Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold103
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: 2633873
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 16636 characters in sequence are not A, C, G, or T
File 14 of 21
Found at i:1541416 original size:6 final size:6
Alignment explanation
Indices: 1541400--1541433 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1541390 AATCGTCAAA
*
1541400 TTAAA- TTAAAT TTAAAT TTAAAC TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
1541434 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:1541426 original size:18 final size:17
Alignment explanation
Indices: 1541400--1541433 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
1541390 AATCGTCAAA
1541400 TTAAATTAAATTTAAAT
1 TTAAATTAAATTTAAAT
1541417 TTAAACTTAAATTTAAA
1 TTAAA-TTAAATTTAAA
1541434 AATTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTAAATTTAAAT
Found at i:1542645 original size:37 final size:37
Alignment explanation
Indices: 1542582--1542655 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
1542572 ATAATTTAAA
* **
1542582 TTAAATTAAATTTATTTATTTTTATAAAAAAATTATT
1 TTAAATTAAATTTATATATTAATATAAAAAAATTATT
* *
1542619 TTAAATTAAATATTA-ATATTAATATAAATAATTTATT
1 TTAAATTAAAT-TTATATATTAATATAAAAAAATTATT
1542656 AATATTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (37 bp):
TTAAATTAAATTTATATATTAATATAAAAAAATTATT
Found at i:1542669 original size:23 final size:22
Alignment explanation
Indices: 1542613--1542671 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
1542603 TTATAAAAAA
1542613 ATTATTTTAAATTAAATATTAAT
1 ATTATTTTAAA-TAAATATTAAT
* * *
1542636 ATTAATATAAATAATTTATTAAT
1 ATTATTTTAAATAA-ATATTAAT
1542659 ATTATTTTAAATA
1 ATTATTTTAAATA
1542672 GTATTATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.10
23 27 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATTTTAAATAAATATTAAT
Found at i:1542905 original size:21 final size:22
Alignment explanation
Indices: 1542881--1542928 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
1542871 TATCTTTTAC
*
1542881 TAAATGGATATTAATGTA-TTT
1 TAAATGAATATTAATGTATTTT
1542902 TAAATGAATATTAATGTATTTT
1 TAAATGAATATTAATGTATTTT
1542924 TAAAT
1 TAAAT
1542929 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
TAAATGAATATTAATGTATTTT
Found at i:1543242 original size:3 final size:3
Alignment explanation
Indices: 1543234--1543276 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1543224 AATGTCTTTT
1543234 TTA 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 TTA T
1543277 ATTTGTTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1543497 original size:22 final size:21
Alignment explanation
Indices: 1543472--1543513 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1543462 TATTAAAAAA
* *
1543472 ATATTTTTATATTAATATTTAT
1 ATATTTTAAAATTAA-ATTTAT
1543494 ATATTTTAAAATTAAATTTA
1 ATATTTTAAAATTAAATTTA
1543514 AATAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTAAAATTAAATTTAT
Found at i:1543923 original size:11 final size:11
Alignment explanation
Indices: 1543896--1543959 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
1543886 ATCAAAATTG
1543896 ATATAAATATAA
1 ATAT-AATATAA
*
1543908 A-ATAATTTAA
1 ATATAATATAA
1543918 ATATAAT-TATA
1 ATATAATATA-A
1543929 ATAT-A-ATAA
1 ATATAATATAA
1543938 A-AT-ATATAA
1 ATATAATATAA
1543947 ATATAATATAA
1 ATATAATATAA
1543958 AT
1 AT
1543960 TATTAAATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
8 3 0.07
9 7 0.16
10 14 0.31
11 20 0.44
12 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATAATATAA
Found at i:1543935 original size:5 final size:5
Alignment explanation
Indices: 1543896--1543957 Score: 56
Period size: 5 Copynumber: 12.2 Consensus size: 5
1543886 ATCAAAATTG
* * *
1543896 ATATAA ATATA AAATA ATTTAA ATATA ATTATA ATATA ATAAA ATAT-
1 ATAT-A ATATA ATATA ATAT-A ATATA A-TATA ATATA ATATA ATATA
1543943 ATA-A ATATA ATATA A
1 ATATA ATATA ATATA A
1543958 ATTATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
4 6 0.13
5 27 0.59
6 13 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:1544258 original size:22 final size:22
Alignment explanation
Indices: 1544232--1544273 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1544222 ATTTTTTATT
* * *
1544232 TAAATTTTATTATTAAAATATA
1 TAAATATTAATATAAAAATATA
1544254 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
1544274 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:1544309 original size:44 final size:48
Alignment explanation
Indices: 1544210--1544311 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 48
1544200 TTTATTAATT
* * *
1544210 TAATTTAAAAATATTTTTTATTTAAATTTTATTATTAAAATATATAAATAT
1 TAATATAAAAATAATTTTTA--TAAATTTTATTATT-AAATATATAAATAA
1544261 TAATATAAAAATAATTTTTA-AAATTTT-TTATT-AAT-TATAAATAA
1 TAATATAAAAATAATTTTTATAAATTTTATTATTAAATATATAAATAA
1544305 TAATATA
1 TAATATA
1544312 TGGATAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 15 0.31
45 3 0.06
47 5 0.10
48 7 0.15
51 18 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (48 bp):
TAATATAAAAATAATTTTTATAAATTTTATTATTAAATATATAAATAA
Found at i:1545915 original size:29 final size:28
Alignment explanation
Indices: 1545846--1545927 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
1545836 TAAGTTGTTG
*
1545846 ATTTAATTTAATAAATTTTATTTATATTAA
1 ATTTAA-TTAAAAAATTTT-TTTATATTAA
* *
1545876 ATTAAAATAAACATAATTTTTTTAT-TTAA
1 ATTTAATTAAA-A-AATTTTTTTATATTAA
1545905 ATTTAATTAAAAAATATTTTTTA
1 ATTTAATTAAAAAAT-TTTTTTA
1545928 AATATTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.07
28 8 0.18
29 16 0.36
30 11 0.25
31 6 0.14
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTAATTAAAAAATTTTTTTATATTAA
Found at i:1545926 original size:30 final size:30
Alignment explanation
Indices: 1545846--1545926 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
1545836 TAAGTTGTTG
* *
1545846 ATTTAATTTAATAA-ATTTTATTTATATTAA
1 ATTTAA-TTAAAAATATTTTTTTTATATTAA
* * * *
1545876 ATTAAAATAAACATAATTTTTTTAT-TTAA
1 ATTTAATTAAAAATATTTTTTTTATATTAA
1545905 ATTTAATTAAAAAATATTTTTT
1 ATTTAATT-AAAAATATTTTTT
1545927 AAATATTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
29 14 0.36
30 25 0.64
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTTAATTAAAAATATTTTTTTTATATTAA
Found at i:1546212 original size:11 final size:13
Alignment explanation
Indices: 1546196--1546227 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1546186 ATATCTATAT
1546196 TTAAATAT-AC-A
1 TTAAATATGACTA
1546207 TTAAATATGACTA
1 TTAAATATGACTA
1546220 TTAAATAT
1 TTAAATAT
1546228 TAATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 2 0.11
13 9 0.47
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (13 bp):
TTAAATATGACTA
Found at i:1546964 original size:17 final size:16
Alignment explanation
Indices: 1546937--1546981 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
1546927 TTTAATGTTC
1546937 ATATTCTATATAAATAT
1 ATATT-TATATAAATAT
*
1546954 ATATTTAATATATATAT
1 ATATTT-ATATAAATAT
1546971 ATATTTATATA
1 ATATTTATATA
1546982 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTTATATAAATAT
