Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 24 of 444
Found at i:6281915 original size:3 final size:3
Alignment explanation
Indices: 6281804--6281897 Score: 70
Period size: 3 Copynumber: 31.7 Consensus size: 3
6281794 TTTTTGTAGC
* * *
6281804 ATT ATTT ATT ATT A-T ATT AACT GTT ATT ATT ATT ATT ATT ATT ATC
1 ATT A-TT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
6281850 A-T ATCC ATT AAT A-T GTT ATT ATT -TT ATC ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6281893 ATT AT
1 ATT AT
6281898 ATACATTCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
2 6 0.08
3 58 0.82
4 7 0.10
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:6282297 original size:13 final size:13
Alignment explanation
Indices: 6282279--6282303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6282269 ATTATGTATG
6282279 TATATATTTCTTT
1 TATATATTTCTTT
6282292 TATATATTTCTT
1 TATATATTTCTT
6282304 ATTACTTCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATATTTCTTT
Found at i:6294369 original size:27 final size:27
Alignment explanation
Indices: 6294317--6294406 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 27
6294307 GTGACAGAGT
6294317 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
6294346 CACCAGAACAGATATATGTGGCAG-GCC
1 CACCAGAACAGATATTTGTGGCAGTG-C
6294373 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
6294401 CACCAG
1 CACCAG
6294407 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.02
27 23 0.42
28 23 0.42
29 8 0.15
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:6294544 original size:28 final size:28
Alignment explanation
Indices: 6294507--6294576 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
6294497 AGTCAAAATT
* *
6294507 AACCCTAGGGGTATAAAGGTCATTTTGC
1 AACCATAGGGGTATAAAGGTAATTTTGC
*
6294535 ATA-CATAGGGGTATAATGGTAATTTTGC
1 A-ACCATAGGGGTATAAAGGTAATTTTGC
6294563 AACCATAGGGGTAT
1 AACCATAGGGGTAT
6294577 TCTAGTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.95
29 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
AACCATAGGGGTATAAAGGTAATTTTGC
Found at i:6301790 original size:27 final size:26
Alignment explanation
Indices: 6301760--6301821 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
6301750 AGATAATTAA
6301760 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
6301787 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
6301814 AATAAAAT
1 AATAAAAT
6301822 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:6302417 original size:12 final size:12
Alignment explanation
Indices: 6302395--6302427 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
6302385 TACTTATTTT
6302395 TTTTCTTTTTCTC
1 TTTT-TTTTTCTC
6302408 TTTTTTTTTCTC
1 TTTTTTTTTCTC
6302420 TTTTTTTT
1 TTTTTTTT
6302428 ATTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:6303578 original size:43 final size:41
Alignment explanation
Indices: 6303531--6303662 Score: 174
Period size: 42 Copynumber: 3.1 Consensus size: 41
6303521 AAAAGGGGTA
* * * *
6303531 TTTGGCTGCAGGTTTTGGGGATTCTAGGGCTGGAATAGGACTG
1 TTTGGCTGCAGGATAT-GGCATTCT-GGGCTGGAATAGAACTG
6303574 TTTGGCTGCAGAGATATGGCATTCTGGGCTGGAATAGAACTG
1 TTTGGCTGCAG-GATATGGCATTCTGGGCTGGAATAGAACTG
* *
6303616 TTTGGCAGCAGGGATATGGCATTTTGGGCTGGAATAGAACTG
1 TTTGGCTGCA-GGATATGGCATTCTGGGCTGGAATAGAACTG
6303658 TTTGG
1 TTTGG
6303663 TACCATGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
42 59 0.73
43 19 0.23
44 3 0.04
ACGTcount: A:0.20, C:0.12, G:0.36, T:0.31
Consensus pattern (41 bp):
TTTGGCTGCAGGATATGGCATTCTGGGCTGGAATAGAACTG
Found at i:6303616 original size:42 final size:42
Alignment explanation
Indices: 6303551--6303662 Score: 179
Period size: 42 Copynumber: 2.6 Consensus size: 42
6303541 GGTTTTGGGG
* *
6303551 ATTCTAGGGCTGGAATAGGACTGTTTGGCTGCAGAGATATGGC
1 ATTCT-GGGCTGGAATAGAACTGTTTGGCAGCAGAGATATGGC
*
6303594 ATTCTGGGCTGGAATAGAACTGTTTGGCAGCAGGGATATGGC
1 ATTCTGGGCTGGAATAGAACTGTTTGGCAGCAGAGATATGGC
*
6303636 ATTTTGGGCTGGAATAGAACTGTTTGG
1 ATTCTGGGCTGGAATAGAACTGTTTGG
6303663 TACCATGGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 60 0.92
43 5 0.08
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.29
Consensus pattern (42 bp):
ATTCTGGGCTGGAATAGAACTGTTTGGCAGCAGAGATATGGC
Found at i:6303774 original size:5 final size:5
Alignment explanation
Indices: 6303764--6303855 Score: 60
Period size: 5 Copynumber: 17.0 Consensus size: 5
6303754 TAATATTAAC
*
6303764 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA TAATAAA TAATAA -ATAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA T-A-AAA TAA-AA TAAAA
* * * *
6303812 TAAAA GAAAA GAAAG GAAAA TAATAAA TAAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-A-AAA T-AAAA T-AAAA TAAAA
