Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 86 of 120
Found at i:25736875 original size:15 final size:14
Alignment explanation
Indices: 25736842--25736875 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
25736832 TTTTGTTATT
*
25736842 TTTTATTTTATTCA
1 TTTTATTTTATTAA
25736856 TTTTATTATTATTAA
1 TTTTATT-TTATTAA
25736871 TTTTA
1 TTTTA
25736876 GTTGTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTTATTAA
Found at i:25745431 original size:19 final size:20
Alignment explanation
Indices: 25745396--25745440 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
25745386 TTACCCTAAA
* *
25745396 CTCCCAAATATTTTTACTTT
1 CTCCCAAATACTTTTACTCT
25745416 CTCCCAAA-ACTTTTACTCT
1 CTCCCAAATACTTTTACTCT
25745435 CTCCCA
1 CTCCCA
25745441 CTTTCCCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (20 bp):
CTCCCAAATACTTTTACTCT
Found at i:25756974 original size:19 final size:18
Alignment explanation
Indices: 25756936--25756971 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
25756926 AAAAAAAGAG
*
25756936 AAAATATAAAATTTATAT
1 AAAAAATAAAATTTATAT
25756954 AAAAAAT-AAATTTATAT
1 AAAAAATAAAATTTATAT
25756971 A
1 A
25756972 TAATACATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAATAAAATTTATAT
Found at i:25757153 original size:20 final size:20
Alignment explanation
Indices: 25757124--25757164 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25757114 ATATAGAGAG
* *
25757124 AGAAATTATAAAATATGTAT
1 AGAAAGTATAAAATATATAT
*
25757144 AGAAAGTATAATATATATAT
1 AGAAAGTATAAAATATATAT
25757164 A
1 A
25757165 TATATACGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
AGAAAGTATAAAATATATAT
Found at i:25758332 original size:15 final size:15
Alignment explanation
Indices: 25758312--25758342 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25758302 AGGGTTTCTG
25758312 ACTGTAATTTGGGCC
1 ACTGTAATTTGGGCC
*
25758327 ACTGTAGTTTGGGCC
1 ACTGTAATTTGGGCC
25758342 A
1 A
25758343 TTGTTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
ACTGTAATTTGGGCC
Found at i:25768738 original size:17 final size:18
Alignment explanation
Indices: 25768707--25768740 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25768697 AAAACGGGCC
*
25768707 ATATTTTTGTTCAAACCT
1 ATATTTTTGTCCAAACCT
25768725 ATATTTTT-TCCAAACC
1 ATATTTTTGTCCAAACC
25768741 CTCCCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (18 bp):
ATATTTTTGTCCAAACCT
Found at i:25769302 original size:17 final size:17
Alignment explanation
Indices: 25769280--25769315 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25769270 GGTCTTTTAC
25769280 AAAAATAATACCAAAAT
1 AAAAATAATACCAAAAT
*
25769297 AAAAATAATACTAAAAT
1 AAAAATAATACCAAAAT
25769314 AA
1 AA
25769316 TATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAATAATACCAAAAT
Found at i:25769756 original size:10 final size:10
Alignment explanation
Indices: 25769730--25769772 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
25769720 AAAATATTTA
*
25769730 TATTGTTTTG
1 TATTTTTTTG
25769740 ATATTTTTTT-
1 -TATTTTTTTG
25769750 TATTTTTTTG
1 TATTTTTTTG
25769760 TATTATTTTTG
1 TATT-TTTTTG
25769771 TA
1 TA
25769773 AAGGACCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 9 0.31
10 4 0.14
11 16 0.55
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (10 bp):
TATTTTTTTG
Found at i:25769758 original size:20 final size:20
Alignment explanation
Indices: 25769730--25769769 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25769720 AAAATATTTA
25769730 TATTGTTTTGATATT-TTTTT
1 TATTGTTTTG-TATTATTTTT
*
25769750 TATTTTTTTGTATTATTTTT
1 TATTGTTTTGTATTATTTTT
25769770 GTAAAGGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (20 bp):
TATTGTTTTGTATTATTTTT
Found at i:25771254 original size:123 final size:123
Alignment explanation
Indices: 25771035--25771274 Score: 455
Period size: 123 Copynumber: 2.0 Consensus size: 123
25771025 TTATTTCGAG
*
25771035 TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGATGAAATTGTG
1 TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
25771100 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTT
25771158 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
25771222 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATA
65 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATA
25771275 TTCGGAACGA
Statistics
Matches: 115, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
123 114 0.99
124 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTT
Found at i:25774177 original size:30 final size:30
Alignment explanation
Indices: 25774143--25774573 Score: 493
Period size: 30 Copynumber: 14.6 Consensus size: 30
25774133 AAAATTATTA
25774143 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
* *
25774173 TTTTTAATTAAATTAGATTAGGGTTAGGGTTTACGA
1 TTTTTAATT--A--A-ATTA-GGTTAGGGTTTAGGG
*
25774209 TTTTTAATTAAATTAAGTTAGGG-TTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
*
25774238 TTTTTAATTAAATTAGGTTAGGG-CTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
* *
25774267 TTTTTAATTAAATTAGGTCAGGGTTTATGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
25774297 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAGGG
1 TTTTTAATT-AA--A--TTA-GGTTAGGGTTTAGGG
* * *
25774333 TTTTTAATTAAATTAAGTTAAGG-TTAAGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
25774362 TTTTTAATT-AA--A--TTA-GG-TTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
25774385 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
* * *
25774415 TTTTTAATTAAATTAAGTTGGGGTTTAGGA
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
25774445 TTTTTAATT-AA--A--TTA-GG-TTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
25774468 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
* *
25774497 TTTTTAATTAAATTAGGTTAGGGTTTACGA
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
*
25774527 TTTTTAATTAAATTAGGTTAGTGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
25774557 TTTTTAATTAAATTAGG
1 TTTTTAATTAAATTAGG
25774574 ATTTTTATTA
Statistics
Matches: 348, Mismatches: 26, Indels: 54
0.81 0.06 0.13
Matches are distributed among these distances:
23 30 0.09
24 9 0.03
25 2 0.01
26 3 0.01
27 1 0.00
28 8 0.02
29 102 0.29
30 125 0.36
31 9 0.03
32 2 0.01
33 2 0.01
34 2 0.01
35 9 0.03
36 44 0.13
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (30 bp):
TTTTTAATTAAATTAGGTTAGGGTTTAGGG
Found at i:25774343 original size:124 final size:120
Alignment explanation
Indices: 25774143--25774571 Score: 570
Period size: 124 Copynumber: 3.7 Consensus size: 120
25774133 AAAATTATTA
* *
25774143 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTACG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTA--GTTAGGGTTTAGG
25774208 ATTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCTAGGG
64 ATTTTTAATTAAATTAAGTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TAGGG
* *
25774267 TTTTTAATTAAATTAGGTCAGGGTTTATGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAGG
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTA--GTTAGGGTTTAGG
* *
25774332 GTTTTTAATTAAATTAAGTTAAGGTTAAGGTTTTTAATTAAATTAGG-T----TAGGG
64 ATTTTTAATTAAATTAAGTT-AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGG
*
25774385 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTA----AGTTGGGGTTTAGGAT
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGTTAGGGTTTAGGAT
25774446 TTTTAATT--A--AA-TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
66 TTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TAGGG
* * *
25774497 TTTTTAATTAAATTAGGTTAGGGTTTACGATTTTTAATTAAATTAGGTTAG-T---GTTTAGGGT
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGTTAGGGTTTAGGAT
25774558 TTTTAATTAAATTA
66 TTTTAATTAAATTA
25774572 GGATTTTTAT
Statistics
Matches: 276, Mismatches: 14, Indels: 38
0.84 0.04 0.12
Matches are distributed among these distances:
106 25 0.09
107 3 0.01
108 2 0.01
110 1 0.00
112 85 0.31
114 2 0.01
115 1 0.00
116 3 0.01
118 48 0.17
123 1 0.00
124 104 0.38
125 1 0.00
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (120 bp):
TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGTTAGGGTTTAGGAT
TTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGG
Found at i:25774379 original size:23 final size:23
Alignment explanation
Indices: 25774343--25774522 Score: 126
Period size: 23 Copynumber: 6.9 Consensus size: 23
25774333 TTTTTAATTA
*
25774343 AATTAAGTTAAGGTTAAGGTTTTT
1 AATTAAATT-AGGTTAAGGTTTTT
*
25774367 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAAGGTTTTT
25774390 AATTAAATTAGGTTAGGGTTTAGGGTTTTT
1 AATTAAATTAGGTTA------A-GGTTTTT
*
25774420 AATTAAATTAAGTTGGGGTTTAGGATTTTT
1 AATTAAATT-A-----GGTTAAGG-TTTTT
*
25774450 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAAGGTTTTT
25774473 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTA-----A-GGTTTTT
*
25774502 AATTAAATTAGGTTAGGGTTT
1 AATTAAATTAGGTTAAGGTTT
25774523 ACGATTTTTA
Statistics
Matches: 128, Mismatches: 8, Indels: 41
0.72 0.05 0.23
Matches are distributed among these distances:
23 53 0.41
24 14 0.11
29 25 0.20
30 31 0.24
31 1 0.01
36 4 0.03
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (23 bp):
AATTAAATTAGGTTAAGGTTTTT
Found at i:25774495 original size:82 final size:83
Alignment explanation
Indices: 25774209--25774552 Score: 444
Period size: 82 Copynumber: 4.0 Consensus size: 83
25774199 GGGTTTACGA
* * * *
25774209 TTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGG-CTAGGGTTTTT
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGATTTTT
*
25774272 AATTAAATTAGGTCAGGGTTTATGG
66 AATTAAA-T---T-A-GG-TTAGGG
* *
25774297 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAAGGTTAAGG
1 TTTTTAATT-AA--A--TTA-GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGG
25774362 -TTTTTAATTAAATTAGGTTAGGG
60 ATTTTTAATTAAATTAGGTTAGGG
*
25774385 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTGGGGTTTAGGATTTTT
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGATTTTT
25774450 AATTAAATTAGGTTAGGG
66 AATTAAATTAGGTTAGGG
* *
25774468 TTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTACGATTTTT
1 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGATTTTT
*
25774532 AATTAAATTAGGTTAGTG
66 AATTAAATTAGGTTAGGG
25774550 TTT
1 TTT
25774553 AGGGTTTTTA
Statistics
Matches: 234, Mismatches: 13, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
82 99 0.42
83 49 0.21
85 1 0.00
87 2 0.01
88 23 0.10
89 4 0.02
90 1 0.00
91 2 0.01
93 3 0.01
94 8 0.03
95 39 0.17
96 3 0.01
