Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2281
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: 210577
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:3544 original size:27 final size:27
Alignment explanation
Indices: 3513--3585 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
3503 AAAAGCTACC
*
3513 CTTTGTGTTTGTCAAAAATAGTAGTTA
1 CTTTGTGTTTGTCAAAAATAATAGTTA
* * *
3540 CTTTGTATTTGTCAAAAATAATGGTTT
1 CTTTGTGTTTGTCAAAAATAATAGTTA
*
3567 CTTTTTGTTTGTCAAAAAT
1 CTTTGTGTTTGTCAAAAAT
3586 TATGGCTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATAATAGTTA
Found at i:3606 original size:24 final size:24
Alignment explanation
Indices: 3571--3616 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3561 TGGTTTCTTT
*
3571 TTGTTTGTCAAAAATTA-TGGCTTG
1 TTGTTTGGC-AAAATTAGTGGCTTG
3595 TTGTTTGGCAAAATTAGTGGCT
1 TTGTTTGGCAAAATTAGTGGCT
3617 ACTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (24 bp):
TTGTTTGGCAAAATTAGTGGCTTG
Found at i:6178 original size:21 final size:22
Alignment explanation
Indices: 6149--6194 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6139 TGTTCAGACA
** *
6149 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
6171 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
6192 AGT
1 AGT
6195 TTCAATAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:7439 original size:13 final size:13
Alignment explanation
Indices: 7421--7446 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7411 AATTTTTTGG
7421 TGTATCGATACAT
1 TGTATCGATACAT
7434 TGTATCGATACAT
1 TGTATCGATACAT
7447 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8158 original size:39 final size:39
Alignment explanation
Indices: 8104--8189 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
8094 TAAAAATAAT
**
8104 TTCTCCCCCTTAATAAGATAATTTTAACAAATTTGTACA
1 TTCTCCCCCTTAATAAGATAATTTTAACAAATTCATACA
* * *
8143 TTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCATGCA
1 TTCTCCCCCTTAATAAGATAATTTTAACAAATTCATACA
8182 TTCTCCCC
1 TTCTCCCC
8190 TTTTATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (39 bp):
TTCTCCCCCTTAATAAGATAATTTTAACAAATTCATACA
Found at i:9547 original size:21 final size:20
Alignment explanation
Indices: 9518--9560 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9508 GGCTAGTGTG
* *
9518 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCAACCT
*
9539 GGGAGTGCCGGTCGCAACCT
1 GGGACTGCCGGTCGCAACCT
9559 GG
1 GG
9561 TGGGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCAACCT
Found at i:10021 original size:13 final size:13
Alignment explanation
Indices: 10003--10041 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
9993 ATAATCCCCC
*
10003 TGTATCGATACAG
1 TGTATCGATACAA
10016 TGTATCGATACAA
1 TGTATCGATACAA
10029 TGTATCGATACAA
1 TGTATCGATACAA
10042 AGAAAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:10057 original size:46 final size:46
Alignment explanation
Indices: 10003--10106 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 46
9993 ATAATCCCCC
* *
10003 TGTATCGATACAGTGTATCGATACA-ATGTATCGATACAAAGAAAGA
1 TGTATCGATACAGTGAAT-GATACAGATGTATCGATACAAAGAAACA
* ** * * *
10049 TGTATCGATACATTGAATTTTCCAGATGTATCGATACACAGAACCA
1 TGTATCGATACAGTGAATGATACAGATGTATCGATACAAAGAAACA
10095 TGTATCGATACA
1 TGTATCGATACA
10107 TTTTGGAAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 3 0.06
46 46 0.94
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (46 bp):
TGTATCGATACAGTGAATGATACAGATGTATCGATACAAAGAAACA
Found at i:16224 original size:13 final size:13
Alignment explanation
Indices: 16206--16231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16196 CAATTTTTTG
16206 GTGTATCGATACA
1 GTGTATCGATACA
16219 GTGTATCGATACA
1 GTGTATCGATACA
16232 TACTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:18080 original size:27 final size:27
Alignment explanation
Indices: 18049--18120 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
18039 AAAACTACCA
18049 TTTGTGTTTGTCAAAAATGGT-AGTTAC
1 TTTGTGTTTGTCAAAAATGGTGA-TTAC
* *
18076 TTTGTATTTGTCAAAAATGGTGATTTC
1 TTTGTGTTTGTCAAAAATGGTGATTAC
*
18103 TTTTTGTTTGTCAAAAAT
1 TTTGTGTTTGTCAAAAAT
18121 TGTGGCTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (27 bp):
TTTGTGTTTGTCAAAAATGGTGATTAC
Found at i:18138 original size:24 final size:24
Alignment explanation
Indices: 18106--18151 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
18096 TGATTTCTTT
18106 TTGTTTGTCAAAAATT-GTGGCTTG
1 TTGTTTGTC-AAAATTAGTGGCTTG
18130 TTGTTTGTCAAAATTAGTGGCT
1 TTGTTTGTCAAAATTAGTGGCT
18152 AATTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.46
Consensus pattern (24 bp):
TTGTTTGTCAAAATTAGTGGCTTG
Found at i:21548 original size:84 final size:83
Alignment explanation
Indices: 21386--21548 Score: 229
Period size: 84 Copynumber: 2.0 Consensus size: 83
21376 GTCGTAGAAC
* * *
21386 AGCTGTCAGCCAAAGAGAGGAAAACACCCGCAAACACTTGTCCAGCTTTCGGCCCAAATCAATTG
1 AGCTGTCAGCCAAAGAGAGCAAAACACCCCCAAACACTTGTCCAGCTTTCAGCCCAAATCAATTG
*
21451 AAAAATTTGGGGACATTT
66 AAAAATTTCGGGACATTT
* * *
21469 AGCTGTCGGCCGAAGAGAGCAAAACACCCCCCAAACACTTGTCCAGCTTTCAGCCATAAATCAAT
1 AGCTGTCAGCCAAAGAGAGCAAAACA-CCCCCAAACACTTGTCCAGCTTTCAGCC-CAAATCAAT
*
21534 TGGAAAA-TTCGGGAC
64 TGAAAAATTTCGGGAC
21549 CTTTCGATCG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 23 0.33
84 33 0.47
85 14 0.20
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.19
Consensus pattern (83 bp):
AGCTGTCAGCCAAAGAGAGCAAAACACCCCCAAACACTTGTCCAGCTTTCAGCCCAAATCAATTG
AAAAATTTCGGGACATTT
Found at i:23260 original size:22 final size:24
Alignment explanation
Indices: 23234--23280 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23224 ATTTTATTTA
*
23234 AAAAAAT-TAAGTATATTATATAT
1 AAAAAATATAAGCATATTATATAT
*
23257 AAAAAATATATGCATATTATATAT
1 AAAAAATATAAGCATATTATATAT
23281 TTCATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
AAAAAATATAAGCATATTATATAT
Found at i:23435 original size:29 final size:29
Alignment explanation
Indices: 23400--23560 Score: 118
Period size: 29 Copynumber: 5.5 Consensus size: 29
23390 TTGATTAAAA
23400 ATAAATGAAT-AATAAAATTTTTAAAAATT
1 ATAAAT-AATAAATAAAATTTTTAAAAATT
* * * *
23429 ATGAATGATAAATATAAA-TGTTAAATA-T
1 ATAAATAATAAATA-AAATTTTTAAAAATT
* * * *
23457 ATTGAATCATAAATATAATTTTTAAAATTT
1 A-TAAATAATAAATAAAATTTTTAAAAATT
*
23487 ATAAATAAATAAAATATAATTTTT-AAAA-T
1 ATAAAT-AAT-AAATAAAATTTTTAAAAATT
*
23516 ATTAAATAA-AAATAAAATATTAATAAAAATT
1 A-TAAATAATAAATAAAAT-TT-TTAAAAATT
23547 ATAAATAATAAATA
1 ATAAATAATAAATA
23561 TATAAATAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
27 8 0.08
28 8 0.08
29 43 0.41
30 26 0.25
31 20 0.19
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (29 bp):
ATAAATAATAAATAAAATTTTTAAAAATT
Found at i:23503 original size:31 final size:31
Alignment explanation
Indices: 23467--23565 Score: 107
Period size: 30 Copynumber: 3.3 Consensus size: 31
23457 ATTGAATCAT
23467 AAATATAATTTTTAAAATTTATAAATAAATA
1 AAATATAATTTTTAAAATTTATAAATAAATA
*
23498 AAATATAATTTTTAAAATAT-TAAATAAA-A
1 AAATATAATTTTTAAAATTTATAAATAAATA
* ** *
23527 ATAAAAT-ATTAATAAAAATTATAAAT-AATA
1 A-AATATAATTTTTAAAATTTATAAATAAATA
23557 AATATATAA
1 AA-ATATAA
23566 ATAAAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
29 14 0.25
30 22 0.39
31 20 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
AAATATAATTTTTAAAATTTATAAATAAATA
Found at i:23513 original size:60 final size:57
Alignment explanation
Indices: 23394--23567 Score: 174
Period size: 58 Copynumber: 3.0 Consensus size: 57
23384 TACTTTTTGA
* * *
23394 TTAAAA-A-TAAATGAATAATAAAATTTTTAAAAATTATGAATGAT-AAATATAAATG
1 TTAAAATATTAAAT-AAAAATAAAATTTTTAAAAATTATAAATAATAAAATATAAATG
* * * * * *
23449 TTAAATATATTGAATCATAAATATAATTTTTAAAATTTATAAATAAATAAAATATAATTT
1 TTAAA-ATATTAAAT-AAAAATAAAATTTTTAAAAATTATAAAT-AATAAAATATAAATG
*
23509 TTAAAATATTAAATAAAAATAAAATATTAATAAAAATTATAAATAATAAATATATAAAT
1 TTAAAATATTAAATAAAAATAAAAT-TT-TTAAAAATTATAAATAATAAA-ATATAAAT
23568 AAAAATAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
55 5 0.05
56 1 0.01
57 1 0.01
58 36 0.38
59 18 0.19
60 34 0.36
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (57 bp):
TTAAAATATTAAATAAAAATAAAATTTTTAAAAATTATAAATAATAAAATATAAATG
Found at i:23534 original size:32 final size:31
Alignment explanation
Indices: 23467--23535 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
23457 ATTGAATCAT
*
23467 AAATATAATTTTTAAAATTTATAAATAAATA
1 AAATATAATTTTTAAAATTTATAAAAAAATA
23498 AAATATAATTTTTAAAATATTA-AATAAAAATA
1 AAATATAATTTTTAAAAT-TTATAA-AAAAATA
23530 AAATAT
1 AAATAT
23536 TAATAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 20 0.57
32 15 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
AAATATAATTTTTAAAATTTATAAAAAAATA
Found at i:23542 original size:17 final size:18
Alignment explanation
Indices: 23510--23571 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
23500 ATATAATTTT
23510 TAAAATATTAAATAAAAA
1 TAAAATATTAAATAAAAA
23528 TAAAATATT-AATAAAAA
1 TAAAATATTAAATAAAAA
*
23545 TTATAAATAATAAATATATAAA
1 -TA-AAATATTAAATA-A-AAA
23567 TAAAA
1 TAAAA
23572 ATAAAATTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 8 0.21
18 11 0.29
19 6 0.16
20 7 0.18
21 3 0.08
22 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATTAAATAAAAA
Found at i:23568 original size:28 final size:26
Alignment explanation
Indices: 23521--23573 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
23511 AAAATATTAA
*
23521 ATAAAAATAAAATATTAATAAAAATT
1 ATAAAAATAAAATATAAATAAAAATT
23547 ATAAATAATAAATATATAAATAAAAAT
1 ATAAA-AATAAA-ATATAAATAAAAAT
23574 AAAATTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 6 0.25
28 13 0.54
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (26 bp):
ATAAAAATAAAATATAAATAAAAATT
Found at i:23871 original size:18 final size:18
Alignment explanation
Indices: 23832--23870 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
23822 ATCAAAAATA
23832 TTTTAGTTTATTAATTAT
1 TTTTAGTTTATTAATTAT
23850 TTTTAG-TTATT-ATTAGT
1 TTTTAGTTTATTAATTA-T
23867 TTTT
1 TTTT
23871 TCATTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 10 0.50
18 6 0.30
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTTAGTTTATTAATTAT
Found at i:23988 original size:14 final size:13
Alignment explanation
Indices: 23956--23998 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
23946 AAAAATAAAC
23956 AATTATTTTTATT
1 AATTATTTTTATT
23969 AATTATTTTTAGTT
1 AATTATTTTTA-TT
** *
23983 TTTTATATTTATT
1 AATTATTTTTATT
23996 AAT
1 AAT
23999 GAATTGATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
AATTATTTTTATT
Found at i:27070 original size:59 final size:59
Alignment explanation
Indices: 27001--27239 Score: 200
Period size: 58 Copynumber: 4.1 Consensus size: 59
26991 TAGAAACTTC
* * *
27001 ATGT-AATTTCATGTATGTTGAGGTCATTTAGGTCATTTCTCATTATTTAAGGATTTTT
1 ATGTAAATTTCATGTATGTTGAGGTCATTTAGGTCATTTTTCATGATTTAAGGATTTTG
* * **
