Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 30 of 160
Found at i:7617428 original size:9 final size:9
Alignment explanation
Indices: 7617416--7617446 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
7617406 GGGTTTTTTT
7617416 TTTTCTAGG
1 TTTTCTAGG
7617425 TTTTCTAGG
1 TTTTCTAGG
7617434 TTTTCTAGG
1 TTTTCTAGG
7617443 TTTT
1 TTTT
7617447 GGATGAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.61
Consensus pattern (9 bp):
TTTTCTAGG
Found at i:7617870 original size:4 final size:5
Alignment explanation
Indices: 7617849--7617901 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
7617839 TTATTTCCTG
* *
7617849 ATTTC ATTTT ATTTT A-TTT ATTTT ATTTAC ATTATT ATTTT AATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT-T ATT-TT ATTTT -ATTTT
7617896 ATTTT A
1 ATTTT A
7617902 AGTTTTTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.10
5 25 0.61
6 11 0.27
7 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:7620834 original size:2 final size:2
Alignment explanation
Indices: 7620827--7620853 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7620817 ATGAGAAACC
7620827 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7620854 GACACACACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7621828 original size:12 final size:12
Alignment explanation
Indices: 7621811--7621840 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
7621801 GATCAAAAAA
7621811 TTAAAATATCTT
1 TTAAAATATCTT
7621823 TTAAAATATCTT
1 TTAAAATATCTT
7621835 TTAAAA
1 TTAAAA
7621841 GCAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAAATATCTT
Found at i:7628939 original size:150 final size:153
Alignment explanation
Indices: 7628568--7628954 Score: 401
Period size: 157 Copynumber: 2.5 Consensus size: 153
7628558 TTTTTGCTAA
* *
7628568 AAACGCCTTGAATAACCCCATTCAATTTTTTGTAAAAGATTATT-AAAGACATTTTATGAAT-AA
1 AAACGCCTTAAATAACCCCATTCAATTTTTTGT-AAAGATTATTCAAAG-CATTTTTTG-ATCAA
* * * *
7628631 AAACGCCTTAAATAATCTCTTTAAATTTTTATGAGTTTAGAATTTAAGGTTTAGAGTTTAAGAAT
63 AAACGCCTTAAATAATTTCATTAAATTTTTATGAATTTAGAATTTAAGGTTTAGAGTTTAAAAAT
* * ** *
7628696 TATTCTTATGAGTTTAGGATTTTGAGTAG
128 TATTCTAAGGAGTTT---ATTTTGACCAC
* * * * * * * *
7628725 AAACGCATTCAATAACGCTATTCAATTTTTTGTAAGGGATTATTCAAGGTATTTTTTGAGCAAAA
1 AAACGCCTTAAATAACCCCATTCAATTTTTTGTAA-AGATTATTCAAAGCATTTTTTGATCAAAA
* * *
7628790 ACGCATTAAATAATTTCATTAAATTTTTATGAATTTA-AGGTTTAGGGTTTA-AGATTTAAAAAT
65 ACGCCTTAAATAATTTCATTAAATTTTTATGAATTTAGA-ATTTAAGGTTTAGAG-TTTAAAAAT
*
7628853 TATT-TAAGGTGTTT-TTTT-ACCAC
128 TATTCTAAGGAGTTTATTTTGACCAC
* *
7628876 AAAGGCCTTAAATAACCCCATTGAATTTTTTGTAAAGATTATTCAAAGCATTTTTTGATCAAAAA
1 AAACGCCTTAAATAACCCCATTCAATTTTTTGTAAAGATTATTCAAAGCATTTTTTGATCAAAAA
* *
7628941 TGCCTTGAATAATT
66 CGCCTTAAATAATT
7628955 CCTTTTAATT
Statistics
Matches: 190, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
150 37 0.19
151 31 0.16
152 4 0.02
156 13 0.07
157 102 0.54
158 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (153 bp):
AAACGCCTTAAATAACCCCATTCAATTTTTTGTAAAGATTATTCAAAGCATTTTTTGATCAAAAA
CGCCTTAAATAATTTCATTAAATTTTTATGAATTTAGAATTTAAGGTTTAGAGTTTAAAAATTAT
TCTAAGGAGTTTATTTTGACCAC
Found at i:7634337 original size:18 final size:18
Alignment explanation
Indices: 7634246--7634346 Score: 68
Period size: 18 Copynumber: 5.7 Consensus size: 18
7634236 CTTTGTTCTT
*
7634246 GATACATTTGAGGTGGAA
1 GATACATTTGAGGTGGAG
* *
7634264 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
7634279 GATACATTT-ATGGTGGAGG
1 GATACATTTGA-GGTGGA-G
* * * *
7634298 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
7634316 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
7634334 GATATATTTGAGG
1 GATACATTTGAGG
7634347 AGGTGAATGA
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
14 1 0.02
15 11 0.18
18 38 0.61
19 12 0.19
ACGTcount: A:0.29, C:0.05, G:0.33, T:0.34
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:7634349 original size:21 final size:21
Alignment explanation
Indices: 7634325--7634365 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7634315 TGATACATTT
* *
7634325 GAGGTGGAGGATATATTTGAG
1 GAGGTGAAGGATACATTTGAG
*
7634346 GAGGTGAATGATACATTTGA
1 GAGGTGAAGGATACATTTGA
7634366 TGTGGATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.37, T:0.29
Consensus pattern (21 bp):
GAGGTGAAGGATACATTTGAG
Found at i:7636611 original size:16 final size:19
Alignment explanation
Indices: 7636590--7636638 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
7636580 TTTTATGTAT
7636590 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
7636607 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
7636625 TGTATATATTTATT
1 TGTAT-TATTTATT
7636639 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:7636764 original size:65 final size:62
Alignment explanation
Indices: 7636599--7636769 Score: 165
Period size: 65 Copynumber: 2.7 Consensus size: 62
7636589 TTGTATTATT
7636599 TATTATTATTATT-ATGTATTAATATATGTATATATTTATTTT-TTTTTTTTTGTTAATATTTTG
1 TATT-TTATTATTAATGTA-T-ATATATG-ATATATTT-TTTTATTTTTTTTTGTTAATATTTTG
7636662 TG
61 TG
* *
7636664 TATTTTATTATTTATGTATATATATG-TATATTTTTTTTATCTTTTTTATT-TTATTCATTTT-T
1 TATTTTATTATTAATGTATATATATGATATA-TTTTTTTAT-TTTTTT-TTGTTAAT-ATTTTGT
7636726 G
62 G
*
7636727 TATTTTTACTTATCTAAT-TATATATCTGATATATTTTTTTATT
1 TA-TTTTA-TTAT-TAATGTATATATATGATATATTTTTTTATT
7636770 ATTATTTATC
Statistics
Matches: 93, Mismatches: 3, Indels: 21
0.79 0.03 0.18
Matches are distributed among these distances:
61 8 0.09
62 4 0.04
63 21 0.23
64 22 0.24
65 31 0.33
66 7 0.08
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (62 bp):
TATTTTATTATTAATGTATATATATGATATATTTTTTTATTTTTTTTTGTTAATATTTTGTG
Found at i:7637197 original size:31 final size:31
Alignment explanation
Indices: 7637171--7637229 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7637161 ATCCGGTGAA
*
7637171 AATTCCGGCGAA-ATTTGAATTTTCCGGCAAC
1 AATTCCGGCGAACA-TTGAAGTTTCCGGCAAC
7637202 AATTCCGGCGAACATTGAAGTTTCCGGC
1 AATTCCGGCGAACATTGAAGTTTCCGGC
7637230 GACCAGTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTCCGGCAAC
Found at i:7637308 original size:19 final size:20
Alignment explanation
Indices: 7637284--7637329 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
7637274 TCCGGCCAAC
7637284 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
7637303 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
7637323 ATCCGGC
1 TTCCGGC
7637330 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:7637611 original size:5 final size:5
Alignment explanation
Indices: 7637601--7637625 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7637591 TCTCTTCCTT
7637601 GAGCC GAGCC GAGCC GAGCC GAGCC
1 GAGCC GAGCC GAGCC GAGCC GAGCC
7637626 CCGATCCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.40, T:0.00
Consensus pattern (5 bp):
GAGCC
Found at i:7637851 original size:59 final size:57
Alignment explanation
Indices: 7637771--7638059 Score: 330
Period size: 59 Copynumber: 4.7 Consensus size: 57
7637761 AAAAAATTCT
*
7637771 AAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAATAAATTTC
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAATAAATTTC
7637829 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 -AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-T---AG-AAAATAAATTT-C
* *
7637894 AAAAAAAAAAAGTATTTTTGGGAAAAAGTTGAACGTATCAATTTTCCTTGAAAATCAAAATTTC
1 ---AAAAAAAA-TATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTAGAAAAT--AAATTTC
7637958 AAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTTC
1 AAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCC-TAGAAAATAAA-TTTC
**
7638017 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
7638060 CTAAAAAAAA
Statistics
Matches: 206, Mismatches: 9, Indels: 30
0.84 0.04 0.12
Matches are distributed among these distances:
58 3 0.01
59 83 0.40
60 41 0.20
61 10 0.05
62 2 0.01
63 5 0.02
64 12 0.06
65 7 0.03
67 13 0.06
68 30 0.15
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (57 bp):
AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATAAATTTC
Found at i:7641904 original size:7 final size:7
Alignment explanation
Indices: 7641872--7641941 Score: 51
Period size: 8 Copynumber: 10.1 Consensus size: 7
7641862 TCAACACTGG
7641872 ATGAAAA
1 ATGAAAA
7641879 ATGAGAAA
1 ATGA-AAA
*
7641887 A-GAGAA
1 ATGAAAA
7641893 A--AAAA
1 ATGAAAA
7641898 ATGAAAA
1 ATGAAAA
7641905 A--AAAA
1 ATGAAAA
*
7641910 AGGGAAAA
1 A-TGAAAA
7641918 ATGAGAAA
1 ATGA-AAA
7641926 ATGAAAAA
1 ATG-AAAA
7641934 ATGAAAA
1 ATGAAAA
7641941 A
1 A
7641942 AGAGATCCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
5 9 0.17
6 3 0.06
7 18 0.35
8 21 0.40
9 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.09
Consensus pattern (7 bp):
ATGAAAA
Found at i:7643229 original size:42 final size:41
Alignment explanation
Indices: 7643147--7643686 Score: 787
Period size: 42 Copynumber: 13.1 Consensus size: 41
7643137 ATGATTGTCA
*
7643147 AGGAGTAATTTAC-TTTCAAAGTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAG
* * *
7643186 AGGAGCAATTTAATTTTCTAAAGTCGTGGTACCTCTGTCTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
7643228 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
7643270 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTATTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
7643312 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
*
