Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 1 of 24
Found at i:2269 original size:50 final size:50
Alignment explanation
Indices: 2228--2392 Score: 195
Period size: 50 Copynumber: 3.3 Consensus size: 50
2218 AAAATTCCTG
*
2228 AATGTATCGATACATCTGGGTTAAAACCCAAAATGTATTAAAACAATAAAA
1 AATGTATCGATACATCTAGG-TAAAACCCAAAATGTATTAAAACAATAAAA
* ** *
2279 AATGTATCGATACATCTAGGTAAAATCCAAAATGTATCGATACAATAAAA
1 AATGTATCGATACATCTAGGTAAAACCCAAAATGTATTAAAACAATAAAA
* * * **** * *
2329 AATGTATGGATACATCTGGGTAAAACCCAGAATGTATCGTTACAATGAAG
1 AATGTATCGATACATCTAGGTAAAACCCAAAATGTATTAAAACAATAAAA
2379 AATGTATCGATACA
1 AATGTATCGATACA
2393 AATTGTGAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 82 0.81
51 19 0.19
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (50 bp):
AATGTATCGATACATCTAGGTAAAACCCAAAATGTATTAAAACAATAAAA
Found at i:13510 original size:28 final size:27
Alignment explanation
Indices: 13474--13577 Score: 95
Period size: 28 Copynumber: 3.8 Consensus size: 27
13464 AAAAAAAAAT
*
13474 CGGGATTGGAGTATCCCTTCGAAAATAA
1 CGGGGTTGGAGTATCCC-TCGAAAATAA
* *
13502 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTAT-CCCTCGAAAATAA
** *
13530 CGGGGTCAGAGTATCCC-CGATGAGATAA
1 CGGGGTTGGAGTATCCCTCGA--AAATAA
*
13558 CGAGGTTGGAGTAT-CCTCGA
1 CGGGGTTGGAGTATCCCTCGA
13578 TTGTGAAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 2 0.03
27 5 0.08
28 51 0.84
29 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGAAAATAA
Found at i:13627 original size:52 final size:52
Alignment explanation
Indices: 13561--13783 Score: 213
Period size: 52 Copynumber: 4.3 Consensus size: 52
13551 GAGATAACGA
* *
13561 GGTTGGAGTATCCTCGATTGTGAAAAATTGGAAT-TTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATT-GAATGTTTTGGAAATAAAACCGG
** * * * *
13613 AATTGGAGTATCCTCGATTAAAG-GAAAAGTTG-GTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTGAATGTTTTGGAAATAAAACCGG
* * *
13666 GGTTGGAGTATCCCCGATTGTGGAAAAATT-AGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTGAATGTTTTGGAAATAAAACCGG
* * * * **
13718 GGTTGGAGTATCCCCGATTATGAGAAA-TCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGAATGTTTTGGAAATAAAACCGG
13769 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
13784 TCGGAAATAA
Statistics
Matches: 142, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
50 2 0.01
51 36 0.25
52 63 0.44
53 33 0.23
54 7 0.05
55 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGAATGTTTTGGAAATAAAACCGG
Found at i:13833 original size:27 final size:28
Alignment explanation
Indices: 13766--13841 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
13756 GAAATAAAGT
***
13766 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
13794 TGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
13821 CGGGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
13842 TGTGAGAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:13933 original size:51 final size:51
Alignment explanation
Indices: 13821--13946 Score: 119
Period size: 51 Copynumber: 2.4 Consensus size: 51
13811 CGATGATTAA
* * * * *
13821 CGGGGTTGGAGTATCCTCGATTGT-GAGAATTCGGTGTTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATAGAAAATT-AGTG--TTTTGAAAATAAAAT
* * *
13874 CTGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTCTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAAT
* * *
13925 CGGAGTTGGAATATCCCTGATT
1 CGGGGTTGGAGTATCCCCGATT
13947 TGTGGAGAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
51 32 0.52
53 23 0.38
54 6 0.10
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAAT
Found at i:16296 original size:33 final size:33
Alignment explanation
Indices: 16251--16317 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
16241 AAAATTTCCA
***
16251 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
* *
16284 AATGTATTGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
16317 A
1 A
16318 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:16361 original size:19 final size:18
Alignment explanation
Indices: 16337--16404 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
16327 CAGTAGCTAA
16337 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
16356 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
16371 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
16388 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
16405 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:16377 original size:13 final size:13
Alignment explanation
Indices: 16359--16383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16349 ACAATACTTA
16359 TGTATCGATACAT
1 TGTATCGATACAT
16372 TGTATCGATACA
1 TGTATCGATACA
16384 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16381 original size:32 final size:32
Alignment explanation
Indices: 16340--16402 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
16330 TAGCTAATTA
*
16340 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
16372 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
16403 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:16466 original size:21 final size:21
Alignment explanation
Indices: 16440--16516 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
16430 GTTGAGACCC
*
16440 TGTATCGATACATT-TATAGAA
1 TGTATCGATACATTCTACA-AA
*
16461 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
*
16482 TGTATTGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
16503 TGTATCGATACATT
1 TGTATCGATACATT
16517 TGAATTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 48 0.96
22 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:17194 original size:42 final size:42
Alignment explanation
Indices: 17148--17239 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
17138 ATTTTCCAAT
* * *
17148 GACAAAGGAAAAAGGGAAATGAAA-TACGTCCTGCTCTTTGAG
1 GACAAAAGAAAAAGGAAAAT-AAAGTACATCCTGCTCTTTGAG
* **
17190 GACAAAAGAAAGAGGAAAATAAAGTGTATCCTGCTCTTTGAG
1 GACAAAAGAAAAAGGAAAATAAAGTACATCCTGCTCTTTGAG
17232 GACTAAAA
1 GAC-AAAA
17240 AGTGCCACCA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.07
42 35 0.83
43 4 0.10
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (42 bp):
GACAAAAGAAAAAGGAAAATAAAGTACATCCTGCTCTTTGAG
Found at i:17222 original size:119 final size:116
Alignment explanation
Indices: 17023--17234 Score: 259
Period size: 119 Copynumber: 1.8 Consensus size: 116
17013 GGGTGTCCAC
* * * *
17023 TTTTCAAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAAGACCAAGGAAGAGAAGA
1 TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCCTGCTCCTTGAAGACAAAAGAAGAGAAGA
17088 AAAGGAAAGTGTCCTGCT-TCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
66 AAAGGAAAGTGTCCTGCTCT-TTGAGGACAAAGTGAAAAAGAGTACGTCCCA
* * * *
17139 TTTTCCAATGACAAAGGAAAAAGGGAAATGAAATACGTCCTGCTCTTTGAGGACAAAAGAA-AGA
1 TTTT-CAAGGACAAAGG-AAAAGAG-AATGAAATACGTCCTGCTCCTTGAAGACAAAAGAAGAGA
* *
17203 GGAAAA-TAAAGTGTATCCTGCTCTTTGAGGAC
63 AGAAAAGGAAAGTG--TCCTGCTCTTTGAGGAC
17235 TAAAAAGTGC
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
116 4 0.05
117 17 0.21
118 14 0.17
119 44 0.55
120 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (116 bp):
TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCCTGCTCCTTGAAGACAAAAGAAGAGAAGA
AAAGGAAAGTGTCCTGCTCTTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
Found at i:17353 original size:26 final size:26
Alignment explanation
Indices: 17264--17353 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
17254 TTGTGGGCTT
*
17264 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
17290 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
17317 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
17345 TGAAAGGTG
1 TGAAAGGTG
17354 CCACCAACTT
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
25 3 0.07
26 16 0.35
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:17429 original size:115 final size:115
Alignment explanation
Indices: 17217--17755 Score: 700
Period size: 115 Copynumber: 4.7 Consensus size: 115
17207 AATAAAGTGT
*
17217 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCT-TGTGGGCTTT----G-AAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACT-TGTGTGGGCTTTAAAAGAAAAGGCGTCC
*