27059 ATGTAAATTTCATGTATGCTT-AGGTTATTTAGGTCA-TTTTCATGATCTT-CGGATTTCA
1 ATGTAAATTTCATGTATG-TTGAGGTCATTTAGGTCATTTTTCATGAT-TTAAGGATTTTG
** * * * * * * *
27117 ATACAATTTTTATGTATTTTAATGTCATTTAGGTCATTTTTCATAATTTAAGAATTTTG
1 ATGTAAATTTCATGTATGTTGAGGTCATTTAGGTCATTTTTCATGATTTAAGGATTTTG
* * * * * * ** *
27176 ATG-CATTTTTATGAATTTTGATGTCATTTAAATCATTTTTCATGATCTAAGGATTTTG
1 ATGTAAATTTCATGTATGTTGAGGTCATTTAGGTCATTTTTCATGATTTAAGGATTTTG
27234 ATGTAA
1 ATGTAA
27240 TTTATTGAAT
Statistics
Matches: 146, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
57 2 0.01
58 96 0.66
59 46 0.32
60 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (59 bp):
ATGTAAATTTCATGTATGTTGAGGTCATTTAGGTCATTTTTCATGATTTAAGGATTTTG
Found at i:27100 original size:30 final size:30
Alignment explanation
Indices: 27007--27102 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
26997 CTTCATGTAA
* *
27007 TTTCATGTATGTTGAGGTCATTTAGGTCAT
1 TTTCATGTATGTTAAGGTTATTTAGGTCAT
* * *
27037 TTCTCAT-TAT-TTAAGGATT-TTTATGTAAA
1 TT-TCATGTATGTTAAGG-TTATTTAGGTCAT
27066 TTTCATGTATGCTT-AGGTTATTTAGGTCAT
1 TTTCATGTATG-TTAAGGTTATTTAGGTCAT
27096 TTTCATG
1 TTTCATG
27103 ATCTTCGGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
28 4 0.08
29 19 0.37
30 23 0.44
31 6 0.12
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.50
Consensus pattern (30 bp):
TTTCATGTATGTTAAGGTTATTTAGGTCAT
Found at i:27191 original size:20 final size:21
Alignment explanation
Indices: 27163--27204 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
27153 TTTTTCATAA
27163 TTTAAGAATTTTGATG-CATT
1 TTTAAGAATTTTGATGTCATT
*
27183 TTTATGAATTTTGATGTCATT
1 TTTAAGAATTTTGATGTCATT
27204 T
1 T
27205 AAATCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (21 bp):
TTTAAGAATTTTGATGTCATT
Found at i:27232 original size:58 final size:58
Alignment explanation
Indices: 27095--27262 Score: 185
Period size: 58 Copynumber: 2.9 Consensus size: 58
27085 ATTTAGGTCA
** ** * * * **
27095 TTTTCATGATCTTCGGATTTCAATACAATTTTTATGTATTTTAATGTCATTTAGGTCAT
1 TTTTCATGATCTAAGGATTTTGATGC-ATTTTTATGAATTTTGATGTCATTTAAATCAT
* * *
27154 TTTTCATAATTTAAGAATTTTGATGCATTTTTATGAATTTTGATGTCATTTAAATCAT
1 TTTTCATGATCTAAGGATTTTGATGCATTTTTATGAATTTTGATGTCATTTAAATCAT
* *
27212 TTTTCATGATCTAAGGATTTTGATGTA-ATTTATTGAATTTTGATGTCATTT
1 TTTTCATGATCTAAGGATTTTGATGCATTTTTA-TGAATTTTGATGTCATTT
27263 TTTATAATCT
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
57 4 0.04
58 69 0.76
59 18 0.20
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.52
Consensus pattern (58 bp):
TTTTCATGATCTAAGGATTTTGATGCATTTTTATGAATTTTGATGTCATTTAAATCAT
Found at i:27534 original size:2 final size:2
Alignment explanation
Indices: 27529--27556 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27519 GTAGATTTTA
27529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27557 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28729 original size:25 final size:26
Alignment explanation
Indices: 28692--28742 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
28682 ATTTTATTTA
*
28692 AATATAATTATAAAATATATAATATT
1 AATATAATAATAAAATATATAATATT
* *
28718 AATATAA-AATAAAATTTTTAATATT
1 AATATAATAATAAAATATATAATATT
28743 TTAATATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATAATAATAAAATATATAATATT
Found at i:29049 original size:17 final size:17
Alignment explanation
Indices: 29017--29048 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29007 CTTTGCTTTG
29017 ATTTTTCTTTTCTTTTC
1 ATTTTTCTTTTCTTTTC
29034 ATTTTTCTTTT-TTTT
1 ATTTTTCTTTTCTTTT
29049 TTTTCCTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTCTTTTCTTTTC
Found at i:33405 original size:24 final size:24
Alignment explanation
Indices: 33358--33411 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33348 AAAGAATCCT
* * * *
33358 TAATAAGAATCCCTAATTTTATGC
1 TAATTAGAATCACTAATATGATGC
33382 TAATTAGAATCACTAATATGATGC
1 TAATTAGAATCACTAATATGATGC
*
33406 TGATTA
1 TAATTA
33412 TAAAGATATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (24 bp):
TAATTAGAATCACTAATATGATGC
Found at i:38643 original size:37 final size:37
Alignment explanation
Indices: 38581--38686 Score: 131
Period size: 37 Copynumber: 2.9 Consensus size: 37
38571 TTGTTCTAAC
* * *
38581 CCATGCCACCGATAAGAATAGTGGTTTTTGTTTCGGT
1 CCATGCCACCGGTAAAAATAGTGGTTTTTGTTTCGAT
* * * * *
38618 TCGTGTCACGGGTAAAAATAATGGTTTTTGTTTCGAT
1 CCATGCCACCGGTAAAAATAGTGGTTTTTGTTTCGAT
*
38655 CCATGCCACCGGTAAGAATAGTGGTTTTTGTT
1 CCATGCCACCGGTAAAAATAGTGGTTTTTGTT
38687 CTAACCTATG
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (37 bp):
CCATGCCACCGGTAAAAATAGTGGTTTTTGTTTCGAT
Found at i:38698 original size:37 final size:37
Alignment explanation
Indices: 38556--38700 Score: 123
Period size: 37 Copynumber: 3.9 Consensus size: 37
38546 TGCCTCCGAT
** * *
38556 TAAGAATAGTAATTTTTGTTCTAACCCATGCCACCGA
1 TAAGAATAGTGGTTTTTGTTCTAACCTATGCCACCGG
**** * * *
38593 TAAGAATAGTGGTTTTTGTT-TCGGTTCGTGTCACGGG
1 TAAGAATAGTGGTTTTTGTTCTAACCT-ATGCCACCGG
* * * *
38630 TAAAAATAATGGTTTTTGTTTCGATCC-ATGCCACCGG
1 TAAGAATAGTGGTTTTTG-TTCTAACCTATGCCACCGG
38667 TAAGAATAGTGGTTTTTGTTCTAACCTATGCCAC
1 TAAGAATAGTGGTTTTTGTTCTAACCTATGCCAC
38701 AAGGGTTAAA
Statistics
Matches: 79, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
36 7 0.09
37 70 0.89
38 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (37 bp):
TAAGAATAGTGGTTTTTGTTCTAACCTATGCCACCGG
Found at i:40165 original size:20 final size:20
Alignment explanation
Indices: 40137--40207 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
40127 TTTTACCCTG
40137 ATGTATCGATATATTTTTCA
1 ATGTATCGATATATTTTTCA
* * * * *
40157 ATATATCGATACATGTATAA
1 ATGTATCGATATATTTTTCA
* *
40177 ATGTATCGATATATTCTGCA
1 ATGTATCGATATATTTTTCA
40197 ATGTATCGATA
1 ATGTATCGATA
40208 CATTATGTCT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATATATTTTTCA
Found at i:54489 original size:52 final size:52
Alignment explanation
Indices: 54404--54528 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
54394 ATATGAAAAG
* *
54404 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGCCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCCAAAT
* *
54456 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCCAAAT
54508 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
54529 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCCAAAT
Found at i:54541 original size:52 final size:51
Alignment explanation
Indices: 54404--54548 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
54394 ATATGAAAAG
*
54404 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGCCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGCCAAAT
* * *
54456 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGCCAAAT
*
54508 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
54549 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGCCAAAT
Found at i:54555 original size:13 final size:13
Alignment explanation
Indices: 54537--54561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54527 CAAAGATCAG
54537 TGTATCGATACAA
1 TGTATCGATACAA
54550 TGTATCGATACA
1 TGTATCGATACA
54562 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:54643 original size:33 final size:33
Alignment explanation
Indices: 54601--54670 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
54591 GGCAGTAGCT
54601 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
54634 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
54667 TACA
1 TACA
54671 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:54644 original size:13 final size:13
Alignment explanation
Indices: 54626--54650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54616 CAAAAAAATA
54626 TGTATCGATACAT
1 TGTATCGATACAT
54639 TGTATCGATACA
1 TGTATCGATACA
54651 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:57860 original size:49 final size:49
Alignment explanation
Indices: 57755--59011 Score: 1532
Period size: 49 Copynumber: 26.6 Consensus size: 49
57745 GCCAGCTATA
* *
57755 TGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGTCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
57798 TGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * * *
57847 TGCTGATTCAAGGCCAGCGATATCGGGC-T-----TAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
57890 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * * * * * * *
57939 TGCTAATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
57988 TGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
*
58037 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAG----A--TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58080 TGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
58129 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58178 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
*
58227 TGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58270 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58319 TGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGTCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
58362 TGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
58411 TGCTGATTCAAGGCCAGCGATA-TCGAGC-T-----TAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGA-CTTAAAGATAAAGGTGCCAATG
* * * *
58454 TGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * * * * * * *
58503 TGCTTATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
58552 TGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
*
58601 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAG----A--TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
58644 TGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
58693 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58742 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
*
58791 TGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58834 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58883 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* * *
58932 TGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
* *
58981 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
59012 GAAGGGTTGC
Statistics
Matches: 1038, Mismatches: 126, Indels: 94
0.83 0.10 0.07
Matches are distributed among these distances:
43 286 0.28
44 9 0.01
45 2 0.00
47 2 0.00
48 8 0.01
49 731 0.70
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATG
Found at i:57909 original size:92 final size:92
Alignment explanation
Indices: 57752--59016 Score: 1866
Period size: 92 Copynumber: 13.4 Consensus size: 92
57742 TATGCCAGCT
* * *
57752 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGTCAATGTGCTGATTTAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
57817 ACATTGGACTTAAAGAAAAAGGTGCCA
66 ACATTGGACTTAAAGATAAAGGTGCCA
* * * *
57844 ATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
* *
57909 ACATTGGACTTAAAGATGAAGATGCCA
66 ACATTGGACTTAAAGATAAAGGTGCCA
* * * *