6303856 AGAAAGATTG
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
4 2 0.03
5 42 0.57
6 20 0.27
7 10 0.14
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:6303814 original size:33 final size:32
Alignment explanation
Indices: 6303777--6303860 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 32
6303767 AATAAAATAA
*
6303777 AATAAAATAAAAATAAAATAATAAATAATAAAT
1 AATAAAATAAAAATAAAAGAA-AAATAATAAAT
* * *
6303810 AATAAAA-GAAAA-GAAAGGAAAATAATAAAT
1 AATAAAATAAAAATAAAAGAAAAATAATAAAT
6303840 -A-AAAATAAAAATAAAAAGAAA
1 AATAAAATAAAAAT-AAAAGAAA
6303861 GATTGGGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
28 4 0.10
29 5 0.12
30 11 0.27
31 10 0.24
32 4 0.10
33 7 0.17
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (32 bp):
AATAAAATAAAAATAAAAGAAAAATAATAAAT
Found at i:6303841 original size:7 final size:6
Alignment explanation
Indices: 6303765--6303856 Score: 73
Period size: 7 Copynumber: 14.7 Consensus size: 6
6303755 AATATTAACT
6303765 AAAAT- AAAAT- AAAAT- AAAATA AAAATAA AATAATA AATAATA AATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AA-AATA AA-AATA AA-AATA
* **
6303814 AAAGAAA AGAAAGG AAAATA ATAAATA AAAATA AAAATA AAAA
1 AAA-ATA A-AAATA AAAATA A-AAATA AAAATA AAAATA AAAA
6303857 GAAAGATTGG
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
5 15 0.20
6 25 0.33
7 31 0.41
8 5 0.07
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:6306510 original size:33 final size:33
Alignment explanation
Indices: 6306466--6306533 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
6306456 CGCTGACAGC
6306466 TTTTTCCTTAGTTTTGTTTCCTTTCAATTAGCT
1 TTTTTCCTTAGTTTTGTTTCCTTTCAATTAGCT
* *
6306499 TTTTTCTTTAGTTTTGTTTCCTTTCGATTAGCT
1 TTTTTCCTTAGTTTTGTTTCCTTTCAATTAGCT
6306532 TT
1 TT
6306534 CGCAGTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.10, C:0.16, G:0.10, T:0.63
Consensus pattern (33 bp):
TTTTTCCTTAGTTTTGTTTCCTTTCAATTAGCT
Found at i:6307679 original size:27 final size:26
Alignment explanation
Indices: 6307649--6307710 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
6307639 AGATAATTAA
6307649 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
6307676 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
6307703 AATAAAAT
1 AATAAAAT
6307711 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:6313851 original size:29 final size:29
Alignment explanation
Indices: 6313807--6313889 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
6313797 GATTGAATTA
*
6313807 AAATTAAATTTTTATGTATATAATTATATC
1 AAATTAAA-ATTTATGTATATAATTATATC
* * * *
6313837 AACTTAAAATTTATGTACAATATTATATATT
1 AAATTAAAATTTATGTA-TATAAT-TATATC
6313868 AAATTAAAATTTA--TATATAATT
1 AAATTAAAATTTATGTATATAATT
6313890 TGAGATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
27 1 0.02
28 4 0.09
29 10 0.23
30 11 0.26
31 17 0.40
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (29 bp):
AAATTAAAATTTATGTATATAATTATATC
Found at i:6314122 original size:40 final size:40
Alignment explanation
Indices: 6314040--6314185 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 40
6314030 CGCGGCGTTT
** * * *
6314040 TTAGCGGCGTTTGAACAAAAAACGCCGCTAGAGTTC-AGCA
1 TTAGCGGCGTTTCTA-AAAAAACGCCACTATAGATCGAGCA
* *
6314080 TTAACGGCGTTTCTAAAAAAACGCCACTATAGATAG-GACA
1 TTAGCGGCGTTTCTAAAAAAACGCCACTATAGATCGAG-CA
* ** * **
6314120 TTAGCTGCGTTTCTTTAAAAGCGCTGCTATAGATCGAGCA
1 TTAGCGGCGTTTCTAAAAAAACGCCACTATAGATCGAGCA
6314160 TTAGCGGCGCTTT-TATAAAAAACGCC
1 TTAGCGGCG-TTTCTA-AAAAAACGCC
6314186 GCAAATGCTC
Statistics
Matches: 81, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
39 17 0.21
40 53 0.65
41 11 0.14
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCGGCGTTTCTAAAAAAACGCCACTATAGATCGAGCA
Found at i:6314301 original size:39 final size:41
Alignment explanation
Indices: 6314257--6314350 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 41
6314247 CCCTTAGTTT
6314257 CATTAGCGGCGTTTTCA-AA-AAACGCCACTA-AAGGTTGAG
1 CATTAGCGGCGTTTTCATAACAAACGCCACTACAA-GTTGAG
* * *
6314296 TATTAGCGGC-TTTTTATAACAAACGCCGCTACAAGTTGAG
1 CATTAGCGGCGTTTTCATAACAAACGCCACTACAAGTTGAG
* *
6314336 CACTAACGGCGTTTT
1 CATTAGCGGCGTTTT
6314351 TTGAAAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
38 5 0.11
39 11 0.24
40 23 0.51
41 6 0.13
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
CATTAGCGGCGTTTTCATAACAAACGCCACTACAAGTTGAG
Found at i:6314906 original size:21 final size:21
Alignment explanation
Indices: 6314865--6314907 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6314855 GGGATTATGG
* *
6314865 GTTTAGGGGTTGTGGTTTAAA
1 GTTTAGGGATTGTGGTGTAAA
6314886 GTTTAGGGATTAGTGG-GTAAA
1 GTTTAGGGATT-GTGGTGTAAA
6314907 G
1 G
