Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 8 of 64
Found at i:647613 original size:15 final size:15
Alignment explanation
Indices: 647582--647627 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
647572 TTTTCTTCTA
647582 TTTTTTTTTTC-TA-
1 TTTTTTTTTTCATAT
647595 -TTTTTTTTTCATAT
1 TTTTTTTTTTCATAT
* *
647609 TTTTTTTATTCATCT
1 TTTTTTTTTTCATAT
647624 TTTT
1 TTTT
647628 CATTTCTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 2 0.07
15 16 0.57
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTTCATAT
Found at i:647626 original size:26 final size:25
Alignment explanation
Indices: 647561--647627 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
647551 TTTCACTCAA
*
647561 TTATTCATTTCTTTTCTTCTATTTTTT
1 TTATTCA--TCTTTTTTTCTATTTTTT
*
647588 TT-TTCTATTTTTTTTTCATATTTTTT
1 TTATTC-ATCTTTTTTTC-TATTTTTT
647614 TTATTCATCTTTTT
1 TTATTCATCTTTTT
647628 CATTTCTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 8 0.24
26 20 0.59
27 6 0.18
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (25 bp):
TTATTCATCTTTTTTTCTATTTTTT
Found at i:648174 original size:11 final size:11
Alignment explanation
Indices: 648147--648199 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
648137 CAATCAAAGG
648147 TTTCTTTCTTTT
1 TTTCTTT-TTTT
*
648159 CTTCTTTTTTT
1 TTTCTTTTTTT
648170 TTTC-TTTTTT
1 TTTCTTTTTTT
648180 TTTCTTTTTTT
1 TTTCTTTTTTT
648191 TTTCATTTT
1 TTTC-TTTT
648200 GATTTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 10 0.27
11 17 0.46
12 10 0.27
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:648174 original size:14 final size:13
Alignment explanation
Indices: 648155--648193 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
648145 GGTTTCTTTC
648155 TTTTCTTCTTTTTT
1 TTTTCTT-TTTTTT
648169 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
648182 TCTTT-TTTTTTT
1 T-TTTCTTTTTTT
648194 CATTTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:648184 original size:21 final size:22
Alignment explanation
Indices: 648147--648199 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 22
648137 CAATCAAAGG
648147 TTTCTTTCTTTTCTTCTTTTTTT
1 TTTCTTT-TTTTCTTCTTTTTTT
648170 TTTCTTTTTTT-TTCTTTTTTT
1 TTTCTTTTTTTCTTCTTTTTTT
*
648191 TTTCATTTT
1 TTTCTTTTT
648200 GATTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 18 0.62
22 4 0.14
23 7 0.24
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTCTTTTTTTCTTCTTTTTTT
Found at i:648199 original size:10 final size:10
Alignment explanation
Indices: 648147--648192 Score: 65
Period size: 10 Copynumber: 4.3 Consensus size: 10
648137 CAATCAAAGG
648147 TTTCTTTCTTT
1 TTTCTTT-TTT
648158 TCTTCTTTTTTT
1 T-TTC-TTTTTT
648170 TTTCTTTTTT
1 TTTCTTTTTT
648180 TTTCTTTTTT
1 TTTCTTTTTT
648190 TTT
1 TTT
648193 TCATTTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 19 0.58
11 4 0.12
12 7 0.21
13 3 0.09
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:648199 original size:18 final size:17
Alignment explanation
Indices: 648147--648212 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 17
648137 CAATCAAAGG
*
648147 TTTCTTTCTTTTCTTCTT
1 TTTCTTT-TTTTTTTCTT
*
648165 TTT-TTTTTCTTTT-TT
1 TTTCTTTTTTTTTTCTT
648180 TTTCTTTTTTTTTTCATT
1 TTTCTTTTTTTTTTC-TT
**
648198 TTGATTTTTTTTTTC
1 TTTCTTTTTTTTTTC
648213 ATTATATGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 5 0.12
16 14 0.35
17 3 0.08
18 18 0.45
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTCTTTTTTTTTTCTT
Found at i:648199 original size:29 final size:29
Alignment explanation
Indices: 648151--648212 Score: 67
Period size: 29 Copynumber: 2.1 Consensus size: 29
648141 CAAAGGTTTC
*
648151 TTTCTTTTCTTCTTTTTTTT-TTCTTTTTT
1 TTTCTTTTCTTCTTTTTTTTGAT-TTTTTT
648180 TTTCTTTT-TT-TTTTCATTTTGATTTTTTT
1 TTTCTTTTCTTCTTTT--TTTTGATTTTTTT
648209 TTTC
1 TTTC
648213 ATTATATGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
27 4 0.14
28 2 0.07
29 22 0.76
30 1 0.03
ACGTcount: A:0.03, C:0.11, G:0.02, T:0.84
Consensus pattern (29 bp):
TTTCTTTTCTTCTTTTTTTTGATTTTTTT
Found at i:648208 original size:21 final size:21
Alignment explanation
Indices: 648160--648211 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
648150 CTTTCTTTTC
**
648160 TTCTTTTTTTTTTCTTTTTTT
1 TTCTTTTTTTTTTCTTTTGAT
648181 TTCTTTTTTTTTTCATTTTGAT
1 TTCTTTTTTTTTTC-TTTTGAT
648203 TT-TTTTTTT
1 TTCTTTTTTT
648212 CATTATATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.04, C:0.08, G:0.02, T:0.87
Consensus pattern (21 bp):
TTCTTTTTTTTTTCTTTTGAT
Found at i:649092 original size:25 final size:25
Alignment explanation
Indices: 649055--649113 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
649045 GGCCTAATCA
* * * *
649055 AAAGTCCACTATGGCTCGAATGGCT
1 AAAGCCCATTATGGCCCAAATGGCT
*
649080 AAAGCCCATTATGGCCCAAATGGTT
1 AAAGCCCATTATGGCCCAAATGGCT
649105 AAAGCCCAT
1 AAAGCCCAT
649114 AAGCAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (25 bp):
AAAGCCCATTATGGCCCAAATGGCT
Found at i:651040 original size:12 final size:13
Alignment explanation
Indices: 650984--651046 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
650974 GGTAAATTTT
* *
650984 TGAAACCTTAAAG
1 TGAAACCCTAAAA
650997 TGAAACCCTAAAA
1 TGAAACCCTAAAA
*
651010 TGAAACTCTAAAA
1 TGAAACCCTAAAA
* *
651023 TGAAACTCT-AAG
1 TGAAACCCTAAAA
651035 TGAAACCCTAAA
1 TGAAACCCTAAA
651047 TCTTAGATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
12 10 0.23
13 34 0.77
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (13 bp):
TGAAACCCTAAAA
Found at i:655272 original size:21 final size:21
Alignment explanation
Indices: 655233--655272 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
655223 TTGATGAATG
* * *
655233 ATTATTCCCATTGGTCACCAT
1 ATTATTCCCAATCGACACCAT
655254 ATTATTCCCAATCGACACC
1 ATTATTCCCAATCGACACC
655273 TGAAGCTGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTATTCCCAATCGACACCAT
Found at i:656722 original size:8 final size:8
Alignment explanation
Indices: 656709--656748 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
656699 GGCATGTCAA
656709 AAAAAATG
1 AAAAAATG
*
656717 AAAAAAAAG
1 -AAAAAATG
656726 AGAAAAATG
1 A-AAAAATG
656735 AAAAAATG
1 AAAAAATG
656743 AAAAAA
1 AAAAAA
656749 AATAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (8 bp):
AAAAAATG
Found at i:656722 original size:9 final size:9
Alignment explanation
Indices: 656708--656749 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
656698 GGGCATGTCA
656708 AAAAAAATG
1 AAAAAAATG
*
656717 AAAAAAAAG
1 AAAAAAATG
*
656726 AGAAAAATG
1 AAAAAAATG
656735 -AAAAAATG
1 AAAAAAATG
656743 AAAAAAA
1 AAAAAAA
656750 ATAAAAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (9 bp):
AAAAAAATG
Found at i:657218 original size:33 final size:33
Alignment explanation
Indices: 657175--657276 Score: 104
Period size: 33 Copynumber: 3.1 Consensus size: 33
657165 GAATCCACAC
657175 AAAG-GAAAGAAAAAATGAAAGAATG-AAAAAGAA
1 AAAGTGAAAGAAAAAA-GAAAGAA-GAAAAAAGAA
* * *
657208 AAGGTG-AAGAAAAAGAGAAA-AAGTAAAAGGAA
1 AAAGTGAAAGAAAAA-AGAAAGAAGAAAAAAGAA
*
657240 AAAGTGAAAGAAAGAAGAAAGAAGAAAGAAAGAA
1 AAAGTGAAAGAAAAAAGAAAGAAGAAA-AAAGAA
657274 AAA
1 AAA
657277 ATAAAATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
31 1 0.02
32 19 0.33
33 27 0.47
34 10 0.18
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.05
Consensus pattern (33 bp):
AAAGTGAAAGAAAAAAGAAAGAAGAAAAAAGAA
Found at i:657242 original size:13 final size:14
Alignment explanation
Indices: 657218--657250 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
657208 AAGGTGAAGA
657218 AAAAGAGAAAAAGT
1 AAAAGAGAAAAAGT
657232 AAAAG-GAAAAAGT
1 AAAAGAGAAAAAGT
*
657245 GAAAGA
1 AAAAGA
657251 AAGAAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (14 bp):
AAAAGAGAAAAAGT
Found at i:658690 original size:24 final size:23
Alignment explanation
Indices: 658654--658710 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
658644 TGAAAATTTA
*
658654 TTATT-ATTATTATTTATTTACTTT
1 TTATTAATT-TTATTT-TTTACTAT
*
658678 TTATTAATTTTATTTTTTAGTAT
1 TTATTAATTTTATTTTTTACTAT
*
658701 TTAATAATTT
1 TTATTAATTT
658711 CTCAACATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.52
24 11 0.38
25 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATTAATTTTATTTTTTACTAT
Found at i:658875 original size:27 final size:27
Alignment explanation
Indices: 658825--658876 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
658815 CATTTGGTTA
* **
658825 TTTTTTTTTTATTTTTTATCTTTTATC
1 TTTTTTTTTTACTTTAAATCTTTTATC
*
658852 TTTTTTTTTTACTTTAAATTTTTTA
1 TTTTTTTTTTACTTTAAATCTTTTA
658877 GTTGTAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTTTTTTACTTTAAATCTTTTATC
Found at i:660618 original size:25 final size:25
Alignment explanation
Indices: 660590--660647 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
660580 ATTTTACTTG
* * *
660590 TGGGCTTTAACCATTTGGGCCATAT
1 TGGGCTTTAACCAATCGGGCCATAA
*
660615 TGGGCTTTATCCAATCGGGCCATAA
1 TGGGCTTTAACCAATCGGGCCATAA
*
660640 TGGACTTT
1 TGGGCTTT
660648 GATTAGGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (25 bp):
TGGGCTTTAACCAATCGGGCCATAA
Found at i:661041 original size:19 final size:19
Alignment explanation
Indices: 661017--661071 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
661007 AGAGTTTTTT
661017 TTATTTAATTTTTTATTT-G
1 TTATTT-ATTTTTTATTTGG
* *
661036 TTATTTTTTTTTTTTTTGG
1 TTATTTATTTTTTATTTGG
*
661055 TTTTTTATTTTTTATTT
1 TTATTTATTTTTTATTT
661072 TATTTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (19 bp):
TTATTTATTTTTTATTTGG
