Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 73
Found at i:3407797 original size:15 final size:13
Alignment explanation
Indices: 3407772--3407816 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
3407762 AAAAAAATTG
3407772 AAAATGAGAAAGA
1 AAAATGAGAAAGA
3407785 AAAGATAGAGAAA-A
1 AAA-AT-GAGAAAGA
3407799 AAAATGAGAAATGA
1 AAAATGAGAAA-GA
3407813 AAAA
1 AAAA
3407817 AAAAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 11 0.39
15 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (13 bp):
AAAATGAGAAAGA
Found at i:3407817 original size:15 final size:14
Alignment explanation
Indices: 3407772--3407817 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
3407762 AAAAAAATTG
3407772 AAAATGAGAAAGAA
1 AAAATGAGAAAGAA
*
3407786 AAGAT-AGAGAA-AA
1 AAAATGAGA-AAGAA
3407799 AAAATGAGAAATGAA
1 AAAATGAGAAA-GAA
3407814 AAAA
1 AAAA
3407818 AAAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 11 0.42
14 9 0.35
15 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.09
Consensus pattern (14 bp):
AAAATGAGAAAGAA
Found at i:3411580 original size:59 final size:58
Alignment explanation
Indices: 3411482--3411617 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 58
3411472 AGCAGGCTGA
*
3411482 ATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGTC
1 ATATTCGGGAATACACTAAAGGATACCTAG-GTATATGGTGGACACGACCTTATGTGTC
* ** * *
3411541 ATATTCGGGACTGTACTTAAGGATACCTA-GTACTGATGGTGGACACGACTTTATGTGTC
1 ATATTCGGGAATACACTAAAGGATACCTAGGTA-T-ATGGTGGACACGACCTTATGTGTC
3411600 ATATTCGGG-ATAGCACTA
1 ATATTCGGGAATA-CACTA
3411618 CGGTGCTTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
57 3 0.05
58 2 0.03
59 59 0.92
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (58 bp):
ATATTCGGGAATACACTAAAGGATACCTAGGTATATGGTGGACACGACCTTATGTGTC
Found at i:3411812 original size:47 final size:45
Alignment explanation
Indices: 3411718--3411843 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 45
3411708 GTAAGAATAT
*
3411718 AAATAAGCTTACGAGCTTTTGGAAT-AATGGTAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
3411762 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
*
3411809 AAATAACCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
3411844 GGATTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 40 0.53
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:3413540 original size:19 final size:19
Alignment explanation
Indices: 3413500--3413553 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
3413490 TGCATAAATG
*
3413500 GTATCGGTACCCTAATAGA
1 GTATCGGTACCATAATAGA
3413519 GTATCGGTACCATAGTATAGTA
1 GTATCGGTACCATA--ATAG-A
*
3413541 GTATCGATACCAT
1 GTATCGGTACCAT
3413554 GGTAAGGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 13 0.43
21 4 0.13
22 13 0.43
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (19 bp):
GTATCGGTACCATAATAGA
Found at i:3413566 original size:20 final size:20
Alignment explanation
Indices: 3413541--3413593 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
3413531 TAGTATAGTA
3413541 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
3413561 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
3413581 GTATCGATACCAT
1 GTATCGATACCAT
3413594 ATTATAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGG
Found at i:3413607 original size:42 final size:43
Alignment explanation
Indices: 3413514--3413612 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
3413504 CGGTACCCTA
* *
3413514 ATAGAGTATCGGTACCATAGTATAGTAGTATCGATACCATGGT
1 ATAGAGTATCGATACCATAGTATAGTAGTATCGATACCATAGT
* * * *
3413557 A-AGGGTATCGATACCATGGTA-AG-GGTATCGATACCATATT
1 ATAGAGTATCGATACCATAGTATAGTAGTATCGATACCATAGT
3413597 ATAGAAGTATCGATAC
1 ATAG-AGTATCGATAC
3413613 TATTGAGCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 15 0.32
41 4 0.09
42 27 0.57
43 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (43 bp):
ATAGAGTATCGATACCATAGTATAGTAGTATCGATACCATAGT
Found at i:3414114 original size:55 final size:55
Alignment explanation
Indices: 3413943--3414097 Score: 265
Period size: 55 Copynumber: 2.8 Consensus size: 55
3413933 GGCACTATAA
*
3413943 GTGCAAAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGT
1 GTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGT
* * *
3413999 GTGCAAAAGTAAGAAATTCATAATAAGTTTATGATTTTCCGTATGGGCACTTTGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGT
3414054 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
3414098 TGGTAGTGGA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
55 89 0.96
56 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (55 bp):
GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGT
Found at i:3417825 original size:91 final size:90
Alignment explanation
Indices: 3417664--3417836 Score: 228
Period size: 91 Copynumber: 1.9 Consensus size: 90
3417654 GCGCACTAAT
*
3417664 AGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAATAGCCTGAGTGCATCGATGCATGGTCT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTT-AAATAGCCTGAGTGCATCGATGCATGGTCT
*
3417729 TGTGCATCGATGCATCAAATGCACTA
65 GGTGCATCGATGCATCAAATGCACTA
*
3417755 AGTGCATCGATGCATAAAATGCATTCGATGTTCAATT-AAT-TCCATG-GTGCATCGATGCATGG
1 AGTGCATCGATGCATAAAATGCATTCGATGTT---TTAAATAGCC-TGAGTGCATCGATGCATGG
*
3417817 AT-TGGTGCATCGGTGCATCA
62 -TCTGGTGCATCGATGCATCA
3417837 CTTTGAAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
91 65 0.89
92 6 0.08
94 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (90 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTTAAATAGCCTGAGTGCATCGATGCATGGTCTG
GTGCATCGATGCATCAAATGCACTA
Found at i:3424433 original size:22 final size:21
Alignment explanation
Indices: 3424393--3424432 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3424383 GAGTTTATTT
3424393 TCATTTTTCAATTTTAAAATA
1 TCATTTTTCAATTTTAAAATA
3424414 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3424433 ACAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:3429094 original size:19 final size:21
Alignment explanation
Indices: 3429069--3429183 Score: 89
Period size: 20 Copynumber: 5.6 Consensus size: 21
3429059 AATGCAGAAA
*
3429069 TAGTATCGATACCGTA-ATAG
1 TAGTATCGATACCATAGATAG
*
3429089 -AGTATCGGTACCATAGTATAG
1 TAGTATCGATACCATAG-ATAG
*
3429110 TAGTATCGATACCAT-GGTAAG
1 TAGTATCGATACCATAGAT-AG
* *
3429131 -GGTATCGATACCATAGTACAG
1 TAGTATCGATACCATAG-ATAG
* *
3429152 AAGTATCGATACCAT-GGTAG
1 TAGTATCGATACCATAGATAG
3429172 -AGGTATCGATAC
1 TA-GTATCGATAC
3429184 TATTGAGCCA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
19 14 0.18
20 26 0.34
21 11 0.14
22 26 0.34
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (21 bp):
TAGTATCGATACCATAGATAG
Found at i:3429117 original size:22 final size:21
Alignment explanation
Indices: 3429070--3429183 Score: 119
Period size: 22 Copynumber: 5.5 Consensus size: 21
3429060 ATGCAGAAAT
*
3429070 AGTATCGATACCGTA--ATAG
1 AGTATCGATACCATAGTATAG
*
3429089 AGTATCGGTACCATAGTATAG
1 AGTATCGATACCATAGTATAG
*
3429110 TAGTATCGATACCATGGTA-AG
1 -AGTATCGATACCATAGTATAG
* *
3429131 GGTATCGATACCATAGTACAG
1 AGTATCGATACCATAGTATAG
* *
3429152 AAGTATCGATACCATGGTAGAG
1 -AGTATCGATACCATAGTATAG
3429174 -GTATCGATAC
1 AGTATCGATAC
3429184 TATTGAGCCA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.16
20 26 0.32
21 8 0.10
22 34 0.42
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (21 bp):
AGTATCGATACCATAGTATAG
Found at i:3429145 original size:42 final size:42
Alignment explanation
Indices: 3429070--3429183 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
3429060 ATGCAGAAAT
* ** * * *
3429070 AGTATCGATACCGTAATAGA-GTATCGGTACCATAGTATAGT
1 AGTATCGATACCATGGTAGAGGTATCGATACCATAGTACAGA
3429111 AGTATCGATACCATGGTA-AGGGTATCGATACCATAGTACAGA
1 AGTATCGATACCATGGTAGA-GGTATCGATACCATAGTACAGA
3429153 AGTATCGATACCATGGTAGAGGTATCGATAC
1 AGTATCGATACCATGGTAGAGGTATCGATAC
3429184 TATTGAGCCA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.02
41 15 0.23
42 47 0.73
43 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (42 bp):
AGTATCGATACCATGGTAGAGGTATCGATACCATAGTACAGA
Found at i:3429796 original size:55 final size:55
Alignment explanation
Indices: 3429505--3429779 Score: 399
Period size: 55 Copynumber: 5.0 Consensus size: 55
3429495 ATTACCAAAA
* * * *
3429505 GGCACTATGTGTGCAAAAACAAAGAAATTCATAACAAGTTTATGAATTTCTGTATG
1 GGCACTTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
3429561 GGAACTTTGTGTGCAAAACTAAGAAATTTATAATAGGTTTATGATTTTTCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
3429616 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATACGTTTACGAATTGT-CGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATT-TCCGTATG
* *
3429671 GGCACTTTGTGTGCAAATCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
3429726 GACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
3429780 CGGTAGTGGA
Statistics
Matches: 196, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
54 1 0.01
55 182 0.93
56 13 0.07
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:3433955 original size:55 final size:55
Alignment explanation
Indices: 3433871--3434001 Score: 244
Period size: 55 Copynumber: 2.4 Consensus size: 55
3433861 TTTCCTAAAT
*
3433871 TAAGTTTATGAATTTCCGAATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAA
1 TAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAA
*
3433926 TAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAATCTAAGAAATTCATAA
1 TAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAA
3433981 TAAGTTTATGAATTTCCGTAT
1 TAAGTTTATGAATTTCCGTAT
3434002 CGATAGTAGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 74 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (55 bp):
TAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAA
Found at i:3434016 original size:55 final size:55
Alignment explanation
Indices: 3433871--3434018 Score: 181
Period size: 55 Copynumber: 2.7 Consensus size: 55
3433861 TTTCCTAAAT
* * * * *
3433871 TAAGTTTATGAATTTCCGAATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAA
1 TAAGTTTATGAATTTCCGTATCGACACGTAGTGTGCAAAACTAAGAAATTCATAA
* * * * *
3433926 TAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAATCTAAGAAATTCATAA
1 TAAGTTTATGAATTTCCGTATCGACACGTAGTGTGCAAAACTAAGAAATTCATAA
*
3433981 TAAGTTTATGAATTTCCGTATCGATA-GTAGATGTGCAA
1 TAAGTTTATGAATTTCCGTATCGACACGTAG-TGTGCAA
3434019 CCCACGTAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
54 2 0.02
55 83 0.98
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (55 bp):
TAAGTTTATGAATTTCCGTATCGACACGTAGTGTGCAAAACTAAGAAATTCATAA
Found at i:3434030 original size:55 final size:55
Alignment explanation
Indices: 3433871--3434040 Score: 166