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.47
Consensus pattern (83 bp):
TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGATTTTT
AATTAAATTAGGTTAGGG
Found at i:25775789 original size:7 final size:7
Alignment explanation
Indices: 25775773--25775817 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
25775763 TATTAGTTAT
*
25775773 ATACATA
1 ATACAAA
25775780 ATACAAA
1 ATACAAA
25775787 ATACAAA
1 ATACAAA
25775794 ATACAAA
1 ATACAAA
25775801 ATACAAA
1 ATACAAA
*
25775808 ATACTAA
1 ATACAAA
25775815 ATA
1 ATA
25775818 TCAATCCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (7 bp):
ATACAAA
Found at i:25776802 original size:25 final size:25
Alignment explanation
Indices: 25776752--25776807 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
25776742 CTTTTATAAC
*
25776752 AAATAATAAATTAATAATTATCTAA
1 AAATAATAAATTAATAAATATCTAA
*
25776777 AAATACATAAA-TAA-AAATATCT-T
1 AAATA-ATAAATTAATAAATATCTAA
25776800 AAATAATA
1 AAATAATA
25776808 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 7 0.25
25 8 0.29
26 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAATTAATAAATATCTAA
Found at i:25776933 original size:31 final size:31
Alignment explanation
Indices: 25776898--25776964 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
25776888 GCCATTGATG
*
25776898 AAAATATAAAAAAATTTAAGATTATATTAAA
1 AAAATATAAAAAAATTTAAAATTATATTAAA
*
25776929 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATATTAAA
25776960 AAAAT
1 AAAAT
25776965 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATATTAAA
Found at i:25776949 original size:9 final size:10
Alignment explanation
Indices: 25776898--25776949 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
25776888 GCCATTGATG
25776898 AAAATATAAA
1 AAAATATAAA
* *
25776908 AAAATTTAAG
1 AAAATATAAA
**
25776918 ATTATATTAAA
1 AAAATA-TAAA
25776929 AAAATATAAA
1 AAAATATAAA
*
25776939 AAAATTTAAA
1 AAAATATAAA
25776949 A
1 A
25776950 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 25 0.78
11 7 0.22
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (10 bp):
AAAATATAAA
Found at i:25777023 original size:22 final size:21
Alignment explanation
Indices: 25776998--25777048 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 21
25776988 TAATATGGAT
25776998 TTGAGAGATTTTTGGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
25777020 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
25777042 TTGAGAG
1 TTGAGAG
25777049 TTTGAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 25 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:25777055 original size:30 final size:30
Alignment explanation
Indices: 25777020--25777078 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
25777010 TGGAAGGAAA
* *
25777020 TTGAGAGGATTTTGGAAGGAAATTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATCGAGAGT
25777050 TTGAGAGAATTTTGGAAGGAAATCGAGAG
1 TTGAGAGAATTTTGGAAGGAAATCGAGAG
25777079 GATTTTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.27
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATCGAGAGT
Found at i:25777057 original size:52 final size:52
Alignment explanation
Indices: 25776997--25777099 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
25776987 TTAATATGGA
* *
25776997 TTTGAGAGATTTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAG
1 TTTGAGAGAATTTTGGAAGGAAATCGAGAGGATTTTGGAAGGAAATTGAGAG
25777049 TTTGAGAGAATTTTGGAAGGAAATCGAGAGGATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTGGAAGGAAATCGAGAGGATTTTGGAAGGAAATTGAGA
25777100 TAGGATTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.01, G:0.34, T:0.29
Consensus pattern (52 bp):
TTTGAGAGAATTTTGGAAGGAAATCGAGAGGATTTTGGAAGGAAATTGAGAG
Found at i:25777083 original size:22 final size:22
Alignment explanation
Indices: 25777052--25777099 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
25777042 TTGAGAGTTT
25777052 GAGAGAATTTTGGAAGGAAATC
1 GAGAGAATTTTGGAAGGAAATC
* *
25777074 GAGAGGATTTTGGAAGGAAATT
1 GAGAGAATTTTGGAAGGAAATC
25777096 GAGA
1 GAGA
25777100 TAGGATTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.35, T:0.23
Consensus pattern (22 bp):
GAGAGAATTTTGGAAGGAAATC
Found at i:25778488 original size:7 final size:7
Alignment explanation
Indices: 25778476--25778521 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
25778466 AGATAATTGA
25778476 CTAAACC
1 CTAAACC
25778483 CTAAACC
1 CTAAACC
25778490 CTAAACC
1 CTAAACC
25778497 CTAAACC
1 CTAAACC
25778504 CTAAACC
1 CTAAACC
25778511 CTAAA-C
1 CTAAACC
25778517 CTAAA
1 CTAAA
25778522 AATTAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:25795113 original size:51 final size:51
Alignment explanation
Indices: 25795058--25795174 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 51
25795048 GTCTTACTCA
* *
25795058 TTATACC-TGACTATCATAGCATCTTTCATTTATGGTCTTACACTGAT-TACC
1 TTATACCTTG-CTACCATAGCATCTTTCATTCATGGTCTTACACT-ATATACC
* * *
25795109 TTATACCTTGCTACCATGGCGTCTTTCATTCATGGTCTTATACTATATACC
1 TTATACCTTGCTACCATAGCATCTTTCATTCATGGTCTTACACTATATACC
*
25795160 TT-TACCGTG-TACCAT
1 TTATACCTTGCTACCAT
25795175 GTTGCCATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 6 0.10
50 8 0.14
51 42 0.72
52 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (51 bp):
TTATACCTTGCTACCATAGCATCTTTCATTCATGGTCTTACACTATATACC
Found at i:25803914 original size:25 final size:25
Alignment explanation
Indices: 25803886--25803937 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
25803876 ACTATTGATC
*
25803886 AAACATTGTATATTATTTGAATATT
1 AAACATTGCATATTATTTGAATATT
25803911 AAACATTGCATATTATTTGAATATT
1 AAACATTGCATATTATTTGAATATT
25803936 AA
1 AA
25803938 TATAAAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
AAACATTGCATATTATTTGAATATT
Found at i:25818804 original size:26 final size:25
Alignment explanation
Indices: 25818775--25818899 Score: 108
Period size: 26 Copynumber: 4.9 Consensus size: 25
25818765 AACGAAACAG
*
25818775 AATAATATATAGAACAATTTGAAGTA
1 AATAATATATA-AACAATTTAAAGTA
*
25818801 AATAATATA-AAACAATCTAAAGTA
1 AATAATATATAAACAATTTAAAGTA
* * *
25818825 AATAATATGTAAAACAAATTAAAATA
1 AATAATATAT-AAACAATTTAAAGTA
* ** *
25818851 AATAATATACAAAGCGGTTTAAAATA
1 AATAATATATAAA-CAATTTAAAGTA
* *
25818877 GATAACATATAAGACAATTTAAA
1 AATAATATATAA-ACAATTTAAA
25818900 ATAATATATA
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
24 20 0.25
25 4 0.05
26 54 0.68
27 1 0.01
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.27
Consensus pattern (25 bp):
AATAATATATAAACAATTTAAAGTA
Found at i:25818808 original size:24 final size:24
Alignment explanation
Indices: 25818775--25818963 Score: 105
Period size: 26 Copynumber: 7.5 Consensus size: 24
25818765 AACGAAACAG
*
25818775 AATAATATATAGAACAATTTGAAGTA
1 AATAATATA-A-AACAATTTAAAGTA
*
25818801 AATAATATAAAACAATCTAAAGTA
1 AATAATATAAAACAATTTAAAGTA
* *
25818825 AATAATATGTAAAACAAATTAAAATA
1 AATAATA--TAAAACAATTTAAAGTA
** *
25818851 AATAATATACAAAGCGGTTTAAAATA
1 AATAATATA-AAA-CAATTTAAAGTA
* * *
25818877 GATAACATATAAGACAATTTAAAAT-
1 AAT-A-ATATAAAACAATTTAAAGTA
*** *
25818902 AAT-ATATAAAA-GGCTTAAAATA
1 AATAATATAAAACAATTTAAAGTA
* *
25818924 AATAATATGTAAAAAGAAGTTTAAAATA
1 AATAATA--T-AAAACAA-TTTAAAGTA
25818952 AATAATATAAAA
1 AATAATATAAAA
25818964 ATTAGTTTTA
Statistics
Matches: 130, Mismatches: 20, Indels: 27
0.73 0.11 0.15
Matches are distributed among these distances:
21 7 0.05
22 10 0.08
23 3 0.02
24 21 0.16
25 11 0.08
26 55 0.42
27 3 0.02
28 20 0.15
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.28
Consensus pattern (24 bp):
AATAATATAAAACAATTTAAAGTA
Found at i:25818936 original size:25 final size:27
Alignment explanation
Indices: 25818898--25818964 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
25818888 AGACAATTTA
25818898 AAATAATATAT-AAAAG-GCTTAAAAT
1 AAATAATATATAAAAAGAGCTTAAAAT
* *
25818923 AAATAATATGTAAAAAGAAGTTTAAAAT
1 AAATAATATATAAAAAG-AGCTTAAAAT
25818951 AAATAATATA-AAAA
1 AAATAATATATAAAA
25818965 TTAGTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 10 0.28
26 5 0.14
27 4 0.11
28 17 0.47
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.27
Consensus pattern (27 bp):
AAATAATATATAAAAAGAGCTTAAAAT
Found at i:25818970 original size:26 final size:28
Alignment explanation
Indices: 25818916--25818982 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
25818906 TATAAAAGGC
25818916 TTAAAATAAATAATATGTAAAAAGAAG-T
1 TTAAAATAAATAATA-GTAAAAAGAAGTT
**
25818944 TTAAAATAAATAATA-TAAAAATTAGTT
1 TTAAAATAAATAATAGTAAAAAGAAGTT
25818971 TTAAAA-AAATAA
1 TTAAAATAAATAA
25818983 CTGATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 14 0.39
27 7 0.19
28 15 0.42
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (28 bp):
TTAAAATAAATAATAGTAAAAAGAAGTT
Found at i:25818977 original size:28 final size:27
Alignment explanation
Indices: 25818818--25818982 Score: 88
Period size: 26 Copynumber: 6.4 Consensus size: 27
25818808 TAAAACAATC
*
25818818 TAAAGTAAATAATATGTAAAACA-AA--T
1 TAAAATAAATAATA-GTAAAA-AGAAGTT
* **
25818844 TAAAATAAATAATA-TACAAAGCGGTT
1 TAAAATAAATAATAGTAAAAAGAAGTT
* * * *
25818870 TAAAATAGATAACA-T-ATAAGACAATT
1 TAAAATAAATAATAGTAAAAAGA-AGTT
*
25818896 TAAAAT-AAT-ATA-T-AAAAG--GCT
1 TAAAATAAATAATAGTAAAAAGAAGTT
25818917 TAAAATAAATAATATGTAAAAAGAAGTT
1 TAAAATAAATAATA-GTAAAAAGAAGTT
**
25818945 TAAAATAAATAATA-TAAAAATTAGTTT
1 TAAAATAAATAATAGTAAAAAGAAG-TT
25818972 TAAAA-AAATAA
1 TAAAATAAATAA
25818983 CTGATATATA
Statistics
Matches: 108, Mismatches: 19, Indels: 24
0.72 0.13 0.16
Matches are distributed among these distances:
21 7 0.06
22 3 0.03
23 4 0.04
24 11 0.10
25 6 0.06
26 54 0.50
27 7 0.06
28 16 0.15
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAAATAAATAATAGTAAAAAGAAGTT
Found at i:25819147 original size:14 final size:16
Alignment explanation
Indices: 25819109--25819149 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
25819099 GTGGAAAAAT
25819109 TAAAATAA-ATAATAA
1 TAAAATAATATAATAA
*
25819124 TAAAACAATATAA-AA
1 TAAAATAATATAATAA
25819139 T-AAATAATATA
1 TAAAATAATATA
25819150 TGAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 10 0.43
16 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAATAATATAATAA
Found at i:25828758 original size:2 final size:2
Alignment explanation
Indices: 25828704--25828742 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25828694 TGGAATGAAG
25828704 TA TA 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 TA TA T
