Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold109
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: 1855911
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.34
Warning! 69956 characters in sequence are not A, C, G, or T
File 2 of 13
Found at i:148281 original size:3 final size:3
Alignment explanation
Indices: 148273--148303 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
148263 TAACGCATAT
148273 ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
148304 CACGAATGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:148294 original size:14 final size:14
Alignment explanation
Indices: 148275--148302 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
148265 ACGCATATAT
148275 AATAATAATAATAA
1 AATAATAATAATAA
148289 AATAATAATAATAA
1 AATAATAATAATAA
148303 TCACGAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:148447 original size:18 final size:19
Alignment explanation
Indices: 148424--148476 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 19
148414 AACTTACATT
*
148424 TTTAAATTTAATATATT-A
1 TTTAAATTTAATAAATTAA
148442 TTTAAATTTAATAAATTAAA
1 TTTAAATTTAATAAATT-AA
148462 TATTAAATTTAATAA
1 T-TTAAATTTAATAA
148477 CATAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAATTTAATAAATTAA
Found at i:148711 original size:5 final size:5
Alignment explanation
Indices: 148701--148754 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
148691 TAAATCATTC
** * *
148701 TTATA TTATA TTA-A TTACG TTATA TTATA ATATA TTACA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
148750 TTATA
1 TTATA
148755 GTTTTATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (5 bp):
TTATA
Found at i:148743 original size:20 final size:20
Alignment explanation
Indices: 148701--148754 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
148691 TAAATCATTC
*
148701 TTATATTATATTA-ATTACG
1 TTATATTATATTATATTACA
*
148720 TTATATTATAATATATTACA
1 TTATATTATATTATATTACA
148740 TTATATTATATTATA
1 TTATATTATATTATA
148755 GTTTTATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
TTATATTATATTATATTACA
Found at i:148886 original size:6 final size:7
Alignment explanation
Indices: 148856--148889 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
148846 AAAGTGGACT
148856 TTTTTAA
1 TTTTTAA
148863 TTTTTAA
1 TTTTTAA
148870 -TTTTAA
1 TTTTTAA
*
148876 TTTTTAT
1 TTTTTAA
148883 TTTTTAA
1 TTTTTAA
148890 AAAACAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:148886 original size:13 final size:13
Alignment explanation
Indices: 148856--148886 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
148846 AAAGTGGACT
148856 TTTTTAATTTTTA
1 TTTTTAATTTTTA
*
148869 ATTTTAATTTTTA
1 TTTTTAATTTTTA
148882 TTTTT
1 TTTTT
148887 TAAAAAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTAATTTTTA
Found at i:149056 original size:23 final size:22
Alignment explanation
Indices: 149012--149054 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
149002 TATTTATATT
149012 AAAATAAATTATTATTTTAAATG
1 AAAATAAATTA-TATTTTAAATG
149035 AAAATATAATTA-ATTTTAAA
1 AAAATA-AATTATATTTTAAA
149055 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAATAAATTATATTTTAAATG
Found at i:149137 original size:29 final size:29
Alignment explanation
Indices: 149050--149162 Score: 88
Period size: 30 Copynumber: 3.9 Consensus size: 29
149040 ATAATTAATT
* ** *
149050 TTAAAATTTTATTTAGGTATATATTAAAAA
1 TTAAAAATTTATTTAAATATA-AATAAAAA
*
149080 TTTAAAATTTATTTAAATATAAATTAAAAA
1 TTAAAAATTTATTTAAATATAAA-TAAAAA
** *
149110 TTAAAAATTTATTTTTATCT-AATAAAAA
1 TTAAAAATTTATTTAAATATAAATAAAAA
* *
149138 TATAAACATTTA-TGAAATA-AAATAA
1 T-TAAAAATTTATTTAAATATAAATAA
149163 TAAAATTATA
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
28 15 0.23
29 12 0.18
30 39 0.59
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (29 bp):
TTAAAAATTTATTTAAATATAAATAAAAA
Found at i:149368 original size:14 final size:14
Alignment explanation
Indices: 149349--149384 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
149339 AAATATTGAA
149349 TTAATTAAATTCAT
1 TTAATTAAATTCAT
*
149363 TTAATTAAATTTAT
1 TTAATTAAATTCAT
*
149377 TTATTTAA
1 TTAATTAA
149385 TATAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATTAAATTCAT
Found at i:149430 original size:26 final size:26
Alignment explanation
Indices: 149379--149443 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
149369 AAATTTATTT
* *
149379 ATTTAATATAATT-ATAATTAATTTTAA
1 ATTTAAT-T-ATTAATAATAAAATTTAA
149406 ATTTAATTATTAATAATAAAATTTAA
1 ATTTAATTATTAATAATAAAATTTAA
*
149432 ATTCAATT-TTAA
1 ATTTAATTATTAA
149444 ATTAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.21
26 20 0.59
27 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTAATTATTAATAATAAAATTTAA
Found at i:149445 original size:38 final size:35
Alignment explanation
Indices: 149351--149446 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 35
149341 ATATTGAATT
* * *
149351 AATTAAATTCATTTAATTAAATTTATTTATTTAATAT
1 AATTAAATTCAATT--TTAAATTTAATTATTTAATAA
149388 AATTATAATT-AATTTTAAATTTAATTATTAATAATAA
1 AATTA-AATTCAATTTTAAATTTAATTATT--TAATAA
149425 AATTTAAATTCAATTTTAAATT
1 AA-TTAAATTCAATTTTAAATT
149447 AAAAAATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
35 14 0.27
37 19 0.37
38 18 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (35 bp):
AATTAAATTCAATTTTAAATTTAATTATTTAATAA
Found at i:149501 original size:21 final size:22
Alignment explanation
Indices: 149467--149518 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
149457 TATTATTAAA
149467 TAAAAATAATAAAAATATATA-T
1 TAAAAATAATAAAAATAT-TACT
149489 TAAAAATAA-AAAAATATTACT
1 TAAAAATAATAAAAATATTACT
*
149510 TACAAATAA
1 TAAAAATAA
149519 CTCAAATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 2 0.07
21 17 0.61
22 9 0.32
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAATAATAAAAATATTACT
Found at i:150567 original size:2 final size:2
Alignment explanation
Indices: 150560--150597 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
150550 GAAAGCATTC
150560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
150598 CGCTTAGAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:155412 original size:21 final size:21
Alignment explanation
Indices: 155386--155437 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
155376 TATTTTAAAA
155386 TTATATATTATAATATATCAT
1 TTATATATTATAATATATCAT
* * *
155407 TTATATTTTATAATGTATTAT
1 TTATATATTATAATATATCAT
*
155428 ATAT-TATTAT
1 TTATATATTAT
155438 TTTTATAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATATATTATAATATATCAT
Found at i:155417 original size:28 final size:26
Alignment explanation
Indices: 155386--155453 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
155376 TATTTTAAAA
155386 TTATATAT-TATAATATATCATTTATATT
1 TTATA-ATGTATAATATATCA-TTAT-TT
* *
155414 TTATAATGTATTATATATTATTATTT
1 TTATAATGTATAATATATCATTATTT
155440 TTATAATGATATAA
1 TTATAATG-TATAA
155454 ATAATTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.29
27 10 0.29
28 15 0.43
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (26 bp):
TTATAATGTATAATATATCATTATTT
Found at i:155452 original size:24 final size:27
Alignment explanation