Found at i:1546983 original size:8 final size:8
Alignment explanation
Indices: 1546937--1547010 Score: 60
Period size: 8 Copynumber: 8.9 Consensus size: 8
1546927 TTTAATGTTC
1546937 ATATTCTAT
1 ATATT-TAT
**
1546946 ATAAATAT
1 ATATTTAT
1546954 ATATTTAAT
1 ATATTT-AT
*
1546963 ATATATAT
1 ATATTTAT
1546971 ATATTTAT
1 ATATTTAT
1546979 ATATTTA-
1 ATATTTAT
* *
1546986 ATTTTTAAA
1 ATATTT-AT
1546995 ATTATTTAT
1 A-TATTTAT
1547004 ATATTTA
1 ATATTTA
1547011 AAAAAAATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
7 5 0.10
8 30 0.58
9 13 0.25
10 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (8 bp):
ATATTTAT
Found at i:1547002 original size:17 final size:18
Alignment explanation
Indices: 1546951--1547013 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 18
1546941 TCTATATAAA
* *
1546951 TATATATTTAATA-TATA
1 TATATATTTAAAATTATT
*
1546968 TATATATTT-ATA-TATT
1 TATATATTTAAAATTATT
*
1546984 TA-ATTTTTAAAATTATT
1 TATATATTTAAAATTATT
1547001 TATATATTTAAAA
1 TATATATTTAAAA
1547014 AAAATTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 5 0.13
16 10 0.26
17 15 0.38
18 9 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTAAAATTATT
Found at i:1548139 original size:17 final size:18
Alignment explanation
Indices: 1548098--1548151 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
1548088 AATATGAGTT
* **
1548098 TTTATTTAATATAATTATG
1 TTTATTT-ATATATTTAAA
*
1548117 TTTATTT-TTTATTTAAA
1 TTTATTTATATATTTAAA
1548134 TTTATTTATATATTTAAA
1 TTTATTTATATATTTAAA
1548152 AAATTATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 13 0.45
18 9 0.31
19 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTATTTATATATTTAAA
Found at i:1548823 original size:20 final size:21
Alignment explanation
Indices: 1548800--1548866 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 21
1548790 AAATTTTTTA
*
1548800 TTTAAATT-TAATTTGAAAAT
1 TTTAAATTATAATTTAAAAAT
*
1548820 TTT-AATTATTATTTAAAAAT
1 TTTAAATTATAATTTAAAAAT
* *
1548840 TATTAAAATATTATTTATTAAAAT
1 T-TTAAATTATAATTTA--AAAAT
1548864 TTT
1 TTT
1548867 GTTTTAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.10
20 14 0.36
21 2 0.05
22 11 0.28
23 2 0.05
24 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
TTTAAATTATAATTTAAAAAT
Found at i:1554643 original size:27 final size:26
Alignment explanation
Indices: 1554611--1554700 Score: 110
Period size: 28 Copynumber: 3.4 Consensus size: 26
1554601 CACCTATTTG
*
1554611 TTTGTCAAAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTT-TTTTGTA
1554638 TTTGTCAAAAATGGTGGTTTCCTTTGTA
1 TTTGTCAAAAATGGTGGTTT--TTTGTA
* * *
1554666 TTTGTCAAATATGGAGGTTTGTT-TA
1 TTTGTCAAAAATGGTGGTTTTTTGTA
1554691 TTTGTCAAAA
1 TTTGTCAAAA
1554701 TTTGTGGCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
25 11 0.20
26 3 0.05
27 19 0.34
28 23 0.41
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (26 bp):
TTTGTCAAAAATGGTGGTTTTTTGTA
Found at i:1559238 original size:28 final size:27
Alignment explanation
Indices: 1559183--1559253 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
1559173 GCCACCCATT
1559183 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
1559210 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
1559238 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
1559254 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:1560017 original size:33 final size:33
Alignment explanation
Indices: 1559979--1560041 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
1559969 ACTCAATATA
1559979 GTAGTGATAATAATACTTTAAAATATTATTATC
1 GTAGTGATAATAATACTTTAAAATATTATTATC
* * *
1560012 GTAGTGATATTAATATTTTAAAGTATTATT
1 GTAGTGATAATAATACTTTAAAATATTATT
1560042 TTAAATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (33 bp):
GTAGTGATAATAATACTTTAAAATATTATTATC
Found at i:1560725 original size:31 final size:31
Alignment explanation
Indices: 1560666--1560722 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
1560656 TCGATTCGGA
1560666 TTTAAAATAAATAATATATAATATTATAATT
1 TTTAAAATAAATAATATATAATATTATAATT
1560697 TTTAAAA-AAATAA-AT-TAAATATTATA
1 TTTAAAATAAATAATATAT-AATATTATA
1560723 TAACTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 1 0.04
29 11 0.44
30 6 0.24
31 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTAAAATAAATAATATATAATATTATAATT
Found at i:1560892 original size:18 final size:17
Alignment explanation
Indices: 1560866--1560900 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1560856 TATAATATAA
1560866 AAAATTAAAAATTAATT
1 AAAATTAAAAATTAATT
*
1560883 AAAATATAAAATTTAATT
1 AAAAT-TAAAAATTAATT
1560901 CGTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTAAAAATTAATT
Found at i:1561012 original size:16 final size:16
Alignment explanation
Indices: 1560991--1561028 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1560981 ATTTAAAATT
1560991 AACCAAAATC-AAACTA
1 AACCAAAATCGAAAC-A
1561007 AACC-AAATCGAAACA
1 AACCAAAATCGAAACA
1561022 AACCAAA
1 AACCAAA
1561029 CATTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.63, C:0.26, G:0.03, T:0.08
Consensus pattern (16 bp):
AACCAAAATCGAAACA
Found at i:1563293 original size:34 final size:34
Alignment explanation
Indices: 1563255--1563414 Score: 223
Period size: 34 Copynumber: 4.7 Consensus size: 34
1563245 ATTGGTGAGT
* *
1563255 CCAAATCACCCATTTAATCAATAATGGTAAGCTA
1 CCAAATCACCCATTTAATCAACAATGGTAAACTA
** * *
1563289 CCAAATTTCTCATTTAATCAACAATGGTAAGCTA
1 CCAAATCACCCATTTAATCAACAATGGTAAACTA
* * * *
1563323 CCAAATCTCCCATTTAGTCAACAATGGCAAACCA
1 CCAAATCACCCATTTAATCAACAATGGTAAACTA
1563357 CCAAATCACCCATTTAATCAACAATGGTAAACTA
1 CCAAATCACCCATTTAATCAACAATGGTAAACTA
1563391 CCAAATCA-CCATTTAATCAACAAT
1 CCAAATCACCCATTTAATCAACAAT
1563415 TCTCTCACTT
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 16 0.14
34 96 0.86
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (34 bp):
CCAAATCACCCATTTAATCAACAATGGTAAACTA
Found at i:1565415 original size:20 final size:20
Alignment explanation
Indices: 1565390--1565455 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1565380 TTTCAATGAT
1565390 TTGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
1565410 TTGTATCGATAC----AA--
1 TTGTATCGATACATAAAATG
1565424 -TGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
1565443 TTGTATCGATACA
1 TTGTATCGATACA
1565456 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAATG
Found at i:1565428 original size:33 final size:33
Alignment explanation
Indices: 1565391--1565469 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
1565381 TTCAATGATT
1565391 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1565424 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1565457 TGTATCGATACAT
1 TGTATCGATACAT
1565470 TTTTTTTGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1565429 original size:13 final size:13
Alignment explanation
Indices: 1565411--1565468 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
1565401 CATAAAATGT
1565411 TGTATCGATACAA
1 TGTATCGATACAA
1565424 TGTATCGATACATAAAA
1 TGTATCGATAC----AA
1565441 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
