGCAACAG
1 CAGCAGCAGCTTCCACAGCTGCAACAG
10931583 CAGCAGC
1 CAGCAGC
10931590 TTTCCCAGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
23 1 0.01
24 17 0.25
25 1 0.01
26 1 0.01
27 26 0.38
28 1 0.01
30 22 0.32
ACGTcount: A:0.33, C:0.37, G:0.20, T:0.10
Consensus pattern (27 bp):
CAGCAGCAGCTTCCACAGCTGCAACAG
Found at i:10931588 original size:24 final size:24
Alignment explanation
Indices: 10931556--10931608 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10931546 ACAACAACAG
10931556 CAGCAGCAGC-TACCACAGCTGCAA
1 CAGCAGCAGCTTACC-CAGCTGCAA
* *
10931580 CAGCAGCAGCTTTCCCAGCTGCAG
1 CAGCAGCAGCTTACCCAGCTGCAA
10931604 CAGCA
1 CAGCA
10931609 ACAACAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.28, C:0.38, G:0.23, T:0.11
Consensus pattern (24 bp):
CAGCAGCAGCTTACCCAGCTGCAA
Found at i:10931606 original size:3 final size:3
Alignment explanation
Indices: 10931595--10931638 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
10931585 GCAGCTTTCC
* * * *
10931595 CAG CTG CAG CAG CAA CAA CAA CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
10931639 ACTGCAGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.39, C:0.34, G:0.25, T:0.02
Consensus pattern (3 bp):
CAG
Found at i:10931629 original size:21 final size:21
Alignment explanation
Indices: 10931541--10931629 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
10931531 GCAACTTCCT
*
10931541 CAGCTACAACAACAGCAGCAG
1 CAGCAACAACAACAGCAGCAG
* * * * *
10931562 CAGCTACCACAGCTGCAACAG
1 CAGCAACAACAACAGCAGCAG
* ** * *
10931583 CAGCAGCTTTC-CCAGCTGCAG
1 CAGCAAC-AACAACAGCAGCAG
10931604 CAGCAACAACAACAGCAGCAG
1 CAGCAACAACAACAGCAGCAG
10931625 CAGCA
1 CAGCA
10931630 GCAGCAGCAA
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
20 1 0.02
21 47 0.96
22 1 0.02
ACGTcount: A:0.36, C:0.36, G:0.20, T:0.08
Consensus pattern (21 bp):
CAGCAACAACAACAGCAGCAG
Found at i:10940464 original size:2 final size:2
Alignment explanation
Indices: 10940457--10940487 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10940447 TTTGTAAGCA
10940457 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10940488 TATATATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10942237 original size:21 final size:21
Alignment explanation
Indices: 10942187--10942238 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
10942177 AATAATAATG
*
10942187 TCGATTCAAACAACAAAAGAA
1 TCGATTCAAACAACAAAACAA
* *
10942208 TCGAGTCAATCAACAAAACAA
1 TCGATTCAAACAACAAAACAA
*
10942229 TCTATTCAAA
1 TCGATTCAAA
10942239 GTGGCTACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.21, G:0.08, T:0.19
Consensus pattern (21 bp):
TCGATTCAAACAACAAAACAA
Found at i:10942825 original size:15 final size:15
Alignment explanation
Indices: 10942773--10942830 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 15
10942763 CATCTTGGCC
10942773 AGCTCGCATTTTGATG
1 AGCTCGCATTTTG-TG
10942789 AGCTCGCATTTTGGTG
1 AGCTCGCATTTT-GTG
10942805 AGCTCGCACTTTTGT-
1 AGCTCGCA-TTTTGTG
10942820 AGCTCGC-TTTT
1 AGCTCGCATTTT
10942831 CATTCAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.10
15 7 0.17
16 24 0.60
17 5 0.12
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (15 bp):
AGCTCGCATTTTGTG
Found at i:10952642 original size:18 final size:18
Alignment explanation
Indices: 10952599--10952644 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
10952589 CAAAGTCACG
* *
10952599 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTAGC
10952617 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
10952635 ATCAATATCG
1 ATCAATATCG
10952645 ATATCATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:10953742 original size:24 final size:24
Alignment explanation
Indices: 10953696--10953766 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
10953686 ATCTATGTAG
10953696 ATTTTATATATTTTATTATAAAT-CAT
1 ATTTTATATA-TTTA-TA-AAATACAT
*
10953722 ATTTTATATATTTATACAAATATAT
1 ATTTTATATATTTATA-AAATACAT
10953747 ATTTTATAT-TTTATAAAATA
1 ATTTTATATATTTATAAAATA
10953767 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 5 0.12
24 12 0.29
25 15 0.36
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTATATATTTATAAAATACAT
Found at i:10953754 original size:23 final size:23
Alignment explanation
Indices: 10953696--10953766 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 23
10953686 ATCTATGTAG
10953696 ATTTTATATATTTTATTATAAATCAT
1 ATTTTATATATTTTA-TA-AAAT-AT
10953722 ATTTTATATA-TTTATACAAATAT
1 ATTTTATATATTTTATA-AAATAT
10953745 ATATTT-TATATTTTATAAAATA
1 AT-TTTATATATTTTATAAAATA
10953767 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 13 0.31
24 15 0.36
25 4 0.10
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTATATATTTTATAAAATAT
Found at i:10954209 original size:42 final size:41
Alignment explanation
Indices: 10954134--10954476 Score: 294
Period size: 42 Copynumber: 8.3 Consensus size: 41
10954124 TTTTAGAAAT
10954134 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCAA-ACCTTTAGCGGCGCTTTTC-CAC
*
10954177 AAACACCGCTAAAGACCAAACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAACCTTTAGCGGCGCTTTT-CCAC
*
10954219 AAACGCCGCTAAAGACGAAGACCTTTA-----GCTTTTACCAC
1 AAACGCCGCTAAAGACCAA-ACCTTTAGCGGCGCTTTT-CCAC
*
10954257 AAACGCCGCTAAAGACGAAGACCTTTA-----GCTTTTACCAC
1 AAACGCCGCTAAAGACCAA-ACCTTTAGCGGCGCTTTT-CCAC
* **
10954295 AAACGCCGCTAAAGACCATGACCTTTAGCGGCATTTTTCCTAC
1 AAACGCCGCTAAAGACCA-AACCTTTAGCGGCGCTTTTCC-AC
* * * * *
10954338 AAACGCCGCTATAGAATC-GACCTGTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTAAAG-ACCAAACCTTTAGCGGCGCTTTT-CCAC
* ** *
10954380 AAACGCCGCTATAGAATAGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGACCAAACCTTTAGCGGCGCTTTTC-CAC
* * * * * *
10954422 AAACGCCGATATAGAACAAACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGACCAAACCTTTAGCGGCGCTTTTC-CAC
*
10954464 AAACGCCACTAAA
1 AAACGCCGCTAAA
10954477 AACATAACAT
Statistics
Matches: 262, Mismatches: 25, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
38 73 0.28
41 2 0.01
42 138 0.53
43 47 0.18
44 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAGACCAAACCTTTAGCGGCGCTTTTCCAC
Found at i:10954259 original size:38 final size:38
Alignment explanation
Indices: 10954134--10954323 Score: 231
Period size: 38 Copynumber: 4.8 Consensus size: 38
10954124 TTTTAGAAAT
10954134 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CTCAC
1 AAACGCCGCTAAAGACCAAGACCTTTA-----GCTTTTAC-CAC
*
10954177 AAACACCGCTAAAGACCAA-ACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTA-----GCTTTTACCAC
*
10954219 AAACGCCGCTAAAGACGAAGACCTTTAGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCTTTTACCAC
*
10954257 AAACGCCGCTAAAGACGAAGACCTTTAGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCTTTTACCAC
*
10954295 AAACGCCGCTAAAGACCATGACCTTTAGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGC
10954324 GGCATTTTTC
Statistics
Matches: 140, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
38 76 0.54
42 38 0.27
43 26 0.19
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (38 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCTTTTACCAC
Found at i:10958840 original size:50 final size:50
Alignment explanation
Indices: 10958763--10959188 Score: 267
Period size: 50 Copynumber: 8.5 Consensus size: 50
10958753 TTTGGAAAGT
* * *
10958763 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAATC
1 AAGATTCGCTATTGTGGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
* *
10958813 ATGATTCGCTATTGTGGCTTTAATCTTTTGAACTACAATGTCGGGGAAGC
1 AAGATTCGCTATTGTGGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
* * * ** ** ** * * * *
10958863 ATGATTCACCGA-TGTGGCTTTAATCTGCTCCACTGC-ATCACCTGAGAGGT
1 AAGATTC-GCTATTGTGGCTTTAATCTTTTGAACTGCAAT-GTCGGGGAAGC
* * *
10958913 AAGATTCACTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGAGGAAGC
1 AAGATTCGCTATTGTGGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
* * ** * * *
10958963 AAGATTCACCGA-TGTGGCTTTAAT-TTGTTCCACTGC-ATCGCCTGGGGTA-T
1 AAGATTC-GCTATTGTGGCTTTAATCTT-TTGAACTGCAAT-GTC-GGGGAAGC
* * *
10959013 AAGATTCGTTGTTGTGGCTTTAATCTTTTGAACTGCAATGTCAGGGAAGC
1 AAGATTCGCTATTGTGGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
* * * * * ** * * * *
10959063 AAGATTCACCGA-TGTGTCTATAATCTGTTCCACTGC-ATCGCCTGGGAGGT
1 AAGATTC-GCTATTGTGGCTTTAATCTTTTGAACTGCAAT-GTCGGGGAAGC
* * * * * *
10959113 AAGATTCGCTGTTATAGCTTTAATATTTTGAATTGTAATGTCGGGGAAGC
1 AAGATTCGCTATTGTGGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
*
10959163 AAGATTCACTGA-TGTGGCTTTAATCT
1 AAGATTCGCT-ATTGTGGCTTTAATCT
10959189 GTTCCACTGC
Statistics
Matches: 272, Mismatches: 87, Indels: 34
0.69 0.22 0.09
Matches are distributed among these distances:
49 15 0.06
50 241 0.89
51 16 0.06
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (50 bp):
AAGATTCGCTATTGTGGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
Found at i:10958938 original size:100 final size:99
Alignment explanation
Indices: 10958815--10959218 Score: 567
Period size: 100 Copynumber: 4.0 Consensus size: 99
10958805 GGGGAATCAT
* * *
10958815 GATTCGCTATTGTGGCTTTAATCTTTTGAACTACAATGTCGGGGAAGCATGATTCACCGATGTGG
1 GATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGG
* *
10958880 CTTTAATCTGCTCCACTGCATCACCTGAGAGGTAA
66 CTTTAATCTGTTCCACTGCATCGCCTG-GAGGTAA
* *
10958915 GATTCACTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTGG
1 GATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGG
*
10958980 CTTTAATTTGTTCCACTGCATCGCCTGG-GGTATAA
66 CTTTAATCTGTTCCACTGCATCGCCTGGAGG--TAA
* * * * *
10959015 GATTCGTTGTTGTGGCTTTAATCTTTTGAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGT
1 GATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGG
*
10959080 CTATAATCTGTTCCACTGCATCGCCTGGGAGGTAA
66 CTTTAATCTGTTCCACTGCATCGCCT-GGAGGTAA
* * * * * *
10959115 GATTCGCTGTTATAGCTTTAATATTTTGAATTGTAATGTCGGGGAAGCAAGATTCACTGATGTGG
1 GATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGG
*
10959180 CTTTAATCTGTTCCACTGCATCGCCTGGGGGATAA
66 CTTTAATCTGTTCCACTGCATCGCCTGGAGG-TAA
10959215 GATT
1 GATT
10959219 TGCTTCTTCG
Statistics
Matches: 271, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
98 2 0.01
99 5 0.02
100 260 0.96
101 2 0.01
102 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (99 bp):
GATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGG
CTTTAATCTGTTCCACTGCATCGCCTGGAGGTAA
Found at i:10959114 original size:200 final size:200
Alignment explanation
Indices: 10958815--10959218 Score: 628
Period size: 200 Copynumber: 2.0 Consensus size: 200
10958805 GGGGAATCAT
* *
10958815 GATTCGCTATTGTGGCTTTAATCTTTTGAACTACAATGTCGGGGAAGCATGATTCACCGATGTGG
1 GATTCGCTATTGTGGCTTTAATCTTTTGAACTACAATGTCAGGGAAGCAAGATTCACCGATGTGG
* * *
10958880 CTTTAATCTGCTCCACTGCATCACCTGAGAGGTAAGATTCACTATTGTAGCTTTAATCTTTTGAA
66 CTATAATCTGCTCCACTGCATCACCTGAGAGGTAAGATTCACTATTATAGCTTTAATATTTTGAA
*
10958945 CTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATTTGTTCCACTGCATCGCCTGGGG
131 CTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGG
*
10959010 TATAA
196 GATAA
* * * *
10959015 GATTCGTTGTTGTGGCTTTAATCTTTTGAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGT
1 GATTCGCTATTGTGGCTTTAATCTTTTGAACTACAATGTCAGGGAAGCAAGATTCACCGATGTGG
* * * * *
10959080 CTATAATCTGTTCCACTGCATCGCCTGGGAGGTAAGATTCGCTGTTATAGCTTTAATATTTTGAA
66 CTATAATCTGCTCCACTGCATCACCTGAGAGGTAAGATTCACTATTATAGCTTTAATATTTTGAA
* * * *
10959145 TTGTAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGG
131 CTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGG
10959210 GATAA
196 GATAA
10959215 GATT
1 GATT
10959219 TGCTTCTTCG
Statistics
Matches: 184, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
200 184 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (200 bp):
GATTCGCTATTGTGGCTTTAATCTTTTGAACTACAATGTCAGGGAAGCAAGATTCACCGATGTGG
CTATAATCTGCTCCACTGCATCACCTGAGAGGTAAGATTCACTATTATAGCTTTAATATTTTGAA
CTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGG
GATAA
Found at i:10959402 original size:44 final size:44
Alignment explanation
Indices: 10959293--10959434 Score: 151
Period size: 44 Copynumber: 3.2 Consensus size: 44
10959283 TATCTTTAGA
* * *
10959293 GAGATATGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGG
1 GAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAATCTCAGG
* * **** **
10959337 GAAATAGGATTAC-CGGCTTTAATCTGCTCCGTTGTAATCTCAGG
1 GAGATAAGATT-CTTTATTTTAATCTGCTCCACTGTAATCTCAGG
* *
10959381 GAGATAAGATTCTTTATTTTAATCCGCTCTACTGTAATCTCAGG
1 GAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAATCTCAGG
10959425 GAGATAAGAT
1 GAGATAAGAT
10959435 CTGTGGCTTA
Statistics
Matches: 76, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
43 1 0.01
44 74 0.97
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (44 bp):
GAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAATCTCAGG
Found at i:10960769 original size:8 final size:7
Alignment explanation
Indices: 10960749--10960798 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
10960739 TTAGCCTCTC
10960749 CATTTTT
1 CATTTTT
10960756 -ACTTTTT
1 CA-TTTTT
10960763 CATTTTTT
1 CA-TTTTT
10960771 CATTTTT
1 CATTTTT
10960778 CA-TTTT
1 CATTTTT
10960784 CATTTTT
1 CATTTTT
10960791 CATCTTTT
1 CAT-TTTT
10960799 TTTTTTTGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 12 0.32
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:10960776 original size:15 final size:15
Alignment explanation
Indices: 10960749--10960799 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 15
10960739 TTAGCCTCTC
*
10960749 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
10960763 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
10960778 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
10960791 CATCTTTTT
1 CAT-TTTTT
10960800 TTTTTTGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 13 0.41
14 8 0.25
15 7 0.22
16 4 0.12
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.71
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:10971448 original size:14 final size:14
Alignment explanation
Indices: 10971395--10971454 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
10971385 ACTAATTAAT
*
10971395 CTAAACCCTAAACC
1 CTAAACCCTAAATC
* *
10971409 CT-AACCC-GACTC
1 CTAAACCCTAAATC
*
10971421 TTAAATCCCTAAATC
1 CTAAA-CCCTAAATC
10971436 CTAAACCCTAAATC
1 CTAAACCCTAAATC
10971450 TCTAA
1 -CTAA
10971455 CTCTTACCCC
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 14 0.40
15 11 0.31
ACGTcount: A:0.38, C:0.37, G:0.02, T:0.23
Consensus pattern (14 bp):
CTAAACCCTAAATC
Found at i:10971848 original size:7 final size:7
Alignment explanation
Indices: 10971838--10971898 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
10971828 CCCCAGCCTT
10971838 TAAACCA
1 TAAACCA
10971845 TAAACCA
1 TAAACCA
*
10971852 TAAACCG
1 TAAACCA
10971859 TAAACCA
1 TAAACCA
*
10971866 TAAATCA
1 TAAACCA
* *
10971873 TAACCCC
1 TAAACCA
10971880 TAAATCCA
1 TAAA-CCA
*
10971888 TAATCCA
1 TAAACCA
10971895 TAAA
1 TAAA
10971899 ACTTAAAATG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 38 0.88
8 5 0.12
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:10971862 original size:21 final size:21
Alignment explanation
Indices: 10971838--10971956 Score: 80
Period size: 21 Copynumber: 5.6 Consensus size: 21
10971828 CCCCAGCCTT
*
10971838 TAAACCATAAACCATAAACCG
1 TAAACCATAAACCATAAACCC
* *
10971859 TAAACCATAAATCATAACCCC
1 TAAACCATAAACCATAAACCC
* * *
10971880 TAAATCCATAATCCATAAAACT
1 TAAA-CCATAAACCATAAACCC
*** *
10971902 TAAAATGGTAACACC-TAAACCT
1 T-AAACCATAA-ACCATAAACCC
*
10971924 TAAACTC-TAAACCATATACCC
1 TAAAC-CATAAACCATAAACCC
*
10971945 TAAACCAAAAAC
1 TAAACCATAAAC
10971957 TCTAAATTAT
Statistics
Matches: 74, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.05
21 42 0.57
22 23 0.31
23 5 0.07
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCC
Found at i:10971935 original size:14 final size:14
Alignment explanation
Indices: 10971916--10971962 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
10971906 ATGGTAACAC
*
10971916 CTAAACCTTAAACT
1 CTAAACCATAAACT
* *
10971930 CTAAACCATATACC
1 CTAAACCATAAACT
*
10971944 CTAAACCAAAAACT
1 CTAAACCATAAACT
10971958 CTAAA
1 CTAAA
10971963 TTATAATGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACT
Found at i:10972286 original size:41 final size:40
Alignment explanation
Indices: 10972168--10972304 Score: 125
Period size: 41 Copynumber: 3.4 Consensus size: 40
10972158 TGCATTTTAC
* *
10972168 AAAACGCCGCTAAA-AATAGAGCATTAGCGGCGCTTT-ATAA
1 AAAACGCCGCTAAACCAT-GAGCATTAGCGGCGCTTTCCT-A
* * * ** *
10972208 AAAATGTCGCTAAAAGCCCTGAGCATTAGCGAAGCTTTCCTG
1 AAAACGCCGCT-AAA-CCATGAGCATTAGCGGCGCTTTCCTA
*
10972250 AAAACGCCGCTAAATCCATGAGCATTAGCGGCGCTTTCCCA
1 AAAACGCCGCTAAA-CCATGAGCATTAGCGGCGCTTTCCTA
*