Indices: 155398--155466 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
155388 ATATATTATA
*
155398 ATATATCATTTATATTTTATAATGTATT
1 ATATATAATTTAT-TTTTATAATGTATT
*
155426 ATATATTA-TTATTTTTATAATG-A-T
1 ATATATAATTTATTTTTATAATGTATT
*
155450 ATAAATAATTTATTTTT
1 ATATATAATTTATTTTT
155467 TAAATCATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.19
25 9 0.24
26 10 0.27
27 4 0.11
28 7 0.19
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (27 bp):
ATATATAATTTATTTTTATAATGTATT
Found at i:162095 original size:103 final size:100
Alignment explanation
Indices: 161890--162095 Score: 299
Period size: 103 Copynumber: 2.0 Consensus size: 100
161880 ACAAAATAGA
161890 TTCATTTCTTGCAGTCCAGAAAAACTAGAAAGGAAATCAACACCGCCTTTAGTAAGAAAAACAAG
1 TTCATTTCTTGCAGTCCAGAAAAACTAGAAAGGAAATCAACACCGCCTTTAGTAAGAAAAACAAG
* *
161955 ATTGAAAGGAATCCAATAATATTGGTAGCCATCTCT
66 ATTGAAAGGAATCCAAAAATATCGGTAGCCA-CTCT
* *
161991 TTCATTTTCTTGCAAGTCCAGAAAAACTATAAAGTAAATCAACACCGCCTTTAGTAA-AGAAAAC
1 TTCA-TTTCTTGC-AGTCCAGAAAAACTAGAAAGGAAATCAACACCGCCTTTAGTAAGA-AAAAC
*
162055 CAGATTGAAAGGAATCCTATAAAATATCGGTAGCCA-TCT
63 AAGATTGAAAGGAATCC-A-AAAATATCGGTAGCCACTCT
162094 TT
1 TT
162096 ATCATGCTAT
Statistics
Matches: 95, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
101 4 0.04
102 9 0.09
103 67 0.71
104 1 0.01
105 14 0.15
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (100 bp):
TTCATTTCTTGCAGTCCAGAAAAACTAGAAAGGAAATCAACACCGCCTTTAGTAAGAAAAACAAG
ATTGAAAGGAATCCAAAAATATCGGTAGCCACTCT
Found at i:164149 original size:24 final size:24
Alignment explanation
Indices: 164117--164164 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
164107 TTTCTTAAGC
164117 TAATTTAAAAATATAATAATTTAT
1 TAATTTAAAAATATAATAATTTAT
*
164141 TAATTTAAAAATATAGTAATTTAT
1 TAATTTAAAAATATAATAATTTAT
164165 CAAATGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATTTAAAAATATAATAATTTAT
Found at i:164860 original size:21 final size:21
Alignment explanation
Indices: 164834--164873 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
164824 ATATTAAAAA
164834 TATTTTAT-ATTAATATTTATC
1 TATTTTATAATTAA-ATTTATC
164855 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
164874 AATAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATC
Found at i:164987 original size:21 final size:21
Alignment explanation
Indices: 164947--165013 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
164937 AAAATATTTA
* *
164947 AATTTAAATTAT-ATTAAATT
1 AATTTAAATTTTAAATAAATT
** *
164967 AATTTTTATTTTAAATTAATT
1 AATTTAAATTTTAAATAAATT
*
164988 AAATTAAATTTTAAATAAATT
1 AATTTAAATTTTAAATAAATT
*
165009 TATTT
1 AATTT
165014 CGAACCTAAC
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
20 9 0.26
21 26 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTTAAATTTTAAATAAATT
Found at i:164988 original size:26 final size:27
Alignment explanation
Indices: 164949--165000 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
164939 AATATTTAAA
*
164949 TTTAAATTATATTAAATTAATTTTTAT
1 TTTAAATTATATTAAATTAAATTTTAT
164976 TTTAAATTA-ATTAAATTAAATTTTA
1 TTTAAATTATATTAAATTAAATTTTA
165001 AATAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAAATTATATTAAATTAAATTTTAT
Found at i:165564 original size:31 final size:30
Alignment explanation
Indices: 165486--165565 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
165476 AAGTGAAAAT
* *
165486 AATTATTTAATAATAAAAATATTTTTATTTA
1 AATT-TTTATTAATAAAAATATATTTATTTA
*
165517 AA-TTTAATT-ATAAAAATATAAATTT-TTTA
1 AATTTTTATTAATAAAAATAT--ATTTATTTA
165546 AATTTTTATTAATAAAAATA
1 AATTTTTATTAATAAAAATA
165566 GTAATTCGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 10 0.24
29 10 0.24
30 10 0.24
31 11 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTTTTATTAATAAAAATATATTTATTTA
Found at i:166525 original size:16 final size:15
Alignment explanation
Indices: 166469--166526 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
166459 TTTAAATATT
*
166469 ATATGATATAAAATAA
1 ATATAATATAAAAT-A
* *
166485 AAATAATAAAAATATA
1 ATATAATATAAA-ATA
166501 ATAT-ATATAAAATA
1 ATATAATATAAAATA
166515 ATATAATTATAA
1 ATATAA-TATAA
166527 TAGGATTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.21
15 7 0.21
16 18 0.53
17 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
ATATAATATAAAATA
Found at i:166557 original size:14 final size:14
Alignment explanation
Indices: 166540--166590 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
166530 GATTATATGA
166540 ATATATTAAAATTT
1 ATATATTAAAATTT
*
166554 ATATAATATAAGATATTA
1 ATAT-AT-TAA-A-ATTT
166572 ATATATTAAAATTT
1 ATATATTAAAATTT
166586 ATATA
1 ATATA
166591 AATATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 12 0.39
15 3 0.10
16 6 0.19
17 3 0.10
18 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:166557 original size:20 final size:19
Alignment explanation
Indices: 166496--166597 Score: 67
Period size: 19 Copynumber: 5.6 Consensus size: 19
166486 AATAATAAAA
*
166496 ATATAATATATATAAAA-TA
1 ATATAATATAT-TAAAATTT
* **
166515 ATATAATTATAATAGGA-TT
1 ATATAA-TATATTAAAATTT
166534 ATATGAATATATTAAAATTT
1 ATAT-AATATATTAAAATTT
*
166554 ATAT-A-ATA-TAAGA--T
1 ATATAATATATTAAAATTT
166568 AT-TAATATATTAAAATTT
1 ATATAATATATTAAAATTT
166586 ATATAAATATAT
1 ATAT-AATATAT
166598 AATATTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 19
0.70 0.10 0.21
Matches are distributed among these distances:
13 1 0.02
14 4 0.06
15 3 0.05
16 8 0.12
17 3 0.05
18 4 0.06
19 22 0.34
20 19 0.30
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
ATATAATATATTAAAATTT
Found at i:166563 original size:27 final size:28
Alignment explanation
Indices: 166496--166609 Score: 99
Period size: 32 Copynumber: 3.9 Consensus size: 28
166486 AATAATAAAA
* * *
166496 ATATAATATATATAAAATAATATAA-TT
1 ATATAATATATATAATATATTAAAATTT
166523 ATAATAGGAT-TATATGAATATATTAAAATTT
1 AT-ATA--ATATATAT-AATATATTAAAATTT
166554 ATATAATATAAGATATTAATATATTAAAATTT
1 ATATAATAT---ATA-TAATATATTAAAATTT
*
166586 ATATAA-ATATATAATATTTTAAAA
1 ATATAATATATATAATATATTAAAA
166610 ATAATTATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
27 14 0.19
28 8 0.11
29 6 0.08
30 14 0.19
31 6 0.08
32 24 0.33
33 1 0.01
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (28 bp):
ATATAATATATATAATATATTAAAATTT
Found at i:166577 original size:32 final size:33
Alignment explanation
Indices: 166534--166596 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
166524 TAATAGGATT
166534 ATATGAATATATTAAAATTTATAT-AATATAAG
1 ATATGAATATATTAAAATTTATATAAATATAAG
*
166566 ATATTAATATATTAAAATTTATATAAATATA
1 ATATGAATATATTAAAATTTATATAAATATA
166597 TAATATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (33 bp):
ATATGAATATATTAAAATTTATATAAATATAAG
Found at i:167457 original size:22 final size:21
Alignment explanation
Indices: 167419--167459 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
167409 TTATTTAAAT
*
167419 AATAAATTAAATTAATTTTTG
1 AATAAATTAAATAAATTTTTG
*
167440 AATAAATTTTAATAAATTTT
1 AATAAA-TTAAATAAATTTT
167460 AATTTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATAAATTAAATAAATTTTTG
Found at i:168952 original size:21 final size:21
Alignment explanation