1565457 TGTATCGATACA
1 TGTATCGATACA
1565469 TTTTTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1565548 original size:13 final size:13
Alignment explanation
Indices: 1565530--1565554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1565520 ATTACTCAAA
1565530 TGTATCGATACAT
1 TGTATCGATACAT
1565543 TGTATCGATACA
1 TGTATCGATACA
1565555 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1565605 original size:51 final size:49
Alignment explanation
Indices: 1565543--1565686 Score: 189
Period size: 52 Copynumber: 2.8 Consensus size: 49
1565533 ATCGATACAT
*
1565543 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAATTTGCCCAGA
* *
1565594 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGC-AATTTGCCCAGA
*
1565646 TGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
1565687 CTTTTCATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
50 2 0.02
51 34 0.41
52 46 0.56
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (49 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAATTTGCCCAGA
Found at i:1565656 original size:52 final size:52
Alignment explanation
Indices: 1565563--1565686 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1565553 CACTGATCTT
*
1565563 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1565614 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1565666 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1565687 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1571545 original size:34 final size:33
Alignment explanation
Indices: 1571500--1571717 Score: 229
Period size: 34 Copynumber: 6.5 Consensus size: 33
1571490 TAAAAACCAT
** *
1571500 CATTTAATCAACAATGACAACCTACCAAATCTAC
1 CATTTAATCAACAATGGTAAACTACCAAATC-AC
* * *
1571534 CATTTAGTCAACAATGGTAAGCCACCAAATCACC
1 CATTTAATCAACAATGGTAAACTACCAAATCA-C
* * * **
1571568 CATTTAATCAATAATGGTAAGCAACCAAATTTC
1 CATTTAATCAACAATGGTAAACTACCAAATCAC
* * *
1571601 TCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 -CATTTAATCAACAATGGTAAACTACCAAATCAC
* * **
1571635 TCATTTAGTTAACAATGACAAACTACCAAATCACC
1 -CATTTAATCAACAATGGTAAACTACCAAATCA-C
1571670 CATTTAATCAACAATGGTAAACTACCAAATCAC
1 CATTTAATCAACAATGGTAAACTACCAAATCAC
1571703 CATTTAATCAACAAT
1 CATTTAATCAACAAT
1571718 TAGGAAACCC
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
33 18 0.11
34 139 0.88
35 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (33 bp):
CATTTAATCAACAATGGTAAACTACCAAATCAC
Found at i:1571641 original size:102 final size:102
Alignment explanation
Indices: 1571499--1571717 Score: 289
Period size: 102 Copynumber: 2.2 Consensus size: 102
1571489 GTAAAAACCA
** *
1571499 TCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 TCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAAAT
* * **
1571564 CACCCATTTAATCAATAATGGTAAGCAACCAAATTTC
66 CACCCATTTAATCAACAATGGTAAACAACCAAATCAC
* ** * * *
1571601 TCATTTAATCAATAATGGTAAGCTACCAAATCT-CTCATTTAGTTAACAATGACAAACTACCAAA
1 TCATTTAATCAACAATGACAACCTACCAAATCTAC-CATTTAGTCAACAATGACAAACCACCAAA
*
1571665 TCACCCATTTAATCAACAATGGTAAACTACCAAATCAC
65 TCACCCATTTAATCAACAATGGTAAACAACCAAATCAC
1571703 -CATTTAATCAACAAT
1 TCATTTAATCAACAAT
1571718 TAGGAAACCC
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
101 15 0.15
102 86 0.85
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (102 bp):
TCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAAAT
CACCCATTTAATCAACAATGGTAAACAACCAAATCAC
Found at i:1574339 original size:19 final size:20
Alignment explanation
Indices: 1574301--1574340 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1574291 TTATTATTTA
1574301 AAAATTAATATATAATTAAT
1 AAAATTAATATATAATTAAT
* *
1574321 AAAATTATTTTAT-ATTAAT
1 AAAATTAATATATAATTAAT
1574340 A
1 A
1574341 TTTATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATTAATATATAATTAAT
Found at i:1575019 original size:2 final size:2
Alignment explanation
Indices: 1575006--1575042 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
1574996 GAAATTCTAA
*
1575006 AT AT AA AT AT AT AT AT AT AT AT AT AT A- 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
1575043 GTTAATGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1575704 original size:23 final size:20
Alignment explanation
Indices: 1575678--1575721 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 20
1575668 TAGAGAGCAG
1575678 AAATTTATAATTAATAATTATTA
1 AAATTT-TAATTAA-AATT-TTA
*
1575701 AAATTTTTATTAAAATTTTA
1 AAATTTTAATTAAAATTTTA
1575721 A
1 A
1575722 TAAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 4 0.20
22 6 0.30
23 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTTTAATTAAAATTTTA
Found at i:1575712 original size:12 final size:12
Alignment explanation
Indices: 1575695--1575719 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1575685 TAATTAATAA
1575695 TTATTAAAATTT
1 TTATTAAAATTT
1575707 TTATTAAAATTT
1 TTATTAAAATTT
1575719 T
1 T
1575720 AATAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTAAAATTT
Found at i:1579266 original size:12 final size:13
Alignment explanation
Indices: 1579249--1579282 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1579239 AAGCTCCTTC
1579249 ATTCCTCTCATG-
1 ATTCCTCTCATGT
1579261 ATTCCTCTCATGT
1 ATTCCTCTCATGT
*
1579274 ATCCCTCTC
1 ATTCCTCTC
1579283 CAATTCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.15, C:0.38, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTCCTCTCATGT
Found at i:1581758 original size:21 final size:22
Alignment explanation
Indices: 1581729--1581774 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1581719 TGTTCAGACA
** *
1581729 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1581751 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1581772 AGT
1 AGT
1581775 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:1584318 original size:15 final size:15
Alignment explanation
Indices: 1584298--1584331 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1584288 TGATACATTA
1584298 ATTATAATAATATTT
1 ATTATAATAATATTT
1584313 ATTATAATAATATTT
1 ATTATAATAATATTT
1584328 ATTA
1 ATTA
1584332 CGTCGACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATAATAATATTT
Found at i:1586288 original size:12 final size:12
Alignment explanation
Indices: 1586256--1586289 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1586246 TCAAATTTGT
1586256 TTATTATTTATA
1 TTATTATTTATA
**
1586268 TTAAAATTTATA
1 TTATTATTTATA
1586280 TTATTATTTA
1 TTATTATTTA
1586290 AATCTAAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:1586299 original size:24 final size:23
Alignment explanation
Indices: 1586242--1586297 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
1586232 AAATACTTTA
* *
1586242 AAATTCAAATTTGTTTATTATTT
1 AAATTAAAATTTATTTATTATTT
*
1586265 ATATTAAAATTTATATTATTATTT
1 AAATTAAAATTTAT-TTATTATTT
1586289 AAATCTAAA
1 AAAT-TAAA
1586298 TTAAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 11 0.41
24 12 0.44
25 4 0.15
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATTAAAATTTATTTATTATTT
Found at i:1588452 original size:20 final size:20
Alignment explanation
