Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 14 of 163
Found at i:3831091 original size:17 final size:17
Alignment explanation
Indices: 3831071--3831116 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
3831061 TTATAATAAT
*
3831071 TTTAAATTTAATCCAAA
1 TTTAAATTAAATCCAAA
*
3831088 TTTAAATTAAATTCAAA
1 TTTAAATTAAATCCAAA
*
3831105 TTTAAAATAAAT
1 TTTAAATTAAAT
3831117 TTAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATTAAATCCAAA
Found at i:3831117 original size:17 final size:17
Alignment explanation
Indices: 3831084--3831138 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
3831074 AAATTTAATC
*
3831084 CAAATTTAAATTAAATT
1 CAAATTTAAAATAAATT
3831101 CAAATTTAAAATAAATT
1 CAAATTTAAAATAAATT
* * *
3831118 TAATTTTAAAACAAATT
1 CAAATTTAAAATAAATT
3831135 CAAA
1 CAAA
3831139 ATGGTTTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
CAAATTTAAAATAAATT
Found at i:3831540 original size:91 final size:91
Alignment explanation
Indices: 3831401--3832125 Score: 1147
Period size: 91 Copynumber: 7.9 Consensus size: 91
3831391 CGAGGTTTCG
* *
3831401 TCTTGCTCTTA-TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAA-TTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
* *
3831465 GGATAGGAGAATGATGTTGGTCCTTCA
65 GGATAGGAAAATGATGTTGGTGCTTCA
* * * *
3831492 TCTT-GTCTTACTTCAACTTCAGAGAGACAAAAGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAA-TTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
3831556 GGATAGGAAAATGATGTTGGTGCTTCA
65 GGATAGGAAAATGATGTTGGTGCTTCA
*
3831583 TCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAA-TTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
3831648 GGATAGGAAAATGATGTTGGTGCTTCA
65 GGATAGGAAAATGATGTTGGTGCTTCA
*
3831675 TCTTTCTCTTACTTCAATTCCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATT-CAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
*
3831740 GGATAGGAAAA-GATGTCGGTGCTTCA
65 GGATAGGAAAATGATGTTGGTGCTTCA
*
3831766 TCTTACTCTTACTTCAATTCCAGAGAGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATT-CAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
*
3831831 GGATAGGAAAA-GATGTCGGTGCTTCA
65 GGATAGGAAAATGATGTTGGTGCTTCA
* *
3831857 TCTTACTCTTACTTCAATTTCAGATG-GACGAAGGCTTGATATCCATCTTTACTTCAATTTCAAG
1 TCTTACTCTTACTTCAA-TTCAGA-GAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
3831921 AGGATAGGAAAATGATGTTGGTGCTTCA
64 AGGATAGGAAAATGATGTTGGTGCTTCA
* * *
3831949 TCTTACTCTTACTTCAAATCTAGAGGGACGAAGGCTTGTTATCTAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTC-AGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
*
3832014 GGATAGGAAAA-GATGTCGGTGCTTCA
65 GGATAGGAAAATGATGTTGGTGCTTCA
*
3832040 TCTTGCTCTTACTTCAATTCTAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTC-AGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
3832105 GGATAGGAAAATGATGTTGGT
65 GGATAGGAAAATGATGTTGGT
3832126 TGATCTGATC
Statistics
Matches: 594, Mismatches: 31, Indels: 17
0.93 0.05 0.03
Matches are distributed among these distances:
90 5 0.01
91 343 0.58
92 246 0.41
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (91 bp):
TCTTACTCTTACTTCAATTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAAATGATGTTGGTGCTTCA
Found at i:3831763 original size:183 final size:183
Alignment explanation
Indices: 3831401--3832125 Score: 1156
Period size: 183 Copynumber: 4.0 Consensus size: 183
3831391 CGAGGTTTCG
* *
3831401 TCTTGCTCTTA-TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
* * * * * *
3831465 GGATAGGAGAATGATGTTGGTCCTTCATC-TTGTCTTACTTCAACTT-CAGAGAGACAAAAGCTT
66 GGATAGGA-AAAGATGTCGGTGCTTCATCTTTCTCTTACTTCAA-TTCCAGAGAGACGAAGGCTT
3831528 GATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
129 GATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
*
3831583 TCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
*
3831648 GGATAGGAAAATGATGTTGGTGCTTCATCTTTCTCTTACTTCAATTCCAGAGAGACGAAGGCTTG
66 GGATAGGAAAA-GATGTCGGTGCTTCATCTTTCTCTTACTTCAATTCCAGAGAGACGAAGGCTTG
* *
3831713 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCA
130 ATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
* *
3831766 TCTTACTCTTACTTCAATTCCAGAGAGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
* *
3831831 GGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTACTTCAATTTCAGATG-GACGAAGGCTTG
66 GGATAGGAAAAGATGTCGGTGCTTCATCTTTCTCTTACTTCAATTCCAGA-GAGACGAAGGCTTG
*
3831895 ATATCCATCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
130 ATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
* * *
3831949 TCTTACTCTTACTTCAA-ATCTAGAGGGACGAAGGCTTGTTATCTAGCTTTACTTCAATTTCAAG
1 TCTTACTCTTACTTCAATTTC-AGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
* *
3832013 AGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTCTAGAGAGACGAAGGCTTG
65 AGGATAGGAAAAGATGTCGGTGCTTCATCTTTCTCTTACTTCAATTCCAGAGAGACGAAGGCTTG
*
3832078 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGT
130 ATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGT
3832126 TGATCTGATC
Statistics
Matches: 506, Mismatches: 29, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
182 98 0.19
183 342 0.68
184 66 0.13
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (183 bp):
TCTTACTCTTACTTCAATTTCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
GGATAGGAAAAGATGTCGGTGCTTCATCTTTCTCTTACTTCAATTCCAGAGAGACGAAGGCTTGA
TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCA
Found at i:3831782 original size:45 final size:45
Alignment explanation
Indices: 3831733--3831873 Score: 103
Period size: 45 Copynumber: 3.1 Consensus size: 45
3831723 TTACTTCAAT
3831733 TTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTAC
1 TTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTAC
**** * * * * * *
3831778 TTCAATTCCAGAGAGACAAAG--G-C-TTGTTATCCAGCTTTACT-TCAAT
1 TTCAAGAGGATAG-GA-AAAGATGTCGGTGCT-T-CATC-TTACTCT-TAC
3831824 TTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTAC
1 TTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTAC
3831869 TTCAA
1 TTCAA
3831874 TTTCAGATGG
Statistics
Matches: 65, Mismatches: 20, Indels: 22
0.61 0.19 0.21
Matches are distributed among these distances:
43 3 0.05
44 6 0.09
45 26 0.40
46 21 0.32
47 6 0.09
48 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (45 bp):
TTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTAC
Found at i:3831960 original size:274 final size:274
Alignment explanation
Indices: 3831401--3832121 Score: 1216
Period size: 274 Copynumber: 2.6 Consensus size: 274
3831391 CGAGGTTTCG
* *
3831401 TCTTGCTCTTA-TTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
* * * * *
3831465 GGATAGGAGAATGATGTTGGTCCTTCATCTTGTCTTACTTCAACTT-CAGAGAGACAAAAGCTTG
66 GGATAGGA-AAAGATGTCGGTGCTTCATCTTCTCTTACTTCAA-TTCCAGAGAGACAAAGGCTTG
* *
3831529 ATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTA
129 TTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTCGGTGCTTCATCTTACTCTTA
3831594 CTTCAATTTCAGAGAGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
194 CTTCAATTTCAGAGAGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
3831659 TGATGTTGGTGCTTCA
259 TGATGTTGGTGCTTCA
* *
3831675 TCTTTCTCTTACTTCAATTCCAGAGAGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
3831740 GGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGAGACAAAGGCTTGT
66 GGATAGGAAAAGATGTCGGTGCTTCATCTT-CTCTTACTTCAATTCCAGAGAGACAAAGGCTTGT
3831805 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTACTCTTAC
130 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTCGGTGCTTCATCTTACTCTTAC
*
3831869 TTCAATTTCAGATG-GACGAAGGCTTGATATCCATCTTTACTTCAATTTCAAGAGGATAGGAAAA
195 TTCAATTTCAGA-GAGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
3831933 TGATGTTGGTGCTTCA
259 TGATGTTGGTGCTTCA
* * *
3831949 TCTTACTCTTACTTCAAATCTAGAGGGACGAAGGCTTGTTATCTAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
* *
3832014 GGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTCTAGAGAGACGAAGGCTTGT
66 GGATAGGAAAAGATGTCGGTGCTTCATCTT-CTCTTACTTCAATTCCAGAGAGACAAAGGCTTGT
3832079 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGT
130 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGT
3832122 TGGTTGATCT
Statistics
Matches: 423, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
274 293 0.69
275 130 0.31
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (274 bp):
TCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
GGATAGGAAAAGATGTCGGTGCTTCATCTTCTCTTACTTCAATTCCAGAGAGACAAAGGCTTGTT
ATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTCGGTGCTTCATCTTACTCTTACT
TCAATTTCAGAGAGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATG
ATGTTGGTGCTTCA
Found at i:3844304 original size:30 final size:30
Alignment explanation
Indices: 3844263--3844341 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
3844253 GGAAAGTTCG
* * *
3844263 AGGGGTAAAATGTAATTTTGGAAACA-TTTT
1 AGGGTTAAAATGTAATTTT-AAAAAAGTTTT
3844293 AGGGTTAAAATGTAATTTTAAAAAAGTTTT
1 AGGGTTAAAATGTAATTTTAAAAAAGTTTT
*
3844323 AGGGTTAAAATATAATTTT
1 AGGGTTAAAATGTAATTTT
3844342 TGGACAGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 4 0.09
30 40 0.91
ACGTcount: A:0.41, C:0.01, G:0.19, T:0.39
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTAAAAAAGTTTT
Found at i:3844351 original size:30 final size:30
Alignment explanation
Indices: 3844263--3844351 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
3844253 GGAAAGTTCG
*
3844263 AGGGGTAAAATGTAA-TTTTGGAAACA-TTTT
1 AGGGTTAAAATGTAATTTTTGG--ACAGTTTT
*** *
3844293 AGGGTTAAAATGTAATTTTAAAAAAGTTTT
1 AGGGTTAAAATGTAATTTTTGGACAGTTTT
*
3844323 AGGGTTAAAATATAATTTTTGGACAGTTT
1 AGGGTTAAAATGTAATTTTTGGACAGTTT
3844352 AGGTACCTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 2 0.04
30 42 0.89
31 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.39
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTTGGACAGTTTT
Found at i:3845501 original size:22 final size:21
Alignment explanation
Indices: 3845463--3845506 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
3845453 AGTCATTAAA
3845463 ATTAATACTAATATTATTTATT
1 ATTAATACTAATATTA-TTATT
*
3845485 ATTAATA-TTATACTTATTATT
1 ATTAATACTAATA-TTATTATT
3845506 A
1 A
3845507 ATATTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTAATACTAATATTATTATT
Found at i:3845503 original size:18 final size:16
Alignment explanation
Indices: 3845471--3845513 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 16
3845461 AAATTAATAC
3845471 TAATATTATTTATTAT
1 TAATATTATTTATTAT
3845487 TAATATTATACTTATTAT
1 TAATATTAT--TTATTAT
3845505 TAATATTAT
1 TAATATTAT
3845514 CATTAATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.36
18 16 0.64
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATATTATTTATTAT
Found at i:3846272 original size:17 final size:17
Alignment explanation
Indices: 3846252--3846297 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
3846242 TTATAATAAT
*
3846252 TTTAAATTTAATCCAAA
1 TTTAAATTAAATCCAAA
*
3846269 TTTAAATTAAATTCAAA
1 TTTAAATTAAATCCAAA
*
3846286 TTTAAAATAAAT
1 TTTAAATTAAAT
3846298 TTAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATTAAATCCAAA
Found at i:3846298 original size:17 final size:17
Alignment explanation
Indices: 3846265--3846319 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
3846255 AAATTTAATC
*
3846265 CAAATTTAAATTAAATT
1 CAAATTTAAAATAAATT
3846282 CAAATTTAAAATAAATT
1 CAAATTTAAAATAAATT
* * *
3846299 TAATTTTAAAACAAATT
1 CAAATTTAAAATAAATT
3846316 CAAA
1 CAAA
3846320 ATGATTTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
CAAATTTAAAATAAATT
Found at i:3852477 original size:19 final size:19
Alignment explanation
Indices: 3852421--3852481 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
3852411 CGCTTACGCA
*
3852421 CTAGGATGCACTTTGTGTG
1 CTAGTATGCACTTTGTGTG
* **
3852440 CTAGTATACGTTTTGTGTG
1 CTAGTATGCACTTTGTGTG
*
3852459 CTAGTATGCACTTTATGTG
1 CTAGTATGCACTTTGTGTG
3852478 CTAG
1 CTAG
3852482 ATTCTTTTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.18, C:0.15, G:0.26, T:0.41
Consensus pattern (19 bp):
CTAGTATGCACTTTGTGTG
Found at i:3854414 original size:43 final size:43
Alignment explanation
Indices: 3854366--3854588 Score: 252
Period size: 43 Copynumber: 5.0 Consensus size: 43
3854356 TTATGAGAAA
* *
3854366 AAACGCCGCTAAAGAACATGGTCCTTAGCGGTGCTTCT-CACAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTT-TACACAC
* *
3854409 AAACGCTGCTAAAGAACATGGTCTTTAGCGGGCGCTTCT-CACAA
1 AAACGCCGCTAAAGAACATGGTCTTTAGC-GGCGCTT-TACACAC
* *
3854453 AAACGCCGCTAAAGCTAAAGAACATGGTCTTTAGCGGTGCTTTACCCAC
1 AAACG-C-C----GCTAAAGAACATGGTCTTTAGCGGCGCTTTACACAC
* *
3854502 AAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACACAC
** *
3854545 AAACGCCGCTAAAGAACATGGTCTTTAGCAACGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACACAC
3854588 A
1 A
3854589 GAACTTCAGT
Statistics
Matches: 159, Mismatches: 13, Indels: 16
0.85 0.07 0.09
Matches are distributed among these distances:
43 103 0.65
44 17 0.11
45 1 0.01
47 1 0.01
48 2 0.01
49 13 0.08
50 22 0.14
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACACAC
Found at i:3854503 original size:93 final size:92
Alignment explanation
Indices: 3854373--3854558 Score: 277
Period size: 93 Copynumber: 2.0 Consensus size: 92
3854363 AAAAAACGCC
*
3854373 GCTAAAGAACATGGTCCTTAGCGGTGCTTCTCACACAAACGCTGCTAAAGAACATGGTCTTTAGC
1 GCTAAAGAACATGGTCCTTAGCGGTGCTTCTCACACAAACGCCGCTAAAGAACATGGTCTTTAGC
3854438 GGGCGCTTCT-CACAAAAACGCCGCTAAA
66 -GGCGCTT-TACACAAAAACGCCGCTAAA
* * *
3854466 GCTAAAGAACATGGTCTTTAGCGGTGCTT-TACCCACAAATGCCGCTAAAGAACATGGTCTTTAG
1 GCTAAAGAACATGGTCCTTAGCGGTGCTTCT-CACACAAACGCCGCTAAAGAACATGGTCTTTAG
* *
3854530 CGGCGCTTTACCCACAAACGCCGCTAAA
65 CGGCGCTTTACACAAAAACGCCGCTAAA
3854558 G
1 G
3854559 AACATGGTCT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
91 1 0.01
92 25 0.29
93 59 0.69
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (92 bp):
GCTAAAGAACATGGTCCTTAGCGGTGCTTCTCACACAAACGCCGCTAAAGAACATGGTCTTTAGC
GGCGCTTTACACAAAAACGCCGCTAAA
Found at i:3856349 original size:9 final size:9
Alignment explanation
Indices: 3856316--3856463 Score: 62
Period size: 10 Copynumber: 16.4 Consensus size: 9
3856306 ATTTTTTTCC
*
3856316 ATAAAAATG
1 ATAAAAATT
*
3856325 ATTAAAAATC
1 A-TAAAAATT
3856335 AT--AAATT
1 ATAAAAATT
3856342 ATAAAAATT
1 ATAAAAATT
* *
3856351 GTAAAAAAAT
1 AT-AAAAATT
3856361 ATAAGAAAATT
1 AT-A-AAAATT
3856372 ATAAGAAA-T
1 ATAA-AAATT
*
3856381 ACAAAAATT
1 ATAAAAATT
*
3856390 ATTAAATATT
1 A-TAAAAATT
3856400 A-AAAAA--
1 ATAAAAATT
*
3856406 AT-AAAATAG
1 ATAAAAAT-T
*
3856415 ATATAAACTT
1 ATA-AAAATT
*
3856425 ATAATAATT
1 ATAAAAATT
3856434 ATTAAAAA-T
1 A-TAAAAATT
*
3856443 ATAAATATT
1 ATAAAAATT
3856452 AT-AAAATT
1 ATAAAAATT
3856460 ATAA
1 ATAA
3856464 TTTTTTTATG
Statistics
Matches: 105, Mismatches: 17, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
6 5 0.05
7 6 0.06
8 19 0.18
9 28 0.27
10 36 0.34
11 11 0.10
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:3856451 original size:15 final size:17
Alignment explanation
Indices: 3856384--3856463 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
3856374 AAGAAATACA
*
3856384 AAAATTATTAAATATTAA
1 AAAATTA-TAAATATTAT
* *
3856402 AAAAATA-AAATAGATAT
1 AAAATTATAAATA-TTAT
*
3856419 AAACTTAT-AATAATTATT
1 AAAATTATAAAT-ATTA-T
*
3856437 AAAAATATAAATATTAT
1 AAAATTATAAATATTAT
3856454 AAAATTATAA
1 AAAATTATAA
3856464 TTTTTTTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
16 5 0.10
17 22 0.46
18 18 0.38
19 3 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (17 bp):
AAAATTATAAATATTAT
Found at i:3856455 original size:35 final size:37
Alignment explanation
Indices: 3856384--3856464 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 37
3856374 AAGAAATACA
*
3856384 AAAATTAT--TAAATATTAAAAAAATAAAATAGATAT
1 AAAATTATAATAATTATTAAAAAAATAAAATAGATAT
* * *
3856419 AAACTTATAATAATTATTAAAAATAT-AAATA-TTAT
1 AAAATTATAATAATTATTAAAAAAATAAAATAGATAT
3856454 AAAATTATAAT
1 AAAATTATAAT
3856465 TTTTTTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 20 0.51
36 5 0.13
37 14 0.36
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAATTATAATAATTATTAAAAAAATAAAATAGATAT
Found at i:3856507 original size:24 final size:27
Alignment explanation
Indices: 3856457--3856516 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
3856447 ATATTATAAA
*
3856457 ATTATAATTTTTTTATGAAATATACAT
1 ATTAAAATTTTTTTATGAAATATACAT
*
3856484 ATTTAAATTTTTTTAT-AAA-A-ACAT
1 ATTAAAATTTTTTTATGAAATATACAT
3856508 ATTAAAATT
1 ATTAAAATT
3856517 CTATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.40
25 1 0.03
26 3 0.10
27 14 0.47
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTAAAATTTTTTTATGAAATATACAT
Found at i:3856562 original size:29 final size:27
Alignment explanation
Indices: 3856500--3856584 Score: 64
Period size: 29 Copynumber: 3.0 Consensus size: 27
3856490 ATTTTTTTAT
* **
3856500 AAAAACATATTAAAATTCTATAAAAATC
1 AAAAA-ATATTAAAATTATATAAACTTC
3856528 ATAAAAATATTAAAATTGATATAAACTT-
1 A-AAAAATATTAAAATT-ATATAAACTTC
* *
3856556 ACAAAAATAATAAAAATTCATAAAAACTT
1 A-AAAAAT-ATTAAAATT-ATATAAACTT
3856585 GAACTCGACC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 19 0.40
29 28 0.60
ACGTcount: A:0.61, C:0.08, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAAAATATTAAAATTATATAAACTTC
Found at i:3858591 original size:10 final size:10
Alignment explanation
Indices: 3858578--3858602 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3858568 TAAACTCAGA
3858578 TAAATTATTT
1 TAAATTATTT
3858588 TAAATTATTT
1 TAAATTATTT
3858598 TAAAT
1 TAAAT
3858603 AAATTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAAATTATTT
Found at i:3861303 original size:26 final size:25
Alignment explanation
Indices: 3861253--3861303 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
3861243 TTAAAATAAC
* *
3861253 ATTTTATTTTACTTTCAAAATTATT
1 ATTTTATTTTACTTTAAAAACTATT
3861278 ATTTTATTTTTA-TTTAATAAACTATT
1 ATTTTA-TTTTACTTTAA-AAACTATT
3861304 CACATCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTTATTTTACTTTAAAAACTATT
Found at i:3861367 original size:19 final size:18
Alignment explanation
Indices: 3861331--3861365 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3861321 ACATCATCAT
*
3861331 AAAATGCAAATTAATTTA
1 AAAATGCAAAATAATTTA
*
3861349 AAAATTCAAAATAATTT
1 AAAATGCAAAATAATTT
3861366 TATTTAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATGCAAAATAATTTA
Found at i:3862299 original size:29 final size:28
Alignment explanation
Indices: 3862266--3862323 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
3862256 TTTTATTATT
3862266 TTTAATAGTATAAA-AATTAAATTAATCTA
1 TTTAATA--ATAAAGAATTAAATTAATCTA
*
3862295 TTTAATAATAAAGTAATTAATTTAATCTA
1 TTTAATAATAAAG-AATTAAATTAATCTA
3862324 ATCCTTGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 5 0.19
29 21 0.81
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (28 bp):
TTTAATAATAAAGAATTAAATTAATCTA
Found at i:3866726 original size:26 final size:25
Alignment explanation
Indices: 3866680--3866730 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
3866670 TTAAAATAAC
*
3866680 ATTTTATTTTACTTTCAAAATTATT
1 ATTTTATTTTACTTTAAAAATTATT
3866705 ATTTTATTTTTA-TTTAATAAATTATT
1 ATTTTA-TTTTACTTTAA-AAATTATT
3866731 CTCATCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTTATTTTACTTTAAAAATTATT
Found at i:3867103 original size:29 final size:28
Alignment explanation
Indices: 3867038--3867103 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
3867028 ATTTGATCTT
*
3867038 ATTTAAT-TTTTTAATAATATAAAATTA
1 ATTTAATCTATTTAATAATATAAAATTA
*
3867065 AATTAATCTATTTAATAATA-AAATGATTA
1 ATTTAATCTATTTAATAATATAAA--ATTA
3867094 ATTTAATCTA
1 ATTTAATCTA
3867104 GTTGATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.27
28 11 0.33
29 13 0.39
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTAATCTATTTAATAATATAAAATTA
Found at i:3870751 original size:46 final size:46
Alignment explanation
Indices: 3870681--3870772 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
3870671 TATTTGTTTG
*
3870681 CTTATTTGTAAATAAAATATTCTATTAAGAAATTTTAAAAAGTATA
1 CTTATTTGTAAATAAAATACTCTATTAAGAAATTTTAAAAAGTATA
*
3870727 CTTATTTGTAAATAAAATACTCTATTAAGAAATTTTGAAAAGTATA
1 CTTATTTGTAAATAAAATACTCTATTAAGAAATTTTAAAAAGTATA
3870773 GATAAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (46 bp):
CTTATTTGTAAATAAAATACTCTATTAAGAAATTTTAAAAAGTATA
Found at i:3870942 original size:22 final size:22
Alignment explanation
Indices: 3870917--3870960 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3870907 CAACAATTTC
* *
3870917 AATTGATATAAATGACAAAAAT
1 AATTAATATAAATCACAAAAAT
3870939 AATTAATATAAATCACAAAAAT
1 AATTAATATAAATCACAAAAAT
3870961 TTCGTTGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (22 bp):
AATTAATATAAATCACAAAAAT
Found at i:3871346 original size:20 final size:20
Alignment explanation
Indices: 3871309--3871347 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3871299 ATGATTCTTT
* *
3871309 TATAAAAACAAGTTAATTTA
1 TATAAAAACAAATGAATTTA
*
3871329 TATAAAAATAAATGAATTT
1 TATAAAAACAAATGAATTT
3871348 CTCTTCACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
TATAAAAACAAATGAATTTA
Found at i:3875030 original size:19 final size:20
Alignment explanation
Indices: 3875006--3875045 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3874996 TATTTTTTAA
*
3875006 AATAATTGAA-CTAAAAACT
1 AATAATTCAACCTAAAAACT
3875025 AATAATTCAATCCTAAAAACT
1 AATAATTCAA-CCTAAAAACT
3875046 CTGGATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (20 bp):
AATAATTCAACCTAAAAACT
Found at i:3878631 original size:32 final size:32
Alignment explanation
Indices: 3878567--3878632 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
3878557 TAATATTTAG
* *
3878567 TATTTTATATCTAAAAATAATATTTATTTATT
1 TATTTTATATCTAAAAATAATAATTATATATT
* *
3878599 TATTTTCT-TCTAAAAATATTTAATTATATATT
1 TATTTTATATCTAAAAATA-ATAATTATATATT
3878631 TA
1 TA
3878633 GAAACAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (32 bp):
TATTTTATATCTAAAAATAATAATTATATATT
Found at i:3892774 original size:19 final size:20
Alignment explanation
Indices: 3892742--3892783 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