Found at i:661047 original size:30 final size:30
Alignment explanation
Indices: 661011--661081 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
661001 CTAAGAAGAG
661011 TTTTTTTTATTTAATTTTTTATTTGTTATT
1 TTTTTTTTATTTAATTTTTTATTTGTTATT
* ** *
661041 TTTTTTTTTTTTGGTTTTTTATTTTTTATT
1 TTTTTTTTATTTAATTTTTTATTTGTTATT
*
661071 TTATTTTTATT
1 TTTTTTTTATT
661082 GTTTATCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (30 bp):
TTTTTTTTATTTAATTTTTTATTTGTTATT
Found at i:661077 original size:18 final size:18
Alignment explanation
Indices: 661011--661087 Score: 65
Period size: 18 Copynumber: 4.3 Consensus size: 18
661001 CTAAGAAGAG
*
661011 TTTT-TTTTA-TTTAATT
1 TTTTATTTTATTTTTATT
661027 TTTTATTTGTTATTTTT-TT
1 TTTTA-TT-TTATTTTTATT
661046 TTTT-TTTGGT-TTTTTATT
1 TTTTATTT--TATTTTTATT
661064 TTTTATTTTATTTTTATT
1 TTTTATTTTATTTTTATT
*
661082 GTTTAT
1 TTTTAT
661088 CATTTATCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
16 5 0.10
17 8 0.16
18 22 0.44
19 12 0.24
20 3 0.06
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTATTTTATTTTTATT
Found at i:661086 original size:7 final size:6
Alignment explanation
Indices: 661026--661087 Score: 51
Period size: 6 Copynumber: 10.2 Consensus size: 6
661016 TTTATTTAAT
661026 TTTTTA TTTGTTA TTTTT- TTTTT- TTTTGGT- TTTTTA TTTTT- TATTTTA
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA T-TTTTA
661074 TTTTTA TTGTTTA T
1 TTTTTA TT-TTTA T
661088 CATTTATCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
5 11 0.22
6 21 0.43
7 17 0.35
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:661130 original size:14 final size:14
Alignment explanation
Indices: 661025--661130 Score: 63
Period size: 14 Copynumber: 7.4 Consensus size: 14
661015 TTTTATTTAA
661025 TTTTTTATTTGTTAT-
1 TTTTTTATTT-TT-TG
*
661040 TTTTTTTTTTTTTGG
1 TTTTTTATTTTTT-G
*
661055 TTTTTTATTTTTTA
1 TTTTTTATTTTTTG
*
661069 TTTTATT-TTTATTG
1 TTTT-TTATTTTTTG
* * * **
661083 TTTATCATTTATCA
1 TTTTTTATTTTTTG
* *
661097 TTTATCATTTTTTG
1 TTTTTTATTTTTTG
*
661111 TGTTTTATTTTTTG
1 TTTTTTATTTTTTG
661125 TTTTTT
1 TTTTTT
661131 TGTTTACTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
13 2 0.03
14 46 0.65
15 23 0.32
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTTTTATTTTTTG
Found at i:661395 original size:31 final size:31
Alignment explanation
Indices: 661267--661400 Score: 92
Period size: 31 Copynumber: 4.4 Consensus size: 31
661257 ACCACAGGTT
* * *
661267 AAATGAGGTGATTGAGAATGAATCACATGTT
1 AAATGAGGTGATTGAGATTGAATCACAAGTC
* * *
661298 GAAT-AAGTGACTGAGATTGAA-CTACAAGTC
1 AAATGAGGTGATTGAGATTGAATC-ACAAGTC
* * * * * * *
661328 CAATAAGGTGAATGAAATTGAACCTCAGGTC
1 AAATGAGGTGATTGAGATTGAATCACAAGTC
* * *
661359 GAATGAGATGATTGAGATTGAATCGCAAGTC
1 AAATGAGGTGATTGAGATTGAATCACAAGTC
*
661390 AAATGAAGTGA
1 AAATGAGGTGA
661401 CCAGGTCTAA
Statistics
Matches: 77, Mismatches: 23, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
29 1 0.01
30 22 0.29
31 53 0.69
32 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (31 bp):
AAATGAGGTGATTGAGATTGAATCACAAGTC
Found at i:661712 original size:64 final size:64
Alignment explanation
Indices: 661617--661795 Score: 184
Period size: 64 Copynumber: 2.8 Consensus size: 64
661607 TTAGGTAAAA
* * * * * *
661617 TGGGCTTAAATTTTCATTGAG-GCCAGCTAAACTATGCTTAAATTTTATTAGGTTCCAA-CTAGA
1 TGGGCTTAAATTTTCATTG-GCGCTAGTTAAACTAGGCTTAAATTTCATT-GGGTCCAAGCTACA
*
661680 T
64 C
* * * *
661681 TGGGTTTAAATTTTCATTGGCGTTAGTTAAACTGGGCTTAAATTTCATTGGGTGCAAGCTACAC
1 TGGGCTTAAATTTTCATTGGCGCTAGTTAAACTAGGCTTAAATTTCATTGGGTCCAAGCTACAC
* *
661745 TGGGCTTAAATTTTCATTGGACGCTAGTTAGACT-GGATTTAAATTTCATTG
1 TGGGCTTAAATTTTCATTGG-CGCTAGTTAAACTAGG-CTTAAATTTCATTG
661796 AGTACAGCTA
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
63 7 0.07
64 65 0.68
65 24 0.25
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.39
Consensus pattern (64 bp):
TGGGCTTAAATTTTCATTGGCGCTAGTTAAACTAGGCTTAAATTTCATTGGGTCCAAGCTACAC
Found at i:661780 original size:33 final size:31
Alignment explanation
Indices: 661676--661795 Score: 114
Period size: 32 Copynumber: 3.7 Consensus size: 31
661666 AGGTTCCAAC
* * *
661676 TAGATTGGGTTTAAATTTTCATTGGCGTTAGT
1 TAGACTGGGCTTAAA-TTTCATTGGCGCTAGT
* * * *
661708 TAAACTGGGCTTAAATTTCATTGGGTGCAAGC
1 TAGACTGGGCTTAAATTTCATT-GGCGCTAGT
*
661740 TACACTGGGCTTAAATTTTCATTGGACGCTAGT
1 TAGACTGGGCTTAAA-TTTCATTGG-CGCTAGT
**
661773 TAGACTGGATTTAAATTTCATTG
1 TAGACTGGGCTTAAATTTCATTG
661796 AGTACAGCTA
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
31 7 0.10
32 41 0.58
33 23 0.32
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (31 bp):
TAGACTGGGCTTAAATTTCATTGGCGCTAGT
Found at i:662035 original size:22 final size:22
Alignment explanation
Indices: 662010--662111 Score: 98
Period size: 22 Copynumber: 4.6 Consensus size: 22
662000 ACATGCCAGT
*
662010 TAATCTGGGCTTAAGTGTCAAC
1 TAATCTAGGCTTAAGTGTCAAC
**
662032 TAATCTAGGCTTACTTGTCAAC
1 TAATCTAGGCTTAAGTGTCAAC
* *
662054 TAATCTAGGCTTATGTG-CTATC
1 TAATCTAGGCTTAAGTGTC-AAC
* * * *
662076 TAATCTGGGTTTATGTGCCAAC
1 TAATCTAGGCTTAAGTGTCAAC
*
662098 TAAACTAGGCTTAA
1 TAATCTAGGCTTAA
662112 AACTTAAATG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.02
22 63 0.97
23 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (22 bp):
TAATCTAGGCTTAAGTGTCAAC
Found at i:662371 original size:13 final size:13
Alignment explanation
Indices: 662353--662377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
662343 ATGTCAAGAA
662353 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
662366 AAAAAAGAAAAA
1 AAAAAAGAAAAA
662378 TGGTTATGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:662898 original size:16 final size:15
Alignment explanation
Indices: 662873--662906 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
662863 AAAAATAGTG
662873 AAAGAAAGAAGAAAA
1 AAAGAAAGAAGAAAA
662888 AAAGAAAAGAAGAAAA
1 AAAG-AAAGAAGAAAA
662904 AAA
1 AAA
662907 TGAGTGGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAGAAAA
Found at i:662906 original size:57 final size:50
Alignment explanation
Indices: 662797--662905 Score: 128
Period size: 53 Copynumber: 2.1 Consensus size: 50
662787 GAATCCACCC
* ** *
662797 AAAGGAAATAAAAAGAAAAAGTGAAAGATTGAAGAAAAAAAATGAAGAAA
1 AAAGGAAATAAAAAAAAAAAGTGAAAGAAAGAAGAAAAAAAAAGAAGAAA
662847 AAAGGAAAATAAAAATAAAAATAGTGAAAGAAAGAAGAAAAAAAGAAAAGAAGAAA
1 AAAGG-AAATAAAAA-AAAAA-AGTGAAAGAAAGAAG--AAAAA-AAAAGAAGAAA
662903 AAA
1 AAA
662906 ATGAGTGGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
50 5 0.10
51 9 0.18
52 4 0.08
53 13 0.27
55 5 0.10
56 13 0.27
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.08
Consensus pattern (50 bp):
AAAGGAAATAAAAAAAAAAAGTGAAAGAAAGAAGAAAAAAAAAGAAGAAA
Found at i:663897 original size:63 final size:63
Alignment explanation
Indices: 663781--663900 Score: 190
Period size: 63 Copynumber: 1.9 Consensus size: 63
663771 TTTGGCTCCG
*
663781 GAGAAAGAATTTAAAGCCAGTTTAGTTGGCACCTATGTTTTAAGCCCAATTTAGCTATCACTC
1 GAGAAAGAATTTAAAGCCAGTTTAGTTGGCACCTAGGTTTTAAGCCCAATTTAGCTATCACTC
*
663844 GAGAAAGAATTT-AAGCCTAGTTTAGTTGGTATCC-AGGTTTTAAGCCCAATTTAGCTA
1 GAGAAAGAATTTAAAGCC-AGTTTAGTTGGCA-CCTAGGTTTTAAGCCCAATTTAGCTA
663901 ACACCCATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
62 5 0.09
63 46 0.87
64 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (63 bp):
GAGAAAGAATTTAAAGCCAGTTTAGTTGGCACCTAGGTTTTAAGCCCAATTTAGCTATCACTC
Found at i:664280 original size:24 final size:23
Alignment explanation
Indices: 664247--664301 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
664237 GTTGGCTATT
* *
664247 AAATATAAAATAAATAAATAACTA
1 AAATAAAAAATAAATAAA-AAATA
*
664271 AAATAAAAAATATATAAAAAATA
1 AAATAAAAAATAAATAAAAAATA
*
664294 AAACAAAA
1 AAATAAAA
664302 TAAAAACTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATAAAAAATAAATAAAAAATA
Found at i:666989 original size:6 final size:7
Alignment explanation
Indices: 666975--666999 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
666965 ATTAAATATT
666975 AAATAAA
1 AAATAAA
666982 AAATAAA
1 AAATAAA
666989 AAATAAA
1 AAATAAA
666996 AAAT
1 AAAT
667000 GGATTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:670077 original size:20 final size:20
Alignment explanation
Indices: 670052--670095 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
670042 AAGAGCTTTG
670052 TCATTTATGCATTCATTCAT
1 TCATTTATGCATTCATTCAT
***
670072 TCATTTATTTGTTCATTCAT
1 TCATTTATGCATTCATTCAT
670092 TCAT
1 TCAT
670096 CCATTTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (20 bp):
TCATTTATGCATTCATTCAT
Found at i:670101 original size:20 final size:20
Alignment explanation
Indices: 670063--670101 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
670053 CATTTATGCA
**
670063 TTCATTCATTCATTTATTTG
1 TTCATTCATTCATCCATTTG
670083 TTCATTCATTCATCCATTT
1 TTCATTCATTCATCCATTT
670102 ATGTATCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.56
Consensus pattern (20 bp):
TTCATTCATTCATCCATTTG
Found at i:672556 original size:14 final size:13
Alignment explanation
Indices: 672525--672585 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
672515 AAAAACAAGC
* *
672525 AAAAAATGTTAAA
1 AAAAAAAGTCAAA
*
672538 TAAAAAAGTCAAA
1 AAAAAAAGTCAAA
*
672551 AGAAAAGAG-CAAA
1 A-AAAAAAGTCAAA
*
672564 AAAAAAAGGTGAAA
1 AAAAAAA-GTCAAA
672578 AAAAAAAG
1 AAAAAAAG
672586 AAAAAAATGG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
12 5 0.13
13 17 0.45
14 16 0.42
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (13 bp):
AAAAAAAGTCAAA