57936 ATATGCTAATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT------GCCAATGTGCTGAGTCAAGG
*
58001 CCAGCTACATTGGTCTTAAAGATAAAGGTGCCA
60 CCAGCTACATTGGACTTAAAGATAAAGGTGCCA
* *
58034 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGCCAATGTGTTGAGTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
58099 ACATTGGACTTAAAGATAAAGGTGCCA
66 ACATTGGACTTAAAGATAAAGGTGCCA
* *
58126 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGAGTCAAGG
58191 CCAGCTACATTGGACTTAAAGATAAAGGTGCCA
60 CCAGCTACATTGGACTTAAAGATAAAGGTGCCA
58224 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
58289 ACATTGGACTTAAAGATAAAGGTGCCA
66 ACATTGGACTTAAAGATAAAGGTGCCA
* * *
58316 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGTCAATGTGCTGATTTAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
58381 ACATTGGACTTAAAGAAAAAGGTGCCA
66 ACATTGGACTTAAAGATAAAGGTGCCA
* * * *
58408 ATATGCTGATTCAAGGCCAGCGATA-TCGAGCTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGC
1 ATATGCTGATTCAAGGCCAGCTATATTGGA-CTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
* *
58472 TACATTGGACTTAAAGATGAAGATGCCA
65 TACATTGGACTTAAAGATAAAGGTGCCA
* * * *
58500 ATATGCTTATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT------GCCAATGTGCTGAGTCAAGG
*
58565 CCAGCTACATTGGTCTTAAAGATAAAGGTGCCA
60 CCAGCTACATTGGACTTAAAGATAAAGGTGCCA
* *
58598 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGCCAATGTGTTGAGTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
58663 ACATTGGACTTAAAGATGAAGGTGCCA
66 ACATTGGACTTAAAGATAAAGGTGCCA
* *
58690 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGAGTCAAGG
58755 CCAGCTACATTGGACTTAAAGATAAAGGTGCCA
60 CCAGCTACATTGGACTTAAAGATAAAGGTGCCA
58788 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
58853 ACATTGGACTTAAAGATAAAGGTGCCA
66 ACATTGGACTTAAAGATAAAGGTGCCA
58880 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGAGTCAAGG
*
58945 CCAGCTACATTGGTCTTAAAGATAAAGGTGCCA
60 CCAGCTACATTGGACTTAAAGATAAAGGTGCCA
*
58978 ATATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGG
59017 GTTGCCACTG
Statistics
Matches: 1077, Mismatches: 64, Indels: 63
0.89 0.05 0.05
Matches are distributed among these distances:
91 3 0.00
92 635 0.59
93 8 0.01
94 1 0.00
96 1 0.00
97 2 0.00
98 427 0.40
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
ACATTGGACTTAAAGATAAAGGTGCCA
Found at i:58070 original size:190 final size:190
Alignment explanation
Indices: 57752--59016 Score: 1998
Period size: 190 Copynumber: 6.7 Consensus size: 190
57742 TATGCCAGCT
* * *
57752 ATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGTCAATGTGCTGATTTAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
* * * *
57811 CCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
* * *
57876 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
131 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
* * * * * *
57936 ATATGCTAATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
*
58001 CCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
* *
58066 TAAAGATGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
131 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
* * *
58126 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
58191 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
58256 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
131 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
* * *
58316 ATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGTCAATGTGCTGATTTAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
* * *
58375 CCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA-TCGAGC
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA-C
* * * *
58439 TTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
130 TTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
* * * * * *
58500 ATATGCTTATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
*
58565 CCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
* * *
58630 TAAAGATGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
131 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
* * *
58690 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
58755 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
58820 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
131 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
58880 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
1 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
* *
58945 CCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
59010 TAGAAGG
131 TA-AAGG
59017 GTTGCCACTG
Statistics
Matches: 987, Mismatches: 79, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
183 3 0.00
184 194 0.20
186 1 0.00
190 782 0.79
191 7 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (190 bp):
ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
Found at i:59052 original size:32 final size:32
Alignment explanation
Indices: 59004--59143 Score: 205
Period size: 31 Copynumber: 4.4 Consensus size: 32
58994 CCAGCTATAT
*
59004 TGGGC-TTAGA-AGGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
59034 TGGGCTTTAGAGAGGGTTGCCATCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
59066 TGGGCTTT-GAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
59097 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGG-TTGCCACCGACTTGTG
59131 TGGGCTTTAGAGA
1 TGGGCTTTAGAGA
59144 AGGTGAAAGA
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.05
31 33 0.34
32 29 0.30
33 4 0.04
34 27 0.28
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:59102 original size:63 final size:65
Alignment explanation
Indices: 59015--59138 Score: 207
Period size: 63 Copynumber: 1.9 Consensus size: 65
59005 GGGCTTAGAA
** *
59015 GGGTTGCCACTGACTTGTGTGGGCTTTAGAG-AGGG-TTGCCATCGACTTGTGTGGGCTTTGAGG
1 GGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTTGAGG
59078 GGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTT
1 GGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTT
59139 AGAGAAGGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 29 0.52
64 4 0.07
65 23 0.41
ACGTcount: A:0.14, C:0.18, G:0.37, T:0.31
Consensus pattern (65 bp):
GGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTTGAGG
Found at i:59128 original size:34 final size:33
Alignment explanation
Indices: 59011--59146 Score: 206
Period size: 34 Copynumber: 4.2 Consensus size: 33
59001 TATTGGGCTT
*
59011 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
59044 AG-AGGGTTGCCATCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
59075 AG-GGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
59107 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
59141 AGAAGG
1 AGAAGG
59147 TGAAAGATGC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
31 28 0.30
32 29 0.31
33 5 0.05
34 31 0.33
ACGTcount: A:0.18, C:0.16, G:0.38, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:59260 original size:34 final size:34
Alignment explanation
Indices: 59149--59886 Score: 736
Period size: 34 Copynumber: 21.8 Consensus size: 34
59139 AGAGAAGGTG
* * *
59149 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
59182 CAAG-GTGCCACAGAGTTGTAGGCTTTAAAAAGGAAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGG--AA
*
59219 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
59253 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
59287 AAAGAGTGCCATGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
59320 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
59353 AAAGAGTGCCACGGAGTCGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
59387 AATA-A-TGCCACGAAGTCGTGGACTTAAAA-G--
1 AA-AGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
59417 ---G-GTGCCACGAAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
59446 AAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAA
1 AAAG-A-GTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*
59485 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
59520 AAAG-GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
* * *
59556 AAAGAGTGCTACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
59591 AAAGTGTGCCACAGAGTTGTGGGCTTAAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
** *
59624 AAAGAGTGCCACGGAGTCATGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
59659 AAAGTGTGCCACAGAGTTGTGGGCTTTAAACA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
*
59694 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
59728 AAAG-GTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAA-AGGAA
59762 AAA-AGTGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
*
59796 GAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
59830 GAAG-GTGCCACGGAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
59862 AAAG-GTGCCACGAAGTTGTGGGCTT
1 AAAGAGTGCCACGGAGTTGTGGGCTT
59887 TGAAGAAAAA
Statistics
Matches: 620, Mismatches: 50, Indels: 71
0.84 0.07 0.10
Matches are distributed among these distances:
27 21 0.03
28 1 0.00
32 29 0.05
33 128 0.21
34 240 0.39
35 97 0.16
36 26 0.04
37 53 0.09
38 20 0.03
39 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:59423 original size:27 final size:27
Alignment explanation
Indices: 59392--59444 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
59382 AGGAAAATAA
59392 TGCCACGAAGTCGTGGACTTAAAAGGG
1 TGCCACGAAGTCGTGGACTTAAAAGGG
* * *
59419 TGCCACGAAGTTGTGGGCTTAGAAGG
1 TGCCACGAAGTCGTGGACTTAAAAGG
59445 AAAAGAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (27 bp):
TGCCACGAAGTCGTGGACTTAAAAGGG
Found at i:59930 original size:30 final size:29
Alignment explanation
Indices: 59879--60011 Score: 167
Period size: 31 Copynumber: 4.3 Consensus size: 29
59869 CCACGAAGTT
*
59879 GTGGGCTTTGAAGAAAAAATGCCACTGAGTC
1 GTGGACTTTG-AG-AAAAATGCCACTGAGTC
59910 GTGGACTTTGAGACAAAATGCCACTGAGTC
1 GTGGACTTTGAGA-AAAATGCCACTGAGTC
*
59940 GTGGACTTTAAAGGAAAAGATGCCACTGAGTC
1 GTGGACTTT-GA-GAAAA-ATGCCACTGAGTC
*
59972 GTGGACTTTGAGAAGAGATTGCCACTGAGTC
1 GTGGACTTTGAGAA-A-AATGCCACTGAGTC
60003 GTGGACTTT
1 GTGGACTTT
60012 AAAAAGGTAT
Statistics
Matches: 92, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
29 1 0.01
30 30 0.33
31 36 0.39
32 25 0.27
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (29 bp):
GTGGACTTTGAGAAAAATGCCACTGAGTC
Found at i:59963 original size:62 final size:63
Alignment explanation
Indices: 59733--60014 Score: 209
Period size: 63 Copynumber: 4.4 Consensus size: 63
59723 AAGAAAAAGG
* * * * * *
59733 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 TGCCACTGAGTCGTGGACTTTAAAG--GAAAAAA-TGCCACTGAGTCGTGGACTTTGAGAAG-AG
59797 AA
62 AA
* * * * ** * * *
59799 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-A-AAGGA
1 --TGCCACTGAGTCGTGGACTTT-AAAGGAA-AAAATGCCACTGAGTCGTGGACTTTGAGAA-GA
*
59862 AAA
61 GAA
* * *
59865 GGTGCCAC-GAAGTTGTGGGCTTTGAA-GAAAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-