Period size: 55 Copynumber: 3.1 Consensus size: 55
3433861 TTTCCTAAAT
* * * * * * *
3433871 TAAGTTTATGAATTTCCGAATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAA
1 TAAGTTTATGAATTTCCGTATCGACACGTAGTGTGCAAACCCAAGAAATTCATAA
* * * * * *
3433926 TAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAATCTAAGAAATTCATAA
1 TAAGTTTATGAATTTCCGTATCGACACGTAGTGTGCAAACCCAAGAAATTCATAA
* *
3433981 TAAGTTTATGAATTTCCGTATCGATA-GTAGATGTGC-AACCCACGTAAATT-ATAA
1 TAAGTTTATGAATTTCCGTATCGACACGTAG-TGTGCAAACCCAAG-AAATTCATAA
3434035 TAAGTT
1 TAAGTT
3434041 GTGAATTACT
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
54 17 0.17
55 86 0.83
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (55 bp):
TAAGTTTATGAATTTCCGTATCGACACGTAGTGTGCAAACCCAAGAAATTCATAA
Found at i:3440190 original size:26 final size:27
Alignment explanation
Indices: 3440156--3440209 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
3440146 TACAAACGTG
*
3440156 AGAATAATAAATAAAACAAG-AAAAAAT
1 AGAATAAT-AACAAAACAAGTAAAAAAT
*
3440183 AGAA-AATAACAAAACACGTAAAAAAT
1 AGAATAATAACAAAACAAGTAAAAAAT
3440209 A
1 A
3440210 ATAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 11 0.46
27 4 0.17
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.13
Consensus pattern (27 bp):
AGAATAATAACAAAACAAGTAAAAAAT
Found at i:3440214 original size:10 final size:10
Alignment explanation
Indices: 3440201--3440251 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
3440191 ACAAAACACG
3440201 TAAAAAATAA
1 TAAAAAATAA
*
3440211 TAAAAAAAAA
1 TAAAAAATAA
3440221 TAAAAAA-AA
1 TAAAAAATAA
**
3440230 TGAATAAAATGT
1 T-AA-AAAATAA
3440242 TAAAAAATAA
1 TAAAAAATAA
3440252 AGACACAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
9 3 0.09
10 23 0.70
11 6 0.18
12 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:3440235 original size:13 final size:12
Alignment explanation
Indices: 3440202--3440238 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
3440192 CAAAACACGT
3440202 AAAAAATAAT-A
1 AAAAAATAATAA
3440213 AAAAAA-AATAA
1 AAAAAATAATAA
3440224 AAAAAATGAATAA
1 AAAAAAT-AATAA
3440237 AA
1 AA
3440239 TGTTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.13
11 13 0.57
13 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (12 bp):
AAAAAATAATAA
Found at i:3440314 original size:18 final size:17
Alignment explanation
Indices: 3440282--3440328 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
3440272 TATTAATGGA
3440282 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
3440299 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
3440317 G-AATAAAAATAA
1 GTAA-AAAAATAA
3440329 TGTGTACACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:3440600 original size:2 final size:2
Alignment explanation
Indices: 3440588--3440642 Score: 60
Period size: 2 Copynumber: 28.0 Consensus size: 2
3440578 TTAATACATC
* *
3440588 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA -A TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
3440630 TA -A GA TA TA TA TA
1 TA TA TA TA TA TA TA
3440643 ATAAAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
1 2 0.04
2 41 0.91
3 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:3440641 original size:23 final size:21
Alignment explanation
Indices: 3440611--3440688 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 21
3440601 ATATATATAT
*
3440611 ATATATATAAATAATGATATAAG
1 ATATATATAAATAA--AAATAAG
*
3440634 ATATATAT-AATAAAAATAAT
1 ATATATATAAATAAAAATAAG
*
3440654 ATA-ATATAAATAAATAA-AGG
1 ATATATATAAATAAA-AATAAG
3440674 A-ATATAGTAAATAAA
1 ATATATA-TAAATAAA
3440689 TAAAAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
19 5 0.11
20 19 0.40
21 10 0.21
22 5 0.11
23 8 0.17
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATATATATAAATAAAAATAAG
Found at i:3440642 original size:27 final size:25
Alignment explanation
Indices: 3440607--3440671 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
3440597 ATATATATAT
*
3440607 ATATATATATATAAATAATGATATAAG
1 ATATATATA-ATAAA-AATAATATAAG
*
3440634 ATATATATAATAAAAATAATATAAT
1 ATATATATAATAAAAATAATATAAG
*
3440659 ATAAATA-AATAAA
1 ATATATATAATAAA
3440672 GGAATATAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.17
25 15 0.43
26 5 0.14
27 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATATATAATAAAAATAATATAAG
Found at i:3440660 original size:21 final size:20
Alignment explanation
Indices: 3440636--3440702 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 20
3440626 GATATAAGAT
3440636 ATATATAATAAAAATAATATA
1 ATATATAATAAAAA-AATATA
3440657 ATATA-AATAAATAAAGGAATATA
1 ATATATAAT-AA-AAA--AATATA
* *
3440680 GTAAATAAATAAAAAAATATA
1 ATATAT-AATAAAAAAATATA
3440701 AT
1 AT
3440703 TAAACATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 3 0.08
21 14 0.38
22 3 0.08
23 12 0.32
24 2 0.05
25 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
ATATATAATAAAAAAATATA
Found at i:3440664 original size:14 final size:14
Alignment explanation
Indices: 3440593--3440670 Score: 63
Period size: 14 Copynumber: 5.4 Consensus size: 14
3440583 ACATCTATAC
*
3440593 ATATATATATATATA
1 ATATA-ATATAAATA
3440608 TATATATATATAAATA
1 -ATATA-ATATAAATA
*
3440624 ATGAT-ATA-AGATA
1 AT-ATAATATAAATA
*
3440637 TATATAATAAAAATA
1 -ATATAATATAAATA
3440652 ATATAATATAAATA
1 ATATAATATAAATA
3440666 A-ATAA
1 ATATAA
3440671 AGGAATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
13 10 0.19
14 22 0.41
15 6 0.11
16 16 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
ATATAATATAAATA
Found at i:3453758 original size:18 final size:20
Alignment explanation
Indices: 3453723--3453763 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
3453713 AAAAATAGAA
3453723 AATAACAAAACACGTAAAAAT
1 AATAACAAAACAC-TAAAAAT
3453744 AATAACAAAA-A-TAAAAAT
1 AATAACAAAACACTAAAAAT
3453762 AA
1 AA
3453764 ACAAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
20 1 0.05
21 10 0.50
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (20 bp):
AATAACAAAACACTAAAAAT
Found at i:3453842 original size:17 final size:17
Alignment explanation
Indices: 3453821--3453868 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
3453811 ATATTAATAG
3453821 AGTAAAAAAAATAAAAA
1 AGTAAAAAAAATAAAAA
* *
3453838 GGTAAAAGAAATTAAAAA
1 AGTAAAA-AAAATAAAAA
*
3453856 AG-AATAAAAATAA
1 AGTAAAAAAAATAA
3453869 TGTGTACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 6 0.24
17 9 0.36
18 10 0.40
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (17 bp):
AGTAAAAAAAATAAAAA
Found at i:3453976 original size:36 final size:36
Alignment explanation
Indices: 3453894--3453977 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 36
3453884 TAGTATTTAC
*
3453894 TAAAACAAATAAAAATAATAAATATATAATACTAAG
1 TAAAACAAATAAAAATAATAAATACATAATACTAAG
* *
3453930 TAAAACAAATAAAAATAA-AGATATACATGATATTAAG
1 TAAAACAAATAAAAATAATA-A-ATACATAATACTAAG
*
3453967 -AAAAAAAATAA
1 TAAAACAAATAA
3453978 TAGAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 1 0.02
36 29 0.69
37 12 0.29
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (36 bp):
TAAAACAAATAAAAATAATAAATACATAATACTAAG
Found at i:3453994 original size:18 final size:18
Alignment explanation
Indices: 3453967--3454029 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
3453957 TGATATTAAG
3453967 AAAA-AAAATAATAGAAA
1 AAAATAAAATAATAGAAA
3453984 AAAATAAAATAA-AGTAAA
1 AAAATAAAATAATAG-AAA
* * *
3454002 AATATAATATATATATAAA
1 AAAATAAAATA-ATAGAAA
*
3454021 TAAATAAAA
1 AAAATAAAA
3454030 ACAAAAATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.17
18 19 0.53
19 10 0.28
20 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAATAAAATAATAGAAA
Found at i:3460927 original size:2 final size:2
Alignment explanation
Indices: 3460920--3460947 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3460910 TTATCCCATA
3460920 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
3460948 TCATATTCAT
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:3467907 original size:6 final size:6
Alignment explanation
Indices: 3467879--3468110 Score: 249
Period size: 6 Copynumber: 37.3 Consensus size: 6
3467869 CATATGGGAC
* * *
3467879 GAGAGG AAGACG GAGAGG AAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
*
3467927 GAGAGG GAGAGG GAGA-G GAGAGG GAGAGG GAGAGG GAGAGG AAGAGAGA
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG --GAGAGG
3467976 GAGAGG GAGAGAAG GAGAGG GAGAGG GAGAGAG AGAGAGG GAGAGAAG
1 GAGAGG GAGAG--G GAGAGG GAGAGG GAGAG-G -GAGAGG GAGAG--G
* * *
3468024 GAGAGG GAGAGG TAGAGG GAGA-- GAGAGA GAGAGA GAGAGG GAGA-G
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
3468069 GAGAGG GAGGAGG GACGGGAGG GAGA-G GAGAGG GAGGAGG GA
1 GAGAGG GA-GAGG GA---GAGG GAGAGG GAGAGG GA-GAGG GA
3468111 CGGGAGGGAG
Statistics
Matches: 198, Mismatches: 11, Indels: 33
0.82 0.05 0.14
Matches are distributed among these distances:
4 4 0.02
5 15 0.08
6 136 0.69
7 14 0.07
8 22 0.11
9 7 0.04
ACGTcount: A:0.38, C:0.01, G:0.61, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:3470274 original size:20 final size:20
Alignment explanation
Indices: 3470249--3470290 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
3470239 TTTTACCGTT
3470249 TGATTTCCTCCGTATATTTG
1 TGATTTCCTCCGTATATTTG
3470269 TGATTTCCTCCGTATATTTG
1 TGATTTCCTCCGTATATTTG
3470289 TG
1 TG
3470291 CGTAAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.50
Consensus pattern (20 bp):
TGATTTCCTCCGTATATTTG
Found at i:3471913 original size:25 final size:26
Alignment explanation
Indices: 3471861--3471913 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
3471851 TATATTTCTA
* *
3471861 AAAAATCAAAACAATCAACATCTTCACC
1 AAAAACCAAAACAAT--ACATCCTCACC
3471889 AAAAACCAAAACAAT-CATCCTCACC
1 AAAAACCAAAACAATACATCCTCACC
3471914 TTTGCTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
28 14 0.61
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (26 bp):
AAAAACCAAAACAATACATCCTCACC
Found at i:3477726 original size:41 final size:41
Alignment explanation
Indices: 3477662--3478127 Score: 165
Period size: 41 Copynumber: 11.4 Consensus size: 41
3477652 GTTTGTGCGT
*
3477662 AAAACGCCACTAAAG-ATCTAGTATTTTGCGACGTTTGTATA
1 AAAACGCCACTAAAGTA-CAAGTATTTTGCGACGTTTGTATA
*
3477703 TAAACGCCACTAAAGTACAAGTATTTACTG-G-CGTTTGT-TA
1 AAAACGCCACTAAAGTACAAGTATTT--TGCGACGTTTGTATA
* * * * * *
3477743 AAACACACCACTAAAATACGAGTCTTTCGCGACGTTTATATA
1 AAA-ACGCCACTAAAGTACAAGTATTTTGCGACGTTTGTATA
* * * *
3477785 AAAATGCTACTAAA-TGACGAGTATTTAT-CGATGTTTGT-TCAA
1 AAAACGCCACTAAAGT-ACAAGTATTT-TGCGACGTTTGTAT--A
* * * ** * *
3477827 AAAATGCCACGAAAGTACAA-TATTTAGCGGTGCTTATATA