Indices: 168918--168960 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
168908 TTTCTTGTTT
* *
168918 TGTTTAAATGAAAACAA-CTAA
1 TGTTTAAA-AAAAAAAATCTAA
168939 TGTTTAAAAAAAAAAATCTAA
1 TGTTTAAAAAAAAAAATCTAA
168960 T
1 T
168961 TAATGAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TGTTTAAAAAAAAAAATCTAA
Found at i:169343 original size:18 final size:18
Alignment explanation
Indices: 169320--169368 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
169310 TTTTGAATTT
169320 AAATTTTTTATTTAATAA
1 AAATTTTTTATTTAATAA
*
169338 AAA-TTTTTATTAAATAA
1 AAATTTTTTATTTAATAA
*
169355 ATAATTTTTAATTT
1 A-AATTTTTTATTT
169369 TTGAAAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 14 0.54
18 5 0.19
19 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATTTTTTATTTAATAA
Found at i:169346 original size:17 final size:18
Alignment explanation
Indices: 169324--169364 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
169314 GAATTTAAAT
*
169324 TTTTTATTTAATAAA-AA
1 TTTTTATTAAATAAATAA
169341 TTTTTATTAAATAAATAA
1 TTTTTATTAAATAAATAA
169359 TTTTTA
1 TTTTTA
169365 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTATTAAATAAATAA
Found at i:179656 original size:13 final size:13
Alignment explanation
Indices: 179638--179668 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
179628 AAGATCTTCC
*
179638 AAATTTATAAAAA
1 AAATTTAGAAAAA
179651 AAATTTAGAAAAA
1 AAATTTAGAAAAA
179664 AAATT
1 AAATT
179669 GAGTTTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAATTTAGAAAAA
Found at i:184778 original size:155 final size:157
Alignment explanation
Indices: 184495--184803 Score: 489
Period size: 155 Copynumber: 2.0 Consensus size: 157
184485 GATTCTGATG
*
184495 TTTTTTCTAGCTATAGGTTTAAAAACAACCTAATATTTTTCATCAAAATGGAAAAAAAAAATAAA
1 TTTTTTCTAGCTATAGATTTAAAAACAACCTAATATTTTTCATCAAAATGGAAAAAAAAAATAAA
* *
184560 AAATGCAACTTCTCTTGAACCATAGGAAAATTAGATTCGAAAATATTAAACACAATTGCACAAAT
66 AAATGCAACTACTCTTGAACCATAGGAAAAATAGATTCGAAAATATTAAACACAATTGCACAAAT
184625 ATGACACGATAAAAATAATTAAAATAT
131 ATGACACGATAAAAATAATTAAAATAT
* * *
184652 TTTTTTCTAGCTCT-GATTTAAAAA-TACCTAATATTTTTCATCAAAATGG-AAACAAAAATAAA
1 TTTTTTCTAGCTATAGATTTAAAAACAACCTAATATTTTTCATCAAAATGGAAAAAAAAAATAAA
* ** *
184714 AAATGCAACTGACTCTTTAACCATATTAAAAATAGATTCGAAAATATTAAACACGATTGCACAAA
66 AAATGCAACT-ACTCTTGAACCATAGGAAAAATAGATTCGAAAATATTAAACACAATTGCACAAA
*
184779 TATGATACGATAAAAATAATTAAAA
130 TATGACACGATAAAAATAATTAAAA
184804 CATAATATAA
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
154 22 0.16
155 96 0.69
156 9 0.06
157 13 0.09
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (157 bp):
TTTTTTCTAGCTATAGATTTAAAAACAACCTAATATTTTTCATCAAAATGGAAAAAAAAAATAAA
AAATGCAACTACTCTTGAACCATAGGAAAAATAGATTCGAAAATATTAAACACAATTGCACAAAT
ATGACACGATAAAAATAATTAAAATAT
Found at i:192151 original size:11 final size:11
Alignment explanation
Indices: 192135--192171 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
192125 ATTTAAAATA
192135 TATATTTATAT
1 TATATTTATAT
*
192146 TATATTT-TAA
1 TATATTTATAT
192156 T-TATTTATAT
1 TATATTTATAT
192166 TATATT
1 TATATT
192172 ATAAATAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 5 0.23
10 6 0.27
11 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:192154 original size:25 final size:25
Alignment explanation
Indices: 192099--192174 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 25
192089 ATAAATTTTA
* *
192099 ATATTTT-AATAATTTATATTATA-A
1 ATATTTTAAAT-ATATATATTATATT
* *
192123 AAATTTAAAATATATAT-TTATATT
1 ATATTTTAAATATATATATTATATT
* *
192147 ATATTTTAATTATTTATATTATATT
1 ATATTTTAAATATATATATTATATT
192172 ATA
1 ATA
192175 AATAACGTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 5 0.12
24 23 0.56
25 13 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTTTAAATATATATATTATATT
Found at i:203982 original size:2 final size:2
Alignment explanation
Indices: 203975--204009 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
203965 TCCCAACCTT
*
203975 TA TA TA TA TA -A TA TA TA TA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
204010 AGTGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:205781 original size:12 final size:12
Alignment explanation
Indices: 205764--205801 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
205754 ACATACATGA
*
205764 ATATATATATAT
1 ATATATGTATAT
205776 ATATATGTATAT
1 ATATATGTATAT
*
205788 GTATATGTATAT
1 ATATATGTATAT
205800 AT
1 AT
205802 GCATGCATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:206840 original size:12 final size:12
Alignment explanation
Indices: 206823--206858 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
206813 CATTAGGATA
206823 CACATGTAAATG
1 CACATGTAAATG
206835 CACATGT-AATG
1 CACATGTAAATG
206846 CACATGTAAATG
1 CACATGTAAATG
206858 C
1 C
206859 TTGAGTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (12 bp):
CACATGTAAATG
Found at i:206847 original size:11 final size:11
Alignment explanation
Indices: 206823--206854 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
206813 CATTAGGATA
206823 CACATGTAAATG
1 CACATGT-AATG
206835 CACATGTAATG
1 CACATGTAATG
206846 CACATGTAA
1 CACATGTAA
206855 ATGCTTGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (11 bp):
CACATGTAATG
Found at i:213155 original size:18 final size:17
Alignment explanation
Indices: 213113--213155 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
213103 ATAAAATACG
**
213113 AAAATAATATTTTTTAT
1 AAAATAATATTTTAAAT
213130 AAATATAATAATTTTAAAT
1 AAA-ATAAT-ATTTTAAAT
213149 AAAATAA
1 AAAATAA
213156 AATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATAATATTTTAAAT
Found at i:213407 original size:16 final size:15
Alignment explanation
Indices: 213388--213454 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 15
213378 AGTTATATAA
*
213388 ATTTTAATATATTTTT
1 ATTTT-ATATTTTTTT
*
213404 ATTTTTATTTTTTTATT
1 A-TTTTATATTTTT-TT
213421 ATTTTATATTTTATTT
1 ATTTTATATTTT-TTT
*
213437 ATTTTTTATTTTATTT
1 ATTTTATATTTT-TTT
213453 AT
1 AT
213455 AATATCTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
16 36 0.82
17 8 0.18
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTATATTTTTTT
Found at i:213413 original size:22 final size:23
Alignment explanation
Indices: 213388--213436 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
213378 AGTTATATAA
213388 ATTTTAATA-TATTTT-TATTTTT
1 ATTTTAATATTATTTTATA-TTTT
**
213410 ATTTTTTTATTATTTTATATTTT
1 ATTTTAATATTATTTTATATTTT
213433 ATTT
1 ATTT
213437 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 14 0.61
24 2 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
ATTTTAATATTATTTTATATTTT
Found at i:213414 original size:11 final size:11
Alignment explanation
Indices: 213400--213452 Score: 65
Period size: 11 Copynumber: 4.7 Consensus size: 11
213390 TTTAATATAT
213400 TTTTATTTTTA
1 TTTTATTTTTA
213411 TTTT-TTTATTA
1 TTTTATTT-TTA
213422 TTTTATATTTTA
1 TTTTAT-TTTTA
213434 -TTTATTTTTTA
1 TTTTA-TTTTTA
213445 TTTTATTT
1 TTTTATTT
213453 ATAATATCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 3 0.08
11 23 0.62
12 9 0.24
13 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:213423 original size:23 final size:22