10972291 AAAACGCCGATAAA
1 AAAACGCCGCTAAA
10972305 GCCCCGAAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
40 9 0.12
41 40 0.53
42 25 0.33
43 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAACCATGAGCATTAGCGGCGCTTTCCTA
Found at i:10972306 original size:82 final size:81
Alignment explanation
Indices: 10972137--10972308 Score: 188
Period size: 82 Copynumber: 2.1 Consensus size: 81
10972127 TAAATTATTT
* *
10972137 TAAATCCCTGAGCATTAGCGATGCATTTTACAAAACGCCGCTAAAAATAGAGCATTAGCGGCGCT
1 TAAAGCCCTGAGCATTAGCGAAGCATTTTACAAAACGCCGCTAAAAATAGAGCATTAGCGGCGCT
* * * *
10972202 TTATAAAAAATGTCGC
66 TTACAAAAAACGCCGA
* *
10972218 TAAAAGCCCTGAGCATTAGCGAAGC-TTTCCT-GAAAACGCCGCTAAATCCAT-GAGCATTAGCG
1 T-AAAGCCCTGAGCATTAGCGAAGCATTT--TACAAAACGCCGCTAAA--AATAGAGCATTAGCG
* *
10972280 GCGCTTTCCCAAAAACGCCGA
61 GCGCTTTACAAAAAACGCCGA
10972301 TAAAGCCC
1 TAAAGCCC
10972309 CGAAAACTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
81 4 0.05
82 42 0.55
83 28 0.37
84 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (81 bp):
TAAAGCCCTGAGCATTAGCGAAGCATTTTACAAAACGCCGCTAAAAATAGAGCATTAGCGGCGCT
TTACAAAAAACGCCGA
Found at i:10972412 original size:39 final size:39
Alignment explanation
Indices: 10972369--10972478 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 39
10972359 CTGGAAAACG
* * * *
10972369 CCGCTAATTCTTGTTTTTAGCGGCGTTTTTCATAAAGCA
1 CCGCTAATACTAGTCTTTAGCGGCGTTTTTCAAAAAGCA
* * * *
10972408 CCGCTAATACTCAGTCTTTAGCGGTGATTTCCAAAAAGCG
1 CCGCTAATACT-AGTCTTTAGCGGCGTTTTTCAAAAAGCA
* *
10972448 CCGTTAATGCTAGATCTTTAGCGGCGTTTTT
1 CCGCTAATACTAG-TCTTTAGCGGCGTTTTT
10972479 TATCCAAGCG
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 12 0.21
40 44 0.79
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (39 bp):
CCGCTAATACTAGTCTTTAGCGGCGTTTTTCAAAAAGCA
Found at i:10973042 original size:19 final size:20
Alignment explanation
Indices: 10973000--10973044 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10972990 TTTAGCCACC
*
10973000 AAAAAAAATATCGAAAATTA
1 AAAAAAAATATCGAAAACTA
10973020 AAAAAAAA-ATCGAAAACTGA
1 AAAAAAAATATCGAAAACT-A
10973040 AAAAA
1 AAAAA
10973045 GAAAAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAAAAAATATCGAAAACTA
Found at i:10973043 original size:21 final size:19
Alignment explanation
Indices: 10973000--10973050 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
10972990 TTTAGCCACC
* *
10973000 AAAAAAAATATCGAAAATT
1 AAAAAAAAAATCGAAAATA
10973019 AAAAAAAAAATCGAAAACTGA
1 AAAAAAAAAATCGAAAA-T-A
10973040 AAAAAGAAAAA
1 AAAAA-AAAAA
10973051 GTGGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 16 0.59
20 1 0.04
21 5 0.19
22 5 0.19
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.12
Consensus pattern (19 bp):
AAAAAAAAAATCGAAAATA
Found at i:10976385 original size:22 final size:20
Alignment explanation
Indices: 10976353--10976450 Score: 62
Period size: 22 Copynumber: 4.8 Consensus size: 20
10976343 TAAATTCTCT
10976353 AAAGC-ACCAAAGAAAATCG
1 AAAGCAACCAAAGAAAATCG
*
10976372 AAAGCAAACTCAAAGAAAA-AG
1 AAAGC-AAC-CAAAGAAAATCG
* ** *
10976393 -AAGCAACGAATA-AATTCTCT
1 AAAGCAACCAA-AGAA-AATCG
10976413 AAAGC-ACCAAAGAAAATCG
1 AAAGCAACCAAAGAAAATCG
10976432 AAAGCAAACTCAAAGAAAA
1 AAAGC-AAC-CAAAGAAAA
10976451 AGAAGCAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
18 4 0.07
19 17 0.29
20 10 0.17
21 9 0.16
22 18 0.31
ACGTcount: A:0.59, C:0.18, G:0.13, T:0.09
Consensus pattern (20 bp):
AAAGCAACCAAAGAAAATCG
Found at i:10976435 original size:60 final size:60
Alignment explanation
Indices: 10976342--10976458 Score: 234
Period size: 60 Copynumber: 1.9 Consensus size: 60
10976332 GAATTCTTTC
10976342 ATAAATTCTCTAAAGCACCAAAGAAAATCGAAAGCAAACTCAAAGAAAAAGAAGCAACGA
1 ATAAATTCTCTAAAGCACCAAAGAAAATCGAAAGCAAACTCAAAGAAAAAGAAGCAACGA
10976402 ATAAATTCTCTAAAGCACCAAAGAAAATCGAAAGCAAACTCAAAGAAAAAGAAGCAA
1 ATAAATTCTCTAAAGCACCAAAGAAAATCGAAAGCAAACTCAAAGAAAAAGAAGCAA
10976459 TGAAAAACAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.57, C:0.18, G:0.13, T:0.12
Consensus pattern (60 bp):
ATAAATTCTCTAAAGCACCAAAGAAAATCGAAAGCAAACTCAAAGAAAAAGAAGCAACGA
Found at i:10978979 original size:26 final size:25
Alignment explanation
Indices: 10978949--10978997 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
10978939 ATGAATTTTC
10978949 TCAAAATTTTA-TTGGGGATAAAATTG
1 TCAAAATTTTACTT--GGATAAAATTG
10978975 TCAAAATTTTACTTGGATAAAAT
1 TCAAAATTTTACTTGGATAAAAT
10978998 CGGGGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 11 0.50
27 2 0.09
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (25 bp):
TCAAAATTTTACTTGGATAAAATTG
Found at i:10982303 original size:18 final size:18
Alignment explanation
Indices: 10982280--10982331 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
10982270 ATGGCAAAGT
*
10982280 TGAGAAATGAATATGAGA
1 TGAGAAATGAATATGAAA
10982298 TGAGAAATGAAATATGAAA
1 TGAGAAATG-AATATGAAA
10982317 TGATGAAATG-ATATG
1 TGA-GAAATGAATATG
10982332 TGAATCTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 14 0.45
19 11 0.35
20 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (18 bp):
TGAGAAATGAATATGAAA
Found at i:10982313 original size:19 final size:19
Alignment explanation
Indices: 10982280--10982327 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
10982270 ATGGCAAAGT
*
10982280 TGAGAAATG-AATATGAGA
1 TGAGAAATGAAATATGAAA
10982298 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
10982317 TGATGAAATGA
1 TGA-GAAATGA
10982328 TATGTGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:10987397 original size:45 final size:45
Alignment explanation