3892732 ATAAGAAGCC
3892742 GAGCTAAGAAAGCTTGAATT
1 GAGCTAAGAAAGCTTGAATT
*
3892762 GAGC-AAGACAGCTTGAATT
1 GAGCTAAGAAAGCTTGAATT
3892781 GAG
1 GAG
3892784 TTTGCCAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (20 bp):
GAGCTAAGAAAGCTTGAATT
Found at i:3900882 original size:38 final size:38
Alignment explanation
Indices: 3900823--3900902 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
3900813 AAGTTGTGAC
* *
3900823 GATTGAAGGCACCAATATCTTACCCCGACCGTGAGGCA
1 GATTGAAGGCACCAACATCTTACCCCGACCATGAGGCA
* * *
3900861 GATTGAA-GCACCCAACCTCTTACCCCGATCATGGGGCA
1 GATTGAAGGCA-CCAACATCTTACCCCGACCATGAGGCA
3900899 GATT
1 GATT
3900903 ACAGTCATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 3 0.08
38 33 0.92
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.20
Consensus pattern (38 bp):
GATTGAAGGCACCAACATCTTACCCCGACCATGAGGCA
Found at i:3900962 original size:39 final size:38
Alignment explanation
Indices: 3900834--3901023 Score: 123
Period size: 39 Copynumber: 4.8 Consensus size: 38
3900824 ATTGAAGGCA
* * * * *
3900834 CCAATATCTTACCCCGACCGTGAGGCAGATTGAAGCAC
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAACCAT
* * *
3900872 CCAACCTCTTACCCCGATCATGGGGCAGATT-ACAGTCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGA-A-CCAT
** * * *
3900911 CTGATCTTTTACCCCGATCATTAGACAGATTGTAACCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTG-AACCAT
* * *
3900950 CCAATCTCTTACCCCGATCATAAGGTAAATT-ACAGCCATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGA-A--C--CAT
* * *
3900992 CCAATCTCTTACCTCGATCATGGGGTAGATTG
1 CCAATCTCTTACCCCGATCATGAGGCAGATTG
3901024 CAGTTATGTG
Statistics
Matches: 116, Mismatches: 26, Indels: 15
0.74 0.17 0.10
Matches are distributed among these distances:
37 2 0.02
38 28 0.24
39 53 0.46
40 2 0.02
41 1 0.01
42 30 0.26
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (38 bp):
CCAATCTCTTACCCCGATCATGAGGCAGATTGAACCAT
Found at i:3901357 original size:85 final size:85
Alignment explanation
Indices: 3901207--3901462 Score: 327
Period size: 85 Copynumber: 3.0 Consensus size: 85
3901197 GCTTCAAACC
* * * * * * *
3901207 CCATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGTGGTCATCTTCCTG-TCGAG
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCTTGAT-GAG
*
3901271 ATGCAGAGAAGTGAACCAAAT
65 ATACAGAGAAGTGAACCAAAT
** * * *
3901292 CTGTCTTCCTGATGAGATACAAAGAAGTGAATTAAAACAATGAAGCAGTCATCTTCTTGATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCTTGATGAGA
* *
3901357 TACAGAGAAATGGACCAAAT
66 TACAGAGAAGTGAACCAAAT
* *
3901377 CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCTTCTTGATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCTTGATGAGA
3901442 TACAGAGAAGT-AGACCAAAT
66 TACAGAGAAGTGA-ACCAAAT
3901462 C
1 C
3901463 AATGAAGCGA
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
85 144 0.99
86 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (85 bp):
CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCTTGATGAGA
TACAGAGAAGTGAACCAAAT
Found at i:3901514 original size:208 final size:207
Alignment explanation
Indices: 3901295--3901993 Score: 1040
Period size: 208 Copynumber: 3.4 Consensus size: 207
3901285 ACCAAATCTG
* ** * * *
3901295 TCTTCCTGATGAGATACAAAGAAGTGAATTAAAACAATGAAGCAGTCATCTTCTTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCTTGATGAGATAC
* * *
3901360 AGAGAAATGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGG
66 AAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGA
* *
3901425 TCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCCCAATACGAATGAG
131 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
*
3901490 ACTTCAAAACTCA
196 ACTTC-AAACCCA
* * * *
3901503 TCTTTCTGATGAGATACAGAGAAGTGGGTTAAAGTAATAAAGC-GATCATCTTCATGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAG-TCATCTTCTTGATGAGATA
* * * *
3901567 CAAAGAAGTGAACCAAATCCATTTTCCTAATGAGATACAGAGAAGTGGATTAAAACAATGAGGCG
65 CAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCG
* *
3901632 ATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTAATGAAGCGAAGCTTAATACGAATGA
130 ATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGA
*
3901697 GACTTCAAACCCC
195 GACTTCAAACCCA
* * * *
3901710 TCTTCCTAATGAGATTCAGAGAAGTGGGTCAAAGTAATAAAGCAGTCATCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCTTGATGAGATAC
* * *
3901775 AAAGAAGTAGACCAAATCCGTCTTTCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGA
66 AAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGA
* * * * *
3901840 TCATCTTCCTGATGAGATATAGATAAGTAGACCAAATCAGTAAAGAGAAGCTCAATACGAATGAG
131 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
3901905 ACTTCAAACCCAA
196 ACTTCAAACCC-A
3901918 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCTTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCTTGATGAGATAC
*
3901983 AGAGAAGTGGA
66 AAAGAAGTGGA
3901994 TTGAAACAAT
Statistics
Matches: 441, Mismatches: 47, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
207 191 0.43
208 250 0.57
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (207 bp):
TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCTTGATGAGATAC
AAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGA
TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
ACTTCAAACCCA
Found at i:3901602 original size:293 final size:293
Alignment explanation
Indices: 3901048--3901669 Score: 836
Period size: 293 Copynumber: 2.1 Consensus size: 293
3901038 AATAAAGTGG
** * * * * * *
3901048 TCATCTTCCT-ACAAGATGCAGAGAAGTGAACCAAATTCGTCTTCTTGATGAGGTACAGAAAAGT
1 TCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAAAAGT
* *
3901112 GGATTGAAAAAATGAAGCGGTTATCTTCTTGATGAAATACAGAAAAGTAGACCAAATCTATAAAG
66 GGATTGAAAAAATGAAGCGGTCATCTTCTTGATGAAATACAGAAAAGTAGACCAAATCAATAAAG
* * * *
3901177 CGAAGCTCAGCACGAATGAGGCTTCAAACCCCATCTTCCTGATGAGATACAGAGAAATGGGTCAA
131 CGAAGCCCAACACGAATGAGACTTCAAAACCCATCTTCCTGATGAGATACAGAGAAATGGGTCAA
* * * * * ** *
3901242 AGCAATAAAGTGGTCATCTTCCTGTCGAGATGCAGAGAAGTGAACCAAATCTGTCTTCCTGATGA
196 AGCAATAAAGCGATCATCTTCATGTCGAGATACAAAGAAGTGAACCAAATCCATCTTCCTAATGA
3901307 GATACAAAGAAGTGAATTAAAACAATGAAGC-A
261 GATACAAAGAAGTGAATTAAAACAATGAAGCGA
* * *
3901339 GTCATCTTCTTGATGAGATACAGAGAAATGGACCAAATCCATCTTCCTGATGAGATACAGAGAAG
1 -TCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAAAAG
* * * * *
3901404 TGGATTGAAACAATGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAA
65 TGGATTGAAAAAATGAAGCGGTCATCTTCTTGATGAAATACAGAAAAGTAGACCAAATCAATAAA
* * * * *
3901469 GCGAAGCCCAATACGAATGAGACTTCAAAACTCATCTTTCTGATGAGATACAGAGAAGTGGGTTA
130 GCGAAGCCCAACACGAATGAGACTTCAAAACCCATCTTCCTGATGAGATACAGAGAAATGGGTCA
* *
3901534 AAGTAATAAAGCGATCATCTTCATGAT-GAGATACAAAGAAGTGAACCAAATCCATTTTCCTAAT
195 AAGCAATAAAGCGATCATCTTCATG-TCGAGATACAAAGAAGTGAACCAAATCCATCTTCCTAAT
* * *
3901598 GAGATACAGAGAAGTGGATTAAAACAATGAGGCGA
259 GAGATACAAAGAAGTGAATTAAAACAATGAAGCGA
*
3901633 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAT
1 TCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAT
3901670 TAATGAAGCG
Statistics
Matches: 284, Mismatches: 43, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
292 9 0.03
293 273 0.96
294 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (293 bp):
TCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAAAAGT
GGATTGAAAAAATGAAGCGGTCATCTTCTTGATGAAATACAGAAAAGTAGACCAAATCAATAAAG
CGAAGCCCAACACGAATGAGACTTCAAAACCCATCTTCCTGATGAGATACAGAGAAATGGGTCAA
AGCAATAAAGCGATCATCTTCATGTCGAGATACAAAGAAGTGAACCAAATCCATCTTCCTAATGA
GATACAAAGAAGTGAATTAAAACAATGAAGCGA
Found at i:3901659 original size:85 final size:85
Alignment explanation
Indices: 3901511--3901669 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 85
3901501 CATCTTTCTG
* **
3901511 ATGAGATACAGAGAAGTGGGTTAAAGTAATAAAGCGATCATCTTCATGATGAGATACAAAGAAGT
1 ATGAGATACAGAGAAGTGGATTAAAACAATAAAGCGATCATCTTCATGATGAGATACAAAGAAGT
3901576 -GAACCAAATCCATTTTCCTA
66 AG-ACCAAATCCATTTTCCTA
* * * *
3901596 ATGAGATACAGAGAAGTGGATTAAAACAATGAGGCGATCATCTTCCTGATGAGATACAGAGAAGT
1 ATGAGATACAGAGAAGTGGATTAAAACAATAAAGCGATCATCTTCATGATGAGATACAAAGAAGT
3901661 AGACCAAAT
66 AGACCAAAT
3901670 TAATGAAGCG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 65 0.98
86 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.23
Consensus pattern (85 bp):
ATGAGATACAGAGAAGTGGATTAAAACAATAAAGCGATCATCTTCATGATGAGATACAAAGAAGT
AGACCAAATCCATTTTCCTA
Found at i:3902086 original size:171 final size:172
Alignment explanation
Indices: 3901795--3902165 Score: 591
Period size: 171 Copynumber: 2.2 Consensus size: 172
3901785 ACCAAATCCG
* * * *
3901795 TCTTTCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGATCATCTTCCTGATGAGATAT
1 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGATCATCTTCCTAATAAGATAC
* *
3901860 AGATAAGTAGACCAAATCAGTAAAGAGAAGCTCAATACGAATGAGACTTCAAA-CCCAATCTTCC
66 AGAAAAGTAGACCAAATCAGTAAAGAGAAGCTCAATACGAATGAGACTTCAAACCCCAATCATCC
* *
3901924 TGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCA
131 TGATAAGATACAGAGAAATGGGTCAAAGCAATAAAGCAGTCA
* * *
3901966 TCTTCTTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCTTCCTAATAAGGTAC
1 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGATCATCTTCCTAATAAGATAC
* * *
3902031 AGAAAAGTAGACCAAATCAGTGAAGCGAAGCTCAATACGAATGAGACTTCAAACCCCCATCATCC
66 AGAAAAGTAGACCAAATCAGTAAAGAGAAGCTCAATACGAATGAGACTTCAAACCCCAATCATCC
*
3902096 TGATAAGATACAGAGAAATGGGTCAAAGCAATAAAGCGGTCA
131 TGATAAGATACAGAGAAATGGGTCAAAGCAATAAAGCAGTCA
*
3902138 TCTTCCTGATGAGATATAGAGAAGTGGA
1 TCTTCCTGATGAGATACAGAGAAGTGGA
3902166 CCAAATCCGT
Statistics
Matches: 182, Mismatches: 17, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
171 108 0.59
172 74 0.41
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (172 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGATCATCTTCCTAATAAGATAC
AGAAAAGTAGACCAAATCAGTAAAGAGAAGCTCAATACGAATGAGACTTCAAACCCCAATCATCC
TGATAAGATACAGAGAAATGGGTCAAAGCAATAAAGCAGTCA
Found at i:3902295 original size:380 final size:378
Alignment explanation
Indices: 3901596--3902370 Score: 1212
Period size: 380 Copynumber: 2.0 Consensus size: 378
3901586 CATTTTCCTA
* * *
3901596 ATGAGATACAGAGAAGTGGATTAAAACAATGAGGCGATCATCTTCCTGATGAGATACAGAGAAGT
1 ATGAGATACAGAGAAGTGGATTAAAACAATGAGGCGATCATCTTCCTAATAAGATACAGAAAAGT
* * * * *
3901661 AGACCAAATTAATGAAGCGAAGCTTAATACGAATGAGACTTCAAACCCCTCTTCCTAATGAGATT
66 AGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCCCTCATCCTAATAAGATA
* *
3901726 CAGAGAAGTGGGTCAAAGTAATAAAGCAGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAA
131 CAGAGAAATGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAA
* *
3901791 TCCGTCTTTCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGATCATCTTCCTGATGAG
196 TCCGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGCCGATCATCTTCCTGATGAG
* *
3901856 ATATAGATAAGTAGACCAAATCAGTAAAGAGAAGCTCAATACGAATGAGACTTCAAACCCAATCT
261 ATATAGAGAAGTAGACCAAATCAATAAAGAGAAGCTCAATACGAATGAGACTTCAAACCCAATCT
*
3901921 TCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGC-AGTCATCTTCTTG
326 TCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGA-TCATCTTCTTG
* * *