1 AAAACGCCACTAAAGTACAAGTATTTTGCGACGTTTGTATA
* * * * **
3477867 AAAATC-CCACTAAAATACGAGTCTTTAGCGGTGTTTGTCA-A
1 AAAA-CGCCACTAAAGTACAAGTATTTTGCGACGTTTGT-ATA
* * * * *
3477908 AAAATGCCACTAAAGTACAA-TATTTAGTGGCGTTTATATA
1 AAAACGCCACTAAAGTACAAGTATTTTGCGACGTTTGTATA
* ** ** ** *
3477948 AAAATGTTACTAAA-TGATGAGTATTTACCGGCGTTTGT-TCAA
1 AAAACGCCACTAAAGT-ACAAGTATTTTGCGACGTTTGTAT--A
* * * ** * *
3477990 AAAACGCCACTAAAGTATAA-TATTTAGTGGTGTTTATATC
1 AAAACGCCACTAAAGTACAAGTATTTTGCGACGTTTGTATA
* * * * * * * * *
3478030 AAAATGCCTCTAAAATACGAGTCTTTAGATG-CGTTTGCACA
1 AAAACGCCACTAAAGTACAAGTATTTTG-CGACGTTTGTATA
* * * *
3478071 AAAACGGCACTAAAGTACAA-TATTTAGCGTCGTTTATAT-
1 AAAACGCCACTAAAGTACAAGTATTTTGCGACGTTTGTATA
3478110 AAAACGCCACTAAAGTAC
1 AAAACGCCACTAAAGTAC
3478128 GATTATTTAC
Statistics
Matches: 322, Mismatches: 75, Indels: 58
0.71 0.16 0.13
Matches are distributed among these distances:
39 21 0.07
40 79 0.25
41 175 0.54
42 43 0.13
43 4 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (41 bp):
AAAACGCCACTAAAGTACAAGTATTTTGCGACGTTTGTATA
Found at i:3477946 original size:81 final size:81
Alignment explanation
Indices: 3477662--3478153 Score: 418
Period size: 82 Copynumber: 6.0 Consensus size: 81
3477652 GTTTGTGCGT
* * * * * * * *
3477662 AAAACGCCACTAAAG-ATCTAGTATTTTGCGACGTTTGTATATAAACGCCACTAAAGTACAAGTA
1 AAAACGCCACTAAAGTA-C-AATATTTAGCGGCGTTTATATAAAAATGCCACTAAAATACGAGTA
* * *
3477726 TTTACTGGCGTTTGTTAA
64 TTTACCGGTGTTTGTCAA
* * * * * * * *
3477744 AACACACCACTAAAATACGAGTCTTTCGCGACGTTTATATAAAAATGCTACT-AAATGACGAGTA
1 AAAACGCCACTAAAGTAC-AATATTTAGCGGCGTTTATATAAAAATGCCACTAAAAT-ACGAGTA
* *
3477808 TTTATCGATGTTTGTTCAA
64 TTTACCGGTGTTTG-TCAA
* * * * * *
3477827 AAAATGCCACGAAAGTACAATATTTAGCGGTGCTTATATAAAAATCCCACTAAAATACGAGTCTT
1 AAAACGCCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAATGCCACTAAAATACGAGTATT
*
3477892 TAGCGGTGTTTGTCAA
66 TACCGGTGTTTGTCAA
* * ** *
3477908 AAAATGCCACTAAAGTACAATATTTAGTGGCGTTTATATAAAAATGTTACT-AAATGATGAGTAT
1 AAAACGCCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAATGCCACTAAAAT-ACGAGTAT
*
3477972 TTACCGGCGTTTGTTCAA
65 TTACCGGTGTTTG-TCAA
* * * * * *
3477990 AAAACGCCACTAAAGTATAATATTTAGTGGTGTTTATATCAAAATGCCTCTAAAATACGAGTCTT
1 AAAACGCCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAATGCCACTAAAATACGAGTATT
*** *
3478055 TAGATGCGTTTG-CACA
66 TACCGGTGTTTGTCA-A
* * * * *
3478071 AAAACGGCACTAAAGTACAATATTTAGCGTCGTTTATAT-AAAACGCCACTAAAGTACGATTATT
1 AAAACGCCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAATGCCACTAAAATACGAGTATT
* *
3478135 TACCGGTATTTGTTAA
66 TACCGGTGTTTGTCAA
3478151 AAA
1 AAA
3478154 CAATCGCTAA
Statistics
Matches: 329, Mismatches: 72, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
80 37 0.11
81 104 0.32
82 163 0.50
83 25 0.08
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (81 bp):
AAAACGCCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAATGCCACTAAAATACGAGTATT
TACCGGTGTTTGTCAA
Found at i:3477986 original size:163 final size:163
Alignment explanation
Indices: 3477775--3478139 Score: 484
Period size: 163 Copynumber: 2.2 Consensus size: 163
3477765 TCTTTCGCGA
* * *
3477775 CGTTTATATAAAAATGCTACTAAATGACGAGTATTTATCGATGTTTGTTCAAAAAATGCCACGAA
1 CGTTTATATAAAAATGCTACTAAATGACGAGTATTTACCGACGTTTGTTCAAAAAACGCCACGAA
* *
3477840 AGTACAATATTTAGCGGTGCTTATATAAAAATCCCACTAAAATACGAGTCTTTAGCGGTGTTTGT
66 AGTACAATATTTAGCGGTGCTTATATAAAAATCCCACTAAAATACGAGTCTTTAGAGGCGTTTG-
* *
3477905 CA-AAAAATGCCACTAAAGTACAATATTTAGTGG
130 CACAAAAACGCCACTAAAGTACAATATTTAGCGG
* * * *
3477938 CGTTTATATAAAAATGTTACTAAATGATGAGTATTTACCGGCGTTTGTTCAAAAAACGCCACTAA
1 CGTTTATATAAAAATGCTACTAAATGACGAGTATTTACCGACGTTTGTTCAAAAAACGCCACGAA
* * * * * * *
3478003 AGTATAATATTTAGTGGTGTTTATATCAAAATGCCTCTAAAATACGAGTCTTTAGATGCGTTTGC
66 AGTACAATATTTAGCGGTGCTTATATAAAAATCCCACTAAAATACGAGTCTTTAGAGGCGTTTGC
* *
3478068 ACAAAAACGGCACTAAAGTACAATATTTAGCGT
131 ACAAAAACGCCACTAAAGTACAATATTTAGCGG
* * *
3478101 CGTTTATAT-AAAACGCCACTAAA-GTACGATTATTTACCG
1 CGTTTATATAAAAATGCTACTAAATG-ACGAGTATTTACCG
3478140 GTATTTGTTA
Statistics
Matches: 175, Mismatches: 25, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
161 1 0.01
162 25 0.14
163 149 0.85
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (163 bp):
CGTTTATATAAAAATGCTACTAAATGACGAGTATTTACCGACGTTTGTTCAAAAAACGCCACGAA
AGTACAATATTTAGCGGTGCTTATATAAAAATCCCACTAAAATACGAGTCTTTAGAGGCGTTTGC
ACAAAAACGCCACTAAAGTACAATATTTAGCGG
Found at i:3478803 original size:5 final size:5
Alignment explanation
Indices: 3478796--3478884 Score: 142
Period size: 5 Copynumber: 17.8 Consensus size: 5
3478786 AGATTGAATA
*
3478796 AGATA AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG
1 AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG
* * *
3478846 AGATG AGATG AGATG AGATT AGATG AGATT AGATT AGAT
1 AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGAT
3478885 TAGAGTAGAG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 80 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.24
Consensus pattern (5 bp):
AGATG
Found at i:3478885 original size:5 final size:5
Alignment explanation
Indices: 3478875--3479143 Score: 502
Period size: 5 Copynumber: 53.8 Consensus size: 5
3478865 TAGATGAGAT
* * * *
3478875 TAGAT TAGAT TAGAG TAGAG TAGAG TAGAG TAGAG TATAG TAGAT TAGAG
1 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
3478925 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
1 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
3478975 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
1 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
3479025 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
1 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
3479075 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
1 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
3479125 TAGAG TAGAG TAGAG TAGA
1 TAGAG TAGAG TAGAG TAGA
3479144 TAATATAATC
Statistics
Matches: 259, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 259 1.00
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (5 bp):
TAGAG
Found at i:3480676 original size:58 final size:58
Alignment explanation
Indices: 3480606--3481050 Score: 743
Period size: 58 Copynumber: 7.7 Consensus size: 58
3480596 TCCCATACGA
* * *
3480606 AAATTCATACACTTAGTATGAATCTCCTAACTTTTTGCACACAAGGTGCCCAATACAG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
* *
3480664 AAATTCATACACTTAGTATGAAGTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
3480722 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAC-G
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
* * *
3480779 GAATTCATACACTTAGTATGAATTTCATAACTTTTTGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
* * * *
3480837 AAATTCATACACCTAGTATAAATTTCTTAACTTTTTGCACACAAAGTGCCCATTAAAG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
3480895 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
3480953 AAATTCATACACTTAGTATGAATTT-TTAACTTTTTGCACACAAAGTGCCCAATACAG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
* *
3481010 AAATTCATACACTTAGTATGAATTT-TTAACTTATTGGACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
3481051 TTAGTGCCAT
Statistics
Matches: 365, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
57 126 0.35
58 239 0.65
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
Found at i:3480836 original size:115 final size:116
Alignment explanation
Indices: 3480600--3481050 Score: 755
Period size: 115 Copynumber: 3.9 Consensus size: 116
3480590 CATATTTCCC
* * * *
3480600 ATACGAAAATTCATACACTTAGTATGAATCTCCTAACTTTTTGCACACAAGGTGCCCAATACAGA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAGA
*
3480665 AATTCATACACTTAGTATGAAGTTCTTAACTTTTTGCACACAAAGTGCCCA
66 AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
3480716 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAC-GG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAGA
*
3480780 AATTCATACACTTAGTATGAATTTCATAACTTTTTGCACACAAAGTGCCCA
66 AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * *
3480831 ATACGGAAATTCATACACCTAGTATAAATTTCTTAACTTTTTGCACACAAAGTGCCCATTAAAGA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAGA
3480896 AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
66 AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
3480947 ATACAGAAATTCATACACTTAGTATGAATTT-TTAACTTTTTGCACACAAAGTGCCCAATACAGA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAGA
* *
3481011 AATTCATACACTTAGTATGAATTT-TTAACTTATTGGACAC
66 AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
3481051 TTAGTGCCAT
Statistics
Matches: 314, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
114 14 0.04
115 163 0.52
116 137 0.44
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (116 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAGA
AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:3480900 original size:173 final size:174
Alignment explanation
Indices: 3480606--3481050 Score: 743
Period size: 173 Copynumber: 2.6 Consensus size: 174
3480596 TCCCATACGA
* * *
3480606 AAATTCATACACTTAGTATGAATCTCCTAACTTTTTGCACACAAGGTGCCCAATACAGAAATTCA
1 AAATTCATACACTTAGTATGAATTTCATAACTTTTTGCACACAAAGTGCCCAATACAGAAATTCA
* **
3480671 TACACTTAGTATGAAGTTCTTAACTTTTTGCACACAAAGTGCCCAATACGGAAATTCATACACTT
66 TACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAAAGAAATTCATACACTT
3480736 AGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAC-G
131 AGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
* *
3480779 GAATTCATACACTTAGTATGAATTTCATAACTTTTTGCACACAAAGTGCCCAATACGGAAATTCA
1 AAATTCATACACTTAGTATGAATTTCATAACTTTTTGCACACAAAGTGCCCAATACAGAAATTCA
* * *
3480844 TACACCTAGTATAAATTTCTTAACTTTTTGCACACAAAGTGCCCATTAAAGAAATTCATACACTT
66 TACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAAAGAAATTCATACACTT
3480909 AGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
131 AGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
*
3480953 AAATTCATACACTTAGTATGAATTT-TTAACTTTTTGCACACAAAGTGCCCAATACAGAAATTCA
1 AAATTCATACACTTAGTATGAATTTCATAACTTTTTGCACACAAAGTGCCCAATACAGAAATTCA
* *
3481017 TACACTTAGTATGAATTT-TTAACTTATTGGACAC
66 TACACTTAGTATGAATTTCTTAACTTTTTGCACAC
3481051 TTAGTGCCAT
Statistics
Matches: 253, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
172 14 0.06
173 214 0.85
174 25 0.10
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (174 bp):
AAATTCATACACTTAGTATGAATTTCATAACTTTTTGCACACAAAGTGCCCAATACAGAAATTCA
TACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAAAGAAATTCATACACTT
AGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG
Found at i:3484457 original size:15 final size:15