Indices: 10987341--10987426 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
10987331 GAATACCGAA
* * * *
10987341 TATAATGCCATGGTATCTTTCAACCATGGTCTTTTCCTTTTTGAG
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
* *
10987386 TATAATACCATGATGTATTTCAATCACGGTCTTTTCCTTTT
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTT
10987427 CCCAAATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (45 bp):
TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
Found at i:10991363 original size:17 final size:18
Alignment explanation
Indices: 10991329--10991365 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
10991319 TGTCATTTAC
10991329 AATATAAGTTCAATATCA
1 AATATAAGTTCAATATCA
10991347 AATAT-AGTTCCAA-ATCA
1 AATATAAGTT-CAATATCA
10991364 AA
1 AA
10991366 CTTATCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATATAAGTTCAATATCA
Found at i:10995273 original size:44 final size:43
Alignment explanation
Indices: 10995208--10995893 Score: 599
Period size: 44 Copynumber: 15.6 Consensus size: 43
10995198 TGCCTCACTA
** *
10995208 CCAATATAAAAAGACATGATCTGCTATCTTCGATCTACTTCACT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CT
* * * * * * *
10995252 CCAATACATGAATATAAGATCTGCTTTCTTCGATCTATTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT--CCT
* *
10995297 CCAATATGGGAAGACAAGAACTGC-ATCTTCGATCTACTTCCT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCT
* * * * *
10995339 ACCAATATAGGAAGACAGGATCTGTTATATTTGATCTACTTCACG
1 -CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CT
* * * * *
10995384 CCAATACATGAAGACGAGATCTGCTTTCTTCGATCCACTTCCT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCT
* *
10995427 ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCCT
1 -CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCT
* *
10995471 ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACG
1 -CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CT
* * * *
10995516 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT--CCT
* * * * *
10995561 CCAATATGGGAAGATAAGATTTAC-ATCTTCGATCCACTTCCT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCT
* * *
10995603 ACCAATATAAGAAGACATGATCTGCTATCTTCGATCTACTTCACG
1 -CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CT
* * * * ** *
10995648 CCAATACATGAAGACAATATCTGCTTTCTTTAATCTACTTTGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC-TT-CCT
* * * *
10995693 CCAGTATGGGAAGACAAGATCTGC-ATCTTAGATCCACTTCCT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCT
* * * *
10995735 ACCAGTATAGGAAGACAGGTTCTGCTATCTTCGATCTACTTCACG
1 -CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CT
* * * *
10995780 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT--CCT
* * *
10995825 CCAGTAT-GAGAAGGCAAGATCTGC-ATCTTCGATCCACTTCCT
1 CCAATATAG-GAAGACAAGATCTGCTATCTTCGATCTACTTCCT
* *
10995867 ACCAGTATAGGAAGACAGGATCTGCTA
1 -CCAATATAGGAAGACAAGATCTGCTA
10995894 CTTTTTAACC
Statistics
Matches: 515, Mismatches: 104, Indels: 46
0.77 0.16 0.07
Matches are distributed among these distances:
42 8 0.02
43 82 0.16
44 337 0.65
45 84 0.16
46 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCT
Found at i:10995457 original size:132 final size:132
Alignment explanation
Indices: 10995205--10995893 Score: 1047
Period size: 132 Copynumber: 5.2 Consensus size: 132
10995195 GTCTGCCTCA
** * * * *
10995205 CTACCAATATAAAAAGACATGATCTGCTATCTTCGATCTACTTCACTCCAATACATGAATATAAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * *
10995270 ATCTGCTTTCTTCGATCTATTTCGCCACCAATATGGGAAGACAAGAACTGCATCTTCGATCTACT
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
10995335 TC
131 TC
* * * *
10995337 CTACCAATATAGGAAGACAGGATCTGTTATATTTGATCTACTTCACGCCAATACATGAAGACGAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * * *
10995402 ATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCAC
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCAC
10995466 TTC
130 TTC
10995469 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * * *
10995534 ATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGATAAGATTTACATCTTCGATCCACT
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
10995599 TC
131 TC
* * *
10995601 CTACCAATATAAGAAGACATGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAT
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
** * * *
10995666 ATCTGCTTTCTTTAATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTAGATCCACT
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
10995731 TC
131 TC
* *
10995733 CTACCAGTATAGGAAGACAGGTTCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* * *
10995798 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGAGAAGGCAAGATCTGCATCTTCGATCCACT
66 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
10995863 TC
131 TC
*
10995865 CTACCAGTATAGGAAGACAGGATCTGCTA
1 CTACCAATATAGGAAGACAGGATCTGCTA
10995894 CTTTTTAACC
Statistics
Matches: 503, Mismatches: 52, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 23 0.05
132 459 0.91
133 21 0.04
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (132 bp):
CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
TC
Found at i:11007318 original size:15 final size:15
Alignment explanation
Indices: 11007298--11007332 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11007288 TATATATGCC
11007298 ACAATAATAAATAAA
1 ACAATAATAAATAAA
* *
11007313 ACAATAATAGATATA
1 ACAATAATAAATAAA
11007328 ACAAT
1 ACAAT
11007333 GTCATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATAAA
Found at i:11007750 original size:30 final size:30
Alignment explanation