Alignment explanation
Indices: 213400--213452 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
213390 TTTAATATAT
213400 TTTTATTTTTATTT-TTTTATTA
1 TTTTATTTTTATTTATTTT-TTA
213422 TTTTATATTTTATTTATTTTTTA
1 TTTTAT-TTTTATTTATTTTTTA
213445 TTTTATTT
1 TTTTATTT
213453 ATAATATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.28
23 17 0.59
24 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTATTTTTATTTATTTTTTA
Found at i:213592 original size:22 final size:21
Alignment explanation
Indices: 213567--213633 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
213557 AAATTTTACT
* *
213567 TTATTTAATTTAATTTAAATTA
1 TTATTTAATTTAA-TAAAAATA
213589 TTATTTAAAATTTAATAAAAATA
1 TTATTT--AATTTAATAAAAATA
213612 TTATTTTAA-TTAATAAATAATA
1 TTA-TTTAATTTAATAAA-AATA
213634 ATTTAAATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 8 0.21
22 12 0.31
23 9 0.23
24 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTTAATTTAATAAAAATA
Found at i:213610 original size:24 final size:23
Alignment explanation
Indices: 213573--213640 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
213563 TACTTTATTT
* *
213573 AATTTAATTTAAATTATTATTTAA
1 AATTTAA-TAAAAATATTATTTAA
*
213597 AATTTAATAAAAATATTATTT-T
1 AATTTAATAAAAATATTATTTAA
213619 AA-TTAATAAATAATA--ATTTAA
1 AATTTAATAAA-AATATTATTTAA
213640 A
1 A
213641 TCAAATTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 6 0.16
23 12 0.32
24 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTAATAAAAATATTATTTAA
Found at i:213638 original size:19 final size:17
Alignment explanation
Indices: 213597--213639 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
213587 TATTATTTAA
*
213597 AATTTAATAAAAATATT
1 AATTTAATAAAAATAAT
*
213614 ATTTTAATTAATAAATAAT
1 AATTTAA-TAA-AAATAAT
213633 AATTTAA
1 AATTTAA
213640 ATCAAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
19 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTAATAAAAATAAT
Found at i:213655 original size:34 final size:35
Alignment explanation
Indices: 213611--213681 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
213601 TAATAAAAAT
* *
213611 ATTATTTTAATTAATAAATAAT-AATTTAAA-TCAA
1 ATTATATTAATT-ATAAAAAATAAATTTAAATTCAA
*
213645 ATTATATTAATTTTAAAAAATAAATTTAAATTCAA
1 ATTATATTAATTATAAAAAATAAATTTAAATTCAA
213680 AT
1 AT
213682 CAAATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 7 0.22
34 19 0.59
35 6 0.19
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (35 bp):
ATTATATTAATTATAAAAAATAAATTTAAATTCAA
Found at i:213668 original size:40 final size:39
Alignment explanation
Indices: 213609--213686 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
213599 TTTAATAAAA
** *
213609 ATATTATTTTAATTAATAAATA-ATAATTTAAATCAAATT
1 ATATTATTTTAAAAAATAAATATA-AATTCAAATCAAATT
*
213648 ATATTAATTTTAAAAAATAAATTTAAATTCAAATCAAAT
1 ATATT-ATTTTAAAAAATAAATATAAATTCAAATCAAAT
213687 AAATAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.15
40 27 0.82
41 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (39 bp):
ATATTATTTTAAAAAATAAATATAAATTCAAATCAAATT
Found at i:214201 original size:23 final size:22
Alignment explanation
Indices: 214173--214216 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
214163 TAATTTTATT
* *
214173 TTTTTACAATAATTTTTTATCAA
1 TTTTTA-AATAAATTATTATCAA
214196 TTTTTAAATAAATTATTATCA
1 TTTTTAAATAAATTATTATCA
214217 TCTGATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTAAATAAATTATTATCAA
Found at i:214444 original size:5 final size:5
Alignment explanation
Indices: 214425--214549 Score: 88
Period size: 5 Copynumber: 25.4 Consensus size: 5
214415 ATATAGCACG
* * *
214425 TATAT TA-AA TATAT TATAT TA-AT TATA- TATAAA TATAT TTTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT TATAT
*
214473 T-TAT TATAT TACCATAT T-TAT TA-AT CATATAT TATAT TA-AT TCTAT
1 TATAT TATAT T---ATAT TATAT TATAT --TATAT TATAT TATAT TATAT
214519 T-TAAT TATAT TATAT TATAT T-TAT TATAT TA
1 TAT-AT TATAT TATAT TATAT TATAT TATAT TA
214550 CCGTATTTAT
Statistics
Matches: 98, Mismatches: 6, Indels: 32
0.72 0.04 0.24
Matches are distributed among these distances:
4 28 0.29
5 57 0.58
6 6 0.06
7 2 0.02
8 5 0.05
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:214489 original size:29 final size:27
Alignment explanation
Indices: 214425--214548 Score: 94
Period size: 29 Copynumber: 4.5 Consensus size: 27
214415 ATATAGCACG
*
214425 TATATTAAATATATTATATTA-A-TTA-
1 TATATT-AATATATTTTATTATATTTAT
*
214450 TATATAAATATATTTTATTATATTTAT
1 TATATTAATATATTTTATTATATTTAT
** *
214477 TATATTACCATA-TTTATTAATCATATAT
1 TATATTAATATATTTTATT-AT-ATTTAT
* *
214505 TATATTAATTCTATTTAATTATATTATAT
1 TATATTAA-TATATTTTATTATATT-TAT
*
214534 TATATTTATTATATT
1 TATA-TTAATATATT
214549 ACCGTATTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
24 13 0.17
25 6 0.08
26 9 0.12
27 11 0.14
28 14 0.18
29 16 0.21
30 8 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (27 bp):
TATATTAATATATTTTATTATATTTAT
Found at i:214506 original size:66 final size:66
Alignment explanation
Indices: 214433--214563 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
214423 CGTATATTAA
*
214433 ATATATTATATTAATTATATATAAATATATTTTATTATATTTATTATATTACCATATTTATTAAT
1 ATATATTATATTAATTATATATAAATATATTATATTATATTTATTATATTACCATATTTATTAAT
214498 C
66 C
* * * *
214499 ATATATTATATTAATTCTATTTAATTATATTATATTATATTTATTATATTACCGTATTTATTAAT
1 ATATATTATATTAATTATATATAAATATATTATATTATATTTATTATATTACCATATTTATTAAT
214564 TGTTAAGCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.56
Consensus pattern (66 bp):
ATATATTATATTAATTATATATAAATATATTATATTATATTTATTATATTACCATATTTATTAAT
C
Found at i:215579 original size:22 final size:23
Alignment explanation
Indices: 215552--215623 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 23
215542 ATTTTTTTAT
215552 ATTTAAATTTATTAAAAT-T-AA
1 ATTTAAATTTATTAAAATATAAA
*
215573 ATTTTAA-TTATTTAAAATATAAA
1 ATTTAAATTTA-TTAAAATATAAA
*
215596 ATTTAATACTTTATTAATAAAATAAA
1 ATTTAA-A-TTTATTAA-AATATAAA
215622 AT
1 AT
215624 ATATATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.07
21 13 0.32
22 1 0.02
23 7 0.17
24 1 0.02
25 4 0.10
26 12 0.29
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAAATTTATTAAAATATAAA
Found at i:215850 original size:10 final size:10
Alignment explanation
Indices: 215835--215859 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
215825 TATTTAATTT
215835 TTTAATTAAA
1 TTTAATTAAA
215845 TTTAATTAAA
1 TTTAATTAAA
215855 TTTAA
1 TTTAA
215860 ATTGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAATTAAA
Found at i:215913 original size:35 final size:35
Alignment explanation
Indices: 215873--215942 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
215863 GATTTAAAAA
* * *
215873 TTTA-TTTTATTATTTATAATAATATTAAAATATTT
1 TTTATTTTTA-TATTAATAATAATAATAAAAAATTT
*
215908 TTTATTTTTATATTAATATTAATAATAAAAAATTT
1 TTTATTTTTATATTAATAATAATAATAAAAAATTT
215943 AAAAATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
TTTATTTTTATATTAATAATAATAATAAAAAATTT
Found at i:215919 original size:29 final size:31
Alignment explanation
Indices: 215869--215934 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
215859 AATTGATTTA