Alignment explanation
Indices: 3484445--3484474 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3484435 TATAAAACAT
3484445 TTTTAATTAAAACTA
1 TTTTAATTAAAACTA
3484460 TTTTAATTAAAACTA
1 TTTTAATTAAAACTA
3484475 ATATAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTTAATTAAAACTA
Found at i:3485188 original size:117 final size:117
Alignment explanation
Indices: 3484930--3485209 Score: 426
Period size: 117 Copynumber: 2.4 Consensus size: 117
3484920 CATATTTCCC
* ** * *
3484930 ATACGGAAATTTATACACTTAGTATGAATCTT-TT-ACTTGATGCACA-AAAGGTTCCCAATATG
1 ATACGGAAATTCATACACTTAGTATGAAT-TTCTTAACTTTTTGCACACAAAGGTGCCCAATACG
3484992 GAAATTCATACACTTAATATGAATTTCTTAAATTTTTGCACACAAAGTGCCCA
65 GAAATTCATACACTTAATATGAATTTCTTAAATTTTTGCACACAAAGTGCCCA
* *
3485045 ATACAGAAATTCATACCCTTAGTATGAATTTCTTAACTTTTTGCACACAAA-GTGCCCAATACGG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGGTGCCCAATACGG
*
3485109 AAATTCATACACTTAGTATGAATTTC-TAAACTTTTTTGCACACAAAGTGCCCA
66 AAATTCATACACTTAATATGAATTTCTTAAA--TTTTTGCACACAAAGTGCCCA
3485162 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
3485210 TTAGTGCCAT
Statistics
Matches: 150, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
114 2 0.01
115 32 0.21
116 46 0.31
117 70 0.47
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (117 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGGTGCCCAATACGG
AAATTCATACACTTAATATGAATTTCTTAAATTTTTGCACACAAAGTGCCCA
Found at i:3485236 original size:58 final size:58
Alignment explanation
Indices: 3484930--3485209 Score: 422
Period size: 58 Copynumber: 4.8 Consensus size: 58
3484920 CATATTTCCC
* ** *
3484930 ATACGGAAATTTATACACTTAGTATGAATCTT-TT-ACTTGATGCACA-AAAGGTTCCCA
1 ATACGGAAATTCATACACTTAGTATGAAT-TTCTTAACTTTTTGCACACAAA-GTGCCCA
* * *
3484987 ATATGGAAATTCATACACTTAATATGAATTTCTTAAATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
3485045 ATACAGAAATTCATACCCTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
3485103 ATACGGAAATTCATACACTTAGTATGAATTTCTAAACTTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCA
3485162 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
3485210 TTAGTGCCAT
Statistics
Matches: 203, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
56 2 0.01
57 28 0.14
58 113 0.56
59 60 0.30
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:3487987 original size:2 final size:2
Alignment explanation
Indices: 3487982--3488013 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3487972 TATATCAAAT
3487982 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
3488014 CATACATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3489721 original size:12 final size:12
Alignment explanation
Indices: 3489704--3489735 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3489694 GGTTATTTTC
*
3489704 CAAAATTACTAT
1 CAAAATCACTAT
3489716 CAAAATCACTAT
1 CAAAATCACTAT
3489728 CAAAATCA
1 CAAAATCA
3489736 TAGAATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (12 bp):
CAAAATCACTAT
Found at i:3496964 original size:27 final size:24
Alignment explanation
Indices: 3496918--3496966 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 24
3496908 ATATACAAAA
3496918 ATTATATACATATATTTATTAATT
1 ATTATATACATATATTTATTAATT
3496942 ATTATATACCATATATATATATTAA
1 ATTATATA-CATATAT-T-TATTAA
3496967 CATATGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
25 7 0.32
26 1 0.05
27 6 0.27
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATATACATATATTTATTAATT
Found at i:3497246 original size:105 final size:107
Alignment explanation
Indices: 3497126--3497343 Score: 413
Period size: 105 Copynumber: 2.1 Consensus size: 107
3497116 ATACTATAAA
*
3497126 TAAATGATGGAACTGAAACAAAACCAAATACCATTATAAAGGACTAACACCGAAATAAACCCTAA
1 TAAATGATGGAACTGAAACAAAACAAAATACCATTATAAAGGACTAACACCGAAATAAACCCTAA
3497191 ACATATATAGGACTAAAAAG-AACATG-AAAAATTCAGAAGT
66 ACATATATAGGACTAAAAAGAAACATGAAAAAATTCAGAAGT
3497231 TAAATGATGGAACTGAAACAAAACAAAATACCATTATAAAGGACTAACACCGAAATAAACCCTAA
1 TAAATGATGGAACTGAAACAAAACAAAATACCATTATAAAGGACTAACACCGAAATAAACCCTAA
3497296 ACATATATAGGACTAAAAAGAAACATGAAAAAATTCAGAAGT
66 ACATATATAGGACTAAAAAGAAACATGAAAAAATTCAGAAGT
3497338 TAAATG
1 TAAATG
3497344 TCTAAAGTAA
Statistics
Matches: 110, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
105 84 0.76
106 6 0.05
107 20 0.18
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.18
Consensus pattern (107 bp):
TAAATGATGGAACTGAAACAAAACAAAATACCATTATAAAGGACTAACACCGAAATAAACCCTAA
ACATATATAGGACTAAAAAGAAACATGAAAAAATTCAGAAGT
Found at i:3499081 original size:3 final size:3
Alignment explanation
Indices: 3499068--3499146 Score: 133
Period size: 3 Copynumber: 26.3 Consensus size: 3
3499058 ATATAATATG
*
3499068 TAA TAAA TAA TAA TAA TAA TAA CAA TAA TAA T-A TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3499113 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3499147 GTATTAAAAG
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3499558 original size:111 final size:111
Alignment explanation
Indices: 3499357--3499808 Score: 620
Period size: 111 Copynumber: 4.1 Consensus size: 111
3499347 TTTAGGGAAG
* *
3499357 ATTGAATCAGGGTAGACTTGTTCTATTATCACTCATGGAATATCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAGGGTAGACTTGTTCTATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
* *
3499422 TGTTCCGCTTCTTCTGAGGGGATATCAGATATGGGAAAGTTGATCC
66 TGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
* * * *
3499468 ATTGAATCAGGGTAGACTTGTTCTGTTGCCACTCAGGGAATATCAAATTTTGAAAGAGAGGGATT
1 ATTGAATCAGGGTAGACTTGTTCTATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
*
3499533 TGTTCCGCTTCTTCTGATGGAATATCAGATCTGGGAAAGTTGATCC
66 TGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
** *
3499579 ATTGAATCAGGGTAGACTTGTT-TCGCTGTCACTC-GAGGAATATCAAATCTTAAAAGAGAGGGA
1 ATTGAATCAGGGTAGACTTGTTCT-ATTGTCACTCAG-GGAATATCAAATCTTGAAAGAGAGGGA
* ** * * *
3499642 TCAGTTTTGCTTCTTCTAAGGGAATTTCAAATCTGGGAAAGTTGATCC
64 TCTGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
* * ** * * *
3499690 ATTGAATCAGGGTATACTTGTTCCATTGTCACTCAACGAATATCAAATGTTGAAAGAGAGAGATA
1 ATTGAATCAGGGTAGACTTGTTCTATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
** *
3499755 TGTTCCAATTCTTCTGAGGGAATATCAGATCTGAGAAAGTTGATCC
66 TGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
3499801 ATTGAATC
1 ATTGAATC
3499809 GGGATCGAAC
Statistics
Matches: 297, Mismatches: 40, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
110 2 0.01
111 295 0.99
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (111 bp):
ATTGAATCAGGGTAGACTTGTTCTATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
TGTTCCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
Found at i:3500959 original size:16 final size:15
Alignment explanation
Indices: 3500930--3501015 Score: 56
Period size: 17 Copynumber: 5.6 Consensus size: 15
3500920 CCTTTTATTT
*
3500930 TTTTTATTTGTTTCTCA
1 TTTTT-TTTCTTT-TCA
3500947 TTTTTTTTC-TTTCA
1 TTTTTTTTCTTTTCA
3500961 ---TTTTTCTTTTC-
1 TTTTTTTTCTTTTCA
3500972 TTTTTCTTTCCTTTTTCA
1 TTTTT-TTT-C-TTTTCA
*
3500990 TTTTTTAGTCTATTTCA
1 TTTTTT-TTCT-TTTCA
3501007 TTTTTTTTC
1 TTTTTTTTC
3501016 AGGCAAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 21
0.70 0.04 0.26
Matches are distributed among these distances:
11 6 0.11
12 4 0.07
14 5 0.09
15 5 0.09
16 7 0.12
17 23 0.41
18 6 0.11
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTTTTCTTTTCA
Found at i:3500964 original size:11 final size:10
Alignment explanation
Indices: 3500950--3500988 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
3500940 TTTCTCATTT
3500950 TTTTTCTTTC
1 TTTTTCTTTC
3500960 ATTTTTCTTTTC
1 -TTTTTC-TTTC
3500972 TTTTTCTTTCC
1 TTTTTCTTT-C
3500983 TTTTTC
1 TTTTTC
3500989 ATTTTTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.12
11 19 0.73
12 4 0.15
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:3500975 original size:22 final size:23
Alignment explanation
Indices: 3500950--3500993 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
3500940 TTTCTCATTT
3500950 TTTTTCTTTCATTTTTC-TTTTC
1 TTTTTCTTTCATTTTTCATTTTC
*
3500972 TTTTTCTTTCCTTTTTCATTTT
1 TTTTTCTTTCATTTTTCATTTT
3500994 TTAGTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTCTTTCATTTTTCATTTTC
Found at i:3504548 original size:8 final size:9
Alignment explanation
Indices: 3504533--3504569 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
3504523 TCCCATATCA
3504533 AAATATAAT
1 AAATATAAT
3504542 AAA-ATAAT
1 AAATATAAT
3504550 AATATATAAT
1 AA-ATATAAT
3504560 AAATA-AAT
1 AAATATAAT
3504568 AA
1 AA
3504570 TGAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 12 0.46
9 7 0.27
10 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATATAAT
Found at i:3512642 original size:3 final size:3
Alignment explanation
Indices: 3512634--3512685 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
3512624 TATGTAACAT
3512634 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3512682 TAA T
1 TAA T
3512686 GTATTAAAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3519189 original size:5 final size:5
Alignment explanation
Indices: 3519176--3519529 Score: 105
Period size: 5 Copynumber: 69.8 Consensus size: 5
3519166 ATTTACTATT
* * * *
3519176 TTTTC TTTTA TTTTT TTCCTTA TCTTTA CTTTA -TTT- TTTTA TTTCCA
1 TTTTA TTTTA TTTTA TT--TTA T-TTTA TTTTA TTTTA TTTTA TTT-TA
* * *
3519223 TTATA -TTTA TTTTA TTTCTT TATTTA TTTTTA TTTTA TTCTTG TTTT-
1 TTTTA TTTTA TTTTA TTT-TA T-TTTA -TTTTA TTTTA TT-TTA TTTTA
* * * *
3519270 TATTTA -TTTA -TTTA TTATA TATTA TTATTA CTTT- CTTTA TTTTA -TTTA
1 T-TTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA
* * * * *
3519318 TTTTA TTTATT TTTTA TCATTA TTTTTA TCTCTA -TTTC TTTTA TTTTC
1 TTTTA TTT-TA TTTTA T-TTTA -TTTTA T-TTTA TTTTA TTTTA TTTTA
* *
3519366 TTTT- TCTTTA TTTTA TTTACTT TTTTA TCTTTA CTTTA TCTTTA TTTTA
1 TTTTA T-TTTA TTTTA TTT--TA TTTTA T-TTTA TTTTA T-TTTA TTTTA
* * * * *
3519415 -TTTA TTTTA -TTTA CTTT- TTTTA TCTTTA CTTTA TGTTTG TTTTC TCTATA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA T-TTTA TTTTA T-TTTA
* * * * * * *
3519465 TCTTTT TTTTA TTTT- CTTTA TCTCA TTTT- CTTTA TTTCA -TTTG TTTT-
1 T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
3519512 TTTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
3519530 CATCACCTTT
Statistics
Matches: 259, Mismatches: 51, Indels: 78
0.67 0.13 0.20
Matches are distributed among these distances:
4 56 0.22
5 132 0.51
6 59 0.23
7 11 0.04
8 1 0.00
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:3519226 original size:28 final size:27
Alignment explanation