7643352 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
7643393 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
*
7643433 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
7643474 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
7643516 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
*
7643556 AGGAGCAATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAG
*
7643596 AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
7643638 AGGAGCAATTTATGTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
7643681 AGGAGC
1 AGGAGC
7643687 TTTGGTAAAA
Statistics
Matches: 460, Mismatches: 22, Indels: 34
0.89 0.04 0.07
Matches are distributed among these distances:
39 19 0.04
40 145 0.32
41 85 0.18
42 173 0.38
43 37 0.08
44 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:7643380 original size:123 final size:121
Alignment explanation
Indices: 7643147--7643686 Score: 802
Period size: 123 Copynumber: 4.4 Consensus size: 121
7643137 ATGATTGTCA
* *
7643147 AGGAGTAATTTAC-TTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTAATTTTCTAAAGTC
1 AGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTC
* * *
7643211 GTGGTACCTCTGTCTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
64 GT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
7643270 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTATTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-
7643335 TCGT-TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
62 TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
7643393 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
1 AGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
*
7643458 TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAG
65 T-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
7643516 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTC
1 AGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TC
7643581 GT-TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAAGTCGTGGTGCCTCTGTTTAG
64 GTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
*
7643638 AGGAGCAATTTATGTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTA-CTTT-TCAAAGTCGT--TGCCTCTGTTTAGAGGAGC
7643687 TTTGGTAAAA
Statistics
Matches: 387, Mismatches: 15, Indels: 28
0.90 0.03 0.07
Matches are distributed among these distances:
120 4 0.01
121 37 0.10
122 91 0.24
123 154 0.40
124 40 0.10
125 29 0.07
126 32 0.08
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (121 bp):
AGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:7643395 original size:81 final size:81
Alignment explanation
Indices: 7643147--7643686 Score: 804
Period size: 81 Copynumber: 6.6 Consensus size: 81
7643137 ATGATTGTCA
* * * *
7643147 AGGAGTAATTTAC-TTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTAATTTTCTAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTT-ACTTTCCAAAGTC
* *
7643211 GTGGTACCTCTGTCTAG
65 GTGGTGCCTCTGTTTAG
7643228 AGGAGCAATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAA
1 AGGAGCAATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAA
* *
7643292 GTCGTGGTACCTCTATTTAG
62 GTCGTGGTGCCTCTGTTTAG
7643312 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
7643377 TGGTGCCTCTGTTTAG
66 TGGTGCCTCTGTTTAG
7643393 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
7643458 TGGTGCCTCTGTTTAG
66 TGGTGCCTCTGTTTAG
* *
7643474 AGGAGCAATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
1 AGGAGCAATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG
7643538 TTCGT--TGCCTCTGTTTAG
63 -TCGTGGTGCCTCTGTTTAG
*
7643556 AGGAGCAATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCC-AAAGTC
7643621 GTGGTGCCTCTGTTTAG
65 GTGGTGCCTCTGTTTAG
*
7643638 AGGAGCAATTTATGTTTCTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTA-CTTT-TCAAAGTTCGT--TGCCTCTGTTTAGAGGAGC
7643687 TTTGGTAAAA
Statistics
Matches: 426, Mismatches: 15, Indels: 32
0.90 0.03 0.07
Matches are distributed among these distances:
80 33 0.08
81 148 0.35
82 93 0.22
83 58 0.14
84 75 0.18
85 19 0.04
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (81 bp):
AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
TGGTGCCTCTGTTTAG
Found at i:7643709 original size:8 final size:8
Alignment explanation
Indices: 7643693--7643767 Score: 88
Period size: 8 Copynumber: 9.8 Consensus size: 8
7643683 GAGCTTTGGT
7643693 AAAAAAA-
1 AAAAAAAC
7643700 AAAAACAA-
1 AAAAA-AAC
7643708 AAAAAAAC
1 AAAAAAAC
7643716 AAAAAAAC
1 AAAAAAAC
7643724 -AAAAAAC
1 AAAAAAAC
*
7643731 -AAAAAAT
1 AAAAAAAC
7643738 AAAAAAA-
1 AAAAAAAC
7643745 AAAAAAAC
1 AAAAAAAC
7643753 AAAAAAACC
1 AAAAAAA-C
7643762 AAAAAA
1 AAAAAA
7643768 TGTTGAGTTG
Statistics
Matches: 62, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
7 27 0.44
8 28 0.45
9 7 0.11
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:7643747 original size:37 final size:39
Alignment explanation
Indices: 7643693--7643767 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 39
7643683 GAGCTTTGGT
7643693 AAAAAAAAAAAACAAAAAAAAACAAAAAAA-CAAAAAAC
1 AAAAAAAAAAAACAAAAAAAAACAAAAAAACCAAAAAAC
*
7643731 AAAAAATAAAAA-AAAAAAAAACAAAAAAACCAAAAAA
1 AAAAAAAAAAAACAAAAAAAAACAAAAAAACCAAAAAA
7643768 TGTTGAGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 17 0.49
38 18 0.51
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.01
Consensus pattern (39 bp):
AAAAAAAAAAAACAAAAAAAAACAAAAAAACCAAAAAAC
Found at i:7643767 original size:1 final size:1
Alignment explanation
Indices: 7643693--7643759 Score: 80
Period size: 1 Copynumber: 67.0 Consensus size: 1
7643683 GAGCTTTGGT
* * * * * *
7643693 AAAAAAAAAAAACAAAAAAAAACAAAAAAACAAAAAACAAAAAATAAAAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7643758 AA
1 AA
7643760 CCAAAAAATG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:7643997 original size:16 final size:16
Alignment explanation
Indices: 7643953--7643998 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7643943 TTCTTCTTTT
7643953 GTATT-TTATGTATT-
1 GTATTATTATGTATTA
7643967 GTATTATTTAT-TATTA
1 GTATTA-TTATGTATTA
*
7643983 TTATTATTATGTATTA
1 GTATTATTATGTATTA
7643999 ATATATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 8 0.30
16 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (16 bp):
GTATTATTATGTATTA
Found at i:7644070 original size:63 final size:63
Alignment explanation
Indices: 7643978--7644157 Score: 183
Period size: 65 Copynumber: 2.8 Consensus size: 63
7643968 TATTATTTAT
*
7643978 TATTATTATTA-TTATGTATTAATATATGTATATATTTATTTATTTTTTT-TTGTTAAT-ATTTT
1 TATT-TTATTATTTATGTA-T-ATATATGTATATATTTTTTTATTTTTTTATT-TTAATCATTTT
7644040 GTG
62 -TG
*
7644043 TATTTTATTATTTATGTATATATATGTATAT-TTTTTTTATCTTTTTTATTTTATTCATTTTTG
1 TATTTTATTATTTATGTATATATATGTATATATTTTTTTAT-TTTTTTATTTTAATCATTTTTG
* *
7644106 TATTTTTACTTATCTAAT-TATATATCTG-ATATATTTTTTTATTATTATTTAT
1 TA-TTTTA-TTAT-TTATGTATATATATGTATATATTTTTTTATT-TT-TTTAT
7644158 CCTATAATAT
Statistics
Matches: 101, Mismatches: 4, Indels: 19
0.81 0.03 0.15
Matches are distributed among these distances:
62 8 0.08
63 26 0.26
64 24 0.24
65 35 0.35
66 8 0.08
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (63 bp):
TATTTTATTATTTATGTATATATATGTATATATTTTTTTATTTTTTTATTTTAATCATTTTTG
Found at i:7644574 original size:31 final size:31
Alignment explanation
Indices: 7644548--7644606 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7644538 ATCCGGTGAA
*
7644548 AATTCCGGCGAA-ATTTGAATTTTCCGGCAAC
1 AATTCCGGCGAACA-TTGAAGTTTCCGGCAAC
7644579 AATTCCGGCGAACATTGAAGTTTCCGGC
1 AATTCCGGCGAACATTGAAGTTTCCGGC
7644607 GACCAGTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTCCGGCAAC
Found at i:7644685 original size:19 final size:20
Alignment explanation
Indices: 7644661--7644706 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
7644651 TCCGGCCAAC
7644661 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
7644680 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
7644700 ATCCGGC
1 TTCCGGC
7644707 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:7645196 original size:59 final size:58
Alignment explanation
Indices: 7645132--7645450 Score: 257
Period size: 59 Copynumber: 5.2 Consensus size: 58
7645122 TCTTTAAATA
* *
7645132 AAATAAAAAATCTAAAAAATATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG
1 AAATAAAAAATCAAAAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AG
** * *
7645191 AAAT-AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCCTTAA
1 AAATAAAAAATCAAAAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTT-CC-TAG
* * * *
7645251 AAGAAAAATAAATTTCCAAAAAAAAAAGTATTTTTGGGAAAAAGTTGAACGTATCAATTTTCCTT
1 AA-ATAAA-AAA--T-C-AAAAAAAAA-TA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTA
7645316 G
58 G
** *
7645317 AAAATCAAAATTTC-AAAAAAAATATTTTGGGAAAAAGTTGAATAAGTATCAATTTTCCATAG
1 -AAAT-AAAAAATCAAAAAAAAATATTTTGGGGAAAAGTTG-A-AAGTATCAATTTTCC-TAG
*** ** * *
7645379 AAATAAATTTTCAAAAAAGGAT-TTTTGAGGAAAAGTTGAAAAGTATCAATTTTCCCTAA
1 AAATAAAAAATCAAAAAAAAATATTTTGGGGAAAAGTTG-AAAGTATCAATTTT-CCTAG
*
7645438 AAAAAAAAAATCA
1 AAATAAAAAATCA
7645451 TTCTTTCCTT
Statistics
Matches: 213, Mismatches: 29, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
58 14 0.07
59 73 0.34
60 33 0.15
61 35 0.16
62 4 0.02
63 2 0.01
64 1 0.00
65 1 0.00
66 4 0.02
67 16 0.08
68 30 0.14
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (58 bp):
AAATAAAAAATCAAAAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAG
Found at i:7650726 original size:41 final size:40
Alignment explanation
Indices: 7650528--7651130 Score: 965
Period size: 40 Copynumber: 15.0 Consensus size: 40
7650518 GTCTAGGAGT
7650528 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
7650568 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
7650608 ATTTACTTTTCAAAGTCGTG-GCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
7650647 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
7650687 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
7650728 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
7650768 ATTTAC-TTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
7650806 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
7650847 ATTTACTTTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
7650886 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
7650928 ATTTACTTTCCCAAAGTC-AGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTT-TCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
*
7650968 ATTTACTTTTCAAAGTCGTAATGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
7651009 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
7651051 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
7651092 ATTTA-TTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTT-CAAAGTCGTGTGCCTCTGTTTAGAGGAGC
7651131 TTTGGTAAAA
Statistics
Matches: 535, Mismatches: 11, Indels: 34
0.92 0.02 0.06
Matches are distributed among these distances:
38 30 0.06
39 99 0.19
40 180 0.34
41 148 0.28
42 78 0.15
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:7650764 original size:81 final size:80
Alignment explanation
Indices: 7650528--7651130 Score: 965
Period size: 81 Copynumber: 7.5 Consensus size: 80
7650518 GTCTAGGAGT
7650528 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT-TGC
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTGC
7650591 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
7650608 ATTTACTTTTCAAAGTCGTG-GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT-TGCC
1 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTGCC
7650671 TCTGTTTAGAGGAGCA
65 TCTGTTTAGAGGAGCA
*
7650687 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT-TGC
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTGC
7650751 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
7650768 ATTTAC-TTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCC
7650831 TCTGTTTAGAGGAGCA
65 TCTGTTTAGAGGAGCA
7650847 ATTTACTTTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGT-GTGC
7650911 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
* * *
7650928 ATTTACTTTCCCAAAGTC-AGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTAATGC
1 ATTTACTTT-TCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGC
7650992 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
*
7651009 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTG
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTG
7651074 CCTCTGTTTAGAGGAGCA
63 CCTCTGTTTAGAGGAGCA
7651092 ATTTA-TTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTT-CAAAGTCGTGTGCCTCTGTTTAGAGGAGC
7651131 TTTGGTAAAA
Statistics
Matches: 500, Mismatches: 11, Indels: 23
0.94 0.02 0.04
Matches are distributed among these distances:
77 4 0.01
78 34 0.07
79 108 0.22
80 70 0.14
81 169 0.34
82 51 0.10
83 64 0.13
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (80 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTGCCT
CTGTTTAGAGGAGCA
Found at i:7651143 original size:1 final size:1
Alignment explanation
Indices: 7651137--7651226 Score: 108
Period size: 1 Copynumber: 90.0 Consensus size: 1
7651127 GAGCTTTGGT
* * * * * *
7651137 AAAAAAAAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAACAAAAAAACAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
**
7651202 AAAAAAAAAAAAAACCAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7651227 TGTTGAGTTG
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7651177 original size:28 final size:27
Alignment explanation
Indices: 7651137--7651226 Score: 137
Period size: 26 Copynumber: 3.3 Consensus size: 27
7651127 GAGCTTTGGT
7651137 AAAAAAAAAAAAAAAAACAAAAAAAC-
1 AAAAAAAAAAAAAAAAACAAAAAAACA
*
7651163 AAAAAAAAAACAAAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAACAAAAAAACA
* *
7651190 AAAAAAAAAAACAAAAAAAAAAAAAACC
1 AAAAAAAAAAA-AAAAAACAAAAAAACA
7651218 AAAAAAAAA
1 AAAAAAAAA
7651227 TGTTGAGTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
26 25 0.43
27 10 0.17
28 23 0.40
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAAACAAAAAAACA
Found at i:7651444 original size:16 final size:19
Alignment explanation
Indices: 7651423--7651471 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
7651413 TTTTATGTAT
7651423 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
7651440 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
7651458 TGTATATATTTATT
1 TGTAT-TATTTATT
7651472 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:7651505 original size:60 final size:60
Alignment explanation
Indices: 7651435--7651593 Score: 150
Period size: 60 Copynumber: 2.6 Consensus size: 60
7651425 TATTATTTAT
* * *
7651435 TATTATTATTATGTATTAATATATGTATATATTTATTTATTTTTTTTTGTTA-T-ATTTTGTG
1 TATT-TTATTATCTATTAATATATGTATATATTT-TTTATTTTTTATT-TTATTCATTTTGTA
*
7651496 TATTTTATTATTTATGTATATATATG--TATATTTTTTATCTTTTTATTTTATTCATTTTGTA
1 TATTTTATTATCTAT-TA-ATATATGTATATATTTTTTAT-TTTTTATTTTATTCATTTTGTA
*
7651557 T-TTTTACTTATCTAATT-ATATATCTGATATATTTTTT
1 TATTTTA-TTATCT-ATTAATATATGT-ATATATTTTTT
7651594 TATTATTATT
Statistics
Matches: 83, Mismatches: 5, Indels: 19
0.78 0.05 0.18
Matches are distributed among these distances:
59 14 0.17
60 30 0.36
61 20 0.24
62 19 0.23
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (60 bp):
TATTTTATTATCTATTAATATATGTATATATTTTTTATTTTTTATTTTATTCATTTTGTA
Found at i:7651603 original size:61 final size:61
Alignment explanation
Indices: 7651432--7651604 Score: 158
Period size: 62 Copynumber: 2.8 Consensus size: 61
7651422 TTGTATTATT
* * * * *
7651432 TATTATTATTATT-ATGTATTAATATATGTATATATTTATTTATTTTTTTTTGTTATATTTTGTG
1 TATT-TTATTATTAATGTA-T-ATATATG-ATATATTTTTTTATTTTATTTTATTACATTTTGTA
* *
7651496 TATTTTATTATTTATGTATATATATG-TATATTTTTTATCTTTTTATTTTATT-CATTTTGTA
1 TATTTTATTATTAATGTATATATATGATATATTTTTT-T-ATTTTATTTTATTACATTTTGTA
*
7651557 T-TTTTACTTATCTAAT-TATATATCTGATATATTTTTTTATTATTATTT
1 TATTTTA-TTAT-TAATGTATATATATGATATATTTTTTTATT-TTATTT
7651605 ATCCTATAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
60 16 0.17
61 29 0.31
62 30 0.32
63 9 0.10
64 9 0.10
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (61 bp):
TATTTTATTATTAATGTATATATATGATATATTTTTTTATTTTATTTTATTACATTTTGTA
Found at i:7652033 original size:30 final size:31
Alignment explanation
Indices: 7651997--7652054 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
7651987 ATTCCGCGAA
*
7651997 AATTCC-GCGAA-ATTTGAATTTTCCGGCAAC
1 AATTCCGGCGAACA-TTGAAGTTTCCGGCAAC
7652027 AATTCCGGCGAACATTGAAGTTTCCGGC
1 AATTCCGGCGAACATTGAAGTTTCCGGC
7652055 GACCTGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 6 0.24
31 18 0.72
32 1 0.04
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTCCGGCAAC
Found at i:7652133 original size:17 final size:17
Alignment explanation
Indices: 7652111--7652145 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7652101 GCCAACTTGC
*
7652111 GAAATTTCCAGATTCCG
1 GAAATTTCCAGAATCCG
7652128 GAAATTTCCAGAATCCG
1 GAAATTTCCAGAATCCG
7652145 G
1 G
7652146 CACCGGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (17 bp):
GAAATTTCCAGAATCCG
Found at i:7652512 original size:12 final size:11
Alignment explanation
Indices: 7652456--7652518 Score: 67
Period size: 12 Copynumber: 5.6 Consensus size: 11
7652446 CCGCTCCAGG
7652456 TTTT-TTTTTT
1 TTTTATTTTTT
7652466 TTTT-TTTTTT
1 TTTTATTTTTT
7652476 TTTTATTTCTTT
1 TTTTATTT-TTT
*
7652488 GTTTATTTGTTT
1 TTTTATTT-TTT
7652500 ATTTTATTTTTT
1 -TTTTATTTTTT
*
7652512 ATTTATT
1 TTTTATT
7652519 AGATTAGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
10 14 0.30
11 9 0.20
12 16 0.35
13 7 0.15
ACGTcount: A:0.10, C:0.02, G:0.03, T:0.86
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:7652655 original size:59 final size:59
Alignment explanation
Indices: 7652590--7653042 Score: 716
Period size: 59 Copynumber: 7.8 Consensus size: 59
7652580 AAATAAAAAA
7652590 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
7652649 TTCC--AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
7652704 TT-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAAT
7652763 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAAT
7652823 TT-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
7652880 TT-CAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* ***
7652937 TTTCAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
*
7652998 TTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
7653043 CTACAAAAAA
Statistics
Matches: 374, Mismatches: 7, Indels: 26
0.92 0.02 0.06
Matches are distributed among these distances:
54 1 0.00
55 13 0.03
56 69 0.18
57 78 0.21
58 16 0.04
59 130 0.35
60 60 0.16
61 7 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:7652972 original size:174 final size:173
Alignment explanation
Indices: 7652590--7653042 Score: 743
Period size: 174 Copynumber: 2.6 Consensus size: 173
7652580 AAATAAAAAA
*