6314908 GTTAAGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
GTTTAGGGATTGTGGTGTAAA
Found at i:6314955 original size:29 final size:28
Alignment explanation
Indices: 6314905--6314970 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
6314895 TTAGTGGGTA
*
6314905 AAGGTTAAGGGTTATAGATTATGGGTTT
1 AAGGTTAAGGGTCATAGATTATGGGTTT
* *
6314933 AAGGATTAAGGGTCATGGGTTATGGGTTT
1 AAGG-TTAAGGGTCATAGATTATGGGTTT
6314962 AATGGTTAA
1 AA-GGTTAA
6314971 AGGGATAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 27 0.82
30 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (28 bp):
AAGGTTAAGGGTCATAGATTATGGGTTT
Found at i:6315023 original size:35 final size:34
Alignment explanation
Indices: 6314960--6315027 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
6314950 GGTTATGGGT
* * *
6314960 TTAATGGTTAAAGGGATAGGGGTTAGGGGGTTTAA
1 TTAATGGTTAAAGGGACAGGGG-AAAGGGGTTTAA
* *
6314995 TTAATGGTTAAGGGGACATGGGAAAGGGGTTTA
1 TTAATGGTTAAAGGGACAGGGGAAAGGGGTTTA
6315028 TGGTTTATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.29, C:0.01, G:0.40, T:0.29
Consensus pattern (34 bp):
TTAATGGTTAAAGGGACAGGGGAAAGGGGTTTAA
Found at i:6315032 original size:7 final size:7
Alignment explanation
Indices: 6315022--6315156 Score: 60
Period size: 7 Copynumber: 18.7 Consensus size: 7
6315012 ATGGGAAAGG
6315022 GGTTTAT
1 GGTTTAT
6315029 GGTTTAT
1 GGTTTAT
*
6315036 GAGTTAAT
1 G-GTTTAT
* *
6315044 GTTTTAA
1 GGTTTAT
6315051 GGTTTA-
1 GGTTTAT
6315057 GAGATTT-T
1 G-G-TTTAT
6315065 GGTTTAT
1 GGTTTAT
*
6315072 GGTTTAA
1 GGTTTAT
* **
6315079 GGGTTGG
1 GGTTTAT
*
6315086 GGTTTAA
1 GGTTTAT
*
6315093 GGTTTAA
1 GGTTTAT
*
6315100 GGTTTAA
1 GGTTTAT
*
6315107 GGGTTAGT
1 GGTTTA-T
* *
6315115 GGATTAA
1 GGTTTAT
*
6315122 GGTTTAG
1 GGTTTAT
6315129 GGTTTTAT
1 GG-TTTAT
6315137 GGTTTA-
1 GGTTTAT
6315143 GGTATTTAT
1 GG--TTTAT
6315152 GGTTT
1 GGTTT
6315157 GGGGTTTAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
6 6 0.06
7 66 0.67
8 25 0.25
9 2 0.02
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:6315140 original size:15 final size:15
Alignment explanation
Indices: 6315122--6315163 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
6315112 AGTGGATTAA
6315122 GGTTTAGGGTTTTAT
1 GGTTTAGGGTTTTAT
6315137 GGTTTA-GGTATTTAT
1 GGTTTAGGGT-TTTAT
*
6315152 GGTTTGGGGTTT
1 GGTTTAGGGTTT
6315164 AAAGGGTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (15 bp):
GGTTTAGGGTTTTAT
Found at i:6315145 original size:21 final size:21
Alignment explanation
Indices: 6315065--6315142 Score: 86
Period size: 21 Copynumber: 3.6 Consensus size: 21
6315055 TAGAGATTTT
* *
6315065 GGTTTATGGTTTAAGGGTTGG
1 GGTTTATGGTTTAAGGTTTAG
*
6315086 GGTTTAAGGTTTAAGGTTTAAG
1 GGTTTATGGTTTAAGGTTT-AG
*
6315108 GG-TTAGTGGATTAAGGTTTAG
1 GGTTTA-TGGTTTAAGGTTTAG
6315129 GGTTTTATGGTTTA
1 GG-TTTATGGTTTA
6315143 GGTATTTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 24 0.51
22 20 0.43
23 3 0.06
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (21 bp):
GGTTTATGGTTTAAGGTTTAG
Found at i:6315465 original size:26 final size:27
Alignment explanation
Indices: 6315392--6315466 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
6315382 AATAATTTAA
*
6315392 AAATTTAAAGATTTCAAA-TTTAGAAT
1 AAATTTCAAGATTTCAAATTTTAGAAT
6315418 AAATTTCAAGATTTCAAATTTTA-AAT
1 AAATTTCAAGATTTCAAATTTTAGAAT
* *
6315444 AATTTTCAATATTTCAAATTTTA
1 AAATTTCAAGATTTCAAATTTTA
6315467 TCTAATTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 41 0.91
27 4 0.09
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (27 bp):
AAATTTCAAGATTTCAAATTTTAGAAT
Found at i:6316284 original size:21 final size:21
Alignment explanation
Indices: 6316260--6316300 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6316250 TTTTGAGGCT
6316260 ATTT-GGGTTGTTGAAAATGTG
1 ATTTAGGGTT-TTGAAAATGTG
*
6316281 ATTTAGGGTTTTGAACATGT
1 ATTTAGGGTTTTGAAAATGT
6316301 AACTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (21 bp):
ATTTAGGGTTTTGAAAATGTG
Found at i:6318689 original size:240 final size:241
Alignment explanation
Indices: 6318042--6318926 Score: 1637
Period size: 241 Copynumber: 3.7 Consensus size: 241
6318032 AGTTATAAGC
* * *
6318042 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATAT
*
6318107 AGGTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
* *
6318172 AACAATGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATTGAGCTT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTT
*
6318237 ATTTACTATTGAATATTTATTACTATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
*
6318283 AATTACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTGTAT
1 AATTACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATAT
*
6318348 AGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