Indices: 3519186--3519247 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
3519176 TTTTCTTTTA
*
3519186 TTTT-TTTCCTTATCTTTACTTTATTT
1 TTTTATTTCCTTATATTTACTTTATTT
*
3519212 TTTTATTTCCATTATATTTATTTTATTT
1 TTTTATTTCC-TTATATTTACTTTATTT
*
3519240 CTTTATTT
1 TTTTATTT
3519248 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.13
27 5 0.16
28 22 0.71
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTATTTCCTTATATTTACTTTATTT
Found at i:3519238 original size:9 final size:9
Alignment explanation
Indices: 3519200--3519529 Score: 136
Period size: 9 Copynumber: 35.9 Consensus size: 9
3519190 TTTCCTTATC
*
3519200 TTTACTTTA
1 TTTATTTTA
3519209 TTT-TTTTA
1 TTTATTTTA
*
3519217 TTTCCATTATA
1 TTT--ATTTTA
3519228 TTTATTTTA
1 TTTATTTTA
*
3519237 TTT-CTTTA
1 TTTATTTTA
3519245 TTTATTTTTA
1 TTTA-TTTTA
*
3519255 TTTTATTCT-
1 -TTTATTTTA
*
3519264 TGT-TTTTA
1 TTTATTTTA
3519272 TTTA-TTTA
1 TTTATTTTA
3519280 TTTA--TTA
1 TTTATTTTA
*
3519287 TATATTATTA
1 TTTATT-TTA
* *
3519297 -TTACTTTC
1 TTTATTTTA
3519305 TTTATTTTA
1 TTTATTTTA
3519314 TTTATTTTA
1 TTTATTTTA
3519323 TTTATTTT-
1 TTTATTTTA
3519331 TTATCATTATT-
1 TT-T-ATT-TTA
*
3519342 TTTATCTCTA
1 TTTAT-TTTA
*
3519352 TTTCTTTTA
1 TTTATTTTA
* *
3519361 TTTTCTTTTTC
1 -TTT-ATTTTA
3519372 TTTATTTTA
1 TTTATTTTA
*
3519381 TTTACTTT-
1 TTTATTTTA
3519389 TTTATCTTTA
1 TTTAT-TTTA
*
3519399 CTTTA---TC
1 -TTTATTTTA
3519406 TTTATTTTA
1 TTTATTTTA
3519415 TTTATTTTA
1 TTTATTTTA
3519424 TTTACTTTT-
1 TTTA-TTTTA
3519433 TTTATCTTTA
1 TTTAT-TTTA
*
3519443 CTTTATGTTTG
1 -TTTAT-TTTA
3519454 TTT-TCTCTATA
1 TTTAT-T-T-TA
*
3519465 TCTTTTTTTTA
1 --TTTATTTTA
3519476 TTT-TCTTTA
1 TTTAT-TTTA
* *
3519485 TCTCATTTTC
1 T-TTATTTTA
*
3519495 TTTATTTCA
1 TTTATTTTA
* *
3519504 TTTGTTTTT
1 TTTATTTTA
3519513 TTTATTTTA
1 TTTATTTTA
3519522 TTTATTTT
1 TTTATTTT
3519530 CATCACCTTT
Statistics
Matches: 244, Mismatches: 40, Indels: 74
0.68 0.11 0.21
Matches are distributed among these distances:
6 4 0.02
7 10 0.04
8 36 0.15
9 115 0.47
10 38 0.16
11 35 0.14
12 1 0.00
13 4 0.02
14 1 0.00
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3519248 original size:4 final size:4
Alignment explanation
Indices: 3519200--3519334 Score: 77
Period size: 4 Copynumber: 32.2 Consensus size: 4
3519190 TTTCCTTATC
* *
3519200 TTTA CTTTA TTTT TTTA TTTCCA TTATA TTTA TTTTA TTTC TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTT--A TT-TA TTTA -TTTA TTTA TTTA TTTA
3519249 -TT- TTTA TTTTA TTCT- TGTT- TTTA TTTA TTTA TTTA TTATA TATTA
1 TTTA TTTA -TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TT-TA T-TTA
*
3519294 -TTA -TTA CTTTC TTTA TTTTA TTTA TTTTA TTTA TTT- TTTA T
1 TTTA TTTA -TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA T
3519335 CATTATTTTT
Statistics
Matches: 107, Mismatches: 6, Indels: 35
0.72 0.04 0.24
Matches are distributed among these distances:
3 15 0.14
4 55 0.51
5 32 0.30
6 4 0.04
7 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:3519251 original size:63 final size:64
Alignment explanation
Indices: 3519146--3519321 Score: 161
Period size: 63 Copynumber: 2.7 Consensus size: 64
3519136 TTCCTAACAT
* *
3519146 TTTA-TTA-TATATATATATATATTTACTATTTTTTCTTTTATTTTTTTCCTTA-TCTT-TACTT
1 TTTATTTATTATATAT-TAT-TA-TTACT-TTCTTTATTTTATTTTTTT--TTATTCTTGT-CTT
*
3519207 TATTTT
59 TATTTA
*
3519213 TTTATTTCCATTATAT-TTATT-TTA-TTTCTTTA-TTTATTTTTATTTTATTCTTGTTTTTATT
1 TTTATTT--ATTATATATTATTATTACTTTCTTTATTTTATTTTT-TTTTATTCTTGTCTTTATT
3519274 TA
63 TA
*
3519276 TTTATTTATTATATATTATTATTACTTTCTTTATTTTATTTATTTT
1 TTTATTTATTATATATTATTATTACTTTCTTTATTTTATTTTTTTT
3519322 ATTTATTTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 25
0.76 0.04 0.20
Matches are distributed among these distances:
61 7 0.08
62 8 0.09
63 30 0.32
64 19 0.20
65 9 0.10
66 3 0.03
67 4 0.04
68 3 0.03
69 3 0.03
70 2 0.02
71 5 0.05
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.71
Consensus pattern (64 bp):
TTTATTTATTATATATTATTATTACTTTCTTTATTTTATTTTTTTTTATTCTTGTCTTTATTTA
Found at i:3519260 original size:43 final size:41
Alignment explanation
Indices: 3519206--3519448 Score: 134
Period size: 43 Copynumber: 5.8 Consensus size: 41
3519196 TATCTTTACT
* * *
3519206 TTATTTTTTTATTTCCATTATATTTATTTTATTTCTTTATTTA
1 TTATTATTTTATTT--ATTTTATTTATTTTATTTATTTATTTA
* *
3519249 TTTTTATTTTATTCTTGTTTTTATTTA-TTTATTTATTATATATTA
1 TTATTATTTTA-T-TT-ATTTTATTTATTTTATTTATT-TAT-TTA
* *
3519294 TTATTACTTTCTTTATTTTATTTATTTTATTTATTT-TTTA
1 TTATTATTTTATTTATTTTATTTATTTTATTTATTTATTTA
* * *
3519334 TCATTA--TT-TTTATCTCTATTTCTTTTATTT-TCTT-TTT-
1 TTATTATTTTATTTAT-TTTATTTATTTTATTTAT-TTATTTA
* *
3519371 CT-TTATTTTATTTACTTT-TTTATCTTTACTTTATCTT-TATT-
1 TTATTATTTTATTTATTTTATTTAT-TTTA-TTTAT-TTAT-TTA
3519412 TTATTTATTTTATTTACTTTT-TTTATCTTTACTTTAT
1 TTA-TTATTTTATTTA-TTTTATTTAT-TTTA-TTTAT
3519449 GTTTGTTTTC
Statistics
Matches: 163, Mismatches: 20, Indels: 33
0.75 0.09 0.15
Matches are distributed among these distances:
36 3 0.02
37 10 0.06
38 29 0.18
39 7 0.04
40 13 0.08
41 4 0.02
42 10 0.06
43 42 0.26
44 32 0.20
45 13 0.08
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (41 bp):
TTATTATTTTATTTATTTTATTTATTTTATTTATTTATTTA
Found at i:3519322 original size:63 final size:62
Alignment explanation
Indices: 3519205--3519457 Score: 179
Period size: 63 Copynumber: 4.0 Consensus size: 62
3519195 TTATCTTTAC
* *
3519205 TTTATTTTTTTATTTCCATTATATTTATTTTATTTCTTTATTTATTTTTATTTTATTCTTGTT
1 TTTATTTATTTATTT-CATTATATTTATTTTATTTCTTTATTTATATTTATTTTATTCTTGTT
3519268 TTTATTTATTTATTT-ATTATATATTATTATTACTTTCTTTATTT-TATTTATTTTATT-TAT-T
1 TTTATTTATTTATTTCATTATAT-TTATT-TTA-TTTCTTTATTTATATTTATTTTATTCT-TGT
3519329 T
62 T
* * * *
3519330 TTTATCATTA-TT-TTT-ATCTCTATTTCTTTTATTT-TCT-TTT-TCTTTATTTTATTTACTT-
1 TTTAT--TTATTTATTTCAT-TATATTTATTTTATTTCTTTATTTATATTTATTTTA-TT-CTTG
3519388 TT
61 TT
* * * * * *
3519390 TTATCTTTACTTTATCTTTATTTTATTTATTTTATTTACTTTTTTTATCTTTACTTTATGT-TTG
1 TT-TATTTA-TTTAT-TTCATTATATTTATTTTATTT-CTTTATTTATATTTATTTTAT-TCTTG
3519454 TT
61 TT
3519456 TT
1 TT
3519458 CTCTATATCT
Statistics
Matches: 157, Mismatches: 11, Indels: 41
0.75 0.05 0.20
Matches are distributed among these distances:
58 13 0.08
59 7 0.04
60 8 0.05
61 15 0.10
62 23 0.15
63 52 0.33
64 16 0.10
65 4 0.03
66 8 0.05
67 11 0.07
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (62 bp):
TTTATTTATTTATTTCATTATATTTATTTTATTTCTTTATTTATATTTATTTTATTCTTGTT
Found at i:3519359 original size:29 final size:28
Alignment explanation
Indices: 3519186--3519412 Score: 93
Period size: 29 Copynumber: 8.0 Consensus size: 28
3519176 TTTTCTTTTA
*
3519186 TTTTTT-TCCTTATCTTTA-CTTTATTT-
1 TTTTTTAT-CTTATTTTTATCTTTATTTC
*
3519212 TTTTATT-TCCATTATATTTAT-TTTATTTC
1 TTTT-TTAT-C-TTATTTTTATCTTTATTTC
* * *
3519241 TTTATTTAT-TTTTATTTTATTCTTGTTTTTA
1 TTT-TTTATCTTAT-TTTTA-TCTT-TATTTC
* *
3519272 TTTATTTAT-TTATTATATAT-TATTATTAC
1 TTT-TTTATCTTATT-TTTATCT-TTATTTC
* *
3519301 TTTCTTTAT-TT-TATTTAT-TTTATTTA
1 TTT-TTTATCTTATTTTTATCTTTATTTC
*
3519327 TTTTTTATCATTATTTTTATCTCTATTTC
1 TTTTTTATC-TTATTTTTATCTTTATTTC
* *
3519356 TTTTATTTTCTTTTTCTTTAT-TTTATTTAC
1 TTTT-TTATCTTATT-TTTATCTTTATTT-C
*
3519386 TTTTTTATCTT-TACTTTATCTTTATTT
1 TTTTTTATCTTAT-TTTTATCTTTATTT
3519413 TATTTATTTT
Statistics
Matches: 157, Mismatches: 23, Indels: 39
0.72 0.11 0.18
Matches are distributed among these distances:
25 5 0.03
26 12 0.08
27 15 0.10
28 32 0.20
29 53 0.34
30 21 0.13
31 19 0.12
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTTTATCTTATTTTTATCTTTATTTC
Found at i:3519443 original size:58 final size:59
Alignment explanation
Indices: 3519310--3519446 Score: 160
Period size: 58 Copynumber: 2.4 Consensus size: 59
3519300 CTTTCTTTAT
* *
3519310 TTTA-TTTATTTTATTTA-TTTTTTATCATTATTTTTATCTCTATTTCTTTTATTTTCT
1 TTTACTTTATTTTATTTACTTTTTTATCATTATCTTTATCTCTATTTCTTTTATTTTCA
* * *
3519367 TTTTCTTTATTTTATTTACTTTTTTATCTTTA-CTTTATCTTTATTT-TATTTATTTT-A
1 TTTACTTTATTTTATTTACTTTTTTATCATTATCTTTATCTCTATTTCT-TTTATTTTCA
3519424 TTTACTTT-TTTTATCTTTACTTT
1 TTTACTTTATTTTA--TTTACTTT
3519447 ATGTTTGTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.07
57 11 0.16
58 41 0.59
59 12 0.17
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (59 bp):
TTTACTTTATTTTATTTACTTTTTTATCATTATCTTTATCTCTATTTCTTTTATTTTCA
Found at i:3519480 original size:22 final size:23
Alignment explanation
Indices: 3519454--3519501 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
3519444 TTTATGTTTG
*
3519454 TTTTCTCTATATC-TTTTTTTTA
1 TTTTCTCTATATCATTTTCTTTA
* *
3519476 TTTTCTTTATCTCATTTTCTTTA
1 TTTTCTCTATATCATTTTCTTTA
3519499 TTT
1 TTT
3519502 CATTTGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTCTCTATATCATTTTCTTTA
Found at i:3529847 original size:22 final size:24
Alignment explanation
Indices: 3529813--3529862 Score: 86
Period size: 22 Copynumber: 2.2 Consensus size: 24
3529803 AGGGTCCCCT
3529813 AAATTGAAAAAAGAAAAGAAAAA-
1 AAATTGAAAAAAGAAAAGAAAAAG
3529836 AAATT-AAAAAAGAAAAGAAAAAG
1 AAATTGAAAAAAGAAAAGAAAAAG
3529859 AAAT
1 AAAT
3529863 AAGGTGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (24 bp):
AAATTGAAAAAAGAAAAGAAAAAG
Found at i:3529856 original size:11 final size:11
Alignment explanation
Indices: 3529820--3529861 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
3529810 CCTAAATTGA
3529820 AAAAAGAAAAG
1 AAAAAGAAAAG
3529831 AAAAA-AAATTA-
1 AAAAAGAAA--AG
3529842 AAAAAGAAAAG
1 AAAAAGAAAAG
3529853 AAAAAGAAA
1 AAAAAGAAA
3529862 TAAGGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.15
11 19 0.70
12 4 0.15
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:3530802 original size:65 final size:64
Alignment explanation
Indices: 3530698--3530868 Score: 217
Period size: 65 Copynumber: 2.7 Consensus size: 64
3530688 CAACTTACAA
* **
3530698 AAGATTGGATTTCTACTTCACAACGAAGGATATCCAACTCAAAGCTAATTCTG-TGAAATTTATA
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAATT-TGATGAAA-AAATA
3530762 C
64 C
* *
3530763 AAGATTGGATTTCAACTTCACAACGAAGGATGTCCAACTCAAAGCCAATTTGATGAAAAAATAC
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAATTTGATGAAAAAATAC
* * *
3530827 ----TTGGATTTTAACTTCACAACGAATGATATCCAATTCAAAGCT
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCT
3530869 CAACTTCACA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
60 37 0.39
64 6 0.06
65 52 0.55
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (64 bp):
AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAATTTGATGAAAAAATAC
Found at i:3531668 original size:2 final size:2
Alignment explanation
Indices: 3531656--3531685 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3531646 AGATTATACG