7652590 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
1 TTCCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
7652655 AAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAAATTTCAAAAAAAATATTT
66 AAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAAATTTCAAAAAAAATATTT
7652720 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAAT
131 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAAT
* *
7652763 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCAA
1 TTCCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTC-C
*
7652828 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATAAATTTCAAAAAAAATA
64 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAAATTTCAAAAAAAATA
7652893 TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAAT
128 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAAT
* * *
7652937 TTTCAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTT
1 TTCCAAAAAAAAGATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTT
7653000 CCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
62 CCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
7653043 CTACAAAAAA
Statistics
Matches: 265, Mismatches: 8, Indels: 13
0.93 0.03 0.05
Matches are distributed among these distances:
172 1 0.00
173 54 0.20
174 106 0.40
175 49 0.18
176 55 0.21
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (173 bp):
TTCCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
AAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAAATTTCAAAAAAAATATTT
TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAAT
Found at i:7653978 original size:18 final size:18
Alignment explanation
Indices: 7653955--7654005 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 18
7653945 TTTTAATTTT
7653955 ATATTTATATTAAAAATA
1 ATATTTATATTAAAAATA
7653973 ATATTTTATATTTAAAAAATA
1 ATA-TTTATA-TT-AAAAATA
7653994 ATATTT-TATTAA
1 ATATTTATATTAA
7654006 TTTCGGGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 8 0.27
20 5 0.17
21 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTATATTAAAAATA
Found at i:7653982 original size:19 final size:21
Alignment explanation
Indices: 7653958--7654002 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7653948 TAATTTTATA
7653958 TTTATA-TT-AAAAATAATAT
1 TTTATATTTAAAAAATAATAT
7653977 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
7653998 TTTAT
1 TTTAT
7654003 TAATTTCGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:7658245 original size:25 final size:23
Alignment explanation
Indices: 7658208--7658285 Score: 56
Period size: 25 Copynumber: 3.3 Consensus size: 23
7658198 TAATGAGTAA
*
7658208 AATAATAATTAAAGATGAAAATAAT
1 AATAA-AAATAAA-ATGAAAATAAT
*
7658233 AATAACAAGTAAAAAT-AAAA-AAT
1 AATAA-AAAT-AAAATGAAAATAAT
*
7658256 -CTAAAAATAAAATGAAAATAA-
1 AATAAAAATAAAATGAAAATAAT
7658277 AATAGAAAA
1 AATA-AAAA
7658286 AATAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 5 0.12
21 7 0.16
22 7 0.16
23 7 0.16
24 4 0.09
25 10 0.23
26 3 0.07
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (23 bp):
AATAAAAATAAAATGAAAATAAT
Found at i:7658247 original size:19 final size:19
Alignment explanation
Indices: 7658206--7658250 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7658196 AGTAATGAGT
* *
7658206 AAAATAATAATTAAAGATG
1 AAAATAATAATAAAAGATA
7658225 AAAATAATAATAACAAG-TA
1 AAAATAATAATAA-AAGATA
7658244 AAAATAA
1 AAAATAA
7658251 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAATAATAATAAAAGATA
Found at i:7658251 original size:6 final size:6
Alignment explanation
Indices: 7658206--7658315 Score: 51
Period size: 6 Copynumber: 17.0 Consensus size: 6
7658196 AGTAATGAGT
* * * * *
7658206 AAAATA ATAATTA AAGATG AAAATA ATAATA ACAAGTA AAAATAA AAAATCTA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA A-AAATA AAAAT-A AAAA--TA
* * * *
7658259 AAAAT- AAAATG AAAATA AAATAGAA AAAATA AAAAAA TAAAATCA AAAACA
1 AAAATA AAAATA AAAATA AAA-A-TA AAAATA AAAATA -AAAAT-A AAAATA
7658310 AAAATA
1 AAAATA
7658316 GGATGAAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 20
0.68 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 37 0.48
7 24 0.31
8 10 0.13
9 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:7658331 original size:18 final size:18
Alignment explanation
Indices: 7658284--7658331 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
7658274 TAAAATAGAA
7658284 AAAATAAAAAAATAAAATC
1 AAAA-AAAAAAATAAAATC
* ** *
7658303 AAAAACAAAAATAGGATG
1 AAAAAAAAAAATAAAATC
7658321 AAAAAAAAAAA
1 AAAAAAAAAAA
7658332 AACATGCGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.10
Consensus pattern (18 bp):
AAAAAAAAAAATAAAATC
Found at i:7664149 original size:27 final size:27
Alignment explanation
Indices: 7664094--7664147 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7664084 GATATAATAA
*
7664094 AAATTTATAAATTATTAAATTTAATTT
1 AAATTTATAAATTATTAAATTGAATTT
*
7664121 AAATTTATAATATTTTGTAAA-TGAATT
1 AAATTTATAA-ATTAT-TAAATTGAATT
7664148 AAGTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 9 0.39
29 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
AAATTTATAAATTATTAAATTGAATTT
Found at i:7664250 original size:13 final size:13
Alignment explanation
Indices: 7664232--7664256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7664222 TTAAATGAAA
7664232 TTACAAATATAAG
1 TTACAAATATAAG
7664245 TTACAAATATAA
1 TTACAAATATAA
7664257 TTAAGTTTTA
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
TTACAAATATAAG
Found at i:7664296 original size:20 final size:21
Alignment explanation
Indices: 7664271--7664309 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7664261 GTTTTATATA
7664271 AATTACTGAA-TAATTAAATT
1 AATTACTGAATTAATTAAATT
*
7664291 AATTACTTAATTAATTAAA
1 AATTACTGAATTAATTAAA
7664310 AAAATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (21 bp):
AATTACTGAATTAATTAAATT
Found at i:7665007 original size:16 final size:16
Alignment explanation
Indices: 7664986--7665016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7664976 ATTTTACTCT
*
7664986 CTTTTTTTTTCTTTTC
1 CTTTTTCTTTCTTTTC
7665002 CTTTTTCTTTCTTTT
1 CTTTTTCTTTCTTTT
7665017 TCTTCTTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTTCTTTCTTTTC
Found at i:7668498 original size:19 final size:19
Alignment explanation
Indices: 7668474--7668512 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7668464 AAAATACTAT
*
7668474 AAATACTATAA-ATAAATAA
1 AAATACAATAATA-AAATAA
7668493 AAATACAATAATAAAATAA
1 AAATACAATAATAAAATAA
7668512 A
1 A
7668513 GTACCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (19 bp):
AAATACAATAATAAAATAA
Found at i:7669846 original size:38 final size:38
Alignment explanation
Indices: 7669790--7669865 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
7669780 TCTTTGAATC
* *
7669790 CTTAGAAAGCTTGAACCTTTGGAGTGTATTCTTAGATT
1 CTTAAAAAGCTTGAACCTTTGGAGGGTATTCTTAGATT
* *
7669828 CTTAAAAAGCTTGAACCTTTGGTGGGTATTCTTGGATT
1 CTTAAAAAGCTTGAACCTTTGGAGGGTATTCTTAGATT
7669866 TTAGATGTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (38 bp):
CTTAAAAAGCTTGAACCTTTGGAGGGTATTCTTAGATT
Found at i:7670961 original size:33 final size:33
Alignment explanation
Indices: 7670907--7670976 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
7670897 ATAATTTTAC
*
7670907 TTTTATTCATTGTTTGAATATAATTTAATTATT
1 TTTTATTCATTATTTGAATATAATTTAATTATT
* * * *
7670940 TTTTATTTATTATTTGGATATAATTTGATTGTT
1 TTTTATTCATTATTTGAATATAATTTAATTATT
7670973 TTTT
1 TTTT
7670977 TTAAGATGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.01, G:0.09, T:0.64
Consensus pattern (33 bp):
TTTTATTCATTATTTGAATATAATTTAATTATT
Found at i:7672012 original size:127 final size:126
Alignment explanation
Indices: 7671787--7672042 Score: 467
Period size: 127 Copynumber: 2.0 Consensus size: 126
7671777 TTGATAATGC
7671787 TAGTTCTAATGATGTTGTAATTACATATTTGAGAAAAAAATTTAACCATGCTGAAATTAATATTT
1 TAGTTCTAATGATGTTGTAATTACATATTTGAGAAAAAAATTTAACCATGCTGAAATTAATATTT
7671852 TGAGAGGTAAATATCTTCATTTGAGATGCATTATACATATTGTTAATCTTATTGTTTGTGA
66 TGAGAGGTAAATATCTTCATTTGAGATGCATTATACATATTGTTAATCTTATTGTTTGTGA
* * *
7671913 TAGTTCTAATGATGTTGTAATTGCATATTTGAGAAAAAAAATTTAACCATGCTGGAATTAGTATT
1 TAGTTCTAATGATGTTGTAATTACATATTTGAG-AAAAAAATTTAACCATGCTGAAATTAATATT
*
7671978 TTGGGAGGTAAATATCTTCATTTGAGATGCATTATACATATTGTTAATCTTATTGTTTGTGA
65 TTGAGAGGTAAATATCTTCATTTGAGATGCATTATACATATTGTTAATCTTATTGTTTGTGA
7672040 TAG
1 TAG
7672043 ATTGAAGAAA
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 32 0.26
127 93 0.74
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (126 bp):
TAGTTCTAATGATGTTGTAATTACATATTTGAGAAAAAAATTTAACCATGCTGAAATTAATATTT
TGAGAGGTAAATATCTTCATTTGAGATGCATTATACATATTGTTAATCTTATTGTTTGTGA
Found at i:7674868 original size:34 final size:34
Alignment explanation
Indices: 7674825--7674896 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
7674815 GATTTGAAGC
* *
7674825 TTTCGAAAATAAAATTTTGAAAA-CTCTTATAGGT
1 TTTCAAAAAT-AAATTTTGAAAAGCTCTTAAAGGT
* *
7674859 TTTCAAAAATAGATTTTTAAAAGCTCTTAAAGGT
1 TTTCAAAAATAAATTTTGAAAAGCTCTTAAAGGT
7674893 TTTC
1 TTTC
7674897 TAGAAATAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 10 0.30
34 23 0.70
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (34 bp):
TTTCAAAAATAAATTTTGAAAAGCTCTTAAAGGT
Found at i:7674958 original size:34 final size:34
Alignment explanation
Indices: 7674865--7674965 Score: 94
Period size: 34 Copynumber: 2.9 Consensus size: 34