215869 AAAAT-TTATTTTATTATTTATAATAATATT
1 AAAATATTATTTTATTATTTATAATAATATT
*
215899 AAAATATT-TTTTATT-TTTATATTAATATT
1 AAAATATTATTTTATTATTTATAATAATATT
215928 AATAATA
1 AA-AATA
215935 AAAAATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 15 0.45
30 16 0.48
31 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
AAAATATTATTTTATTATTTATAATAATATT
Found at i:216504 original size:18 final size:18
Alignment explanation
Indices: 216474--216512 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
216464 TAATTAATAA
216474 AAAATTATATTTAT-ATT
1 AAAATTATATTTATAATT
*
216491 AAAATATATTTTTATAATT
1 AAAAT-TATATTTATAATT
216510 AAA
1 AAA
216513 TTTAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 8 0.42
19 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAATTATATTTATAATT
Found at i:217926 original size:27 final size:29
Alignment explanation
Indices: 217896--217956 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
217886 ATTATTTTTG
*
217896 AAAATTTTAC-CTT-CACAACACACAAAT
1 AAAATTTTACTCTTAAACAACACACAAAT
217923 AAAATTTTACTCTTAAAACAACACACAAAT
1 AAAATTTTACTCTT-AAACAACACACAAAT
217953 AAAA
1 AAAA
217957 AATATTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 10 0.33
28 3 0.10
30 17 0.57
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (29 bp):
AAAATTTTACTCTTAAACAACACACAAAT
Found at i:218293 original size:23 final size:23
Alignment explanation
Indices: 218257--218303 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
218247 TATATTAATA
218257 TTTATAATTAAAATAATAATTTT
1 TTTATAATTAAAATAATAATTTT
* *
218280 TTTATTATTTAAATAATAATTTT
1 TTTATAATTAAAATAATAATTTT
218303 T
1 T
218304 ACTGATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATAATTAAAATAATAATTTT
Found at i:218314 original size:22 final size:22
Alignment explanation
Indices: 218267--218315 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
218257 TTTATAATTA
* *
218267 AAATAATAATTTTTTTATTATTT
1 AAATAATAA-TTTTTTATGATCT
218290 AAATAATAA-TTTTTACTGATCT
1 AAATAATAATTTTTTA-TGATCT
218312 AAAT
1 AAAT
218316 TACAAAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
AAATAATAATTTTTTATGATCT
Found at i:218432 original size:21 final size:19
Alignment explanation
Indices: 218408--218446 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
218398 ACAAAGATCT
218408 ATTTATATTAATATAAAATTA
1 ATTTA-ATT-ATATAAAATTA
*
218429 ATTTAATTTTATAAAATT
1 ATTTAATTATATAAAATT
218447 TTATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAATTATATAAAATTA
Found at i:219073 original size:13 final size:14
Alignment explanation
Indices: 219044--219082 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
219034 TAATTTATTT
219044 ATTAAATAATATAA
1 ATTAAATAATATAA
*
219058 ATTAAATTAT-TAA
1 ATTAAATAATATAA
219071 ATTAAAT-ATATA
1 ATTAAATAATATA
219083 TTTTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 12 0.52
14 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAATAATATAA
Found at i:219098 original size:24 final size:23
Alignment explanation
Indices: 219064--219138 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 23
219054 ATAAATTAAA
219064 TTATTAA-ATTAAATATATATTT
1 TTATTAATATTAAATATATATTT
*
219086 TTATTAATTATTAATTATAATTATTAT
1 TTATTAA-TATTAAATAT-A-TATT-T
*
219113 TTATTTAATAATAAAACTATATATTT
1 TTA-TTAAT-ATTAAA-TATATATTT
219139 AAATTTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
22 7 0.17
24 8 0.19
25 1 0.02
26 5 0.12
27 9 0.21
28 9 0.21
29 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATTAATATTAAATATATATTT
Found at i:219105 original size:48 final size:49
Alignment explanation
Indices: 218982--219105 Score: 109
Period size: 48 Copynumber: 2.7 Consensus size: 49
218972 TAATTGATAA
* **
218982 AAAT-TATTTTTTTATTAATT-TT-ATT-TATTTTAAATGATGAAATTT
1 AAATATATATTTTTATTAATTATTAATTATAAATTAAATGATGAAATTT
* * * * * *
219027 AAATATTTA-ATTTATTTATTAAATAA-TATAAATTAAATTATTAAA-TT
1 AAATATATATTTTTATTAATT-ATTAATTATAAATTAAATGATGAAATTT
219074 AAATATATATTTTTATTAATTATTAATTATAA
1 AAATATATATTTTTATTAATTATTAATTATAA
219106 TTATTATTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
45 13 0.22
46 2 0.03
47 16 0.27
48 28 0.47
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (49 bp):
AAATATATATTTTTATTAATTATTAATTATAAATTAAATGATGAAATTT
Found at i:219341 original size:30 final size:32
Alignment explanation
Indices: 219305--219380 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 32
219295 TTGAAAATTT
**
219305 ATTTATTTAT-TTATTTAAGTTAAT-TTAA-AA
1 ATTTATTTATATTA-TTAAAATAATATTAATAA
219335 ATTTATTT-TATTATTAAAATAATATTAATAA
1 ATTTATTTATATTATTAAAATAATATTAATAA
219366 ATTATATTTATATTA
1 ATT-TATTTATATTA
219381 ATATTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 9 0.23
30 15 0.38
31 5 0.13
32 5 0.13
33 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (32 bp):
ATTTATTTATATTATTAAAATAATATTAATAA
Found at i:219386 original size:12 final size:13
Alignment explanation
Indices: 219354--219394 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
219344 ATTATTAAAA
*
219354 TAATATTAATAAAT
1 TAATATTTAT-AAT
219368 T-ATATTTAT-AT
1 TAATATTTATAAT
219379 TAATATTTATAAT
1 TAATATTTATAAT
219392 TAA
1 TAA
219395 AATTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
11 3 0.12
12 8 0.33
13 12 0.50
14 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATATTTATAAT
Found at i:219436 original size:25 final size:24
Alignment explanation
Indices: 219346--219441 Score: 74
Period size: 24 Copynumber: 4.0 Consensus size: 24
219336 TTTATTTTAT
* *
219346 TATTAAAATAAT-ATTAATAAATTA
1 TATTTAAATAATAATTTAT-AATTA
*
219370 TATTTATATTAAT-ATTTATAATTA
1 TATTTA-AATAATAATTTATAATTA
* * *
219394 AAATTAAATAA-AATTTTATTATTA
1 TATTTAAATAATAA-TTTATAATTA
219418 TTATTTAAATAATAATTTA-AATTA
1 -TATTTAAATAATAATTTATAATTA
219442 AATTAATTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
23 5 0.09
24 27 0.47
25 23 0.40
26 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTTAAATAATAATTTATAATTA
Found at i:219453 original size:31 final size:31
Alignment explanation
Indices: 219426--219482 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 31
219416 TATTATTTAA
*
219426 ATAATAATTTA-AATTAAA-TTAATTTATTT
1 ATAAAAATTTATAATTAAATTTAATTTATTT
*
219455 ATAAAAATTTATATTTAAATTTAATTTA
1 ATAAAAATTTATAATTAAATTTAATTTA
219483 ATACAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 6 0.25
31 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
ATAAAAATTTATAATTAAATTTAATTTATTT
Found at i:219453 original size:37 final size:36
Alignment explanation
Indices: 219342--219453 Score: 90
Period size: 37 Copynumber: 3.1 Consensus size: 36
219332 AAAATTTATT
*
219342 TTATTATTAAAATAAT-ATT-AA-TAAATTATATTTATA
1 TTATTATTTAAATAATAATTAAATTAAATTA-A-TT-TA
* * *
219378 TTAATATTTATAATTAA-AATTAAATAAAATT-TTATTA
1 TTATTATTTA-AA-TAATAATTAAATTAAATTAAT-TTA
219415 TTATTATTTAAATAATAATTTAAATTAAATTAATTTA
1 TTATTATTTAAATAATAA-TTAAATTAAATTAATTTA
219452 TT
1 TT
219454 TATAAAAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
35 3 0.05
36 12 0.20
37 30 0.50
38 8 0.13
39 2 0.03
40 5 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
TTATTATTTAAATAATAATTAAATTAAATTAATTTA
Found at i:219574 original size:18 final size:18