1 --TGCCACTG-AGTCGTGGACTTTAAAGGAAAAAATGCCACTGAGTCGTGGACTTTGAGA-AGAG
59926 AA
62 AA
* *
59928 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAAATGCCACTGAGTCGTGGACTTTGAGAAGAGAA
59991 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
60015 AAGGTATTTG
Statistics
Matches: 186, Mismatches: 16, Indels: 29
0.81 0.07 0.13
Matches are distributed among these distances:
61 20 0.11
62 33 0.18
63 47 0.25
64 5 0.03
65 4 0.02
66 27 0.15
67 2 0.01
68 41 0.22
69 4 0.02
70 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.23
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAAATGCCACTGAGTCGTGGACTTTGAGAAGAGAA
Found at i:59964 original size:93 final size:96
Alignment explanation
Indices: 59214--60016 Score: 375
Period size: 102 Copynumber: 8.1 Consensus size: 96
59204 CTTTAAAAAG
* *
59214 GAAAAAAAG-AGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC
1 GAAAACAAGAAGTGCCACGGAGTTGTGGACTTTA-AAGG-AAAAGA-TGCCAC-GAGTTGTGGGC
* * * *
59277 TTAGAAGGAA-AAAGAGTGCCA-TGGAGTTGTGGGCTTA
62 TTTGAA-GAAGAAA-A-TGCCACT-GAGTCGTGGACTTT
* * * *
59314 GAAGGAA-AAG-AGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTCGTGGAC
1 GAA--AACAAGAAGTGCCACGGAGTTGTGGACTTTAAAGGAAAAGA-TGCCAC-GAGTTGTGGGC
**
59377 TTAAAAGGAA-AATAATGCCAC-GAAGTCGTGGAC-TT
62 TTTGAA-GAAGAA-AATGCCACTG-AGTCGTGGACTTT
* * *
59412 ---AA-AAG-GGTGCCACGAAGTTGTGGGC-TTAGAAGGAAAAGAAGGTGCCACGGAGTTGTGGG
1 GAAAACAAGAAGTGCCACGGAGTTGTGGACTTTA-AAGGAAAAG-A--TGCCAC-GAGTTGTGGG
* * * *
59471 CTTT-AAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
61 CTTTGAAGAA--G--AAA-A-TGCCACTGAGTCGTGGACTTT
* * * * * *
59512 AAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCTACAGAGTTGTG
1 GAAAACAAGAA-GTGCCACGGAGTTGTGGACTTT--AAA-GG-AAAAGA-TGCCAC-GAGTTGTG
* * * *
59577 GGCTTT-AAAAAGAAAAAGTGTGCCACAGAGTTGTGGGC-TT
59 GGCTTTGAAGAAG-AAAA---TGCCACTGAGTCGTGGACTTT
* * ** * * *
59617 -AAAAGGAAAAGAGTGCCACGGAGTCATGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGG
1 GAAAA-CAAGA-AGTGCCACGGAGTTGTGGACTTT--AAAGGAAAAG-ATGCCAC-GAGTTGTGG
* * *
59681 GCTTT-AA-ACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
60 GCTTTGAAGA-AG-AAAA--TGCCACTGAGTCGTGGACTTT
* * * *
59720 AAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGG
1 GAAAACAAGAA-GTGCCACGGAGTTGTGGACTTTAAAG--GAAAAGA-TGCCAC-GAGTTGTGGG
* * *
59784 CTTTGAA-AAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
61 CTTTGAAGAAGAA-AA--TGCCACTGAGTCGTGGACTTT
* * *
59822 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGAAGTTGTGGGCTT
1 GAAAACAAGAA-GTGCCACGGAGTTGTGGACTTTAAAGGAAAAGATGCCACG-AGTTGTGGGCTT
59887 TGAAGAA-AAAATGCCACTGAGTCGTGGACTTT
64 TGAAGAAGAAAATGCCACTGAGTCGTGGACTTT
* * * * *
59919 G-AGACAA-AA-TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTT
1 GAAAACAAGAAGTGCCACGGAGTTGTGGACTTTAAAGGAAAAGATGCCAC-GAGTTGTGGGCTTT
* *
59981 G-AGAAGAGATTGCCACTGAGTCGTGGACTTT
65 GAAGAAGAAAATGCCACTGAGTCGTGGACTTT
*
60012 AAAAA
1 GAAAA
60017 GGTATTTGAA
Statistics
Matches: 596, Mismatches: 58, Indels: 104
0.79 0.08 0.14
Matches are distributed among these distances:
92 7 0.01
93 103 0.17
94 6 0.01
95 21 0.04
96 4 0.01
97 20 0.03
98 5 0.01
99 30 0.05
100 69 0.12
101 36 0.06
102 106 0.18
103 68 0.11
104 12 0.02
105 34 0.06
106 37 0.06
107 2 0.00
108 27 0.05
109 4 0.01
110 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (96 bp):
GAAAACAAGAAGTGCCACGGAGTTGTGGACTTTAAAGGAAAAGATGCCACGAGTTGTGGGCTTTG
AAGAAGAAAATGCCACTGAGTCGTGGACTTT
Found at i:59998 original size:31 final size:29
Alignment explanation
Indices: 59862--60011 Score: 158
Period size: 31 Copynumber: 4.9 Consensus size: 29
59852 CTTTAAAGGA
* * *
59862 AAAGGTGCCAC-GAAGTTGTGGGCTTTGAAG
1 AAAGATGCCACTG-AGTCGTGGACTTTG-AG
*
59892 AAAAAATGCCACTGAGTCGTGGACTTTGAG
1 -AAAGATGCCACTGAGTCGTGGACTTTGAG
* *
59922 ACAAAATGCCACTGAGTCGTGGACTTTAAAGG
1 A-AAGATGCCACTGAGTCGTGGACTTT-GA-G
59954 AAAAGATGCCACTGAGTCGTGGACTTTGAG
1 -AAAGATGCCACTGAGTCGTGGACTTTGAG
59984 AAGAGATTGCCACTGAGTCGTGGACTTT
1 AA-AGA-TGCCACTGAGTCGTGGACTTT
60012 AAAAAGGTAT
Statistics
Matches: 105, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.03
30 31 0.30
31 44 0.42
32 26 0.25
33 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (29 bp):
AAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:68229 original size:52 final size:52
Alignment explanation
Indices: 68144--68266 Score: 219
Period size: 52 Copynumber: 2.4 Consensus size: 52
68134 ATATGAAAAG
* *
68144 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
68196 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
68248 TTGCCTGCATGTATCGATA
1 TTGCCTGCATGTATCGATA
68267 TAAAGATCAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:68281 original size:52 final size:52
Alignment explanation
Indices: 68144--68289 Score: 197
Period size: 52 Copynumber: 2.8 Consensus size: 52
68134 ATATGAAAAG
* *
68144 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAAT
*** *
68196 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
*
68248 TTGCCTGCATGTATCGATATA-AAGATCAGTGTATCGATACAT
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACAT
68290 GTGAGTAATG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 80 0.95
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:68370 original size:33 final size:33
Alignment explanation
Indices: 68328--68397 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
68318 GGCAGTACCT
68328 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
68361 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
68394 TACA
1 TACA
68398 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:68371 original size:13 final size:13
Alignment explanation
Indices: 68353--68377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68343 CAAAAAAATA
68353 TGTATCGATACAT
1 TGTATCGATACAT
68366 TGTATCGATACA
1 TGTATCGATACA
68378 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:71620 original size:11 final size:11
Alignment explanation
Indices: 71604--71667 Score: 92
Period size: 11 Copynumber: 5.5 Consensus size: 11
71594 CCTTTACACC
71604 AAAAAAAAACA
1 AAAAAAAAACA
71615 AAAAAAAAACA
1 AAAAAAAAACA
71626 AAACAAAAAACA
1 AAA-AAAAAACA
71638 AAAAAAAAACA
1 AAAAAAAAACA
*
71649 AGAAAAAATAGCA
1 A-AAAAAA-AACA
71662 AAAAAA
1 AAAAAA
71668 TAGAAGGGTC
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
11 23 0.47
12 22 0.45
13 4 0.08
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:71637 original size:23 final size:23
Alignment explanation
Indices: 71605--71667 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
71595 CTTTACACCA
71605 AAAAAAAACAAAAAAAAAACAA-
1 AAAAAAAACAAAAAAAAAACAAG
71627 AACAAAAAACAAAAAAAAAACAAG
1 AA-AAAAAACAAAAAAAAAACAAG
*
71651 AAAAAATAGCAAAAAAA
1 AAAAAA-AACAAAAAAA
71668 TAGAAGGGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 2 0.05
23 24 0.65
24 11 0.30
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAAAAAAAAACAAG
Found at i:71667 original size:1 final size:1
Alignment explanation
Indices: 71604--71656 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
71594 CCTTTACACC
* * * * * *
71604 AAAAAAAAACAAAAAAAAAACAAAACAAAAAACAAAAAAAAAACAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
71657 TAGCAAAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:72927 original size:29 final size:29
Alignment explanation
Indices: 72885--73864 Score: 1114
Period size: 29 Copynumber: 33.9 Consensus size: 29
72875 AATGTTCATC
*
72885 CCTTTCACAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
72914 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** * *
72943 TTTTTCAAAGCCCATAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
72972 CTTTTTAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73000 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
73029 TTTTTCAAAGCCCACAAGTCAGCGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73058 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73087 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73115 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73144 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73173 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73202 CTTTTCAAAGCCTACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73230 CCTTTTAAAGCCCACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73259 CCTTTTAAAGCCCACAAGTCAGTAGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73288 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73317 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73346 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73374 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73402 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
73430 CCTTTCGAAGCCCACAAGTCAGTAGCA-A
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
73458 CCTTGCGAAGCCCACAATTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73486 TCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73514 CCTTTCAAAACCCACACAAGTCAGTGGCACT
1 CCTTTC-AAAGCC-CACAAGTCAGTGGCACT
*
73545 CCTTTTAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* * **
73575 CTTTTCAAAGCCTAGGAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73604 -CTTTCAAAGCCCACAAGTCAGTGGCA-G
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73631 CCTTTC-AAGCCCACGAGTCAGTGGTAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73658 CTTTTCAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* **
73687 -CTTTCAAAGCCCACAAGTCATTTTCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
73714 CTTTTCAAAGCCCACGAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
73742 TCTTTCAAAGCCCACGTAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCAC--AAGTCAGTGGCACT
* **
73772 CCTTTTAAAGCCCACGTAAGTCAGTAACACT
1 CCTTTCAAAGCCCAC--AAGTCAGTGGCACT
* *
73803 CTTTTCAAAGCCCACACGTGTCAGTGGCAACTT
1 CCTTTCAAAGCCCACA--AGTCAGTGGC-AC-T
** *
73836 TTTTTCAAAGCCTACACAAGTTAGTGGCA
1 CCTTTCAAAGCC--CACAAGTCAGTGGCA
73865 TATTTTTTTA
Statistics
Matches: 825, Mismatches: 100, Indels: 49
0.85 0.10 0.05
Matches are distributed among these distances:
27 24 0.03
28 317 0.38
29 350 0.42
30 68 0.08
31 39 0.05
32 3 0.00
33 20 0.02
35 4 0.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:73086 original size:115 final size:115
Alignment explanation
Indices: 72884--73864 Score: 1191
Period size: 115 Copynumber: 8.5 Consensus size: 115
72874 GAATGTTCAT
* * *
72884 CCCTTTCACAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
72949 AAAGCCCATAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTTAGTGGCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
72999 CCCTTTCAAAGCCCACAAATCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGCGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
73064 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
73114 CCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
*
73179 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCTACAAGTCAGTGGCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