* *
6318413 AACAACGCCACATATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTTTATCGAGCTT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTT
6318478 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
6318524 AATTACAACAATAGCTTACCTTCTCTCCAACC-TTTTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATAT
6318588 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
*
6318653 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTT
6318718 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
6318764 AATTACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATAT
*
6318829 AGGCTGGAAACCTGACGGGTTGTCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
*
6318894 AACAACGCCACGTACGATGAATCTTAAAAAATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATT
6318927 ACTATATTCA
Statistics
Matches: 625, Mismatches: 18, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
240 235 0.38
241 390 0.62
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
AATTACAACAATAGCTTACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATAT
AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTT
ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
Found at i:6319069 original size:9 final size:9
Alignment explanation
Indices: 6319046--6319137 Score: 103
Period size: 9 Copynumber: 10.2 Consensus size: 9
6319036 ATTGATCATT
*
6319046 ACTTAAATA
1 ACTTACATA
*
6319055 AATTACATA
1 ACTTACATA
6319064 ACTTACATA
1 ACTTACATA
* * *
6319073 ACTCATACA
1 ACTTACATA
6319082 ACTTACATA
1 ACTTACATA
*
6319091 ACTCACATA
1 ACTTACATA
6319100 ACTTACATA
1 ACTTACATA
*
6319109 ATTTACATA
1 ACTTACATA
*
6319118 ACTCACATA
1 ACTTACATA
*
6319127 ACGTACATA
1 ACTTACATA
6319136 AC
1 AC
6319138 AACTTATGGA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (9 bp):
ACTTACATA
Found at i:6323715 original size:33 final size:33
Alignment explanation
Indices: 6323673--6323754 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 33
6323663 TTAGAATTAA
*
6323673 TGTTTTTGGTTGCATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
6323706 TGTTTTTGGTTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
6323737 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
6323755 AATGCAGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.15, C:0.06, G:0.20, T:0.60
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
Found at i:6323882 original size:43 final size:43
Alignment explanation
Indices: 6323830--6324029 Score: 267
Period size: 43 Copynumber: 4.7 Consensus size: 43
6323820 GTGGGAAAAG
* * * *
6323830 CGCCACTAAAAGCCATGACTTTTAGCGGCGCTTTTACCAAAAA
1 CGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAA
* * *
6323873 CGCCGCTAAAGGACGTGGCTTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAA
* * *
6323916 CGCCGCTAAAGGACGTGACTTTTAGCGACGC-TTTCCCACAAA
1 CGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAA
* * * *
6323958 CGCCGCTAAAAGCTGTAACTTTTAGCAGCGCTTTTCACACAAA
1 CGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAA
6324001 CGCCGCTAAAAGCCGTGACTTTTAGCGGC
1 CGCCGCTAAAAGCCGTGACTTTTAGCGGC
6324030 ATTTTTTTTC
Statistics
Matches: 137, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 36 0.26
43 101 0.74
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAA
Found at i:6323989 original size:85 final size:86
Alignment explanation
Indices: 6323830--6324027 Score: 256
Period size: 85 Copynumber: 2.3 Consensus size: 86
6323820 GTGGGAAAAG
* * * * * **
6323830 CGCCACTAAAAGCCATGACTTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAAGGACGTGGCTTT
1 CGCCGCTAAAAGACGTGACTTTTAGCGACGCTTTTACCAAAAACGCCGCTAAAAGACGTAACTTT
* *
6323895 TAGCGGCGCTTTTCCCACAAA
66 TAGCAGCGCTTTTCACACAAA
* * *
6323916 CGCCGCTAAAGGACGTGACTTTTAGCGACGC-TTTCCCACAAACGCCGCTAAAAG-CTGTAACTT
1 CGCCGCTAAAAGACGTGACTTTTAGCGACGCTTTTACCAAAAACGCCGCTAAAAGAC-GTAACTT
6323979 TTAGCAGCGCTTTTCACACAAA
65 TTAGCAGCGCTTTTCACACAAA
*
6324001 CGCCGCTAAAAGCCGTGACTTTTAGCG
1 CGCCGCTAAAAGACGTGACTTTTAGCG
6324028 GCATTTTTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 70 0.72
86 26 0.27
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (86 bp):
CGCCGCTAAAAGACGTGACTTTTAGCGACGCTTTTACCAAAAACGCCGCTAAAAGACGTAACTTT
TAGCAGCGCTTTTCACACAAA
Found at i:6324944 original size:68 final size:68
Alignment explanation
Indices: 6324862--6325026 Score: 179
Period size: 68 Copynumber: 2.4 Consensus size: 68
6324852 TTTGTTATTG
* * * * *
6324862 TATTGATTTGTTATAAACATATTAATTG-CTACCGCATTGATCCATTATAAACATATTATTTGCT
1 TATTGATCTATTATAAGCATATTAATTGTC-ACCGCATTGATACATTAGAAACATATTATTTGCT
6324926 ACAA
65 ACAA
* * * ** **
6324930 TATTGATCTATTATAAGTATATTAAATGTCACCGTATTGATATGTTAGAAGTATATTATTTGCTA