Alignment explanation
Indices: 219553--219608 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 18
219543 ATATAATATA
219553 AATATATATTTTAAAATT
1 AATATATATTTTAAAATT
*
219571 AATATA-A-TAT-AAATT
1 AATATATATTTTAAAATT
* *
219586 ATTA-ATATATTAAAATT
1 AATATATATTTTAAAATT
219603 AATATA
1 AATATA
219609 AATATAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
14 1 0.03
15 9 0.31
16 3 0.10
17 9 0.31
18 7 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATATATTTTAAAATT
Found at i:219575 original size:16 final size:15
Alignment explanation
Indices: 219556--219608 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
219546 TAATATAAAT
219556 ATATATTTTAAAATTA
1 ATATA-TTTAAAATTA
*
219572 ATATAATATAAATTATTA
1 ATAT-ATTTAAA--ATTA
219590 ATATA-TTAAAATTA
1 ATATATTTAAAATTA
219604 ATATA
1 ATATA
219609 AATATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 9 0.28
16 13 0.41
17 2 0.06
18 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATTTAAAATTA
Found at i:219604 original size:32 final size:30
Alignment explanation
Indices: 219543--219647 Score: 106
Period size: 32 Copynumber: 3.4 Consensus size: 30
219533 TTATGATATG
*
219543 ATATAATATAAATA-TATATTTTAAAATTA
1 ATATAATATAAATATTATATATTAAAATTA
219572 ATATAATATAAATTATTAATATATTAAAATTA
1 ATATAATATAAA-TATT-ATATATTAAAATTA
* * *
219604 ATATAAATATAAAATATTTTA-AATAAAATAAA
1 ATAT-AATAT-AAATATTATATATTAAAAT-TA
219636 ATAATAATATAA
1 AT-ATAATATAA
219648 TTATAACGGT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
29 12 0.18
30 2 0.03
31 10 0.15
32 27 0.42
33 11 0.17
34 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
ATATAATATAAATATTATATATTAAAATTA
Found at i:219608 original size:14 final size:14
Alignment explanation
Indices: 219558--219608 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
219548 ATATAAATAT
*
219558 ATATTTTAAAATTA
1 ATATATTAAAATTA
219572 ATATAATATAAATTATTA
1 ATAT-AT-TAAA--ATTA
219590 ATATATTAAAATTA
1 ATATATTAAAATTA
219604 ATATA
1 ATATA
219609 AATATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 13 0.41
15 1 0.03
16 8 0.25
17 2 0.06
18 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTAAAATTA
Found at i:219613 original size:18 final size:17
Alignment explanation
Indices: 219564--219618 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
219554 ATATATATTT
219564 TAAAATTAATAT-AATA
1 TAAAATTAATATAAATA
219580 T-AAATT-AT-TAATATA
1 TAAAATTAATATAA-ATA
219595 TTAAAATTAATATAAATA
1 -TAAAATTAATATAAATA
219613 TAAAAT
1 TAAAAT
219619 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 3 0.09
15 8 0.24
16 2 0.06
17 11 0.33
18 5 0.15
19 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTAATATAAATA
Found at i:219619 original size:27 final size:26
Alignment explanation
Indices: 219568--219646 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
219558 ATATTTTAAA
* *
219568 ATTAATATAATATAAAT-TATTAATAT
1 ATTAAAATAATATAAATATA-AAATAT
219594 ATTAAAATTAATATAAATATAAAATAT
1 ATTAAAA-TAATATAAATATAAAATAT
* *
219621 -TTTAAATAAAATAAA-ATAATAATAT
1 ATTAAAATAATATAAATATAA-AATAT
219646 A
1 A
219647 ATTATAACGG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 4 0.09
25 13 0.29
26 11 0.24
27 15 0.33
28 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTAAAATAATATAAATATAAAATAT
Found at i:221102 original size:21 final size:21
Alignment explanation
Indices: 221057--221108 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
221047 AAAATATTAT
* *
221057 TTTATAATAATATTTATAAAT
1 TTTATAATTATATTTATAAAA
221078 TTTATAATTATATTTA-AATAA
1 TTTATAATTATATTTATAA-AA
*
221099 TTTATTATTA
1 TTTATAATTA
221109 AATAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTATAATTATATTTATAAAA
Found at i:221754 original size:2 final size:2
Alignment explanation
Indices: 221747--221790 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
221737 CTTTCTCTTG
221747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
221789 AT
1 AT
221791 TGCAGGTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:223702 original size:3 final size:3
Alignment explanation
Indices: 223694--223732 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
223684 TATAAAAACA
*
223694 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
223733 GAACATCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:225270 original size:16 final size:17
Alignment explanation
Indices: 225251--225293 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
225241 ATTTTTTATG
225251 ATTAAAAATTT-TAAAT
1 ATTAAAAATTTATAAAT
* *
225267 ATTAAATATTTATAACT
1 ATTAAAAATTTATAAAT
225284 -TTAAAAATTT
1 ATTAAAAATTT
225294 GTATTTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAAATTTATAAAT
Found at i:225346 original size:2 final size:2
Alignment explanation
Indices: 225339--225376 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
225329 TGTATGTAAT
* *
225339 TA TA TA TA TA TA TA TA TT TA TA TA T- TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
225377 TTTATTAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:225795 original size:20 final size:19
Alignment explanation
Indices: 225772--225809 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
225762 ATATTTTTTT
*
225772 ATTTTTATTAATAAAATTTA
1 ATTTTT-TTAAAAAAATTTA
225792 ATTTTTTTAAAAAAATTT
1 ATTTTTTTAAAAAAATTT
225810 CACTCATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTTTAAAAAAATTTA
Found at i:225955 original size:20 final size:22
Alignment explanation
Indices: 225930--225973 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
225920 ATTATATATG
225930 AATTTAAAT-A-TTATTATTTA
1 AATTTAAATAATTTATTATTTA
*
225950 AATTTAAATAATTTATTTTTTA
1 AATTTAAATAATTTATTATTTA
225972 AA
1 AA
225974 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTAAATAATTTATTATTTA
Found at i:226370 original size:17 final size:17
Alignment explanation
Indices: 226350--226382 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
226340 AATCCCTTAA
226350 AATTATATATA-TAAATT
1 AATTAT-TATACTAAATT
226367 AATTATTATACTAAAT
1 AATTATTATACTAAAT
226383 ACATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATTATACTAAATT
Found at i:227722 original size:31 final size:31
Alignment explanation
Indices: 227677--227737 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
227667 TTTATTTAAA
227677 TTTAATTATAAATATTAATATAAAAATAATT
1 TTTAATTATAAATATTAATATAAAAATAATT
* * * *
227708 TTTAATTTTTAATATTATTTTAAAAATAAT
1 TTTAATTATAAATATTAATATAAAAATAAT
227738 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTAATTATAAATATTAATATAAAAATAATT
Found at i:227934 original size:20 final size:21
Alignment explanation
Indices: 227897--227936 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
227887 TAAATTTAAT
*
227897 TATAAAATATATAAATAATAA
1 TATAAAATATAAAAATAATAA
227918 TATAAAA-ATAAAAATAATA
1 TATAAAATATAAAAATAATA
227937 TTTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
TATAAAATATAAAAATAATAA
Found at i:230246 original size:2 final size:2
Alignment explanation
Indices: 230239--230273 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
230229 ATCCTACACT
230239 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