Indices: 1588427--1588466 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1588417 ATTAAAAAAT
1588427 TATTTTTAT-ATTAATATTTA
1 TATTTTTATAATTAA-ATTTA
1588447 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
1588467 AATAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTATAATTAAATTTA
Found at i:1589032 original size:19 final size:20
Alignment explanation
Indices: 1588991--1589033 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1588981 TAAAAAATAT
* **
1588991 AATATTTAAAAGATTTTTTA
1 AATATATAAAAGATTTTAAA
1589011 AATATATAAAA-ATTTTAAA
1 AATATATAAAAGATTTTAAA
1589030 AATA
1 AATA
1589034 ATTTAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AATATATAAAAGATTTTAAA
Found at i:1590214 original size:17 final size:16
Alignment explanation
Indices: 1590181--1590234 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
1590171 TATTTAAAAT
1590181 ATTTTATATATATATA
1 ATTTTATATATATATA
1590197 ATTTTA-ATATAT-TA
1 ATTTTATATATATATA
*
1590211 ATAATCTATAT-TATATAA
1 AT--TTTATATATATAT-A
1590229 ATTTTA
1 ATTTTA
1590235 AAAATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 4 0.13
15 6 0.19
16 15 0.48
17 3 0.10
18 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTATATATATATA
Found at i:1590605 original size:21 final size:20
Alignment explanation
Indices: 1590552--1590606 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 20
1590542 AAATTTTATT
*
1590552 TAAAATAAAATATATTCAAA
1 TAAAATAAAATATACTCAAA
1590572 TAAAATAAAAAAATATTACTCAAA
1 TAAAAT---AAAATA-TACTCAAA
*
1590596 TACAATAAAAT
1 TAAAATAAAAT
1590607 TATAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 6 0.21
21 5 0.17
23 6 0.21
24 12 0.41
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAATAAAATATACTCAAA
Found at i:1590605 original size:23 final size:23
Alignment explanation
Indices: 1590558--1590605 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
1590548 TATTTAAAAT
*
1590558 AAAATATATTCAAATAAAATAAA
1 AAAATATACTCAAATAAAATAAA
*
1590581 AAAATATTACTCAAATACAATAAA
1 AAAATA-TACTCAAATAAAATAAA
1590605 A
1 A
1590606 TTATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAATATACTCAAATAAAATAAA
Found at i:1593193 original size:32 final size:31
Alignment explanation
Indices: 1593122--1593194 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
1593112 ATTAAAATTT
*
1593122 TTTAATAATTGTTAAATTTACGACTAATTATA
1 TTTAAT-ATTGTCAAATTTACGACTAATTATA
* * *
1593154 TTTAATATTCGTCAAATTTATGAGTAATTTTA
1 TTTAATATT-GTCAAATTTACGACTAATTATA
1593186 TTTAATATT
1 TTTAATATT
1593195 TATTAAGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 3 0.08
32 33 0.92
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTAATATTGTCAAATTTACGACTAATTATA
Found at i:1594025 original size:61 final size:62
Alignment explanation
Indices: 1593960--1594078 Score: 222
Period size: 61 Copynumber: 1.9 Consensus size: 62
1593950 ATTTATATAA
*
1593960 ATATATAATATCTTGAATATGATTATACTATAAAAAACG-TTTACAAATAAAGTTTAAATTG
1 ATATATAATATCTTGAATATAATTATACTATAAAAAACGTTTTACAAATAAAGTTTAAATTG
1594021 ATATATAATATCTTGAATATAATTATACTATAAAAAACGTTTTACAAATAAAGTTTAA
1 ATATATAATATCTTGAATATAATTATACTATAAAAAACGTTTTACAAATAAAGTTTAA
1594079 CAATTTAAGC
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 38 0.68
62 18 0.32
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (62 bp):
ATATATAATATCTTGAATATAATTATACTATAAAAAACGTTTTACAAATAAAGTTTAAATTG
Found at i:1597284 original size:18 final size:18
Alignment explanation
Indices: 1597263--1597304 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1597253 AAATTTCCTC
1597263 AATTTATTCAATTTGATT
1 AATTTATTCAATTTGATT
* *
1597281 AATTCATTTAATTTGATT
1 AATTTATTCAATTTGATT
1597299 AATTTA
1 AATTTA
1597305 ATTTAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (18 bp):
AATTTATTCAATTTGATT
Found at i:1597330 original size:26 final size:25
Alignment explanation
Indices: 1597286--1597341 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
1597276 TGATTAATTC
1597286 ATTTAATTTGATTAATTTAATTTAA
1 ATTTAATTTGATTAATTTAATTTAA
1597311 ATTTAATATTG-TATAATTTAATTTAA
1 ATTTAAT-TTGAT-TAATTTAATTTAA
1597337 ATTTA
1 ATTTA
1597342 TATAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTAATTTGATTAATTTAATTTAA
Found at i:1597345 original size:20 final size:21
Alignment explanation
Indices: 1597303--1597374 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 21
1597293 TTGATTAATT
*
1597303 TAATTTAAATTTAATATTGTA
1 TAATTTAAATTTAATATTATA
1597324 TAATTT-AATTTAA-ATTTATA
1 TAATTTAAATTTAATA-TTATA
*
1597344 TAA--TAAA-ATAATATT-T-
1 TAATTTAAATTTAATATTATA
*
1597360 TTATTTAAATTTAAT
1 TAATTTAAATTTAAT
1597375 TATAACAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
16 2 0.05
17 1 0.02
18 10 0.24
19 8 0.20
20 14 0.34
21 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (21 bp):
TAATTTAAATTTAATATTATA
Found at i:1597480 original size:7 final size:6
Alignment explanation
Indices: 1597441--1597479 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
1597431 TTAGATCAAA
*
1597441 TTAAAT TTAGAT TTAAAT TTAAAT TTAAATT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAAAT TT
1597480 TTCGAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:1597794 original size:2 final size:2
Alignment explanation
Indices: 1597776--1597810 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
1597766 ATGATCGTAA
*
1597776 AT AT GAT AT AC 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
1597811 GGATGATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1599901 original size:22 final size:24
Alignment explanation
Indices: 1599860--1599903 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
1599850 ATTATTTAAA
1599860 TTTTAATATCTATAATTTTTTTAT
1 TTTTAATATCTATAATTTTTTTAT
*
1599884 TTTTAA-AT-TATCATTTTTTT
1 TTTTAATATCTATAATTTTTTT
1599904 TGTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTAATATCTATAATTTTTTTAT
Found at i:1602312 original size:23 final size:23
Alignment explanation
Indices: 1602281--1602324 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1602271 TCGACTCATT
1602281 AATAAATCTATTAAAAAATATAA
1 AATAAATCTATTAAAAAATATAA
* *
1602304 AATATATCTCTTAAAAAATAT
1 AATAAATCTATTAAAAAATAT
1602325 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAAATCTATTAAAAAATATAA
Found at i:1602341 original size:13 final size:13
Alignment explanation
Indices: 1602314--1602347 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1602304 AATATATCTC
*
1602314 TTAAAAAA-TATT
1 TTAAAAAATTAAT
1602326 TTAAAAAATTAAT
1 TTAAAAAATTAAT
1602339 TTAAAAAAT
1 TTAAAAAAT
1602348 AAATAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAAATTAAT
Found at i:1602555 original size:20 final size:19
Alignment explanation
Indices: 1602530--1602577 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1602520 CAGATCATTT
1602530 TTATTTAAAAATTTAAAATA
1 TTATTTAAAAA-TTAAAATA
* *
1602550 TTATTTATAAATTAAATTA
1 TTATTTAAAAATTAAAATA
*
1602569 TTTTTTAAA
1 TTATTTAAA
1602578 TTCATGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTTAAAAATTAAAATA
Found at i:1602579 original size:17 final size:19
Alignment explanation