Found at i:672568 original size:26 final size:25
Alignment explanation
Indices: 672539--672592 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
672529 AATGTTAAAT
*
672539 AAAAAA-GTCAAAAGAAAAGAGCAAAA
1 AAAAAAGGTCAAAA-AAAAAAG-AAAA
*
672565 AAAAAAGGTGAAAAAAAAAAGAAAA
1 AAAAAAGGTCAAAAAAAAAAGAAAA
672590 AAA
1 AAA
672593 TGGTTATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 12 0.48
27 6 0.24
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAAAAGGTCAAAAAAAAAAGAAAA
Found at i:674037 original size:35 final size:34
Alignment explanation
Indices: 673958--674037 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
673948 AATTCTCGAG
* *
673958 AAAGAATTTAAGCCTAGTTTAACTGGCATCAATGA
1 AAAG-ATTTAAGCCCAGTTTAACTGGCACCAATGA
** * *
673993 AAACTTTTAAGCCCAGTTTAGCTGGCACCCCATGA
1 AAAGATTTAAGCCCAGTTTAACTGGCA-CCAATGA
674028 AAAGATTTAA
1 AAAGATTTAA
674038 TCCTAGATCT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
34 20 0.56
35 16 0.44
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (34 bp):
AAAGATTTAAGCCCAGTTTAACTGGCACCAATGA
Found at i:677092 original size:463 final size:463
Alignment explanation
Indices: 676430--677354 Score: 1841
Period size: 463 Copynumber: 2.0 Consensus size: 463
676420 TTAATATTAT
676430 TAATAATAATAATAACAAAAGAATGAAAAAATGTGTGAAAAAATGAAAATGATGATCTAGGAAAC
1 TAATAATAATAATAACAAAAGAATGAAAAAATGTGTGAAAAAATGAAAATGATGATCTAGGAAAC
*
676495 CCTGTCTAGATGTTGGAGGGAATCCAAATTATGCCTTTGAAAATTTAATTTTGTCTAGATGTTGA
66 CCTATCTAGATGTTGGAGGGAATCCAAATTATGCCTTTGAAAATTTAATTTTGTCTAGATGTTGA
676560 AAAATTAAAAGAAAATTTAAATTAATTAAAAATTAATTGAAAGAAAGGAAAATTCTCAAGATGTA
131 AAAATTAAAAGAAAATTTAAATTAATTAAAAATTAATTGAAAGAAAGGAAAATTCTCAAGATGTA
676625 AAATTTCTAATGAAAAATAAATATGATTAAATAAGATAAGTCACATTGGTTGTCATTTTTTAGTT
196 AAATTTCTAATGAAAAATAAATATGATTAAATAAGATAAGTCACATTGGTTGTCATTTTTTAGTT
676690 TGCATTTCCATTATTTGTTTTGTTCCATGTTACATTAAAAATAAAACCTTTTAAAAAATGAAAAA
261 TGCATTTCCATTATTTGTTTTGTTCCATGTTACATTAAAAATAAAACCTTTTAAAAAATGAAAAA
676755 AATGAATTTGGAATCTTGCCTAGATGTTGAGGGGAATTCAAAATGTGTTTTAAGAATTTTAATTT
326 AATGAATTTGGAATCTTGCCTAGATGTTGAGGGGAATTCAAAATGTGTTTTAAGAATTTTAATTT
676820 CACCTACATGTTAGAGAATTATTAAATAATAACATAATAAATGATTAATAAATAATAATGATAAA
391 CACCTACATGTTAGAGAATTATTAAATAATAACATAATAAATGATTAATAAATAATAATGATAAA
676885 ATTTTTAA
456 ATTTTTAA
676893 TAATAATAATAATAACAAAAGAATGAAAAAATGTGTGAAAAAATGAAAATGATGATCTAGGAAAC
1 TAATAATAATAATAACAAAAGAATGAAAAAATGTGTGAAAAAATGAAAATGATGATCTAGGAAAC
676958 CCTATCTAGATGTTGGAGGGAATCCAAATTATGCCTTTGAAAATTTAATTTTGTCTAGATGTTGA
66 CCTATCTAGATGTTGGAGGGAATCCAAATTATGCCTTTGAAAATTTAATTTTGTCTAGATGTTGA
677023 AAAATTAAAAGAAAATTTAAATTAATTAAAAATTAATTGAAAGAAAGGAAAATTCTCAAGATGTA
131 AAAATTAAAAGAAAATTTAAATTAATTAAAAATTAATTGAAAGAAAGGAAAATTCTCAAGATGTA
677088 AAATTTCTAATGAAAAATAAATATGATTAAATAAGATAAGTCACATTGGTTGTCATTTTTTAGTT
196 AAATTTCTAATGAAAAATAAATATGATTAAATAAGATAAGTCACATTGGTTGTCATTTTTTAGTT
677153 TGCATTTCCATTATTTGTTTTGTTCCATGTTACATTAAAAATAAAACCTTTTAAAAAATGAAAAA
261 TGCATTTCCATTATTTGTTTTGTTCCATGTTACATTAAAAATAAAACCTTTTAAAAAATGAAAAA
677218 AATGAATTTGGAATCTTGCCTAGATGTTGAGGGGAATTCAAAATGTGTTTTAAGAATTTTAATTT
326 AATGAATTTGGAATCTTGCCTAGATGTTGAGGGGAATTCAAAATGTGTTTTAAGAATTTTAATTT
677283 CACCTACATGTTAGAGAATTATTAAATAATAACATAATAAATGATTAATAAATAATAATGATAAA
391 CACCTACATGTTAGAGAATTATTAAATAATAACATAATAAATGATTAATAAATAATAATGATAAA
677348 ATTTTTA
456 ATTTTTA
677355 TTGAAGGGGA
Statistics
Matches: 461, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
463 461 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (463 bp):
TAATAATAATAATAACAAAAGAATGAAAAAATGTGTGAAAAAATGAAAATGATGATCTAGGAAAC
CCTATCTAGATGTTGGAGGGAATCCAAATTATGCCTTTGAAAATTTAATTTTGTCTAGATGTTGA
AAAATTAAAAGAAAATTTAAATTAATTAAAAATTAATTGAAAGAAAGGAAAATTCTCAAGATGTA
AAATTTCTAATGAAAAATAAATATGATTAAATAAGATAAGTCACATTGGTTGTCATTTTTTAGTT
TGCATTTCCATTATTTGTTTTGTTCCATGTTACATTAAAAATAAAACCTTTTAAAAAATGAAAAA
AATGAATTTGGAATCTTGCCTAGATGTTGAGGGGAATTCAAAATGTGTTTTAAGAATTTTAATTT
CACCTACATGTTAGAGAATTATTAAATAATAACATAATAAATGATTAATAAATAATAATGATAAA
ATTTTTAA
Found at i:677391 original size:23 final size:23
Alignment explanation
Indices: 677365--677408 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
677355 TTGAAGGGGA
677365 AAATAAATAAAAAT-ATAAAAATT
1 AAAT-AATAAAAATCATAAAAATT
**
677388 AAATTTTAAAAATCATAAAAA
1 AAATAATAAAAATCATAAAAA
677409 CGATTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATAATAAAAATCATAAAAATT
Found at i:678205 original size:13 final size:13
Alignment explanation
Indices: 678189--678226 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
678179 AAAAATTAAA
678189 AAAACAAAAAAAT
1 AAAACAAAAAAAT
*
678202 AAAAC-AAAAAAC
1 AAAACAAAAAAAT
*
678214 CAAACAAAAAAAT
1 AAAACAAAAAAAT
678227 CACCTTAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.82, C:0.13, G:0.00, T:0.05
Consensus pattern (13 bp):
AAAACAAAAAAAT
Found at i:680862 original size:14 final size:14
Alignment explanation
Indices: 680825--680864 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
680815 GGAGAATTAT
680825 TAAATAATAA-AAA
1 TAAATAATAATAAA
*
680838 T-AA-AATGATAAA
1 TAAATAATAATAAA
680850 TAAATAATAATAAA
1 TAAATAATAATAAA
680864 T
1 T
680865 TTTAATGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.18
12 6 0.27
13 3 0.14
14 9 0.41
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
TAAATAATAATAAA
Found at i:681118 original size:27 final size:27
Alignment explanation
Indices: 681086--681139 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
681076 CTGTAAATTT
681086 CTAAAATTAAAACCTTAAGA-TGAAACC
1 CTAAAATTAAAACCTTAA-ATTGAAACC
*
681113 CTAAAATTAAAATCTTAAATTGAAACC
1 CTAAAATTAAAACCTTAAATTGAAACC
681140 TTAGGTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.26
Consensus pattern (27 bp):
CTAAAATTAAAACCTTAAATTGAAACC
Found at i:681142 original size:13 final size:13
Alignment explanation
Indices: 681089--681142 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
681079 TAAATTTCTA
681089 AAATTAAAACCTT
1 AAATTAAAACCTT
* * *
681102 AAGATGAAACCCTA
1 AA-ATTAAAACCTT
*
681116 AAATTAAAATCTT
1 AAATTAAAACCTT
*
681129 AAATTGAAACCTT
1 AAATTAAAACCTT
681142 A
1 A
681143 GGTAAAAATC
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 21 0.68
14 10 0.32
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (13 bp):
AAATTAAAACCTT
Found at i:681157 original size:19 final size:19
Alignment explanation
Indices: 681135--681224 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 19
681125 TCTTAAATTG
*
681135 AAACCTTAGGTAAAAATCA
1 AAACCCTAGGTAAAAATCA
* *
681154 AAACCCTAGGT-GAAATTA
1 AAACCCTAGGTAAAAATCA
681172 AAACCCTAGGTAAAAA-CTA
1 AAACCCTAGGTAAAAATC-A
** * *
681191 AAACCCTAAATTAAAACCA
1 AAACCCTAGGTAAAAATCA
*
681210 AAATCCTAGGTAAAA
1 AAACCCTAGGTAAAA
681225 CTTGAAAGTC
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
18 16 0.29
19 39 0.70
20 1 0.02
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (19 bp):
AAACCCTAGGTAAAAATCA
Found at i:681174 original size:18 final size:19
Alignment explanation
Indices: 681129--681198 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
681119 TTAAAATCTT
* *
681129 AAATTGAAACCTTAGGTAA
1 AAATTAAAACCCTAGGTAA
* *
681148 AAATCAAAACCCTAGGT-G
1 AAATTAAAACCCTAGGTAA
681166 AAATTAAAACCCTAGGTAA
1 AAATTAAAACCCTAGGTAA
*
681185 AAACTAAAACCCTA
1 AAATTAAAACCCTA
681199 AATTAAAACC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 16 0.37
19 27 0.63
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (19 bp):
AAATTAAAACCCTAGGTAA
Found at i:685291 original size:18 final size:18
Alignment explanation
Indices: 685268--685302 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
685258 ATAAAAGCAA
685268 ATTAATAATAATATTAAT
1 ATTAATAATAATATTAAT
*
685286 ATTAATAATAGTATTAA
1 ATTAATAATAATATTAA
685303 CAATAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAATAATAATATTAAT
Found at i:686815 original size:22 final size:20
Alignment explanation
Indices: 686790--686845 Score: 51
Period size: 22 Copynumber: 2.7 Consensus size: 20
686780 ATGCCATAAA
*
686790 AAAAAGAGAGGAAAAAGTAAGG
1 AAAAA-AGAGGAAAAAG-AAAG
* *
686812 AAAAACAAAAGAAAAAGAAAG
1 AAAAA-AGAGGAAAAAGAAAG
686833 AAAAAAG-GGAAAA
1 AAAAAAGAGGAAAA
686846 GGAGAAAAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 5 0.18
20 1 0.04
21 8 0.29
22 14 0.50
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (20 bp):
AAAAAAGAGGAAAAAGAAAG
Found at i:686852 original size:8 final size:8
Alignment explanation
Indices: 686835--686869 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
686825 AAAGAAAGAA
686835 AAAAGG-G
1 AAAAGGAG
686842 AAAAGGAG
1 AAAAGGAG
686850 AAAAGGAG
1 AAAAGGAG
686858 AAAAGGA-
1 AAAAGGAG
686865 AAAAG
1 AAAAG
686870 TTTTGTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 11 0.41
8 16 0.59
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (8 bp):
AAAAGGAG
Found at i:688148 original size:21 final size:20
Alignment explanation
Indices: 688080--688154 Score: 53
Period size: 21 Copynumber: 3.6 Consensus size: 20
688070 GAAAAAAAGT
688080 GAAAGAATGAAAAAGAGAAA
1 GAAAGAATGAAAAAGAGAAA
* * * *
688100 TAAA-AGGTGAAAGAATAAAAAA
1 GAAAGA-ATGAAA-AA-GAGAAA
*
688122 AAAAGAATGAAAAAGAGCAAA
1 GAAAGAATGAAAAAGAG-AAA
*
688143 GAAAGAAAGAAA
1 GAAAGAATGAAA
688155 GAAAAAGAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
19 1 0.03
20 9 0.22
21 17 0.43
22 12 0.30
23 1 0.03
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.07
Consensus pattern (20 bp):
GAAAGAATGAAAAAGAGAAA
Found at i:689115 original size:29 final size:29