3901974 ATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCTTCCTAATAAGGTACAGAAAAGT
1 ATGAGATACAGAGAAGTGGATTAAAACAATGAGGCGATCATCTTCCTAATAAGATACAGAAAAGT
* *
3902039 AGACCAAATCAGTGAAGCGAAGCTCAATACGAATGAGACTTCAAACCCCCATCATCCTGATAAGA
66 AGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAA-CCCC-TCATCCTAATAAGA
* * * *
3902104 TACAGAGAAATGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTGGACCA
129 TACAGAGAAATGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAAAGAAGTAGACCA
* *
3902169 AATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAATAATGAGCCGGTCATCTTCCTGATG
194 AATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGCCGATCATCTTCCTGATG
* * *
3902234 AGATATAGAGAAGTAGACCAAATTAATGAAGCA-AAGCTCAATACGAATGAGACTTCAAACCCCA
259 AGATATAGAGAAGTAGACCAAATCAATAAAG-AGAAGCTCAATACGAATGAGACTTCAAACCCAA
* *
3902298 TCTTCCTGATGAGATATAGAGAAGTGTGTCAAAGCAATAAAACGATCATCTTCTTG
323 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGATCATCTTCTTG
*
3902354 ATGAGATACAAAGAAGT
1 ATGAGATACAGAGAAGT
3902371 AGACCAAGAG
Statistics
Matches: 361, Mismatches: 32, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
378 101 0.28
379 4 0.01
380 254 0.70
381 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (378 bp):
ATGAGATACAGAGAAGTGGATTAAAACAATGAGGCGATCATCTTCCTAATAAGATACAGAAAAGT
AGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCCCTCATCCTAATAAGATA
CAGAGAAATGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAA
TCCGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGCCGATCATCTTCCTGATGAG
ATATAGAGAAGTAGACCAAATCAATAAAGAGAAGCTCAATACGAATGAGACTTCAAACCCAATCT
TCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGATCATCTTCTTG
Found at i:3923307 original size:16 final size:16
Alignment explanation
Indices: 3923282--3923312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3923272 CATCAGCTTG
3923282 GAACTAGAACAAGTTA
1 GAACTAGAACAAGTTA
*
3923298 GAACTTGAACAAGTT
1 GAACTAGAACAAGTT
3923313 GGTGATAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (16 bp):
GAACTAGAACAAGTTA
Found at i:3930107 original size:18 final size:17
Alignment explanation
Indices: 3930074--3930107 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3930064 CCATGCGAAT
*
3930074 TGCGAGCTCGCAAAAAA
1 TGCGAGCTCCCAAAAAA
3930091 TGCGAGCTCACCAAAAA
1 TGCGAGCTC-CCAAAAA
3930108 CCATGAGCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.26, G:0.21, T:0.12
Consensus pattern (17 bp):
TGCGAGCTCCCAAAAAA
Found at i:3938235 original size:23 final size:23
Alignment explanation
Indices: 3938187--3938235 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3938177 CATAATATAA
* *
3938187 GCAGATTTTCAGCACTAAAATGT
1 GCAGATGTTCAGCACTAAAATAT
* *
3938210 GCAGATGTTCTGCACTAAATTAT
1 GCAGATGTTCAGCACTAAAATAT
3938233 GCA
1 GCA
3938236 AGAAAACATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (23 bp):
GCAGATGTTCAGCACTAAAATAT
Found at i:3962892 original size:2 final size:2
Alignment explanation
Indices: 3962822--3962873 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
3962812 CTTTTAAAAA
3962822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3962864 AT AT AT AT AT
1 AT AT AT AT AT
3962874 GTATGTAACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3979821 original size:6 final size:7
Alignment explanation
Indices: 3979804--3979831 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3979794 CGGGTTAAAT
3979804 TTTTTAA
1 TTTTTAA
3979811 TTTTTAA
1 TTTTTAA
3979818 TTTTTAA
1 TTTTTAA
3979825 TTTTTAA
1 TTTTTAA
3979832 ATTACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:3981477 original size:18 final size:18
Alignment explanation
Indices: 3981443--3981476 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3981433 ATTCTAATAA
3981443 TAATAAATATTATAAAAT
1 TAATAAATATTATAAAAT
3981461 TAATAAA-ATTATAAAA
1 TAATAAATATTATAAAA
3981477 AAAAATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAAATATTATAAAAT
Found at i:3981883 original size:19 final size:19
Alignment explanation
Indices: 3981859--3981899 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3981849 ACACTGATAG
*
3981859 TTTT-AAAATTTTTCACTTT
1 TTTTAAAAATATTT-ACTTT
3981878 TTTTAAAAATATTTACTTT
1 TTTTAAAAATATTTACTTT
3981897 TTT
1 TTT
3981900 AATATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAAAAATATTTACTTT
Found at i:3983200 original size:14 final size:14
Alignment explanation
Indices: 3983182--3983219 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3983172 ACTAATAATA
3983182 ATTTATTAATATAT
1 ATTTATTAATATAT
* *
3983196 TTTTATAAATATAT
1 ATTTATTAATATAT
3983210 ATTT-TTAATA
1 ATTTATTAATA
3983220 CAAAATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTATTAATATAT
Found at i:3993616 original size:57 final size:57
Alignment explanation
Indices: 3993547--3993662 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
3993537 TTTAAATGAA
*
3993547 TGATATGGAAGGTTTATTTATAATTTATATAAACATAGATTTAGCATAGAAAACAAT
1 TGATATGGAAGGTTTATTTATAATTTATATAAAAATAGATTTAGCATAGAAAACAAT
*
3993604 TGATATGGAAGGTTTATTTATAATTTATATAAAAATAGATTTAGCATGGAAAACAAT
1 TGATATGGAAGGTTTATTTATAATTTATATAAAAATAGATTTAGCATAGAAAACAAT
3993661 TG
1 TG
3993663 TTATAATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (57 bp):
TGATATGGAAGGTTTATTTATAATTTATATAAAAATAGATTTAGCATAGAAAACAAT
Found at i:3997390 original size:54 final size:54
Alignment explanation
Indices: 3997329--3997458 Score: 163
Period size: 57 Copynumber: 2.4 Consensus size: 54
3997319 GGGTGGACAG
** **
3997329 CAGTGGCTGCACCAGCACCAGGGTTGGCAACATTGGGTCCTGTGGGAATGGGAC
1 CAGTGGCTGCACCAGCACCAGGGTTCCCAACAGCGGGTCCTGTGGGAATGGGAC
*
3997383 CAGTGGCTGCAGCACCTA-CACCAGGGTTCCCAACAGCGGTTCCTGTGGGAATGGGAC
1 CAGTGGCT---GCACC-AGCACCAGGGTTCCCAACAGCGGGTCCTGTGGGAATGGGAC
*
3997440 CAGTGGCTGCACCTGCACC
1 CAGTGGCTGCACCAGCACC
3997459 CACACCAGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
54 17 0.26
57 47 0.72
58 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (54 bp):
CAGTGGCTGCACCAGCACCAGGGTTCCCAACAGCGGGTCCTGTGGGAATGGGAC
Found at i:3997417 original size:57 final size:58
Alignment explanation
Indices: 3997344--3997478 Score: 191
Period size: 57 Copynumber: 2.3 Consensus size: 58
3997334 GCTGCACCAG
* ** *
3997344 CACCAGGGTTGGCAACATTGGGTCCTGTGGGAATGGGACCAGTGGCTGCA-GCACCTA
1 CACCAGGGTTGCCAACAGCGGGTCCTGTGGGAATGGGACCAGTGGCTGCACGCACCCA
* *
3997401 CACCAGGGTTCCCAACAGCGGTTCCTGTGGGAATGGGACCAGTGGCTGCACCTGCACCCA
1 CACCAGGGTTGCCAACAGCGGGTCCTGTGGGAATGGGACCAGTGGCTGCA-C-GCACCCA
3997461 CACCAGGGTTGCCAACAG
1 CACCAGGGTTGCCAACAG
3997479 TGGCTCCAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
57 45 0.66
60 23 0.34
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.17
Consensus pattern (58 bp):
CACCAGGGTTGCCAACAGCGGGTCCTGTGGGAATGGGACCAGTGGCTGCACGCACCCA
Found at i:3998739 original size:4 final size:4
Alignment explanation
Indices: 3998730--3998763 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
3998720 ACATATATCT
3998730 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA CT
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA CT
3998764 TTCTCATGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.50, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCA
Found at i:4002232 original size:16 final size:17
Alignment explanation
Indices: 4002207--4002242 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4002197 ACAAAATAGT
*
4002207 AAAAAGAAAAACCC-AG
1 AAAAACAAAAACCCAAG
4002223 AAAAACAAAAACCCAAG
1 AAAAACAAAAACCCAAG
4002240 AAA
1 AAA
4002243 GAGAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.72, C:0.19, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAACAAAAACCCAAG
Found at i:4002269 original size:20 final size:21
Alignment explanation
Indices: 4002221--4002270 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4002211 AGAAAAACCC
4002221 AGAAAAACA-AAAACCCAAGAA
1 AGAAAAA-AGAAAACCCAAGAA
*
4002242 AGAGAAAAGAAAACCC-AGAA
1 AGAAAAAAGAAAACCCAAGAA
*
4002262 ATAAAAAAG
1 AGAAAAAAG
4002271 GGGAAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.70, C:0.14, G:0.14, T:0.02
Consensus pattern (21 bp):
AGAAAAAAGAAAACCCAAGAA
Found at i:4005076 original size:11 final size:11
Alignment explanation
Indices: 4005056--4005089 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4005046 TCTAATTAAT
*
4005056 TCAATTAAAAA
1 TCAATAAAAAA
4005067 TCAATAAAAAA
1 TCAATAAAAAA
*
4005078 TAAATAAAAAA
1 TCAATAAAAAA
4005089 T
1 T
4005090 AAAAAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (11 bp):
TCAATAAAAAA
Found at i:4005090 original size:11 final size:11
Alignment explanation
Indices: 4005062--4005092 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4005052 TAATTCAATT
*
4005062 AAAAATCAATA
1 AAAAATAAATA
4005073 AAAAATAAATA
1 AAAAATAAATA
4005084 AAAAATAAA
1 AAAAATAAA
4005093 AAAGAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:4013694 original size:8 final size:8
Alignment explanation
Indices: 4013681--4013707 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4013671 TTTTCAAATG
4013681 TAAATTTA
1 TAAATTTA
4013689 TAAATTTA
1 TAAATTTA
4013697 TAAATTTA
1 TAAATTTA
4013705 TAA
1 TAA
4013708 TACATTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TAAATTTA
Found at i:4018674 original size:19 final size:20
Alignment explanation
Indices: 4018650--4018697 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
4018640 ACAACAAACC
4018650 AATAATAAA-AGTCAACC-AT
1 AATAATAAAGAG-CAACCAAT
4018669 AATAATAAAGAGCAACCAAT
1 AATAATAAAGAGCAACCAAT
4018689 AA-AATAAAG
1 AATAATAAAG
4018698 CACATAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.17
Consensus pattern (20 bp):
AATAATAAAGAGCAACCAAT
Found at i:4024328 original size:2 final size:2
Alignment explanation
Indices: 4024321--4024348 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4024311 ATTTACATCC
4024321 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
4024349 GTATGACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4039221 original size:3 final size:3
Alignment explanation
Indices: 4039213--4039254 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4039203 CATTAAGGTA
4039213 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4039255 AGCTACCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4041387 original size:2 final size:2
Alignment explanation
Indices: 4041380--4041424 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4041370 TCTGCCTATT
4041380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4041422 TA T
1 TA T
4041425 TTGAATTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4044222 original size:19 final size:17
Alignment explanation
Indices: 4044180--4044233 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
4044170 ATTACTACTA
4044180 TTTTATTGTT-ATTGTTG
1 TTTTATTGTTAATT-TTG
*
4044197 -GTTATTGTATAATTCTTG
1 TTTTATTGT-TAATT-TTG
4044215 TTTTATTGTTAATTTTG
1 TTTTATTGTTAATTTTG
4044232 TT
1 TT
4044234 AATATTTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.23
17 6 0.19
18 11 0.35
19 7 0.23
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.67
Consensus pattern (17 bp):