Indices: 1602530--1602579 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
1602520 CAGATCATTT
*
1602530 TTATTTAAAAATTTAAAATA
1 TTATTTATAAA-TTAAAATA
*
1602550 TTATTTATAAATTAAATTA
1 TTATTTATAAATTAAAATA
1602569 TT-TTT-TAAATT
1 TTATTTATAAATT
1602580 CATGAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.21
18 3 0.11
19 9 0.32
20 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATTTATAAATTAAAATA
Found at i:1603406 original size:27 final size:27
Alignment explanation
Indices: 1603375--1603430 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1603365 ATATTAAATA
1603375 TAATA-ATTAACA-AAAATTTTATTATTT
1 TAATATATTAA-ATAAAA-TTTATTATTT
*
1603402 TAATATGTTAAATAAAATTTATTATTT
1 TAATATATTAAATAAAATTTATTATTT
1603429 TA
1 TA
1603431 CAATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TAATATATTAAATAAAATTTATTATTT
Found at i:1603593 original size:20 final size:21
Alignment explanation
Indices: 1603570--1603611 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
1603560 TTTATAAAAT
1603570 TTTTTAT-ATTTAAAATATTA
1 TTTTTATAATTTAAAATATTA
1603590 TTTTTATAAAATTTAAAATATT
1 TTTTTAT--AATTTAAAATATT
1603612 TTTATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTATAATTTAAAATATTA
Found at i:1606302 original size:28 final size:26
Alignment explanation
Indices: 1606269--1606336 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 26
1606259 AAATTGAGAG
1606269 TAAAAAATATTTAT-TTTTTAAATTTTT
1 TAAAAAATATTTATCTTTTT-AA-TTTT
1606296 TAAAAAATATATTTATCTTTTTAATTTT
1 T-AAAAA-ATATTTATCTTTTTAATTTT
1606324 TAAAAAATATTTA
1 TAAAAAATATTTA
1606337 CTTGATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.18
27 6 0.16
28 10 0.26
29 10 0.26
30 5 0.13
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAAAAATATTTATCTTTTTAATTTT
Found at i:1606302 original size:29 final size:28
Alignment explanation
Indices: 1606270--1606330 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
1606260 AATTGAGAGT
1606270 AAAAAATATTTAT-TTTTTAAATTTTTTAA
1 AAAAAATATTTATCTTTTT-AA-TTTTTAA
*
1606299 AAAATATATTTATCTTTTTAATTTTTAA
1 AAAAAATATTTATCTTTTTAATTTTTAA
1606327 AAAA
1 AAAA
1606331 TATTTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.37
29 14 0.47
30 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
AAAAAATATTTATCTTTTTAATTTTTAA
Found at i:1606493 original size:26 final size:24
Alignment explanation
Indices: 1606448--1606501 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
1606438 ATCTTTATTC
1606448 AAAAATTTTTAATTTCAAAATAAT
1 AAAAATTTTTAATTTCAAAATAAT
* *
1606472 AAAAATTTAATTAATTTTAAAATATT
1 AAAAATTT--TTAATTTCAAAATAAT
1606498 AAAA
1 AAAA
1606502 GAAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 8 0.31
26 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAAATTTTTAATTTCAAAATAAT
Found at i:1606656 original size:17 final size:17
Alignment explanation
Indices: 1606631--1606664 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1606621 AAAATTAAAA
* *
1606631 AAATTAAAATTATTTTT
1 AAATAAAAATAATTTTT
1606648 AAATAAAAATAATTTTT
1 AAATAAAAATAATTTTT
1606665 TTAATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATAAAAATAATTTTT
Found at i:1607077 original size:13 final size:12
Alignment explanation
Indices: 1607059--1607088 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1607049 CATTGACATG
*
1607059 TTTTTTTTTTCC
1 TTTTTTTTTTTC
1607071 TTTTTTTTTTTC
1 TTTTTTTTTTTC
1607083 TTTTTT
1 TTTTTT
1607089 GGGTTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:1608471 original size:34 final size:35
Alignment explanation
Indices: 1608433--1608499 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
1608423 AAGTACTAAT
1608433 TAAAAT-TAATTTAATTTAAA-TAATTATTTAAAAA
1 TAAAATAT-ATTTAATTTAAATTAATTATTTAAAAA
*
1608467 TAAAATATTTTTAATTTAAATTTAATTATTTAA
1 TAAAATATATTTAATTTAAA-TTAATTATTTAA
1608500 TTATATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 17 0.59
35 1 0.03
36 11 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
TAAAATATATTTAATTTAAATTAATTATTTAAAAA
Found at i:1608524 original size:14 final size:14
Alignment explanation
Indices: 1608502--1608532 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1608492 TTATTTAATT
1608502 ATATAAATATAAAA
1 ATATAAATATAAAA
*
1608516 ATATTAATATAAAA
1 ATATAAATATAAAA
1608530 ATA
1 ATA
1608533 ATGTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATAAATATAAAA
Found at i:1614399 original size:11 final size:11
Alignment explanation
Indices: 1614383--1614431 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
1614373 TTTATAATTT
1614383 TAAATATAATA
1 TAAATATAATA
1614394 TAAATATAATA
1 TAAATATAATA
1614405 TAAAAATATAAT-
1 T--AAATATAATA
*
1614417 TAAAATATGATA
1 T-AAATATAATA
1614429 TAA
1 TAA
1614432 TAAAATTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 23 0.68
12 2 0.06
13 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAATATAATA
Found at i:1614413 original size:24 final size:24
Alignment explanation
Indices: 1614384--1614431 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1614374 TTATAATTTT
1614384 AAATATAA-TATAAATATAATATAA
1 AAATATAATTA-AAATATAATATAA
*
1614408 AAATATAATTAAAATATGATATAA
1 AAATATAATTAAAATATAATATAA
1614432 TAAAATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATAATTAAAATATAATATAA
Found at i:1614952 original size:16 final size:17
Alignment explanation
Indices: 1614921--1614954 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1614911 ATTTTTTTAC
*
1614921 AAATAAAATCATTATAA
1 AAATAAAATAATTATAA
1614938 AAATAAAA-AATTATAA
1 AAATAAAATAATTATAA
1614954 A
1 A
1614955 TATTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAAATAATTATAA
Found at i:1614983 original size:9 final size:9
Alignment explanation
Indices: 1614969--1615015 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
1614959 TAATTTAAAT
1614969 TTAAATTAA
1 TTAAATTAA
*
1614978 TTAAATATTA
1 TTAAAT-TAA
1614988 TTATAATT-A
1 TTA-AATTAA
1614997 TATAAATTAA
1 T-TAAATTAA
1615007 TTAAATTAA
1 TTAAATTAA
1615016 ATTATGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 20 0.61
10 10 0.30
11 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAAATTAA
Found at i:1621599 original size:155 final size:155
Alignment explanation
Indices: 1621317--1621633 Score: 634
Period size: 155 Copynumber: 2.0 Consensus size: 155
1621307 AACAGACACA
1621317 CTAAACCCCAAGAGAGAGAGAGAGAGTACCTTCTCACAATGTGTGAATTGCTGGTCAAAAACCGA
1 CTAAACCCCAAGAGAGAGAGAGAGAGTACCTTCTCACAATGTGTGAATTGCTGGTCAAAAACCGA
1621382 GGATGGAAGCAGCAGCCTTTGAGCTTAGCTTGGCATTCTTCCCAACAATAAACCAACTTCTGATA
66 GGATGGAAGCAGCAGCCTTTGAGCTTAGCTTGGCATTCTTCCCAACAATAAACCAACTTCTGATA
1621447 GAGCTACTGAAACAAGAGAGTTTAT
131 GAGCTACTGAAACAAGAGAGTTTAT
1621472 CTAAACCCCAAGAGAGAGAGAGAGAGTACCTTCTCACAATGTGTGAATTGCTGGTCAAAAACCGA
1 CTAAACCCCAAGAGAGAGAGAGAGAGTACCTTCTCACAATGTGTGAATTGCTGGTCAAAAACCGA
1621537 GGATGGAAGCAGCAGCCTTTGAGCTTAGCTTGGCATTCTTCCCAACAATAAACCAACTTCTGATA
66 GGATGGAAGCAGCAGCCTTTGAGCTTAGCTTGGCATTCTTCCCAACAATAAACCAACTTCTGATA
1621602 GAGCTACTGAAACAAGAGAGTTTAT
131 GAGCTACTGAAACAAGAGAGTTTAT
1621627 CTAAACC
1 CTAAACC
1621634 ATGCTTACAC