1 TATTGATCTATTATAAGCATATTAATTGTCACCGCATTGATACATTAGAAACATATTATTTGCTA
*
6324995 CTA
66 CAA
* *
6324998 TATCGAACTATTATAAGCATATTAATTGT
1 TATTGATCTATTATAAGCATATTAATTGT
6325027 TATTGTATTG
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
68 78 0.99
69 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (68 bp):
TATTGATCTATTATAAGCATATTAATTGTCACCGCATTGATACATTAGAAACATATTATTTGCTA
CAA
Found at i:6325046 original size:34 final size:34
Alignment explanation
Indices: 6324860--6325052 Score: 154
Period size: 34 Copynumber: 5.7 Consensus size: 34
6324850 TTTTTGTTAT
* * *
6324860 TGTATTGATTTGTTATAAACATATTAATTGCTAC
1 TGTATTGATCTATTATAAGCATATTAATTGCTAC
* * * * *
6324894 CGCATTGATCCATTATAAACATATTATTTGCTAC
1 TGTATTGATCTATTATAAGCATATTAATTGCTAC
** * *
6324928 AATATTGATCTATTATAAGTATATTAAATG-TCAC
1 TGTATTGATCTATTATAAGCATATTAATTGCT-AC
* * * * * *
6324962 CGTATTGATATGTTAGAAGTATATTATTTGCTAC
1 TGTATTGATCTATTATAAGCATATTAATTGCTAC
* * * * *
6324996 TATATCGAACTATTATAAGCATATTAATTGTTAT
1 TGTATTGATCTATTATAAGCATATTAATTGCTAC
*
6325030 TGTATTGATCTGTTATAAGCATA
1 TGTATTGATCTATTATAAGCATA
6325053 CCATATTGCA
Statistics
Matches: 121, Mismatches: 36, Indels: 4
0.75 0.22 0.02
Matches are distributed among these distances:
33 1 0.01
34 119 0.98
35 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (34 bp):
TGTATTGATCTATTATAAGCATATTAATTGCTAC
Found at i:6331717 original size:21 final size:21
Alignment explanation
Indices: 6331691--6331731 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6331681 AGACGAGCGA
* *
6331691 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6331712 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6331732 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6351814 original size:19 final size:19
Alignment explanation
Indices: 6351782--6351818 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6351772 ATAATAATAG
6351782 AAAATGAAAAACTAATCTA
1 AAAATGAAAAACTAATCTA
6351801 AAAAT-AAAACACTAATCT
1 AAAATGAAAA-ACTAATCT
6351819 TTTTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.62, C:0.14, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAATGAAAAACTAATCTA
Found at i:6352946 original size:16 final size:16
Alignment explanation
Indices: 6352922--6352959 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
6352912 CCATGCTTAT
*
6352922 ATAATAGTATTTAAAA
1 ATAAAAGTATTTAAAA
6352938 ATAAAAGTATTTAAAA
1 ATAAAAGTATTTAAAA
6352954 ATAAAA
1 ATAAAA
6352960 TTTTCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
ATAAAAGTATTTAAAA
Found at i:6358393 original size:24 final size:24
Alignment explanation
Indices: 6358365--6358412 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6358355 TTGAGTGTTT
6358365 GAAATTACTTCATATAATAATGAA
1 GAAATTACTTCATATAATAATGAA
6358389 GAAATTACTTCATATAATAATGAA
1 GAAATTACTTCATATAATAATGAA
6358413 TCAGACATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (24 bp):
GAAATTACTTCATATAATAATGAA
Found at i:6360245 original size:21 final size:21
Alignment explanation
Indices: 6360219--6360269 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
6360209 GTCTCAGGAC
6360219 CACACGGGCGTGTTCCTTGAT
1 CACACGGGCGTGTTCCTTGAT
*
6360240 CACACGGGTGTGTTCCTTGAT
1 CACACGGGCGTGTTCCTTGAT
6360261 CACACGGGC
1 CACACGGGC
6360270 ATGTGACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTGTTCCTTGAT
Found at i:6362085 original size:56 final size:55
Alignment explanation
Indices: 6362014--6362132 Score: 179
Period size: 56 Copynumber: 2.2 Consensus size: 55
6362004 ATTTTACAAC
*
6362014 TGTTTTTATTATGTTTTAAAGTTTAGA-TTATAATTTTATTTTGTAGTTATTAACTT
1 TGTTTTTATTATGTTTTAAAGTTTAGAGTT-TAATTTTATTTTATAGTTATTAA-TT
* *
6362070 TGTTTTTATTGTGTTTTAAAGTTTATAGTTTAATTTTATTTTATAGTTATTAATT
1 TGTTTTTATTATGTTTTAAAGTTTAGAGTTTAATTTTATTTTATAGTTATTAATT
6362125 T-TTTTTAT
1 TGTTTTTAT
6362133 CTTTTAAGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
54 7 0.12
55 3 0.05
56 47 0.80
57 2 0.03
ACGTcount: A:0.25, C:0.01, G:0.10, T:0.64
Consensus pattern (55 bp):
TGTTTTTATTATGTTTTAAAGTTTAGAGTTTAATTTTATTTTATAGTTATTAATT
Found at i:6362114 original size:18 final size:19
Alignment explanation
Indices: 6362091--6362132 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
6362081 TGTTTTAAAG
6362091 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTT-T
6362109 TTTATAGTTATTAATTTTT
1 TTTATAGTTATTAATTTTT
6362128 TTTAT
1 TTTAT
6362133 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATAGTTATTAATTTTT
Found at i:6371089 original size:26 final size:25
Alignment explanation
Indices: 6371060--6371260 Score: 73
Period size: 26 Copynumber: 8.1 Consensus size: 25
6371050 CTATGTGTTC
6371060 TTTTAAATTGTTATATATATTATTTA