17276 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGT
65 TGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGC
* *
17327 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCGTCC
1 ATCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
* * *
17391 CGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
65 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGC
* *
17442 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
* * *
17507 GCTCTTTGAGGACTGGAAAATGCTACCAACTTGTGTAGGCTTTAAAAGGAGAAGGC
66 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---A--AG-AGGC
* * * * *
17563 GTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCC
* *
17628 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCGAA-AGGC
65 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT-TAAGAGGC
* * * *
17679 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCC
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCC
17744 TGCTCTTTGAGG
65 TGCTCTTTGAGG
17756 GCTAAAAAGC
Statistics
Matches: 375, Mismatches: 36, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
109 4 0.01
110 40 0.11
114 1 0.00
115 149 0.40
116 74 0.20
117 3 0.01
118 2 0.01
120 2 0.01
121 51 0.14
122 49 0.13
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (115 bp):
ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGC
Found at i:17580 original size:61 final size:60
Alignment explanation
Indices: 17218--17755 Score: 640
Period size: 55 Copynumber: 9.2 Consensus size: 60
17208 ATAAAGTGTA
**
17218 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCT-TGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACT-TGTGTGGGCTTTAAAAGAAAAGGCG
*
17273 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
17328 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
17388 TCCCGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
17443 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
17503 TCCCGCTCTTTGAGGACTGGAAAATGCTACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
17564 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
17625 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGC-TT---CG-AAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
17680 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
17741 TCCTGCTCTTTGAGG
1 TCCTGCTCTTTGAGG
17756 GCTAAAAAGC
Statistics
Matches: 433, Mismatches: 25, Indels: 44
0.86 0.05 0.09
Matches are distributed among these distances:
54 4 0.01
55 186 0.43
56 7 0.02
57 4 0.01
59 2 0.00
60 98 0.23
61 132 0.30
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:18759 original size:14 final size:14
Alignment explanation
Indices: 18756--18803 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 14
18746 CTTTTTTTTG
18756 TTTTGTTTTGTCTTC
1 TTTT-TTTTGTCTTC
*
18771 TTTTTTTTTTC-T-
1 TTTTTTTTGTCTTC
18783 TTTTTTTTG-CTTC
1 TTTTTTTTGTCTTC
18796 TTTTTTTT
1 TTTTTTTT
18804 TGAAGAGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 1 0.03
12 9 0.31
13 9 0.31
14 6 0.21
15 4 0.14
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.83
Consensus pattern (14 bp):
TTTTTTTTGTCTTC
Found at i:18769 original size:21 final size:20
Alignment explanation
Indices: 18739--18786 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
18729 TTCTTTTCTC
18739 TCTTTTTCTT-TTTTTTGTTT
1 TCTTTTTCTTCTTTTTT-TTT
*
18759 TGTTTTGTCTTCTTTTTTTTT
1 TCTTTT-TCTTCTTTTTTTTT
18780 TCTTTTT
1 TCTTTTT
18787 TTTTGCTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 12 0.50
22 6 0.25
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.83
Consensus pattern (20 bp):
TCTTTTTCTTCTTTTTTTTT
Found at i:18785 original size:26 final size:25
Alignment explanation
Indices: 18747--18804 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
18737 TCTCTTTTTC
*
18747 TTTTTTTTGTTTTGTTTTGTCTTCTT
1 TTTTTTTTCTTTTGTTTTG-CTTCTT
*
18773 TTTTTTTTCTTTTTTTTTGCTTCTT
1 TTTTTTTTCTTTTGTTTTGCTTCTT
18798 TTTTTTT
1 TTTTTTT
18805 GAAGAGAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (25 bp):
TTTTTTTTCTTTTGTTTTGCTTCTT
Found at i:18804 original size:14 final size:14
Alignment explanation
Indices: 18723--18805 Score: 66
Period size: 14 Copynumber: 5.9 Consensus size: 14
18713 CTTAAGCAGG
18723 TTCTTTTTCTTTT-C
1 TTCTTTTT-TTTTGC
**
18737 TCTCTTTTTCTTTTTT
1 T-TCTTTTT-TTTTGC
* *
18753 TTGTTTTGTTTTGTC
1 TTCTTTTTTTTTG-C
18768 TTC-TTTTTTTT--
1 TTCTTTTTTTTTGC
18779 TTCTTTTTTTTTGC
1 TTCTTTTTTTTTGC
18793 TTCTTTTTTTTTG
1 TTCTTTTTTTTTG
18806 AAGAGAAGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
11 3 0.05
12 8 0.14
14 25 0.45
15 19 0.34
16 1 0.02
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (14 bp):
TTCTTTTTTTTTGC
Found at i:31236 original size:28 final size:27
Alignment explanation
Indices: 31205--31300 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 27
31195 ATCGGGATTT
31205 GAGTATCCCTTCGAAAATAACGGGGTTG
1 GAGTATCCC-TCGAAAATAACGGGGTTG
* *
31233 GAGTATCCCCTCGGAAGTAACGGGGTTG
1 GAGTAT-CCCTCGAAAATAACGGGGTTG
* *
31261 GAGTATCCC-CGATGAGATAACGAGGTTG
1 GAGTATCCCTCGA--AAATAACGGGGTTG
31289 GAGTAT-CCTCGA
1 GAGTATCCCTCGA
31301 TTGTGAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.03
27 5 0.09
28 48 0.83
29 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (27 bp):
GAGTATCCCTCGAAAATAACGGGGTTG
Found at i:31436 original size:52 final size:51
Alignment explanation
Indices: 31284--31459 Score: 219
Period size: 52 Copynumber: 3.4 Consensus size: 51
31274 GAGATAACGA
* * *
31284 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGT-GTTTT-GAAATAAAACCGG
** **
31336 AATTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTTG-AAATAAAACCGG
* *
31389 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTT-GAAATAAAACCGG
31441 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCCCGATT
31460 ATGAGAAATC
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
52 63 0.59
53 33 0.31
54 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAATAAAACCGG
Found at i:31586 original size:53 final size:51
Alignment explanation
Indices: 31521--31653 Score: 151
Period size: 51 Copynumber: 2.5 Consensus size: 51
31511 AAATAACGGG
* * * *
31521 GTTGGAGTATCCCCGATTGTGAGAATTTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAGAATTTAGTG--TCTAGAAAATAAAATCGGA
* *
31574 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTAGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AATTTAGTGTCTAGAAAATAAAATCGGA
*
31625 GTTGGAATATCCCCGATTTGTGGAGAATT
1 GTTGGAGTATCCCCGA-TTGT-GAGAATT
31654 GAGAAACTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
51 31 0.46
52 5 0.07
53 29 0.43
54 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAATTTAGTGTCTAGAAAATAAAATCGGA
Found at i:31629 original size:132 final size:131
Alignment explanation
Indices: 31386--31638 Score: 314
Period size: 132 Copynumber: 1.9 Consensus size: 131
31376 AAAATAAAAC
* *
31386 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTA
* * * * *
31451 TCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGTCAGGGTTGGAGTATCCCCTCGGAAATA
66 TCCCCGATTATGAGAAATCAATATCTAGAAAATAAAATCAGGGTTGGAATATCCCCTCGGAAATA
31516 A
131 A
* * * * *
31517 CGGGGTTGGAGTATCCCCGATTGT-GAGAATTTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG--TTTTAGAAATAAAACCGGAGTTGGAG
* * *
31581 TATCCCCGATTAT-AGAAAATTAGTGTCTAGAAAATAAAATC-GGAGTTGGAATATCCCC
64 TATCCCCGATTATGAG-AAATCAATATCTAGAAAATAAAATCAGG-GTTGGAATATCCCC
31639 GATTTGTGGA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
130 9 0.09
131 28 0.27
132 66 0.64
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (131 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTA
TCCCCGATTATGAGAAATCAATATCTAGAAAATAAAATCAGGGTTGGAATATCCCCTCGGAAATA
A
Found at i:34031 original size:33 final size:33
Alignment explanation
Indices: 33993--34059 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
33983 AAAATTTCCA
***
33993 AATGTATCAATACAAAGATCCATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
* *
34026 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
34059 A
1 A
34060 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCAATACAAAGAAAAATGTATCGATAC
Found at i:34032 original size:13 final size:13