TTTTATTGTTAATTTTG
Found at i:4044239 original size:18 final size:19
Alignment explanation
Indices: 4044199--4044239 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
4044189 TATTGTTGGT
*
4044199 TATTGTATAATTCTTGTTT
1 TATTGTATAATTCTTGTTA
4044218 TATTGT-TAATT-TTGTTAA
1 TATTGTATAATTCTTGTT-A
4044236 TATT
1 TATT
4044240 TTAGAGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTGTTA
Found at i:4049153 original size:21 final size:21
Alignment explanation
Indices: 4049116--4049155 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4049106 TATAATATAT
*
4049116 TCAATTTTTTAGTTTTGAAGA
1 TCAATTTTTGAGTTTTGAAGA
4049137 TCAA-TTTTGAGTGTTTGAA
1 TCAATTTTTGAGT-TTTGAA
4049156 AATCCATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (21 bp):
TCAATTTTTGAGTTTTGAAGA
Found at i:4049866 original size:22 final size:21
Alignment explanation
Indices: 4049836--4049876 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
4049826 TTAAAAGAAA
4049836 AAAATAAA-TTAAACTATAACT
1 AAAATAAATTTAAAC-ATAACT
4049857 AAAATGAAATTTAAACATAA
1 AAAAT-AAATTTAAACATAA
4049877 AAACACATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATAAATTTAAACATAACT
Found at i:4050416 original size:19 final size:22
Alignment explanation
Indices: 4050371--4050419 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 22
4050361 TTTAAAATTC
4050371 TAATTTTTTAATATATTCTTTA
1 TAATTTTTTAATATATTCTTTA
*
4050393 GAATTTTTTAAT-T-TT-TTTA
1 TAATTTTTTAATATATTCTTTA
4050412 TAATTTTT
1 TAATTTTT
4050420 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 2 0.08
21 1 0.04
22 11 0.44
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TAATTTTTTAATATATTCTTTA
Found at i:4050461 original size:19 final size:20
Alignment explanation
Indices: 4050434--4050496 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
4050424 ATATATAAGT
*
4050434 TTTTGGAATTTTTATAAAC-A
1 TTTT-GAATTTTTAAAAACTA
4050454 TTTTGAA-TTTTAAAAACTA
1 TTTTGAATTTTTAAAAACTA
*
4050473 TTTTGAATTTTTGAAAACTA
1 TTTTGAATTTTTAAAAACTA
4050493 TTTT
1 TTTT
4050497 TTTTGTTGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.23
19 11 0.28
20 19 0.49
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAACTA
Found at i:4050489 original size:20 final size:19
Alignment explanation
Indices: 4050434--4050496 Score: 83
Period size: 19 Copynumber: 3.2 Consensus size: 19
4050424 ATATATAAGT
4050434 TTTTGGAATTTTTATAAAC-A
1 TTTT-GAATTTTTA-AAACTA
*
4050454 TTTTGAATTTTAAAAACTA
1 TTTTGAATTTTTAAAACTA
4050473 TTTTGAATTTTTGAAAACTA
1 TTTTGAATTTTT-AAAACTA
4050493 TTTT
1 TTTT
4050497 TTTTGTTGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.10
19 20 0.51
20 15 0.38
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (19 bp):
TTTTGAATTTTTAAAACTA
Found at i:4063814 original size:14 final size:14
Alignment explanation
Indices: 4063795--4063829 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4063785 AATAATATAA
4063795 ATTATTATTTAATT
1 ATTATTATTTAATT
*
4063809 ATTATTATTTTATT
1 ATTATTATTTAATT
4063823 ATTATTA
1 ATTATTA
4063830 ACTAATATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATTATTTAATT
Found at i:4068152 original size:27 final size:28
Alignment explanation
Indices: 4068097--4068147 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
4068087 GATAATATTT
4068097 TTTAAACATAAAAATATAAAATTATTAA
1 TTTAAACATAAAAATATAAAATTATTAA
4068125 TTTAAAC-T-AAAATA-AAAATTATT
1 TTTAAACATAAAAATATAAAATTATT
4068148 TTAATGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 1 0.04
28 7 0.30
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
TTTAAACATAAAAATATAAAATTATTAA
Found at i:4068303 original size:31 final size:31
Alignment explanation
Indices: 4068266--4068346 Score: 162
Period size: 31 Copynumber: 2.6 Consensus size: 31
4068256 ATTTCAAAAT
4068266 TATATATGAATTTTGATTTAATATGCAATCA
1 TATATATGAATTTTGATTTAATATGCAATCA
4068297 TATATATGAATTTTGATTTAATATGCAATCA
1 TATATATGAATTTTGATTTAATATGCAATCA
4068328 TATATATGAATTTTGATTT
1 TATATATGAATTTTGATTT
4068347 TGTGTAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (31 bp):
TATATATGAATTTTGATTTAATATGCAATCA
Found at i:4073433 original size:38 final size:37
Alignment explanation
Indices: 4073362--4073433 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
4073352 GTTAATTAAT
*
4073362 TTTTTAAAATTAAAAATTCAAAAAATTATAAAAACTA
1 TTTTTAAAATTAAAAATTCAAAAAATTAGAAAAACTA
*
4073399 TTTTTAAAATTAAAATATT-ATAAAATTACGAAAAA
1 TTTTTAAAATTAAAA-ATTCAAAAAATTA-GAAAAA
4073434 AAATATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 23 0.74
38 8 0.26
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
TTTTTAAAATTAAAAATTCAAAAAATTAGAAAAACTA
Found at i:4076185 original size:17 final size:17
Alignment explanation
Indices: 4076165--4076205 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4076155 ATCAAATTAA
* *
4076165 AATTAATTTAATTAGTT
1 AATTAATTAAATTAATT
4076182 AATTAATTAAATTAATT
1 AATTAATTAAATTAATT
*
4076199 ATTTAAT
1 AATTAAT
4076206 CGAAATTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTAATTAAATTAATT
Found at i:4076189 original size:21 final size:21
Alignment explanation
Indices: 4076165--4076205 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4076155 ATCAAATTAA
*
4076165 AATTAATTTAATTAGTTAATT
1 AATTAAATTAATTAGTTAATT
*
4076186 AATTAAATTAATTATTTAAT
1 AATTAAATTAATTAGTTAAT
4076206 CGAAATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTAAATTAATTAGTTAATT
Found at i:4077246 original size:15 final size:14
Alignment explanation
Indices: 4077206--4077251 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
4077196 ATCTAATAAA
4077206 AAAAGTAAAAAAGTT
1 AAAAGTAAAAAA-TT
* *
4077221 AAAATTCAAAAATT
1 AAAAGTAAAAAATT
4077235 AAAAGTAGAAAAATT
1 AAAAGTA-AAAAATT
4077250 AA
1 AA
4077252 TTTTCTACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (14 bp):
AAAAGTAAAAAATT
Found at i:4079641 original size:32 final size:30
Alignment explanation
Indices: 4079572--4079658 Score: 92
Period size: 32 Copynumber: 2.9 Consensus size: 30
4079562 CTTTTTCATT
4079572 ATATCA-TTTAAT-ATTTTTTTATTATTTA
1 ATATCATTTTAATAATTTTTTTATTATTTA
4079600 ATAAT-ATTTTAATAATTTTTTTATGTCA-TTA
1 AT-ATCATTTTAATAATTTTTTTAT-T-ATTTA
* *
4079631 CATATCATTTTGATAATTCTTTTATTAT
1 -ATATCATTTTAATAATTTTTTTATTAT
4079659 AATTTTGAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
28 3 0.06
29 8 0.16
30 11 0.22
31 7 0.14
32 20 0.41
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (30 bp):
ATATCATTTTAATAATTTTTTTATTATTTA
Found at i:4080141 original size:20 final size:20
Alignment explanation
Indices: 4080088--4080142 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
4080078 ATTTGTTTGA
4080088 CATTTTCCT--AA-TTTTTT
1 CATTTTCCTCAAATTTTTTT
* * * *
4080105 CACTTACCCCAATTTTTTTT
1 CATTTTCCTCAAATTTTTTT
4080125 CATTTTCCTCAAATTTTT
1 CATTTTCCTCAAATTTTT
4080143 GTCTACTTTA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
17 6 0.22
19 1 0.04
20 20 0.74
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (20 bp):
CATTTTCCTCAAATTTTTTT
Found at i:4088974 original size:13 final size:13
Alignment explanation
Indices: 4088958--4088988 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4088948 CTAATCTTAG
4088958 CCCTAGATCTAAA
1 CCCTAGATCTAAA
4088971 CCCTAGATCTAAA
1 CCCTAGATCTAAA
4088984 CCCTA
1 CCCTA
4088989 ATGGTATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.23
Consensus pattern (13 bp):
CCCTAGATCTAAA
Found at i:4094893 original size:21 final size:21
Alignment explanation
Indices: 4094852--4094893 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4094842 TTAACTATGC
* *
4094852 TAAAGAGTAAATGATATTTTT
1 TAAACAGTAAATGATAATTTT
4094873 TAAACAGTAAAT-ATTAATTTT
1 TAAACAGTAAATGA-TAATTTT
4094894 ATGCCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (21 bp):
TAAACAGTAAATGATAATTTT
Found at i:4097054 original size:58 final size:59
Alignment explanation
Indices: 4096982--4097132 Score: 155
Period size: 58 Copynumber: 2.5 Consensus size: 59
4096972 AAAATTCTAG
* *
4096982 ATAGTTGGGTGACCAAAAAAGACAAAATAAAATAATTGAATGAT-TATTGT-T-ACTTTTC
1 ATAGTTAGGTGACCAAAAAAGA-AAAATAAAATAATTGAATGATCAATT-TATAACTTTTC
* * ** * * **
4097040 ATAGTTAGGAGACCAAAAGAGAAATTTACTAATAGTTGTGTGATCAATTTATAACTTTTC
1 ATAGTTAGGTGACCAAAAAAGAAAAATA-AAATAATTGAATGATCAATTTATAACTTTTC
4097100 ATAGTTAGGTGACCAAAAAAAGAAAAATAAAAT
1 ATAGTTAGGTGACC-AAAAAAGAAAAATAAAAT
4097133 CCACAATTGG
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
57 4 0.05
58 31 0.42
59 4 0.05
60 23 0.32
61 11 0.15
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (59 bp):
ATAGTTAGGTGACCAAAAAAGAAAAATAAAATAATTGAATGATCAATTTATAACTTTTC
Found at i:4106374 original size:17 final size:16
Alignment explanation
Indices: 4106354--4106401 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
4106344 AGTTTTTTTA
*
4106354 AAATTTAAACTTAATAT
1 AAATTTAAA-TTAAAAT
4106371 AAATTTAAATTTAAAAT
1 AAATTTAAA-TTAAAAT
*
4106388 AAATATAAATTAAA
1 AAATTTAAATTAAA
4106402 TGTTCAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTTAAATTAAAAT
Found at i:4106380 original size:23 final size:22
Alignment explanation
Indices: 4106354--4106411 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
4106344 AGTTTTTTTA
* *
4106354 AAATTTAAACTTAATATAAATTT
1 AAATTTAAAATAAATATAAA-TT
4106377 AAATTTAAAATAAATATAAATT
1 AAATTTAAAATAAATATAAATT
*
4106399 AAATGTTCAAATA
1 AAAT-TTAAAATA
4106412 CAAGGAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATTTAAAATAAATATAAATT
Found at i:4108436 original size:58 final size:57
Alignment explanation
Indices: 4108373--4108531 Score: 153
Period size: 58 Copynumber: 2.7 Consensus size: 57
4108363 CCAAAAATAA
* * * *
4108373 CATTTTGACTCAAAAACTTCCCAAAACTACATTTTTGCCCCCAAACTTTTCAAAATTC
1 CATTTTGACTC-AAAATTTCCCAAAAATACATTTTTGCCCCCAAACTTTCCAAAATCC
* * *
4108431 CATTTTGACCTC--GATTTCACCAAAAATTACCA-TTTTACCCCTAAACTTTCCAAAATCC
1 CATTTTGA-CTCAAAATTTC-CCAAAAA-TA-CATTTTTGCCCCCAAACTTTCCAAAATCC
* *
4108489 CATTTTTAACCCTAAAATTTCCCAAAAATACATTTTTGCCCCC
1 CA-TTTTGACTC-AAAATTTCCCAAAAATACATTTTTGCCCCC
4108532 GAGAGTCAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
56 4 0.05
57 6 0.08
58 38 0.47
59 20 0.25
60 7 0.09
61 5 0.06
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (57 bp):
CATTTTGACTCAAAATTTCCCAAAAATACATTTTTGCCCCCAAACTTTCCAAAATCC
Found at i:4108484 original size:30 final size:30
Alignment explanation
Indices: 4108444--4108524 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
4108434 TTTGACCTCG
*
4108444 ATTTCACCAAAAATTACCATTTTACCCCTAAA
1 ATTTC-CCAAAAA-TACCATTTTAACCCTAAA
* *
4108476 CTTT-CC-AAAATCCCATTTTTAACCCTAAA
1 ATTTCCCAAAAATACCA-TTTTAACCCTAAA
4108505 ATTTCCCAAAAATA-CATTTT
1 ATTTCCCAAAAATACCATTTT
4108525 TGCCCCCGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
28 4 0.10
29 23 0.56
30 6 0.15
31 5 0.12
32 3 0.07
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (30 bp):
ATTTCCCAAAAATACCATTTTAACCCTAAA
Found at i:4113382 original size:61 final size:61
Alignment explanation
Indices: 4113307--4113429 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
4113297 AATAACATTG
*