Alignment explanation
Indices: 689053--689125 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
689043 CACATCAATG
689053 AAAAG-TTTAAGCCCAAATTAGCTGGCAC
1 AAAAGTTTTAAGCCCAAATTAGCTGGCAC
** ** *
689081 CTAAGTTTTAAGCCCATTTTAGTTGGCAC
1 AAAAGTTTTAAGCCCAAATTAGCTGGCAC
689110 AAAAGTAATTTAAGCC
1 AAAAGT--TTTAAGCC
689126 TAGTTTGACT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 3 0.09
29 24 0.69
31 8 0.23
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (29 bp):
AAAAGTTTTAAGCCCAAATTAGCTGGCAC
Found at i:689287 original size:66 final size:66
Alignment explanation
Indices: 689225--689524 Score: 232
Period size: 67 Copynumber: 4.5 Consensus size: 66
689215 AGATTTAAGT
* * * * *
689225 CTAGTTTAGCTAGCATCTAATAAAGTTTTAAGCCTAGATTTCCTAGCCCTCAATG-GAAATTTAA
1 CTAGTTTAGCTGGCATCTAATAAAGATTTAAGCCCAGATTACCTAGCCCTC-ATGAAAAATTTAA
689289 AC
65 AC
* * * *
689291 CCAGTTTAGCTGGTATCCAATGAAAGATTTAAGCCCAGATTACCTAGCCTTCATGAAAAATTTAA
1 CTAGTTTAGCTGGCATCTAAT-AAAGATTTAAGCCCAGATTACCTAGCCCTCATGAAAAATTTAA
*
689356 CC
65 AC
* * * ** *
689358 CTAGTTTAGCTGGCA-CTAATAAA-AGTTAGGCACA-ATTTGTCTGGCACCTCATGAAAAGATTT
1 CTAGTTTAGCTGGCATCTAATAAAGATTTAAGCCCAGA-TTACCTAGC-CCTCATGAAAA-ATTT
*
689420 AAGC
63 AAAC
** * * * * * * * *
689424 CTAGTTTAGCTAACATCGAATGAAAG-CTTAAGTCTAGTTTAACTGGCACTCATGAAAAAATTTA
1 CTAGTTTAGCTGGCATCTAAT-AAAGATTTAAGCCCAGATTACCTAGCCCTCATG-AAAAATTTA
*
689488 AGC
64 AAC
*
689491 CTAGTTTAGCTAGCATCTAATAAAAGATTTAAGC
1 CTAGTTTAGCTGGCATCTAAT-AAAGATTTAAGC
689525 TTAGTCCAGT
Statistics
Matches: 185, Mismatches: 38, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
63 1 0.01
64 14 0.08
65 13 0.07
66 44 0.24
67 89 0.48
68 24 0.13
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (66 bp):
CTAGTTTAGCTGGCATCTAATAAAGATTTAAGCCCAGATTACCTAGCCCTCATGAAAAATTTAAA
C
Found at i:689328 original size:34 final size:34
Alignment explanation
Indices: 689146--689690 Score: 163
Period size: 33 Copynumber: 16.5 Consensus size: 34
689136 GGCATTAAAA
* * **
689146 AAAGATTTAAGCCTAATTTAGCTAACATCCAATG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
* * * *
689180 AAAGATTTAAGCCAAGTTCAGTTGACA-CTCAAT-
1 AAAGATTTAAGCCCAGTTTAGCTGGCATC-CAATG
* * * * *
689213 TAAGATTTAAGTCTAGTTTAGCTAGCATCTAAT-
1 AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
* * * * *
689246 AAAGTTTTAAGCCTAGATTT-CCTAGC-CCTCAATG
1 AAAGATTTAAGCCCAG-TTTAGCTGGCATC-CAATG
* * *
689280 GAA-ATTTAAACCCAGTTTAGCTGGTATCCAATG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
* * * * *
689313 AAAGATTTAAGCCCAGATTACCTAGCCTTC-ATG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
* *
689346 AAAAATTTAA-CCCTAGTTTAGCTGGCA-CTAAT-
1 AAAGATTTAAGCCC-AGTTTAGCTGGCATCCAATG
* * * * *
689378 AAA-AGTTAGGCACAATTT-GTCTGGCA-CCTCATG
1 AAAGATTTAAGCCCAGTTTAG-CTGGCATCC-AATG
* ** *
689411 AAAAGATTTAAGCCTAGTTTAGCTAACATCGAATG
1 -AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
* * * *
689446 AAAG-CTTAAGTCTAGTTTAACTGGCA-CTC-ATG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATC-CAATG
* * * * *
689478 AAAAAATTTAAGCCTAGTTTAGCTAGCATCTAATA
1 -AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
** ** * * *
689513 AAAGATTTAAGCTTAGTCCAGTTGGTATTCAATG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
* * *
689547 -AGGATTTAAGCTCAGTTTAGCTGG--TCCAACG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
** * * * *
689578 -AATTTTTAAGGCCAGTTTACCTAGC-CCCAATG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
* * * *
689610 -AAGATTTAAGTCCAATTTAGCTGACA-CTTAATG
1 AAAGATTTAAGCCCAGTTTAGCTGGCATC-CAATG
** * *
689643 -AAGAATTTAAG-CTTGATTAGCTGGCA-CCAAGG
1 AAAG-ATTTAAGCCCAGTTTAGCTGGCATCCAATG
*
689675 GAA-ATTTAAGCCCAGT
1 AAAGATTTAAGCCCAGT
689691 CTAAGTAGCA
Statistics
Matches: 368, Mismatches: 114, Indels: 60
0.68 0.21 0.11
Matches are distributed among these distances:
30 1 0.00
31 44 0.12
32 47 0.13
33 146 0.40
34 108 0.29
35 20 0.05
36 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (34 bp):
AAAGATTTAAGCCCAGTTTAGCTGGCATCCAATG
Found at i:689352 original size:67 final size:66
Alignment explanation
Indices: 689150--689524 Score: 185
Period size: 67 Copynumber: 5.6 Consensus size: 66
689140 TTAAAAAAAG
* * ** * * * *
689150 ATTTAAGCCTAATTTAGCTAACATCCAATGAAAGATTTAAGCCAAG-TT-CAGTTGACACTCAAT
1 ATTTAACCCTAGTTTAGCTGGCATCCAAT-AAAGATTTAAGCCCAGATTAC-CTAG-CCCTCAAT
* *
689213 TAAG
63 GAAA
** * * * * * *
689217 ATTTAAGTCTAGTTTAGCTAGCATCTAATAAAGTTTTAAGCCTAGATTTCCTAGCCCTCAATGGA
1 ATTTAACCCTAGTTTAGCTGGCATCCAATAAAGATTTAAGCCCAGATTACCTAGCCCTCAATGAA
689282 A
66 A
* *
689283 ATTTAAACCC-AGTTTAGCTGGTATCCAATGAAAGATTTAAGCCCAGATTACCTAGCCTTC-ATG
1 ATTT-AACCCTAGTTTAGCTGGCATCCAAT-AAAGATTTAAGCCCAGATTACCTAGCCCTCAATG
689346 AAAA
64 -AAA
* * * * ** *
689350 ATTTAACCCTAGTTTAGCTGGCA-CTAATAAA-AGTTAGGCACA-ATTTGTCTGGCACCTC-ATG
1 ATTTAACCCTAGTTTAGCTGGCATCCAATAAAGATTTAAGCCCAGA-TTACCTAGC-CCTCAATG
689411 AAAA
64 -AAA
* ** * * * * * * * *
689415 GATTTAAGCCTAGTTTAGCTAACATCGAATGAAAG-CTTAAGTCTAGTTTAACTGGCACTC-ATG
1 -ATTTAACCCTAGTTTAGCTGGCATCCAAT-AAAGATTTAAGCCCAGATTACCTAGCCCTCAATG
689478 AAAAA
64 --AAA
* * *
689483 ATTTAAGCCTAGTTTAGCTAGCATCTAATAAAAGATTTAAGC
1 ATTTAACCCTAGTTTAGCTGGCATCCAAT-AAAGATTTAAGC
689525 TTAGTCCAGT
Statistics
Matches: 244, Mismatches: 49, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
63 1 0.00
64 14 0.06
65 13 0.05
66 74 0.30
67 117 0.48
68 25 0.10
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (66 bp):
ATTTAACCCTAGTTTAGCTGGCATCCAATAAAGATTTAAGCCCAGATTACCTAGCCCTCAATGAA
A
Found at i:689839 original size:35 final size:34
Alignment explanation
Indices: 689799--690101 Score: 155
Period size: 35 Copynumber: 8.7 Consensus size: 34
689789 CAATCATTTG
*
689799 TTATTTCTGACTTGTGGTGTTATCTTGGTCGTCC
1 TTATTTCTGACTTGTGGTGTTGTCTTGGTCGTCC
* *** ** * *
689833 TATATTTTTGACTTGCAATGTTGTCTCAGTCATTCG
1 T-TATTTCTGACTTGTGGTGTTGTCTTGGTC-GTCC
* * * *
689869 TTATTTTTGACTTTTAGTGTTGTCTTGGTCGTCTT
1 TTATTTCTGACTTGTGGTGTTGTCTTGGTCGTC-C
* * *
689904 TTATTTCTGACTTGTGGTGTTGTCCTAGTCGTTTC
1 TTATTTCTGACTTGTGGTGTTGTCTTGGTCG-TCC
* *
689939 TTATTAT-TGACTTGTGATGTTGTCTTGGTCGTTCG
1 TTATT-TCTGACTTGTGGTGTTGTCTTGGTCG-TCC
* * * * *
689974 TTA-TTCTGACTTATGGTATTATCTCGGTCATTCC
1 TTATTTCTGACTTGTGGTGTTGTCTTGGTC-GTCC
* * * * *
690008 TTATATT-TGACTTATGGTATTGTCCTAGTCGT-T
1 TTAT-TTCTGACTTGTGGTGTTGTCTTGGTCGTCC
* ** ** * *
690041 TGCTATTTTTGACTTGTGGCATTGTCCCGATTGTCC
1 T--TATTTCTGACTTGTGGTGTTGTCTTGGTCGTCC
*
690077 TTTATTTTTGACTTGTGGTGTTGTC
1 -TTATTTCTGACTTGTGGTGTTGTC
690102 CCAGTCATTT
Statistics
Matches: 205, Mismatches: 50, Indels: 27
0.73 0.18 0.10
Matches are distributed among these distances:
33 2 0.01
34 30 0.15
35 165 0.80
36 7 0.03
37 1 0.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.51
Consensus pattern (34 bp):
TTATTTCTGACTTGTGGTGTTGTCTTGGTCGTCC
Found at i:689978 original size:70 final size:69
Alignment explanation
Indices: 689764--690020 Score: 211
Period size: 70 Copynumber: 3.7 Consensus size: 69
689754 CGATTGTTCA
* * * * * * *
689764 TTATTTTTGACTTATGGTGCTGTCTCAATCATTTGTTATT-TCTGACTTGTGGTGTTATCTTGGT
1 TTATTTCTGACTTGTGGTGTTGTCTCAGTCATTCGTTATTAT-TGACTTGTGATGTTGTCTTGGT
689828 CGTCC
65 CGTCC
* *** * *
689833 TATATTTTTGACTTGCAATGTTGTCTCAGTCATTCGTTATTTTTGACTT-TTAGTGTTGTCTTGG
1 T-TATTTCTGACTTGTGGTGTTGTCTCAGTCATTCGTTATTATTGACTTGTGA-TGTTGTCTTGG
*
689897 TCGTCTT
64 TCGTC-C
*
689904 TTATTTCTGACTTGTGGTGTTGTC-CTAGTCGTTTC-TTATTATTGACTTGTGATGTTGTCTTGG
1 TTATTTCTGACTTGTGGTGTTGTCTC-AGTC-ATTCGTTATTATTGACTTGTGATGTTGTCTTGG
*
689967 TCGTTCG
64 TCG-TCC
* * * * *
689974 TTA-TTCTGACTTATGGTATTATCTCGGTCATTCCTTA-TATTTGACTT
1 TTATTTCTGACTTGTGGTGTTGTCTCAGTCATTCGTTATTA-TTGACTT
690021 ATGGTATTGT
Statistics
Matches: 153, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
68 5 0.03
69 33 0.22
70 106 0.69
71 9 0.06
ACGTcount: A:0.14, C:0.15, G:0.19, T:0.52
Consensus pattern (69 bp):
TTATTTCTGACTTGTGGTGTTGTCTCAGTCATTCGTTATTATTGACTTGTGATGTTGTCTTGGTC
GTCC
Found at i:690031 original size:69 final size:70
Alignment explanation
Indices: 689764--690055 Score: 182
Period size: 70 Copynumber: 4.2 Consensus size: 70
689754 CGATTGTTCA
* ** * * ** * *
689764 TTATTTTTGACTTATGGTGCTGTCTCAATCATTTGTTATTTCTGACTTGTGGTGTTATCTTGGTC
1 TTATTTCTGACTTATGGTATTATCTCAGTCATTCCTTATTT-TGACTTATGGTGTTGTCTTGGTC
*
689829 GTCCT-
65 GTTCTG
* * **** * * * * *
689834 ATATTTTTGACTTGCAATGTTGTCTCAGTCATTCGTTATTTTTGACTTTTAGTGTTGTCTTGGTC
1 TTATTTCTGACTTATGGTATTATCTCAGTCATTCCTTA-TTTTGACTTATGGTGTTGTCTTGGTC
*
689899 G-TCTT
65 GTTCTG
* * * * * * *
689904 TTATTTCTGACTTGTGGTGTTGTC-CTAGTCGTTTCTTATTATTGACTTGTGATGTTGTCTTGGT
1 TTATTTCTGACTTATGGTATTATCTC-AGTCATTCCTTATT-TTGACTTATGGTGTTGTCTTGGT
689968 CGTTC-G
64 CGTTCTG
* * * *
689974 TTA-TTCTGACTTATGGTATTATCTCGGTCATTCCTTATATTTGACTTATGGTATTGTCCTAGTC
1 TTATTTCTGACTTATGGTATTATCTCAGTCATTCCTTAT-TTTGACTTATGGTGTTGTCTTGGTC
690038 GTT-TG
65 GTTCTG
* *
690043 CTATTTTTGACTT
1 TTATTTCTGACTT
690056 GTGGCATTGT
Statistics
Matches: 176, Mismatches: 37, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
69 57 0.32
70 114 0.65
71 5 0.03
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.52
Consensus pattern (70 bp):
TTATTTCTGACTTATGGTATTATCTCAGTCATTCCTTATTTTGACTTATGGTGTTGTCTTGGTCG
TTCTG
Found at i:690134 original size:12 final size:12
Alignment explanation
Indices: 690117--690147 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
690107 CATTTCTTAA
690117 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
690129 AAAAAAAAAGAC
1 AAAAAAAAAAAC