73229 CCCTTTTAAAGCCCACAAGTTAGTGGCACTCCTTTT-AAAGCCCACAAGTCAGTAGCACTCTTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
*
73293 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
65 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
73344 CTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
* * * * *
73407 CAGAGCCCACAAGTCAGTGGCAC-CCTTTCGAAGCCCACAAGTCAGTAGCA
65 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * * *
73457 ACCTTGCGAAGCCCACAATTCAGTGGCATTC-TTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
*
73520 AAAACCCACACAAGTCAGTGGCACTCCTTTT-AAAGCCCACGCAAGTCAGTGGCA
66 AAAGCCCACA-AA-TCAGTGGCACT-CTTTTCAAAGCCCA--CAAGTCAGTGGCA
* * **
73574 CCTTTTCAAAGCCTAGGAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAGC-C-TTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTT
* * * *
73636 C-AAGCCCACGAGTCAGTGGTAC-CTTTTCAAAGCCCACGAGTCAGTGGCA
65 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * ** * *
73685 CTCTTTCAAAGCCCACAAGTCATTTTCA-TCTTTTCAAAGCCCACGAGTCAGTGGCATTC-TTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * **
73748 AAAGCCCACGTAAGTCAGTGGCACCCTTTT-AAAGCCCACGTAAGTCAGTAACA
66 AAAGCCCAC--AAATCAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGCA
* * * *
73801 CTCTTTTCAAAGCCCACACGTGTCAGTGGCAACTTTTTTTCAAAGCCTACACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-AC-TCTTTTCAAAGCC--CACAAGTCAGTGGCA
73865 TATTTTTTTA
Statistics
Matches: 756, Mismatches: 82, Indels: 47
0.85 0.09 0.05
Matches are distributed among these distances:
110 2 0.00
111 61 0.08
112 75 0.10
113 33 0.04
114 68 0.09
115 355 0.47
116 52 0.07
117 76 0.10
118 2 0.00
119 6 0.01
120 1 0.00
122 12 0.02
124 13 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (115 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:73862 original size:33 final size:33
Alignment explanation
Indices: 73804--73873 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
73794 AGTAACACTC
**
73804 TTTTCAAAGCCCACACGTGTCAGTGGCA-ACTTT
1 TTTTCAAAGCCCACACAAGTCAGTGGCATA-TTT
* *
73837 TTTTCAAAGCCTACACAAGTTAGTGGCATATTT
1 TTTTCAAAGCCCACACAAGTCAGTGGCATATTT
73870 TTTT
1 TTTT
73874 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (33 bp):
TTTTCAAAGCCCACACAAGTCAGTGGCATATTT
Found at i:74453 original size:20 final size:19
Alignment explanation
Indices: 74425--74499 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
74415 TTTTACCCTG
*
74425 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTAT-A
* *
74445 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTAT-A
*
74465 ATGTATCGATATATTCTATA
1 ATGTATCGATACATT-TATA
74485 ATGTATCGATACATT
1 ATGTATCGATACATT
74500 ATGTCTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTATA
Found at i:74492 original size:40 final size:39
Alignment explanation
Indices: 74425--74502 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
74415 TTTTACCCTG
*
74425 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTTATCAATATATCGATACAT-TATGA
* *
74465 ATGTATCGATATATTCTAT-AATGTATCGATACATTATG
1 ATGTATCGATACATT-TATCAATATATCGATACATTATG
74503 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 28 0.82
41 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTTATCAATATATCGATACATTATGA
Found at i:78142 original size:13 final size:13
Alignment explanation
Indices: 78110--78134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78100 GTGCCTATTG
78110 ATGATGATGTGGT
1 ATGATGATGTGGT
78123 ATGATGATGTGG
1 ATGATGATGTGG
78135 CTTGATGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (13 bp):
ATGATGATGTGGT
Found at i:79661 original size:16 final size:16
Alignment explanation
Indices: 79648--79702 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
79638 AAATATTTAT
79648 ATCATTTTCAATTTGG
1 ATCATTTTCAATTTGG
79664 ATCATTTTCAATTTGG
1 ATCATTTTCAATTTGG
* *
79680 ATCATTTTGAGTTTGG
1 ATCATTTTCAATTTGG
*
79696 ATTATTT
1 ATCATTT
79703 CAAGTTTGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (16 bp):
ATCATTTTCAATTTGG
Found at i:79684 original size:32 final size:32
Alignment explanation
Indices: 79648--79710 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
79638 AAATATTTAT
79648 ATCATTTTCAATTTGGATCATTTTCAA-TTTGG
1 ATCATTTTCAATTTGGATCA-TTTCAAGTTTGG
* * *
79680 ATCATTTTGAGTTTGGATTATTTCAAGTTTG
1 ATCATTTTCAATTTGGATCATTTCAAGTTTG
79711 AGTTATTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.51
Consensus pattern (32 bp):
ATCATTTTCAATTTGGATCATTTCAAGTTTGG
Found at i:79708 original size:16 final size:15
Alignment explanation
Indices: 79648--79710 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 15
79638 AAATATTTAT
79648 ATCATTTTCAATTTGG
1 ATCA-TTTCAATTTGG
79664 ATCATTTTCAATTTGG
1 ATCA-TTTCAATTTGG
* *
79680 ATCATTTTGAGTTTGG
1 ATCA-TTTCAATTTGG
*
79696 ATTATTTCAAGTTTG
1 ATCATTTCAA-TTTG
79711 AGTTATTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
15 4 0.10
16 37 0.90
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.51
Consensus pattern (15 bp):
ATCATTTCAATTTGG
Found at i:80208 original size:31 final size:30
Alignment explanation
Indices: 80170--80233 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
80160 ATTGAAACAG
*
80170 TATAAAATAAGAAA-TATATTTAAAAAATAAA
1 TATAAAATAAGAAATTATA-AT-AAAAATAAA
* *
80201 TATAAAATTATAAATTATAATAAAAATAAA
1 TATAAAATAAGAAATTATAATAAAAATAAA
80231 TAT
1 TAT
80234 CTATTTGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.41
31 13 0.45
32 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
TATAAAATAAGAAATTATAATAAAAATAAA
Found at i:81121 original size:31 final size:31
Alignment explanation
Indices: 81086--81166 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 31
81076 AAATTAATTT
* *
81086 AAATAAC-ATGATAAAAGATTATTATAATATA
1 AAATAACAATCAT-AAAGATTATTATAACATA
* *
81117 AAATATCAATCATTAAGATTATTATAACATA
1 AAATAACAATCATAAAGATTATTATAACATA
** * *
81148 AGGTATCAATCATTAAGAT
1 AAATAACAATCATAAAGAT
81167 GAAATGTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 39 0.91
32 4 0.09
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (31 bp):
AAATAACAATCATAAAGATTATTATAACATA
Found at i:81230 original size:83 final size:84
Alignment explanation
Indices: 81131--81294 Score: 267
Period size: 83 Copynumber: 2.0 Consensus size: 84
81121 ATCAATCATT
* * * *
81131 AAGATTATTATAACATAAGGTATCAATCATTAAGATGAAATGTCATTATGAGTACCATTGAACTT
1 AAGATTATTATAACATAAGGTATCAATCACTAAGATAAAATATCATTATCAGTACCATTGAACTT
81196 TTGTTCAACATTGCATAAG
66 TTGTTCAACATTGCATAAG
* *
81215 AAGA-TATTATGACATAAGGTATCAATCACTAAGATAAAATATCATTATCAGTACCATTGAGCTT
1 AAGATTATTATAACATAAGGTATCAATCACTAAGATAAAATATCATTATCAGTACCATTGAACTT
81279 TTGTTCAACATTGCAT
66 TTGTTCAACATTGCAT
81295 TTGAACTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
83 70 0.95
84 4 0.05
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (84 bp):
AAGATTATTATAACATAAGGTATCAATCACTAAGATAAAATATCATTATCAGTACCATTGAACTT
TTGTTCAACATTGCATAAG
Found at i:81303 original size:24 final size:24
Alignment explanation
Indices: 81271--81318 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
81261 ATCAGTACCA
*
81271 TTGAGCTTTTGTTCAACATTGCAT
1 TTGAACTTTTGTTCAACATTGCAT
81295 TTGAACTTTTGTTCAACATTGCAT
1 TTGAACTTTTGTTCAACATTGCAT
81319 AAGAAGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.46
Consensus pattern (24 bp):
TTGAACTTTTGTTCAACATTGCAT
Found at i:81315 original size:107 final size:107
Alignment explanation
Indices: 81188--81439 Score: 441
Period size: 107 Copynumber: 2.4 Consensus size: 107
81178 ATGAGTACCA
*
81188 TTGAACTTTTGTTCAACATTGCATAAGAAGATATTATGACATAAGGTATCAATCACTAAGATAAA
1 TTGAACTTTTGTTCAACATTGCATAAGAAGATATTATAACATAAGGTATCAATCACTAAGATAAA
81253 ATATCATTATCAGTACCATTGAGCTTTTGTTCAACATTGCAT
66 ATATCATTATCAGTACCATTGAGCTTTTGTTCAACATTGCAT
*
81295 TTGAACTTTTGTTCAACATTGCATAAGAAGATATTATAACATAAGGTATCAATCATTAAGATAAA
1 TTGAACTTTTGTTCAACATTGCATAAGAAGATATTATAACATAAGGTATCAATCACTAAGATAAA
*
81360 ATGTCATTATCAGTACCATTGAGCTTTTGTTCAACATTGCAT
66 ATATCATTATCAGTACCATTGAGCTTTTGTTCAACATTGCAT
* * * *
81402 TTGAACGTTTGTTTAACATTGCACAAGAAGATGTTATA
1 TTGAACTTTTGTTCAACATTGCATAAGAAGATATTATA
81440 CTTTTAAAAT
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 138 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (107 bp):
TTGAACTTTTGTTCAACATTGCATAAGAAGATATTATAACATAAGGTATCAATCACTAAGATAAA
ATATCATTATCAGTACCATTGAGCTTTTGTTCAACATTGCAT
Found at i:81642 original size:17 final size:18
Alignment explanation
Indices: 81616--81649 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
81606 AATATAATAT
81616 AAATTGAATTTAAAATTA
1 AAATTGAATTTAAAATTA
*
81634 AAATT-AATTTTAAATT
1 AAATTGAATTTAAAATT
81650 TATAGTCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AAATTGAATTTAAAATTA
Found at i:82994 original size:23 final size:23
Alignment explanation
Indices: 82966--83013 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
82956 ATGACCCAGC
*
82966 TTTTTCTTCTCCCCTTCTT-TCTT
1 TTTTTCTCCT-CCCTTCTTCTCTT
*
82989 TTTTTCTCCTTCCTTCTTCTCTT
1 TTTTTCTCCTCCCTTCTTCTCTT
83012 TT
1 TT
83014 CCCTTCCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTCTCCTCCCTTCTTCTCTT
Found at i:83003 original size:22 final size:22
Alignment explanation
Indices: 82965--83013 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
82955 TATGACCCAG
82965 CTTTTTCTTCTCCCCTTCTT-T
1 CTTTTTCTTCTCCCCTTCTTCT
82986 CTTTTT-TTCTCCTTCCTTCTTCT
1 CTTTTTCTTCTCC--CCTTCTTCT
83009 CTTTT
1 CTTTT
83014 CCCTTCCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.24
21 6 0.24
22 7 0.28
23 6 0.24
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (22 bp):
CTTTTTCTTCTCCCCTTCTTCT
Found at i:83005 original size:18 final size:19
Alignment explanation
Indices: 82977--83020 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
82967 TTTTCTTCTC
*
82977 CCCTTCTTTCTT-T-TTTT
1 CCCTTCCTTCTTCTCTTTT
82994 CTCCTTCCTTCTTCTCTTTT
1 C-CCTTCCTTCTTCTCTTTT
83014 CCCTTCC
1 CCCTTCC
83021 CAACCTCCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 7 0.30
20 5 0.22
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (19 bp):
CCCTTCCTTCTTCTCTTTT
Found at i:84002 original size:53 final size:52
Alignment explanation
Indices: 83928--84030 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 52
83918 AATAATCTTA
* * *
83928 TATATTAAATTAATTATTATATATAATTATATAAA-TAAGTATACTTATAAACT
1 TATATTAAATTAATAATTATATATAAATA-ATAAATTAAAT-TACTTATAAACT
83981 TATATTATAATTAA-AATTATATATAAATAATAAATTAAATTACTTATAAA
1 TATATTA-AATTAATAATTATATATAAATAATAAATTAAATTACTTATAAA
84031 AAATTTTCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
52 15 0.33
53 24 0.53
54 6 0.13
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (52 bp):
TATATTAAATTAATAATTATATATAAATAATAAATTAAATTACTTATAAACT
Found at i:84902 original size:16 final size:16
Alignment explanation
Indices: 84883--84919 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