25828743 CATTTTGCAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25844460 original size:5 final size:5
Alignment explanation
Indices: 25844450--25844482 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
25844440 CTGACCTTAA
25844450 TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCT
1 TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCT
25844483 CCTTTGTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (5 bp):
TCTAG
Found at i:25844736 original size:15 final size:16
Alignment explanation
Indices: 25844716--25844750 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25844706 TTTTTTTAAT
25844716 TTCTAAGT-AAGGAAA
1 TTCTAAGTAAAGGAAA
*
25844731 TTCTAAGTAAAGGAAT
1 TTCTAAGTAAAGGAAA
25844747 TTCT
1 TTCT
25844751 TTTTGTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (16 bp):
TTCTAAGTAAAGGAAA
Found at i:25853012 original size:18 final size:18
Alignment explanation
Indices: 25852989--25853031 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
25852979 TATACGTATG
25852989 TTATTTACATTAT-TATTA
1 TTATTTACATTATATA-TA
* *
25853007 TTATTTTCTTTATATATA
1 TTATTTACATTATATATA
25853025 TTATTTA
1 TTATTTA
25853032 TCTAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTACATTATATATA
Found at i:25864157 original size:15 final size:14
Alignment explanation
Indices: 25864134--25864166 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25864124 TGATTCCTAA
25864134 AAAAAATGA--ATG
1 AAAAAATGATGATG
25864146 AAAAAATGATGATG
1 AAAAAATGATGATG
25864160 AAAAAAT
1 AAAAAAT
25864167 AAAAATGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (14 bp):
AAAAAATGATGATG
Found at i:25865490 original size:44 final size:44
Alignment explanation
Indices: 25865435--25865963 Score: 338
Period size: 44 Copynumber: 11.3 Consensus size: 44
25865425 TCCCTAAGCA
* * * *
25865435 ACAGTGGAGCAGATCGAAGCTAGAATTCTTATCTCCCTGAGGTT
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
*
25865479 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* ** * *
25865523 ACAGTGGAGCAGATT-AAAATA-AAGGATCTTATCTCTCT-AAAGTT
1 ACAGCGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
* *
25865567 ACAGCAGAGTAGATCGCATCAGATTAAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGC---G--GA--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * *
25865621 ACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCT-AGGATT
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGA-GATT
* * ** *
25865665 ACAGTGGAGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTT
1 ACAGCGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
* * *
25865709 ACAGCAGAGTAAATCGCATCAGATTGAAGCCAGAAATCTTATCTTCCTAAGATT
1 ACAGC-G-G---A--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* *
25865763 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* ** * *
25865807 ACAGTGGAGCAGATT-AAAATAAAAGATCTTATCTCTCTGA-AGTT
1 ACAGCGGAGCAGATTGAAGCTAGAA-ATCTTATCTCCCTGAGA-TT
*
25865851 ACAGCAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGC---G--GA--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* *
25865905 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
*
25865949 ACAGCGGAGCGGATT
1 ACAGCGGAGCAGATT
25865964 AAGATAAAGG
Statistics
Matches: 377, Mismatches: 60, Indels: 96
0.71 0.11 0.18
Matches are distributed among these distances:
42 2 0.01
43 18 0.05
44 238 0.63
45 2 0.01
46 1 0.00
47 4 0.01
49 10 0.03
51 5 0.01
52 1 0.00
53 1 0.00
54 76 0.20
55 15 0.04
56 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (44 bp):
ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
Found at i:25865667 original size:98 final size:95
Alignment explanation
Indices: 25865435--25865957 Score: 305
Period size: 98 Copynumber: 5.6 Consensus size: 95
25865425 TCCCTAAGCA
* * *
25865435 ACAGTGGAGCAGATCGAAGCTAGAATTCTTATCTCCCTGAGG-TTACAGC--G-GA-G---CAGA
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCT-AGGATTACAGCAGGAGACGCATCAGA
* *
25865492 TTGAAGCTAGTAATCTTATCTCCCTGAGATT
65 TTGAAGCCAGAAATCTTATCTCCCTGAGATT
* ** * *
25865523 ACAGTGGAGCAGATT-AAAATA-AAGGATCTTATCTCTCTA-AAGTTACAGCAGAGTAGATCGCA
1 ACAGCGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTAGGA-TTACAGCAG-G-AGA-CGCA
*
25865585 TCAGATTAAAGCCAGAAATCTTATCTCCCTGAGATT
60 TCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
* * * * * * * *
25865621 ACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTAGGATTACAG-TGGAG-CGGATTAAAA
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTAGGATTACAGCAGGAGACGCATCAGAT
* *
25865684 T-AA---AG-GATCTTATCTCTCTGA-AGTT
66 TGAAGCCAGAAATCTTATCTCCCTGAGA-TT
* * *
25865709 ACAGCAGAGTAAATCGCATCAGATTGAAGCCAGAAATCTTATCTTCCTAAGATTACAGC--G-GA
1 ACAGC-G-G---A--G---CAGATTGAAGCTAGAAATCTTATCTCCCTAGGATTACAGCAGGAGA
* * *
25865771 -G---CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
56 CGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
* ** * * *
25865807 ACAGTGGAGCAGATT-AAAATAAAAGATCTTATCTCTCT-GAAGTTACAGCAGAGTAGATCGCAT
1 ACAGCGGAGCAGATTGAAGCTAGAA-ATCTTATCTCCCTAGGA-TTACAGCAG-G-AGA-CGCAT
25865870 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
61 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
* *
25865905 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCT-GAGATTACAGC-GGAG
1 ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTAG-GATTACAGCAGGAG
25865958 CGGATTAAGA
Statistics
Matches: 329, Mismatches: 56, Indels: 93
0.69 0.12 0.19
Matches are distributed among these distances:
86 2 0.01
87 12 0.04
88 77 0.23
89 3 0.01
90 1 0.00
91 3 0.01
92 2 0.01
93 16 0.05
94 2 0.01
95 6 0.02
96 5 0.02
97 6 0.02
98 181 0.55
99 12 0.04
100 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (95 bp):
ACAGCGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTAGGATTACAGCAGGAGACGCATCAGAT
TGAAGCCAGAAATCTTATCTCCCTGAGATT
Found at i:25865700 original size:142 final size:142
Alignment explanation
Indices: 25865444--25866014 Score: 964
Period size: 142 Copynumber: 4.0 Consensus size: 142
25865434 AACAGTGGAG
* * * * *
25865444 CAGATCGAAGCTAGAATTCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTAGTAATCTT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
25865509 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAG
25865574 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
25865586 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
25865651 ATCTCCCT-AGGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCA
66 ATCTCCCTGA-GATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCA
*
25865715 GAGTAAATCGCAT
130 GAGTAGATCGCAT
* *
25865728 CAGATTGAAGCCAGAAATCTTATCTTCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
25865793 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAG
25865858 AGTAGATCGCAT
131 AGTAGATCGCAT
25865870 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
25865935 ATCTCCCTGAGATTACAGCGGAGCGGATTAAGATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAG
25866000 AGTAGATCGCAT
131 AGTAGATCGCAT
25866012 CAG
1 CAG
25866015 GTCTTATCTC
Statistics
Matches: 402, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 1 0.00
142 400 1.00
143 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAG
AGTAGATCGCAT
Found at i:25873058 original size:30 final size:30
Alignment explanation
Indices: 25872993--25873100 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 30
25872983 ACAATTGAAT
*
25872993 CAAAATCAAAGTTTTATGTGTATATTTCAAC
1 CAAAATCAAA-TTTTATGTGTATATTGCAAC
25873024 CAAAATCAAATTTTAATGTGTATAGTTGC-A-
1 CAAAATCAAATTTT-ATGTGTATA-TTGCAAC
* * * *
25873054 CAAAATCAAATATTATGTATCAAATTGCAAA
1 CAAAATCAAATTTTATGTGT-ATATTGCAAC
**
25873085 CTGAATCAAATTTTAT
1 CAAAATCAAATTTTAT
25873101 ATATAGTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
29 9 0.14
30 20 0.31
31 33 0.51
32 3 0.05
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (30 bp):
CAAAATCAAATTTTATGTGTATATTGCAAC
Found at i:25874745 original size:18 final size:18
Alignment explanation
Indices: 25874722--25874767 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
25874712 TAATTGGATG
*
25874722 CTTAAATATGTTTTAAAA
1 CTTAAATATGTTGTAAAA
*
25874740 CTTAAATATGTTGTAACA
1 CTTAAATATGTTGTAAAA
*
25874758 CATAAATATG
1 CTTAAATATG
25874768 GGGTGGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (18 bp):
CTTAAATATGTTGTAAAA
Found at i:25875715 original size:30 final size:29
Alignment explanation
Indices: 25875650--25875722 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
25875640 ATGAATGAAA
*
25875650 TTTTTAACAAAAATGATTAATTTGCTCTT
1 TTTTTAACAAAAATGATTAATTTGATCTT
25875679 TGTTTTAACAAACAA-GAATTAATTT-ATCTAT
1 T-TTTTAACAAA-AATG-ATTAATTTGATCT-T
*
25875710 TTTTTAATAAAAA
1 TTTTTAACAAAAA
25875723 AATAAAATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 3 0.08
30 23 0.61
31 12 0.32
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTTTAACAAAAATGATTAATTTGATCTT
Found at i:25880804 original size:5 final size:5
Alignment explanation
Indices: 25880794--25880830 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
25880784 TATATTTAAA
25880794 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
25880831 TTAACATACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:25880806 original size:15 final size:15
Alignment explanation
Indices: 25880783--25880821 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
25880773 AGTAAACAAA
25880783 TTATATTTAAATTATT
1 TTAT-TTTAAATTATT
**
25880799 TTATTTTATTTTATT
1 TTATTTTAAATTATT
25880814 TTATTTTA
1 TTATTTTA
25880822 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTAAATTATT
Found at i:25885507 original size:8 final size:7
Alignment explanation
Indices: 25885487--25885520 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
25885477 TTTTTAAATA
*
25885487 CATTTCT
1 CATTTCC
25885494 CATTTCCC
1 CATTT-CC
25885502 CATTTCC
1 CATTTCC
25885509 CATTTCC
1 CATTTCC
25885516 CATTT
1 CATTT
25885521 TTAAAATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47
Consensus pattern (7 bp):
CATTTCC
Found at i:25885507 original size:15 final size:14
Alignment explanation
Indices: 25885487--25885520 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
25885477 TTTTTAAATA
*
25885487 CATTTCTCATTTCCC
1 CATTTCCCATTT-CC
25885502 CATTTCCCATTTCC
1 CATTTCCCATTTCC
25885516 CATTT
1 CATTT
25885521 TTAAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47
Consensus pattern (14 bp):
CATTTCCCATTTCC
Found at i:25890286 original size:2 final size:2
Alignment explanation
Indices: 25890279--25890311 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