690141 AAAAAAA
1 AAAAAAA
690148 GACAGAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.90, C:0.06, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:691924 original size:14 final size:14
Alignment explanation
Indices: 691887--691926 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
691877 GGGGAATTAT
691887 TAAATAATAA-AAA
1 TAAATAATAATAAA
*
691900 T-AA-AATGATAAA
1 TAAATAATAATAAA
691912 TAAATAATAATAAA
1 TAAATAATAATAAA
691926 T
1 T
691927 TTTAATGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.18
12 6 0.27
13 3 0.14
14 9 0.41
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
TAAATAATAATAAA
Found at i:692181 original size:14 final size:13
Alignment explanation
Indices: 692150--692216 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 13
692140 CGTAAATTTC
* *
692150 TAAAATCAAAACT
1 TAAAATTAAACCT
692163 CTAAAATTAAGACCT
1 -TAAAATTAA-ACCT
* *
692178 TAAAATGAAACCC
1 TAAAATTAAACCT
*
692191 TAAAATTAAAATCT
1 TAAAATT-AAACCT
*
692205 TAAAATGAAACC
1 TAAAATTAAACC
692217 CTAGGTAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
13 13 0.31
14 26 0.62
15 3 0.07
ACGTcount: A:0.55, C:0.16, G:0.04, T:0.24
Consensus pattern (13 bp):
TAAAATTAAACCT
Found at i:692193 original size:27 final size:27
Alignment explanation
Indices: 692158--692219 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
692148 TCTAAAATCA
* *
692158 AAACTCTAAAATTAAGACCTTAAAATG
1 AAACCCTAAAATTAAAACCTTAAAATG
*
692185 AAACCCTAAAATTAAAATCTTAAAATG
1 AAACCCTAAAATTAAAACCTTAAAATG
692212 AAACCCTA
1 AAACCCTA
692220 GGTAAAAGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (27 bp):
AAACCCTAAAATTAAAACCTTAAAATG
Found at i:692236 original size:19 final size:19
Alignment explanation
Indices: 692212--692288 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 19
692202 TCTTAAAATG
692212 AAACCCTAGGTAAAAGCCA
1 AAACCCTAGGTAAAAGCCA
* * *
692231 AAACCCTAGGTGAAAGTCG
1 AAACCCTAGGTAAAAGCCA
* *
692250 AAAGCCTAGGTAAAACCCGA
1 AAACCCTAGGTAAAAGCC-A
* *
692270 AAGCCCTTGGTAAAA-CCA
1 AAACCCTAGGTAAAAGCCA
692288 A
1 A
692289 GCTGTAAAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
18 2 0.04
19 32 0.70
20 12 0.26
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.13
Consensus pattern (19 bp):
AAACCCTAGGTAAAAGCCA
Found at i:692337 original size:19 final size:20
Alignment explanation
Indices: 692292--692339 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
692282 AAACCAAGCT
692292 GTAAAA-CCTTAAACCCTAG
1 GTAAAACCCTTAAACCCTAG
**
692311 GTGGAACCCTT-AACCCTAG
1 GTAAAACCCTTAAACCCTAG
692330 GTAAAACCCT
1 GTAAAACCCT
692340 AAATGAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (20 bp):
GTAAAACCCTTAAACCCTAG
Found at i:693228 original size:17 final size:17
Alignment explanation
Indices: 693190--693221 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
693180 TTTCGTAAAC
693190 AAAAATTATCTTTTTAA
1 AAAAATTATCTTTTTAA
693207 AAAAATTAT-TTTTTA
1 AAAAATTATCTTTTTA
693222 TTAAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAAATTATCTTTTTAA
Found at i:693239 original size:20 final size:19
Alignment explanation
Indices: 693190--693241 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
693180 TTTCGTAAAC
*
693190 AAAAATT-ATCTTT-TTAA
1 AAAAATTAATTTTTATTAA
*
693207 AAAAATTATTTTTTATTAA
1 AAAAATTAATTTTTATTAA
*
693226 AAAGATTAAATTTTTA
1 AAAAATT-AATTTTTA
693242 GGTGGCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 7 0.25
18 4 0.14
19 10 0.36
20 7 0.25
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AAAAATTAATTTTTATTAA
Found at i:694341 original size:7 final size:7
Alignment explanation
Indices: 694329--694360 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
694319 CATGTACAAA
694329 AAAAGAT
1 AAAAGAT
694336 AAAAGAT
1 AAAAGAT
694343 AAAAGAT
1 AAAAGAT
*
694350 AAAAAAT
1 AAAAGAT
694357 AAAA
1 AAAA
694361 AAAAACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (7 bp):
AAAAGAT
Found at i:694681 original size:13 final size:13
Alignment explanation
Indices: 694663--694687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
694653 CTTAAATTTT
694663 TGAAACCTTAAAG
1 TGAAACCTTAAAG
694676 TGAAACCTTAAA
1 TGAAACCTTAAA
694688 ATAAAATCCT
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:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (13 bp):
TGAAACCTTAAAG
Found at i:694784 original size:20 final size:20
Alignment explanation
Indices: 694734--694785 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
694724 AACCTTAAGG
* * *
694734 GAAACCTTGAAAGCTTAGAT
1 GAAACCTTAAAACCCTAGAT
*
694754 GAAA-CTCTAAAACCCTAGTT
1 GAAACCT-TAAAACCCTAGAT
694774 GAAACCTTAAAA
1 GAAACCTTAAAA
694786 TTTTAAATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.23
Consensus pattern (20 bp):
GAAACCTTAAAACCCTAGAT
Found at i:695187 original size:5 final size:5
Alignment explanation
Indices: 695177--695203 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
695167 AGTTGATTTC
695177 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
695204 TATTCTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:695924 original size:13 final size:12
Alignment explanation
Indices: 695908--695941 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
695898 ATCTTTCTTC
695908 TTCTTCTTCTTTT
1 TTCTTCTT-TTTT
695921 TTCTTCTTTTTT
1 TTCTTCTTTTTT
695933 TT-TTCTTTT
1 TTCTTCTTTT
695942 CTATACCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTCTTCTTTTTT
Found at i:695936 original size:16 final size:16
Alignment explanation
Indices: 695899--695943 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
695889 TTTAGTCTTA
*
695899 TCTTTCTTCTTCTTCT
1 TCTTTTTTCTTCTTCT
695915 TCTTTTTTCTTCTT-T
1 TCTTTTTTCTTCTTCT
695930 T-TTTTTTCTT-TTCT
1 TCTTTTTTCTTCTTCT
695944 ATACCTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 2 0.07
14 10 0.37
15 2 0.07
16 13 0.48
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTTTTTTCTTCTTCT
Found at i:699135 original size:13 final size:12
Alignment explanation
Indices: 699102--699135 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
699092 ACCTAAAGAA
699102 GTTGCAAAAATT
1 GTTGCAAAAATT
699114 GTTGCAAAAATT
1 GTTGCAAAAATT
*
699126 GTTTCAAAAA
1 GTTGCAAAAA
699136 CTTAAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (12 bp):
GTTGCAAAAATT
Found at i:701529 original size:12 final size:12
Alignment explanation
Indices: 701503--701537 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
701493 TCTTTCTTTG
701503 TTTCTTTTTCTT
1 TTTCTTTTTCTT
701515 TTTCTTCTTTCTT
1 TTTCTT-TTTCTT
701528 TTTCCTTTTT
1 TTT-CTTTTT
701538 TTTATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 12 0.57
14 3 0.14
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:701535 original size:7 final size:6
Alignment explanation
Indices: 701503--701537 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
701493 TCTTTCTTTG
701503 TTTCTT TTTCTT TTTCTT CTTTCTT TTTCCTT TTT
1 TTTCTT TTTCTT TTTCTT -TTTCTT TTT-CTT TTT
701538 TTTATTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:703026 original size:18 final size:18
Alignment explanation
Indices: 702986--703031 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
702976 ACTTATTGAT
*
702986 TATTTAATTTTCTTAACA
1 TATTTGATTTTCTTAACA
*
703004 AATTTGATTGTTCTTAA-A
1 TATTTGATT-TTCTTAACA
703022 TATTTG-TTTT
1 TATTTGATTTT
703032 TGGGCCAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.08
17 2 0.08
18 13 0.54
19 7 0.29
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (18 bp):
TATTTGATTTTCTTAACA
Found at i:704860 original size:19 final size:19
Alignment explanation
Indices: 704831--704909 Score: 97
Period size: 19 Copynumber: 4.2 Consensus size: 19
704821 GGGTGTCAGT
704831 TAGGG-TTTGGGTTTCACC
1 TAGGGTTTTGGGTTTCACC
*
704849 TAGGGTTTTGGGTTTCACT
1 TAGGGTTTTGGGTTTCACC
* * *
704868 TAAGGTTTTAGGTTTGACC
1 TAGGGTTTTGGGTTTCACC
* *
704887 AAGGGTTTAGGGTTTCACC
1 TAGGGTTTTGGGTTTCACC
704906 TAGG
1 TAGG
704910 CTTTCATTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 5 0.10
19 44 0.90
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.39
Consensus pattern (19 bp):
TAGGGTTTTGGGTTTCACC
Found at i:705651 original size:17 final size:17
Alignment explanation
Indices: 705629--705663 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
705619 TATATATGTG
* *
705629 TTTATATTTTTTCATAT
1 TTTATATTATATCATAT
705646 TTTATATTATATCATAT
1 TTTATATTATATCATAT
705663 T
1 T
705664 GTTTTTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATATTATATCATAT
Found at i:705729 original size:15 final size:15
Alignment explanation
Indices: 705692--705732 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
705682 TTCCTTATTA
705692 TTATTATTATTGTTG
1 TTATTATTATTGTTG
** *
705707 TTGCTATTGTTGTTG
1 TTATTATTATTGTTG
705722 TTATTATTATT
1 TTATTATTATT
705733 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (15 bp):
TTATTATTATTGTTG
Found at i:706890 original size:29 final size:28
Alignment explanation
Indices: 706850--706910 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
706840 CTCACTCATA
*
706850 TTTTTTTTTCTAGTTTCATTTTTT-TCTT
1 TTTTTTTTTCTAG-TTCATTTTTTGGCTT
*
706878 TTTTTTTCTTCTAGTTCCTTTTTTGGCTT
1 TTTTTTT-TTCTAGTTCATTTTTTGGCTT
706907 TTTT
1 TTTT
706911 CCTCTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.05, C:0.13, G:0.07, T:0.75
Consensus pattern (28 bp):
TTTTTTTTTCTAGTTCATTTTTTGGCTT
Found at i:706916 original size:29 final size:29
Alignment explanation
Indices: 706857--706916 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