Alignment explanation
Indices: 34014--34039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34004 ACAAAGATCC
34014 ATGTATCGATACA
1 ATGTATCGATACA
34027 ATGTATCGATACA
1 ATGTATCGATACA
34040 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34103 original size:19 final size:19
Alignment explanation
Indices: 34079--34133 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
34069 CAGTAGCTAA
*
34079 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
34098 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
34117 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
34134 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:34195 original size:21 final size:22
Alignment explanation
Indices: 34169--34226 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
34159 GTTGGGACCC
* *
34169 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
34190 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
34211 TGTATCGATACATTTG
1 TGTATCGATACATTTG
34227 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:36790 original size:20 final size:22
Alignment explanation
Indices: 36754--36794 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
36744 TATTTTTTAA
36754 AGAAAATTTTTTATTAAGGGGT
1 AGAAAATTTTTTATTAAGGGGT
36776 AGAAAA-TTTTT-TTAAGGGG
1 AGAAAATTTTTTATTAAGGGG
36795 GAGTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (22 bp):
AGAAAATTTTTTATTAAGGGGT
Found at i:37527 original size:13 final size:13
Alignment explanation
Indices: 37509--37538 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
37499 GATACATGGG
37509 ACATTGTATCGAT
1 ACATTGTATCGAT
37522 ACATTGTATCGAT
1 ACATTGTATCGAT
37535 ACAT
1 ACAT
37539 AGTGAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:37534 original size:33 final size:33
Alignment explanation
Indices: 37492--37561 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
37482 CTACCACTGT
**
37492 TTGTATCGATACAT-GGGACATTGTATCGATACA
1 TTGTATCGATACATAGGGA-AAAGTATCGATACA
*
37525 TTGTATCGATACATAGTGAAAAGTATCGATACA
1 TTGTATCGATACATAGGGAAAAGTATCGATACA
37558 TTGT
1 TTGT
37562 GCCCAACAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATAGGGAAAAGTATCGATACA
Found at i:38579 original size:31 final size:30
Alignment explanation
Indices: 38544--38634 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
38534 ACAACTGTGC
*
38544 TGAAACTTATTAGTTAAAAAGATGACTGAAA
1 TGAAACTTATTAGTAAAAAAGATGACT-AAA
* *
38575 TGAAAC-TATTAGTAAAAAATATGA-TTAA
1 TGAAACTTATTAGTAAAAAAGATGACTAAA
* *
38603 GGCAAAACTTATTAGTCAAAGAAGATGACTAA
1 TG--AAACTTATTAGT-AAAAAAGATGACTAA
38635 GGCAAAACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.06
29 1 0.02
30 20 0.42
31 13 0.27
32 9 0.19
33 2 0.04
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.27
Consensus pattern (30 bp):
TGAAACTTATTAGTAAAAAAGATGACTAAA
Found at i:38638 original size:32 final size:31
Alignment explanation
Indices: 38546--38661 Score: 121
Period size: 32 Copynumber: 3.7 Consensus size: 31
38536 AACTGTGCTG
* *
38546 AAACTTATTAGTTAAAAAGATGACTGAAATG--
1 AAACTTATTAGTCAAAAAGATGACT--AAGGCA
* * *
38577 AAAC-TATTAGTAAAAAATATGATTAAGGCA
1 AAACTTATTAGTCAAAAAGATGACTAAGGCA
38607 AAACTTATTAGTCAAAGAAGATGACTAAGGCA
1 AAACTTATTAGTCAAA-AAGATGACTAAGGCA
* *
38639 AAACTTATTAATCAAAAATATGA
1 AAACTTATTAGTCAAAAAGATGA
38662 TTTAGACAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 3 0.04
30 21 0.29
31 20 0.28
32 28 0.39
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.27
Consensus pattern (31 bp):
AAACTTATTAGTCAAAAAGATGACTAAGGCA
Found at i:38660 original size:63 final size:60
Alignment explanation
Indices: 38546--38673 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 60
38536 AACTGTGCTG
* * * *
38546 AAACTTATTAGTTAAAAAGATGACTGAAATGAAACTATTAGTAAAAAATATGATTAAGGCA
1 AAACTTATTAGTCAAAAAGATGACT-AAAGGAAACTATTAATAAAAAATATGATTAAGACA
* *
38607 AAACTTATTAGTCAAAGAAGATGACT-AAGGCAAAACTTATTAATCAAAAATATGATTTAGACA
1 AAACTTATTAGTCAAA-AAGATGACTAAAGG--AAAC-TATTAATAAAAAATATGATTAAGACA
38670 AAAC
1 AAAC
38674 CATCGGTCGA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
60 3 0.05
61 15 0.26
62 13 0.23
63 26 0.46
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (60 bp):
AAACTTATTAGTCAAAAAGATGACTAAAGGAAACTATTAATAAAAAATATGATTAAGACA
Found at i:43343 original size:17 final size:17
Alignment explanation
Indices: 43321--43353 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43311 TACATTAAAT
43321 AATGTATCGATACATTG
1 AATGTATCGATACATTG
*
43338 AATGTATTGATACATT
1 AATGTATCGATACATT
43354 ATTTAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
AATGTATCGATACATTG
Found at i:43448 original size:13 final size:13
Alignment explanation
Indices: 43430--43454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43420 ACAAAACTTA
43430 TGTATCGATACAT
1 TGTATCGATACAT
43443 TGTATCGATACA
1 TGTATCGATACA
43455 ATTTGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:44314 original size:104 final size:104
Alignment explanation
Indices: 44117--44385 Score: 387
Period size: 104 Copynumber: 2.6 Consensus size: 104
44107 GATAAAGAAG
* * * * * *
44117 AGAAGAGTGCTAAAGTGCTGATTCAAGGTTAGCGATGTTGGGCTTTAAGATGATAAAGGTGCCAA
1 AGAAG-GTGCTAATGTGCTGATTCAAGGCTAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAA
** *
44182 TATGCTGATTCAAGGTTAGCGATGTTGGACTTGAGAAAA-A
65 TATGCTGATTCAAGGCCAGCGATATTGGACTTGA-AAAAGA
* *
44222 AGAAGGTACTAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGATAAAGGTGCCAAT
1 AGAAGGTGCTAATGTGCTGATTCAAGGCTAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAAT
44287 ATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAAAGA
66 ATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAAAGA
* * *
44326 AGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACGTTGGACTTAAAGATGATAAAGGTG
1 AGAAGGTGCTAATGTGCTGATTCAAGGCTAGCAACGTTGGACTTAAAGATGATAAAGGTG
44386 AAAAGAGTGC
Statistics
Matches: 147, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
103 4 0.03
104 138 0.94
105 5 0.03
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.25
Consensus pattern (104 bp):
AGAAGGTGCTAATGTGCTGATTCAAGGCTAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAAT
ATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAAAGA
Found at i:44355 original size:52 final size:53
Alignment explanation
Indices: 44117--44353 Score: 243
Period size: 52 Copynumber: 4.5 Consensus size: 53
44107 GATAAAGAAG
* * * * * * * *
44117 AGAAGAGTGCTAAAGTGCTGATTCAAGGTTAGCGATGTTGGGCTTTAAGATGAT
1 AGAAG-GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTGAAAAAGAT
* * *
44171 A-AAGGTGCCAATATGCTGATTCAAGGTTAGCGATGTTGGACTTGAGAAAA-A-
1 AGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTGA-AAAAGAT
* * * * *
44222 AGAAGGTACTAATGTGCTGATTCAAGGCTAGCAACATTGGACTT-AAAGATGAT
1 AGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTGAAA-AAGAT
* *
44275 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAAAGA-
1 AGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTGAAAAAGAT
44326 AGAAGGTGCCAATGTGCTGATTCAAGGC
1 AGAAGGTGCCAATGTGCTGATTCAAGGC
44354 CAACAACGTT
Statistics
Matches: 153, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
50 2 0.01
51 4 0.03
52 137 0.90
53 9 0.06
54 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (53 bp):
AGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTGAAAAAGAT
Found at i:44384 original size:52 final size:52
Alignment explanation
Indices: 44132--44385 Score: 235
Period size: 52 Copynumber: 4.9 Consensus size: 52
44122 AGTGCTAAAG
** * * * *
44132 TGCTGATTCAAGGTTAGCGATGTTGGGCTTTAAGATGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATA
** * * * ** * * * *
44184 TGCTGATTCAAGGTTAGCGATGTTGGACTT-GAGAAAAAAGAAGGTACTAATG
1 TGCTGATTCAAGGCCAGCAACGTTGGACTTAAAGATGATA-AAGGTGCCAATA
* *
44236 TGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATA
* ** * *
44288 TGCTGATTCAAGGCCAGCGATATTGGACTTGAAA-AAGA-AGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCAACGTTGGACTT-AAAGATGATA-AAGGTGCCAATA
*
44340 TGCTGATTCAAGGCCAACAACGTTGGACTTAAAGATGATAAAGGTG
1 TGCTGATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTG
44386 AAAAGAGTGC
Statistics
Matches: 167, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