84873 TTATACTTAA
*
84883 TTTAAATTTGAATTAT
1 TTTAAATTTAAATTAT
*
84899 TTTAAGTTTAAATTAT
1 TTTAAATTTAAATTAT
84915 TTTAA
1 TTTAA
84920 TTTTTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (16 bp):
TTTAAATTTAAATTAT
Found at i:84921 original size:25 final size:25
Alignment explanation
Indices: 84888--84943 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
84878 CTTAATTTAA
* * *
84888 ATTTGAATTATTTT-AAGTTTAAATT
1 ATTTTAATTATTTTGAA-TTCAAATC
*
84913 ATTTTAATTTTTTTGAATTCAAATC
1 ATTTTAATTATTTTGAATTCAAATC
84938 ATTTTA
1 ATTTTA
84944 GATTTGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (25 bp):
ATTTTAATTATTTTGAATTCAAATC
Found at i:85027 original size:10 final size:11
Alignment explanation
Indices: 85010--85039 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
85000 ATTTTTAACG
85010 TCAAATCAAAT
1 TCAAATCAAAT
85021 T-AAATCAAAT
1 TCAAATCAAAT
85031 TCAAATCAA
1 TCAAATCAA
85040 TCAAATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (11 bp):
TCAAATCAAAT
Found at i:85046 original size:15 final size:16
Alignment explanation
Indices: 85010--85046 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
85000 ATTTTTAACG
85010 TCAAA-TCAAATTAAA
1 TCAAATTCAAATTAAA
*
85025 TCAAATTCAAA-TCAA
1 TCAAATTCAAATTAAA
85040 TCAAATT
1 TCAAATT
85047 GATTTTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (16 bp):
TCAAATTCAAATTAAA
Found at i:86491 original size:73 final size:73
Alignment explanation
Indices: 86372--86516 Score: 229
Period size: 73 Copynumber: 2.0 Consensus size: 73
86362 TAAATCTGTT
* * * *
86372 AATACAATCTTGAGAGGTTCGGGTCTAGCAGAGGGAATTGGCTTGAACTTCGAGTATTGAA-CTT
1 AATACAATCTTGAGAGGTCCGGGTCTAACAAAGGGAATTGGCTTGAACTTCAAGTATT-AACCTT
86436 CCAATGAGG
65 CCAATGAGG
*
86445 AATACAATCTTGAGAGGTCCGGGTCTAACAAAGGGAATTGGCTTGAACTTCAAGTGTTAACCTTC
1 AATACAATCTTGAGAGGTCCGGGTCTAACAAAGGGAATTGGCTTGAACTTCAAGTATTAACCTTC
86510 CAATGAG
66 CAATGAG
86517 AAATGCAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 2 0.03
73 64 0.97
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (73 bp):
AATACAATCTTGAGAGGTCCGGGTCTAACAAAGGGAATTGGCTTGAACTTCAAGTATTAACCTTC
CAATGAGG
Found at i:96794 original size:20 final size:20
Alignment explanation
Indices: 96765--96840 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
96755 AAAAAGACAT
*
96765 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
96785 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
96805 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
96825 AATGTATCGATACATT
1 AATGTATCGATACATT
96841 AGGGTAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 43 0.93
21 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:96833 original size:40 final size:39
Alignment explanation
Indices: 96762--96840 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
96752 GGTAAAAAGA
* *
96762 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
96801 CATACATGTATCGATATATTGAAAAATGTATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACATT
96841 AGGGTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:97326 original size:45 final size:47
Alignment explanation
Indices: 97218--97426 Score: 198
Period size: 45 Copynumber: 4.5 Consensus size: 47
97208 GACGATTACT
** * *
97218 AATGTGCCAATTCAAGGCCAGCGACTTTG-GACTAAGGGAAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAG-CTAA-GGTAAAGTGGAC
*
97266 TAATGTGCTGA-TCAAGGCCAGCGACATTGGGCT-A-GTAAAGTGGAC
1 -AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGTAAAGTGGAC
* * * * ** *
97311 AACGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAATCAAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGTAAAGTGGAC
*
97358 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAG-GTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGTAAAGTG-GAC
* *
97403 AATATGCTGATTCAATGCCAGCGA
1 AATGTGCTGATTCAAGGCCAGCGA
97427 TATCGGATTT
Statistics
Matches: 133, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
44 9 0.07
45 55 0.41
46 1 0.01
47 40 0.30
48 19 0.14
49 9 0.07
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (47 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGTAAAGTGGAC
Found at i:97377 original size:47 final size:47
Alignment explanation
Indices: 97218--97392 Score: 178
Period size: 47 Copynumber: 3.7 Consensus size: 47
97208 GACGATTACT
** * **
97218 AATGTGCCAATTCAAGGCCAGCGACTTTG-GACTAAGGGAAAAGTGGACT
1 AATGTGCTGATTCAAGGCCAGCGACATTGAG-CTAAGGGAAAA-T-GAAA
* * * * *
97267 AATGTGCTGA-TCAAGGCCAGCGACATTGGGCT-A-GTAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAATGAAA
* * *
97311 AACGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAATCAAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAATGAAA
97358 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
97393 TAAAGGTGCC
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
44 10 0.10
45 21 0.20
46 5 0.05
47 40 0.38
48 19 0.18
49 9 0.09
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (47 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAATGAAA
Found at i:97411 original size:92 final size:93
Alignment explanation
Indices: 97227--97424 Score: 242
Period size: 92 Copynumber: 2.1 Consensus size: 93
97217 TAATGTGCCA
* * * **
97227 ATTCAAGGCCAGCGACTTTGGACTAAGGGAAAAGTGGACTAATGTGCTGATCAAGGCCAGCGACA
1 ATTCAAGGCCAGCAACATTGGACTAAGGGAAAAGTGCAAAAATGTGCTGATCAAGGCCAGCGACA
* * *
97292 TTGGGCTAGTAAAGTGGACAACGTGCTG
66 TTGAGCTAATAAAGTGGACAACATGCTG
97320 ATTCAAGGCCAGCAACATT-GAGCTAAGGGAAAA-T-CAAAAATGTGCTGATTCAAGGCCAGCGA
1 ATTCAAGGCCAGCAACATTGGA-CTAAGGGAAAAGTGCAAAAATGTGCTGA-TCAAGGCCAGCGA
* *
97382 CATTGAGCTAATAAAG-GTGCCAATATGCTG
64 CATTGAGCTAATAAAGTG-GACAACATGCTG
*
97412 ATTCAATGCCAGC
1 ATTCAAGGCCAGC
97425 GATATCGGAT
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
91 12 0.13
92 51 0.56
93 28 0.31
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (93 bp):
ATTCAAGGCCAGCAACATTGGACTAAGGGAAAAGTGCAAAAATGTGCTGATCAAGGCCAGCGACA
TTGAGCTAATAAAGTGGACAACATGCTG
Found at i:97563 original size:28 final size:28
Alignment explanation
Indices: 97517--99010 Score: 806
Period size: 28 Copynumber: 51.5 Consensus size: 28
97507 CACTAACTTC
*
97517 TGTGGGCTTT-CAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
*
97545 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
97573 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
97601 CGTGGGCTTTGAAAAGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
97629 CATGGGCTTTGAAAAGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
97657 TGTGGGCTTGGAAAAGATACCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
97685 TGTGGGTTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
97713 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
97741 TGTGGGCTTTGAAAGGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
97769 CGTGGGCTTTGAAAAGTTG-C-C--A--
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
97791 --TGGGCTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
97817 TGTGGGCTTGGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
97845 TGTGGCCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
97873 TGTGGGCTTTGAAAAGAAGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
97901 TGTGAGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
*
97932 GTGTGGGCTTTGAAAGGATGCCACAGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
** *
97961 TACGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
97989 TGTAGGCTTTGAAAAGATGCCACCGACTT
1 TGTGGGCTTTGAAAGGATGCCACTGAC-T
* * *
98018 GTGTGGGCTTTGAAATGGGTTGCTAC-CACCTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGA-C-T
* *
98050 GTGTGGGCTTTGAAATGAGTTCCCACTGACT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGACT
* * **
98081 TGTATGGGCTTTCAAATGGGTTGCCACCAACTT
1 TG--TGGGCTTTGAAA--GGATGCCACTGAC-T
* **
98114 GTGTGGGCTTTGAAATAGGTTGCCACCAACTT
1 -TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* * **
98146 GTGTGGGCTTTCAAATGAGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
* * **
98178 GTGTGGGCTTTGAAGTAAGTTGCCACCAACTT
1 -TGTGGGCTTTGAA--AGGATGCCACTGAC-T
* * *
98210 GTGTGGGCTTTGAAGTAAGTTGCCACTAACT
1 -TGTGGGCTTTGAA--AGGATGCCACTGACT
* **
98241 TGTGTAGGCTTT-AAAGTGGGTTGCCACCAACTT
1 TGTG--GGCTTTGAAA---GGATGCCACTGAC-T
** **
98274 GTGTGGGCTTTGAAATAACTTGCCACCAACT
1 -TGTGGGCTTTGAAAGGA--TGCCACTGACT
* **
98305 TGTGTAGGCTTTGAAATGGGTTGCCACCAACTT
1 TGTG--GGCTTTGAAA--GGATGCCACTGAC-T
* * **
98338 GTGTGGGCTTTGAAATAAGTTGCCACCAACTT
1 -TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* **
98370 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* *
98402 GTGTGGGCTTTGAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
*
98434 GTGTGGGCTTTG-AA-GATGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
98461 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * *
98489 CGCGTGGGCCTTGAAAAGATGCCACTAACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
98519 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
98547 CGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
98575 TGTGGGCTTTGAAAAGAAGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
98603 TGTGAGCATTGAAATGGGTTGCCACTGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
98634 GTGTGGGCTTTGAAAGGATGCCACTGACTT
1 -TGTGGGCTTTGAAAGGATGCCACTGAC-T
*
98664 ATGTTGGCTTT-AAGAGGAGTGCCACTGACT
1 -TGTGGGCTTTGAA-AGGA-TGCCACTGACT
*
98694 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
98722 TGTGGACTTTG-AAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* ** * *
98750 TGTGGACTTAAAAAGG-T-CCTACAGAGT
1 TGTGGGCTTTGAAAGGATGCC-ACTGACT
* * ** *
98777 TGTAGACTTAAAAAGG-TGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * * * *
98804 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
98831 TGTGGACTTTAAAAGG-TGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
98858 TGTGGACTTTAAAAGGGTACCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
98886 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
98913 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
98941 TGTAGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
98968 TGTGGACTTTAAAAAGAAATGCCACTGAAT
1 TGTGGGCTTT-GAAAG-GATGCCACTGACT
* *
98998 CGTGGACTTTGAA
1 TGTGGGCTTTGAA
99011 GAGGTCACAG
Statistics
Matches: 1239, Mismatches: 148, Indels: 157
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.01
21 1 0.00
22 1 0.00
24 2 0.00
26 22 0.02
27 137 0.11
28 530 0.43
29 32 0.03
30 126 0.10
31 29 0.02
32 320 0.26
33 12 0.01
34 13 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:97809 original size:20 final size:20
Alignment explanation
Indices: 97771--97810 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
97761 TACTGACTCG
* *
97771 TGGGCTTTGAAAAGTTGCCA
1 TGGGCTTGGAAAAGATGCCA
*
97791 TGGGCTTGGAAAGGATGCCA
1 TGGGCTTGGAAAAGATGCCA
97811 CTGACTTGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (20 bp):
TGGGCTTGGAAAAGATGCCA
Found at i:97838 original size:48 final size:48