706847 ATATTTTTTT
* **
706857 TTCTAGTTTCATTTTTTTCTTTTTTTTTC
1 TTCTAGTTTCATTTTTTGCTTTTTTCCTC
*
706886 TTCTAG-TTCCTTTTTTGGCTTTTTTCCTC
1 TTCTAGTTTCATTTTTT-GCTTTTTTCCTC
706915 TT
1 TT
706917 GTTTTTCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.05, C:0.18, G:0.07, T:0.70
Consensus pattern (29 bp):
TTCTAGTTTCATTTTTTGCTTTTTTCCTC
Found at i:709138 original size:3 final size:3
Alignment explanation
Indices: 709130--709162 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
709120 TTTGTTTCTT
*
709130 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
709163 TATAGTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:709809 original size:13 final size:13
Alignment explanation
Indices: 709791--709823 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
709781 TATGTGAAAT
*
709791 CCTAAATTAAAAC
1 CCTAAATCAAAAC
709804 CCTAAATCAAAAC
1 CCTAAATCAAAAC
709817 CCTAAAT
1 CCTAAAT
709824 GATACCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (13 bp):
CCTAAATCAAAAC
Found at i:709869 original size:13 final size:13
Alignment explanation
Indices: 709851--709886 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
709841 AAAGAATGCT
709851 TAAATTAAAACCC
1 TAAATTAAAACCC
709864 TAAATT-AAACCC
1 TAAATTAAAACCC
709876 TAAAATTAAAA
1 T-AAATTAAAA
709887 TAGAAGCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.33
13 11 0.52
14 3 0.14
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAATTAAAACCC
Found at i:709912 original size:13 final size:13
Alignment explanation
Indices: 709896--709951 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
709886 ATAGAAGCTC
709896 TAAATTGAAACCT
1 TAAATTGAAACCT
* * *
709909 TAAACTAAAACCC
1 TAAATTGAAACCT
* *
709922 TAAA-TCAAAACT
1 TAAATTGAAACCT
709934 ATAAATTGAAACCT
1 -TAAATTGAAACCT
709948 TAAA
1 TAAA
709952 GTCTAACTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
12 5 0.15
13 22 0.67
14 6 0.18
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.25
Consensus pattern (13 bp):
TAAATTGAAACCT
Found at i:709920 original size:46 final size:46
Alignment explanation
Indices: 709806--709925 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 46
709796 ATTAAAACCC
* * *
709806 TAAATCAAAACCCTAAATGATA-CCTAAAATCTAAAAAAGAATGCT
1 TAAATTAAAACCCTAAATAAAACCCTAAAATCTAAAAAAGAATGCT
* *
709851 TAAATTAAAACCCTAAATTAAACCCTAAAAT-TAAAATAGAA-GCT
1 TAAATTAAAACCCTAAATAAAACCCTAAAATCTAAAAAAGAATGCT
* *
709895 CTAAATTGAAACCTTAAACTAAAACCCTAAA
1 -TAAATTAAAACCCTAAA-TAAAACCCTAAA
709926 TCAAAACTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
44 3 0.05
45 43 0.66
46 19 0.29
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.23
Consensus pattern (46 bp):
TAAATTAAAACCCTAAATAAAACCCTAAAATCTAAAAAAGAATGCT
Found at i:709945 original size:26 final size:25
Alignment explanation
Indices: 709916--709998 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 25
709906 CCTTAAACTA
709916 AAACCCTAAATCAAAACTATAAATTG
1 AAACCCTAAATCAAAACTATAAA-TG
* * *
709942 AAACCTTAAAGTC-TAACTCTAAATG
1 AAACCCTAAA-TCAAAACTATAAATG
* *
709967 CAACCCTAAAATCAAAACCT-TAAAGG
1 AAACCCT-AAATCAAAA-CTATAAATG
709993 AAACCC
1 AAACCC
709999 AAAACCCTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
25 9 0.20
26 32 0.71
27 4 0.09
ACGTcount: A:0.49, C:0.24, G:0.06, T:0.20
Consensus pattern (25 bp):
AAACCCTAAATCAAAACTATAAATG
Found at i:709964 original size:39 final size:40
Alignment explanation
Indices: 709896--709991 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 40
709886 ATAGAAGCTC
*
709896 TAAATTGAAACCTTAAACTAAAACCCTAAAT-CAAAACTA
1 TAAATTGAAACCTTAAAGTAAAACCCTAAATGCAAAACTA
** * **
709935 TAAATTGAAACCTTAAAGTCTAACTCTAAATGCAACCCTA
1 TAAATTGAAACCTTAAAGTAAAACCCTAAATGCAAAACTA
**
709975 -AAATCAAAACCTTAAAG
1 TAAATTGAAACCTTAAAG
709992 GAAACCCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 42 0.88
40 6 0.12
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (40 bp):
TAAATTGAAACCTTAAAGTAAAACCCTAAATGCAAAACTA
Found at i:711674 original size:21 final size:20
Alignment explanation
Indices: 711648--711687 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
711638 TATTTATTTT
711648 GTTATTTTGTTGTATTTTATG
1 GTTATTTTGTTGT-TTTTATG
711669 GTTATTTTGTTGTTTTTAT
1 GTTATTTTGTTGTTTTTAT
711688 TATTTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.70
Consensus pattern (20 bp):
GTTATTTTGTTGTTTTTATG
Found at i:711692 original size:17 final size:17
Alignment explanation
Indices: 711644--711708 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
711634 ACTATATTTA
*
711644 TTTTGTTATTTTGTTGT
1 TTTTATTATTTTGTTGT
711661 ATTTTATGGTTATTTTGTTGT
1 -TTTTA---TTATTTTGTTGT
711682 TTTTATTATTTAT-TTGT
1 TTTTATTATTT-TGTTGT
*
711699 TTTGATTATT
1 TTTTATTATT
711709 AATTCATTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
17 19 0.46
18 5 0.12
20 5 0.12
21 12 0.29
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (17 bp):
TTTTATTATTTTGTTGT
Found at i:712604 original size:4 final size:4
Alignment explanation
Indices: 712595--712650 Score: 67
Period size: 4 Copynumber: 14.0 Consensus size: 4
712585 AAGAGCTTTG
** * * *
712595 TCAT TCAT TCAT TTGT GCAT CCAT TCAT TCAT TCAT TCAT TCAT TTAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
712643 TCAT TCAT
1 TCAT TCAT
712651 CCATATATGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (4 bp):
TCAT
Found at i:712635 original size:16 final size:16
Alignment explanation
Indices: 712595--712650 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
712585 AAGAGCTTTG
*
712595 TCATTCATTCATTTGT
1 TCATTCATTCATTTAT
* * *
712611 GCATCCATTCATTCAT
1 TCATTCATTCATTTAT
712627 TCATTCATTCATTTAT
1 TCATTCATTCATTTAT
712643 TCATTCAT
1 TCATTCAT
712651 CCATATATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (16 bp):
TCATTCATTCATTTAT
Found at i:714321 original size:16 final size:16
Alignment explanation
Indices: 714300--714340 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
714290 GAAATGCCTT
714300 AAAAAAAAG-GAAAAA
1 AAAAAAAAGTGAAAAA
*
714315 GAAAAAAAGTGAAAAA
1 AAAAAAAAGTGAAAAA
*
714331 AAAGAAAAGT
1 AAAAAAAAGT
714341 TTTGAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
AAAAAAAAGTGAAAAA
Found at i:714968 original size:24 final size:22
Alignment explanation
Indices: 714937--714981 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
714927 AAACAAATTT
714937 ATTCCATATGACCCTTTCTTATTC
1 ATTCCATATGA-CCTTT-TTATTC
714961 ATTCCATATGACCTTTTTATT
1 ATTCCATATGACCTTTTTATT
714982 GTAATAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 5 0.24
24 11 0.52
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTCCATATGACCTTTTTATTC
Found at i:715096 original size:16 final size:16
Alignment explanation
Indices: 715075--715116 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
715065 GGGGACATGT
715075 AAAAAAAAACAAAAAG
1 AAAAAAAAACAAAAAG
* *
715091 AAAAAAAAAGAAAAGG
1 AAAAAAAAACAAAAAG
715107 AAAAGAAAAA
1 AAAA-AAAAA
715117 TAGTTATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAG
Found at i:715104 original size:21 final size:20
Alignment explanation
Indices: 715075--715116 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
715065 GGGGACATGT
715075 AAAAAAAAACAAAAAGAAAA
1 AAAAAAAAACAAAAAGAAAA
**
715095 AAAAAGAAAAGGAAAAGAAAA
1 AAAAA-AAAACAAAAAGAAAA
715116 A
1 A
715117 TAGTTATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAAAAACAAAAAGAAAA
Found at i:715670 original size:13 final size:13
Alignment explanation
Indices: 715649--715686 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
715639 AAGGAAATCT
715649 GAAAA-AAAAAAA
1 GAAAATAAAAAAA
*
715661 GAAAATAAAAGAA
1 GAAAATAAAAAAA
715674 GAAAAATAAAAAA
1 G-AAAATAAAAAA
715687 TAAAAAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
14 10 0.45
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (13 bp):
GAAAATAAAAAAA
Found at i:715686 original size:21 final size:20
Alignment explanation
Indices: 715654--715712 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 20
715644 AATCTGAAAA
715654 AAAAAAAGAAAATAAAAGAA-G
1 AAAAAAA-AAAATAAAA-AAGG
715675 AAAAATAAAAAATAAAAAAGG
1 AAAAA-AAAAAATAAAAAAGG
715696 AAAAAAAAGAAATAAAA
1 AAAAAAAA-AAATAAAA
715713 TGAAATGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.14
21 28 0.80
22 2 0.06
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAAATAAAAAAGG
Found at i:716619 original size:32 final size:32
Alignment explanation
Indices: 716581--716758 Score: 141
Period size: 32 Copynumber: 5.5 Consensus size: 32
716571 TCTCGAAAAG
* *
716581 ATTTAAGCTCAATTTAGCTTACACCCAATGAAA
1 ATTTAAGC-CAATTTAGCTGACACCTAATGAAA
* * *
716614 A-TTAAGCCTAGTTTATCTGACACCTAATAAAA
1 ATTTAAGCC-AATTTAGCTGACACCTAATGAAA
* *
716646 ATTTGAGTCCACTTTAGCT-ATCACCTAATGAAA
1 ATTTAAG-CCAATTTAGCTGA-CACCTAATGAAA
*
716679 GATTTAAGCCCAATTTAGCTGGCA-CTCAAT-AAA
1 -ATTTAAG-CCAATTTAGCTGACACCT-AATGAAA
* *
716712 GATTTGAGCCAATTTAGCTGGCACCTAATG-AA
1 -ATTTAAGCCAATTTAGCTGACACCTAATGAAA
* *
716744 ATTAAACCCAATTTA
1 ATTTAAGCCAATTTA
716759 AGCCTAATTT
Statistics
Matches: 119, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
31 13 0.11
32 46 0.39
33 37 0.31
34 23 0.19
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.30
Consensus pattern (32 bp):
ATTTAAGCCAATTTAGCTGACACCTAATGAAA
Found at i:716769 original size:42 final size:42
Alignment explanation
Indices: 716713--716797 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
716703 CTCAATAAAG
* *
716713 ATTTGAGCCAATTTAGCTGGCACCTAATGAAA-TTAAACCCA