7674855 AGGTTTTCAA
* * * *
7674865 AAATAGATTTTTAAAAGCTCTTAAAGGTTTTCTAG
1 AAATAGATTTTCAAAAGTTCTTAAAAGCTTT-TAG
** ** *
7674900 AAATAGATACTCGGAAGTTTTTAAAAGCTTTTAG
1 AAATAGATTTTCAAAAGTTCTTAAAAGCTTTTAG
* *
7674934 AAATAGATTTTCAAAAATTCTTAAAAACTTTT
1 AAATAGATTTTCAAAAGTTCTTAAAAGCTTTT
7674966 GAATATCCAT
Statistics
Matches: 50, Mismatches: 16, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
34 28 0.56
35 22 0.44
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.39
Consensus pattern (34 bp):
AAATAGATTTTCAAAAGTTCTTAAAAGCTTTTAG
Found at i:7676547 original size:18 final size:19
Alignment explanation
Indices: 7676512--7676550 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
7676502 AAATCATAAA
7676512 ATTTAAATTATTTAAATTT
1 ATTTAAATTATTTAAATTT
* *
7676531 ATTT-AATTTTTTTAATTT
1 ATTTAAATTATTTAAATTT
7676549 AT
1 AT
7676551 AAAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTAAATTATTTAAATTT
Found at i:7676653 original size:21 final size:22
Alignment explanation
Indices: 7676636--7676687 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
7676626 AAATATATAA
7676636 AATTT-AATTAAATTTATAAAT
1 AATTTAAATTAAATTTATAAAT
* * *
7676657 TATTTAAATTAAATATAAAAAT
1 AATTTAAATTAAATTTATAAAT
7676679 -ATTTAAATT
1 AATTTAAATT
7676688 TCATTCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTAAATTAAATTTATAAAT
Found at i:7676723 original size:15 final size:17
Alignment explanation
Indices: 7676705--7676745 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
7676695 ATTGATAATC
7676705 AAATTATTTAA-AT-TT
1 AAATTATTTAATATATT
7676720 AAATTTATTTAATATAATT
1 AAA-TTATTTAATAT-ATT
7676739 AAATTAT
1 AAATTAT
7676746 ATTTTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 8 0.36
17 2 0.09
18 4 0.18
19 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTATTTAATATATT
Found at i:7681555 original size:37 final size:39
Alignment explanation
Indices: 7681511--7681607 Score: 112
Period size: 38 Copynumber: 2.6 Consensus size: 39
7681501 ATAATTAGCA
* *
7681511 AAATCTTTTAATAGTTTGGTA-AAATTTACTTT-GATGC
1 AAATCTTTTAATAATTTGGTAGAAATTTAATTTAGATGC
* * *
7681548 AGATCTTTCAATAATTT-G-AGAGATTTAATTTAAGATGC
1 AAATCTTTTAATAATTTGGTAGAAATTTAATTT-AGATGC
7681586 AAATCTTTTAATAATTTGGTAG
1 AAATCTTTTAATAATTTGGTAG
7681608 GATTAAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
35 1 0.02
36 10 0.21
37 14 0.29
38 20 0.42
39 1 0.02
40 2 0.04
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.43
Consensus pattern (39 bp):
AAATCTTTTAATAATTTGGTAGAAATTTAATTTAGATGC
Found at i:7681658 original size:20 final size:21
Alignment explanation
Indices: 7681621--7681659 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
7681611 TAAAAAAATA
*
7681621 TTTTATTAATAATAGATTTTT
1 TTTTATTAAAAATAGATTTTT
*
7681642 TTTTA-TAAAAATTGATTT
1 TTTTATTAAAAATAGATTT
7681660 ATAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTATTAAAAATAGATTTTT
Found at i:7681871 original size:3 final size:3
Alignment explanation
Indices: 7681865--7681907 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
7681855 AATTGAAGAT
7681865 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7681908 GTAAAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7681960 original size:12 final size:12
Alignment explanation
Indices: 7681927--7681977 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
7681917 AAGAAAATTT
7681927 AAAAATAAAAT-
1 AAAAATAAAATG
7681938 --AAATGAAAATG
1 AAAAAT-AAAATG
7681949 AAAAATAAAATG
1 AAAAATAAAATG
* *
7681961 AAAAAAAAAAAG
1 AAAAATAAAATG
7681973 AAAAA
1 AAAAA
7681978 CCTGCAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 4 0.12
10 5 0.15
12 21 0.62
13 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (12 bp):
AAAAATAAAATG
Found at i:7681969 original size:23 final size:23
Alignment explanation
Indices: 7681909--7681969 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
7681899 TAATAATAAG
* *
7681909 TAAAA-GAAAAGAAAATTTAAAAA
1 TAAAATGAAAA-AAAAATGAAAAA
**
7681932 TAAAAT-AAATGAAAATGAAAAA
1 TAAAATGAAAAAAAAATGAAAAA
7681954 TAAAATGAAAAAAAAA
1 TAAAATGAAAAAAAAA
7681970 AAGAAAAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.16
Consensus pattern (23 bp):
TAAAATGAAAAAAAAATGAAAAA
Found at i:7683236 original size:40 final size:41
Alignment explanation
Indices: 7683135--7683236 Score: 100
Period size: 44 Copynumber: 2.4 Consensus size: 41
7683125 ATGAAATTAG
*
7683135 AATAAGAAATGGGCTCCTTTAAATAGAGGCTAAACAATTTTAAAA
1 AATAA-AAAT-GGCTCCTTTAAATAGAGGCTAAAC-A-TTAAAAA
* * *
7683180 TATAAAAATAGGCTCCTTTGAGTAGAGGCTAAAC-TTAAAAA
1 AATAAAAAT-GGCTCCTTTAAATAGAGGCTAAACATTAAAAA
7683221 AAT-AAAATGGCCTCCT
1 AATAAAAATGG-CTCCT
7683237 CTATTATGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.04
40 10 0.20
41 8 0.16
44 26 0.52
45 4 0.08
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (41 bp):
AATAAAAATGGCTCCTTTAAATAGAGGCTAAACATTAAAAA
Found at i:7683258 original size:43 final size:42
Alignment explanation
Indices: 7683159--7683392 Score: 192
Period size: 43 Copynumber: 5.5 Consensus size: 42
7683149 TCCTTTAAAT
* * * * *
7683159 AGAGGCTAAACAATTTTAAAATATAAAAATAGGCTCCTTTGAGT-
1 AGAGGCTAAACAACTTTAAAAAAT-GAAAT-GGCTCCTCT-ATTC
* *
7683203 AGAGGCT--A-AACTTAAAAAAATAAAATGGCCTCCTCTATT-
1 AGAGGCTAAACAACTTTAAAAAATGAAATGG-CTCCTCTATTC
* * *
7683242 ATGAGGCTAATCAACTTTAAAAAATGAAATAAGCTCATCTATTC
1 A-GAGGCTAAACAACTTTAAAAAATGAAAT-GGCTCCTCTATTC
* *
7683286 AGAGGCTAAACAACTTTAAAATATGAAATGGATTCCTCTATTC
1 AGAGGCTAAACAACTTTAAAAAATGAAATGG-CTCCTCTATTC
** * * *
7683329 AGAGGCTAAACAACTTTAAACTAGGAAATGGGCTCATTTA-TC
1 AGAGGCTAAACAACTTTAAAAAATGAAAT-GGCTCCTCTATTC
7683371 TAGAGGCTAAACAACTTTAAAA
1 -AGAGGCTAAACAACTTTAAAA
7683393 TGGCCTTATA
Statistics
Matches: 159, Mismatches: 21, Indels: 21
0.79 0.10 0.10
Matches are distributed among these distances:
39 5 0.03
40 17 0.11
41 10 0.06
42 4 0.03
43 112 0.70
44 11 0.07
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (42 bp):
AGAGGCTAAACAACTTTAAAAAATGAAATGGCTCCTCTATTC
Found at i:7683323 original size:86 final size:86
Alignment explanation
Indices: 7683233--7683393 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 86
7683223 TAAAATGGCC
* *
7683233 TCCTCTATT-ATGAGGCTAATCAACTTTAAAAAATGAAATAAGCTCATCTAT-TCAGAGGCTAAA
1 TCCTCTATTCA-GAGGCTAAACAACTTTAAAAAAGGAAATAAGCTCATCTATCT-AGAGGCTAAA
7683296 CAACTTTAAAATATGAAATGGAT
64 CAACTTTAAAATATGAAATGGAT
** ** *
7683319 TCCTCTATTCAGAGGCTAAACAACTTTAAACTAGGAAATGGGCTCATTTATCTAGAGGCTAAACA
1 TCCTCTATTCAGAGGCTAAACAACTTTAAAAAAGGAAATAAGCTCATCTATCTAGAGGCTAAACA
7683384 ACTTTAAAAT
66 ACTTTAAAAT
7683394 GGCCTTATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 64 0.97
87 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (86 bp):
TCCTCTATTCAGAGGCTAAACAACTTTAAAAAAGGAAATAAGCTCATCTATCTAGAGGCTAAACA
ACTTTAAAATATGAAATGGAT
Found at i:7694468 original size:37 final size:38
Alignment explanation
Indices: 7694427--7694499 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
7694417 TAAAATCTTT
* * *
7694427 CAATAGTTTAACAATATTTACTTT-GATGCAAATCACC
1 CAATAGGTTAACAAGATTTAATTTAGATGCAAATCACC
*
7694464 CAATAGGTTAACGAGATTTAATTTAAGATGCAAATC
1 CAATAGGTTAACAAGATTTAATTT-AGATGCAAATC
7694500 CTGTAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 20 0.67
39 10 0.33
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (38 bp):
CAATAGGTTAACAAGATTTAATTTAGATGCAAATCACC
Found at i:7696568 original size:19 final size:18
Alignment explanation
Indices: 7696536--7696581 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7696526 TCTAATAAAA
*
7696536 AATT-TAATATAATTTTT
1 AATTATAATAAAATTTTT
7696553 GAATTATAATAAAATTTTT
1 -AATTATAATAAAATTTTT
*
7696572 AATTAAAATA
1 AATTATAATA
7696582 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTATAATAAAATTTTT
Found at i:7696634 original size:29 final size:29
Alignment explanation
Indices: 7696602--7696663 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
7696592 TAAAATTTTT
*
7696602 AATA-TGATATTTAAT-TTATTAATTAATAA
1 AATATTGATATTTAATGTGATTAATT--TAA
*
7696631 AATATTTATATTTAATGTGATTAATTTAA
1 AATATTGATATTTAATGTGATTAATTTAA
7696660 AATA
1 AATA
7696664 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 11 0.38
30 10 0.34
31 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
AATATTGATATTTAATGTGATTAATTTAA
Found at i:7696672 original size:31 final size:30
Alignment explanation
Indices: 7696603--7696673 Score: 72
Period size: 31 Copynumber: 2.2 Consensus size: 30
7696593 AAAATTTTTA
*
7696603 ATATGATATTTAATTTATTAATTAATAAAAT
1 ATAT-ATATTTAATTGATTAATTAATAAAAT
*
7696634 ATTTATATTTAATGTGATTAATTTAA-AATAAT
1 ATATATATTTAAT-TGATTAA-TTAATAA-AAT
7696666 AATATATA
1 -ATATATA
7696674 ATAATAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 9 0.27
31 11 0.33
32 7 0.21
33 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (30 bp):
ATATATATTTAATTGATTAATTAATAAAAT
Found at i:7696705 original size:27 final size:29
Alignment explanation
Indices: 7696667--7696731 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
7696657 TAAAATAATA
7696667 ATATATAATAAT-AATTT-T-TTAAATATC
1 ATAT-TAATAATAAATTTATATTAAATATC
*
7696694 ATATTAATTAATAAATTTATAATTTAATATC
1 ATATTAA-TAATAAATTTAT-ATTAAATATC
7696725 ATATTAA
1 ATATTAA
7696732 AAATTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.09
27 8 0.25
28 5 0.16
29 1 0.03
31 15 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATTAATAATAAATTTATATTAAATATC
Found at i:7708125 original size:23 final size:23
Alignment explanation
Indices: 7708099--7708150 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
7708089 TACCATGAAT
*
7708099 AAGTTTGACATTGTTAACAAGTA
1 AAGTTTGACATAGTTAACAAGTA
7708122 AAGTTTGACATAGTTAACAAGTA
1 AAGTTTGACATAGTTAACAAGTA
7708145 AAGTTT
1 AAGTTT
7708151 AACCATTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (23 bp):
AAGTTTGACATAGTTAACAAGTA
Found at i:7708881 original size:30 final size:30
Alignment explanation
Indices: 7708845--7708903 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
7708835 GATAACTCGT
7708845 TTGTGGACATGACGAAACTATCTATATGGA
1 TTGTGGACATGACGAAACTATCTATATGGA
* *
7708875 TTGTGGACATGATGATACTATCTATATGG
1 TTGTGGACATGACGAAACTATCTATATGG
7708904 GTTCCTTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (30 bp):
TTGTGGACATGACGAAACTATCTATATGGA
Found at i:7709389 original size:24 final size:24
Alignment explanation
Indices: 7709362--7709414 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7709352 TACTATAAGC
7709362 AACTGTG-GAAAAACTAAGAAATAA
1 AACTGTGTGAAAAACTAAG-AATAA
*
7709386 AACTGTGTGAAAAACTAAGAGTAA
1 AACTGTGTGAAAAACTAAGAATAA
7709410 AACTG
1 AACTG
7709415 AATGTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (24 bp):
AACTGTGTGAAAAACTAAGAATAA
Found at i:7709583 original size:22 final size:22
Alignment explanation
Indices: 7709558--7709600 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7709548 TTTTTTGTCA
* *
7709558 TTAATTCTAGGGATATAAATAC
1 TTAATTCTAGAGATACAAATAC
7709580 TTAATTCTAGAGATACAAATA
1 TTAATTCTAGAGATACAAATA
7709601 TAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:7713444 original size:25 final size:25
Alignment explanation
Indices: 7713406--7713455 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
7713396 TCTGATACTA
7713406 TGTGAAAAAACTAAGAAATAAAACTG
1 TGTGAAAAAACTAAG-AATAAAACTG
*
7713432 TGTG-AAAAACTAAGAGTAAAACTG
1 TGTGAAAAAACTAAGAATAAAACTG
7713456 AACGTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.39
25 10 0.43
26 4 0.17
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.20
Consensus pattern (25 bp):
TGTGAAAAAACTAAGAATAAAACTG
Found at i:7722509 original size:36 final size:36
Alignment explanation
Indices: 7722462--7722532 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
7722452 TCAACTCTTA
* *
7722462 ATTCTAATAATCAAAATTTAATCTCGAGCAGCTTTG
1 ATTCTAATAATCAAAATTTAATCTCCAACAGCTTTG
7722498 ATTCTAATAATCAAAATTTAATCTCCAACAGCTTT
1 ATTCTAATAATCAAAATTTAATCTCCAACAGCTTT
7722533 AAGTGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (36 bp):
ATTCTAATAATCAAAATTTAATCTCCAACAGCTTTG
Found at i:7726503 original size:15 final size:15
Alignment explanation
Indices: 7726485--7726541 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 15
7726475 AATAAAGGTC
*
7726485 ATAAAATTAATTATT
1 ATAAAATTAATTATA
7726500 ATAAAAATATATATTATA
1 AT-AAAAT-TA-ATTATA
7726518 ATAAAATTAAAATTAATA
1 ATAAAATT--AATT-ATA
7726536 ATAAAA
1 ATAAAA
7726542 AAATATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 2 0.06
16 6 0.17
17 10 0.29
18 17 0.49
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAAATTAATTATA
Found at i:7726521 original size:18 final size:18
Alignment explanation
Indices: 7726494--7726547 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
7726484 CATAAAATTA
*
7726494 ATTATTATAAAAATATAT
1 ATTATAATAAAAATATAT
* *
7726512 ATTATAATAAAATTA-AA
1 ATTATAATAAAAATATAT
*
7726529 ATTAATAATAAAAAAATAT
1 ATT-ATAATAAAAATATAT
7726548 TTAAACATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 4 0.14
18 23 0.82
19 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATAATAAAAATATAT
Found at i:7726667 original size:36 final size:37
Alignment explanation
Indices: 7726627--7726707 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 37
7726617 AAATTTTATA
* *
7726627 TTAAAATATA-TAA-T-ATATAATATATAATTAATATTT
1 TTAAAATATATTAAGTAATA-AATATATAAATAA-ATAT
*
7726663 TTAAAAT-TATTAAGTAATAAATTTATAAATAAATAT
1 TTAAAATATATTAAGTAATAAATATATAAATAAATAT
7726699 TTAAAATAT
1 TTAAAATAT
7726708 TTTTATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
35 2 0.05
36 20 0.53
37 13 0.34
38 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (37 bp):
TTAAAATATATTAAGTAATAAATATATAAATAAATAT
Found at i:7729434 original size:17 final size:17
Alignment explanation
Indices: 7729408--7729441 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7729398 CAAAATAAAA
*
7729408 ATATTTATATTAAACAT
1 ATATTCATATTAAACAT
*
7729425 ATATTCATATTTAACAT
1 ATATTCATATTAAACAT
7729442 TTACTTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTCATATTAAACAT
Found at i:7738385 original size:18 final size:18
Alignment explanation
Indices: 7738362--7738439 Score: 96
Period size: 18 Copynumber: 4.6 Consensus size: 18
7738352 AATTTTACTT
7738362 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
7738380 ATAAATAATATTATATGA
1 ATAAATAATATTATATTA
7738398 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
7738416 AT--AT-A-A-TATATTA
1 ATAAATAATATTATATTA
7738429 ATAAATAATAT
1 ATAAATAATAT
7738440 AAAGAATAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.13
14 3 0.06
15 3 0.06
16 3 0.06
17 3 0.06
18 33 0.63
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:7738400 original size:14 final size:13
Alignment explanation
Indices: 7738374--7738439 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
7738364 AAATAATATT
7738374 ATATTAATAAATA
1 ATATTAATAAATA
*
7738387 ATATTATATGAATA
1 ATATTA-ATAAATA
7738401 A-A-TAAT--ATA
1 ATATTAATAAATA
*
7738410 CTATTAATATAAT-
1 ATATTAATA-AATA
7738423 ATATTAATAAATA
1 ATATTAATAAATA
7738436 ATAT
1 ATAT
7738440 AAAGAATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
9 3 0.07
10 1 0.02
11 6 0.14
12 5 0.12
13 19 0.44
14 9 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (13 bp):
ATATTAATAAATA
Found at i:7738535 original size:16 final size:15
Alignment explanation
Indices: 7738503--7738568 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
7738493 TTAATATTAC
*
7738503 ATAATATTATTTAAAT
1 ATAATATT-TTTTAAT
7738519 ATAATTATTTTTTAAT
1 ATAA-TATTTTTTAAT
*
7738535 ATTAATA-ATTTTAAT
1 A-TAATATTTTTTAAT
*
7738550 AATAAATAATTTTTAAT
1 -AT-AATATTTTTTAAT
7738567 AT
1 AT
7738569 TTTAATAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
15 8 0.19
16 20 0.48
17 14 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATATTTTTTAAT
Found at i:7738563 original size:32 final size:36
Alignment explanation
Indices: 7738475--7738569 Score: 103
Period size: 34 Copynumber: 2.8 Consensus size: 36
7738465 AAGTATTGTT
*
7738475 TTATATAAACATAAT-A-TTTTAATATTACATAATA
1 TTATATAAATATAATAATTTTTAATATTACATAATA
* * *
7738509 TTATTTAAATATAATTATTTTTTAATATTA-ATAATT
1 TTATATAAATATAA-TAATTTTTAATATTACATAATA
7738545 TTA-AT-AATA-AATAATTTTTAATATT
1 TTATATAAATATAATAATTTTTAATATT
7738570 TTAATAGTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
32 13 0.25
33 2 0.04
34 16 0.31
35 2 0.04
36 8 0.15
37 11 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (36 bp):
TTATATAAATATAATAATTTTTAATATTACATAATA
Found at i:7745020 original size:3 final size:3
Alignment explanation
Indices: 7745012--7745067 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
7745002 TCAAAATCAT
7745012 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7745060 TTA TTA TT
1 TTA TTA TT
7745068 TACATAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7745163 original size:18 final size:17
Alignment explanation
Indices: 7745136--7745186 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
7745126 AAACTGAATT
*
7745136 ACATAGAAATTAAAATA
1 ACATAAAAATTAAAATA
7745153 AGCATAAAAATTTAAACATA
1 A-CATAAAAA-TTAAA-ATA
7745173 A-A-AAAAATTAAAAT
1 ACATAAAAATTAAAAT
7745187 GCATGAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 6 0.20
18 8 0.27
19 5 0.17
20 4 0.13
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (17 bp):
ACATAAAAATTAAAATA
Found at i:7752684 original size:15 final size:15
Alignment explanation
Indices: 7752661--7752701 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
7752651 CATATTGTTA
7752661 GTTATTATATTTTTTT
1 GTTA-TATATTTTTTT
*
7752677 GTTATATA-TTATTT
1 GTTATATATTTTTTT
7752691 GTTA-ATATTTT
1 GTTATATATTTT
7752702 ATTATTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 11 0.50
15 4 0.18
16 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (15 bp):
GTTATATATTTTTTT
Found at i:7752703 original size:15 final size:14
Alignment explanation
Indices: 7752665--7752704 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
7752655 TTGTTAGTTA
7752665 TTATATTTT-TTTG
1 TTATATTTTATTTG
*
7752678 TTATATATTATTTG
1 TTATATTTTATTTG
7752692 TTAATATTTTATT
1 TT-ATATTTTATT
7752705 ATTTCAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (14 bp):
TTATATTTTATTTG
Found at i:7754636 original size:18 final size:17
Alignment explanation
Indices: 7754603--7754636 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7754593 GCGTCCTATA
*
7754603 AGAAAGAGGCTGATGAG
1 AGAAAGAGGATGATGAG
7754620 AGAAAGAGGAATGATGA
1 AGAAAGAGG-ATGATGA
7754637 ACTAATAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.03, G:0.38, T:0.12
Consensus pattern (17 bp):
AGAAAGAGGATGATGAG
Found at i:7759782 original size:157 final size:157
Alignment explanation
Indices: 7759493--7759803 Score: 433
Period size: 157 Copynumber: 2.0 Consensus size: 157
7759483 GCTTATATGT
* * * * * * *