51 9 0.05
52 149 0.89
53 9 0.05
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (52 bp):
TGCTGATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATA
Found at i:44621 original size:32 final size:32
Alignment explanation
Indices: 44585--44671 Score: 110
Period size: 32 Copynumber: 2.7 Consensus size: 32
44575 TACCACCAAT
44585 TTGTGTGGGCTTTAAGAAGGGTTGTC-ACC-GAC
1 TTGTGTGGGCTTTAAGAAGGGTTG-CAACCAG-C
44617 TTGTGTGGGCTTTAAGCAA-GGTTGCAACCAGC
1 TTGTGTGGGCTTTAAG-AAGGGTTGCAACCAGC
44649 TTGTGTGGGCTTTATA-AAGGGTT
1 TTGTGTGGGCTTTA-AGAAGGGTT
44672 CTCCACTTGG
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
31 3 0.06
32 43 0.86
33 4 0.08
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.33
Consensus pattern (32 bp):
TTGTGTGGGCTTTAAGAAGGGTTGCAACCAGC
Found at i:44884 original size:28 final size:28
Alignment explanation
Indices: 44841--44918 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
44831 ATACAGCAAG
*
44841 TGCCACT-AATTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGACTTTGAAAAGA
* * *
44868 TGCCACTGACTTGTGGACTTCGAAGAGG
1 TGCCACTGACTTGTGGACTTTGAAAAGA
* *
44896 TGCCACTGACTAGTGGGCTTTGA
1 TGCCACTGACTTGTGGACTTTGA
44919 GAAGGGATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 7 0.16
28 36 0.84
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGACTTTGAAAAGA
Found at i:44998 original size:14 final size:13
Alignment explanation
Indices: 44932--45019 Score: 54
Period size: 14 Copynumber: 6.5 Consensus size: 13
44922 GGGATTTGTG
44932 TTGACAAACATTTC
1 TTGACAAA-ATTTC
* *
44946 TTGACGAAGTTTC
1 TTGACAAAATTTC
*
44959 -TGAC-ACATGTTC
1 TTGACAAAAT-TTC
* * *
44971 TCGAAAAAAGTTC
1 TTGACAAAATTTC
44984 TTGACGAAAATTTC
1 TTGAC-AAAATTTC
*
44998 TTAACAATAATTTTC
1 TTGACAA-AA-TTTC
45013 TTGACAA
1 TTGACAA
45020 TGGCAAATTA
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
11 2 0.04
12 7 0.13
13 14 0.25
14 22 0.40
15 10 0.18
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:45203 original size:21 final size:22
Alignment explanation
Indices: 45168--45209 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
45158 CTGGCTTGAT
*
45168 ATGATGTTGTAAATG-ATGGTG
1 ATGATGTTGCAAATGCATGGTG
*
45189 ATGATGTTGCGAATGCATGGT
1 ATGATGTTGCAAATGCATGGT
45210 ACGGAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.36
Consensus pattern (22 bp):
ATGATGTTGCAAATGCATGGTG
Found at i:46267 original size:23 final size:21
Alignment explanation
Indices: 46234--46295 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
46224 TCCCTTTTCT
*
46234 TGTTTGTTGTTTTATTTTTTTA
1 TGTTTTTTGTTTT-TTTTTTTA
*
46256 TGTTTTTATGTTTTTTTGTTTGTT
1 TGTTTTT-TGTTTTTTT-TTT-TA
*
46280 TTTTTTTTGTTTTTTT
1 TGTTTTTTGTTTTTTT
46296 ACAGAGGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 9 0.26
23 18 0.53
24 7 0.21
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (21 bp):
TGTTTTTTGTTTTTTTTTTTA
Found at i:46272 original size:11 final size:11
Alignment explanation
Indices: 46240--46295 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
46230 TTCTTGTTTG
46240 TTGTTTTATTTT
1 TTGTTTT-TTTT
*
46252 TT-TATGTTTTT
1 TTGT-TTTTTTT
*
46263 ATGTTTTTTTGT
1 TTGTTTTTTT-T
46275 TTGTTTTTTTT
1 TTGTTTTTTTT
46286 TTGTTTTTTT
1 TTGTTTTTTT
46296 ACAGAGGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 22 0.59
12 15 0.41
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:62031 original size:32 final size:30
Alignment explanation
Indices: 61995--62053 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
61985 AAAAACAAAT
61995 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
62027 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
62054 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:62353 original size:13 final size:13
Alignment explanation
Indices: 62335--62360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62325 AATTTTTTTG
62335 TGTATCGATACAT
1 TGTATCGATACAT
62348 TGTATCGATACAT
1 TGTATCGATACAT
62361 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:62385 original size:19 final size:19
Alignment explanation
Indices: 62348--62385 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
62338 ATCGATACAT
*
62348 TGTATCGATACATACTTGG
1 TGTATCGATACAAACTTGG
*
62367 TGTATCGATACAAATTTGG
1 TGTATCGATACAAACTTGG
62386 CTATTGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAAACTTGG
Found at i:62483 original size:20 final size:20
Alignment explanation
Indices: 62430--62485 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
62420 ACAACTTTTT
*
62430 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
62450 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
62469 TTATGTATCGATACTTT
1 -CATGTATCGATACTTT
62486 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:64915 original size:13 final size:13
Alignment explanation
Indices: 64897--64930 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
64887 ATAATCCCCC
64897 TGTATCGATACAG
1 TGTATCGATACAG
*
64910 TGTATCGATACAT
1 TGTATCGATACAG
64923 TGTATCGA
1 TGTATCGA
64931 ACAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:68877 original size:21 final size:21
Alignment explanation
Indices: 68848--68892 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
68838 AAGTTTTTAT
*
68848 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
68868 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
68890 TTT
1 TTT
68893 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:70810 original size:32 final size:30
Alignment explanation
Indices: 70774--70832 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
70764 GAAAACAAAT
70774 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
70806 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
70833 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:71057 original size:19 final size:20
Alignment explanation
Indices: 71020--71059 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
71010 TCTCGTGTGA
71020 ATGTATCAATACAATATTTG
1 ATGTATCAATACAATATTTG
*
71040 ATGTATCGATAC-ATATTTG
1 ATGTATCAATACAATATTTG
71059 A
1 A
71060 AAAATATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACAATATTTG
Found at i:71132 original size:13 final size:13
Alignment explanation
Indices: 71114--71139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71104 AATTTTTTTG
71114 TGTATCGATACAT
1 TGTATCGATACAT
71127 TGTATCGATACAT
1 TGTATCGATACAT
71140 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:71164 original size:19 final size:19
Alignment explanation
Indices: 71127--71164 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
71117 ATCGATACAT
*
71127 TGTATCGATACATACTTGG
1 TGTATCGATACAAACTTGG
*
71146 TGTATCGATACAAATTTGG
1 TGTATCGATACAAACTTGG
71165 CTACTGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAAACTTGG
Found at i:71262 original size:20 final size:20
Alignment explanation
Indices: 71209--71264 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
71199 ACAACTTTTT
*
71209 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
71229 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
71248 TTATGTATCGATACTTT
1 -CATGTATCGATACTTT
71265 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:71888 original size:30 final size:30
Alignment explanation
Indices: 71852--71908 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
71842 TTGGGTTGAA
71852 TGAAATTAGCAAAAGTTAATTTTGAAAATT
1 TGAAATTAGCAAAAGTTAATTTTGAAAATT
71882 TGAAATTAGCAAAAGTTAATTTTGAAA
1 TGAAATTAGCAAAAGTTAATTTTGAAA
71909 TTTTCTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (30 bp):
TGAAATTAGCAAAAGTTAATTTTGAAAATT
Found at i:77900 original size:27 final size:26
Alignment explanation
Indices: 77858--77908 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
77848 ATTTTCGATT
*
77858 GAAAAATGGAGATGGAGTGTCCCCTC
1 GAAAAATGGAGATGGAGTATCCCCTC
77884 GAAATAATGG-GATTGGAGTATCCCC
1 GAAA-AATGGAGA-TGGAGTATCCCC
77909 GATAAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (26 bp):
GAAAAATGGAGATGGAGTATCCCCTC
Found at i:80245 original size:13 final size:13
Alignment explanation
Indices: 80229--80254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80219 TAGGGTAGTT