1 ATTTAAGCCAATTTAGCTGGCACCCAATGAAATTTAAACCCA
*
716754 ATTTAAGCCTAATTTATCTGGCACCCAATGAAATTTAAACCCA
1 ATTTAAGCC-AATTTAGCTGGCACCCAATGAAATTTAAACCCA
716797 A
1 A
716798 CTTAGTTGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 8 0.21
42 21 0.54
43 10 0.26
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (42 bp):
ATTTAAGCCAATTTAGCTGGCACCCAATGAAATTTAAACCCA
Found at i:716910 original size:33 final size:31
Alignment explanation
Indices: 716868--716950 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 31
716858 AGTTTAGTTG
*
716868 GCACCAATGAAGATTTAAGCCTAGATTATCTA
1 GCACCAATGAAGATTTAAGCC-AGATTAGCTA
* *
716900 GCACCTAATGAAGTTTTAAGCCAGTTTAGCTA
1 GCACC-AATGAAGATTTAAGCCAGATTAGCTA
* *
716932 GCATTCAATGAAAATTTAA
1 GCA-CCAATGAAGATTTAA
716951 ACTTAGTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
32 27 0.63
33 16 0.37
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (31 bp):
GCACCAATGAAGATTTAAGCCAGATTAGCTA
Found at i:717016 original size:23 final size:23
Alignment explanation
Indices: 716990--717045 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
716980 TAAGCCTACT
** *
716990 TTAGCTAGCACGTAAACCTAGGA
1 TTAGCTAGCAAATAAACCTAGAA
* *
717013 TTAGTTAGCAAATAAGCCTAGAA
1 TTAGCTAGCAAATAAACCTAGAA
717036 TTAGCTAGCA
1 TTAGCTAGCA
717046 TGAAGGTCCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (23 bp):
TTAGCTAGCAAATAAACCTAGAA
Found at i:717216 original size:35 final size:35
Alignment explanation
Indices: 717175--717550 Score: 184
Period size: 35 Copynumber: 10.7 Consensus size: 35
717165 CAAACTTGTA
* *
717175 ACTTCATCCCAATCATCTTTATTTTTTGACTTATG
1 ACTTCATCCCAATCATCTTTATTTTTTAACTTACG
** ** * * *
717210 GTTTCATATCAGTCATCTATATTTTCTAACTTACG
1 ACTTCATCCCAATCATCTTTATTTTTTAACTTACG
* ** * * *
717245 ACTTAATCCTGATCATCTTTATTTCTCAACTTATG
1 ACTTCATCCCAATCATCTTTATTTTTTAACTTACG
* *** * * *
717280 GCTT-AGTCCTGGTTATCTTTATTTTTTGACTTTCG
1 ACTTCA-TCCCAATCATCTTTATTTTTTAACTTACG
* * * * * * *
717315 ATTTTAACCTAGTCATCTTTATTTTCTGACTTACG
1 ACTTCATCCCAATCATCTTTATTTTTTAACTTACG
* *
717350 ATTTTATCCCAATCATCTTTAATTTTTT-ACTTACG
1 ACTTCATCCCAATCATCTTT-ATTTTTTAACTTACG
** * * *
717385 ACTTTGTCCCGATCATCTTTATTTTTTAACTTGCA
1 ACTTCATCCCAATCATCTTTATTTTTTAACTTACG
* * * * *
717420 ACTTCATCTCAATCATTTTTATTTTCT-ACATAGTG
1 ACTTCATCCCAATCATCTTTATTTTTTAACTTA-CG
* * ** * *
717455 GCTT-AGTCCCGATCATCTTTATTTTCAAACTTGCA
1 ACTTCA-TCCCAATCATCTTTATTTTTTAACTTACG
* * * * *
717490 ATTTCATCCCAATCTTTTTTATTTTCTAACTTATG
1 ACTTCATCCCAATCATCTTTATTTTTTAACTTACG
* ***
717525 GCTTCATCCTGGTCATCTTTATTTTT
1 ACTTCATCCCAATCATCTTTATTTTT
717551 CAAATTATAA
Statistics
Matches: 251, Mismatches: 82, Indels: 16
0.72 0.23 0.05
Matches are distributed among these distances:
34 12 0.05
35 228 0.91
36 11 0.04
ACGTcount: A:0.22, C:0.21, G:0.08, T:0.49
Consensus pattern (35 bp):
ACTTCATCCCAATCATCTTTATTTTTTAACTTACG
Found at i:717276 original size:105 final size:104
Alignment explanation
Indices: 717158--717636 Score: 268
Period size: 105 Copynumber: 4.6 Consensus size: 104
717148 CCAGTCATTC
** * **
717158 TTATTTTCAAACTTGTAACTTCATCCCAATCATCTTTATTTTTTGACTTATGGTTTCATATCAGT
1 TTATTTTCAAACTTACAACTTCATCCCAATCATCTTTATTTTTTAACTTATGACTTCATATCAGT
* *
717223 CATCTATATTTTCTAACTTACGACTTAATCCTGATCATCT
66 CATCTTTATTTTCT-ACTTACGACTTAATCCCGATCATCT
*** *** * * * * *
717263 TTATTTCTC-AACTTATGGCTT-AGTCCTGGTTATCTTTATTTTTTGACTT-TCGATTTTA-ACC
1 TTATTT-TCAAACTTACAACTTCA-TCCCAATCATCTTTATTTTTTAACTTAT-GACTTCATATC
* * *
717324 TAGTCATCTTTATTTTCTGACTTACGATTTTATCCCAATCATCT
63 -AGTCATCTTTATTTTCT-ACTTACGACTTAATCCCGATCATCT
** * ** * *** * *
717368 TTAATTTT-TTACTTACGACTTTGTCCCGATCATCTTTATTTTTTAACTTGCAACTTCATCTCAA
1 TT-ATTTTCAAACTTACAACTTCATCCCAATCATCTTTATTTTTTAACTTATGACTTCATATCAG
* * * * *
717432 TCATTTTTATTTTCTACATAGTGGCTTAGTCCCGATCATCT
65 TCATCTTTATTTTCTACTTA-CGACTTAATCCCGATCATCT
* * * * * * * *
717473 TTATTTTCAAACTTGCAATTTCATCCCAATCTTTTTTATTTTCTAACTTATGGCTTCAT-CCTGG
1 TTATTTTCAAACTTACAACTTCATCCCAATCATCTTTATTTTTTAACTTATGACTTCATATC-AG
* * ** * * * *
717537 TCATCTTTATTTTTCAAATTATAACTTAGTTCTGATCATCA
65 TCATCTTTA-TTTTCTACTTACGACTTAATCCCGATCATCT
* * * * * * * * *
717578 TTATTTTCAAACTTGCGATTTTATCCCAATCTTTTTTATTTTTCAACTTGTGGCTTCAT
1 TTATTTTCAAACTTACAACTTCATCCCAATCATCTTTATTTTTTAACTTATGACTTCAT
717637 CCTGGTCATA
Statistics
Matches: 290, Mismatches: 71, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
104 14 0.05
105 261 0.90
106 15 0.05
ACGTcount: A:0.23, C:0.20, G:0.08, T:0.49
Consensus pattern (104 bp):
TTATTTTCAAACTTACAACTTCATCCCAATCATCTTTATTTTTTAACTTATGACTTCATATCAGT
CATCTTTATTTTCTACTTACGACTTAATCCCGATCATCT
Found at i:717527 original size:70 final size:69
Alignment explanation
Indices: 717327--717554 Score: 233
Period size: 70 Copynumber: 3.2 Consensus size: 69
717317 TTTAACCTAG
** * * * * * * * * *
717327 TCATCTTTATTTTCTGACTTACGATTTTATCCCAATCATCTTTAATTTTTTACTTACGACTTTGT
1 TCATCTTTATTTTCAAACTTGCAATTTCATCCCAATC-TTTTTTATTTTCTACTTATGGCTTAGT
717392 CCCGA
65 CCCGA
** * * * *
717397 TCATCTTTATTTTTTAACTTGCAACTTCATCTCAATCATTTTTATTTTCTACATAGTGGCTTAGT
1 TCATCTTTATTTTCAAACTTGCAATTTCATCCCAATCTTTTTTATTTTCTACTTA-TGGCTTAGT
717462 CCCGA
65 CCCGA
717467 TCATCTTTATTTTCAAACTTGCAATTTCATCCCAATCTTTTTTATTTTCTAACTTATGGCTTCA-
1 TCATCTTTATTTTCAAACTTGCAATTTCATCCCAATCTTTTTTATTTTCT-ACTTATGGCTT-AG
* *
717531 TCCTGG
64 TCCCGA
717537 TCATCTTTATTTTTCAAA
1 TCATCTTTA-TTTTCAAA
717555 TTATAACTTA
Statistics
Matches: 131, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
69 13 0.10
70 105 0.80
71 13 0.10
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (69 bp):
TCATCTTTATTTTCAAACTTGCAATTTCATCCCAATCTTTTTTATTTTCTACTTATGGCTTAGTC
CCGA
Found at i:717706 original size:70 final size:70
Alignment explanation
Indices: 717632--717767 Score: 168
Period size: 70 Copynumber: 1.9 Consensus size: 70
717622 AACTTGTGGC
** * *
717632 TTCATCCTGGTCATATTTATTTTTCGAA-TTATAGCTTAGT-TCCGATCATCATTATTTTTTGAC
1 TTCATCCCAGTCACATTTATTCTTC-AACTTATAGCTTAGTCT-CGATCATCATTATTTTTTGAC
717695 TTACATT
64 TTACATT
* * * *
717702 TTCATCCCAGTCACCTTTATTCTTCAACTTATGGCTTAGTCTCGTTCATCTTTATTTTTTGACTT
1 TTCATCCCAGTCACATTTATTCTTCAACTTATAGCTTAGTCTCGATCATCATTATTTTTTGACTT
717767 A
66 A
717768 TGATTTCGTC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
69 2 0.04
70 53 0.95
71 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (70 bp):
TTCATCCCAGTCACATTTATTCTTCAACTTATAGCTTAGTCTCGATCATCATTATTTTTTGACTT
ACATT
Found at i:717756 original size:105 final size:104
Alignment explanation
Indices: 717455--717760 Score: 384
Period size: 105 Copynumber: 2.9 Consensus size: 104
717445 CTACATAGTG
* * *
717455 GCTTAGTCCCGATCATCTTTATTTTCAAACTTGCAATTTCATCCCAATCTTTTTTATTTTCTAAC
1 GCTTAGTTCCGATCATCATTATTTTCAAACTTGCATTTTCATCCCAATCTTTTTTATTTTC-AAC
717520 TTATGGCTTCATCCTGGTCATCTTTATTTTTCAAATTATA
65 TTATGGCTTCATCCTGGTCATCTTTATTTTTCAAATTATA
* *
717560 ACTTAGTTCTGATCATCATTATTTTCAAACTTGCGATTTT-ATCCCAATCTTTTTTATTTTTCAA
1 GCTTAGTTCCGATCATCATTATTTTCAAACTTGC-ATTTTCATCCCAATCTTTTTTA-TTTTCAA
* * *
717624 CTTGTGGCTTCATCCTGGTCATATTTATTTTTCGAATTATA
64 CTTATGGCTTCATCCTGGTCATCTTTATTTTTCAAATTATA
*** * * ***
717665 GCTTAGTTCCGATCATCATTATTTTTTGACTTACATTTTCATCCCAGTCACCTTTATTCTTCAAC
1 GCTTAGTTCCGATCATCATTATTTTCAAACTTGCATTTTCATCCCAATCTTTTTTATT-TTCAAC
*
717730 TTATGGCTT-AGT-CTCGTTCATCTTTATTTTT
65 TTATGGCTTCA-TCCT-GGTCATCTTTATTTTT
717761 TGACTTATGA
Statistics
Matches: 174, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
104 10 0.06
105 155 0.89
106 9 0.05
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.49
Consensus pattern (104 bp):
GCTTAGTTCCGATCATCATTATTTTCAAACTTGCATTTTCATCCCAATCTTTTTTATTTTCAACT
TATGGCTTCATCCTGGTCATCTTTATTTTTCAAATTATA
Found at i:717940 original size:62 final size:62
Alignment explanation
Indices: 717794--718146 Score: 311
Period size: 62 Copynumber: 5.7 Consensus size: 62
717784 ACATCACTTA
* *
717794 ACTTGCAGTTTAATCTCGATCACTTCATTCAAATTGTGGCTTAGT--CCAGTCACCTTATTCG
1 ACTTGCAGTTTAATCTCGATCACTTCATTCGACTTGTGGCTTAGTCCCCA-TCACCTTATTCG
* * * * * * * *
717855 ACCTGTAATTTAATCTC-AGTCACTTTATTCGACTTTTGGCTTAGTCCCCATCACTTTGTTCC
1 ACTTGCAGTTTAATCTCGA-TCACTTCATTCGACTTGTGGCTTAGTCCCCATCACCTTATTCG
* * * * *
717917 ACTTGCAGTTTAATCTCAATCACTTCATTCAATTTGTGGCTTAGTCCCGATCACCTTATTTG
1 ACTTGCAGTTTAATCTCGATCACTTCATTCGACTTGTGGCTTAGTCCCCATCACCTTATTCG
* * * *
717979 ACCT--AGTTTAATCTCGATCACTTCATTCGACTTGTAGCTTAGTCTCAATCACCTTATTCG
1 ACTTGCAGTTTAATCTCGATCACTTCATTCGACTTGTGGCTTAGTCCCCATCACCTTATTCG
* * * * * * *** * **
718039 ACTTGTAGTTTAATCTTGGTCATTTTATTCGACTTGTGGCTTAGTTCTGGTCACCTCATTTA
1 ACTTGCAGTTTAATCTCGATCACTTCATTCGACTTGTGGCTTAGTCCCCATCACCTTATTCG
* * * * * * *
718101 ACCTACAATTTAATCTTGATCACCTCATTTGACTTGTAGCTTAGTC
1 ACTTGCAGTTTAATCTCGATCACTTCATTCGACTTGTGGCTTAGTC
718147 TCGATCACTT
Statistics
Matches: 231, Mismatches: 55, Indels: 11
0.78 0.19 0.04
Matches are distributed among these distances:
60 53 0.23
61 36 0.16
62 138 0.60
63 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (62 bp):
ACTTGCAGTTTAATCTCGATCACTTCATTCGACTTGTGGCTTAGTCCCCATCACCTTATTCG
Found at i:718038 original size:31 final size:31
Alignment explanation
Indices: 717827--718083 Score: 137
Period size: 31 Copynumber: 8.4 Consensus size: 31
717817 TTCATTCAAA
* *
717827 TTGTGGCTTAGTC-CAGTCACCTTATTCGAC
1 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
* ** * * *
717857 CTGTAATTTAATCTCAGTCACTTTATTCGAC
1 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
* * * * * * *
717888 TTTTGGCTTAGTCCCCATCACTTTGTTCCAC