230274 GCAAAACCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:230949 original size:16 final size:16
Alignment explanation
Indices: 230930--230960 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
230920 TATTTAAATG
*
230930 AATATTTTTTTATATA
1 AATATTTTTATATATA
230946 AATATTTTTATATAT
1 AATATTTTTATATAT
230961 TTAAAAGATT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATATTTTTATATATA
Found at i:231542 original size:20 final size:21
Alignment explanation
Indices: 231507--231545 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
231497 TTTTTTTACG
231507 TATATGAAAGATCATAACTCA
1 TATATGAAAGATCATAACTCA
*
231528 TATAT-AAATATCATAACT
1 TATATGAAAGATCATAACT
231546 TATTCTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (21 bp):
TATATGAAAGATCATAACTCA
Found at i:233195 original size:6 final size:6
Alignment explanation
Indices: 233154--233194 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
233144 GATCAGATGG
* *
233154 CTGAAC CTGAAC CTGAAC CTGTAC CTGAAC CTGAAA CTGAA
1 CTGAAC CTGAAC CTGAAC CTGAAC CTGAAC CTGAAC CTGAA
233195 AATGAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (6 bp):
CTGAAC
Found at i:233661 original size:25 final size:27
Alignment explanation
Indices: 233608--233658 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
233598 TCTTAATTTT
233608 AATTATATTT-TAT-ATAATATAAATGA
1 AATTATATTTATATAATAATATAAA-GA
*
233634 AATTATATTTATATAATAATTTAAA
1 AATTATATTTATATAATAATATAAA
233659 AATATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.45
27 3 0.14
28 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTATATTTATATAATAATATAAAGA
Found at i:233733 original size:23 final size:23
Alignment explanation
Indices: 233608--233733 Score: 82
Period size: 25 Copynumber: 5.3 Consensus size: 23
233598 TCTTAATTTT
*
233608 AATTATATTTTATATAATATAAATGA
1 AATTAT-TTTTATATAATA-ATAT-A
* *
233634 AATTATATTTATATAATAATTTA
1 AATTATTTTTATATAATAATATA
* *
233657 AA-AATATTTA-AT-ATAATAT-
1 AATTATTTTTATATAATAATATA
*
233676 -ATTATTATGTTATATTATATTATATA
1 AATTATT-T-TTATA-TA-ATAATATA
233702 CAATTATTTTTATATAATAATATA
1 -AATTATTTTTATATAATAATATA
*
233726 AATAATTT
1 AATTATTT
233734 ATGTTTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 7 0.09
21 5 0.06
22 8 0.10
23 11 0.14
24 9 0.11
25 19 0.24
26 11 0.14
27 1 0.01
28 6 0.08
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (23 bp):
AATTATTTTTATATAATAATATA
Found at i:236420 original size:22 final size:22
Alignment explanation
Indices: 236395--236439 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
236385 TATGTGTACG
236395 ACACAATTTTGGATATGAATAT
1 ACACAATTTTGGATATGAATAT
236417 ACACAATTTTGGATATGAATAT
1 ACACAATTTTGGATATGAATAT
236439 A
1 A
236440 GATATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
ACACAATTTTGGATATGAATAT
Found at i:243488 original size:16 final size:16
Alignment explanation
Indices: 243469--243499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
243459 AATATTTTTA
243469 AAAATTAATATTTAAC
1 AAAATTAATATTTAAC
*
243485 AAAATTTATATTTAA
1 AAAATTAATATTTAA
243500 ATCTCAATAT
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTAATATTTAAC
Found at i:243708 original size:22 final size:22
Alignment explanation
Indices: 243668--243730 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 22
243658 ATGTAATTAT
* *
243668 TTTTAAAATAAAATATTTAATAA
1 TTTTAAATTTAAAT-TTTAATAA
243691 TTTTAAATTTAAATTTTAATAA
1 TTTTAAATTTAAATTTTAATAA
*
243713 -TTAAAATTT--ATTTTAATA
1 TTTTAAATTTAAATTTTAATA
243731 TTCTCAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 9 0.24
21 8 0.22
22 8 0.22
23 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAATTTAAATTTTAATAA
Found at i:244021 original size:3 final size:3
Alignment explanation
Indices: 244013--244061 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
244003 TTTGCTTTAC
* * * *
244013 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
244061 T
1 T
244062 GTTTTCATTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:251610 original size:3 final size:3
Alignment explanation
Indices: 251602--251641 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
251592 TGACTTAAGT
251602 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
251642 GGATAATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:251938 original size:24 final size:22
Alignment explanation
Indices: 251893--251939 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
251883 TTAAAAAATT
**
251893 ATTTTTATAATAATATTTATAA
1 ATTTTTATAATAATATAAATAA
251915 ATTTTTATAATTAAATATAAATAA
1 ATTTTTATAA-T-AATATAAATAA
251939 A
1 A
251940 AATATTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTTTATAATAATATAAATAA
Found at i:254816 original size:3 final size:3
Alignment explanation
Indices: 254808--254847 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
254798 CCCATTTATG
254808 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
254848 ATTTTTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:255024 original size:17 final size:18
Alignment explanation
Indices: 254991--255025 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
254981 AATTAATTAA
254991 TAATTTATAAAAAAAATT
1 TAATTTATAAAAAAAATT
*
255009 TAATTTA-AATAAAAATT
1 TAATTTATAAAAAAAATT
255026 ATTTAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTTATAAAAAAAATT
Found at i:255274 original size:18 final size:16
Alignment explanation
Indices: 255234--255275 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
255224 CAATTTATTT
255234 TATTTTTAATTTGATA
1 TATTTTTAATTTGATA
*
255250 T-TTTTTAATGTTTATA
1 TATTTTTAAT-TTGATA
255266 TGATTTTTAA
1 T-ATTTTTAA
255276 ATTAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 7 0.32
18 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (16 bp):
TATTTTTAATTTGATA
Found at i:255291 original size:16 final size:17
Alignment explanation
Indices: 255270--255325 Score: 89
Period size: 16 Copynumber: 3.4 Consensus size: 17
255260 TTTATATGAT
255270 TTTTAAA-TTAAATTAA
1 TTTTAAATTTAAATTAA
255286 TTTTAAATTTAAATT-A
1 TTTTAAATTTAAATTAA
255302 TTTTAAATTTAAAATTAA
1 TTTTAAATTT-AAATTAA
255320 TTTTAA
1 TTTTAA
255326 TACGAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.49
17 12 0.32
18 7 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAATTTAAATTAA
Found at i:255296 original size:22 final size:22
Alignment explanation
Indices: 255271--255319 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
255261 TTATATGATT
*
255271 TTTAAATTAAATTAATTTTAAA
1 TTTAAATTAAATTAAATTTAAA
**
255293 TTTAAATTATTTTAAATTTAAA
1 TTTAAATTAAATTAAATTTAAA
*
255315 ATTAA
1 TTTAA
255320 TTTTAATACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTAAATTAAATTAAATTTAAA
Found at i:255433 original size:2 final size:2
Alignment explanation
Indices: 255426--255481 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
255416 CTGGGAATGT
255426 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
255467 TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
255482 TGGTATTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:255775 original size:22 final size:19
Alignment explanation
Indices: 255737--255785 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 19