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 162 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (155 bp):
CTAAACCCCAAGAGAGAGAGAGAGAGTACCTTCTCACAATGTGTGAATTGCTGGTCAAAAACCGA
GGATGGAAGCAGCAGCCTTTGAGCTTAGCTTGGCATTCTTCCCAACAATAAACCAACTTCTGATA
GAGCTACTGAAACAAGAGAGTTTAT
Found at i:1623529 original size:12 final size:12
Alignment explanation
Indices: 1623491--1623533 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1623481 ACCATGCTCC
*
1623491 GTAGTAGTAGTA
1 GTAGGAGTAGTA
* * *
1623503 GTAGCAGTCGGA
1 GTAGGAGTAGTA
1623515 GTAGGAGTAGTA
1 GTAGGAGTAGTA
1623527 GTAGGAG
1 GTAGGAG
1623534 GAGCAGGAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.42, T:0.23
Consensus pattern (12 bp):
GTAGGAGTAGTA
Found at i:1623536 original size:21 final size:21
Alignment explanation
Indices: 1623493--1623542 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
1623483 CATGCTCCGT
* **
1623493 AGTAGTAGTAGTAGCAGTCGG
1 AGTAGGAGTAGTAGCAGGAGG
*
1623514 AGTAGGAGTAGTAGTAGGAGG
1 AGTAGGAGTAGTAGCAGGAGG
*
1623535 AGCAGGAG
1 AGTAGGAG
1623543 GTGGAGTTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (21 bp):
AGTAGGAGTAGTAGCAGGAGG
Found at i:1623682 original size:33 final size:32
Alignment explanation
Indices: 1623624--1623688 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
1623614 GTTCCTGTCT
*
1623624 GATTAATCTGGGTCGCCCGAATAGGCTCAGGCC
1 GATTAATCTGGCTCGCCCGAATAGGCTC-GGCC
* **
1623657 GATTAATCTGGCTCGTCCGTGTAGGCTCGGCC
1 GATTAATCTGGCTCGCCCGAATAGGCTCGGCC
1623689 CAACTAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.25
Consensus pattern (32 bp):
GATTAATCTGGCTCGCCCGAATAGGCTCGGCC
Found at i:1624056 original size:9 final size:9
Alignment explanation
Indices: 1624044--1624077 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1624034 TGATAATGTT
1624044 GTTGACTGA
1 GTTGACTGA
*
1624053 GTTGACCGA
1 GTTGACTGA
*
1624062 GTTGGCTGA
1 GTTGACTGA
1624071 GTTGACT
1 GTTGACT
1624078 CACCTGACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (9 bp):
GTTGACTGA
Found at i:1624827 original size:17 final size:18
Alignment explanation
Indices: 1624789--1624829 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1624779 ATATCATATA
1624789 AAAAAT-AAATTTAGATTT
1 AAAAATAAAATTTA-ATTT
1624807 -AAAATAAAATTT-ATTT
1 AAAAATAAAATTTAATTT
1624823 AAAAATA
1 AAAAATA
1624830 TATTATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 11 0.52
18 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAAATAAAATTTAATTT
Found at i:1624937 original size:22 final size:21
Alignment explanation
Indices: 1624890--1624946 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
1624880 TTATAATTAT
*
1624890 ATAATATATATTATTATATAAAA
1 ATAA-ATATA-TATCATATAAAA
1624913 ATAAATATATATCATATAAAGA
1 ATAAATATATATCATATAAA-A
1624935 ATAAATATATAT
1 ATAAATATATAT
1624947 AATGTTGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 10 0.31
22 18 0.56
23 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAATATATATCATATAAAA
Found at i:1624947 original size:24 final size:22
Alignment explanation
Indices: 1624890--1624947 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 22
1624880 TTATAATTAT
*
1624890 ATAATATATATTATTATATAAAA
1 ATAATATATA-TATCATATAAAA
1624913 ATAA-ATATATATCATATAAAGA
1 ATAATATATATATCATATAAA-A
1624935 ATAAATATATATA
1 AT-AATATATATA
1624948 ATGTTGTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 10 0.32
22 8 0.26
23 6 0.19
24 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATAATATATATATCATATAAAA
Found at i:1625050 original size:14 final size:15
Alignment explanation
Indices: 1625016--1625053 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1625006 AAATAAAGTT
* *
1625016 ATTAAATTACTAAAA
1 ATTAAATAATTAAAA
1625031 ATTAAATAATTAAAA
1 ATTAAATAATTAAAA
1625046 A-TAAATAA
1 ATTAAATAA
1625054 AAATAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAATAATTAAAA
Found at i:1625425 original size:14 final size:15
Alignment explanation
Indices: 1625408--1625443 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1625398 AATATTTTAC
*
1625408 TTTTATTT-ATTATA
1 TTTTATTTAATCATA
1625422 TTTTATTTAATCATA
1 TTTTATTTAATCATA
1625437 TTTTATT
1 TTTTATT
1625444 ACCGTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATTTAATCATA
Found at i:1627176 original size:19 final size:19
Alignment explanation
Indices: 1627148--1627184 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1627138 TAATGTTAAT
1627148 AATTTAAATATTAAATAAA
1 AATTTAAATATTAAATAAA
*
1627167 AATTTTAATATTAAATAA
1 AATTTAAATATTAAATAA
1627185 GTATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTAAATATTAAATAAA
Found at i:1627734 original size:19 final size:17
Alignment explanation
Indices: 1627710--1627750 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
1627700 AATTAAAATT
1627710 TTATATATTCGTATTATAA
1 TTATATATT-GTATTAT-A
*
1627729 TTATATATTTTATTATA
1 TTATATATTGTATTATA
1627746 TTATA
1 TTATA
1627751 ATTAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TTATATATTGTATTATA
Found at i:1627751 original size:23 final size:23
Alignment explanation
Indices: 1627721--1627802 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
1627711 TATATATTCG
1627721 TATTATAATTATATATTTTATTA
1 TATTATAATTATATATTTTATTA
*
1627744 TATTATAATTA-A-ATTTAAAATTA
1 TATTATAATTATATATTT--TATTA
* * *
1627767 TTTTATATTTATATAAATTTTAATA
1 TATTATAATTATAT--ATTTTATTA
*
1627792 TATAATAATTA
1 TATTATAATTA
1627803 AATAATATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
21 4 0.09
22 1 0.02
23 24 0.53
24 1 0.02
25 11 0.24
27 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATAATTATATATTTTATTA
Found at i:1627835 original size:48 final size:48
Alignment explanation
Indices: 1627730--1627845 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 48
1627720 GTATTATAAT
* * * *
1627730 TATATATTTTATTATATTATAATTAAATTTAAAATTATTTTATATTTA
1 TATATATTTTAATATATAATAATTAAATATAAAATTATTTAATATTTA
* *
1627778 TATAAATTTTAATATATAATAATTAAATAATATAAATT-TTTAAATATTTT
1 TATATATTTTAATATATAATAATTAAAT-ATA-AAATTATTT-AATATTTA
*
1627828 TATATTTTTTAATTATAT
1 TATATATTTTAA-TATAT
1627846 TTTATTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 25 0.45
49 5 0.09
50 21 0.38
51 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (48 bp):
TATATATTTTAATATATAATAATTAAATATAAAATTATTTAATATTTA
Found at i:1627836 original size:18 final size:20
Alignment explanation
Indices: 1627814--1627850 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
1627804 ATAATATAAA
1627814 TTTTTAAATAT-TTTTATAT
1 TTTTTAAATATATTTTATAT
*
1627833 TTTTTAATTATATTTTAT
1 TTTTTAAATATATTTTAT
1627851 TTTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTAAATATATTTTATAT
Found at i:1627850 original size:7 final size:7
Alignment explanation
Indices: 1627825--1627885 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
1627815 TTTTAAATAT
1627825 TTTTATA
1 TTTTATA
*
1627832 TTTTTTA
1 TTTTATA
*
1627839 -ATTATA
1 TTTTATA
1627845 -TTT-TA
1 TTTTATA
1627850 TTTTATA
1 TTTTATA
1627857 --TTATA
1 TTTTATA
1627862 TTTTATA
1 TTTTATA
*
1627869 TAATTATA
1 T-TTTATA
1627877 TTTTATA
1 TTTTATA
1627884 TT
1 TT