1 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
* * * * *
717919 TTGCAGTTTAATCTCAATCA-CTTCATTCAAT
1 TTGTAGCTTAGTCTCAATCACCTT-ATTCGAC
* * * *
717950 TTGTGGCTTAGTCCCGATCACCTTATTTGAC
1 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
* * * *
717981 --CTAGTTTAATCTCGATCA-CTTCATTCGAC
1 TTGTAGCTTAGTCTCAATCACCTT-ATTCGAC
718010 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
1 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
* * *** **
718041 TTGTAGTTTAATCTTGGTCATTTTATTCGAC
1 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
*
718072 TTGTGGCTTAGT
1 TTGTAGCTTAGT
718084 TCTGGTCACC
Statistics
Matches: 163, Mismatches: 57, Indels: 13
0.70 0.24 0.06
Matches are distributed among these distances:
28 3 0.02
29 19 0.12
30 10 0.06
31 125 0.77
32 6 0.04
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (31 bp):
TTGTAGCTTAGTCTCAATCACCTTATTCGAC
Found at i:718115 original size:184 final size:183
Alignment explanation
Indices: 717800--718164 Score: 435
Period size: 184 Copynumber: 2.0 Consensus size: 183
717790 CTTAACTTGC
* *
717800 AGTTTAATCTCGATCACTTCATTCAAATTGTGGCTTAGTCCAGTCACCTTATTCGACCTGTAATT
1 AGTTTAATCTCGATCACTTCATTCAAATTGTAGCTTAGTCCAATCACCTTATTCGACCTGTAATT
* * ** * * * *
717865 TAATCTCAGTCACTTTATTCGACTTTTGGCTTAGTCCCCATCACTTTGTTCCACTTGCAGTTTAA
66 TAATCTCAGTCACTTTATTCGACTTGTGGCTTAGTCCCCATCACCTCATTCAACCTACAATTTAA
* * *
717930 TCTCAATCACTTCATTCAATTTGTGGCTTAGTCCCGATCACCTT-ATTTGACCT
131 TCTCAATCACCTCATTCAACTTGTAGCTTAGTCCCGATCA-CTTCATTTGACCT
* * * *
717983 AGTTTAATCTCGATCACTTCATTCGACTTGTAGCTTAGTCTCAATCACCTTATTCGACTTGTAGT
1 AGTTTAATCTCGATCACTTCATTCAAATTGTAGCTTAGTC-CAATCACCTTATTCGACCTGTAAT
** * * *** *
718048 TTAATCTTGGTCATTTTATTCGACTTGTGGCTTAGTTCTGGTCACCTCATTTAACCTACAATTTA
65 TTAATCTCAGTCACTTTATTCGACTTGTGGCTTAGTCCCCATCACCTCATTCAACCTACAATTTA
** ** *
718113 ATCTTGATCACCTCATTTGACTTGTAGCTTAGTCTCGATCACTTCATTTGAC
130 ATCTCAATCACCTCATTCAACTTGTAGCTTAGTCCCGATCACTTCATTTGAC
718165 TTGTGGTATA
Statistics
Matches: 150, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
183 40 0.27
184 110 0.73
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (183 bp):
AGTTTAATCTCGATCACTTCATTCAAATTGTAGCTTAGTCCAATCACCTTATTCGACCTGTAATT
TAATCTCAGTCACTTTATTCGACTTGTGGCTTAGTCCCCATCACCTCATTCAACCTACAATTTAA
TCTCAATCACCTCATTCAACTTGTAGCTTAGTCCCGATCACTTCATTTGACCT
Found at i:718153 original size:31 final size:31
Alignment explanation
Indices: 717950--718168 Score: 138
Period size: 31 Copynumber: 7.1 Consensus size: 31
717940 TTCATTCAAT
* * *
717950 TTGTGGCTTAGTCCCGATCACCTTATTTGAC
1 TTGTAGCTTAGTCTCGATCACCTCATTTGAC
* * * * *
717981 --CTAGTTTAATCTCGATCACTTCATTCGAC
1 TTGTAGCTTAGTCTCGATCACCTCATTTGAC
* * *
718010 TTGTAGCTTAGTCTCAATCACCTTATTCGAC
1 TTGTAGCTTAGTCTCGATCACCTCATTTGAC
* * * * ** * *
718041 TTGTAGTTTAATCTTGGTCATTTTATTCGAC
1 TTGTAGCTTAGTCTCGATCACCTCATTTGAC
* * *
718072 TTGTGGCTTAGT-TCTGGTCACCTCATTTAAC
1 TTGTAGCTTAGTCTC-GATCACCTCATTTGAC
* ** ** * *
718103 CTACAATTTAATCTTGATCACCTCATTTGAC
1 TTGTAGCTTAGTCTCGATCACCTCATTTGAC
*
718134 TTGTAGCTTAGTCTCGATCACTTCATTTGAC
1 TTGTAGCTTAGTCTCGATCACCTCATTTGAC
718165 TTGT
1 TTGT
718169 GGTATAATCA
Statistics
Matches: 136, Mismatches: 48, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
29 21 0.15
30 1 0.01
31 113 0.83
32 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (31 bp):
TTGTAGCTTAGTCTCGATCACCTCATTTGAC
Found at i:718154 original size:124 final size:122
Alignment explanation
Indices: 717827--718177 Score: 312
Period size: 122 Copynumber: 2.9 Consensus size: 122
717817 TTCATTCAAA
* * ** * *
717827 TTGTGGCTTAGTCCAG-TCACCTTATTCGACCTGTAATTTAATCTC-AGTCACTTTATTCGACTT
1 TTGTGGCTTAGTCCCGATCACCTCATTTAACC--TAATTTAATCTCGA-TCACCTCATTCGACTT
* * * * ** * * * *** * * * *
717890 TTGGCTTAGTCCCCATCACTTTGTTCCACTTGCAGTTTAATCTCAATCACTTCATTCAAT
63 GTAGCTTAGTCTCAATCACTTCATTCGACTTGTAGTATAATCTTGGTCATTTTATTCGAC
* * * *
717950 TTGTGGCTTAGTCCCGATCACCTTATTTGACCTAGTTTAATCTCGATCACTTCATTCGACTTGTA
1 TTGTGGCTTAGTCCCGATCACCTCATTTAACCTAATTTAATCTCGATCACCTCATTCGACTTGTA
*
718015 GCTTAGTCTCAATCACCTT-ATTCGACTTGTAGTTTAATCTTGGTCATTTTATTCGAC
66 GCTTAGTCTCAATCA-CTTCATTCGACTTGTAGTATAATCTTGGTCATTTTATTCGAC
* * * * *
718072 TTGTGGCTTAGTTCTGGTCACCTCATTTAACCTACAATTTAATCTTGATCACCTCATTTGACTTG
1 TTGTGGCTTAGTCCCGATCACCTCATTTAACCT--AATTTAATCTCGATCACCTCATTCGACTTG
* * *
718137 TAGCTTAGTCTCGATCACTTCATTTGACTTGTGGTATAATC
64 TAGCTTAGTCTCAATCACTTCATTCGACTTGTAGTATAATC
718178 ACGATCAACT
Statistics
Matches: 191, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
122 96 0.50
123 22 0.12
124 73 0.38
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (122 bp):
TTGTGGCTTAGTCCCGATCACCTCATTTAACCTAATTTAATCTCGATCACCTCATTCGACTTGTA
GCTTAGTCTCAATCACTTCATTCGACTTGTAGTATAATCTTGGTCATTTTATTCGAC
Found at i:718279 original size:17 final size:17
Alignment explanation
Indices: 718257--718357 Score: 57
Period size: 18 Copynumber: 5.6 Consensus size: 17
718247 ATCGAAAGAC
*
718257 CAAAAACAAAATATAAAA
1 CAAAACCAAAATA-AAAA
*
718275 CAAAAGCAAAACTAAAAA
1 CAAAACCAAAA-TAAAAA
*
718293 -AAAA-TAAAATAATAATA
1 CAAAACCAAAATAA-AA-A
*
718310 AAAAACCAAAAAGCTAAAAAA
1 CAAAACC-AAAA--T-AAAAA
718331 CTAAAA--AAAATAAAAA
1 C-AAAACCAAAATAAAAA
718347 CAAAACCAAAA
1 CAAAACCAAAA
718358 GCAAAGCAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 25
0.70 0.04 0.26
Matches are distributed among these distances:
15 7 0.10
16 12 0.18
17 10 0.15
18 18 0.27
19 6 0.09
20 4 0.06
21 1 0.01
22 7 0.10
23 2 0.03
ACGTcount: A:0.76, C:0.12, G:0.02, T:0.10
Consensus pattern (17 bp):
CAAAACCAAAATAAAAA
Found at i:718292 original size:18 final size:18
Alignment explanation
Indices: 718257--718357 Score: 59
Period size: 16 Copynumber: 5.6 Consensus size: 18
718247 ATCGAAAGAC
718257 CAAAAACAAAATATAAAA
1 CAAAAACAAAATATAAAA
* *
718275 CAAAAGCAAAA-CTAAAA
1 CAAAAACAAAATATAAAA
*
718292 -AAAAATAAAATAATAATAA
1 CAAAAACAAAAT-ATAA-AA
* *
718311 -AAAACCAAAAAGCTAAAAAA
1 CAAAAAC-AAAA--TATAAAA
*
718331 CTAAAA-AAAATA-AAAA
1 CAAAAACAAAATATAAAA
*
718347 CAAAACCAAAA
1 CAAAAACAAAA
718358 GCAAAGCAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 17
0.68 0.13 0.18
Matches are distributed among these distances:
16 16 0.25
17 11 0.17
18 13 0.21
19 10 0.16
20 6 0.10
21 6 0.10
22 1 0.02
ACGTcount: A:0.76, C:0.12, G:0.02, T:0.10
Consensus pattern (18 bp):
CAAAAACAAAATATAAAA
Found at i:718398 original size:78 final size:74
Alignment explanation
Indices: 718259--718400 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 74
718249 CGAAAGACCA
* *
718259 AAAACAAAATATAAAACAAAAGCAAAACTAAAAAAAAATAAAATAATAATAAAAAACCAAAAAGC
1 AAAACAAAATATAAAACAAAACCAAAACAAAAAAAAAATAAAATAATAATAAAAAACCAAAAAGC
718324 TAAAAAACT
66 TAAAAAACT
* *
718333 AAAA-AAAATA-AAAACAAAACCAAAAGCAAAGCAAAAAAATATATATAATATATTAAAACAACA
1 AAAACAAAATATAAAACAAAACCAAAA-CAAA--AAAAAAATA-AAATAATA-A-TAAAA-AACC
718396 AAAAA
59 AAAAA
718401 AAGGGTTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
72 14 0.25
73 9 0.16
74 4 0.07
75 9 0.16
76 7 0.12
77 1 0.02
78 5 0.09
79 8 0.14
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.13
Consensus pattern (74 bp):
AAAACAAAATATAAAACAAAACCAAAACAAAAAAAAAATAAAATAATAATAAAAAACCAAAAAGC
TAAAAAACT
Found at i:720685 original size:3 final size:3
Alignment explanation
Indices: 720679--720711 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
720669 AATAAATATT
*
720679 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
720712 CAAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:720821 original size:18 final size:18
Alignment explanation
Indices: 720798--720852 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
720788 CTAGATGTTG
720798 AAAAATTATTAAATAATA
1 AAAAATTATTAAATAATA
* * * *
720816 AAAAATAATAAAAGATTA
1 AAAAATTATTAAATAATA
*
720834 ATAAATTA-T-AATAATA
1 AAAAATTATTAAATAATA
720850 AAA
1 AAA
720853 TTTTTTAATG
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
16 7 0.26
18 20 0.74
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTATTAAATAATA
Found at i:721092 original size:13 final size:13
Alignment explanation
Indices: 721076--721157 Score: 56
Period size: 13 Copynumber: 5.8 Consensus size: 13
721066 AAAGAAAGCT
*
721076 TAAATTGAAACCC
1 TAAATTAAAACCC
*
721089 TAAATCAAAACCC
1 TAAATTAAAACCC
721102 TAAAATTAAAATCAAAACCC
1 T-AAATT---A--A-AACCC
*
721122 TAAATTGAAACCC
1 TAAATTAAAACCC
*
721135 TAAATTAAAAGCC
1 TAAATTAAAACCC
*
721148 TAAATCAAAA
1 TAAATTAAAA
721158 TTGTAAATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
13 37 0.67
14 5 0.09
17 1 0.02
19 6 0.11
20 6 0.11
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.21
Consensus pattern (13 bp):
TAAATTAAAACCC
Found at i:721112 original size:14 final size:13
Alignment explanation
Indices: 721110--721157 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
721100 CCTAAAATTA
*
721110 AAATCAAAACCCT
1 AAATTAAAACCCT
*
721123 AAATTGAAACCCT
1 AAATTAAAACCCT
*
721136 AAATTAAAAGCCT
1 AAATTAAAACCCT
*
721149 AAATCAAAA
1 AAATTAAAA
721158 TTGTAAATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (13 bp):
AAATTAAAACCCT
Found at i:721120 original size:33 final size:32
Alignment explanation
Indices: 721083--721144 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
721073 GCTTAAATTG
721083 AAACCCTAAATCAAAACCCTAAAATTAAAATCA
1 AAACCCTAAATCAAAACCCT-AAATTAAAATCA
**
721116 AAACCCTAAATTGAAACCCTAAATTAAAA
1 AAACCCTAAATCAAAACCCTAAATTAAAA
721145 GCCTAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (32 bp):
AAACCCTAAATCAAAACCCTAAATTAAAATCA
Done.