25890269 TTTTTCAGAT
*
25890279 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25890312 TGTTCTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25890493 original size:13 final size:14
Alignment explanation
Indices: 25890464--25890505 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
25890454 CCGGCCCAAT
25890464 ACCAAAA-ATAAATA
1 ACCAAAATATAAA-A
*
25890478 AACAAAATATAAAA
1 ACCAAAATATAAAA
25890492 ACCAAAA-ATAAAA
1 ACCAAAATATAAAA
25890505 A
1 A
25890506 AATCCAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.28
14 13 0.52
15 5 0.20
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (14 bp):
ACCAAAATATAAAA
Found at i:25890499 original size:15 final size:14
Alignment explanation
Indices: 25890464--25890506 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
25890454 CCGGCCCAAT
25890464 ACCAAAAATAAATAA
1 ACCAAAAATAAA-AA
25890479 A-C-AAAATATAAAA
1 ACCAAAAATA-AAAA
25890492 ACCAAAAATAAAAA
1 ACCAAAAATAAAAA
25890506 A
1 A
25890507 ATCCAAGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.36
14 9 0.36
15 7 0.28
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (14 bp):
ACCAAAAATAAAAA
Found at i:25890507 original size:15 final size:15
Alignment explanation
Indices: 25890464--25890512 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
25890454 CCGGCCCAAT
*
25890464 ACCAAAAATAAATAA
1 ACCAAAAATAAAAAA
*
25890479 A-C-AAAATATAAAA
1 ACCAAAAATAAAAAA
25890492 ACCAAAAATAAAAAA
1 ACCAAAAATAAAAAA
25890507 ATCCAA
1 A-CCAA
25890513 GTCCATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 10 0.36
14 2 0.07
15 12 0.43
16 4 0.14
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.12
Consensus pattern (15 bp):
ACCAAAAATAAAAAA
Found at i:25891792 original size:18 final size:21
Alignment explanation
Indices: 25891760--25891807 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
25891750 ATGGTGCCTC
*
25891760 TTTATTTACTAAAT-CTT-TTA
1 TTTATTT-TTAAATCCTTGTTA
25891780 TTT-TTTTTAAATCCTTGTTA
1 TTTATTTTTAAATCCTTGTTA
25891800 TTTATTTT
1 TTTATTTT
25891808 CTTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 9 0.38
21 4 0.17
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTTTTAAATCCTTGTTA
Found at i:25891841 original size:15 final size:16
Alignment explanation
Indices: 25891809--25891849 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
25891799 ATTTATTTTC
*
25891809 TTTATTATTATGCATT
1 TTTATTATTATCCATT
*
25891825 TTTATT-TTATCC-CT
1 TTTATTATTATCCATT
25891839 TTTATTATTAT
1 TTTATTATTAT
25891850 TATTTCTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 7 0.32
15 9 0.41
16 6 0.27
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTATTATCCATT
Found at i:25892000 original size:12 final size:12
Alignment explanation
Indices: 25891985--25892009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25891975 TCTTTTTTAT
25891985 TTTATTTATTCA
1 TTTATTTATTCA
25891997 TTTATTTATTCA
1 TTTATTTATTCA
25892009 T
1 T
25892010 CTATCATGTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:25902914 original size:35 final size:35
Alignment explanation
Indices: 25902875--25902945 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25902865 GGCTCCAAAA
25902875 CGGTACCGTTTTGAGATTTAACCCGTGAGGTGACC
1 CGGTACCGTTTTGAGATTTAACCCGTGAGGTGACC
*
25902910 CGGTACCGTTTTGAGCTTTAACCCGTGAGGTGACC
1 CGGTACCGTTTTGAGATTTAACCCGTGAGGTGACC
25902945 C
1 C
25902946 AACCCGAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.28
Consensus pattern (35 bp):
CGGTACCGTTTTGAGATTTAACCCGTGAGGTGACC
Found at i:25903302 original size:25 final size:26
Alignment explanation
Indices: 25903256--25903316 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
25903246 ATTAATTTGT
*
25903256 TTAATATTAGTTTATTAATATT-TTA
1 TTAATATTAGCTTATTAATATTATTA
*
25903281 TTAATATTAGCCTT-TTATTATTATTA
1 TTAATATTAG-CTTATTAATATTATTA
*
25903307 CTATATATTA
1 TTA-ATATTA
25903317 TTACTCTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 17 0.57
26 7 0.23
27 6 0.20
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (26 bp):
TTAATATTAGCTTATTAATATTATTA
Found at i:25903317 original size:13 final size:12
Alignment explanation
Indices: 25903296--25903331 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
25903286 ATTAGCCTTT
25903296 TATTATTATTAC
1 TATTATTATTAC
25903308 TATATATTATTAC
1 TAT-TATTATTAC
*
25903321 TCTTATTATTA
1 TATTATTATTA
25903332 TAGATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:25906685 original size:12 final size:10
Alignment explanation
Indices: 25906667--25906712 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
25906657 ACTTTAAGTC
25906667 AAAAAAAATG
1 AAAAAAAATG
*
25906677 ATGAAAAAATG
1 A-AAAAAAATG
25906688 AAAATAAAAATG
1 -AAA-AAAAATG
25906700 AAAAAAAATG
1 AAAAAAAATG
25906710 AAA
1 AAA
25906713 GTAAAAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 11 0.35
11 12 0.39
12 8 0.26
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:25906718 original size:12 final size:11
Alignment explanation
Indices: 25906681--25906721 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
25906671 AAAATGATGA
25906681 AAAAATGAAAAT
1 AAAAATG-AAAT
25906693 AAAAATGAAA-
1 AAAAATGAAAT
25906703 AAAAATGAAAGT
1 AAAAATGAAA-T
25906715 AAAAATG
1 AAAAATG
25906722 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.37
11 3 0.11
12 14 0.52
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (11 bp):
AAAAATGAAAT
Found at i:25906719 original size:22 final size:23
Alignment explanation
Indices: 25906670--25906721 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
25906660 TTAAGTCAAA
*
25906670 AAAAATGATGAAAAAATGAAAAT
1 AAAAATGATAAAAAAATGAAAAT
*
25906693 AAAAATGA-AAAAAAATGAAAGT
1 AAAAATGATAAAAAAATGAAAAT
25906715 AAAAATG
1 AAAAATG
25906722 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.15
Consensus pattern (23 bp):
AAAAATGATAAAAAAATGAAAAT
Found at i:25908119 original size:50 final size:50
Alignment explanation
Indices: 25908046--25908421 Score: 330
Period size: 50 Copynumber: 7.5 Consensus size: 50
25908036 GCAGTGGAAC
* * *
25908046 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * ** *
25908096 ATATTAAAGCTACAACAGCGAATCTTAC-TCTCCAGGCAATGCAGTGGAAC
1 AGATTAAAGCTACAACAGTGAATCTTGCTTC-CCCGACATTGCAGTTAAAA
* * *
25908146 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * ** *
25908196 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCTACAACAGTGAATCTTGCTTCCCC-GAC-ATTGCAGTTAAAA
* * * *
25908246 AGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
25908296 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-CGCAATGGAAC
1 AGATTAAAGCTACAACAGTGAATCTTGCTTCCCC-GAC-ATTGCAGTTAAAA
* * * *
25908346 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
25908396 AGATTAAAGCTACAATAGTGAATCTT
1 AGATTAAAGCTACAACAGTGAATCTT
25908422 AAATCCCAGA
Statistics
Matches: 245, Mismatches: 71, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
49 13 0.05
50 220 0.90
51 12 0.05
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:25908471 original size:200 final size:200
Alignment explanation
Indices: 25908032--25908491 Score: 656
Period size: 200 Copynumber: 2.3 Consensus size: 200
25908022 ACTTCTCAAG
* * * *
25908032 CGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
1 CGATGCACTGGAACAGATTAAAGCCACAGCAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
* * * *
25908097 TATTAAAGCTACAACAGCGAATCTTACTCTCCAGGCAATGCAGTGGAACAGATTAAAGCCACATC
66 GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCAACGCAATGGAACAGATTAAAGCCACATC
*
25908162 GGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCC
131 GGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAATCC
*
25908227 CCAGG
196 CCAGA
* * * * *
25908232 CGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAA
1 CGATGCACTGGAACAGATTAAAGCCACAGCAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
*
25908297 GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGACGCAATGGAACAGATTAAAGCCACATC
66 GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCAACGCAATGGAACAGATTAAAGCCACATC
* * *
25908362 GGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAATAGTGAATCTTAAAT-
131 GGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT-AATC
25908426 CCCAGA
195 CCCAGA
* * * * * **
25908432 CGGTGTACTGGAACCGATTGAAGCTACAGCAGCGAATCTTATTTCCCCGACA-T-CAGTTAA
1 CGATGCACTGGAACAGATTAAAGCCACAGCAGCGAATCTTGCTTCCCCGACATTGCAGTTAA
25908492 GCAGTTCAAA
Statistics
Matches: 236, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
198 7 0.03
199 1 0.00
200 226 0.96
201 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (200 bp):
CGATGCACTGGAACAGATTAAAGCCACAGCAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCAACGCAATGGAACAGATTAAAGCCACATC
GGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAATCC
CCAGA
Found at i:25908484 original size:100 final size:100
Alignment explanation
Indices: 25908031--25908422 Score: 703
Period size: 100 Copynumber: 3.9 Consensus size: 100
25908021 TACTTCTCAA
25908031 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
25908096 ATATTAAAGCTACAACAGCGAATCTTACTCTCCAG
66 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAG
*
25908131 GCAATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
25908196 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAG
66 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAG
*
25908231 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
25908296 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAG
66 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAG
* * *
25908331 GCGACGCAATGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
25908396 AGATTAAAGCTACAATAGTGAATCTTA
66 AGATTAAAGCTACAACAGCGAATCTTA
25908423 AATCCCAGAC
Statistics
Matches: 281, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 281 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (100 bp):
GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
AGATTAAAGCTACAACAGCGAATCTTACTCCCCAG
Found at i:25909985 original size:13 final size:12
Alignment explanation
Indices: 25909950--25909999 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
25909940 ATATTTTTAT
25909950 TATTATTATTAGCC
1 TATTATTATTA--C
*
25909964 TTTTATTATTAC
1 TATTATTATTAC
25909976 TATATATTATTAC
1 TAT-TATTATTAC
*
25909989 TCTTATTATTA
1 TATTATTATTA
25910000 TAGATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 11 0.34
13 11 0.34
14 10 0.31
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.58