4113307 GCTTAGAGCTTATTTGTGCAAATAAGGGAAAGAAATTGCTTTTGTTGCAGTCCAAGACAGT
1 GCTTAGAGCTTATTTGTGCAAATAAGGGAAAGAAATTGCTTTCGTTGCAGTCCAAGACAGT
* * *
4113368 GCTTAGAGCTTATTTGTGCAAATAGGGGAATGAAATTGCTTTCGTTGTAGTCCAAGACAGT
1 GCTTAGAGCTTATTTGTGCAAATAAGGGAAAGAAATTGCTTTCGTTGCAGTCCAAGACAGT
4113429 G
1 G
4113430 TTTACTGCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (61 bp):
GCTTAGAGCTTATTTGTGCAAATAAGGGAAAGAAATTGCTTTCGTTGCAGTCCAAGACAGT
Found at i:4114114 original size:26 final size:26
Alignment explanation
Indices: 4114058--4114115 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
4114048 CTTAGAACTA
*
4114058 AATGATCTAAAACTTAATACCATTTG
1 AATGTTCTAAAACTTAATACCATTTG
4114084 AATGTTCTAAAACTTAATACCATTTG
1 AATGTTCTAAAACTTAATACCATTTG
4114110 AATGTT
1 AATGTT
4114116 ATAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (26 bp):
AATGTTCTAAAACTTAATACCATTTG
Found at i:4120533 original size:18 final size:17
Alignment explanation
Indices: 4120488--4120552 Score: 80
Period size: 17 Copynumber: 3.8 Consensus size: 17
4120478 AATTTAGCTT
4120488 TAAA-TTAAATTTATTA
1 TAAATTTAAATTTATTA
*
4120504 TGAATTTAAATTTGCATTA
1 TAAATTTAAATTT--ATTA
*
4120523 -AAATTTGAATTTATTA
1 TAAATTTAAATTTATTA
4120539 TAAATTTAAATTTA
1 TAAATTTAAATTTA
4120553 AAACTAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 7 0.17
17 20 0.49
18 10 0.24
19 4 0.10
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
TAAATTTAAATTTATTA
Found at i:4120610 original size:46 final size:46
Alignment explanation
Indices: 4120560--4120651 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
4120550 TTAAAACTAA
* * *
4120560 ATTAAATGTCCAAAATCTATTTACAAGCTCGATTGGGCCAAATTTG
1 ATTAAATGTCCAAAATCCATTTACAAGCCCAATTGGGCCAAATTTG
* *
4120606 ATTAAATGTCCAAAGTCCATTTACAAGCCCAATTGGGCTAAATTTG
1 ATTAAATGTCCAAAATCCATTTACAAGCCCAATTGGGCCAAATTTG
4120652 GTTAGCCCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (46 bp):
ATTAAATGTCCAAAATCCATTTACAAGCCCAATTGGGCCAAATTTG
Found at i:4121371 original size:15 final size:15
Alignment explanation
Indices: 4121346--4121386 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4121336 TTGATAATTT
4121346 TATTAAATATTTATAA
1 TATT-AATATTTATAA
*
4121362 TATTAATATTTTTAA
1 TATTAATATTTATAA
*
4121377 TAATAATATT
1 TATTAATATT
4121387 ATTAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTAATATTTATAA
Found at i:4121380 original size:37 final size:39
Alignment explanation
Indices: 4121321--4121394 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
4121311 ACATACATTA
*
4121321 ATAATAGTAAATGTTTTGATAAT-T-TTATTAAATATTT
1 ATAATAGTAAATGTTTTAATAATATATTATTAAATATTT
*
4121358 ATAATATTAATAT-TTTTAATAATAATATTATTAAATA
1 ATAATAGTAA-ATGTTTTAATAAT-ATATTATTAAATA
4121395 AAAAAAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 18 0.58
38 2 0.06
39 1 0.03
40 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (39 bp):
ATAATAGTAAATGTTTTAATAATATATTATTAAATATTT
Found at i:4122507 original size:29 final size:27
Alignment explanation
Indices: 4122473--4122840 Score: 150
Period size: 29 Copynumber: 12.7 Consensus size: 27
4122463 GATTTCACCG
4122473 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCC--AACTTTCC
*
4122502 AAAATT-CCATTTTAACCCCGA-TTTCAC
1 AAAATTACCATTTT-ACCCCAACTTTC-C
* *
4122529 TAAAAATTACCACTTTACCCCAAAACTTCCC
1 --AAAATTACCATTTTACCCC--AACTTTCC
* *
4122560 AAAA-TCCCATTTTTAACCCCGA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCAACTTT--CC
4122589 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCC--AACTTTCC
4122618 AAAATT-CCATTTTTAACCCCAA-TTTCATC
1 AAAATTACCA-TTTT-ACCCCAACTTTC--C
* *
4122647 GAAAATTACCATTTTACCCTTGAACTTCCC
1 -AAAATTACCATTTTACCC--CAACTTTCC
* * **
4122677 AAAA-TCCCTTTTTAACCCC-GGTTTCACC
1 AAAATTACCATTTT-ACCCCAACTTT--CC
*
4122705 AAAAATTACCATTTTACCCTCGAACTTCCC
1 -AAAATTACCATTTTACCC-C-AACTTTCC
* * *
4122735 AAAA-TCCCATCTTTAACCTCGA-TTTCACC
1 AAAATTACCAT-TTT-ACCCCAACTTT--CC
4122764 AAAAATTACCATTTTATCCCCAAACTTTCC
1 -AAAATTACCATTTTA-CCCC-AACTTTCC
*
4122794 AAAA-TCCCATTTTAACCCCAA-TTCTACC
1 AAAATTACCATTTT-ACCCCAACTT-T-CC
4122822 AAAAATTA-CATTTTTACCC
1 -AAAATTACCA-TTTTACCC
4122841 TCGGAAGTCA
Statistics
Matches: 259, Mismatches: 32, Indels: 96
0.67 0.08 0.25
Matches are distributed among these distances:
26 8 0.03
27 13 0.05
28 51 0.20
29 98 0.38
30 62 0.24
31 16 0.06
32 11 0.04
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATTACCATTTTACCCCAACTTTCC
Found at i:4122546 original size:58 final size:58
Alignment explanation
Indices: 4122412--4122840 Score: 546
Period size: 58 Copynumber: 7.3 Consensus size: 58
4122402 CTGGATTGTT
* *
4122412 CAAAAATTACCATTTTATCCCC-AAACTTCCCAAAATCTCATTTTTAACTCCGATTTCAC
1 CAAAAATTACCATTTTA-CCCCTAAACTTCCCAAAATCCCA-TTTTAACCCCGATTTCAC
* * *
4122471 CGAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCATTTTAACCCCGATTTCAC
* * *
4122529 TAAAAATTACCACTTTACCCCAAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCA-TTTTAACCCCGATTTCAC
* * * *
4122588 C-AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCA-TTTTAACCCCGATTTCAC
* * * * *
4122646 CGAAAATTACCATTTTACCCTTGAACTTCCCAAAATCCCTTTTTAACCCCGGTTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCATTTTAACCCCGATTTCAC
* *
4122704 CAAAAATTACCATTTTA-CCCTCGAACTTCCCAAAATCCCATCTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCT-AAACTTCCCAAAATCCCAT-TTTAACCCCGATTTCAC
* *
4122763 CAAAAATTACCATTTTATCCCC-AAACTTTCCAAAATCCCATTTTAACCCC-AATTCTAC
1 CAAAAATTACCATTTTA-CCCCTAAACTTCCCAAAATCCCATTTTAACCCCGATTTC-AC
4122821 CAAAAATTA-CATTTTTACCC
1 CAAAAATTACCA-TTTTACCC
4122841 TCGGAAGTCA
Statistics
Matches: 326, Mismatches: 35, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
57 12 0.04
58 180 0.55
59 131 0.40
61 3 0.01
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.32
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCATTTTAACCCCGATTTCAC
Found at i:4122711 original size:175 final size:176
Alignment explanation
Indices: 4122412--4122841 Score: 613
Period size: 175 Copynumber: 2.5 Consensus size: 176
4122402 CTGGATTGTT
* * *
4122412 CAAAAATTACCATTTTATCCCCAAACTTCCCAAAA-TCTCATTTTTAACTCCGATTTCACCGAAA
1 CAAAAATTACCATTTTATCCCCAAACTTTCCAAAATTC-CATTTTTAACCCCAATTTCACCGAAA
* * * *
4122476 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCACTAAAAATTACCA
65 ATTACCATTTTACCCTTAAACTTCCCAAAATCCCATTTTAACCCCGATTTCACCAAAAATTACCA
*
4122541 CTTTACCC-CAAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCAC
130 CTTTACCCTC-AAACTTCCCAAAATCCCATCTTTAACCCCGATTTCAC
*
4122588 C-AAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATCGAAA
1 CAAAAATTACCATTTTATCCCC-AAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCGAAA
* * *
4122651 ATTACCATTTTACCCTTGAACTTCCCAAAATCCCTTTTTAACCCCGGTTTCACCAAAAATTACCA
65 ATTACCATTTTACCCTTAAACTTCCCAAAATCCCATTTTAACCCCGATTTCACCAAAAATTACCA
* * *
4122716 TTTTACCCTCGAACTTCCCAAAATCCCATCTTTAACCTCGATTTCAC
130 CTTTACCCTCAAACTTCCCAAAATCCCATCTTTAACCCCGATTTCAC
* *
4122763 CAAAAATTACCATTTTATCCCCAAACTTTCCAAAATCCCA-TTTTAACCCCAA-TTCTACCAAAA
1 CAAAAATTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTC-ACCGAAA
4122826 ATTA-CATTTTTACCCT
65 ATTACCA-TTTTACCCT
4122842 CGGAAGTCAA
Statistics
Matches: 229, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
174 9 0.04
175 180 0.79
176 36 0.16
177 4 0.02
ACGTcount: A:0.33, C:0.32, G:0.02, T:0.33
Consensus pattern (176 bp):
CAAAAATTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCGAAAA
TTACCATTTTACCCTTAAACTTCCCAAAATCCCATTTTAACCCCGATTTCACCAAAAATTACCAC
TTTACCCTCAAACTTCCCAAAATCCCATCTTTAACCCCGATTTCAC
Found at i:4122843 original size:117 final size:116
Alignment explanation
Indices: 4122412--4122840 Score: 582
Period size: 117 Copynumber: 3.7 Consensus size: 116
4122402 CTGGATTGTT
* * *
4122412 CAAAAATTACCATTTTATCCCCAAACTTCCCAAAATCTCATTTTTAACTCCGATTTCACCGAAAA
1 CAAAAATTACCATTTTA-CCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
4122477 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCAC
65 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCAC
* *
4122529 TAAAAATTACCACTTTACCCCAAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCACC-AAAA
1 CAAAAATTACCATTTTACCCC-AAACTTCCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
* *
4122593 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
65 TTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCAC
* ** *
4122646 CGAAAATTACCATTTTACCCTTGAACTTCCCAAAATCCC-TTTTTAACCCCGGTTTCACCAAAAA
1 CAAAAATTACCATTTTACCC-CAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
* * * *
4122710 TTACCATTTTA-CCCTCGAACTTCCCAAAATCCCATCTTTAACCTCGATTTCAC
65 TTACCATTTTACCCCT-AAACTTTCCAAAATTCCAT-TTTAACCCCGATTTCAC
* *
4122763 CAAAAATTACCATTTTATCCCCAAACTTTCCAAAATCCCA-TTTTAACCCC-AATTCTACCAAAA
1 CAAAAATTACCATTTTA-CCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTC-ACCAAAA
4122826 ATTA-CATTTTTACCC
64 ATTACCA-TTTTACCC
4122841 TCGGAAGTCA
Statistics
Matches: 277, Mismatches: 24, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
116 71 0.26
117 201 0.73
118 5 0.02
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.32
Consensus pattern (116 bp):
CAAAAATTACCATTTTACCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAT
TACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCAC
Found at i:4128306 original size:13 final size:13
Alignment explanation
Indices: 4128290--4128329 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
4128280 AACAATAAAT
4128290 TAAAGATTAATAG
1 TAAAGATTAATAG
*
4128303 TAAA-A-T-ATAT
1 TAAAGATTAATAG
4128313 TAAAGATTAATAG
1 TAAAGATTAATAG
4128326 TAAA
1 TAAA
4128330 ATTTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 7 0.32
11 2 0.09
12 2 0.09
13 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (13 bp):
TAAAGATTAATAG
Found at i:4128314 original size:23 final size:23
Alignment explanation
Indices: 4128283--4128331 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
4128273 ATGTTAAAAC
4128283 AATAAATTAAAGATTAATAGTAA
1 AATAAATTAAAGATTAATAGTAA
*
4128306 AATATATTAAAGATTAATAGTAA
1 AATAAATTAAAGATTAATAGTAA
4128329 AAT
1 AAT
4128332 TTATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (23 bp):
AATAAATTAAAGATTAATAGTAA
Found at i:4132471 original size:39 final size:38
Alignment explanation
Indices: 4132428--4132502 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
4132418 ATATATATTG
* * *
4132428 TTTTACATAATTATTAAATAAATGTTAATGTAAACTTTT
1 TTTTAAATAATTA-TAAAGAAATCTTAATGTAAACTTTT
* * *
4132467 TTTTAAATATTTATAAAGAAATCTTATTTTAAACTT
1 TTTTAAATAATTATAAAGAAATCTTAATGTAAACTT
4132503 AATAGAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
38 19 0.63
39 11 0.37
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (38 bp):
TTTTAAATAATTATAAAGAAATCTTAATGTAAACTTTT
Found at i:4134176 original size:29 final size:29
Alignment explanation
Indices: 4134144--4134205 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
4134134 AAAATGTGAC
* *
4134144 TTTTTGGA-TACTAGGGGGTAAAATGGTAA
1 TTTTTGGACT-CTAGGGGGCAAAACGGTAA
*
4134173 -TTTTGGACTCTCGGGGGCAAAACGGTAA
1 TTTTTGGACTCTAGGGGGCAAAACGGTAA
4134201 TTTTT
1 TTTTT