1627886 ATTAAATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
5 7 0.16
6 9 0.21
7 21 0.49
8 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTATA
Found at i:1627876 original size:15 final size:15
Alignment explanation
Indices: 1627827--1627894 Score: 77
Period size: 15 Copynumber: 4.5 Consensus size: 15
1627817 TTAAATATTT
1627827 TTATATTTT-T-TAA
1 TTATATTTTATATAA
*
1627840 TTATATTTTATTTTATA
1 TTATATTTTA-TATA-A
1627857 TTATATTTTATATAA
1 TTATATTTTATATAA
*
1627872 TTATATTTTATATTA
1 TTATATTTTATATAA
*
1627887 TTAAATTT
1 TTATATTT
1627895 ATTTACGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.19
15 23 0.48
16 5 0.10
17 11 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATTTTATATAA
Found at i:1627878 original size:32 final size:30
Alignment explanation
Indices: 1627827--1627887 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 30
1627817 TTAAATATTT
*
1627827 TTATATTTTTTAATTATATTTTATTTTATA
1 TTATATTTTTTAATTATATTTTATATTATA
1627857 TTATATTTTATATAATTATATTTTATATTAT
1 TTATATTTT-T-TAATTATATTTTATATTAT
1627888 TAAATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 9 0.32
31 1 0.04
32 18 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
TTATATTTTTTAATTATATTTTATATTATA
Found at i:1627886 original size:12 final size:12
Alignment explanation
Indices: 1627840--1627887 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
1627830 TATTTTTTAA
*
1627840 TTATATTTTATT
1 TTATATTATATT
1627852 TTATATTATATTT
1 TTATATTATA-TT
1627865 TATATAATTATATT
1 T-TAT-ATTATATT
1627879 TTATATTAT
1 TTATATTAT
1627888 TAAATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 14 0.44
13 6 0.19
14 6 0.19
15 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATTATATT
Found at i:1629246 original size:21 final size:23
Alignment explanation
Indices: 1629222--1629264 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
1629212 TATTTTTTAT
1629222 TAAAAAATCAT-AAT-TTAAAAA
1 TAAAAAATCATAAATATTAAAAA
*
1629243 TAAAAAATTATAAATATTAAAA
1 TAAAAAATCATAAATATTAAAA
1629265 TTTAATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAAATCATAAATATTAAAAA
Found at i:1630617 original size:61 final size:62
Alignment explanation
Indices: 1630449--1630618 Score: 156
Period size: 61 Copynumber: 2.8 Consensus size: 62
1630439 TAAATCACAC
* * * * * *
1630449 ATTAATAATTTATATAATA-AATATTTTAAAATATTTATATTATTTAATAATATTATGTTTAAA
1 ATTAATAATTTATATTATATAA-ATTTTAATATA-TTATATTATATATTAATATAATGTTAAAA
* * *
1630512 ATCAATAAATTTATATT-TAT--TTTTTATTAT-TTAAATATTATATATTAATATAAT-TTAATA
1 ATTAAT-AATTTATATTATATAAATTTTAATATATT--ATATTATATATTAATATAATGTTAA-A
1630572 A
62 A
1630573 ATTAATAATTTATATTATATAAATTTTAATATATTATATT-TATATT
1 ATTAATAATTTATATTATATAAATTTTAATATATTATATTATATATT
1630619 TTGTGATTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
59 2 0.02
60 13 0.15
61 40 0.47
62 5 0.06
63 15 0.17
64 11 0.13
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.54
Consensus pattern (62 bp):
ATTAATAATTTATATTATATAAATTTTAATATATTATATTATATATTAATATAATGTTAAAA
Found at i:1630619 original size:21 final size:21
Alignment explanation
Indices: 1630522--1630620 Score: 55
Period size: 21 Copynumber: 4.7 Consensus size: 21
1630512 ATCAATAAAT
* *
1630522 TTATATTTATTTTTTATTAT-
1 TTATATTTATATTTTAATATA
* *
1630542 TTAAATATTATATATTAATATA
1 TTATAT-TTATATTTTAATATA
* **
1630564 --AT-TTAATAAATTAATA-A
1 TTATATTTATATTTTAATATA
1630581 TTTATATTATATAAATTTTAATATA
1 -TTATATT-TAT--ATTTTAATATA
1630606 TTATATTTATATTTT
1 TTATATTTATATTTT
1630621 GTGATTATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
17 1 0.02
18 11 0.19
19 1 0.02
20 8 0.14
21 18 0.31
22 2 0.03
23 3 0.05
24 14 0.24
25 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATATTTATATTTTAATATA
Found at i:1631500 original size:3 final size:3
Alignment explanation
Indices: 1631492--1631523 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1631482 ATCAGTACTT
1631492 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1631524 GATTTTCCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1632151 original size:2 final size:2
Alignment explanation
Indices: 1632144--1632178 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1632134 GCAACATCAA
1632144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1632179 ATGTCTTGAG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1634164 original size:4 final size:4
Alignment explanation
Indices: 1634149--1634205 Score: 69
Period size: 4 Copynumber: 14.2 Consensus size: 4
1634139 GGATATGAGT
* * * *
1634149 TATA TGTA TATA TATA TATA TATA TATA TATA TATA TGTA TGTA AATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
1634197 TAAA TATA T
1 TATA TATA T
1634206 GATTCATACA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (4 bp):
TATA
Found at i:1634164 original size:6 final size:6
Alignment explanation
Indices: 1634149--1634205 Score: 69
Period size: 6 Copynumber: 9.5 Consensus size: 6
1634139 GGATATGAGT
* * * *
1634149 TATATG TATATA TATATA TATATA TATATA TATATA TGTATG TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
1634197 TAAATA TAT
1 TATATA TAT
1634206 GATTCATACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (6 bp):
TATATA
Found at i:1635274 original size:2 final size:2
Alignment explanation
Indices: 1635267--1635292 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1635257 TAGAGATGGA
1635267 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
1635293 TCTTTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1636152 original size:2 final size:2
Alignment explanation
Indices: 1636145--1636170 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1636135 TACATGATAG
1636145 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
1636171 AAATAATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1640965 original size:2 final size:2
Alignment explanation
Indices: 1640958--1640988 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1640948 GAGTTATTAA
1640958 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1640989 TGTAGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1640979 original size:13 final size:13
Alignment explanation
Indices: 1640961--1640986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1640951 TTATTAAATA
1640961 TATATATATATAT
1 TATATATATATAT
1640974 TATATATATATAT
1 TATATATATATAT
1640987 ATTGTAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:1640979 original size:15 final size:15
Alignment explanation
Indices: 1640959--1640989 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1640949 AGTTATTAAA
1640959 TATATATATATATAT
1 TATATATATATATAT
1640974 TATATATATATATAT
1 TATATATATATATAT
1640989 T
1 T
1640990 GTAGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:1640980 original size:19 final size:19
Alignment explanation
Indices: 1640952--1640988 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1640942 AAAGATGAGT
1640952 TATTAAATATATATATATA
1 TATTAAATATATATATATA
*
1640971 TATTATATATATATATAT
1 TATTAAATATATATATAT
1640989 TGTAGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAAATATATATATATA
Found at i:1642255 original size:2 final size:2