Alignment explanation
Indices: 97743--97838 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
97733 CACCGACTTG
* * * *
97743 TGGGCTTTGAAAGGATGCTACTGACTCGTGGGCTTTGAAAAGTTGCCA
1 TGGGCTTGGAAAGGATGCCACTGACTCGTGGGCTTGGAAAAGGTGCCA
* *
97791 TGGGCTTGGAAAGGATGCCACTGACTTGTGGGCTTGGAAAGGGTGCCA
1 TGGGCTTGGAAAGGATGCCACTGACTCGTGGGCTTGGAAAAGGTGCCA
97839 CTGACTTGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (48 bp):
TGGGCTTGGAAAGGATGCCACTGACTCGTGGGCTTGGAAAAGGTGCCA
Found at i:97842 original size:76 final size:76
Alignment explanation
Indices: 97715--97858 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 76
97705 CACTAACTTG
* * * *
97715 TGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAGGATGCTACTGACTCGTGGGCTTTG
1 TGGGCTTGGAAAAGATGCCACCGACTTGTGGGCTTGGAAAGGATGCCACTGACTCGTGGCCTTTG
97780 AAAAGTTGCCA
66 AAAAGTTGCCA
* * * *
97791 TGGGCTTGGAAAGGATGCCACTGACTTGTGGGCTTGGAAAGGGTGCCACTGACTTGTGGCCTTTG
1 TGGGCTTGGAAAAGATGCCACCGACTTGTGGGCTTGGAAAGGATGCCACTGACTCGTGGCCTTTG
97856 AAA
66 AAA
97859 GGGTGTCACT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (76 bp):
TGGGCTTGGAAAAGATGCCACCGACTTGTGGGCTTGGAAAGGATGCCACTGACTCGTGGCCTTTG
AAAAGTTGCCA
Found at i:97878 original size:104 final size:104
Alignment explanation
Indices: 97695--97888 Score: 291
Period size: 104 Copynumber: 1.9 Consensus size: 104
97685 TGTGGGTTTT
* * *
97695 GAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAGGATG
1 GAAAGGATGCCACTAACTTGTGGGCTTGGAAAAGATGCCACCGACTTGTGGCCTTTGAAAGGATG
97760 CTACTGACTCGTGGGCTTTGAAAAGTTGCCATGGGCTTG
66 CTACTGACTCGTGGGCTTTGAAAAGTTGCCATGGGCTTG
* * * * *
97799 GAAAGGATGCCACTGACTTGTGGGCTTGGAAAGGGTGCCACTGACTTGTGGCCTTTGAAAGGGTG
1 GAAAGGATGCCACTAACTTGTGGGCTTGGAAAAGATGCCACCGACTTGTGGCCTTTGAAAGGATG
*
97864 -TCACTGACTTGTGGGCTTTGAAAAG
66 CT-ACTGACTCGTGGGCTTTGAAAAG
97889 AAGCCACCGA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 1 0.01
104 79 0.99
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.27
Consensus pattern (104 bp):
GAAAGGATGCCACTAACTTGTGGGCTTGGAAAAGATGCCACCGACTTGTGGCCTTTGAAAGGATG
CTACTGACTCGTGGGCTTTGAAAAGTTGCCATGGGCTTG
Found at i:98056 original size:32 final size:32
Alignment explanation
Indices: 97873--98648 Score: 671
Period size: 32 Copynumber: 25.4 Consensus size: 32
97863 GTCACTGACT
** *
97873 TGTGGGCTTTGAAA--AGAAGCCACCGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * *
97901 TGTGAGCTTTGAAATGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
97933 TGTGGGCTTTGAAA-G-GATGCCA-CAGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCA-ACTTG
** * * **
97961 TACGGGCTTTGAAA-G-GATACCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * *
97989 TGTAGGCTTTGAAA--AGATGCCACCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * *
98019 TGTGGGCTTTGAAATGGGTTGCTACCACCTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* **
98051 TGTGGGCTTTGAAATGAGTTCCCACTGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * *
98083 TATGGGCTTTCAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
98115 TGTGGGCTTTGAAAT-AGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGA-GTTGCCACCAACTTG
*
98147 TGTGGGCTTTCAAATGAGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* *
98179 TGTGGGCTTTGAAGTAAGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * *
98211 TGTGGGCTTTGAAGTAAGTTGCCACTAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* *
98243 TGTAGGCTTT-AAAGTGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAA-TGAGTTGCCACCAACTTG
* *
98275 TGTGGGCTTTGAAATAACTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* *
98307 TGTAGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
98339 TGTGGGCTTTGAAATAAGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
98371 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
98403 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
98435 TGTGGGCTTTG-AA-GA--TGCCACTAAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
** *
98461 TGTGGGCTTTGAAA-GAG-TGCCACTGACTCG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * * *
98491 CGTGGGCCTTGAAA--AGATGCCACTAAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
**
98519 TGTGGGCTTTGAAA-GAG-TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * * **
98547 CGTGGGCTTT-AAAAG-GGTGCCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
** *
98575 TGTGGGCTTTGAAA--AGAAGCCACCGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* * * **
98603 TGTGAGCATTGAAATGGGTTGCCACTGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
98635 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
98649 GGATGCCACT
Statistics
Matches: 632, Mismatches: 87, Indels: 54
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.02
27 9 0.01
28 147 0.23
29 10 0.02
30 63 0.10
31 7 0.01
32 381 0.60
33 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
Found at i:98779 original size:27 final size:27
Alignment explanation
Indices: 98682--98983 Score: 313
Period size: 27 Copynumber: 11.0 Consensus size: 27
98672 TTTAAGAGGA
* * * * *
98682 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACGGAGTTGTGGAC-TTAAAAAG
* * ** *
98710 GTGCCACTGACTTGTGGACTTTGAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAAG
* *
98737 AGTGCCACTGACTTGTGGACTTAAAAAG
1 -GTGCCACGGAGTTGTGGACTTAAAAAG
* *
98765 GT-CCTACAGAGTTGTAGACTTAAAAAG
1 GTGCC-ACGGAGTTGTGGACTTAAAAAG
* *
98792 GTGCCACGAAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAAG
*
98819 GTGCCACGGAGTTGTGGACTTTAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAAG
*
98846 GTGCCACGGAGTTGTGGACTTTAAAAGG
1 GTGCCACGGAGTTGTGGAC-TTAAAAAG
*
98874 GTACCACGGAGTTGTGGACTT-AAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAAG
*
98900 GATGCCACGGAGTTGTGGACTTTAAAAG
1 G-TGCCACGGAGTTGTGGACTTAAAAAG
* *
98928 GATGCCACAGAGTTGTAGACTT-AAAAG
1 G-TGCCACGGAGTTGTGGACTTAAAAAG
98955 GATGCCACGGAGTTGTGGACTTTAAAAAG
1 G-TGCCACGGAGTTGTGGAC-TTAAAAAG
98984 AAATGCCACT
Statistics
Matches: 241, Mismatches: 25, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.03
27 134 0.56
28 95 0.39
29 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (27 bp):
GTGCCACGGAGTTGTGGACTTAAAAAG
Found at i:98871 original size:82 final size:81
Alignment explanation
Indices: 98709--98981 Score: 361
Period size: 82 Copynumber: 3.3 Consensus size: 81
98699 GCTTTGAAAG
* * ** * * *
98709 GGTGCCACTGACTTGTGGACTTTGAAGGAGTGCCACTGACTTGTGGACTTAAAAAGGT-CCTACA
1 GGTGCCACGGAGTTGTGGACTTAAAAGG-GTGCCACGGAGTTGTGGACTTTAAAAGGTGCC-ACA
98773 GAGTTGTAGACTTAAAAA
64 GAGTTGTAGACTTAAAAA
* *
98791 GGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACGGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACAGA
* *
98856 GTTGTGGACTTTAAAAG
66 GTTGTAGAC-TTAAAAA
* *
98873 GGTACCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACAG
98938 AGTTGTAGACTT-AAAA
65 AGTTGTAGACTTAAAAA
98954 GGATGCCACGGAGTTGTGGACTTTAAAA
1 GG-TGCCACGGAGTTGTGGAC-TTAAAA
98982 AGAAATGCCA
Statistics
Matches: 168, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
81 43 0.26
82 103 0.61
83 22 0.13
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (81 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACAGA
GTTGTAGACTTAAAAA
Found at i:98881 original size:55 final size:55
Alignment explanation
Indices: 98682--98981 Score: 358
Period size: 55 Copynumber: 5.5 Consensus size: 55
98672 TTTAAGAGGA
* * * * * * * *
98682 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGACTTTGAAGG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
* * * * *
98737 AGTGCCACTGACTTGTGGAC-TTAAAAAGGT-CCTACAGAGTTGTAGACTTAAAAAG
1 -GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCC-ACAGAGTTGTGGACTTTAAAAG
* *
98792 GTGCCACGAAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
* *
98846 GTGCCACGGAGTTGTGGACTTTAAAAGGGTACCACGGAGTTGTGGAC-TTAAAAG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
* *
98900 GATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTAGAC-TTAAAAG
1 G-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
98955 GATGCCACGGAGTTGTGGACTTTAAAA
1 G-TGCCACGGAGTTGTGGACTTTAAAA
98982 AGAAATGCCA
Statistics
Matches: 218, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
54 72 0.33
55 128 0.59
56 18 0.08
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (55 bp):
GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
Found at i:100025 original size:9 final size:9
Alignment explanation
Indices: 100011--100035 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
100001 AAAAGGTTTT
100011 TTTTTTTGG
1 TTTTTTTGG
100020 TTTTTTTGG
1 TTTTTTTGG
100029 TTTTTTT
1 TTTTTTT
100036 TAGGATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTTTGG
Found at i:100345 original size:23 final size:24
Alignment explanation
Indices: 100319--100364 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
100309 TGCTTTTGCA
*
100319 CTTTTTCTTTTCA-TTTTTTTGTG
1 CTTTTGCTTTTCACTTTTTTTGTG
*
100342 CTTTTGCTTTTGACTTTTTTTGT
1 CTTTTGCTTTTCACTTTTTTTGT
100365 CATTTAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.72
Consensus pattern (24 bp):
CTTTTGCTTTTCACTTTTTTTGTG
Found at i:107441 original size:20 final size:20
Alignment explanation
Indices: 107412--107486 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
107402 AAAAAGACAT
*
107412 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
107432 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
107452 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
107472 AATGTATCGATACAT
1 AATGTATCGATACAT
107487 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:107480 original size:40 final size:39
Alignment explanation
Indices: 107409--107486 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
107399 GGTAAAAAGA
* *
107409 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
107448 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
107487 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:112629 original size:20 final size:20
Alignment explanation
Indices: 112603--112657 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
112593 AAAAAGACAG
* *
112603 AATGTATCGATACATTCATA
1 AATGTATCGATACATTAAAA
*
112623 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
*
112643 AATATATCGATACAT
1 AATGTATCGATACAT
112658 CTAGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:118174 original size:39 final size:38
Alignment explanation
Indices: 118065--118195 Score: 118
Period size: 38 Copynumber: 3.4 Consensus size: 38
118055 CAATCGTGCT
* * *
118065 ACCGATTAAAAATAGTGATTTTTATTTCAAATCTTGCC
1 ACCGATTAAGAATAGTGATTTTTATTTCGAACCTTGCC
* * * * * *
118103 ACCAATTTAGAATAATGATTTTTGTTTTGAACCTTTGTC
1 ACCGATTAAGAATAGTGATTTTTATTTCGAACC-TTGCC
* * * *
118142 ATCGATTAAGAATAGTGGTTTTTATTTCGAACCATGGC
1 ACCGATTAAGAATAGTGATTTTTATTTCGAACCTTGCC
* *
118180 ACCAATTGAGAATAGT
1 ACCGATTAAGAATAGT
118196 AGTTTTTGTT
Statistics
Matches: 71, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