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:25910008 original size:25 final size:27
Alignment explanation
Indices: 25909951--25910010 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
25909941 TATTTTTATT
* *
25909951 ATTATTATTAGCCTTTTATTATTACTAT
1 ATTATTATTA-CCTCTTATTATTACTAG
25909979 A-TATTATTA-CTCTTATTATTA-TAG
1 ATTATTATTACCTCTTATTATTACTAG
25910003 ATTATTAT
1 ATTATTAT
25910011 ATTTATCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 3 0.10
25 17 0.59
27 8 0.28
28 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (27 bp):
ATTATTATTACCTCTTATTATTACTAG
Found at i:25913410 original size:23 final size:23
Alignment explanation
Indices: 25913377--25913421 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
25913367 CATATTAAAT
*
25913377 CTACAAATCTTATCTCCCTGAAA
1 CTACAAATCTTATCCCCCTGAAA
*
25913400 CTACAAGTCTTATCCCCCTGAA
1 CTACAAATCTTATCCCCCTGAA
25913422 GTTGCAGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.29
Consensus pattern (23 bp):
CTACAAATCTTATCCCCCTGAAA
Found at i:25913463 original size:44 final size:44
Alignment explanation
Indices: 25913397--25913483 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
25913387 TATCTCCCTG
* * *
25913397 AAACTACAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCTGATTA
1 AAACTACAAGTCTTATCCCCCTGAAGTTACAATGGAGCAGATTA
* *
25913441 AAACTACAAGTTTTATCTCCCTGAAGTTACAATGGAGCAGATT
1 AAACTACAAGTCTTATCCCCCTGAAGTTACAATGGAGCAGATT
25913484 GAAGCGACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
AAACTACAAGTCTTATCCCCCTGAAGTTACAATGGAGCAGATTA
Found at i:25913659 original size:138 final size:138
Alignment explanation
Indices: 25913405--25913659 Score: 294
Period size: 138 Copynumber: 1.8 Consensus size: 138
25913395 TGAAACTACA
* * * **
25913405 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCTGATTAAAACTACAAGTTTTATCTCCCTGAAGTTA
1 AGTCTTATCCCCCTGAAGTAGCAGTGGAGCAGATTAAAACTACAAATCATATCTCCCTGAAGTTA
** * * * * * * *
25913470 CAATGGAGCAGATTGAAGCGACAAATCCTATGCCTCTGAATTTGTAGTGGGTCAGATTAAATCTA
66 CAACAGAGCAGAGTGAAACGACAAATCCTATACCCCTGAAGTTGAAATGGGTCAGATTAAATCTA
25913535 CCATAGCC
131 CCATAGCC
** * *
25913543 AGTCTTATTTCCCTGAAGTAGCAGTGGAGCAGATTAAAGCTACAAATCATATCTCCCTGAAGTTG
1 AGTCTTATCCCCCTGAAGTAGCAGTGGAGCAGATTAAAACTACAAATCATATCTCCCTGAAGTTA
* * * * * *
25913608 CAGCAGAGTAGAGTGAAACTACGATTCTTATACCCCTGAAGTTGAAATGGGT
66 CAACAGAGCAGAGTGAAACGACAAATCCTATACCCCTGAAGTTGAAATGGGT
25913660 TAGAATGAGA
Statistics
Matches: 93, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
138 93 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (138 bp):
AGTCTTATCCCCCTGAAGTAGCAGTGGAGCAGATTAAAACTACAAATCATATCTCCCTGAAGTTA
CAACAGAGCAGAGTGAAACGACAAATCCTATACCCCTGAAGTTGAAATGGGTCAGATTAAATCTA
CCATAGCC
Found at i:25913832 original size:15 final size:14
Alignment explanation
Indices: 25913813--25913858 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
25913803 CGTCCGGCCC
25913813 AAAACCAAAAATAA
1 AAAACCAAAAATAA
25913827 ATAAA-C-AAAATATA
1 A-AAACCAAAAATA-A
25913841 AAAACCAAAAATAA
1 AAAACCAAAAATAA
25913855 AAAA
1 AAAA
25913859 ATTCAAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.32
14 10 0.36
15 9 0.32
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAACCAAAAATAA
Found at i:25913859 original size:15 final size:15
Alignment explanation
Indices: 25913813--25913859 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
25913803 CGTCCGGCCC
25913813 AAAACCAAAAATAAA
1 AAAACCAAAAATAAA
* *
25913828 TAAA-C-AAAATATA
1 AAAACCAAAAATAAA
25913841 AAAACCAAAAATAAA
1 AAAACCAAAAATAAA
25913856 AAAA
1 AAAA
25913860 TTCAAGTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 14 0.54
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAACCAAAAATAAA
Found at i:25915253 original size:3 final size:3
Alignment explanation
Indices: 25915240--25915300 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
25915230 TTTATCCCTT
25915240 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25915287 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
25915301 TCTATCATTC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25915449 original size:12 final size:12
Alignment explanation
Indices: 25915432--25915456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25915422 CCTTTTTTAT
25915432 TTTATTTATTCA
1 TTTATTTATTCA
25915444 TTTATTTATTCA
1 TTTATTTATTCA
25915456 T
1 T
25915457 CTATCATGTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:25916220 original size:17 final size:16
Alignment explanation
Indices: 25916177--25916219 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
25916167 GTTTAACTGC
25916177 TTCTATTTTTCTCTAT
1 TTCTATTTTTCTCTAT
* *
25916193 TGTGTATTTTTCTTTAT
1 T-TCTATTTTTCTCTAT
25916210 TTCTATTTTT
1 TTCTATTTTT
25916220 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.72
Consensus pattern (16 bp):
TTCTATTTTTCTCTAT
Found at i:25917142 original size:3 final size:3
Alignment explanation
Indices: 25917134--25917197 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
25917124 TATACATTTC
25917134 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
25917182 ATT ATC ATT TTT ATT A
1 ATT ATT ATT ATT ATT A
25917198 GTGTTTAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25919590 original size:19 final size:19
Alignment explanation
Indices: 25919554--25919653 Score: 87
Period size: 19 Copynumber: 5.3 Consensus size: 19
25919544 AGTAGGGGAA
25919554 ACTGGCACACATAA-TGCAT
1 ACTGGCACACA-AAGTGCAT
*
25919573 ACTGGCACACGAAGTGCAT
1 ACTGGCACACAAAGTGCAT
* * *
25919592 CCTGACATACAAAGTGCAT
1 ACTGGCACACAAAGTGCAT
* * * * *
25919611 ATTGACGCACGAAGCGCAT
1 ACTGGCACACAAAGTGCAT
25919630 -CTTGGCACACAAAGTGCAT
1 AC-TGGCACACAAAGTGCAT
25919649 ACTGG
1 ACTGG
25919654 GAAAATTAGT
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
18 2 0.03
19 59 0.95
20 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (19 bp):
ACTGGCACACAAAGTGCAT
Found at i:25919610 original size:38 final size:38
Alignment explanation
Indices: 25919559--25919653 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
25919549 GGGAAACTGG
*
25919559 CACACATAA-TGCATACTGGCACACGAAGTGCATCCTGA
1 CACACA-AAGTGCATACTGGCACACGAAGCGCATCCTGA
* * * * * *
25919597 CATACAAAGTGCATATTGACGCACGAAGCGCATCTTGG
1 CACACAAAGTGCATACTGGCACACGAAGCGCATCCTGA
25919635 CACACAAAGTGCATACTGG
1 CACACAAAGTGCATACTGG
25919654 GAAAATTAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
37 2 0.04
38 44 0.96
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (38 bp):
CACACAAAGTGCATACTGGCACACGAAGCGCATCCTGA
Found at i:25925456 original size:10 final size:10
Alignment explanation
Indices: 25925438--25925471 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
25925428 CCTTTTAGAA
* *
25925438 ACATCTATAG
1 ACATATATAT
25925448 ACATATATAT
1 ACATATATAT
25925458 ACATATATAT
1 ACATATATAT
25925468 ACAT
1 ACAT
25925472 GAAGTTGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (10 bp):
ACATATATAT
Found at i:25926318 original size:2 final size:2
Alignment explanation
Indices: 25926311--25926342 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25926301 TCTTTTAAGA
25926311 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
25926343 TAGCATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25929793 original size:9 final size:9
Alignment explanation
Indices: 25929715--25929802 Score: 77
Period size: 9 Copynumber: 9.6 Consensus size: 9
25929705 ATTTATAAAA
*
25929715 TTTTATATT
1 TTTTATAAT
*
25929724 TTTTCTATAT
1 TTTTATA-AT
*
25929734 TTCTATAAT
1 TTTTATAAT
*
25929743 TTTTATGAT
1 TTTTATAAT
25929752 TTTTATAAT
1 TTTTATAAT
* *
25929761 TTTTTTAAA
1 TTTTATAAT
* *
25929770 TTTAATTAT
1 TTTTATAAT
*
25929779 TTTTATAAC
1 TTTTATAAT
25929788 TTTTATTAAT
1 TTTTA-TAAT
25929798 TTTTA
1 TTTTA
25929803 CTTTTTATCC
Statistics
Matches: 60, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
9 46 0.77
10 14 0.23
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:25940126 original size:15 final size:14
Alignment explanation
Indices: 25940106--25940189 Score: 71
Period size: 15 Copynumber: 5.8 Consensus size: 14
25940096 AATGCACCAC
25940106 AAACCCTAAAACAT
1 AAACCCTAAAACAT
*
25940120 AAAACCCTAAAACCCT
1 -AAACCCTAAAA-CAT
* *
25940136 AAGCACT-AAACATT
1 AAACCCTAAAACA-T
25940150 AAACCCTAAAACTAT
1 AAACCCTAAAAC-AT
* * *
25940165 AAACCTTAAACCCT
1 AAACCCTAAAACAT
25940179 AAACCCTAAAA
1 AAACCCTAAAA
25940190 TTAATAAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.02
14 19 0.35
15 31 0.57
16 3 0.06
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAACAT
Found at i:25940159 original size:7 final size:7
Alignment explanation
Indices: 25940106--25940188 Score: 58
Period size: 7 Copynumber: 11.4 Consensus size: 7
25940096 AATGCACCAC
25940106 AAACCCT
1 AAACCCT
* *
25940113 AAAACAT
1 AAACCCT
25940120 AAAACCCT
1 -AAACCCT
25940128 AAAACCCT
1 -AAACCCT
* *
25940136 AAGCACT
1 AAACCCT
**
25940143 AAACATT
1 AAACCCT
25940150 AAACCCT
1 AAACCCT
**
25940157 AAAACTAT
1 -AAACCCT
*
25940165 AAACCTT
1 AAACCCT
25940172 AAACCCT
1 AAACCCT
25940179 AAACCCT
1 AAACCCT
25940186 AAA
1 AAA
25940189 ATTAATAAAT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
7 41 0.69
8 18 0.31
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:25940174 original size:29 final size:29
Alignment explanation
Indices: 25940114--25940189 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
25940104 ACAAACCCTA
* * *
25940114 AAACATAAAACCCTAAAACCCTAAGCACT
1 AAACATTAAACCCTAAAACCATAAACACT
*
25940143 AAACATTAAACCCTAAAACTATAAAC-CTT
1 AAACATTAAACCCTAAAACCATAAACAC-T
**
25940172 AAACCCTAAACCCTAAAA
1 AAACATTAAACCCTAAAA
25940190 TTAATAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 1 0.03
29 39 0.98
ACGTcount: A:0.53, C:0.29, G:0.01, T:0.17
Consensus pattern (29 bp):
AAACATTAAACCCTAAAACCATAAACACT
Found at i:25941554 original size:168 final size:168
Alignment explanation
Indices: 25941276--25941613 Score: 667
Period size: 168 Copynumber: 2.0 Consensus size: 168
25941266 CATATCAAGC
*
25941276 CAGTTACGTTGAAATAATAAAAGGAGTAGAAAATTTGTTGAAAACACAACAAATTGAAGAAATAA
1 CAGTTACGTTGAAATAATAAAAGGAGTAGAAAATTTGTTGAAAACACAACAAATTCAAGAAATAA
25941341 AAGATTTTTATAATCCAGTCTTACCATTAGAATTATATAACGTTATTAATGAAATATGTAAAACT
66 AAGATTTTTATAATCCAGTCTTACCATTAGAATTATATAACGTTATTAATGAAATATGTAAAACT
25941406 CATATTTCTGAACAAAGAGCTAATTTTAGAAGAGCTCT
131 CATATTTCTGAACAAAGAGCTAATTTTAGAAGAGCTCT
25941444 CAGTTACGTTGAAATAATAAAAGGAGTAGAAAATTTGTTGAAAACACAACAAATTCAAGAAATAA