7759493 TTTAGATAAAAGTTAAGAGAAAAAAAAGTAAAGAGCAGCACATAAACTAATAGCTTAGTGTTCGG
1 TTTAGATAAAACTTAAGAGAAAAAAAAGAAAAGAGAAACACATAAACTAATAACTTAATGTTCGA
* * * * * *
7759558 TCATTTTTTTTATTCTTTGTGAAAGTTTTTTCTATCTTGTTCATGTGGATTAATATTAGAGATTG
66 TCATTTTTCTCATTCTTTGTGAAAGCTTTTTCTATCTTGTTCATATGGATTAATATTAAAGACTG
*
7759623 GACACGTGAACAACCACTGATTTGTAA
131 GACACATGAACAACCACTGATTTGTAA
* * * * *
7759650 TTTAGATAAAACTTGATAGAAAAGAAAGAAAAGAGAAACACATAAACTACTAACTTAATGTTTGA
1 TTTAGATAAAACTTAAGAGAAAAAAAAGAAAAGAGAAACACATAAACTAATAACTTAATGTTCGA
7759715 TCATTTTTCTCATTCTTTGTGAAAGCTTTTTCTATCTTGTTCATATGGATTAATATTAAAGACTG
66 TCATTTTTCTCATTCTTTGTGAAAGCTTTTTCTATCTTGTTCATATGGATTAATATTAAAGACTG
* *
7759780 GACACATGAACAACTATTGATTTG
131 GACACATGAACAACCACTGATTTG
7759804 CAATAATCAA
Statistics
Matches: 133, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
157 133 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (157 bp):
TTTAGATAAAACTTAAGAGAAAAAAAAGAAAAGAGAAACACATAAACTAATAACTTAATGTTCGA
TCATTTTTCTCATTCTTTGTGAAAGCTTTTTCTATCTTGTTCATATGGATTAATATTAAAGACTG
GACACATGAACAACCACTGATTTGTAA
Found at i:7763245 original size:42 final size:42
Alignment explanation
Indices: 7763186--7763269 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
7763176 TATATGATTA
* *
7763186 ATTTTAGGTATTGACAACACAGAATTGATTAGCATTTATGTC
1 ATTTTAGGTAATGACAACACAGAATTGATTAGCATATATGTC
7763228 ATTTTAGGTAATGACAACACAGAATTGATTAGCATATATGTC
1 ATTTTAGGTAATGACAACACAGAATTGATTAGCATATATGTC
7763270 CAACAAAGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (42 bp):
ATTTTAGGTAATGACAACACAGAATTGATTAGCATATATGTC
Found at i:7767134 original size:61 final size:60
Alignment explanation
Indices: 7767038--7767188 Score: 162
Period size: 61 Copynumber: 2.5 Consensus size: 60
7767028 AAAATGCGAG
7767038 AGGATTATTCAAGGCGTTTTTAGCCAAAAAGACCTTGAATAATC-CCTTCTAATTTTTATGA
1 AGGATTATTCAAGGCGTTTTTAGCCAAAAAGACCTTGAATAATCACC-TCTAATTTTT-TGA
* * * * * * *
7767099 AGGTATTATTCATGGTGTTTTTGGCC-CAAATACCTTGAATAATCACCTCTCATTTTTTGG
1 AGG-ATTATTCAAGGCGTTTTTAGCCAAAAAGACCTTGAATAATCACCTCTAATTTTTTGA
** * *
7767159 AGGATTATTCAAAACGTTTTTGGCTAAAAA
1 AGGATTATTCAAGGCGTTTTTAGCCAAAAA
7767189 ACGCATCAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
59 17 0.23
60 8 0.11
61 28 0.38
62 21 0.28
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (60 bp):
AGGATTATTCAAGGCGTTTTTAGCCAAAAAGACCTTGAATAATCACCTCTAATTTTTTGA
Found at i:7767562 original size:61 final size:62
Alignment explanation
Indices: 7767434--7767602 Score: 218
Period size: 62 Copynumber: 2.7 Consensus size: 62
7767424 AATTGAAAGG
* *
7767434 GATTATTCAAGATATTTTTTACTAGAAATATCTTGAATAACCCTATTTAATTTTTTGTAAAA
1 GATTATTCAAGGTATTTTTTACCAGAAATATCTTGAATAACCCTATTTAATTTTTTGTAAAA
*
7767496 AATTATTCAAGGTATTTTTTACCAGAAA-ATGCTTTGAATAA-CCTATTTAATTTTTT-TAAAA
1 GATTATTCAAGGTATTTTTTACCAGAAATAT-C-TTGAATAACCCTATTTAATTTTTTGTAAAA
* * * *
7767557 GATTATTCAAGGTGTTTTCTAGCAAAAAATATCTTGAATAATCCCT
1 GATTATTCAAGGTATTTTTTA-CCAGAAATATCTTGAATAA-CCCT
7767603 TACAAAAAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
61 33 0.35
62 47 0.51
63 13 0.14
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (62 bp):
GATTATTCAAGGTATTTTTTACCAGAAATATCTTGAATAACCCTATTTAATTTTTTGTAAAA
Found at i:7767873 original size:63 final size:63
Alignment explanation
Indices: 7767770--7767888 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 63
7767760 TTTTTGTCAG
* * * *
7767770 AAATGCCTTGAATAACCCCATTAAATTTTTTATAAGAGATTATTTAAGACATTTTTAGTTAGA
1 AAATACCTTGAATAACCCCATTAAATATTTTATAAAAGATTATTCAAGACATTTTTAGTTAGA
* * * * *
7767833 AAATACCTTGAATAACCTCTTTTAATATTTTGTAAAAGATTATTCAAGGCATTTTT
1 AAATACCTTGAATAACCCCATTAAATATTTTATAAAAGATTATTCAAGACATTTTT
7767889 CGGCCAAATG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 47 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (63 bp):
AAATACCTTGAATAACCCCATTAAATATTTTATAAAAGATTATTCAAGACATTTTTAGTTAGA
Found at i:7767888 original size:125 final size:123
Alignment explanation
Indices: 7767434--7767908 Score: 322
Period size: 125 Copynumber: 3.8 Consensus size: 123
7767424 AATTGAAAGG
* * * * * * * *
7767434 GATTATTCAAGATATTTTTTACTAG-AAATATCTTGAATAACCCTATTTAATTTTTTGTAAAAAA
1 GATTATTCAAGACATTTTCTAGTAGAAAATACCTTGAATAACCCT-TATAATATATTGTAAAAGA
* ** * * * *
7767498 TTATTCAAGGTATTTTTTACCAGAAAATGCTTTGAATAA-CCTATTTAATTTTTTTAAAA
65 TTATTCAAGGCATTTTTTGTCAG-AAATGCCTTGAATAACCCCATTAAATTTTTTTAAGA
*** * * * * * * **
7767557 GATTATTCAAGGTGTTTTCTAGCAAAAAATATCTTGAATAATCCCTTACAAAAAATTG-AATGGA
1 GATTATTCAAGACATTTTCTAGTAGAAAATACCTTGAATAA-CCCTTATAATATATTGTAAAAGA
* * * * * * ** *
7767621 GTTATTCAAGGCATTTTTGGTAAAAAACGCATTGAATAACTCCATTCGATTTTTTGTAAGG
65 -TTATTCAAGGCATTTTTTGTCAGAAATGCCTTGAATAACCCCATTAAATTTTTT-TAAGA
* * *
7767682 GATTATTCAAGACATTTTCTAG-ACAAAA-ACGTCTTGAATAATCTCCTCATAA-A-AAT-TAAA
1 GATTATTCAAGACATTTTCTAGTAGAAAATAC--CTTGAATAA-C-CCTTATAATATATTGTAAA
* * **
7767742 GGGGATTATTCAATGTGTTTTTTGTCAGAAATGCCTTGAATAACCCCATTAAATTTTTTATAAGA
62 --AGATTATTCAAGGCATTTTTTGTCAGAAATGCCTTGAATAACCCCATTAAATTTTTT-TAAGA
* * *
7767807 GATTATTTAAGACATTTT-TAGTTAGAAAATACCTTGAATAACCTCTTTTAATATTTTGTAAAAG
1 GATTATTCAAGACATTTTCTAG-TAGAAAATACCTTGAATAACC-CTTATAATATATTGTAAAAG
* * *
7767871 ATTATTCAAGGCATTTTTCGGC-CAAATGCCTTGAATAA
64 ATTATTCAAGGCATTTTTTGTCAGAAATGCCTTGAATAA
7767909 TCAACATTTT
Statistics
Matches: 270, Mismatches: 64, Indels: 35
0.73 0.17 0.09
Matches are distributed among these distances:
123 37 0.14
124 82 0.30
125 130 0.48
126 15 0.06
127 6 0.02
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (123 bp):
GATTATTCAAGACATTTTCTAGTAGAAAATACCTTGAATAACCCTTATAATATATTGTAAAAGAT
TATTCAAGGCATTTTTTGTCAGAAATGCCTTGAATAACCCCATTAAATTTTTTTAAGA
Found at i:7768954 original size:20 final size:19
Alignment explanation
Indices: 7768925--7768963 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
7768915 TAAAATTTTA
7768925 GAAATACTTAAACTACAATT
1 GAAATACTTAAACT-CAATT
* *
7768945 GAAATTCTTATACTCAATT
1 GAAATACTTAAACTCAATT
7768964 TTACATATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (19 bp):
GAAATACTTAAACTCAATT
Found at i:7771457 original size:20 final size:21
Alignment explanation
Indices: 7771406--7771446 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
7771396 AGTTACAATT
7771406 ATAATTAAATATTACATTAATGA
1 ATAATT-AA-ATTACATTAATGA
7771429 ATAATTAAATTA-ATTAAT
1 ATAATTAAATTACATTAAT
7771447 TAATCAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 2 0.11
23 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATAATTAAATTACATTAATGA
Found at i:7783137 original size:15 final size:14
Alignment explanation
Indices: 7783096--7783138 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
7783086 TGTAAAGAGG
*
7783096 AAAAATAGAATAAA
1 AAAAATAAAATAAA
*
7783110 AAAATTAAAATAAA
1 AAAAATAAAATAAA
*
7783124 AACAAATAATATAAA
1 AA-AAATAAAATAAA
7783139 TCCATGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAATAAAATAAA
Found at i:7783250 original size:19 final size:19
Alignment explanation
Indices: 7783206--7783252 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
7783196 ACTTTCTACC
*
7783206 TTTTT-TTTTTTTTGCTTT
1 TTTTTCTTTTTTTTACTTT
**
7783224 TTCGTCTTTTTTTTACTTT
1 TTTTTCTTTTTTTTACTTT
7783243 TTTTTCTTTT
1 TTTTTCTTTT
7783253 CAATTAGATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTTTTACTTT
Found at i:7789394 original size:20 final size:21
Alignment explanation
Indices: 7789369--7789410 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7789359 CAATCACAAT
*
7789369 TCAAAA-TTATGTGGGGTCCA
1 TCAAAATTTATGTGGAGTCCA
7789389 TCAAAATTTTATGTGGAGTCCA
1 TCAAAA-TTTATGTGGAGTCCA
7789411 CACTTATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (21 bp):
TCAAAATTTATGTGGAGTCCA
Found at i:7800162 original size:13 final size:13
Alignment explanation
Indices: 7800146--7800170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7800136 ACAAAACCAT
7800146 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
7800159 GAAAAAAAAAAA
1 GAAAAAAAAAAA
7800171 CGACCCACCT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:7801143 original size:6 final size:6
Alignment explanation
Indices: 7801132--7801169 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
7801122 TCTCCAAGGG
7801132 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA AT
1 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA AT
7801170 AATAATAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTTGA
Found at i:7802023 original size:6 final size:6
Alignment explanation
Indices: 7802012--7802039 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7802002 CGTCTTCCCA
7802012 GAATTT GAATTT GAATTT GAATTT GAAT
1 GAATTT GAATTT GAATTT GAATTT GAAT
7802040 GGGATTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (6 bp):
GAATTT
Found at i:7805853 original size:23 final size:23
Alignment explanation
Indices: 7805827--7805870 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
7805817 TGACTGCCAG
*
7805827 AATGTTTAAGGCTAATATCCTGC
1 AATGTTTAAAGCTAATATCCTGC
7805850 AATGTTTAAAGCTAATATCCT
1 AATGTTTAAAGCTAATATCCT
7805871 ACAACCAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (23 bp):
AATGTTTAAAGCTAATATCCTGC
Found at i:7813687 original size:3 final size:3
Alignment explanation
Indices: 7813679--7813705 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7813669 CTCATTGCTA
7813679 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