255727 TTCACAATCT
255737 TATTAAAATATTATTTTTA
1 TATTAAAATATTATTTTTA
255756 TATTAATAATTATATATTTTTA
1 TATTAA-AA-TAT-TATTTTTA
255778 TAATTAAA
1 T-ATTAAA
255786 TTTAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 3 0.12
22 10 0.38
23 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAAAATATTATTTTTA
Found at i:256425 original size:15 final size:15
Alignment explanation
Indices: 256405--256437 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
256395 TTTATTTTAA
*
256405 TAATTAATAATAAAT
1 TAATTAATAAAAAAT
256420 TAATTAATAAAAAAT
1 TAATTAATAAAAAAT
256435 TAA
1 TAA
256438 AAAATTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATTAATAAAAAAT
Found at i:256695 original size:31 final size:31
Alignment explanation
Indices: 256660--256733 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
256650 AATCATGTTG
* *
256660 AGTGACAAAATTGAATTAAAAGTCAAAG-TTA
1 AGTGACAAAATT-AATAAAAAATCAAAGTTTA
*
256691 AGTGAAAAAAATTAATAAAAAATCAAAGTTTA
1 AGTG-ACAAAATTAATAAAAAATCAAAGTTTA
*
256723 A-TCACAAAATT
1 AGTGACAAAATT
256734 TAATCAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.19
31 18 0.50
32 11 0.31
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.26
Consensus pattern (31 bp):
AGTGACAAAATTAATAAAAAATCAAAGTTTA
Found at i:256971 original size:2 final size:2
Alignment explanation
Indices: 256964--257013 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
256954 ATCATCAATT
256964 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
257006 TA TA TA TA
1 TA TA TA TA
257014 AGGTTATGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:257448 original size:28 final size:27
Alignment explanation
Indices: 257391--257450 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
257381 TAATTAACTC
* *
257391 AAATTTTTATTTAATTTTAAAACATAA
1 AAATTTTTATTTAATATTAAAAAATAA
257418 AAATTTATT-TTTATATATTAAAAAATTAA
1 AAATTT-TTATTTA-ATATTAAAAAA-TAA
257447 AAAT
1 AAAT
257451 AAAAGTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 10 0.36
28 11 0.39
29 7 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTTTTATTTAATATTAAAAAATAA
Found at i:257664 original size:3 final size:3
Alignment explanation
Indices: 257656--257702 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
257646 GATTCATTAG
257656 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
257703 GTCAATGACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:259868 original size:11 final size:11
Alignment explanation
Indices: 259854--259895 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
259844 ACTTTTTCTT
*
259854 ATTTTTTATTA
1 ATTTTTAATTA
259865 ATTTTTAATATA
1 ATTTTTAAT-TA
259877 A-TTTTAATTA
1 ATTTTTAATTA
*
259887 TTTTTTAAT
1 ATTTTTAAT
259896 AAATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.07
11 22 0.81
12 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTAATTA
Found at i:259966 original size:14 final size:14
Alignment explanation
Indices: 259947--259985 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
259937 TAAATACAAC
*
259947 TTTTAATAATTTAT
1 TTTTAATAATTTAA
*
259961 TTTTAAT-ATATAA
1 TTTTAATAATTTAA
259974 TTTTAATAATTT
1 TTTTAATAATTT
259986 GTAATTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAATAATTTAA
Found at i:260060 original size:69 final size:69
Alignment explanation
Indices: 259968--260121 Score: 181
Period size: 69 Copynumber: 2.2 Consensus size: 69
259958 TATTTTTAAT
* *
259968 ATATAATTTTAATAATTTGT-A-ATTATTTAAC-ATAAATATCATTTTAATTTAATTTTATTATT
1 ATATAATTTTAATAAATTGTAATATTATTTAACAAT-AATAT-AATTT--TTTAATTTTATTATT
260030 TAATATAA
62 TAATATAA
* *
260038 ATATAATTTTAATAAATT-TAATTATTATTTAACAATAATATAATTTTTTATTTTTATTATTTTA
1 ATATAATTTTAATAAATTGTAA-TATTATTTAACAATAATATAATTTTTTAATTTTATTATTTAA
260102 TATAA
65 TATAA
* *
260107 GTATAAATTTAATAA
1 ATATAATTTTAATAA
260122 TTATATATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
69 35 0.47
70 18 0.24
71 4 0.05
72 15 0.20
73 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (69 bp):
ATATAATTTTAATAAATTGTAATATTATTTAACAATAATATAATTTTTTAATTTTATTATTTAAT
ATAA
Found at i:260078 original size:37 final size:34
Alignment explanation
Indices: 259968--260123 Score: 149
Period size: 35 Copynumber: 4.5 Consensus size: 34
259958 TATTTTTAAT
*
259968 ATATAATTTTAATAATTTGTAATTATTTAACATAA
1 ATATAATTTTAATAATTT-TTATTATTTAACATAA
* *
260003 ATATCATTTTAATTTAA-TTTTATTATTTAATATAA
1 ATATAATTTTAA--TAATTTTTATTATTTAACATAA
260038 ATATAATTTTAATAAATTTAATTATTATTTAACA-ATA
1 ATATAATTTTAAT-AATTT--TTATTATTTAACATA-A
* * *
260075 ATATAATTTT--TTATTTTTATTATTTTATATAA
1 ATATAATTTTAATAATTTTTATTATTTAACATAA
* *
260107 GTATAAATTTAATAATT
1 ATATAATTTTAATAATT
260124 ATATATATAA
Statistics
Matches: 100, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
32 20 0.20
33 2 0.02
34 10 0.10
35 39 0.39
36 3 0.03
37 26 0.26
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (34 bp):
ATATAATTTTAATAATTTTTATTATTTAACATAA
Found at i:262169 original size:19 final size:18
Alignment explanation
Indices: 262138--262180 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
262128 TTTAAAATTG
*
262138 GTTTTTACTATTTTTTAA
1 GTTTTTAATATTTTTTAA
262156 GTTTTTAATAATTTTTTAA
1 GTTTTTAAT-ATTTTTTAA
*
262175 ATTTTT
1 GTTTTT
262181 TATCAGTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (18 bp):
GTTTTTAATATTTTTTAA
Found at i:262582 original size:14 final size:15
Alignment explanation
Indices: 262563--262591 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
262553 TTTAAATAAT
262563 ATTTTATAT-TCTTA
1 ATTTTATATATCTTA
262577 ATTTTATATATCTTA
1 ATTTTATATATCTTA
262592 TAATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTATATATCTTA
Found at i:265862 original size:25 final size:25
Alignment explanation
Indices: 265809--265865 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
265799 TGTTTATTTT
*
265809 TAAAT-TTTTTATATATTTAAAAAG
1 TAAATATTTTAATATATTTAAAAAG
*
265833 T-AATATTTTAATATATATTAAATA-
1 TAAATATTTTAATATAT-TTAAAAAG
265857 TAAATATTT
1 TAAATATTT
265866 AAAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 3 0.11
24 12 0.43
25 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TAAATATTTTAATATATTTAAAAAG
Found at i:265866 original size:24 final size:24
Alignment explanation
Indices: 265809--265867 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
265799 TGTTTATTTT
* *
265809 TAAATTTTTTATATATTTAAAAAG
1 TAAATATTTAATATATTTAAAAAG
*
265833 T-AATATTTTAATATATATTAAATA-
1 TAAATA-TTTAATATAT-TTAAAAAG
265857 TAAATATTTAA
1 TAAATATTTAA
265868 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.10
24 16 0.55
25 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TAAATATTTAATATATTTAAAAAG
Found at i:268513 original size:34 final size:33
Alignment explanation
Indices: 268462--268527 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
268452 ATATGAGTAT
* *
268462 ATATATTTTAAAATTTATATAATATAAATTATTA
1 ATATATTTTAAAATTTATA-AATAAAAAATATTA
*
268496 ATATA-TTTAAATTTTTATAAATAAAAAATATT
1 ATATATTTTAAA-ATTTATAAATAAAAAATATT
268528 TTAAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 17 0.61
34 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
ATATATTTTAAAATTTATAAATAAAAAATATTA
Done.