1 CAGTTACGTTGAAATAATAAAAGGAGTAGAAAATTTGTTGAAAACACAACAAATTCAAGAAATAA
25941509 AAGATTTTTATAATCCAGTCTTACCATTAGAATTATATAACGTTATTAATGAAATATGTAAAACT
66 AAGATTTTTATAATCCAGTCTTACCATTAGAATTATATAACGTTATTAATGAAATATGTAAAACT
25941574 CATATTTCTGAACAAAGAGCTAATTTTAGAAGAGCTCT
131 CATATTTCTGAACAAAGAGCTAATTTTAGAAGAGCTCT
25941612 CA
1 CA
25941614 CTAAGCTTTC
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 169 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (168 bp):
CAGTTACGTTGAAATAATAAAAGGAGTAGAAAATTTGTTGAAAACACAACAAATTCAAGAAATAA
AAGATTTTTATAATCCAGTCTTACCATTAGAATTATATAACGTTATTAATGAAATATGTAAAACT
CATATTTCTGAACAAAGAGCTAATTTTAGAAGAGCTCT
Found at i:25948371 original size:19 final size:20
Alignment explanation
Indices: 25948343--25948389 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
25948333 TTGAGAACTT
*
25948343 TTTGAG-AATTGGGAGA-AA
1 TTTGAGAAATTAGGAGAGAA
25948361 TTTGAGAAATTAGGAGAGAA
1 TTTGAGAAATTAGGAGAGAA
*
25948381 TTTGTGAAA
1 TTTGAGAAA
25948390 ATTGTGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (20 bp):
TTTGAGAAATTAGGAGAGAA
Found at i:25951614 original size:2 final size:2
Alignment explanation
Indices: 25951607--25951644 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25951597 AAAGTGAAGA
25951607 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
25951645 TATTTATTTT
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:25954291 original size:72 final size:71
Alignment explanation
Indices: 25954143--25954320 Score: 198
Period size: 72 Copynumber: 2.5 Consensus size: 71
25954133 CGTTGGCTAG
* * * *
25954143 TAAAATCGACAAATGAGTGTGCCTAGCACTGGTCAGTATAATTGACAAATAAGTGCGCCTTGAGC
1 TAAAATCGAAAAATGAGTGTGCC-AGCACTGGTCAGTATAAATGAAAAACAAGTGCGCCTTGAGC
* *
25954208 TGGCCGG
65 TAGCCGA
*
25954215 TAAAATCAAAAAATGAGTGTGCTCAGCACTGGTCAGTATAAATGAAAAACAAGTGCGCAC-T-AC
1 TAAAATCGAAAAATGAGTGTGC-CAGCACTGGTCAGTATAAATGAAAAACAAGTGCGC-CTTGA-
*
25954278 GCTAGTCGA
63 GCTAGCCGA
* * *
25954287 TAAAATTGAAAAATGACTGTGCCCAACACTGGTC
1 TAAAATCGAAAAATGAGTGTG-CCAGCACTGGTC
25954321 GATATAACTA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
71 1 0.01
72 86 0.96
73 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (71 bp):
TAAAATCGAAAAATGAGTGTGCCAGCACTGGTCAGTATAAATGAAAAACAAGTGCGCCTTGAGCT
AGCCGA
Found at i:25967261 original size:45 final size:45
Alignment explanation
Indices: 25967189--25967274 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
25967179 AAGGAGAAGG
*
25967189 GACCAAGGTGAAAACTAGCAAAAGGCACTTTGAGTCCTAAAAAGA
1 GACCAAGGTGAAAACCAGCAAAAGGCACTTTGAGTCCTAAAAAGA
* * *
25967234 GACCAAGGTGAAAACCCGTAAATGGCACTTTGAGTCCTAAA
1 GACCAAGGTGAAAACCAGCAAAAGGCACTTTGAGTCCTAAA
25967275 TAAAAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (45 bp):
GACCAAGGTGAAAACCAGCAAAAGGCACTTTGAGTCCTAAAAAGA
Found at i:25967968 original size:24 final size:24
Alignment explanation
Indices: 25967936--25967993 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
25967926 ATGTCCCAAA
*
25967936 ATTATAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
25967960 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
25967984 ATTACAGTGG
1 ATTACAGTGG
25967994 GGGCAATCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:25968337 original size:51 final size:51
Alignment explanation
Indices: 25968282--25968449 Score: 220
Period size: 51 Copynumber: 3.4 Consensus size: 51
25968272 CCCTAACATG
* * *
25968282 GCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTAGCGTT
1 GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTT
* * *
25968333 GCA---G--TAGATTAAAGTTGAAGGCAGCAAATCTTATTTCCTTAGCGTT
1 GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTT
* * *
25968379 GCACTGGAATAAATTAAAGCTGAAGGCAGCGAATCTTATTTCTCTAGCGTT
1 GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTT
25968430 GCAGTGGAATAGATTAAAGC
1 GCAGTGGAATAGATTAAAGC
25968450 CACAAATTAT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
46 39 0.39
48 1 0.01
49 1 0.01
51 58 0.59
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (51 bp):
GCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTT
Found at i:25968363 original size:46 final size:46
Alignment explanation
Indices: 25968292--25968434 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 46
25968282 GCAGTGGAAC
* *
25968292 AGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTAGCGTTGCAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGT
* * *
25968338 AGATTAAAGTTGAAGGCAGCAAATCTTATTTCCTTAGCGTTGCACTGGAAT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCA---G--T
* *
25968389 AAATTAAAGCTGAAGGCAGCGAATCTTATTTCTCTAGCGTTGCAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGT
25968435 GGAATAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
46 40 0.49
48 1 0.01
49 1 0.01
51 40 0.49
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (46 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGT
Found at i:25969238 original size:14 final size:14
Alignment explanation
Indices: 25969219--25969259 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25969209 AGTTGTGTCG
*
25969219 TTTTTATTTTTTTA
1 TTTTTATTTATTTA
25969233 TTTTTATTTATTTA
1 TTTTTATTTATTTA
**
25969247 TTTACATTTATTT
1 TTTTTATTTATTT
25969260 TTAAACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:25969256 original size:18 final size:18
Alignment explanation
Indices: 25969221--25969259 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25969211 TTGTGTCGTT
* **
25969221 TTTATTTTTTTATTTTTA
1 TTTATTTATTTACATTTA
25969239 TTTATTTATTTACATTTA
1 TTTATTTATTTACATTTA
25969257 TTT
1 TTT
25969260 TTAAACAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTATTTACATTTA
Found at i:25971288 original size:24 final size:23
Alignment explanation
Indices: 25971229--25971293 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
25971219 GAAATGTCTA
*
25971229 GTTTT-GACAACACTTAAAACAT
1 GTTTTGGACAACATTTAAAACAT
* **
25971251 GCTTTGGATGACATTTAAAACAT
1 GTTTTGGACAACATTTAAAACAT
*
25971274 ATTTTTGGACAACATTTAAA
1 -GTTTTGGACAACATTTAAA
25971294 CCTTACTTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 4 0.12
23 14 0.42
24 15 0.45
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (23 bp):
GTTTTGGACAACATTTAAAACAT
Found at i:25971326 original size:23 final size:23
Alignment explanation
Indices: 25971262--25971344 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
25971252 CTTTGGATGA
* * *
25971262 CATTTAAAACATATTTTTGGACAA
1 CATTTAAACCATACTTTT-GACAG
*
25971286 CATTTAAACCTTAC-TTTGACAG
1 CATTTAAACCATACTTTTGACAG
*
25971308 CATTTGAAA-CATACTTTTGCCAG
1 CATTT-AAACCATACTTTTGACAG
*
25971331 CATTTAAAGCATAC
1 CATTTAAACCATAC
25971345 CAAATGTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
22 16 0.32
23 23 0.46
24 11 0.22
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (23 bp):
CATTTAAACCATACTTTTGACAG
Found at i:25974167 original size:12 final size:12
Alignment explanation
Indices: 25974138--25974176 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
25974128 AACATTTTCA
25974138 TAAT-AAAATAT
1 TAATAAAAATAT
25974149 TAATAAAAAT-T
1 TAATAAAAATAT
*
25974160 TAATTAAAATAT
1 TAATAAAAATAT
25974172 TAATA
1 TAATA
25974177 TTATAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAAAAATAT
Found at i:25978559 original size:111 final size:111
Alignment explanation
Indices: 25978364--25978588 Score: 389
Period size: 111 Copynumber: 2.0 Consensus size: 111
25978354 CATATATGAT
*
25978364 CAAAATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATAATTTTTCATTACTGTAGGAGC
1 CAAAATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATAACTTTTCATTACTGTAGGAGC
*
25978429 CATTATTAATATTCAATACAGAACCATCTAATTAAGCAATGAATATC
66 CATTATTAATATTCAATACAGAACCATCT-ATTAAGCAATGAACATC
* * *
25978476 CAAAATATCTTAAAAGCTTGAAGAAG-AAAAAAGAACAATAGTCACTTTTCATTACTGTAGGAGC
1 CAAAATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATAACTTTTCATTACTGTAGGAGC
25978540 CATTATTAATATTCAATACAGAACCATCTATTAAGCAATGAACATC
66 CATTATTAATATTCAATACAGAACCATCTATTAAGCAATGAACATC
25978586 CAA
1 CAA
25978589 TAAACACTAA
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
110 19 0.18
111 63 0.58
112 26 0.24
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (111 bp):
CAAAATATCTTAAAAGCTTGAAGAAGAAAAAAAGAACAACAATAACTTTTCATTACTGTAGGAGC
CATTATTAATATTCAATACAGAACCATCTATTAAGCAATGAACATC
Found at i:25981240 original size:15 final size:15
Alignment explanation
Indices: 25981216--25981258 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25981206 TAGGGTTTTT
* *
25981216 TTTTTTTTTTTTATG
1 TTTTTGTTTTTTATA
25981231 TTTTTGTTTTTGT-TA
1 TTTTTGTTTTT-TATA
25981246 TTTTTGTTTTTTA
1 TTTTTGTTTTTTA
25981259 CAGGTTGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (15 bp):
TTTTTGTTTTTTATA
Found at i:25981714 original size:10 final size:9
Alignment explanation
Indices: 25981697--25981750 Score: 58
Period size: 10 Copynumber: 5.9 Consensus size: 9
25981687 AAATTTATAT
25981697 TTTAAAAAA
1 TTTAAAAAA
25981706 -TTATAAAAA
1 TTTA-AAAAA
25981715 TTCTAAAAAA
1 TT-TAAAAAA
25981725 TTTAAAAAAA
1 TTT-AAAAAA
*
25981735 TTT-AAAAT
1 TTTAAAAAA
25981743 TTTAAAAA
1 TTTAAAAA
25981751 TGTTCTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
8 10 0.26
9 10 0.26
10 17 0.44
11 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:25981733 original size:19 final size:19
Alignment explanation
Indices: 25981699--25981760 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
25981689 ATTTATATTT
25981699 TAAAAAA-TTATAAAAATTC
1 TAAAAAATTTA-AAAAATTC
25981718 TAAAAAATTTAAAAAAATT-
1 TAAAAAATTT-AAAAAATTC
* *
25981737 T-AAAATTTTAAAAATGTTC
1 TAAAAAATTTAAAAA-ATTC
25981756 TAAAA
1 TAAAA
25981761 TAATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.14
18 9 0.25
19 9 0.25
20 12 0.33
21 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAAAATTTAAAAAATTC
Found at i:25981761 original size:19 final size:17
Alignment explanation
Indices: 25981702--25981761 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 17
25981692 TATATTTTAA
*
25981702 AAAATTATAAAAATTCT
1 AAAATTTTAAAAATTCT
*
25981719 AAAAAATTTAAAAAAATT-T
1 --AAAATTT-TAAAAATTCT
25981738 AAAATTTTAAAAATGTTCT
1 AAAATTTTAAAAA--TTCT
25981757 AAAAT
1 AAAAT
25981762 AATAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 2 0.06
19 13 0.38
20 7 0.21
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATTTTAAAAATTCT
Found at i:25984371 original size:106 final size:106