80229 TTGTATCGATACA
1 TTGTATCGATACA
80242 TTGTATCGATACA
1 TTGTATCGATACA
80255 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:80278 original size:31 final size:32
Alignment explanation
Indices: 80236--80316 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 32
80226 GTTTTGTATC
80236 GATACATTGTATCGATACAAAACTTATGTTTT
1 GATACATTGTATCGATACAAAACTTATGTTTT
*
80268 GAT-CATTGTATCGATACAAAATTTATGTTTT
1 GATACATTGTATCGATACAAAACTTATGTTTT
* *
80299 GATACATTATATTGATAC
1 GATACATTGTATCGATAC
80317 CAATTGTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 30 0.67
32 15 0.33
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (32 bp):
GATACATTGTATCGATACAAAACTTATGTTTT
Found at i:82418 original size:2 final size:2
Alignment explanation
Indices: 82411--82437 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
82401 AACACAACTT
82411 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 T
82438 CATAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83289 original size:20 final size:19
Alignment explanation
Indices: 83264--83304 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
83254 ATTTTGAAAC
83264 TAAATAAA-ATTAGATATAGT
1 TAAATAAATATTA-ATAT-GT
83284 TAAATAAATATTAATATGT
1 TAAATAAATATTAATATGT
83303 TA
1 TA
83305 TGTAAAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (19 bp):
TAAATAAATATTAATATGT
Found at i:84191 original size:18 final size:18
Alignment explanation
Indices: 84167--84214 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
84157 TTCATGCATG
84167 AATAAAAAAAAGAATA-A
1 AATAAAAAAAAGAATAGA
* *
84184 AGATAAAATAGAGAATAGA
1 A-ATAAAAAAAAGAATAGA
84203 AATAAATAAAAA
1 AATAAA-AAAAA
84215 AGGAAATTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 18 0.75
19 5 0.21
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (18 bp):
AATAAAAAAAAGAATAGA
Found at i:84400 original size:15 final size:15
Alignment explanation
Indices: 84380--84419 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
84370 AGAATGAATT
84380 TGAATTTGAAAATAA
1 TGAATTTGAAAATAA
* *
84395 TGAATTTCAAAATAT
1 TGAATTTGAAAATAA
*
84410 TTAATTTGAA
1 TGAATTTGAA
84420 GATATAAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (15 bp):
TGAATTTGAAAATAA
Found at i:84424 original size:15 final size:15
Alignment explanation
Indices: 84377--84424 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
84367 TCAAGAATGA
84377 ATTTGAATTTGAAAAT
1 ATTT-AATTTGAAAAT
* * *
84393 AATGAATTTCAAAAT
1 ATTTAATTTGAAAAT
*
84408 ATTTAATTTGAAGAT
1 ATTTAATTTGAAAAT
84423 AT
1 AT
84425 AAAGGGTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 23 0.92
16 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (15 bp):
ATTTAATTTGAAAAT
Found at i:91100 original size:2 final size:2
Alignment explanation
Indices: 91088--91127 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
91078 AAGACCAGTA
* *
91088 AT AT GT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91128 TAAAAATGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91508 original size:16 final size:16
Alignment explanation
Indices: 91477--91530 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
91467 TATATTTAAT
*
91477 TTTAAATTTTTTATATA
1 TTTAAA-TTATTATATA
91494 TTTAAATTA-T-TATA
1 TTTAAATTATTATATA
*
91508 TTTATA-TATATATATA
1 TTTAAATTAT-TATATA
91524 TTTAAAT
1 TTTAAAT
91531 ATATATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
13 2 0.07
14 9 0.30
15 2 0.07
16 11 0.37
17 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAAATTATTATATA
Found at i:91532 original size:14 final size:14
Alignment explanation
Indices: 91488--91536 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
91478 TTAAATTTTT
91488 TATATATTTAAAT-
1 TATATATTTAAATA
91501 TATTATATTTATATATA
1 TA-TATATTTA-A-ATA
91518 TATATATTTAAATA
1 TATATATTTAAATA
91532 TATAT
1 TATAT
91537 TAAACATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.06
14 16 0.50
15 2 0.06
16 10 0.31
17 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATATTTAAATA
Found at i:91532 original size:16 final size:16
Alignment explanation
Indices: 91488--91536 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
91478 TTAAATTTTT
91488 TATATATTTAAAT-TA
1 TATATATTTAAATATA
*
91503 T-TATATTTATATATA
1 TATATATTTAAATATA
91518 TATATATTTAAATATA
1 TATATATTTAAATATA
91534 TAT
1 TAT
91537 TAAACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 10 0.33
15 4 0.13
16 16 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTAAATATA
Found at i:96093 original size:15 final size:16
Alignment explanation
Indices: 96066--96096 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96056 TTATATTGAT
96066 TAAAAAATAATATTTA
1 TAAAAAATAATATTTA
96082 TAAAAAAT-ATATTTA
1 TAAAAAATAATATTTA
96097 ATGTATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAAAATAATATTTA
Found at i:96142 original size:25 final size:26
Alignment explanation
Indices: 96113--96168 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
96103 TGATATTTTG
96113 AATTTAATAAAATAA-AAT-ATTAAAT
1 AATTTAATAAAA-AATAATAATTAAAT
**
96138 AATTTTTTAAAAAATAATAATTAAAT
1 AATTTAATAAAAAATAATAATTAAAT
96164 AATTT
1 AATTT
96169 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 13 0.48
26 12 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AATTTAATAAAAAATAATAATTAAAT
Found at i:96172 original size:25 final size:28
Alignment explanation
Indices: 96115--96170 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 28
96105 ATATTTTGAA
96115 TTTAATAAAATAAAATATTAAATAATTT
1 TTTAATAAAATAAAATATTAAATAATTT
*
96143 TTTAA-AAAATAATA-ATTAAATAATTT
1 TTTAATAAAATAAAATATTAAATAATTT
96169 TT
1 TT
96171 AATTTTTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 14 0.52
27 8 0.30
28 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTAATAAAATAAAATATTAAATAATTT
Found at i:96288 original size:18 final size:17
Alignment explanation
Indices: 96267--96315 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
96257 TTATAATAAA
96267 ATTATTAATTAAAT-TGGT
1 ATTATTAATTAAATAT--T
*
96285 ATTATCAATTAAATATT
1 ATTATTAATTAAATATT
96302 ATTATTTAATTAAA
1 ATTA-TTAATTAAA
96316 ATAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.78
19 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
ATTATTAATTAAATATT
Found at i:96403 original size:19 final size:20
Alignment explanation
Indices: 96374--96432 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 20
96364 TTAATTATTT
96374 TTTTATTTTAAAAAAAATTA-
1 TTTT-TTTTAAAAAAAATTAC
96394 TTTTTTTT-AAAAAAATTAC
1 TTTTTTTTAAAAAAAATTAC
96413 TTTTTATTTAAAAAATAATT
1 TTTTT-TTTAAAAAA-AATT
96433 TTTAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 7 0.20
21 5 0.14
22 4 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTTTTAAAAAAAATTAC
Found at i:96435 original size:19 final size:19
Alignment explanation
Indices: 96372--96435 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
96362 AATTAATTAT
96372 TTTTTTATTTTAAAAAA-AA
1 TTTTTTA-TTTAAAAAATAA
* *
96391 TTATTTTTTTTAAAAAAATTA
1 TT-TTTTATTT-AAAAAATAA
*
96412 CTTTTTATTTAAAAAATAA
1 TTTTTTATTTAAAAAATAA
96431 TTTTT
1 TTTTT
96436 AAAAAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 17 0.47
20 17 0.47
21 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTTATTTAAAAAATAA
Found at i:96445 original size:13 final size:14
Alignment explanation
Indices: 96419--96447 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96409 TTACTTTTTA
96419 TTTAAAAAATAATT
1 TTTAAAAAATAATT
96433 TTTAAAAAA-AATT
1 TTTAAAAAATAATT
96446 TT
1 TT
96448 AATGTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAAAAATAATT
Found at i:102114 original size:17 final size:17
Alignment explanation
Indices: 102092--102145 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
102082 TTCATAATTT
*
102092 ATTTTAATATAAATATA
1 ATTTTAATATTAATATA
102109 ATTTTAATAATTAAT-T-
1 ATTTTAAT-ATTAATATA
102125 -TTTTAATATTAATATA
1 ATTTTAATATTAATATA
102141 ATTTT
1 ATTTT
102146 TAATTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 6 0.19
15 8 0.25
17 13 0.41
18 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATATTAATATA
Found at i:102131 original size:21 final size:18
Alignment explanation