4134206 AGAAAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35
Consensus pattern (29 bp):
TTTTTGGACTCTAGGGGGCAAAACGGTAA
Found at i:4134254 original size:29 final size:29
Alignment explanation
Indices: 4134221--4134442 Score: 178
Period size: 30 Copynumber: 7.5 Consensus size: 29
4134211 AATCAAGATC
* *
4134221 AAAAATGGAATTTTGGAATGTTCAGGGGT
1 AAAAATGTAATTTTGGAAAGTTCAGGGGT
* *
4134250 AAAAATGTAATTTTTAGAAAGTT-TGGGGT
1 AAAAATGTAA-TTTTGGAAAGTTCAGGGGT
* * * *
4134279 CAAAATGGAATTTTGGAAAGTTTATGGGT
1 AAAAATGTAATTTTGGAAAGTTCAGGGGT
** *
4134308 AAAAATGTAATTTTCAAAAAGTTCAAGGGT
1 AAAAATGTAATTTT-GGAAAGTTCAGGGGT
* **
4134338 CAAAAATGAAATTTTGGAAAGTTTGGGGGGT
1 -AAAAATGTAATTTTGGAAAG-TTCAGGGGT
*
4134369 AAAAATGTAATTTTTAGG-AAGTTTAGGGGT
1 AAAAATGTAA-TTTT-GGAAAGTTCAGGGGT
* * * *
4134399 TAAAATATAATTTTGGAAAAGTTTAGGGTT
1 AAAAATGTAATTTTGG-AAAGTTCAGGGGT
* *
4134429 CAAAATATAATTTT
1 AAAAATGTAATTTT
4134443 TGTGCAGTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
28 13 0.08
29 42 0.27
30 73 0.47
31 26 0.17
32 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAAATGTAATTTTGGAAAGTTCAGGGGT
Found at i:4134434 original size:60 final size:59
Alignment explanation
Indices: 4134229--4134443 Score: 245
Period size: 60 Copynumber: 3.6 Consensus size: 59
4134219 TCAAAAATGG
* * **
4134229 AATTTTGGAATGTTCAGGGGTAAAAATGTAATTTTTAGAAAGTTT-GGGGTCAAAATGG
1 AATTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAATAT
* * * * *
4134287 AATTTTGGAAAGTTTATGGGTAAAAATGTAATTTTCAAAAAGTTCAAGGGTCAAAA-AT
1 AATTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAATAT
* * *
4134345 GAAATTTTGGAAAGTTTGGGGGGTAAAAATGTAATTTTTAGGAAGTTTAGGGGTTAAAATAT
1 --AATTTTGGAAAGTTT-AGGGGTAAAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAATAT
* * *
4134407 AATTTTGGAAAAGTTTAGGGTTCAAAATATAATTTTT
1 AATTTTGG-AAAGTTTAGGGGTAAAAATGTAATTTTT
4134444 GTGCAGTTTA
Statistics
Matches: 130, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
58 39 0.30
59 9 0.07
60 40 0.31
61 40 0.31
62 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (59 bp):
AATTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAATAT
Found at i:4135523 original size:21 final size:22
Alignment explanation
Indices: 4135494--4135540 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
4135484 CCTTTTTTAT
*
4135494 TAATGTTTTTATTAATA-TTAA
1 TAATATTTTTATTAATACTTAA
*
4135515 TAATATTTTTATTAATACTTAT
1 TAATATTTTTATTAATACTTAA
4135537 TAAT
1 TAAT
4135541 GTTATTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATTTTTATTAATACTTAA
Found at i:4136291 original size:6 final size:6
Alignment explanation
Indices: 4136280--4136331 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
4136270 TTATAATAAT
* * *
4136280 TTTAAA TTTAAA -ATAAA TTCAAA CTTAAA TTTAAA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
4136326 TTTAAA
1 TTTAAA
4136332 ATGGTTTGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
5 9 0.24
6 29 0.76
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:4136307 original size:23 final size:23
Alignment explanation
Indices: 4136281--4136331 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
4136271 TATAATAATT
4136281 TTAAATTTAAAATAAATTCAAAC
1 TTAAATTTAAAATAAATTCAAAC
* * *
4136304 TTAAATTTAAATTAAATTTAAAT
1 TTAAATTTAAAATAAATTCAAAC
4136327 TTAAA
1 TTAAA
4136332 ATGGTTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAATTTAAAATAAATTCAAAC
Found at i:4136310 original size:12 final size:11
Alignment explanation
Indices: 4136281--4136327 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
4136271 TATAATAATT
4136281 TTAAATTTAAA
1 TTAAATTTAAA
* *
4136292 ATAAATTCAAA
1 TTAAATTTAAA
4136303 CTTAAATTTAAA
1 -TTAAATTTAAA
4136315 TTAAATTTAAA
1 TTAAATTTAAA
4136326 TT
1 TT
4136328 TAAAATGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:4137185 original size:355 final size:355
Alignment explanation
Indices: 4136528--4137242 Score: 1232
Period size: 355 Copynumber: 2.0 Consensus size: 355
4136518 CCTCTGCATC
* *
4136528 CTCAGCATCATGATTCCATCTTGCCCTAAGGCAATTTCCGAAAAGACAAAATTTTCTACTGTAAT
1 CTCAGCATCATGATTCCATCTTGCCCTAAGGCAATTTCCAAAAAGACAAAATTTGCTACTGTAAT
* * * *
4136593 TTCACTCCATTCTTTTGAAATTTCAAGGAGATTGGAGTTTGTTACCGTAGTATTTGAGTCTGGTT
66 TTCACTCCATTCTTTTAAAATTTCAAGGAGATTGGAATTTGTCACCGTAGTATTTGAGACTGGTT
4136658 TCATTGAGTTGGTATACTTCTCTGTATCCTATCAGGAAGCTAACCATTTTATTACTTCGACCTGC
131 TCATTGAGTTGGTATACTTCTCTGTATCCTATCAGGAAGCTAACCATTTTATTACTTCGACCTGC
*
4136723 TTCTTAATATCTCATCAGGAAGCTGGGGTTCAAAGATTTACTCACATCGAGCATGGGTTTGATTT
196 TTCTCAATATCTCATCAGGAAGCTGGGGTTCAAAGATTTACTCACATCGAGCATGGGTTTGATTT
* *
4136788 GGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAGTCCGCTTCTCTGTA
261 GGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTA
*
4136853 TCTCATCAGGAAGACGAATTTGGTCCACTT
326 TCTCATCAGGAAGACGAATTTGGTCCACTA
*
4136883 CTCAGCATCATGATTCCATCTTGCCCTAAGGCAATTTTCAAAAAGACAAAATTTGCTACTGTAAT
1 CTCAGCATCATGATTCCATCTTGCCCTAAGGCAATTTCCAAAAAGACAAAATTTGCTACTGTAAT
*
4136948 TTCACTCCATTCTTTTAAAATTTCAAGGAGATTGGAATTTGTCACCGTAGTCTTTGAGACTGGTT
66 TTCACTCCATTCTTTTAAAATTTCAAGGAGATTGGAATTTGTCACCGTAGTATTTGAGACTGGTT
* * *
4137013 TCGTTGAGTTGGTATACTTCTCTGTATCCTATTAGGAAGCTAACCATTTTATTACTTTGACCTGC
131 TCATTGAGTTGGTATACTTCTCTGTATCCTATCAGGAAGCTAACCATTTTATTACTTCGACCTGC
* * * * *
4137078 TTCTCAATATCTCATCAGGAAGCTGGGTTTCGAAGATTTGCTTACATCGAGCGTGGGTTTGATTT
196 TTCTCAATATCTCATCAGGAAGCTGGGGTTCAAAGATTTACTCACATCGAGCATGGGTTTGATTT
* *
4137143 GGTCTTCTTTTCAGTATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTTTGTA
261 GGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTA
4137208 TCTCATCAGGAAGACGAATTTGGTCCACTA
326 TCTCATCAGGAAGACGAATTTGGTCCACTA
4137238 CTCAG
1 CTCAG
4137243 TATCTCATCA
Statistics
Matches: 338, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
355 338 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (355 bp):
CTCAGCATCATGATTCCATCTTGCCCTAAGGCAATTTCCAAAAAGACAAAATTTGCTACTGTAAT
TTCACTCCATTCTTTTAAAATTTCAAGGAGATTGGAATTTGTCACCGTAGTATTTGAGACTGGTT
TCATTGAGTTGGTATACTTCTCTGTATCCTATCAGGAAGCTAACCATTTTATTACTTCGACCTGC
TTCTCAATATCTCATCAGGAAGCTGGGGTTCAAAGATTTACTCACATCGAGCATGGGTTTGATTT
GGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTA
TCTCATCAGGAAGACGAATTTGGTCCACTA
Found at i:4137399 original size:205 final size:205
Alignment explanation
Indices: 4137028--4137730 Score: 1094
Period size: 205 Copynumber: 3.4 Consensus size: 205
4137018 GAGTTGGTAT
* * *
4137028 ACTTCTCTGTATC-CTATTAGGAAGCTAACCATTTTATTACTTTGACCTGCTTCTCAATATCTCA
1 ACTTCTCAGTATCTC-ATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCA
* *
4137092 TCAGGAAGCTGGGTTTCGAAGATTTGCTTACATCGAGCGTGGGTTTGATTTGGTCTTCTTTTCAG
65 TCAGGAAGCTGGG-TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAG
* *
4137157 TATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTTTGTATCTCATCAGGAAGA
129 TATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGA
4137222 CGAATTTGGTCC
194 CGAATTTGGTCC
* * * *
4137234 ACTACTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
* *
4137299 CAGGAAGTTGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTA
66 CAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTA
* *
4137364 TCTCATCAAGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAGACG
131 TCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACG
4137429 AATTTGGTCC
196 AATTTGGTCC
* * *
4137439 ACTTCTTAGTATCTCATCA-G--G--AACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
* *
4137499 CAGAAAGCTGGGTTCGAAGATTTACTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTA
66 CAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTA
* * * * *
4137564 TCTCATCAGGAAGATAACCGCATCGCTTGTTTCAATTCGCTTCTCTGTATCTTATCAGGAGGATG
131 TCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACG
4137629 AATTTGGTCC
196 AATTTGGTCC
*
4137639 ATTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
* *
4137704 CAGGAAGCTGAGTTCAAAGATTTGCTC
66 CAGGAAGCTGGGTTCGAAGATTTGCTC
4137731 GTATTGAGCC
Statistics
Matches: 454, Mismatches: 37, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
200 184 0.41
201 1 0.00
202 1 0.00
203 1 0.00
204 1 0.00
205 198 0.44
206 67 0.15
207 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (205 bp):
ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
CAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTA
TCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACG
AATTTGGTCC
Found at i:4137768 original size:200 final size:201
Alignment explanation
Indices: 4137028--4137784 Score: 972
Period size: 200 Copynumber: 3.7 Consensus size: 201
4137018 GAGTTGGTAT
* * *
4137028 ACTTCTCTGTATC-CTATTAGGAAGCTAACCATTTTATTACTTTGACCTGCTTCTCAATATCTCA
1 ACTTCTCAGTATCTC-ATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCA
* * * *
4137092 TCAGGAAGCTGGGTTTCGAAGATTTGCTTACATCGAGCGTGGGTTTGATTTGGTCTTCTTTTCAG
65 TCAGGAAGCTGGG-TTCGAAGATTTGCTCACATCGAGC----GCTTGAGTTGGTCTTCTTCTCAG
* *
4137157 TATCTCATCAGGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTTTGTATCTCATCAGGAAGA
125 TATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGA
4137222 CGAATTTGGTCC
190 CGAATTTGGTCC
* * * *
4137234 ACTACTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
* * *
4137299 CAGGAAGTTGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTA
66 CAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGC----GCTTGAGTTGGTCTTCTTCTCAGTA
* *
4137364 TCTCATCAAGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAGACG
127 TCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACG
4137429 AATTTGGTCC
192 AATTTGGTCC
* * *
4137439 ACTTCTTAGTATCTCATCA-G--G--AACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
* * * *
4137499 CAGAAAGCTGGGTTCGAAGATTTACTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTA
66 CAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGC----GCTTGAGTTGGTCTTCTTCTCAGTA
* * * * *
4137564 TCTCATCAGGAAGATAACCGCATCGCTTGTTTCAATTCGCTTCTCTGTATCTTATCAGGAGGATG
127 TCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACG
4137629 AATTTGGTCC
192 AATTTGGTCC
*
4137639 ATTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
* * ** * * *
4137704 CAGGAAGCTGAGTTCAAAGATTTGCTCGTATTGAGC-CTTGAGTTGGTATACTTCTCTA-TATCT
66 CAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGCGCTTGAGTTGGTCTTCTTCTC-AGTATCT
*
4137767 CATCAGGAAGACGACCGC
130 CATCAGGAAGATGACCGC
4137785 CTCACTATTT
Statistics
Matches: 498, Mismatches: 46, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
200 221 0.44
201 2 0.00
202 1 0.00
203 1 0.00
204 1 0.00
205 204 0.41
206 67 0.13
207 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (201 bp):
ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCTCAT
CAGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGCGCTTGAGTTGGTCTTCTTCTCAGTATCTC
ATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATT
TGGTCC
Found at i:4138233 original size:101 final size:101
Alignment explanation
Indices: 4138057--4138251 Score: 282
Period size: 101 Copynumber: 1.9 Consensus size: 101
4138047 GCTGTTGTAG
* * * * *
4138057 TTTTATTCCAACTTCGCTGCAACTTCAGGAAGATAGGATTTGATGTTAAAGCTTCATCTTACTCT