Alignment explanation
Indices: 25984253--25984464 Score: 361
Period size: 106 Copynumber: 2.0 Consensus size: 106
25984243 CCTAGAAAAT
* * *
25984253 ATTTTGGCTTTGCCCCTCATGATGTCCTAAACTATTTCACAAAGAAAATTGAAATGTAGAAGAGA
1 ATTTTGGCTTTGCCCCTCATAATGTCCAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
* *
25984318 AGGGGAAAAAGAGTTTTTAATTAGTGCAAGTAGAGTGATAA
66 AAGGGAAAAAGAGTTTTTAATTAGTGCAAGCAGAGTGATAA
25984359 ATTTTGGCTTTGCCCCTCATAATGTCCAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
1 ATTTTGGCTTTGCCCCTCATAATGTCCAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
* *
25984424 AAGGGAAAAAGAGTTTTTGATTGGTGCAAGCAGAGTGATAA
66 AAGGGAAAAAGAGTTTTTAATTAGTGCAAGCAGAGTGATAA
25984465 GAGAAAGCCA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (106 bp):
ATTTTGGCTTTGCCCCTCATAATGTCCAAAACTATTTCACAAAGAAAATTGAAATGTAAAAGAGA
AAGGGAAAAAGAGTTTTTAATTAGTGCAAGCAGAGTGATAA
Found at i:25985438 original size:126 final size:124
Alignment explanation
Indices: 25985159--25985725 Score: 805
Period size: 126 Copynumber: 4.5 Consensus size: 124
25985149 GATAAAATCA
* * * * * * *
25985159 AAGCAGGATGATTTATTAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
25985224 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * *
25985283 AACCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCTCGTAGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
25985348 TGGTCTTGGAAGAAATAATTTTGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
* *
25985409 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTTGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
25985474 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAATATAAAACAACTCTGC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAA-AACGCTTC
*
25985535 AAGCAGGATGCTATT-TGAGAATAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
25985599 TAGGTACTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* *
25985659 TAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCAT-GTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTTGCTACAG
25985723 TAG
65 TAG
25985726 CATGTTTGGG
Statistics
Matches: 397, Mismatches: 40, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
123 1 0.00
124 129 0.32
125 77 0.19
126 188 0.47
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:25985666 original size:250 final size:250
Alignment explanation
Indices: 25985159--25985725 Score: 829
Period size: 250 Copynumber: 2.3 Consensus size: 250
25985149 GATAAAATCA
* * * * *
25985159 AAGCAGGATGATTTATTAGAAGGATTTTTGAAGTCGCGCCCACG-TGTACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTTG-ACGCGCTTTTGCTACAG
* * * *
25985223 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAACGCTTCAACCA
65 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTAAAAAACGCTGCAACCA
* *
25985288 GGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCTCGTAGACGCGCTTTTGCTACAGTTGGTC
130 GGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTC
* * *
25985353 TTGGAAGAAATAATTTTGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
195 TTGGAAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
25985409 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTTGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTTGACGCGCTTTTGCTACAGT
* * *
25985474 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAATATAAAACAACTCTGCAAGC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAAT-TAAAA-AACGCTGCAACC
* *
25985539 AGGATGCTATT-TGAGAATAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
129 AGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGG
* *
25985603 TAC-TGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
193 T-CTTGGAAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
25985659 TAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTTGACGCGCTTTTGCTACAGT
25985724 AG
66 AG
25985726 CATGTTTGGG
Statistics
Matches: 287, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
250 173 0.60
251 39 0.14
252 72 0.25
253 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTTGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTAAAAAACGCTGCAACCAG
GATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCT
TGGAAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:25988992 original size:22 final size:22
Alignment explanation
Indices: 25988896--25989609 Score: 686
Period size: 22 Copynumber: 33.0 Consensus size: 22
25988886 TCAAATTATA
25988896 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25988917 TTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25988938 TTT-ATTTAAGGG-TTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25988958 TTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGGTTTAGGGTT
*
25988980 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25989002 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25989023 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
25989044 TTTAGTGTTTTAGGGTTTAAGGTA
1 TTTA-AG-TTAAGGGTTTAGGGTT
* * ***
25989068 TTTAATTTAAAGGTTTACAATT
1 TTTAAGTTAAGGGTTTAGGGTT
25989090 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25989112 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
25989133 TTCAATTTAAGGGTTATA--ATT
1 TTTAAGTTAAGGGTT-TAGGGTT
*
25989154 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
25989176 TTAAAGTTAA-GGATTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25989197 TTTAAGTTTAA-GGTTTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTT
*
25989219 TTTAAGCTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25989240 TTTAGGGTTTAA-GGTTTAAGGTT
1 TTTA-AG-TTAAGGGTTTAGGGTT
* * *
25989263 TTTAATTTAAGGGTTTACGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25989285 TTTAAGTTAAGGTTTTAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
25989306 TTTAGAGTTAAGGG-TTAGGGTT
1 TTTA-AGTTAAGGGTTTAGGGTT
* *
25989328 TTTAATTTAAGGGTTATA--ATT
1 TTTAAGTTAAGGGTT-TAGGGTT
25989349 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
25989371 TTAAAGGTAAAGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25989392 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
25989414 TTTAATTTAAGGGTTTATAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25989436 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25989458 TTCAAGTTAAGGG-TTAGAG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
25989478 TTTAATTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25989499 TTTAGGGTTTTAA-GGTTTAAGGTT
1 TTTA-AG--TTAAGGGTTTAGGGTT
* * *
25989523 TTTAATTTAAGGGGTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
25989545 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25989566 TTTAAGTTTAA-GG-TTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTT
* *
25989587 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25989609 T
1 T
25989610 GTCAATTAAA
Statistics
Matches: 567, Mismatches: 94, Indels: 63
0.78 0.13 0.09
Matches are distributed among these distances:
20 36 0.06
21 215 0.38
22 271 0.48
23 32 0.06
24 13 0.02
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:25989269 original size:195 final size:194
Alignment explanation
Indices: 25988896--25989609 Score: 908
Period size: 195 Copynumber: 3.7 Consensus size: 194
25988886 TCAAATTATA
* * ***
25988896 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGTGTTAGGGTTTTT-ATTTAAGGGTTACGGTTT
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTATAATTT
* *
25988959 TAAAGTTAAGGGTTTAGGGTATTT-AATTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGT
66 TTAAGTTAAGGGTTTAGGGT-TTTAAAGTTAA-GG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGT
* * * *
25989022 TTTTAAGTTAAGGGTTTAGGGTTTTAGTGTTTTAGGGTTTAAGGTATTTAATTTAAAGGTTTACA
128 TTTTAAGTTAAGGGTTTAGGGTTTTAG-GGTTTAAGGTTTAAGGTTTTTAATTTAAAGGTTTACG
25989087 ATT
192 ATT
*
25989090 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTCAATTTAAGGGTTATAATTT
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTATAATTT
* *
25989155 TTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAGGATTAGTGTTTTTAAGTTTAA-GGTTTAGGGTT
66 TTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGG-TTAGGGTTTTTAAG-TTAAGGGTTTAGGGTT
* *
25989219 TTTAAGCTAAGGGTTTAGGGTTTTAGGGTTTAAGGTTTAAGGTTTTTAATTTAAGGGTTTACGAT
129 TTTAAGTTAAGGGTTTAGGGTTTTAGGGTTTAAGGTTTAAGGTTTTTAATTTAAAGGTTTACGAT
25989284 T
194 T
* * *
25989285 TTTAAGTTAAGGTTTTAAGGTTTTAGAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTATAATTT
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTATAATTT
*
25989350 TTAAGTTAAGGGTTTAGGGTTTTAAAGGTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
66 TTAAGTTAAGGGTTTAGGGTTTTAAA-GTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
* * * * * *
25989415 TTAATTTAAGGGTTTATAGTTTTTA-GG-TTAAGGGTTTAAGGTTTTCAAGTT-AAGGGTTA-GA
130 TTAAGTTAAGGGTTTA-GGGTTTTAGGGTTTAA-GGTTTAAGGTTTTTAATTTAAAGGTTTACGA
*
25989476 GT
193 TT
* ** * * **
25989478 TTTAATTTAAGGGTTTAGGGTTTTAGGGTTTTAAGGTTTAAGGTTTTTAATTTAAGGGGTTAGGA
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAG--TTAAGGGTTAGGGTTTTTAATTTAA-GGGTTATAA
* * *
25989543 TTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTTAAGGTTAGGGTTTTTAGGTTAAGGGTTTAAGG
63 TTTTTAAGTTAAGGGTTTAGGGTTTTAAAG-TTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
25989607 TTT
127 TTT
25989610 GTCAATTAAA
Statistics
Matches: 462, Mismatches: 45, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
193 27 0.06
194 28 0.06
195 297 0.64
196 110 0.24
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (194 bp):
TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTATAATTT
TTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTT
TAAGTTAAGGGTTTAGGGTTTTAGGGTTTAAGGTTTAAGGTTTTTAATTTAAAGGTTTACGATT
Found at i:25989510 original size:16 final size:16
Alignment explanation
Indices: 25989483--25989535 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
25989473 AGAGTTTTAA
*
25989483 TTTAAGGG-TTTAGGG
1 TTTAAGGGTTTTAAGG
*
25989498 TTTTAGGGTTTTAAGG
1 TTTAAGGGTTTTAAGG
*
25989514 TTTAAGGTTTTTAA--
1 TTTAAGGGTTTTAAGG
25989528 TTTAAGGG
1 TTTAAGGG
25989536 GTTAGGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 7 0.22
15 7 0.22
16 18 0.56
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (16 bp):
TTTAAGGGTTTTAAGG
Found at i:25990137 original size:18 final size:18
Alignment explanation
Indices: 25990111--25990154 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
25990101 AAATGGAAAA
* *
25990111 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