Indices: 102092--102150 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 18
102082 TTCATAATTT
* *
102092 ATTTTAATATAA-ATATA
1 ATTTTAATATAATTTTTA
102109 ATTTTAATAATTAATTTTTTA
1 ATTTTAAT-A-TAA-TTTTTA
*
102130 ATATTAATATAATTTTTA
1 ATTTTAATATAATTTTTA
102148 ATT
1 ATT
102151 ATTATTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 8 0.24
18 9 0.26
19 6 0.18
20 1 0.03
21 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTAATATAATTTTTA
Found at i:102139 original size:32 final size:32
Alignment explanation
Indices: 102078--102158 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
102068 ATAATTTTTT
* *
102078 ATTTTTCATAATT-TATTTTAATATAAATATA
1 ATTTTTAATAATTATTTTTTAATATAAATATA
*
102109 A-TTTTAATAATTAATTTTTTAATATTAATATA
1 ATTTTTAATAATT-ATTTTTTAATATAAATATA
*
102141 ATTTTTAATTATTATTTT
1 ATTTTTAATAATTATTTT
102159 AAAAATATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 10 0.23
31 1 0.02
32 22 0.51
33 10 0.23
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
ATTTTTAATAATTATTTTTTAATATAAATATA
Found at i:102145 original size:18 final size:18
Alignment explanation
Indices: 102093--102154 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
102083 TCATAATTTA
*
102093 TTTTAATATAAATATAA-
1 TTTTAATATTAATATAAT
102110 TTTT-A-A-TAAT-TAATT
1 TTTTAATATTAATATAA-T
102125 TTTTAATATTAATATAAT
1 TTTTAATATTAATATAAT
102143 TTTTAATTATTA
1 TTTTAA-TATTA
102155 TTTTAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 3 0.08
14 3 0.08
15 5 0.14
16 2 0.05
17 5 0.14
18 11 0.30
19 8 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATTAATATAAT
Found at i:102257 original size:33 final size:31
Alignment explanation
Indices: 102194--102262 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
102184 TTTTAAAAAT
* * *
102194 ATATAATTAATTTTAAAAGTATTTGATATAA
1 ATATAATTAATTTTAAAAATATATAATATAA
102225 ATATAATTAATTTTAAAAATATATAACGTATAA
1 ATATAATTAATTTTAAAAATATATAA--TATAA
102258 ATATA
1 ATATA
102263 TTTTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 23 0.70
33 10 0.30
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (31 bp):
ATATAATTAATTTTAAAAATATATAATATAA
Found at i:108528 original size:11 final size:11
Alignment explanation
Indices: 108507--108536 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
108497 TTACTTCATA
108507 TAAAT-ATTAT
1 TAAATAATTAT
108517 TAAATAATTAT
1 TAAATAATTAT
108528 TAAATAATT
1 TAAATAATT
108537 TTTTAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAAATAATTAT
Found at i:113465 original size:22 final size:22
Alignment explanation
Indices: 113437--113491 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
113427 TGGACATGTT
113437 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
113459 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
113481 AAAAATGCATG
1 AAAAATGCATG
113492 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:114457 original size:20 final size:20
Alignment explanation
Indices: 114406--114480 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
114396 AAAAAGACAT
** *
114406 AATGTATCGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
114426 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
114446 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTCAAA
114466 AATGTATCGATACAT
1 AATGTATCGATACAT
114481 CAAGGTAAAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:114474 original size:40 final size:39
Alignment explanation
Indices: 114403--114480 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
114393 GGTAAAAAGA
* *
114403 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
114442 CATACATGTATTGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
114481 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:115195 original size:29 final size:28
Alignment explanation
Indices: 115091--116194 Score: 1307
Period size: 28 Copynumber: 38.6 Consensus size: 28
115081 CACAGACACA
* **
115091 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
115120 TGCGTGGGCTTTAAAAAGG-TGCCACTGACTT
1 T--GTGGGCTTT-GAAAGGATGCCACTGAC-T
115151 GTGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
115180 CGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
115208 CGTGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
115235 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
**
115263 CATGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
115291 TGCGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGGA-TGCCACTGAC-T
* *
115323 GTGTGGGCTTTGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
115352 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
115380 TGTGGGCTTTGAAA-GAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
115408 CGTAGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
115436 TGCGTGAGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGGA-TGCCACTGAC-T
*
115468 GTGTGGGCTTTAAAAAGG-TGCCACTGACT
1 -TGTGGGCTTT-GAAAGGATGCCACTGACT
* *
115497 TGTGAGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
115525 TATGGGCTTCGCAATGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
115553 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
115581 TGTGGGCTCTGAAATGG-TGCCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
115609 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
115637 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
115666 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
115695 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
115724 TGTGGGTTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
115752 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
115780 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
115808 CGTAGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
115836 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
115864 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
115892 TGTGGGTTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
115921 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
115950 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
115979 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
116007 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
116036 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
116064 TGTGGGCTTTGAAAAGAGTGCCACCGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
116093 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
116121 TGTGGGCTTTGAAAAGAGTGCTACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
116150 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
116179 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
116195 GATGAACATT
Statistics
Matches: 943, Mismatches: 88, Indels: 88
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.01
27 38 0.04
28 466 0.49
29 300 0.32
30 66 0.07
31 52 0.06
32 13 0.01
33 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:117428 original size:1 final size:1
Alignment explanation
Indices: 117424--117481 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
117414 TTTTTTGCTA
* * * * * *
117424 TTTTTTTCTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
117482 GGGTGTAAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.90
Consensus pattern (1 bp):
T
Found at i:117439 original size:10 final size:10
Alignment explanation
Indices: 117409--117481 Score: 65
Period size: 10 Copynumber: 7.1 Consensus size: 10
117399 ATCTAGACCC
*
117409 TTCTATTTTT
1 TTCTTTTTTT
* *
117419 TGCTATTTTT
1 TTCTTTTTTT
117429 TTCTTTTTTT
1 TTCTTTTTTT
*
117439 TTGTTTTTTT
1 TTCTTTTTTT
*
117449 GTTTTGTTTTTT
1 -TTCT-TTTTTT
*
117461 TTGTTTTTTT
1 TTCTTTTTTT
*
117471 TTGTTTTTTT
1 TTCTTTTTTT
117481 T
1 T
117482 GGGTGTAAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
10 43 0.78
11 6 0.11
12 6 0.11
ACGTcount: A:0.03, C:0.04, G:0.08, T:0.85
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:117446 original size:19 final size:20
Alignment explanation
Indices: 117414--117482 Score: 79
Period size: 19 Copynumber: 3.4 Consensus size: 20
117404 GACCCTTCTA
117414 TTTTTTGCTATTTTTTTCT-TT
1 TTTTTTGCT-TTTTTTT-TGTT
*
117435 TTTTTTGTTTTTTTGTTTTGTT
1 TTTTTTG-CTTTTT-TTTTGTT
117457 TTTTTTG-TTTTTTTTTGTT