3531656 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3531686 TGTTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3532713 original size:3 final size:3
Alignment explanation
Indices: 3532705--3532783 Score: 77
Period size: 3 Copynumber: 24.3 Consensus size: 3
3532695 TTTAACCCTT
*
3532705 TTA TTA TTA TTA TTA TTA TTA TATA TACA TTA TTTA TTA TTTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA -TTA TTA -TTA TTA -TTA
* *
3532755 TTA TTTA TTA TTA TTA TCA TTA TCA TTA T
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
3532784 ACATTTTCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
3 47 0.72
4 18 0.28
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3532745 original size:7 final size:7
Alignment explanation
Indices: 3532704--3532771 Score: 81
Period size: 7 Copynumber: 10.1 Consensus size: 7
3532694 ATTTAACCCT
3532704 TTTATTA
1 TTTATTA
3532711 -TTATTA
1 TTTATTA
3532717 -TTATTA
1 TTTATTA
3532723 -TTATATA
1 TTTAT-TA
**
3532730 TACATTA
1 TTTATTA
3532737 TTTATTA
1 TTTATTA
3532744 TTTATTA
1 TTTATTA
3532751 TTTATTA
1 TTTATTA
3532758 TTTATTA
1 TTTATTA
3532765 -TTATTA
1 TTTATTA
3532771 T
1 T
3532772 CATTATCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
6 22 0.41
7 30 0.56
8 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:3532900 original size:18 final size:17
Alignment explanation
Indices: 3532879--3532936 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 17
3532869 TTTTCCTAAC
3532879 ATTTTATTATATATATAT
1 ATTTTATTAT-TATATAT
*
3532897 ATTTACTATTATTTTAT-T
1 ATTT--TATTATTATATAT
3532915 ATTTT-TTATTAT-TAT
1 ATTTTATTATTATATAT
3532930 -TTTTATT
1 ATTTTATT
3532937 TCCTTTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
14 5 0.15
15 9 0.26
16 1 0.03
18 9 0.26
19 4 0.12
20 6 0.18
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTATTATTATATAT
Found at i:3532944 original size:31 final size:31
Alignment explanation
Indices: 3532909--3532968 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
3532899 TTACTATTAT
3532909 TTTAT-TATTT-TTTATTATTATTTTTATTTCC
1 TTTATATATTTATTTA-T-TTATTTTTATTTCC
3532940 TTTATATATTTATTTATTTATTTTTATTT
1 TTTATATATTTATTTATTTATTTTTATTT
3532969 TATTCTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 17 0.63
32 6 0.22
33 4 0.15
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTATATATTTATTTATTTATTTTTATTTCC
Found at i:3532955 original size:4 final size:4
Alignment explanation
Indices: 3532881--3533035 Score: 51
Period size: 4 Copynumber: 38.2 Consensus size: 4
3532871 TTCCTAACAT
* *
3532881 TTTA TTATA TATA TATA TTTA CTATTA TTT- TATTA TTT- TTTA -TTA
1 TTTA TT-TA TTTA TTTA TTTA -T-TTA TTTA T-TTA TTTA TTTA TTTA
* * *
3532926 TTATT TTTA TTTCC TTTA TATA TTTA TTTA TTTA -TT- TTTA TTTTA TTCT-
1 TT-TA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TT-TA
* * * *
3532975 TGTT- TTTA TTTA TTTA TTATA TATA TATA TATA TATTA -TTA -TTA CTTTC
1 T-TTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA T-TTA TTTA TTTA -TTTA
3533024 TTTA TTT- TTTA T
1 TTTA TTTA TTTA T
3533036 CTTTATTTTT
Statistics
Matches: 119, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
3 22 0.18
4 69 0.58
5 25 0.21
6 3 0.03
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:3532957 original size:48 final size:50
Alignment explanation
Indices: 3532892--3533017 Score: 136
Period size: 48 Copynumber: 2.6 Consensus size: 50
3532882 TTATTATATA
3532892 TATATATTTACTATTATTTTATTATT-TTTTATTATTATTTTTATTTCCTT
1 TATATATTTACTATTA-TTTATTATTATTTTATTATTATTTTTATTTCCTT
* * * *
3532942 TATATATTTA-T-TTATTTATTTTTATTTTATTCTTGTTTTTATTT-ATT
1 TATATATTTACTATTATTTATTATTATTTTATTATTATTTTTATTTCCTT
* *
3532989 TATTATATATA-TATATATATATTATTATT
1 TA-TATATTTACTAT-TATTTATTATTATT
3533018 ACTTTCTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
47 12 0.18
48 29 0.45
49 2 0.03
50 22 0.34
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (50 bp):
TATATATTTACTATTATTTATTATTATTTTATTATTATTTTTATTTCCTT
Found at i:3532972 original size:58 final size:60
Alignment explanation
Indices: 3532881--3532994 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 60
3532871 TTCCTAACAT
*
3532881 TTTATTATATATATATATTTACTATTATTTTATTATTTTTTATTA-TTATTT-TTATTTCC
1 TTTATTATATATATATATTTACTATTATTTTATTATTGTTT-TTATTTATTTATTATTTCC
* * * * *
3532940 TTTA-TATATTTATTTATTTATTTTTATTTTATTCTTGTTTTTATTTATTTATTAT
1 TTTATTATATATATATATTTACTATTATTTTATTATTGTTTTTATTTATTTATTAT
3532995 ATATATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 3 0.06
58 36 0.77
59 8 0.17
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.71
Consensus pattern (60 bp):
TTTATTATATATATATATTTACTATTATTTTATTATTGTTTTTATTTATTTATTATTTCC
Found at i:3532995 original size:50 final size:50
Alignment explanation
Indices: 3532881--3533017 Score: 136
Period size: 50 Copynumber: 2.7 Consensus size: 50
3532871 TTCCTAACAT
3532881 TTTATTATATATATATATTTACTATTATTTTATTATT-TTTTATTATTATTTTTA
1 TTTATT-TAT-TATATATTTA-T-TTA-TTTATTATTATTTTATTATTATTTTTA
** * * *
3532935 TTT-CCT-TTATATATTTATTTATTTATTTTTATTTTATTCTTGTTTTTA
1 TTTATTTATTATATATTTATTTATTTATTATTATTTTATTATTATTTTTA
* * *
3532983 TTTATTTATTATATATATATATATATATTATTATT
1 TTTATTTATTATATATTTATTTATTTATTATTATT
3533018 ACTTTCTTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
47 8 0.12
48 21 0.30
49 2 0.03
50 33 0.48
51 1 0.01
52 1 0.01
54 3 0.04
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.69
Consensus pattern (50 bp):
TTTATTTATTATATATTTATTTATTTATTATTATTTTATTATTATTTTTA
Found at i:3533025 original size:50 final size:51
Alignment explanation
Indices: 3532881--3533043 Score: 123
Period size: 50 Copynumber: 3.1 Consensus size: 51
3532871 TTCCTAACAT
* * *
3532881 TTTATTATATATATATATTTACTATTATTTTATTATTTTTTATTATTATTTTTA
1 TTTATTATATATATATATATA-TATTA--TTATTATTTCTTATTATTATATTTA
* * * * * * *
3532935 TTTCCTTTATATATTTATTTATTTATTTTTATTTTATTCTTGTT-TT-TATTTA
1 TTT--ATTATATATATATATATATATTATTATTAT-TTCTTATTATTATATTTA
* *
3532987 TTTATTATATATATATATATATATTATTATTACTTTCTTTATTTTTTATCTTTA
1 TTTATTATATATATATATATATATTATTATTA-TTTC-TTA-TTATTATATTTA
3533041 TTT
1 TTT
3533044 TTGTTTTTAT
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
50 26 0.31
51 3 0.04
52 10 0.12
53 10 0.12
54 17 0.20
55 4 0.05
56 13 0.16
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (51 bp):
TTTATTATATATATATATATATATTATTATTATTTCTTATTATTATATTTA
Found at i:3533058 original size:20 final size:20
Alignment explanation
Indices: 3533035--3533125 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
3533025 TTATTTTTTA
* *
3533035 TCTTTATTTTTGTTTTTATT
1 TCTTTATTTTTCTTTATATT
3533055 TCTTT-TATTTTCTTTATATT
1 TCTTTAT-TTTTCTTTATATT
*
3533075 TCTTTTATTTAT-TTTATA-T
1 TC-TTTATTTTTCTTTATATT
*
3533094 ACTTT-TTTTATCTTTACT-TT
1 TCTTTATTTT-TCTTTA-TATT
3533114 ATCTTTATTTTT
1 -TCTTTATTTTT
3533126 TTTCGTTATC
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
17 3 0.05
18 4 0.07
19 7 0.12
20 26 0.46
21 11 0.20
22 5 0.09
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (20 bp):
TCTTTATTTTTCTTTATATT
Found at i:3533098 original size:29 final size:29
Alignment explanation
Indices: 3533024--3533098 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
3533014 TATTACTTTC
* * *
3533024 TTTATTTTTTATCTTTATTTTTGTTTTTA
1 TTTATTTTATATCTTTATATTTGCTTTTA
* *
3533053 TTTCTTTTATTTTCTTTATATTT-CTTTTA
1 TTTATTTTA-TATCTTTATATTTGCTTTTA
3533082 TTTATTTTATATACTTT
1 TTTATTTTATAT-CTTT
3533099 TTTTATCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.05
29 24 0.65
30 11 0.30
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (29 bp):
TTTATTTTATATCTTTATATTTGCTTTTA
Found at i:3533124 original size:24 final size:23
Alignment explanation
Indices: 3533022--3533126 Score: 65
Period size: 24 Copynumber: 4.5 Consensus size: 23
3533012 ATTATTACTT
*
3533022 TCTTTATTTTTTATCTTTATTTT
1 TCTTTATTTTTTATCTTTATTTA
* * *
3533045 TGTTT-TTATTTCT-TTTATTT-
1 TCTTTATTTTTTATCTTTATTTA
* *
3533065 TCTTTATATTTCTTTTATTTATTT-
1 TCTTTAT-TTT-TTATCTTTATTTA
* *
3533089 TATATACTTTTTTTATCTTTACTTTA
1 TCTTTA--TTTTTTATCTTTA-TTTA
3533115 TCTTTATTTTTT
1 TCTTTATTTTTT
3533127 TTCGTTATCT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
20 4 0.06
21 8 0.13
22 8 0.13
23 7 0.11
24 24 0.39
25 6 0.10
26 5 0.08
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (23 bp):
TCTTTATTTTTTATCTTTATTTA
Found at i:3533174 original size:9 final size:9
Alignment explanation
Indices: 3533020--3533177 Score: 66
Period size: 9 Copynumber: 17.4 Consensus size: 9
3533010 TTATTATTAC
3533020 TTTCTTTA-
1 TTTCTTTAT
3533028 TTT-TTTAT
1 TTTCTTTAT
*
3533036 CTTTATTT-T
1 -TTTCTTTAT
3533045 TGTT-TTTA-
1 T-TTCTTTAT
3533053 TTTCTTTTAT
1 TTTC-TTTAT
3533063 TTTCTTTAT
1 TTTCTTTAT
3533072 ATTTCTTTTAT
1 -TTTC-TTTAT
3533083 TTAT-TTTAT
1 TT-TCTTTAT
* * *
3533092 ATACTTTTT
1 TTTCTTTAT
3533101 TTATCTTTACT
1 TT-TCTTTA-T
3533112 TTATCTTTAT
1 TT-TCTTTAT
* *
3533122 TTTTTTTCGT
1 TTTCTTT-AT
* *
3533132 TATC-TCAT
1 TTTCTTTAT
3533140 TTTCTTTA-
1 TTTCTTTAT
*
3533148 TTTCATTT-G
1 TTTC-TTTAT
3533157 TTT-TTTAT
1 TTTCTTTAT
3533165 TTTCTTTAT
1 TTTCTTTAT
3533174 TTTC
1 TTTC
3533178 ATTACTTTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 39
0.68 0.09 0.23
Matches are distributed among these distances:
7 9 0.08
8 19 0.17
9 48 0.42
10 23 0.20
11 16 0.14
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTCTTTAT
Found at i:3533186 original size:25 final size:25
Alignment explanation
Indices: 3533138--3533187 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
3533128 TCGTTATCTC
**
3533138 ATTTTCTTTATTTCATTTGTTTTTT
1 ATTTTCTTTATTTCATTTACTTTTT
3533163 ATTTTCTTTATTTTCA-TTACTTTTT
1 ATTTTCTTTA-TTTCATTTACTTTTT
3533188 TTCTATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (25 bp):
ATTTTCTTTATTTCATTTACTTTTT
Found at i:3533186 original size:26 final size:25
Alignment explanation
Indices: 3533138--3533188 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
3533128 TCGTTATCTC
**
3533138 ATTTTCTTTATTTCATTTGTTTTTT
1 ATTTTCTTTATTTCATTACTTTTTT
3533163 ATTTTCTTTATTTTCATTACTTTTTT
1 ATTTTCTTTA-TTTCATTACTTTTTT
3533189 TCTATCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (25 bp):
ATTTTCTTTATTTCATTACTTTTTT
Found at i:3534003 original size:26 final size:25
Alignment explanation
Indices: 3533973--3534043 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
3533963 TGAATCATAT
3533973 CAATTTAAACTATAATAAATTAAAAA
1 CAATTTAAACTATAATAAATT-AAAA
* * * * *
3533999 CAA-TTATTATTATATATGAATTATAT
1 CAATTTA-AACTATA-ATAAATTAAAA
3534025 CAATTTAAACTATAATAAA
1 CAATTTAAACTATAATAAA
3534044 AATAGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