25990129 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
25990147 AGGAAACA
1 AGGAAACA
25990155 CAGCTGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.27, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:25991894 original size:98 final size:98
Alignment explanation
Indices: 25991778--25991974 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
25991768 AAAAAAATCA
* *
25991778 TAAAGGAAATTTTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
25991843 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
25991876 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
25991941 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
25991974 T
1 T
25991975 TTTATTGTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:25995991 original size:44 final size:44
Alignment explanation
Indices: 25995943--25996126 Score: 135
Period size: 44 Copynumber: 4.2 Consensus size: 44
25995933 AAGATTTCAG
25995943 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * ** * **
25995987 ATCTTATCTTTCCAAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATCTCTCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAA
** * * * * * **
25996031 GCCTTATCTC-CTTGAGCAGCAGTGGA-AAGGTTGAAGATTG-AA
1 ATCTTATCTCTC-TAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* *
25996073 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
25996118 ATCTTATCT
1 ATCTTATCT
25996127 TTCCAAGATA
Statistics
Matches: 101, Mismatches: 30, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
42 6 0.06
43 31 0.31
44 57 0.56
45 4 0.04
46 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
Found at i:25996172 original size:131 final size:132
Alignment explanation
Indices: 25995941--25996195 Score: 458
Period size: 131 Copynumber: 1.9 Consensus size: 132
25995931 TAAAGATTTC
*
25995941 AGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATA
* *
25996006 GTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCTTGAGCAGCAGTGGA-AAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCAGCAGTGGAGAAGGTTGAAGATT
25996070 GA
131 GA
*
25996072 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATA
*
25996137 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGTGGAGAAGGTTG
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCAGCAGTGGAGAAGGTTG
25996196 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
131 111 0.94
132 7 0.06
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (132 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATA
GTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAGCAGCAGTGGAGAAGGTTGAAGATT
GA
Found at i:25996497 original size:44 final size:44
Alignment explanation
Indices: 25996300--25996639 Score: 114
Period size: 44 Copynumber: 7.7 Consensus size: 44
25996290 NNNNNNCTTG
* * * * * *
25996300 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTAAAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATCATAGATCTTA
* * ***
25996344 TCTCCCTAAACAGTAGTGGAGCAGATTGAAGA-CGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATCATAG-ATCTTA
* * * *
25996388 TCTTTCC-AAG--GTAGTGGAAAGTAGATTTAAGCTACA-AG--CCTA
1 TC-TCCCTAAGCAGTAGTGG--AGTAGATTGAAGAT-CATAGATCTTA
* * * * *
25996430 GT-TCCCTTGAGTCAGCAGCGGAGTAGGTTGAAGATTATAGATCTTA
1 -TCTCCC-TAAG-CAGTAGTGGAGTAGATTGAAGATCATAGATCTTA
* ***
25996476 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATCATAG-ATCTTA
* * * * * *
25996520 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCA-AG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGTAGATTGAAG--ATCATAGATCTTA
* * * * *
25996564 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATATTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATCATAGATCTTA
* * *
25996608 TCTCCCTAAGCAGTAGTGTAGCAGATCGAAGA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA
25996640 CGGCGAATCT
Statistics
Matches: 208, Mismatches: 60, Indels: 56
0.64 0.19 0.17
Matches are distributed among these distances:
41 3 0.01
42 16 0.08
43 14 0.07
44 142 0.68
45 14 0.07
46 18 0.09
47 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATCATAGATCTTA
Found at i:25996782 original size:132 final size:132
Alignment explanation
Indices: 25996296--25996762 Score: 733
Period size: 132 Copynumber: 3.5 Consensus size: 132
25996286 NNNNNNNNNN
* * *
25996296 CTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTAAAGATCTTATCTCCCTAAACAGTAGT
1 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGT
* * * * *
25996361 GGAGCAGATTGAAGACGGCGAATCTTATCTTTCCAAGGTAGTGGAAAGTAGATTTAAGCTA-CAA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
25996425 GC
131 GC
* *
25996427 CTAGT-TCCCTTGAGTCAGCAGCGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTA
1 CTTGTCTCCC-TGAG-CAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTA
*
25996491 GTGGAGTAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
64 GTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
25996556 AAGC
129 AAGC
* * *
25996560 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATATTATCTCCCTAAGCAGTAGT
1 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGT
*
25996625 GTAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT-AGCCACCAA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
25996689 GC
131 GC
* * *
25996691 CTTGTCTCCCTGAGCAGTAGCGGAGAAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGT
25996756 GGAGCAG
66 GGAGCAG
25996763 GTCGTATCCA
Statistics
Matches: 309, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
130 4 0.01
131 84 0.27
132 204 0.66
133 13 0.04
134 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (132 bp):
CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
GC
Found at i:25998728 original size:98 final size:98
Alignment explanation
Indices: 25998613--25998809 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
25998603 AAAAAAATCA
* *
25998613 TAAAGGAAATTTTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAAAGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAAAGTATTGGGTGTGATTTC
25998678 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * * *
25998711 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAAAGTATTGGGTGTGATTTC
*
25998776 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
25998809 T
1 T
25998810 TTTATTGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAAAGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:25999239 original size:7 final size:7
Alignment explanation
Indices: 25999227--25999251 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25999217 TTATATTCAT
25999227 AATACTA
1 AATACTA
25999234 AATACTA
1 AATACTA
25999241 AATACTA
1 AATACTA
25999248 AATA
1 AATA
25999252 ACAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:26000454 original size:51 final size:51
Alignment explanation
Indices: 26000393--26000490 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
26000383 AATTATTTAA
26000393 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAGATT
* * * *
26000444 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
26000491 AAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.27, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:26000466 original size:11 final size:11
Alignment explanation
Indices: 26000452--26000506 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
26000442 TTAAATATGG
26000452 ATTTGAGAGAA
1 ATTTGAGAGAA
*
26000463 ATTTG-GAAGGA
1 ATTTGAG-AGAA
26000474 ATTTGAGAGCAA
1 ATTTGAGAG-AA
*
26000486 A-TTGAAAGGAA
1 ATTTGAGA-GAA
26000497 ATTTGAGAGA
1 ATTTGAGAGA
26000507 GGATTAGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
10 1 0.03
11 25 0.71
12 9 0.26
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:26000499 original size:23 final size:22
Alignment explanation
Indices: 26000452--26000506 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
26000442 TTAAATATGG
*
26000452 ATTTGAGAGAAATTTGGAAGGA
1 ATTTGAGAGAAATTTGAAAGGA
26000474 ATTTGAGAGCAAA-TTGAAAGGAA
1 ATTTGAGAG-AAATTTGAAAGG-A
26000497 ATTTGAGAGA
1 ATTTGAGAGA
26000507 GGATTAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGAAAGGA
Found at i:26002799 original size:22 final size:22
Alignment explanation
Indices: 26002749--26002799 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
26002739 CGCACTTGGT
*
26002749 TTACACTTTTGTGTCATGCTTC
1 TTACATTTTTGTGTCATGCTTC
26002771 TTAACATTTTTGTGTCATGCTTC
1 TT-ACATTTTTGTGTCATGCTTC
26002794 TTACAT
1 TTACAT
26002800 GGGGAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.51
Consensus pattern (22 bp):
TTACATTTTTGTGTCATGCTTC
Found at i:26004671 original size:59 final size:60
Alignment explanation
Indices: 26004607--26004730 Score: 173
Period size: 58 Copynumber: 2.1 Consensus size: 60
26004597 TTATTAATCC
* *
26004607 ATATTTTAAAAATAATTATATTAAGAATGTTATTAAATTATAT-ATTA-TTTTATTAAATT
1 ATATTTTAAAAATAACTATATTAA-AATATTATTAAATTATATCATTACTTTTATTAAATT
* * *
26004666 GTA-TTTAATAATAACTATTTTAAAATATTATTAAATTATATCATTACTTTTATTAAATT
1 ATATTTTAAAAATAACTATATTAAAATATTATTAAATTATATCATTACTTTTATTAAATT
26004725 ATATTT
1 ATATTT
26004731 AGTAATAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 17 0.30
58 21 0.38
59 16 0.29
60 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (60 bp):
ATATTTTAAAAATAACTATATTAAAATATTATTAAATTATATCATTACTTTTATTAAATT
Found at i:26004748 original size:59 final size:58
Alignment explanation
Indices: 26004611--26004750 Score: 187
Period size: 59 Copynumber: 2.4 Consensus size: 58
26004601 TAATCCATAT
* * *
26004611 TTTAAAAATAAT-TATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTA
1 TTTAATAATAATCTATATTAA-AATATTATTAAATTATATATTATTTTATTAAATTATA
*
26004669 TTTAATAATAA-CTATTTTAAAATATTATTAAATTATATCATTACTTTTATTAAATTATA
1 TTTAATAATAATCTATATTAAAATATTATTAAATTATAT-ATTA-TTTTATTAAATTATA
*
26004728 TTTAGTAATAATCT-TATTAAAAT
1 TTTAATAATAATCTATATTAAAAT
26004751 TTAATAACAA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
57 17 0.24
58 21 0.29
59 32 0.44
60 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTTAATAATAATCTATATTAAAATATTATTAAATTATATATTATTTTATTAAATTATA
Found at i:26007690 original size:14 final size:14
Alignment explanation
Indices: 26007673--26007700 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26007663 CTCACATTTC
26007673 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
26007687 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
26007701 GATTTCTGCT
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:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Done.