Alignment explanation
Indices: 1642242--1642276 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1642232 GTGAAGCCGA
*
1642242 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1642277 TAAGCCTCCA
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):
AT
Found at i:1642864 original size:23 final size:23
Alignment explanation
Indices: 1642834--1642883 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1642824 ATTCTTTTCC
1642834 TTATTCTTAAACTATGACATCTT
1 TTATTCTTAAACTATGACATCTT
*
1642857 TTATTCTTAAACTATGATATCTT
1 TTATTCTTAAACTATGACATCTT
1642880 TTAT
1 TTAT
1642884 AAAAAAACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (23 bp):
TTATTCTTAAACTATGACATCTT
Found at i:1642891 original size:23 final size:23
Alignment explanation
Indices: 1642842--1642891 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
1642832 CCTTATTCTT
****
1642842 AAACTATGACATCTTTTATTCTT
1 AAACTATGACATCTTTTATAAAA
*
1642865 AAACTATGATATCTTTTATAAAA
1 AAACTATGACATCTTTTATAAAA
1642888 AAAC
1 AAAC
1642892 CGAGTATAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (23 bp):
AAACTATGACATCTTTTATAAAA
Found at i:1643568 original size:2 final size:2
Alignment explanation
Indices: 1643561--1643599 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1643551 TAAAATCTTA
1643561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1643600 CATACCTGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1643777 original size:10 final size:10
Alignment explanation
Indices: 1643762--1643786 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1643752 TAAGAGTCCC
1643762 TGACAGATAT
1 TGACAGATAT
1643772 TGACAGATAT
1 TGACAGATAT
1643782 TGACA
1 TGACA
1643787 AAATCAAGGA
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:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (10 bp):
TGACAGATAT
Found at i:1646381 original size:19 final size:18
Alignment explanation
Indices: 1646357--1646392 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1646347 TAAATACTCT
*
1646357 TAATTTTATTTTATATCTA
1 TAATTTTAATTTA-ATCTA
1646376 TAATTTTAATTTAATCT
1 TAATTTTAATTTAATCT
1646393 TTAGATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATTTTAATTTAATCTA
Found at i:1647275 original size:23 final size:22
Alignment explanation
Indices: 1647230--1647277 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
1647220 CTATATATAA
1647230 ATAAAATATTTAAATTATGATT
1 ATAAAATATTTAAATTATGATT
*
1647252 ATAAATATATTTTTAATTAT-ATT
1 ATAAA-ATA-TTTAAATTATGATT
1647275 ATA
1 ATA
1647278 TTTATTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 9 0.39
24 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAAAATATTTAAATTATGATT
Found at i:1648979 original size:17 final size:18
Alignment explanation
Indices: 1648951--1649006 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
1648941 AAAATTTATA
*
1648951 TTAAAGATATATTATTTAG
1 TTAAATATATA-TATTTAG
*
1648970 TTAAATATATATTTTTA-
1 TTAAATATATATATTTAG
1648987 TTAAATATATAATATTTAG
1 TTAAATATAT-ATATTTAG
1649006 T
1 T
1649007 AACTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 10 0.31
18 11 0.34
19 11 0.34
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
TTAAATATATATATTTAG
Found at i:1648979 original size:19 final size:19
Alignment explanation
Indices: 1648951--1649006 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
1648941 AAAATTTATA
*
1648951 TTAAAGATATATTATTTAG
1 TTAAATATATATTATTTAG
1648970 TTAAATATATATT-TTTA-
1 TTAAATATATATTATTTAG
*
1648987 TTAAATATATAATATTTAG
1 TTAAATATATATTATTTAG
1649006 T
1 T
1649007 AACTATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 12 0.36
18 8 0.24
19 13 0.39
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
TTAAATATATATTATTTAG
Found at i:1649358 original size:28 final size:27
Alignment explanation
Indices: 1649326--1649384 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
1649316 AAATAAAAAT
* *
1649326 ATTAAATTTA-ATTTAATTAATTTATATA
1 ATTAAATTAATATTTAATAAATTTA-A-A
1649354 ATT-AATTAATATTTAATAAATTTAAA
1 ATTAAATTAATATTTAATAAATTTAAA
1649380 ATTAA
1 ATTAA
1649385 TTTTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.15
27 7 0.26
28 16 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTAAATTAATATTTAATAAATTTAAA
Found at i:1650993 original size:31 final size:30
Alignment explanation
Indices: 1650932--1650995 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
1650922 ATAATAATTT
*
1650932 AAAAGTAAATATATTTTTATCAAACTCTTTA
1 AAAAGTAAATATATTTTTAT-AAACACTTTA
1650963 AAAAGATAAATATATTTTT-TATAACACTTTA
1 AAAAG-TAAATATATTTTTATA-AACACTTTA
1650994 AA
1 AA
1650996 GTAGTATAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 1 0.03
31 16 0.53
32 13 0.43
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAAGTAAATATATTTTTATAAACACTTTA
Found at i:1651036 original size:18 final size:18
Alignment explanation
Indices: 1651009--1651043 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1650999 GTATAGTTTA
1651009 TTTTTATATT-TAAATAT
1 TTTTTATATTATAAATAT
1651026 TTTTATATATTATAAATA
1 TTTT-TATATTATAAATA
1651044 ATATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTATATTATAAATAT
Found at i:1651050 original size:30 final size:32
Alignment explanation
Indices: 1651014--1651133 Score: 87
Period size: 30 Copynumber: 3.8 Consensus size: 32
1651004 GTTTATTTTT
1651014 ATATTT-AAATATT-T-TTATATATTATAAATA
1 ATATTTAAAATATTATATT-TATATTATAAATA
*
1651044 ATATTTAAAATATTATATTTTTATTAT--A-A
1 ATATTTAAAATATTATATTTATATTATAAATA
* *
1651073 AT-TTTAATATATTATTAATTTATATTATATA-A
1 ATATTTAAAATATTA-T-ATTTATATTATAAATA
*
1651105 AT-TTTAATATAATAATATATTTATATTAT
1 ATATTT-A-A-AATATTATATTTATATTAT
1651134 TTTTTCAATT
Statistics
Matches: 75, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
28 11 0.15
29 4 0.05
30 17 0.23
31 7 0.09
32 15 0.20
33 14 0.19
34 2 0.03
35 5 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATATTTAAAATATTATATTTATATTATAAATA
Found at i:1651087 original size:17 final size:17
Alignment explanation
Indices: 1651065--1651115 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
1651055 ATTATATTTT
1651065 TATTATAAATTTTAATA
1 TATTATAAATTTTAATA
*
1651082 TATTATTAA-TTT-ATA
1 TATTATAAATTTTAATA
1651097 T-TATATAAATTTTAATA
1 TAT-TATAAATTTTAATA
1651114 TA
1 TA
1651116 ATAATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 1 0.04
15 9 0.32
16 6 0.21
17 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATAAATTTTAATA
Found at i:1651104 original size:32 final size:31
Alignment explanation
Indices: 1651031--1651133 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 31
1651021 AATATTTTTA
* *
1651031 TATATTATAAATAATATTTAAAATATTAT-ATT
1 TATATTATATA-AAT-TTTAATATATTATAATT
*
1651063 TTTA-T-TATAAATTTTAATATATTATTAATT
1 TATATTATATAAATTTTAATATATTA-TAATT
*
1651093 TATATTATATAAATTTTAATATAATAATATATT
1 TATATTATATAAATTTTAATAT-ATTATA-ATT
1651126 TATATTAT
1 TATATTAT
1651134 TTTTTCAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
28 11 0.18
29 4 0.07
30 9 0.15
31 2 0.03
32 20 0.33
33 14 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TATATTATATAAATTTTAATATATTATAATT
Done.