1 TTTTTTGCTTTTTTTTTGTT
117476 TTTTTTG
1 TTTTTTG
117483 GGTGTAAAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
19 14 0.32
20 5 0.11
21 12 0.27
22 13 0.30
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (20 bp):
TTTTTTGCTTTTTTTTTGTT
Found at i:117482 original size:9 final size:9
Alignment explanation
Indices: 117414--117482 Score: 63
Period size: 8 Copynumber: 7.8 Consensus size: 9
117404 GACCCTTCTA
*
117414 TTTTTTGCTA
1 TTTTTTG-TT
*
117424 TTTTTT-TC
1 TTTTTTGTT
117432 TTTTTT-TT
1 TTTTTTGTT
*
117440 TGTTTT-TT
1 TTTTTTGTT
*
117448 TGTTTTGTT
1 TTTTTTGTT
117457 TTTTTTGTTT
1 TTTTTTG-TT
117467 TTTTTTGTT
1 TTTTTTGTT
117476 TTTTTTG
1 TTTTTTG
117483 GGTGTAAAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
8 21 0.40
9 17 0.32
10 15 0.28
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:130572 original size:22 final size:22
Alignment explanation
Indices: 130544--130598 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
130534 TGGACATGTT
*
130544 AAAAATGCGTGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
130566 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
130588 AAAAATGCATG
1 AAAAATGCATG
130599 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:131544 original size:20 final size:20
Alignment explanation
Indices: 131493--131567 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
131483 AAAAAGACAT
** *
131493 AATGTATCGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
131513 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
131533 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTCAAA
131553 AATGTATCGATACAT
1 AATGTATCGATACAT
131568 CAAGGTAAAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:131561 original size:40 final size:39
Alignment explanation
Indices: 131490--131567 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
131480 GGTAAAAAGA
* *
131490 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
131529 CATACATGTATTGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
131568 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:136445 original size:79 final size:79
Alignment explanation
Indices: 136202--136446 Score: 251
Period size: 79 Copynumber: 3.1 Consensus size: 79
136192 TTTCATTCAT
* * * * * *
136202 GTTTTTATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGAG
1 GTTTTTATTTTTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGAGGG
* ** *
136267 AATACTTTAACCTC
66 GATACTCCAACCCC
* * * * ** *
136281 GATTTTATTTTTAAAACACCAATTTTCCATAATCGAAGATACTTCC-ACCCCATTATTTTTGAGG
1 GTTTTTATTTTTAAAACATCGATTTTCCACAATCGGGGATAC-TCCAACCCCATTATTTTCGAGG
* *
136345 AGATACTCCAACCCTA
65 GGATACTCCAACCC-C
* * *
136361 G-TTTTATTTTTAAAACATCGATTTTTCACAATTGGGGATACTCCAACCCTATTATTTTCGAGGG
1 GTTTTTATTTTTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGAGGG
*
136425 GATAATCCAACCCC
66 GATACTCCAACCCC
136439 GTTTTTAT
1 GTTTTTAT
136447 CTCTGAAATA
Statistics
Matches: 131, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
78 4 0.03
79 123 0.94
80 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (79 bp):
GTTTTTATTTTTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGAGGG
GATACTCCAACCCC
Found at i:146721 original size:32 final size:30
Alignment explanation
Indices: 146685--146743 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
146675 GAAATCAAAT
146685 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
146717 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
146744 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:147042 original size:13 final size:13
Alignment explanation
Indices: 147024--147049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
147014 ATATTTTATG
147024 TGTATCGATACAT
1 TGTATCGATACAT
147037 TGTATCGATACAT
1 TGTATCGATACAT
147050 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:147061 original size:19 final size:19
Alignment explanation
Indices: 147003--147067 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
146993 TACAAGCCAA
147003 TGTATCGATACATATTTTATG
1 TGTATCGATACATA-TTT-TG
147024 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
147037 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
147056 TGTATCGATACA
1 TGTATCGATACA
147068 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:147063 original size:32 final size:34
Alignment explanation
Indices: 147003--147067 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 34
146993 TACAAGCCAA
147003 TGTATCGATACATATTTTATGTGTATCGATACAT
1 TGTATCGATACATATTTTATGTGTATCGATACAT
147037 TGTATCGATACATA-TTT-TGTGTATCGATACA
1 TGTATCGATACATATTTTATGTGTATCGATACA
147068 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 14 0.45
33 3 0.10
34 14 0.45
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (34 bp):
TGTATCGATACATATTTTATGTGTATCGATACAT
Found at i:149618 original size:13 final size:13
Alignment explanation
Indices: 149600--149637 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
149590 ATAATCCCCT
149600 TGTATCGATACAG
1 TGTATCGATACAG
*
149613 TGTATCGATACAT
1 TGTATCGATACAG
149626 TGTATCGATACA
1 TGTATCGATACA
149638 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:151737 original size:15 final size:15
Alignment explanation
Indices: 151717--151747 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
151707 ATTTCGTTTG
*
151717 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
151732 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
151747 G
1 G
151748 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:153579 original size:21 final size:21
Alignment explanation
Indices: 153550--153594 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
153540 AAGTTTTTAT
*
153550 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
153570 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
153592 TTT
1 TTT
153595 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:155511 original size:32 final size:30
Alignment explanation
Indices: 155475--155533 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
155465 GAAATCAAAT
155475 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
155507 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
155534 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:155836 original size:19 final size:21
Alignment explanation
Indices: 155793--155844 Score: 90
Period size: 19 Copynumber: 2.6 Consensus size: 21
155783 TACAAGCCAA
155793 TGTATCGATACATATTTTATG
1 TGTATCGATACATATTTTATG
155814 TGTATCGATACATA-TTT-TG
1 TGTATCGATACATATTTTATG
155833 TGTATCGATACA
1 TGTATCGATACA
155845 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 14 0.45
20 3 0.10
21 14 0.45
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATATTTTATG
Found at i:165424 original size:71 final size:71
Alignment explanation
Indices: 165308--165448 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
165298 AAACAGCATC
165308 AATTTGAAATTTAAAGGTGCAAATAGGACAAATAGCTAATATGCTCAGTGTAAGACTGCAAGGTT
1 AATTTGAAATTTAAAGGTGCAAATAGGACAAATAGCTAATATGCTCAGTGTAAGACTGCAAGGTT
165373 CTTTGA
66 CTTTGA
*
165379 AATTTGAAATTTAAAGGTGCAAATGGGACAAATAGCTAATATGCTCAGTGTAAGACTGCAAGGTT
1 AATTTGAAATTTAAAGGTGCAAATAGGACAAATAGCTAATATGCTCAGTGTAAGACTGCAAGGTT
165444 CTTTG
66 CTTTG
165449 CCAAGCAACA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (71 bp):
AATTTGAAATTTAAAGGTGCAAATAGGACAAATAGCTAATATGCTCAGTGTAAGACTGCAAGGTT
CTTTGA
Found at i:173467 original size:20 final size:19
Alignment explanation
Indices: 173424--173468 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
173414 TTTCAATTAC
*
173424 TTTTTT-ATTTTTTGGTGT
1 TTTTTTCATTTTTTGGTAT
*
173442 TATTTTCATTTTATTGGTAT
1 TTTTTTCATTTT-TTGGTAT
173462 TTTTTTC
1 TTTTTTC
173469 TTACTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 12 0.55
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.73
Consensus pattern (19 bp):
TTTTTTCATTTTTTGGTAT
Found at i:174711 original size:20 final size:20
Alignment explanation
Indices: 174686--174727 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
174676 AAATATATTA
174686 TTTTAGGTTA-AAAAGAAAGG
1 TTTTAGGTTAGAAAA-AAAGG
174706 TTTTAGGTTAGAAAAAAAGG
1 TTTTAGGTTAGAAAAAAAGG
174726 TT