25 7 0.21
26 18 0.53
27 9 0.26
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (25 bp):
CAATTTAAACTATAATAAATTAAAA
Found at i:3534117 original size:22 final size:23
Alignment explanation
Indices: 3534071--3534134 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
3534061 AAATTATAAT
3534071 TATA-ATAAA-AAT-ATATTTTA
1 TATATATAAATAATAATATTTTA
* * *
3534091 TATATCTCACTAATAATATTTTA
1 TATATATAAATAATAATATTTTA
3534114 -ATATATAAATAATAA-ATTTTA
1 TATATATAAATAATAATATTTTA
3534135 CTTATTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.11
21 8 0.23
22 15 0.43
23 8 0.23
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TATATATAAATAATAATATTTTA
Found at i:3535882 original size:14 final size:14
Alignment explanation
Indices: 3535863--3535899 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
3535853 AATATACTTA
3535863 GAAAATCTTTTTTG
1 GAAAATCTTTTTTG
3535877 GAAAATCTTTTTTG
1 GAAAATCTTTTTTG
3535891 GAAAATCTT
1 GAAAATCTT
3535900 AAAATTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (14 bp):
GAAAATCTTTTTTG
Found at i:3537447 original size:217 final size:218
Alignment explanation
Indices: 3537072--3537507 Score: 865
Period size: 217 Copynumber: 2.0 Consensus size: 218
3537062 GCGAAGAGTA
3537072 GAGTAACGGCCCCTGGATGGTCGAAACCACCAAGAGATCATTAGGTGAAGAAAACGGTCATGAAG
1 GAGTAACGGCCCCTGGATGGTCGAAACCACCAAGAGATCATTAGGTGAAGAAAACGGTCATGAAG
3537137 GTCTAGAACACTTGTACTATCCCTTCGTTTATTCTGAGATCTTACCATAAGTTTTTCATTGTCTA
66 GTCTAGAACACTTGTACTATCCCTTCGTTTATTCTGAGATCTTACCATAAGTTTTTCATTGTCTA
3537202 ACCCTTCAGTATCTAATCCTAATGCTTTGGCAATGGATTCCGAGTCAAGATGAAAGAATCGTCCT
131 ACCCTTCAGTATCTAATCCTAATGCTTTGGCAATGGATTCCGAGTCAAGATGAAAGAATCGTCCT
3537267 AGAAGATAGGATCGGAT-CCTAT
196 AGAAGATAGGATCGGATCCCTAT
3537289 GAGTAACGGCCCCTGGATGGTCGAAACCACCAAGAGATCATTAGGTGAAGAAAACGGTCATGAAG
1 GAGTAACGGCCCCTGGATGGTCGAAACCACCAAGAGATCATTAGGTGAAGAAAACGGTCATGAAG
3537354 GTCTAGAACACTTGTACTATCCCTTCGTTTATTCTGAGATCTTACCATAAGTTTTTCATTGTCTA
66 GTCTAGAACACTTGTACTATCCCTTCGTTTATTCTGAGATCTTACCATAAGTTTTTCATTGTCTA
3537419 ACCCTTCAGTATCTAATCCTAATGCTTTGGCAATGGATTCCGAGTCAAGATGAAAGAATCGTCCT
131 ACCCTTCAGTATCTAATCCTAATGCTTTGGCAATGGATTCCGAGTCAAGATGAAAGAATCGTCCT
3537484 AGAAGATAGGATCGGATCCCTAT
196 AGAAGATAGGATCGGATCCCTAT
3537507 G
1 G
3537508 GTTAAGGTTT
Statistics
Matches: 218, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
217 212 0.97
218 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (218 bp):
GAGTAACGGCCCCTGGATGGTCGAAACCACCAAGAGATCATTAGGTGAAGAAAACGGTCATGAAG
GTCTAGAACACTTGTACTATCCCTTCGTTTATTCTGAGATCTTACCATAAGTTTTTCATTGTCTA
ACCCTTCAGTATCTAATCCTAATGCTTTGGCAATGGATTCCGAGTCAAGATGAAAGAATCGTCCT
AGAAGATAGGATCGGATCCCTAT
Found at i:3544905 original size:22 final size:21
Alignment explanation
Indices: 3544863--3544902 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3544853 AAGACTATTT
3544863 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
3544884 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
3544903 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:3550305 original size:59 final size:59
Alignment explanation
Indices: 3550207--3550334 Score: 184
Period size: 59 Copynumber: 2.2 Consensus size: 59
3550197 AGCAGACTGT
* * *
3550207 ATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCATGACCTTATGTGTC
1 ATATTCGGGAATACACTAAAGGATACCTAGTATAGATGGTGGACATGACCTTATGTGTC
* ** *
3550266 ATATTCGGGACTGTACTTAAGGATACCTAGTATAGATGGTGGACATGACCTTATGTGTC
1 ATATTCGGGAATACACTAAAGGATACCTAGTATAGATGGTGGACATGACCTTATGTGTC
*
3550325 ATACTCGGGA
1 ATATTCGGGA
3550335 TTGCATTACG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (59 bp):
ATATTCGGGAATACACTAAAGGATACCTAGTATAGATGGTGGACATGACCTTATGTGTC
Found at i:3550875 original size:12 final size:12
Alignment explanation
Indices: 3550858--3550890 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3550848 TATTTTCGAA
3550858 AGTTACTGTAGC
1 AGTTACTGTAGC
*
3550870 AGTTACTATAGC
1 AGTTACTGTAGC
3550882 AGTTACTGT
1 AGTTACTGT
3550891 TTATTGCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (12 bp):
AGTTACTGTAGC
Found at i:3551006 original size:84 final size:84
Alignment explanation
Indices: 3550865--3551032 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
3550855 GAAAGTTACT
3550865 GTAGCAGTTACTATAGCAGTTACTGTTTATTGCTACAATAACCATGTTTTAGCAAAATTTTCCAG
1 GTAGCAGTTACTATAGCAGTTACTGTTTATTGCTACAATAACCATGTTTTAGCAAAATTTTCCAG
3550930 AATGTAAAAGGGGAATCGA
66 AATGTAAAAGGGGAATCGA
3550949 GTAGCAGTTACTATAGCAGTTACTGTTTATTGCTACAATAACCATGTTTTAGCAAAATTTTCCAG
1 GTAGCAGTTACTATAGCAGTTACTGTTTATTGCTACAATAACCATGTTTTAGCAAAATTTTCCAG
3551014 AATGTAAAAGGGGAATCGA
66 AATGTAAAAGGGGAATCGA
3551033 TTCCCACACT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (84 bp):
GTAGCAGTTACTATAGCAGTTACTGTTTATTGCTACAATAACCATGTTTTAGCAAAATTTTCCAG
AATGTAAAAGGGGAATCGA
Found at i:3553574 original size:16 final size:16
Alignment explanation
Indices: 3553533--3553570 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3553523 AAACTATGAG
*
3553533 ACATGATATATGTGATT
1 ACATG-TATAAGTGATT
3553550 ACATGTATAAGTGA-T
1 ACATGTATAAGTGATT
3553565 ACATGT
1 ACATGT
3553571 TATATGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (16 bp):
ACATGTATAAGTGATT
Found at i:3553772 original size:30 final size:31
Alignment explanation
Indices: 3553704--3553775 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
3553694 AGAGTCGAGG
*
3553704 GTTACCTATGTATTTCAAGATATATGGACAT
1 GTTACCTATGTATTTCAAGACATATGGACAT
* * *
3553735 TTTACCTATGTCTTTCGAGACATATGGACA-
1 GTTACCTATGTATTTCAAGACATATGGACAT
3553765 GTTACCTATGT
1 GTTACCTATGT
3553776 TCTTCGGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 10 0.28
31 26 0.72
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (31 bp):
GTTACCTATGTATTTCAAGACATATGGACAT
Found at i:3553991 original size:2 final size:2
Alignment explanation
Indices: 3553984--3554024 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3553974 TATATGGATT
3553984 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3554025 TGTATGACAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3560875 original size:2 final size:2
Alignment explanation
Indices: 3560868--3560892 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3560858 GGTTAAAAAT
3560868 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3560893 TTATTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3561535 original size:89 final size:89
Alignment explanation
Indices: 3561365--3561540 Score: 291
Period size: 89 Copynumber: 2.0 Consensus size: 89
3561355 CCTAACACAC
* *
3561365 CCTTTTATAGCCAAGTTACCATAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATTTATA
1 CCTTTTATAGCCAAGTTACCATAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATA
*
3561430 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATTAGAATTAAATAAT
* *
3561454 CCTTTTATATCCAAGTTACCCTAATCATATTAGGAATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCATAATCATATTAGG-ATTTTATTATTTCAAATTAATTAAATCTAT
3561519 ATTTAATTAATT-GAATTAAATA
65 ATTTAATTAATTAGAATTAAATA
3561541 TTCGGGATTA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 41 0.51
90 40 0.49
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCATAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAGAATTAAATAAT
Found at i:3566766 original size:58 final size:58
Alignment explanation
Indices: 3566703--3566853 Score: 164
Period size: 58 Copynumber: 2.6 Consensus size: 58
3566693 TTGTAATTTG
* *
3566703 TAAAAAGTATATGT-CATTATTATAATTTATAAAAAGATTTGT-TCTCTATTTTAAATTA
1 TAAAAA-TATATGTCCATTATTATAATTTATAAAAAGATTTATAT-TCTATTATAAATTA
* * * * *
3566761 TAAAAATATTTGTCCTTTATTGTAATTTATAAGAAGATTTATATTCTATTATAATTTA
1 TAAAAATATATGTCCATTATTATAATTTATAAAAAGATTTATATTCTATTATAAATTA
* * *
3566819 TAAAAATAT-TTTCCCATTATTGTAGTTTATAAAAA
1 TAAAAATATATGT-CCATTATTATAATTTATAAAAA
3566854 TCTTTGTCCT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
57 8 0.10
58 70 0.89
59 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (58 bp):
TAAAAATATATGTCCATTATTATAATTTATAAAAAGATTTATATTCTATTATAAATTA
Found at i:3566813 original size:87 final size:86
Alignment explanation
Indices: 3566720--3566879 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 86
3566710 TATATGTCAT
* * * *
3566720 TATTATAATTTATAAAAAGATTTGTTCTC-TATTTTAAATTATAAAAATATTTGTCCTTTATTGT
1 TATTATAATTTATAAAAAGA-TT-TTCCCATATTGTAAATTATAAAAATATTTGTCCTTAAATGT
3566784 AATTTATAAGAAGATTTATATTC
64 AATTTATAAGAAGATTTATATTC
* ** *
3566807 TATTATAATTTATAAAAATATTTTCCCATTATTGTAGTTTATAAAAATCTTTGTCCTTAAATGTA
1 TATTATAATTTATAAAAAGATTTTCCCA-TATTGTAAATTATAAAAATATTTGTCCTTAAATGTA
3566872 ATTTATAA
65 ATTTATAA
3566880 AAATATTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 4 0.06
86 2 0.03
87 57 0.90
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (86 bp):
TATTATAATTTATAAAAAGATTTTCCCATATTGTAAATTATAAAAATATTTGTCCTTAAATGTAA
TTTATAAGAAGATTTATATTC
Found at i:3566839 original size:29 final size:29
Alignment explanation
Indices: 3566690--3566886 Score: 145
Period size: 29 Copynumber: 6.8 Consensus size: 29
3566680 ATATGAGTTG
* * *
3566690 TTATTGTAATTTGTAAAAAGTATATGT-CA
1 TTATTATAATTTATAAAAA-TATTTGTCCA
* *
3566719 TTATTATAATTTATAAAAAGATTTGTTC-
1 TTATTATAATTTATAAAAATATTTGTCCA
* * *
3566747 TCTATTTTAAATTATAAAAATATTTGTCCT
1 T-TATTATAATTTATAAAAATATTTGTCCA
* * * *
3566777 TTATTGTAATTTATAAGAAGATTTAT--A
1 TTATTATAATTTATAAAAATATTTGTCCA
3566804 TTCTATTATAATTTATAAAAATATTT-TCCCA
1 -T-TATTATAATTTATAAAAATATTTGT-CCA
* * *
3566835 TTATTGTAGTTTATAAAAATCTTTGTCC-
1 TTATTATAATTTATAAAAATATTTGTCCA
* *
3566863 TTAAATGTAATTTATAAAAATATT
1 TT-ATTATAATTTATAAAAATATT
3566887 AATTTATATA
Statistics
Matches: 135, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
28 10 0.07
29 121 0.90
30 3 0.02
31 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (29 bp):
TTATTATAATTTATAAAAATATTTGTCCA
Found at i:3570803 original size:90 final size:89
Alignment explanation
Indices: 3570646--3570822 Score: 300
Period size: 90 Copynumber: 2.0 Consensus size: 89
3570636 CCTAACACAC
* * *
3570646 CCTTTTATAGCCAAGTTACCCTAATCATGTTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATAATATTAGGGTTATATTATTTCAAATTAATTAAATCTATA
*
3570711 TTTAATTAATTAAAATTTAATAAT
66 TTTAATTAATTAAAATTAAATAAT
*
3570735 CCTTTTATATCCAAGTTACCCTAATAATATTAGGGATTATATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATAATATTAGGG-TTATATTATTTCAAATTAATTAAATCTAT
3570800 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
3570823 TTTGGGATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 32 0.39
90 50 0.61
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.44