1 TTTTAAATTGTTAT-TATATTATTTA
* *
6371086 TTTTAAGATTG-CATTAT-TT-TAT-
1 TTTTAA-ATTGTTATTATATTATTTA
* * *
6371108 TTTTAAATTACTT-TATGTATTAATTA
1 TTTTAAATT-GTTAT-TATATTATTTA
* * *
6371134 TTTTAGATTG-TATTATACTATTCA
1 TTTTAAATTGTTATTATATTATTTA
* * * *
6371158 CTTTAAATTGTTTTTTATAATATCTA
1 TTTTAAATTG-TTATTATATTATTTA
** * *
6371184 TTTTAAACTCATTTTTATGTATTACTTA
1 TTTTAAA-TTGTTATTA--TATTATTTA
*
6371212 -TTTAAA--ATTATT-TCATTATTTA
1 TTTTAAATTGTTATTAT-ATTATTTA
* *
6371234 TTTTAAATGGTT-TTATGTTATTTA
1 TTTTAAATTGTTATTATATTATTTA
6371258 TTT
1 TTT
6371261 CGTTCTCTTG
Statistics
Matches: 128, Mismatches: 29, Indels: 38
0.66 0.15 0.19
Matches are distributed among these distances:
21 4 0.03
22 14 0.11
23 10 0.08
24 37 0.29
25 8 0.06
26 38 0.30
27 11 0.09
28 6 0.05
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (25 bp):
TTTTAAATTGTTATTATATTATTTA
Found at i:6371123 original size:21 final size:21
Alignment explanation
Indices: 6371078--6371123 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
6371068 TGTTATATAT
*
6371078 ATTA-TTTATTTTAAGATTGC
1 ATTATTTTATTTTAAGATTAC
6371098 ATTATTTTATTTTTAA-ATTAC
1 ATTATTTTA-TTTTAAGATTAC
*
6371119 TTTAT
1 ATTAT
6371124 GTATTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTATTTTATTTTAAGATTAC
Found at i:6373413 original size:21 final size:21
Alignment explanation
Indices: 6373387--6373426 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6373377 ACACTTCAAG
*
6373387 TGTGTTTAGATGAATATTTAA
1 TGTGTTTAGAGGAATATTTAA
*
6373408 TGTGTTTGGAGGAATATTT
1 TGTGTTTAGAGGAATATTT
6373427 GTTATGATTG
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:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
TGTGTTTAGAGGAATATTTAA
Found at i:6374174 original size:16 final size:17
Alignment explanation
Indices: 6374143--6374176 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6374133 TCAAGCCTAA
*
6374143 TATTTTAAATATTTTTT
1 TATTTTAAATAATTTTT
6374160 TATTTT-AATAATTTTT
1 TATTTTAAATAATTTTT
6374176 T
1 T
6374177 TAGTTATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTAAATAATTTTT
Found at i:6374194 original size:19 final size:17
Alignment explanation
Indices: 6374143--6374178 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6374133 TCAAGCCTAA
6374143 TATTTTAA-ATATTTTTT
1 TATTTTAATA-ATTTTTT
6374160 TATTTTAATAATTTTTT
1 TATTTTAATAATTTTTT
6374177 TA
1 TA
6374179 GTTATTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTAATAATTTTTT
Found at i:6374603 original size:26 final size:26
Alignment explanation
Indices: 6374574--6374683 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
6374564 TGACACAAAT
*
6374574 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6374600 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6374626 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6374652 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6374678 TGATAA
1 TGATAA
6374684 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6376342 original size:27 final size:27
Alignment explanation
Indices: 6376301--6376467 Score: 237
Period size: 27 Copynumber: 6.2 Consensus size: 27
6376291 GAGGAAGCGT
*
6376301 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
6376328 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
6376355 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
6376382 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
6376409 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
6376437 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
6376463 TCTGG
1 TCTGG
6376468 CAGCCATGCT
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
26 5 0.04
27 109 0.84
28 15 0.12
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:6377938 original size:8 final size:8
Alignment explanation
Indices: 6377925--6377961 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
6377915 GATTTTTGAA
6377925 TAATTTAT
1 TAATTTAT
6377933 TAATTTAT
1 TAATTTAT
6377941 TAATTTAT
1 TAATTTAT
*
6377949 TAAATTTCT
1 T-AATTTAT
6377958 TAAT
1 TAAT
6377962 AATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
TAATTTAT
Found at i:6377946 original size:16 final size:17
Alignment explanation
Indices: 6377925--6377961 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6377915 GATTTTTGAA
6377925 TAATTTATT-AATTTAT
1 TAATTTATTAAATTTAT
*
6377941 TAATTTATTAAATTTCT
1 TAATTTATTAAATTTAT
6377958 TAAT
1 TAAT
6377962 AATTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTTATTAAATTTAT
Found at i:6379814 original size:25 final size:26
Alignment explanation
Indices: 6379775--6379881 Score: 175
Period size: 25 Copynumber: 4.2 Consensus size: 26
6379765 TGATACAAAT
*
6379775 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