Indices: 11007714--11007772 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
11007704 GTATAAATAT
11007714 AAAAATATTCATTTAAAAAA-ACAAATATAG
1 AAAAATATTCA-TTAAAAAATACAAATATAG
* *
11007744 AAAAATATTTATTAAAAAATAGAAATATA
1 AAAAATATTCATTAAAAAATACAAATATA
11007773 TATGCATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (30 bp):
AAAAATATTCATTAAAAAATACAAATATAG
Found at i:11007805 original size:22 final size:23
Alignment explanation
Indices: 11007777--11007824 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
11007767 AATATATATG
11007777 CATATATAGATA-AGAAA-AATTA
1 CATATATAGATATA-AAATAATTA
*
11007799 CATATATATATATAAAATAATTA
1 CATATATAGATATAAAATAATTA
11007822 CAT
1 CAT
11007825 TATCAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.33
Consensus pattern (23 bp):
CATATATAGATATAAAATAATTA
Found at i:11007813 original size:24 final size:23
Alignment explanation
Indices: 11007778--11007824 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
11007768 ATATATATGC
11007778 ATATATAGATAAGAAAAATTACAT
1 ATATATAGATAA-AAAAATTACAT
* *
11007802 ATATATATATAAAATAATTACAT
1 ATATATAGATAAAAAAATTACAT
11007825 TATCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATATAGATAAAAAAATTACAT
Found at i:11016590 original size:19 final size:19
Alignment explanation
Indices: 11016566--11016606 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
11016556 TGTATATATA
11016566 TAGCTAATATAGCCTTAAT
1 TAGCTAATATAGCCTTAAT
11016585 TAGCTAATATAGCCTTAAT
1 TAGCTAATATAGCCTTAAT
11016604 TAG
1 TAG
11016607 AAATGGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TAGCTAATATAGCCTTAAT
Found at i:11020426 original size:16 final size:16
Alignment explanation
Indices: 11020405--11020474 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
11020395 TTTGGTTCGC
11020405 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
11020421 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
11020437 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
*
11020453 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
11020469 CGTAAT
1 TGTAAT
11020475 AGGTAAATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:11020516 original size:46 final size:44
Alignment explanation
Indices: 11020456--11020544 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
11020446 ATAGATGCGT
*
11020456 AATGGAATAGAGGCGTAATAGGTAAATCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAAT-GGT-AATCTTGTGTTTGGTTGAATGG
*
11020502 AATGGAATAGAGGCGTAATGGTATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGTAATGGTAATCTTGTGTTTGGTTGAATG
11020545 TAATAGAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 19 0.46
45 3 0.07
46 19 0.46
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATGGTAATCTTGTGTTTGGTTGAATGG
Found at i:11020742 original size:18 final size:18
Alignment explanation
Indices: 11020708--11020761 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
11020698 TTATTATTAA
11020708 ATAT-AATTTAATAAAAAT
1 ATATGAATTTAAT-AAAAT
11020726 ATATGAATTTAATAAAAT
1 ATATGAATTTAATAAAAT
*
11020744 ATATGAATTTACTAAAAT
1 ATATGAATTTAATAAAAT
11020762 CATAATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 26 0.76
19 8 0.24
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (18 bp):
ATATGAATTTAATAAAAT
Found at i:11020902 original size:61 final size:61
Alignment explanation
Indices: 11020743--11020925 Score: 180
Period size: 59 Copynumber: 3.0 Consensus size: 61
11020733 TTTAATAAAA
*
11020743 TATATGAATTTACTAAAATCATAATATATAATACTATAAAA-TATAATTTAAAATAATTAT
1 TATATGAATTTACTAAAATCAAAATATATAATACTATAAAATTATAATTTAAAATAATTAT
* * * ** * * * * * *
11020803 TAT-TAAATATAATTTAATAAAAATGTATAAT-TTGATAAAATTCTTAGTATT-AAAT-ATTCT
1 TATATGAATTTACTAAAATCAAAATATATAATACT-ATAAAATT-ATAAT-TTAAAATAATTAT
*
11020863 TATATGAATTTACTAAAATCACAATATATAATACTATAAAA-TATAATTTAAAATAATTAT
1 TATATGAATTTACTAAAATCAAAATATATAATACTATAAAATTATAATTTAAAATAATTAT
11020923 TAT
1 TAT
11020926 TAAATATAAT
Statistics
Matches: 91, Mismatches: 24, Indels: 16
0.69 0.18 0.12
Matches are distributed among these distances:
58 3 0.03
59 33 0.36
60 19 0.21
61 33 0.36
62 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
TATATGAATTTACTAAAATCAAAATATATAATACTATAAAATTATAATTTAAAATAATTAT
Found at i:11027291 original size:30 final size:29
Alignment explanation
Indices: 11027257--11027314 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
11027247 GAAACTAATC
11027257 TCAATTACTGATTCTTAAGAAATTAGGATA
1 TCAATTACTGATTCTT-AGAAATTAGGATA
*
11027287 TCAATTACTGATTCTTAGGAATTAGGAT
1 TCAATTACTGATTCTTAGAAATTAGGAT
11027315 TTATTTCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (29 bp):
TCAATTACTGATTCTTAGAAATTAGGATA
Found at i:11031118 original size:30 final size:29
Alignment explanation
Indices: 11031084--11031141 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
11031074 GAAACTAATC
* *
11031084 TCAATTACTGATTCTTAGGAAATTAGGATA
1 TCAATTACTGATACTTAAG-AATTAGGATA
11031114 TCAATTACTGATACTTAAGAATTAGGAT
1 TCAATTACTGATACTTAAGAATTAGGAT
11031142 TTATTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (29 bp):
TCAATTACTGATACTTAAGAATTAGGATA
Found at i:11033414 original size:161 final size:161
Alignment explanation
Indices: 11033149--11033541 Score: 716
Period size: 161 Copynumber: 2.4 Consensus size: 161
11033139 TGTGTTGTTG
*
11033149 AAGGATGGATTTAACTGGCACAGGTGACTTC-GGGAGTAACTCATGTGAAACAAACAGATACTAA
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGG-GTAACTCATGTGAAACAAACAGATACTAA
11033213 CCGGCCACATAAGTTTTGAAAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
65 CCGGCCACATAAGTTTTGAAAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
11033278 CGAAAGAGTAAATTGGCACCTTATTTTTTTCT
130 CGAAAGAGTAAATTGGCACCTTATTTTTTTCT
11033310 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
* *
11033375 CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGATACTAGCCAAC
66 CGGCCACATAAGTTTTGAAAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
11033440 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
131 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
* * *
11033471 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCACGTGAAGCCAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
11033536 CGGCCA
66 CGGCCA
11033542 AGTAAATTTT
Statistics
Matches: 225, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
161 222 0.99
162 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (161 bp):
AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
CGGCCACATAAGTTTTGAAAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
GAAAGAGTAAATTGGCACCTTATTTTTTTCT
Found at i:11039014 original size:37 final size:37
Alignment explanation
Indices: 11038950--11039036 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
11038940 TGCCGAGGCG
* *
11038950 TGTTATCGGTTGGATTAGGTTACATGAGCATTTGGCA
1 TGTTATCGGTTGGATTAGCTTACATGAGCATTTAGCA
* * *
11038987 TGTTATTGGTTGGATTAGCTCT-TATGAGCATTTAGCG
1 TGTTATCGGTTGGATTAGCT-TACATGAGCATTTAGCA
11039024 TGTT-TCGGTTGGA
1 TGTTATCGGTTGGA
11039037 CTACTTGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
36 8 0.19
37 34 0.79
38 1 0.02
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.41
Consensus pattern (37 bp):
TGTTATCGGTTGGATTAGCTTACATGAGCATTTAGCA
Found at i:11040129 original size:54 final size:54
Alignment explanation
Indices: 11040017--11040129 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
11040007 GACACAACCG
* * * *
11040017 TGTGTATCAAGTCAGTGAGTCATACGGTTTGGAACACGGTCTATAACACGGCTC
1 TGTGTATCAAGTCAGTGAGTCACACGGTTTGGAACACGGGCTAGAACACGGATC
* * * *
11040071 TGTGTATTAAGTCAGTGAGTTACACGGTTT-GAGACACGGGCTGGGACAC-GATC
1 TGTGTATCAAGTCAGTGAGTCACACGGTTTGGA-ACACGGGCTAGAACACGGATC
11040124 ATGTGT
1 -TGTGT
11040130 CCCAACTTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 5 0.10
54 44 0.90
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (54 bp):
TGTGTATCAAGTCAGTGAGTCACACGGTTTGGAACACGGGCTAGAACACGGATC
Found at i:11049436 original size:25 final size:24
Alignment explanation
Indices: 11049353--11049646 Score: 128
Period size: 23 Copynumber: 12.5 Consensus size: 24
11049343 AATCTACCCT
* * *
11049353 ATTTGGACAACTTTTATACATC-A
1 ATTTGGACAGCATTTATACACCAA
* *
11049376 ATTTGGACAACATTTATATACCAA
1 ATTTGGACAGCATTTATACACCAA
*
11049400 A-TTAGACAGCATTT-TCACACCAAA
1 ATTTGGACAGCATTTAT-ACACC-AA
** *
11049424 ATTTGGACAGCATAAATACAAC-A
1 ATTTGGACAGCATTTATACACCAA
* * *
11049447 ATTTGGGCAGCATATATACAAC-A
1 ATTTGGACAGCATTTATACACCAA
* *
11049470 GTTT-GAGCA-CATTTTTACACCAA
1 ATTTGGA-CAGCATTTATACACCAA
** * * *
11049493 AACTGGACAGCATATATGCAACAA
1 ATTTGGACAGCATTTATACACCAA
* *
11049517 A-TTGGGCAGCATTTA-AGCATCAA
1 ATTTGGACAGCATTTATA-CACCAA
* * ** *
11049540 AATTGGACAGCATATATGTAACAA
1 ATTTGGACAGCATTTATACACCAA
* *
11049564 A-TTGGGCAGCATTTA-AGCATCAA
1 ATTTGGACAGCATTTATA-CACCAA
* * ** *
11049587 AATTGGACAGCATATATGTAACAA
1 ATTTGGACAGCATTTATACACCAA
*
11049611 A-TTGGACAGCATTTA-AGCATCAA
1 ATTTGGACAGCATTTATA-CACCAA
*
11049634 AATTGGACAGCAT
1 ATTTGGACAGCAT
11049647 ATATGTAACA
Statistics
Matches: 206, Mismatches: 48, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
22 11 0.05
23 117 0.57
24 63 0.31
25 14 0.07
26 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (24 bp):
ATTTGGACAGCATTTATACACCAA
Found at i:11049506 original size:46 final size:47
Alignment explanation
Indices: 11049454--11049697 Score: 251
Period size: 47 Copynumber: 5.2 Consensus size: 47
11049444 ACAATTTGGG
** *
11049454 CAGCATATATACAACAGTTTGAGCA-CATTTTTA-CACCAAAACTGGA
1 CAGCATATATACAACAAATTGAGCAGCA-TTTAAGCACCAAAACTGGA
* * * *
11049500 CAGCATATATGCAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
** * * *
11049547 CAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
** * *
11049594 CAGCATATATGTAACAAATTG-GACAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAG-CAGCATTTAAGCACCAAAACTGGA
** * * * *
11049641 CAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
11049688 CAGCATATAT
1 CAGCATATAT
11049698 GTAAAAAATT
Statistics
Matches: 185, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
46 26 0.14
47 158 0.85
48 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (47 bp):
CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
Found at i:11049526 original size:23 final size:23
Alignment explanation
Indices: 11049426--11049709 Score: 203
Period size: 23 Copynumber: 12.2 Consensus size: 23
11049416 ACACCAAAAT
* * *
11049426 TTGGACAGCATAAATACAACAAT
1 TTGGACAGCATATATGCAACAAA
* * *
11049449 TTGGGCAGCATATATACAAC-AG
1 TTGGACAGCATATATGCAACAAA
* * * * *
11049471 TTTGAGCA-CATTTTTACACCAAAA
1 TTGGA-CAGCATATATGCAAC-AAA
*
11049495 CTGGACAGCATATATGCAACAAA
1 TTGGACAGCATATATGCAACAAA
* * * *
11049518 TTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGCAAC-AAA
*
11049542 TTGGACAGCATATATGTAACAAA
1 TTGGACAGCATATATGCAACAAA
* * * *
11049565 TTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGCAAC-AAA
*
11049589 TTGGACAGCATATATGTAACAAA
1 TTGGACAGCATATATGCAACAAA
* * *
11049612 TTGGACAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGCAAC-AAA
*
11049636 TTGGACAGCATATATGTAACAAA
1 TTGGACAGCATATATGCAACAAA
** * * *
11049659 TTGGGTAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGCAAC-AAA