7813706 TCTATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7814976 original size:20 final size:20
Alignment explanation
Indices: 7814929--7814977 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
7814919 TTACTTTTTT
*
7814929 TTATAATATTAATTTTTAAT
1 TTATAATATTAATTTTTAAG
*
7814949 TTACTAAT-TTAATTATTTACG
1 TTA-TAATATTAATT-TTTAAG
7814970 TTATAATA
1 TTATAATA
7814978 ATATGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
TTATAATATTAATTTTTAAG
Found at i:7815447 original size:21 final size:21
Alignment explanation
Indices: 7815415--7815478 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
7815405 GGTTTAAAAT
7815415 TTTTTTAT-TTATAATAATAA
1 TTTTTTATGTTATAATAATAA
*
7815435 TTTTTTATGTTATCAAT-TTAA
1 TTTTTTATGTTAT-AATAATAA
* * *
7815456 TTATTTACGTTATATTAA-AA
1 TTTTTTATGTTATAATAATAA
7815476 TTT
1 TTT
7815479 GTCACACTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 14 0.40
21 18 0.51
22 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTTTATGTTATAATAATAA
Found at i:7816279 original size:16 final size:17
Alignment explanation
Indices: 7816235--7816280 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
7816225 TTGAATTATT
*
7816235 TTTTATTCATAATACTAA
1 TTTTATT-ATATTACTAA
*
7816253 TTTTTTTATATTACTAA
1 TTTTATTATATTACTAA
7816270 -TTTATTATATT
1 TTTTATTATATT
7816281 TCTATAATAT
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:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTATATTACTAA
Found at i:7818078 original size:35 final size:35
Alignment explanation
Indices: 7818004--7818078 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 35
7817994 AAATGATACT
* * * *
7818004 TATTTTAGTTTTTTTTTTCACTTTTTTTCGTTATT
1 TATTTTAGTTTTTTTTTTAACTATTTTGCGTTATA
7818039 TATTTT-GTTTTTCATTTTTAACTATTTTGC-TTATA
1 TATTTTAGTTTTT--TTTTTAACTATTTTGCGTTATA
7818074 TATTT
1 TATTT
7818079 AAAAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
34 6 0.18
35 15 0.44
36 13 0.38
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.71
Consensus pattern (35 bp):
TATTTTAGTTTTTTTTTTAACTATTTTGCGTTATA
Found at i:7818413 original size:239 final size:236
Alignment explanation
Indices: 7818046--7818492 Score: 501
Period size: 239 Copynumber: 1.9 Consensus size: 236
7818036 ATTTATTTTG
* * * * * *
7818046 TTTTTCATTTTTAACTATTTTGCTTATATATTTAAAAAATAATAATTAGTTAAAATTTTATGTTG
1 TTTTTAATTTATAACTATTTTGCTTATATATTTAAAAAACAATAATTAATCAAAATTTTATATTG
* ** *
7818111 CCTACATAATTATTTATGTTACAATAATATCTTCTTACGATTATTCTCACATTCTATTATGTTTA
66 CATACATAATTATTTACATTACAATAATATCTTCTTACGATTATTCTCACATTCTAATATGTTTA
* * ** * * * *
7818176 GAATTGTTGT-A-TCTTTTTTAGTATATTATGATACTTTTTTA-TCTATTTTGTACTAAATGATA
131 AAATTATCATAATTCTTTCTTAGTATATTATGACAC-TTCTTACT-TATTTTATACTAAATGATA
* *
7818238 TTAATTTTACATTTCTTCTCATTTGTTTTTGTTACCAATTTAT
194 TAAATATTACATTTCTTCTCATTTGTTTTTGTTACCAATTTAT
7818281 TTTTTAATTTATAACTATTTT-CTTATATATATATATATATAAACAATAATTAATCAAAATTTTA
1 TTTTTAATTTATAACTATTTTGCTTATATAT-T-TA-A-A-AAACAATAATTAATCAAAATTTTA
* * * * * ** *
7818345 TATTGTCAT-CATAATTATTTACATTACGATAATATGTTTTTA-TATTTATTCTTATTTTTTAAT
61 TATTG-CATACATAATTATTTACATTACAATAATATCTTCTTACGA-TTATTCTCACATTCTAAT
* *
7818408 ATGTTTAAAATTATCATAATTCTTTCTTAGTGTATTATGACACTTCTTACTTATTTTATGCTAAA
124 ATGTTTAAAATTATCATAATTCTTTCTTAGTATATTATGACACTTCTTACTTATTTTATACTAAA
7818473 TGATATAAATATTACATTTC
189 TGATATAAATATTACATTTC
7818493 CTTTCCCATA
Statistics
Matches: 172, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
234 9 0.05
235 20 0.12
236 2 0.01
237 1 0.01
238 2 0.01
239 79 0.46
240 38 0.22
241 21 0.12
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.53
Consensus pattern (236 bp):
TTTTTAATTTATAACTATTTTGCTTATATATTTAAAAAACAATAATTAATCAAAATTTTATATTG
CATACATAATTATTTACATTACAATAATATCTTCTTACGATTATTCTCACATTCTAATATGTTTA
AAATTATCATAATTCTTTCTTAGTATATTATGACACTTCTTACTTATTTTATACTAAATGATATA
AATATTACATTTCTTCTCATTTGTTTTTGTTACCAATTTAT
Found at i:7819766 original size:3 final size:3
Alignment explanation
Indices: 7819758--7819782 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7819748 TGAGGATCCC
7819758 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
7819783 ATGGAAGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:7823704 original size:6 final size:6
Alignment explanation
Indices: 7823690--7823726 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
7823680 AAATCAACAG
*
7823690 CCTCTA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA C
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA C
7823727 AAAATGAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.16, C:0.65, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTCCA
Found at i:7832609 original size:10 final size:9
Alignment explanation
Indices: 7832572--7832636 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
7832562 TAATATAACA
7832572 ATTAAAA-T
1 ATTAAAATT
7832580 ATTAACAATT
1 ATTAA-AATT
*
7832590 ATT--TATT
1 ATTAAAATT
7832597 ATTAAAATAT
1 ATTAAAAT-T
*
7832607 ATTGAAATT
1 ATTAAAATT
*
7832616 ATT--TATT
1 ATTAAAATT
7832623 ATTAAAATT
1 ATTAAAATT
7832632 ATTAA
1 ATTAA
7832637 TATTCAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
7 12 0.27
8 5 0.11
9 16 0.36
10 12 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (9 bp):
ATTAAAATT
Found at i:7832621 original size:26 final size:25
Alignment explanation
Indices: 7832572--7832634 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 25
7832562 TAATATAACA
*
7832572 ATTAAAA-TATTAACAATTATTTATT
1 ATTAAAATTATTGA-AATTATTTATT
7832597 ATTAAAATATATTGAAATTATTTATT
1 ATTAAAAT-TATTGAAATTATTTATT
7832623 ATTAAAATTATT
1 ATTAAAATTATT
7832635 AATATTCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
25 11 0.31
26 19 0.54
27 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTAAAATTATTGAAATTATTTATT
Found at i:7832645 original size:16 final size:16
Alignment explanation
Indices: 7832605--7832698 Score: 57
Period size: 16 Copynumber: 5.6 Consensus size: 16
7832595 TTATTAAAAT
*
7832605 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
7832621 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
* *
7832636 ATATTCAAAAATAATTA
1 ATATT-AAAATTATTTA
*
7832653 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TATTTA
*
7832673 ATATAAAATATTATGTTA
1 ATATTAAA-ATTAT-TTA
7832691 ATA-TAAAA
1 ATATTAAAA
7832699 AATACTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
15 7 0.12
16 17 0.28
17 11 0.18
18 13 0.22
19 7 0.12
20 5 0.08
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:7832682 original size:20 final size:20
Alignment explanation
Indices: 7832659--7832702 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
7832649 ATTATATTTT
7832659 AATAATAATAT-TTAATATAA
1 AATAAT-ATATGTTAATATAA
7832679 AAT-AT-TATGTTAATATAA
1 AATAATATATGTTAATATAA
7832697 AA-AATA
1 AATAATA
7832703 CTTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
17 3 0.14
18 13 0.62
19 2 0.10
20 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AATAATATATGTTAATATAA
Found at i:7832747 original size:15 final size:15
Alignment explanation
Indices: 7832729--7832782 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
7832719 TTTTATTCTT
7832729 TATATTATTTATTAA
1 TATATTATTTATTAA
* * *
7832744 TATATTGTACTAATAA
1 TATATTAT-TTATTAA
7832760 TATATTATTTATTAA
1 TATATTATTTATTAA
7832775 TATATTAT
1 TATATTAT
7832783 AATATAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 20 0.62
16 12 0.38
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:7832786 original size:28 final size:30
Alignment explanation
Indices: 7832729--7832799 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
7832719 TTTTATTCTT
7832729 TATATTATTTATTAATATATTGTACTAATAA
1 TATATTATTTATTAATATATTGTACTAAT-A
7832760 TATATTATTTATTAATATA-T-TA-TAATA
1 TATATTATTTATTAATATATTGTACTAATA
7832787 TAATATTATTTAT
1 T-ATATTATTTAT
7832800 AAGCAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
27 2 0.05
28 15 0.38
29 2 0.05
30 1 0.03
31 19 0.49
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
TATATTATTTATTAATATATTGTACTAATA
Found at i:7832790 original size:15 final size:15
Alignment explanation
Indices: 7832741--7832792 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
7832731 TATTATTTAT
* *
7832741 TAATATATTGTACTAA
1 TAATATATTATAAT-A
*
7832757 TAATATATTAT-TTA
1 TAATATATTATAATA
7832771 TTAATATATTATAATA
1 -TAATATATTATAATA
7832787 TAATAT
1 TAATAT
7832793 TATTTATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 1 0.03
15 18 0.58
16 12 0.39
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TAATATATTATAATA
Found at i:7841222 original size:23 final size:23
Alignment explanation
Indices: 7841196--7841242 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7841186 ATATTATTTT
7841196 TTAAAA-AATAATTATATATCTAA
1 TTAAAATAATAATTATAT-TCTAA
**
7841219 TTAAAATAATTTTTATATTCTAA
1 TTAAAATAATAATTATATTCTAA
7841242 T
1 T
7841243 ACTACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAAATAATAATTATATTCTAA
Found at i:7841585 original size:42 final size:42
Alignment explanation
Indices: 7841503--7841586 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
7841493 ACCTTTTTTT
* *
7841503 TTTTTTATACTAAAAAAAATTTAATATAAGTAAATTATTTAA
1 TTTTTTATACTAAAAAAAATATAATATAAGTAAATAATTTAA
* * * *
7841545 TTTTTTATATTAAAATAAAATATATTAT-ATTTAATAATTTAA
1 TTTTTTATACTAAAA-AAAATATAATATAAGTAAATAATTTAA
7841587 AATAAATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (42 bp):
TTTTTTATACTAAAAAAAATATAATATAAGTAAATAATTTAA
Done.