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATAATATTAGGGTTATATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAAAATTAAATAAT
Found at i:3570852 original size:20 final size:21
Alignment explanation
Indices: 3570784--3570853 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
3570774 TATTATTTCA
*
3570784 AATTAATTAAATC-TATATTT
1 AATTAATTAAAACATATATTT
* *
3570804 AATTAATTAAAATTAAATATTT
1 AATTAATTAAAA-CATATATTT
*
3570826 GGGATT-ATTAAAACATATATTT
1 --AATTAATTAAAACATATATTT
3570848 AATTAA
1 AATTAA
3570854 CTCTAGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 14 0.37
21 1 0.03
22 13 0.34
23 7 0.18
24 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (21 bp):
AATTAATTAAAACATATATTT
Found at i:3585269 original size:16 final size:16
Alignment explanation
Indices: 3585227--3585275 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
3585217 TGTTAAAAAG
* *
3585227 TATTGATAATATATTT
1 TATTTATAAAATATTT
*
3585243 TTTCTTAATAAAATATTT
1 TAT-TT-ATAAAATATTT
3585261 TATTTATAAAATATT
1 TATTTATAAAATATT
3585276 ATTAATGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 12 0.44
17 3 0.11
18 12 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TATTTATAAAATATTT
Found at i:3586558 original size:38 final size:37
Alignment explanation
Indices: 3586516--3586630 Score: 115
Period size: 38 Copynumber: 3.0 Consensus size: 37
3586506 ATTCCCAAAT
* *
3586516 TCTTCTACATGGACTGAAGACGCCAGGTAAACTTGGAG
1 TCTTCTACTTGG-CTGAAGACGCCAGGTAATCTTGGAG
** * *
3586554 TCTTCCTTTTTGCCTGAAGACGCCAGATAATCTTGGAG
1 TCTT-CTACTTGGCTGAAGACGCCAGGTAATCTTGGAG
*
3586592 TCTT-TATGGTTGGCTTGAAGACGCCAGGTAATCTTGGAG
1 TCTTCTA--CTTGGC-TGAAGACGCCAGGTAATCTTGGAG
3586631 ACTTTGGCTC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
36 1 0.02
38 35 0.56
39 27 0.43
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (37 bp):
TCTTCTACTTGGCTGAAGACGCCAGGTAATCTTGGAG
Found at i:3586617 original size:39 final size:38
Alignment explanation
Indices: 3586529--3586635 Score: 133
Period size: 39 Copynumber: 2.8 Consensus size: 38
3586519 TCTACATGGA
* ** * *
3586529 CTGAAGACGCCAGGTAAACTTGGAGTCTTCCTTTTTGC
1 CTGAAGACGCCAGGTAATCTTGGAGTCTTTATGTTGGC
*
3586567 CTGAAGACGCCAGATAATCTTGGAGTCTTTATGGTTGGC
1 CTGAAGACGCCAGGTAATCTTGGAGTCTTTAT-GTTGGC
* *
3586606 TTGAAGACGCCAGGTAATCTTGGAGACTTT
1 CTGAAGACGCCAGGTAATCTTGGAGTCTTT
3586636 GGCTCGATAC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 28 0.47
39 31 0.53
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (38 bp):
CTGAAGACGCCAGGTAATCTTGGAGTCTTTATGTTGGC
Found at i:3586778 original size:36 final size:37
Alignment explanation
Indices: 3586734--3586881 Score: 117
Period size: 36 Copynumber: 4.0 Consensus size: 37
3586724 CCATTTGTCT
* *
3586734 CATA-ATATATAATATATATAT-TTTTTCAAATATAA
1 CATATATATATAATATATATATATTATTAAAATATAA
* *
3586769 CATGTATATAT-ATATATATATATTATTAAAATATTA
1 CATATATATATAATATATATATATTATTAAAATATAA
* **
3586805 TATATATATAT-ATATATATATATATATATATGCATATTAA
1 CATATATATATAATATATATATAT-TAT-TA-AAATA-TAA
* * *
3586845 AATAATATATATACTACTCTATATA-TATTAAAATATA
1 CAT-ATATATATAATA-TATATATATTATTAAAATATA
3586882 TATTATATAT
Statistics
Matches: 90, Mismatches: 14, Indels: 15
0.76 0.12 0.13
Matches are distributed among these distances:
35 13 0.14
36 38 0.42
37 3 0.03
38 4 0.04
39 6 0.07
40 6 0.07
41 11 0.12
42 2 0.02
43 7 0.08
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (37 bp):
CATATATATATAATATATATATATTATTAAAATATAA
Found at i:3586890 original size:21 final size:22
Alignment explanation
Indices: 3586864--3586905 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
3586854 TATACTACTC
3586864 TATATATATTAA-AATATATAT
1 TATATATATTAACAATATATAT
3586885 TATATATATTAACTAATATAT
1 TATATATATTAAC-AATATAT
3586906 GTACTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATATATTAACAATATATAT
Found at i:3586950 original size:2 final size:2
Alignment explanation
Indices: 3586773--3586942 Score: 118
Period size: 2 Copynumber: 90.0 Consensus size: 2
3586763 ATATAACATG
*
3586773 TA TA TA TA TA TA TA TA TA T- TA T- TA -A AA TA T- 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
* * *
3586811 TA TA TA TA TA TA TA TA TA TA TA TA TG CA TA T- TA -A AA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3586850 TA TA TA TA CTA CTC TA TA TA TA T- TA -A AA TA TA TA T- 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
* *
3586891 TA T- TA -A CTA -A TA TA TG TA CTA TA TA TA TA TA TA CTA T- TG
1 TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA
3586930 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
3586943 AAATATATGA
Statistics
Matches: 137, Mismatches: 12, Indels: 38
0.73 0.06 0.20
Matches are distributed among these distances:
1 15 0.11
2 113 0.82
3 9 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3587268 original size:2 final size:2
Alignment explanation
Indices: 3587261--3587286 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3587251 TAGCGACCTA
3587261 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
3587287 TCATGGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3590203 original size:19 final size:20
Alignment explanation
Indices: 3590179--3590227 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
3590169 TCTCCTTTAT
3590179 TTATTTTATTTCATT-CTTA
1 TTATTTTATTTCATTACTTA
3590198 TTA-TTTATTTTCATTACTTA
1 TTATTTTA-TTTCATTACTTA
3590218 -TATTATTATT
1 TTATT-TTATT
3590228 CCCTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 7 0.27
21 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTATTTCATTACTTA
Found at i:3595495 original size:19 final size:20
Alignment explanation
Indices: 3595471--3595519 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
3595461 TATCCTTTAT
3595471 TTATTTTATTTCATT-CTTA
1 TTATTTTATTTCATTACTTA
3595490 TTA-TTTATTTTCATTACTTA
1 TTATTTTA-TTTCATTACTTA
3595510 -TATTATTATT
1 TTATT-TTATT
3595520 CCCTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 7 0.27
21 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTATTTCATTACTTA
Found at i:3596182 original size:22 final size:23
Alignment explanation
Indices: 3596154--3596200 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
3596144 ATTTAGAAGT
3596154 TGGTGAT-AATATAGGTG-TGATA
1 TGGTGATGAATATA-GTGATGATA
3596176 TGGTGATGGAATATAGTGATGATA
1 TGGTGAT-GAATATAGTGATGATA
3596200 T
1 T
3596201 AGGCGTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 3 0.14
24 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (23 bp):
TGGTGATGAATATAGTGATGATA
Found at i:3597432 original size:26 final size:25
Alignment explanation
Indices: 3597402--3597450 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3597392 ATAATATAAG
*
3597402 CTAAGTATATGAATTATTATAAAGTA
1 CTAAGAATATGAA-TATTATAAAGTA
* *
3597428 CTAAGAATCTGCATATTATAAAG
1 CTAAGAATATGAATATTATAAAG
3597451 ATGTGAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (25 bp):
CTAAGAATATGAATATTATAAAGTA
Found at i:3599592 original size:17 final size:18
Alignment explanation
Indices: 3599565--3599598 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3599555 TTGATTTAAA
3599565 AGAATATGGTTAGGGTAT
1 AGAATATGGTTAGGGTAT
*
3599583 AGAA-ATGGTTATGGTA
1 AGAATATGGTTAGGGTA
3599599 AAGGTAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (18 bp):
AGAATATGGTTAGGGTAT
Found at i:3599837 original size:23 final size:24
Alignment explanation
Indices: 3599810--3599858 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
3599800 GTATTTGCAA
*
3599810 TTTTGCTTCAT-TTTTTCTTTGCT
1 TTTTGATTCATCTTTTTCTTTGCT
* *
3599833 TTTTGATTCTTCTTTTTCTTTTCT
1 TTTTGATTCATCTTTTTCTTTGCT
3599857 TT
1 TT
3599859 CTTTTGCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTGATTCATCTTTTTCTTTGCT
Found at i:3600344 original size:35 final size:37
Alignment explanation
Indices: 3600298--3600368 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 37
3600288 TTAGAAGTTG
*
3600298 GTGATAATATAGGCGTGAT-ATGGTGATGGA-ATATA
1 GTGATAATATAGGCATGATAATGGTGATGGACATATA
*
3600333 GTGATGATATAGGCATGATAATGGTGATGGACATAT
1 GTGATAATATAGGCATGATAATGGTGATGGACATAT
3600369 TGTATCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 17 0.53
36 11 0.34
37 4 0.12
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.31
Consensus pattern (37 bp):
GTGATAATATAGGCATGATAATGGTGATGGACATATA
Found at i:3608575 original size:22 final size:22
Alignment explanation
Indices: 3608550--3608599 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
3608540 AACTTTCATA
3608550 AGTAAGAGAATTATTAATTATG
1 AGTAAGAGAATTATTAATTATG
3608572 AGTAAGAGAATTATTAATTATG
1 AGTAAGAGAATTATTAATTATG
*
3608594 TGTAAG
1 AGTAAG
3608600 TGAAAGTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (22 bp):
AGTAAGAGAATTATTAATTATG
Found at i:3608885 original size:195 final size:195
Alignment explanation
Indices: 3608572--3608922 Score: 639
Period size: 195 Copynumber: 1.8 Consensus size: 195
3608562 ATTAATTATG
* *
3608572 AGTAAGAGAATTATTAATTATGTGTAAGTGAAAGTTGTACTCCCTATTCTCATGTTTGGGATTAC
1 AGTAAGAGAATTATTAATTATGAGTAAGTGAAAGTTGTACTCCATATTCTCATGTTTGGGATTAC
*
3608637 TAAAAGTTATGTCTTTTGAAGACATATTGTCTTGTATGATCATATCTCTTGGTACCCCAAAAGAT
66 TAAAAGTTATGTCTTTTGAAGACATATTGTCTTGTATGATCATATCTCTTGGTACCCCAAAAGAC
*
3608702 ATATTGATTGGCTCAAAAGTCATGTCTTCAATGTCCATGACCTGAAAAGAGAAGAAACTTTCATA
131 ATATTGATTGGCTCAAAAGCCATGTCTTCAATGTCCATGACCTGAAAAGAGAAGAAACTTTCATA
* *
3608767 AGTAAGAGAATTATTAATTATGAGTAAGTGAAAGTTGTACTCCATGTTCTCATGTTTGGGATTGC
1 AGTAAGAGAATTATTAATTATGAGTAAGTGAAAGTTGTACTCCATATTCTCATGTTTGGGATTAC
3608832 TAAAAGTTATGTCTTTTGAAGACATATTGTCTTGTATGATCATATCTCTTGGTACCCCAAAAGAC
66 TAAAAGTTATGTCTTTTGAAGACATATTGTCTTGTATGATCATATCTCTTGGTACCCCAAAAGAC
*
3608897 ATATTGTTTGGCTCAAAAGCCATGTC
131 ATATTGATTGGCTCAAAAGCCATGTC
3608923 CATTGAATCA
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
195 149 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (195 bp):
AGTAAGAGAATTATTAATTATGAGTAAGTGAAAGTTGTACTCCATATTCTCATGTTTGGGATTAC
TAAAAGTTATGTCTTTTGAAGACATATTGTCTTGTATGATCATATCTCTTGGTACCCCAAAAGAC
ATATTGATTGGCTCAAAAGCCATGTCTTCAATGTCCATGACCTGAAAAGAGAAGAAACTTTCATA
Found at i:3619231 original size:27 final size:27
Alignment explanation
Indices: 3619173--3619236 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
3619163 GAGGGAATGG
** *
3619173 TGGTGGGGAATTGACTTCTTTTTCTCA
1 TGGTGGGGGTTTGACTTCTTCTTCTCA
*
3619200 AGGTGGGGGTTTGACTTCTTCTTCTTC-
1 TGGTGGGGGTTTGACTTCTTCTTC-TCA
3619227 TGGTGGGGGT
1 TGGTGGGGGT
3619237 CTATATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.09, C:0.14, G:0.34, T:0.42
Consensus pattern (27 bp):
TGGTGGGGGTTTGACTTCTTCTTCTCA
Done.