38 41 0.58
39 30 0.42
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (38 bp):
ACCGATTAAGAATAGTGATTTTTATTTCGAACCTTGCC
Found at i:118202 original size:77 final size:76
Alignment explanation
Indices: 118067--118218 Score: 189
Period size: 77 Copynumber: 2.0 Consensus size: 76
118057 ATCGTGCTAC
* * * *
118067 CGATTAAAAATAGTGATTTTTATTTCAAATCTTGCCACCAATTTAGAATAATGATTTTTGTTTTG
1 CGATTAAAAATAGTGATTTTTATTTCAAACCATGCCACCAATTGAGAATAATGATTTTTGTTAT-
*
118132 AACCTTTGTCAT
65 AACCTATGTCAT
* * * * *
118144 CGATTAAGAATAGTGGTTTTTATTTCGAACCATGGCACCAATTGAGAATAGT-AGTTTTTGTTAT
1 CGATTAAAAATAGTGATTTTTATTTCAAACCATGCCACCAATTGAGAATAATGA-TTTTTGTTAT
118208 AACCTATGTCA
65 AACCTATGTCA
118219 CAGGGGTTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
76 11 0.17
77 53 0.83
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (76 bp):
CGATTAAAAATAGTGATTTTTATTTCAAACCATGCCACCAATTGAGAATAATGATTTTTGTTATA
ACCTATGTCAT
Found at i:125221 original size:21 final size:21
Alignment explanation
Indices: 125196--125254 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
125186 ATACAAGTGA
* *
125196 AAATGTATTGATACATTATGT
1 AAATGTATCGATACATCATGT
125217 AAATGTATCGATACATCATGT
1 AAATGTATCGATACATCATGT
* *
125238 AAATATATGGATACATC
1 AAATGTATCGATACATC
125255 TTGTTGGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
AAATGTATCGATACATCATGT
Found at i:125318 original size:20 final size:19
Alignment explanation
Indices: 125293--125365 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
125283 AACCCTCATT
125293 TGTATCGATACATATGAAAA
1 TGTATCGATACATAT-AAAA
* *
125313 TGTATCGATACAATATAGAT
1 TGTATCGATAC-ATATAAAA
*
125333 TATATCGATACATCCAT-AAA
1 TGTATCGATACAT--ATAAAA
125353 TGTATCGATACAT
1 TGTATCGATACAT
125366 TGAGTTCAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.05
20 36 0.82
21 6 0.14
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATATAAAA
Found at i:126950 original size:3 final size:3
Alignment explanation
Indices: 126942--126975 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
126932 ACCACTCAAA
126942 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
126976 GGTTAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:132252 original size:52 final size:51
Alignment explanation
Indices: 132195--132332 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 51
132185 TCATTTGCAT
* * * *
132195 GTATCGATACATTGAAGAATGTATCGATACTTTTGGGTCAAAAACTCAGAAC
1 GTATCGATACAATGAA-AATGTATCGATACTTTTAGATCAAAAACCCAGAAC
* * *
132247 GTATCGATACAATAAATAATGTATCGATACATTTAGATCAAAAACCCAGAAT
1 GTATCGATACAATGAA-AATGTATCGATACTTTTAGATCAAAAACCCAGAAC
* *
132299 GTATTGATACAATGAAAAAGTATCGATACATTTT
1 GTATCGATACAATGAAAATGTATCGATAC-TTTT
132333 TTTCCAAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 12 0.16
52 61 0.84
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (51 bp):
GTATCGATACAATGAAAATGTATCGATACTTTTAGATCAAAAACCCAGAAC
Found at i:132486 original size:21 final size:21
Alignment explanation
Indices: 132460--132519 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
132450 TGGGACCTTA
132460 TATCGATACATGTAAGGCATG
1 TATCGATACATGTAAGGCATG
132481 TATCGATACATGTAAGGCATG
1 TATCGATACATGTAAGGCATG
132502 TATCGATACATGT-AGGCA
1 TATCGATACATGTAAGGCA
132520 AAAATAGGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 5 0.13
21 34 0.87
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (21 bp):
TATCGATACATGTAAGGCATG
Found at i:134185 original size:10 final size:10
Alignment explanation
Indices: 134166--134195 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
134156 ACTATCAAGC
*
134166 ACCCTACCTA
1 ACCCTGCCTA
134176 ACCCTGCCTA
1 ACCCTGCCTA
134186 ACCCTGCCTA
1 ACCCTGCCTA
134196 CACCACCCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.50, G:0.07, T:0.20
Consensus pattern (10 bp):
ACCCTGCCTA
Found at i:134637 original size:18 final size:18
Alignment explanation
Indices: 134614--134649 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
134604 TGCTCTTTTG
134614 ACTTTGTTTACCTACCTA
1 ACTTTGTTTACCTACCTA
134632 ACTTTGTTTACCTACCTA
1 ACTTTGTTTACCTACCTA
134650 CTCTAGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (18 bp):
ACTTTGTTTACCTACCTA
Found at i:136493 original size:20 final size:20
Alignment explanation
Indices: 136468--136539 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
136458 AACCCTCATT
136468 TGTATCGATACACATGA-AAA
1 TGTATCGATACACAT-ACAAA
*
136488 TGTATCGATACA-ATACAGAT
1 TGTATCGATACACATACA-AA
*
136508 TGTATCGATACATC-TATAAA
1 TGTATCGATACA-CATACAAA
136528 TGTATCGATACA
1 TGTATCGATACA
136540 TTGAGTTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 38 0.84
21 3 0.07
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (20 bp):
TGTATCGATACACATACAAA
Found at i:136874 original size:127 final size:127
Alignment explanation
Indices: 136732--137232 Score: 824
Period size: 127 Copynumber: 3.9 Consensus size: 127
136722 TAAAGAACAT
* * * *
136732 AAGAAGAGAAGGAAAATTCATCATTGAACATTTAAGAGCTCAGAATCAATTTCTTCACATCAATT
1 AAGAAGAGAAGGAAAATTTATCATTGAACATTCAAGAGCTCAAAATCAAGTTCTTCACATCAATT
* * *
136797 GTATTCATTTCTTGCTATTCTAAGTTCATTTGTATCTCTTCCATTATTGTACTTAGAATATC
66 GTATTCATTTCTTGATATTCTAAGTTCATTTGTATCTCCTCCATTGTTGTACTTAGAATATC
* * * * *
136859 AAGAAGAGAGGGAAAATTTATAATTAAACATTCAACA-CTTCAAAATCAAGTTTTTCACATCAAT
1 AAGAAGAGAAGGAAAATTTATCATTGAACATTCAAGAGC-TCAAAATCAAGTTCTTCACATCAAT
*
136923 TGTATTCATTTCTTGATATTCTAAGTTCATTTGTATCTCTTCCATTGTTGTACTTAGAATATC
65 TGTATTCATTTCTTGATATTCTAAGTTCATTTGTATCTCCTCCATTGTTGTACTTAGAATATC
*
136986 AAGAAGAGAAGGAAAATTTATCGTTGAACATTCAAGAGCTCAAAATCAAGTTCTTCACATCAATT
1 AAGAAGAGAAGGAAAATTTATCATTGAACATTCAAGAGCTCAAAATCAAGTTCTTCACATCAATT
137051 GTATTCATTTCTTGATATTCTAAGTTCATTTGTATCTCCTCCATTGTTGTACTTAGAATATC
66 GTATTCATTTCTTGATATTCTAAGTTCATTTGTATCTCCTCCATTGTTGTACTTAGAATATC
* * *
137113 AAGAAAAGAGGGAAAATTTATCATTGAACATTCAAAAGCTCAAAATCAAGTTCTTCACATCAATT
1 AAGAAGAGAAGGAAAATTTATCATTGAACATTCAAGAGCTCAAAATCAAGTTCTTCACATCAATT
*
137178 GTATTCATTTCTTGATATTCTAAATTCATTTGTATCTCCTCCATTGTTGTACTTA
66 GTATTCATTTCTTGATATTCTAAGTTCATTTGTATCTCCTCCATTGTTGTACTTA
137233 ACTTTTTACA
Statistics
Matches: 349, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
126 1 0.00
127 347 0.99
128 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (127 bp):
AAGAAGAGAAGGAAAATTTATCATTGAACATTCAAGAGCTCAAAATCAAGTTCTTCACATCAATT
GTATTCATTTCTTGATATTCTAAGTTCATTTGTATCTCCTCCATTGTTGTACTTAGAATATC
Found at i:138666 original size:15 final size:15
Alignment explanation
Indices: 138652--138717 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
138642 TAATATAATA
138652 ATTATAT-TTAAAAT
1 ATTATATATTAAAAT
138666 ATTATATATTAAAAT
1 ATTATATATTAAAAT
*
138681 TTTATATATTAATAA-
1 ATTATATATTAA-AAT
138696 ATTATATTATATAAAAT
1 ATTATA-TAT-TAAAAT
*
138713 TTTAT
1 ATTAT
138718 TGGTTCCTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.16
15 23 0.52
16 7 0.16
17 7 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATATATTAAAAT
Found at i:138716 original size:32 final size:29
Alignment explanation
Indices: 138653--138717 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 29
138643 AATATAATAA
138653 TTATATTTAAAATATTATATATTAAAATT
1 TTATATTTAAAATATTATATATTAAAATT
138682 TTATATATTAATAA-ATTATATTATATAAAATT
1 TTATAT-TTAA-AATATTATA-TAT-TAAAATT
138714 TTAT
1 TTAT
138718 TGGTTCCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 6 0.19
30 10 0.31
31 5 0.16
32 11 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATATTTAAAATATTATATATTAAAATT
Found at i:140868 original size:20 final size:20
Alignment explanation
Indices: 140835--140872 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
140825 ATATTTTATT
140835 TAAAATTAATTATAAAAAAA
1 TAAAATTAATTATAAAAAAA
140855 TAAATATTAA-TATAAAAA
1 TAAA-ATTAATTATAAAAA
140873 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATTAATTATAAAAAAA
Found at i:143548 original size:11 final size:11
Alignment explanation
Indices: 143532--143556 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
143522 ATAGTCTCCC
143532 TGAGGAAAATG
1 TGAGGAAAATG
143543 TGAGGAAAATG
1 TGAGGAAAATG
143554 TGA
1 TGA
143557 ACTCGAGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (11 bp):
TGAGGAAAATG
Found at i:149768 original size:16 final size:16
Alignment explanation
Indices: 149738--149773 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
149728 ATATAAAAAA
149738 ATAATTAAAATATAAT
1 ATAATTAAAATATAAT
149754 ATAATATAAAA-ATAAT
1 ATAAT-TAAAATATAAT
149770 ATAA
1 ATAA
149774 ATATTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATTAAAATATAAT
Found at i:149769 original size:27 final size:29
Alignment explanation
Indices: 149734--149790 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
149724 CGTGATATAA
149734 AAAAATAAT-TAAA-ATATAATAT-AATAT
1 AAAAATAATATAAATAT-TAATATGAATAT
149761 AAAAATAATATAAATATTAATATGAATAT
1 AAAAATAATATAAATATTAATATGAATAT
149790 A
1 A
149791 TGAATGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 9 0.33
28 10 0.37
29 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAATAATATAAATATTAATATGAATAT
Found at i:149790 original size:18 final size:17
Alignment explanation
Indices: 149745--149790 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
149735 AAAATAATTA
149745 AAATATAATAT-AATAT
1 AAATATAATATAAATAT
*
149761 AAAAATAATATAAATAT
1 AAATATAATATAAATAT
*
149778 TAATATGAATATA
1 AAATAT-AATATA
149791 TGAATGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.40
17 9 0.36
18 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAATATAATATAAATAT
Found at i:150797 original size:15 final size:15
Alignment explanation
Indices: 150765--150807 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
150755 AATAAATTAA
*
150765 TTTAAATTTGAAATAT
1 TTTAAATTT-AAACAT
*
150781 TTTAAATTTAAGCAT
1 TTTAAATTTAAACAT
*
150796 TTAAAATTTAAA
1 TTTAAATTTAAA
150808 TTAAATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (15 bp):
TTTAAATTTAAACAT
Found at i:150861 original size:30 final size:30
Alignment explanation
Indices: 150825--150882 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
150815 AATTTTTATT
150825 TTAAAATTTGACCATTTAAATTTAATATAA
1 TTAAAATTTGACCATTTAAATTTAATATAA
* *
150855 TTAAAATTTGATCATTTAAATTTGATAT
1 TTAAAATTTGACCATTTAAATTTAATAT
150883 GACTTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (30 bp):
TTAAAATTTGACCATTTAAATTTAATATAA
Found at i:150880 original size:14 final size:14
Alignment explanation
Indices: 150828--150880 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
150818 TTTTATTTTA
*
150828 AAATTTGACCATTT
1 AAATTTGATCATTT
*
150842 AAATTTAAT-ATAATT
1 AAATTTGATCAT--TT
150857 AAAATTTGATCATTT
1 -AAATTTGATCATTT
150872 AAATTTGAT
1 AAATTTGAT
150881 ATGACTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 2 0.06
14 16 0.50
15 4 0.12
16 8 0.25
17 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (14 bp):
AAATTTGATCATTT
Done.