1 TT
174728 GAAAACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (20 bp):
TTTTAGGTTAGAAAAAAAGG
Found at i:177292 original size:401 final size:401
Alignment explanation
Indices: 176549--177350 Score: 1586
Period size: 401 Copynumber: 2.0 Consensus size: 401
176539 AACCTCACAA
176549 TCTTCCCAAGAATTATACCCTAAATTCTTGAGAAATCGTAACTCAAGATTGAATGCGACCTTACA
1 TCTTCCCAAGAATTATACCCTAAATTCTTGAGAAATCGTAACTCAAGATTGAATGCGACCTTACA
176614 CAATTCAAAGAAATTGTACAAATGAAAATTGCCTCTAAATAGGCTAATGTTTGTGAAAGAATAAA
66 CAATTCAAAGAAATTGTACAAATGAAAATTGCCTCTAAATAGGCTAATGTTTGTGAAAGAATAAA
176679 CACAAATTAAAAACAAAGAGTTTTCAAAGAATAACAATAATGAATGTAAAAGCTCTTAAAAATGA
131 CACAAATTAAAAACAAAGAGTTTTCAAAGAATAACAATAATGAATGTAAAAGCTCTTAAAAATGA
*
176744 GAAAATAAGTAAAACTTTGAATGCTTTGATCTCTTGGTGTTTCTTGATGGATTCTCTTATTGTTT
196 GAAAATAAGTAAAACTTTGAATGCTTTGATCTCTTGGTGTTTCTTGATGGATTCTCTTATTGTTC
*
176809 AGCTGTTGGAAACTTAAATTTATAGCCCTGAATGTTGACATACTCATTGGAGATTGAATGATTGT
261 AACTGTTGGAAACTTAAATTTATAGCCCTGAATGTTGACATACTCATTGGAGATTGAATGATTGT
176874 GTTTGTAGTTGTTGTTGTCTTATTAAGTGCTTGTTTCTATGCATTCCCGTTGCTATGTATAGATG
326 GTTTGTAGTTGTTGTTGTCTTATTAAGTGCTTGTTTCTATGCATTCCCGTTGCTATGTATAGATG
176939 CAATTCATAAT
391 CAATTCATAAT
176950 TCTTCCCAAGAATTATACCCTAAATTCTTGAGAAATCGTAACTCAAGATTGAATGCGACCTTACA
1 TCTTCCCAAGAATTATACCCTAAATTCTTGAGAAATCGTAACTCAAGATTGAATGCGACCTTACA
177015 CAATTCAAAGAAATTGTACAAATGAAAATTGCCTCTAAATAGGCTAATGTTTGTGAAAGAATAAA
66 CAATTCAAAGAAATTGTACAAATGAAAATTGCCTCTAAATAGGCTAATGTTTGTGAAAGAATAAA
177080 CACAAATTAAAAACAAAGAGTTTTCAAAGAATAACAATAATGAATGTAAAAGCTCTTAAAAATGA
131 CACAAATTAAAAACAAAGAGTTTTCAAAGAATAACAATAATGAATGTAAAAGCTCTTAAAAATGA
177145 GAAAATAAGTAAAACTTTGAATGCTTTGATCTCTTGGTGTTTCTTGATGGATTCTCTTATTGTTC
196 GAAAATAAGTAAAACTTTGAATGCTTTGATCTCTTGGTGTTTCTTGATGGATTCTCTTATTGTTC
177210 AACTGTTGGAAACTTAAATTTATAGCCCTGAATGTTGACATACTCATTGGAGATTGAATGATTGT
261 AACTGTTGGAAACTTAAATTTATAGCCCTGAATGTTGACATACTCATTGGAGATTGAATGATTGT
177275 GTTTGTAGTTGTTGTTGTCTTATTAAGTGCTTGTTTCTATGCATTCCCGTTGCTATGTATAGATG
326 GTTTGTAGTTGTTGTTGTCTTATTAAGTGCTTGTTTCTATGCATTCCCGTTGCTATGTATAGATG
177340 CAATTCATAAT
391 CAATTCATAAT
177351 GTATCGATAT
Statistics
Matches: 399, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
401 399 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (401 bp):
TCTTCCCAAGAATTATACCCTAAATTCTTGAGAAATCGTAACTCAAGATTGAATGCGACCTTACA
CAATTCAAAGAAATTGTACAAATGAAAATTGCCTCTAAATAGGCTAATGTTTGTGAAAGAATAAA
CACAAATTAAAAACAAAGAGTTTTCAAAGAATAACAATAATGAATGTAAAAGCTCTTAAAAATGA
GAAAATAAGTAAAACTTTGAATGCTTTGATCTCTTGGTGTTTCTTGATGGATTCTCTTATTGTTC
AACTGTTGGAAACTTAAATTTATAGCCCTGAATGTTGACATACTCATTGGAGATTGAATGATTGT
GTTTGTAGTTGTTGTTGTCTTATTAAGTGCTTGTTTCTATGCATTCCCGTTGCTATGTATAGATG
CAATTCATAAT
Found at i:178136 original size:21 final size:19
Alignment explanation
Indices: 178095--178139 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
178085 CATTTTAAAG
*
178095 CTCTCCCTTTAAAAAATTT
1 CTCTCCCTTTAAAAAAATT
*
178114 CTCTTCCTTTATAAAATAATT
1 CTCTCCCTTTA-AAAA-AATT
178135 CTCTC
1 CTCTC
178140 TTAAAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (19 bp):
CTCTCCCTTTAAAAAAATT
Found at i:186123 original size:20 final size:20
Alignment explanation
Indices: 186098--186155 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
186088 TCCCATTGCT
*
186098 ATGTATCGATGCAATTCATA
1 ATGTATCGATACAATTCATA
186118 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
186138 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
186156 TTAAAATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 6 0.16
20 31 0.84
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:186231 original size:13 final size:13
Alignment explanation
Indices: 186213--186237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
186203 ATTCTTCATT
186213 TATCGATACAATG
1 TATCGATACAATG
186226 TATCGATACAAT
1 TATCGATACAAT
186238 ATGCTATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:186324 original size:13 final size:13
Alignment explanation
Indices: 186306--186331 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
186296 AAAATTGTGC
186306 ATGTATCGATACA
1 ATGTATCGATACA
186319 ATGTATCGATACA
1 ATGTATCGATACA
186332 TACAAGGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:186740 original size:20 final size:20
Alignment explanation
Indices: 186698--186740 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
186688 GAAGCTTGGT
* *
186698 ATACAATCACTTGTATATTG
1 ATACAATCACTTGTACATCG
*
186718 ATACAATCACTTGTGCATCG
1 ATACAATCACTTGTACATCG
186738 ATA
1 ATA
186741 TATTTTTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATACAATCACTTGTACATCG
Found at i:191857 original size:2 final size:2
Alignment explanation
Indices: 191850--191874 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
191840 TAATGAAAGC
191850 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
191875 CTAGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:195967 original size:2 final size:2
Alignment explanation
Indices: 195960--195985 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
195950 CATAGCTTAT
195960 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
195986 AAATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:203440 original size:18 final size:17
Alignment explanation
Indices: 203398--203440 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
203388 AGCTTAACAA
*
203398 AAAAAAATCTAAAATTG
1 AAAAAAATCTAAAATGG
*
203415 AATTAAAATCATAAAATGG
1 AA-AAAAATC-TAAAATGG
203434 AAAAAAA
1 AAAAAAA
203441 GATGTAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 10 0.48
19 9 0.43
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (17 bp):
AAAAAAATCTAAAATGG
Found at i:204284 original size:21 final size:21
Alignment explanation
Indices: 204236--204291 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
204226 AAAGGTATAT
*
204236 TTAGATAAAAAGATGCATTGA
1 TTAGATGAAAAGATGCATTGA
204257 TTAGATGAAAAGATGCAATTG-
1 TTAGATGAAAAGATGC-ATTGA
* *
204278 TTGGATGTAAAGAT
1 TTAGATGAAAAGAT
204292 ATATCTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (21 bp):
TTAGATGAAAAGATGCATTGA
Found at i:205376 original size:21 final size:22
Alignment explanation
Indices: 205334--205376 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
205324 CTATGTAGGT
205334 AAAGGCAAGAAAAAGAATCTCG
1 AAAGGCAAGAAAAAGAATCTCG
205356 AAAGGCAA-ACAAAAG-ATCTCG
1 AAAGGCAAGA-AAAAGAATCTCG
205377 TCTATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.53, C:0.16, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAGGCAAGAAAAAGAATCTCG
Found at i:214349 original size:18 final size:17
Alignment explanation
Indices: 214308--214350 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
214298 CATCTTCTTC
*
214308 TTCTTGTGCTTCTCCTT
1 TTCTTGTCCTTCTCCTT
*
214325 TTCCTTGTCCTTGTCCTT
1 TT-CTTGTCCTTCTCCTT
214343 GTTCTTGT
1 -TTCTTGT
214351 TCTCCTCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.00, C:0.28, G:0.14, T:0.58
Consensus pattern (17 bp):
TTCTTGTCCTTCTCCTT
Found at i:215106 original size:19 final size:19
Alignment explanation
Indices: 215084--215121 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
215074 TTTTAGTGAT
215084 AAATTACTATT-TTAAATAA
1 AAATT-CTATTATTAAATAA
*
215103 AAATTTTATTATTAAATAA
1 AAATTCTATTATTAAATAA
215122 TTAAAATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTCTATTATTAAATAA
Found at i:219241 original size:19 final size:19
Alignment explanation
Indices: 219217--219271 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
219207 AAAAAGACAG
219217 AATGTATCGATACATTT-T
1 AATGTATCGATACATTTAT
*
219235 CAATGTATCGATAAATTTAT
1 -AATGTATCGATACATTTAT
219255 ACATGTATCGATACATT
1 A-ATGTATCGATACATT
219272 GAAAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (19 bp):
AATGTATCGATACATTTAT
Found at i:220035 original size:18 final size:18
Alignment explanation
Indices: 219995--220037 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
219985 AAAATTAATA
* *
219995 AATTTTATATATTATTAT
1 AATTTTATAAATAATTAT
220013 AATTTTATAAATAATTGAT
1 AATTTTATAAATAATT-AT
220032 -ATTTTA
1 AATTTTA
220038 ATCAATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTTATAAATAATTAT
Done.