1 TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTGACGTTAAAGCTTCATCTTACTCT
* *
4138122 TACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
66 TACTACAACTTCAGAGAAATAAAGACTTGCTATTGT
* * *
4138158 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGACGTTAAAGCTTCATCTTGCTCT
1 TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTGACGTTAAAGCTTCATCTTACTCT
**
4138223 TACTGTAACTTCAGAGAAATAAAGACTTG
66 TACTACAACTTCAGAGAAATAAAGACTTG
4138252 TCATTTGTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (101 bp):
TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTGACGTTAAAGCTTCATCTTACTCT
TACTACAACTTCAGAGAAATAAAGACTTGCTATTGT
Found at i:4138491 original size:100 final size:100
Alignment explanation
Indices: 4138349--4138713 Score: 262
Period size: 100 Copynumber: 3.7 Consensus size: 100
4138339 GTACTGGGTT
* *** * *
4138349 CGCCATTGCGACTTAAACCTTTCCTCTTCAAAT-TTTCGTGGTACTGGATTCACTGTTTGC-AGC
1 CGCCGTTGCGACTTAAACCTTTCC-CTTTTTATCTTTCGTGGTACTGGATCCACCG-TTGCGAGC
*
4138412 TTAAATCTTT-CCTTCTTATCTTCTAAGGTACACGATC
64 TTAAATCTTTCCCTTCATATCTTC-AAGGTACACGATC
*
4138449 CGCCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTT-GTGGTACTGGATCCACCGTTGCGATCT
1 CGCCGTTGCGACTTAAACCTTTCCCTTTT-TATCTTTCGTGGTACTGGATCCACCGTTGCGAGCT
* * * ** *
4138513 TAGATCTTTCCCTTCATGTCTTCATGGTACTGGATT
65 TAAATCTTTCCCTTCATATCTTCAAGGTACACGATC
** * * * * * * *
4138549 TACCGTTGTGGCTTAAATCTTTCCCTTTTTATCTTTTGAGGTACACGG-TCCATCGTTGCGA-CT
1 CGCCGTTGCGACTTAAACCTTTCCCTTTTTATCTTTCGTGGTAC-TGGATCCACCGTTGCGAGCT
** *** **
4138612 TAAATCTTTCCCTTTTGTATCTTTGTGGTACTGGATC
65 TAAATCTTTCCC-TTCATATCTTCAAGGTACACGATC
* * * * * * *
4138649 CGTCGTTACGGCTTAAATCTTTCCCTTCTTATC-TTCTGAGGTACACGG-TCCACCGTTGCGA-C
1 CGCCGTTGCGACTTAAACCTTTCCCTTTTTATCTTTC-GTGGTAC-TGGATCCACCGTTGCGAGC
4138711 TTA
64 TTA
4138714 GACCTTTTGT
Statistics
Matches: 220, Mismatches: 37, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
99 29 0.13
100 175 0.80
101 16 0.07
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (100 bp):
CGCCGTTGCGACTTAAACCTTTCCCTTTTTATCTTTCGTGGTACTGGATCCACCGTTGCGAGCTT
AAATCTTTCCCTTCATATCTTCAAGGTACACGATC
Found at i:4138505 original size:50 final size:50
Alignment explanation
Indices: 4138386--4138766 Score: 297
Period size: 50 Copynumber: 7.7 Consensus size: 50
4138376 TCAAATTTTC
* * *
4138386 GTGGTACTGGATTCACTGTTTGC-AGCTTAAATCTTT-CCTTCT-TATCTTCT
1 GTGGTACTGGATCCACCG-TTGCGA-CTTAAATCTTTCCCTTTTGTATCTT-T
** ** * *
4138436 AAGGTACACGATCCGCCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTT
1 GTGGTACTGGATCCACCGTTGCGACTTAAATCTTTCCCTTTTGTATCTTT
* * *
4138486 GTGGTACTGGATCCACCGTTGCGATCTTAGATCTTTCCCTTCATG--TCTTC
1 GTGGTACTGGATCCACCGTTGCGA-CTTAAATCTTTCCCTT-TTGTATCTTT
* ** * *
4138536 ATGGTACTGGATTTACCGTTGTGGCTTAAATCTTTCCCTTTT-TATCTTTT
1 GTGGTACTGGATCCACCGTTGCGACTTAAATCTTTCCCTTTTGTATC-TTT
* * *
4138586 GAGGTACACGG-TCCATCGTTGCGACTTAAATCTTTCCCTTTTGTATCTTT
1 GTGGTAC-TGGATCCACCGTTGCGACTTAAATCTTTCCCTTTTGTATCTTT
** * * *
4138636 GTGGTACTGGATCCGTCGTTACGGCTTAAATCTTTCCCTTCT-TATCTTCT
1 GTGGTACTGGATCCACCGTTGCGACTTAAATCTTTCCCTTTTGTATCTT-T
* * *
4138686 GAGGTACACGG-TCCACCGTTGCGACTTAGA------CCTTTTGTATCTTT
1 GTGGTAC-TGGATCCACCGTTGCGACTTAAATCTTTCCCTTTTGTATCTTT
* *
4138730 GTGGTACTGGATCCACCGTTGCGGTCTTAGATCTTTC
1 GTGGTACTGGATCCACCGTTGC-GACTTAAATCTTTC
4138767 TCTTCATGTC
Statistics
Matches: 258, Mismatches: 51, Indels: 43
0.73 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 23 0.09
45 13 0.05
48 1 0.00
49 39 0.15
50 150 0.58
51 28 0.11
52 2 0.01
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.40
Consensus pattern (50 bp):
GTGGTACTGGATCCACCGTTGCGACTTAAATCTTTCCCTTTTGTATCTTT
Found at i:4138692 original size:150 final size:149
Alignment explanation
Indices: 4138360--4138684 Score: 420
Period size: 150 Copynumber: 2.2 Consensus size: 149
4138350 GCCATTGCGA
* * * * *
4138360 CTTAAACCTTTCCTCTTCAAATTTTCGTGGTACTGGATTCACTGTTTGCAGCTTAAATCTTTCCT
1 CTTAAATCTTTCC-CTTCATATCTTCATGGTACTGGATTCACCGTTTG-AGCTTAAATCTTTCCT
*
4138425 TCTTATCTTCTAAGGTACACGATCCGCCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
64 TCTTATCTTCTAAGGTACACGATCCACCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
* *
4138490 TACTGGATCCACCGTTGCGAT
129 TACTGGATCCACCGTTACGAG
* * *
4138511 CTTAGATCTTTCCCTTCATGTCTTCATGGTACTGGATTTACCGTTGTG-GCTTAAATCTTTCCCT
1 CTTAAATCTTTCCCTTCATATCTTCATGGTACTGGATTCACCGTT-TGAGCTTAAATCTTT-CCT
* * * * * *
4138575 TTTTATCTTTTGAGGTACACGGTCCATCGTTGCGACTTAAATCTTTCCCTTTTGTATCTTTGTGG
64 TCTTATCTTCTAAGGTACACGATCCACCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
**
4138640 TACTGGATCCGTCGTTACG-G
129 TACTGGATCCACCGTTACGAG
*
4138660 CTTAAATCTTTCCCTTCTTATCTTC
1 CTTAAATCTTTCCCTTCATATCTTC
4138685 TGAGGTACAC
Statistics
Matches: 150, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
149 34 0.23
150 103 0.69
151 13 0.09
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (149 bp):
CTTAAATCTTTCCCTTCATATCTTCATGGTACTGGATTCACCGTTTGAGCTTAAATCTTTCCTTC
TTATCTTCTAAGGTACACGATCCACCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTA
CTGGATCCACCGTTACGAG
Found at i:4145819 original size:30 final size:29
Alignment explanation
Indices: 4145785--4145869 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
4145775 AAATTTTTAG
4145785 AAGTTTTGGGGTAAAAATGTAACTTTCAAA
1 AAGTTTTGGGGTAAAAATGTAA-TTTCAAA
* ***
4145815 AAG-TTTGAGGGTTAAAAATGGAATTTTTGA
1 AAGTTTTG-GGG-TAAAAATGTAATTTCAAA
*
4145845 AAGTTTAGGGGTAAAAATGTAATTT
1 AAGTTTTGGGGTAAAAATGTAATTT
4145870 TTAGGAAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 17 0.37
30 16 0.35
31 13 0.28
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (29 bp):
AAGTTTTGGGGTAAAAATGTAATTTCAAA
Found at i:4145879 original size:30 final size:30
Alignment explanation
Indices: 4145776--4146022 Score: 232
Period size: 30 Copynumber: 8.2 Consensus size: 30
4145766 TCAAAAACGA
* *
4145776 AATTTTTAG-AAGTTTTGGGGTAAAAATGT
1 AATTTTTAGAAAGTTTAGGGGTAAAAATAT
* * * * **
4145805 AACTTTCAAAAAGTTTGAGGGTTAAAAATGG
1 AATTTTTAGAAAGTTT-AGGGGTAAAAATAT
*
4145836 AATTTTT-GAAAGTTTAGGGGTAAAAATGT
1 AATTTTTAGAAAGTTTAGGGGTAAAAATAT
* * *
4145865 AATTTTTAGGAAGTTTAAGGGTTAAAATAT
1 AATTTTTAGAAAGTTTAGGGGTAAAAATAT
* * *
4145895 AA-TTTTGGAGAAGTTTAAGGGTCAAAATAT
1 AATTTTTAGA-AAGTTTAGGGGTAAAAATAT
* *
4145925 AATTTTTAGAAAGTTTAAGGGTAAAAATGT
1 AATTTTTAGAAAGTTTAGGGGTAAAAATAT
*
4145955 AATTTTTAGAAAGATTAGGGGTAAAATATAT
1 AATTTTTAGAAAGTTTAGGGGTAAAA-ATAT
* * * *
4145986 AA-TTTTAAAGAAGTTTGGGGGTCAAAGTAT
1 AATTTTTAGA-AAGTTTAGGGGTAAAAATAT
4146016 AATTTTT
1 AATTTTT
4146023 GTGCAGTATA
Statistics
Matches: 181, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
29 30 0.17
30 107 0.59
31 44 0.24
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (30 bp):
AATTTTTAGAAAGTTTAGGGGTAAAAATAT
Found at i:4145892 original size:90 final size:89
Alignment explanation
Indices: 4145776--4146022 Score: 257
Period size: 90 Copynumber: 2.7 Consensus size: 89
4145766 TCAAAAACGA
* * * * *
4145776 AATTTTTA-GAAGTTTTGGGGTAAAAATGTAACTTTCAAAAAGTTTGAGGGTTAAAA-ATGGAAT
1 AATTTTTAGGAAG-TTTAGGGTTAAAATATAACTTTCAAAAAGTTTAAGGGTCAAAATAT--AAT
*
4145839 TTTT-GAAAGTTTAGGGGTAAAAATGT
63 TTTTAGAAAGTTTAAGGGTAAAAATGT
* ** *
4145865 AATTTTTAGGAAGTTTAAGGGTTAAAATATAATTTTGGAGAAGTTTAAGGGTCAAAATATAATTT
1 AATTTTTAGGAAGTTT-AGGGTTAAAATATAACTTTCAAAAAGTTTAAGGGTCAAAATATAATTT
4145930 TTAGAAAGTTTAAGGGTAAAAATGT
65 TTAGAAAGTTTAAGGGTAAAAATGT
* * * * * ** *
4145955 AATTTTTAGAAAGATTAGGGGTAAAATATATAATTTTAAAGAAGTTTGGGGGTCAAAGTATAATT
1 AATTTTTAGGAAGTTTAGGGTTAAAATATA-ACTTTCAAA-AAGTTTAAGGGTCAAAATATAATT
4146020 TTT
64 TTT
4146023 GTGCAGTATA
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
89 31 0.23
90 75 0.57
91 26 0.20
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (89 bp):
AATTTTTAGGAAGTTTAGGGTTAAAATATAACTTTCAAAAAGTTTAAGGGTCAAAATATAATTTT
TAGAAAGTTTAAGGGTAAAAATGT
Found at i:4146706 original size:22 final size:22
Alignment explanation
Indices: 4146671--4146721 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
4146661 TTCCTCGGGT
4146671 GCCCACGC--CGGTTCTTCCAC
1 GCCCACGCGTCGGTTCTTCCAC
* *
4146691 GTCCACGCGTCGGTTCTTCCAT
1 GCCCACGCGTCGGTTCTTCCAC
4146713 GCCCACGCG
1 GCCCACGCG
4146722 CCACCGTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 7 0.27
22 19 0.73
ACGTcount: A:0.10, C:0.45, G:0.24, T:0.22
Consensus pattern (22 bp):
GCCCACGCGTCGGTTCTTCCAC
Found at i:4147131 original size:21 final size:22
Alignment explanation
Indices: 4147102--4147148 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
4147092 CCTTTTTTAT
*
4147102 TAATGTTTTTATTAATA-TTAA
1 TAATATTTTTATTAATACTTAA
*
4147123 TAATATTTTTATTAATACTTAT
1 TAATATTTTTATTAATACTTAA
4147145 TAAT
1 TAAT
4147149 GCTATTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATTTTTATTAATACTTAA
Found at i:4147664 original size:25 final size:25
Alignment explanation
Indices: 4147635--4147711 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 25
4147625 TGGTAGTGGC
* * *
4147635 GGTGGCAGAGTAGGTTGAGGCGGGT
1 GGTGGCAGAGCAAGTTGAAGCGGGT
* *
4147660 GGTGGCAAAGCAAGTTGAAGCTGGT
1 GGTGGCAGAGCAAGTTGAAGCGGGT
*
4147685 GGTGGCAGAGCAAGTTGAAGCTGGT
1 GGTGGCAGAGCAAGTTGAAGCGGGT
4147710 GG
1 GG
4147712 CACTGCTAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.22, C:0.10, G:0.48, T:0.19
Consensus pattern (25 bp):
GGTGGCAGAGCAAGTTGAAGCGGGT
Found at i:4147945 original size:11 final size:12
Alignment explanation
Indices: 4147929--4148008 Score: 78
Period size: 11 Copynumber: 7.0 Consensus size: 12
4147919 TTATAATAAT
4147929 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
4147941 -ATAAATTCAAA
1 TTTAAATTTAAA
*
4147952 CTTAAA-TTAAA
1 TTTAAATTTAAA
4147963 TTTAAATTTAAA
1 TTTAAATTTAAA
*
4147975 TTTAAA-ATAAA
1 TTTAAATTTAAA
*
4147986 TTTAATTTTAAA
1 TTTAAATTTAAA
*
4147998 -ATAAATTTAAA
1 TTTAAATTTAAA
4148009 ATGGTTTGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
11 36 0.65
12 19 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:4147976 original size:17 final size:16
Alignment explanation
Indices: 4147911--4148008 Score: 81
Period size: 17 Copynumber: 5.8 Consensus size: 16
4147901 TTGGACCTTT
4147911 AATTAAATTTATAA-TA
1 AATTAAATTTA-AATTA
* *
4147927 ATTTTAAATTTAAAATA
1 A-ATTAAATTTAAATTA
*
4147944 AATTCAAACTTAAATTA
1 AATT-AAATTTAAATTA
4147961 AATTTAAATTTAAATTTA
1 AA-TTAAATTTAAA-TTA
* *
4147979 AAATAAATTTAATTTTA
1 AATTAAATTTAA-ATTA
*
4147996 AAATAAATTTAAA
1 AATTAAATTTAAA
4148009 ATGGTTTGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.07
17 56 0.82
18 7 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAAATTTAAATTA
Found at i:4147997 original size:40 final size:40
Alignment explanation
Indices: 4147929--4148008 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
4147919 TTATAATAAT
*
4147929 TTTAAATTTAAAATAAATTCAAACTTAAATTAAATTTAAA
1 TTTAAATTTAAAATAAATTCAAACTTAAAATAAATTTAAA
* **
4147969 TTTAAATTTAAAATAAATTTAATTTTAAAATAAATTTAAA
1 TTTAAATTTAAAATAAATTCAAACTTAAAATAAATTTAAA
4148009 ATGGTTTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (40 bp):
TTTAAATTTAAAATAAATTCAAACTTAAAATAAATTTAAA
Done.