* *
11049683 TTGGACAGCATATATGTAAAAAA
1 TTGGACAGCATATATGCAACAAA
11049706 TTGG
1 TTGG
11049710 TTCAACTCAT
Statistics
Matches: 197, Mismatches: 56, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
22 13 0.07
23 101 0.51
24 83 0.42
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (23 bp):
TTGGACAGCATATATGCAACAAA
Found at i:11049547 original size:47 final size:47
Alignment explanation
Indices: 11049490--11049709 Score: 395
Period size: 47 Copynumber: 4.7 Consensus size: 47
11049480 ATTTTTACAC
* *
11049490 CAAAACTGGACAGCATATATGCAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
11049537 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11049584 CAAAATTGGACAGCATATATGTAACAAATTGGACAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11049631 CAAAATTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11049678 CAAAATTGGACAGCATATATGTAAAAAATTGG
1 CAAAATTGGACAGCATATATGTAACAAATTGG
11049710 TTCAACTCAT
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 167 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (47 bp):
CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
Found at i:11050617 original size:43 final size:42
Alignment explanation
Indices: 11050549--11050678 Score: 167
Period size: 43 Copynumber: 3.0 Consensus size: 42
11050539 AACTCGTACA
*
11050549 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
*
11050592 ATGCC-ACTGTCCCAGACAGT-TTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
11050635 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
11050678 A
1 A
11050679 AAATCTTATG
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
42 5 0.07
43 63 0.83
44 8 0.11
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:11055859 original size:16 final size:16
Alignment explanation
Indices: 11055838--11055869 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11055828 ATTTTGTTGC
*
11055838 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
11055854 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
11055870 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:11056189 original size:51 final size:49
Alignment explanation
Indices: 11056100--11056287 Score: 143
Period size: 51 Copynumber: 3.7 Consensus size: 49
11056090 GTTCACATAT
* * *
11056100 TAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGT-GG
1 TAGCCTGCACATAGTACTACACACGTGACCA-CACTATCCGAT--ACGTAAG
* * *
11056151 TAGCTTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGTACAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCACA-CTATCCGATACGTA-AG
* * * *
11056202 TAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAGTACACGT-AG
1 TAGCCTGCACATAGTACTACACACGTGACC-A-CACTATC-CG-ATACGTAAG
*
11056252 TAGCCTGCACATAGCACTACACACGTGACCATCACT
1 TAGCCTGCACATAGTACTACACACGTGACCA-CACT
11056288 TTCACTTTCA
Statistics
Matches: 111, Mismatches: 16, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
49 8 0.07
50 34 0.31
51 62 0.56
52 6 0.05
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGCCTGCACATAGTACTACACACGTGACCACACTATCCGATACGTAAG
Found at i:11058804 original size:23 final size:25
Alignment explanation
Indices: 11058751--11058807 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
11058741 TTTGTGATTT
*
11058751 TTTAATAAAATATTATATTAATGTAA
1 TTTAATTAAATATTATATTAA-GTAA
*
11058777 TTTAATTAGATATT-TATTAA-TAA
1 TTTAATTAAATATTATATTAAGTAA
11058800 TTTAATTA
1 TTTAATTA
11058808 TAAAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 11 0.38
25 6 0.21
26 12 0.41
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTAATTAAATATTATATTAAGTAA
Found at i:11079614 original size:23 final size:23
Alignment explanation
Indices: 11079588--11079633 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11079578 TTTTTAACCA
*
11079588 CTTTTT-TTTCTTTTAGATTTTTT
1 CTTTTTCTTT-TTTTACATTTTTT
*
11079611 CTTTTTCTTTTTTTCCATTTTTT
1 CTTTTTCTTTTTTTACATTTTTT
11079634 GTGGCTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTTTTCTTTTTTTACATTTTTT
Found at i:11081278 original size:29 final size:29
Alignment explanation
Indices: 11081236--11081291 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
11081226 AAAATGTTAG
11081236 AGAAAGCACGCCTAACTAGGTGCGTTTAA
1 AGAAAGCACGCCTAACTAGGTGCGTTTAA
11081265 AGAAAGCACGCCTAACTAGGTGCGTTT
1 AGAAAGCACGCCTAACTAGGTGCGTTT
11081292 TCTCAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (29 bp):
AGAAAGCACGCCTAACTAGGTGCGTTTAA
Found at i:11086616 original size:15 final size:17
Alignment explanation
Indices: 11086596--11086632 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11086586 GTCAAACATT
11086596 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
11086611 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
11086628 ATTAT
1 ATTAT
11086633 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:11086635 original size:38 final size:36
Alignment explanation
Indices: 11086519--11086635 Score: 101
Period size: 38 Copynumber: 3.0 Consensus size: 36
11086509 GAAATTCTTG
* * *
11086519 TTATAATTACTATAATTATAATTTAGGATTGAATATAA
1 TTATAATTACTGTAATTATAATTTTGG-TT-AATATTA
* *
11086557 TTATAATTACTGTAATTATAATTTTTTTGGTCAAACATTA
1 TTATAATTACTGTAATTATAA---TTTTGGT-TAATATTA
11086597 TTATAATTA-TGGTAATTATAATATTTGGTTAATTATTA
1 TTATAATTACT-GTAATTATAAT-TTTGGTTAA-TATTA
11086635 T
1 T
11086636 GATTTGATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
37 3 0.05
38 31 0.48
39 1 0.02
40 25 0.38
41 5 0.08
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (36 bp):
TTATAATTACTGTAATTATAATTTTGGTTAATATTA
Done.