6379801 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
6379826 TGATAAT-GGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
6379850 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
6379876 TGATAA
1 TGATAA
6379882 GAATTTCATG
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 11 0.14
25 50 0.64
26 17 0.22
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:6388652 original size:3 final size:3
Alignment explanation
Indices: 6388644--6388669 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6388634 ACTTTATTTT
6388644 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6388670 CTACTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6394984 original size:13 final size:15
Alignment explanation
Indices: 6394953--6394982 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6394943 TTAGGAAACG
6394953 TACATAAAAAATATA
1 TACATAAAAAATATA
6394968 TACATAAAAAATATA
1 TACATAAAAAATATA
6394983 CAACAATAAT
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:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:6395184 original size:28 final size:29
Alignment explanation
Indices: 6395128--6395184 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
6395118 ACACAATATG
* *
6395128 GTATTTAAAATATATATATATATATAATA
1 GTATTTAAAATATATACATATAGATAATA
6395157 GTATTTAAGAATATATACATA-AGA-AATA
1 GTATTTAA-AATATATACATATAGATAATA
6395185 TATAACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (29 bp):
GTATTTAAAATATATACATATAGATAATA
Found at i:6395224 original size:38 final size:39
Alignment explanation
Indices: 6395139--6395224 Score: 104
Period size: 38 Copynumber: 2.2 Consensus size: 39
6395129 TATTTAAAAT
* *
6395139 ATATATATATATATAATAGTATTTAAGAATATATACATA
1 ATATATATATATATAATAGCATTTAAAAATATATACATA
* * *
6395178 AGAAATATATA-ACTAATGGCA-TTAAAAATATATACATA
1 ATATATATATATA-TAATAGCATTTAAAAATATATACATA
6395216 ATATATATA
1 ATATATATA
6395225 AAATACCTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
38 24 0.62
39 15 0.38
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (39 bp):
ATATATATATATATAATAGCATTTAAAAATATATACATA
Found at i:6395736 original size:27 final size:27
Alignment explanation
Indices: 6395706--6395780 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
6395696 GGTTTCTTGG
6395706 TTTTTTTTGGGGGTTAGGTTTTTTCTT
1 TTTTTTTTGGGGGTTAGGTTTTTTCTT
6395733 TTTTTTTTGGGGGTTAGGTTTTTTCTT
1 TTTTTTTTGGGGGTTAGGTTTTTTCTT
6395760 TTTTTTTT---GGTTAGGTTTTTT
1 TTTTTTTTGGGGGTTAGGTTTTTT
6395781 TTTAGGGGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
24 13 0.27
27 35 0.73
ACGTcount: A:0.04, C:0.03, G:0.24, T:0.69
Consensus pattern (27 bp):
TTTTTTTTGGGGGTTAGGTTTTTTCTT
Found at i:6396904 original size:78 final size:80
Alignment explanation
Indices: 6396732--6397110 Score: 330
Period size: 90 Copynumber: 4.7 Consensus size: 80
6396722 ATGTGACCCG
* * * *
6396732 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATGCCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAAAATGCCT
* * *
6396797 CAGTGTGTGATCTGA
66 CAGTGCGTGAACTCA
*
6396812 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGATAGAAATTGAAAATA-G-C
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TGAAAGATAGAAATTGAAAAAATGCC
6396874 TCAGTGCGTGAAC-CA
65 TCAGTGCGTGAACTCA
* **
6396889 AGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTG--AAA--AAA-
* * * *
6396954 TGAAAATACCTCAGCGTGTGACCT-G
61 TG------CCTCAGTGCGTGAACTCA
* * * * * * *
6396979 AGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGACA-ACAGAAATTG--AAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAAAATGCCT
** *
6397041 CA--GCGTGTCCT-G
66 CAGTGCGTGAACTCA
* *
6397053 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAA
6397111 TACCTCAGCA
Statistics
Matches: 250, Mismatches: 30, Indels: 41
0.78 0.09 0.13
Matches are distributed among these distances:
74 47 0.19
75 10 0.04
76 5 0.02
77 18 0.07
78 47 0.19
79 38 0.15
80 20 0.08
81 2 0.01
82 1 0.00
83 3 0.01
85 1 0.00
89 9 0.04
90 49 0.20
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (80 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAAAATGCCT
CAGTGCGTGAACTCA
Found at i:6396924 original size:245 final size:238
Alignment explanation
Indices: 6396562--6397181 Score: 728
Period size: 247 Copynumber: 2.6 Consensus size: 238
6396552 AGAAATTAAA
* *
6396562 AAGCTCAACTCACATCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAACAAGAATTGAAAATA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG--AAAAAAA-GA-AATTGAAAATA
* * *
6396627 GCTCAGTACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACA-AAA
61 GCTCAGTGCGTGAACCAAGGCTCAACTAACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAA
** *
6396691 TTTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAAT
126 -TTGAAAAAC-GAAATTGAAAATACCTCAG-CATGTGACCCGAGGCTCAACTCACATCTCACAAT
** * * * * *
6396755 GTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATGCCTCAGTGTGTGATCTG
188 ACGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCAGCGTGT--CCTG
* *
6396811 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGATAGAAATTGAAAATAGCTC
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TGAAAAAAAGAAATTGAAAATAGCTC
* * *
6396876 AGTGCGTGAACCAAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAAT
65 AGTGCGTGAACCAAGGCTCAACTAACTTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAAT
* * * *
6396941 TGAAAAACGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGA
127 TGAAAAACGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACATCTCACAATACGA
* *
6397006 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTG
192 GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
* * *
6397053 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAGAAATTGAAAATAGCTCA
* * ** * *
6397118 --GCATG-TCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
66 GTGCGTGAAC-CAAGGCTCAACTAACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGA
6397180 AA
130 AA
6397182 TTACCTCAGC
Statistics
Matches: 326, Mismatches: 38, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
236 12 0.04
237 8 0.02
238 1 0.00
239 33 0.10
241 24 0.07
242 40 0.12
244 14 0.04
245 56 0.17
246 11 0.03
247 73 0.22
248 19 0.06
249 35 0.11
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (238 bp):
AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAGAAATTGAAAATAGCTCA
GTGCGTGAACCAAGGCTCAACTAACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
AAACGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACATCTCACAATACGAGTTG
ATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:6397083 original size:164 final size:167
Alignment explanation
Indices: 6396788--6397110 Score: 456
Period size: 164 Copynumber: 1.9 Consensus size: 167
6396778 ATAAATTGAA
* * * * *
6396788 AAAATGCCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTCTGA
* * *
6396853 AAGATAGAAATTGAAAATAGCTCAGTGCGTGAACCAAGGCTCAACTTACCTCTCGCAATATGAGT
66 AAGACAGAAATTGAAAATACCTCAG-GCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGT
**
6396918 TGATTTTTTTGAAAGGCAGAAATTGAAAAACGAAATTG
130 TGATTTTTTTGAAAAACAGAAATTGAAAAACGAAATTG
* *
6396956 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTT-TGA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTCTGA
* * * *
6397020 CA-ACAGAAATTGAAATTACCTCA-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 AAGACAGAAATTGAAAATACCTCAGGCGTGAACC-AAGGCTCAACTCACCTCTCGCAATATGAGT
6397082 TGATTTTTTTGAAAAACAGAAATTGAAAA
130 TGATTTTTTTGAAAAACAGAAATTGAAAA
6397111 TACCTCAGCA
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
163 2 0.01
164 60 0.43
166 18 0.13
167 4 0.03
168 54 0.39
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (167 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTCTGA
AAGACAGAAATTGAAAATACCTCAGGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAAACAGAAATTGAAAAACGAAATTG
Found at i:6397134 original size:75 final size:74
Alignment explanation
Indices: 6396944--6397211 Score: 371
Period size: 75 Copynumber: 3.6 Consensus size: 74
6396934 CAGAAATTGA
* * *
6396944 AAAAC-GAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6397008 TGATTTTTTTG
64 TGATTTTTTTG
* *
6397019 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
6397084 ATTTTTTTG
66 ATTTTTTTG
* * * **
6397093 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6397158 GA--ATTTTG
65 GATTTTTTTG
* *
6397166 AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
6397212 TTTTGAACAG
Statistics
Matches: 175, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
72 43 0.25
73 5 0.03
74 41 0.23
75 63 0.36
76 23 0.13
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:6397234 original size:49 final size:49
Alignment explanation
Indices: 6397168--6397263 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
6397158 GAATTTTGAA
* *
6397168 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
6397217 AACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
6397264 CTCGCAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (49 bp):
AACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:6397249 original size:121 final size:121
Alignment explanation
Indices: 6397096--6397335 Score: 401
Period size: 121 Copynumber: 2.0 Consensus size: 121
6397086 TTTTTTGAAA
*
6397096 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
*
6397161 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* *
6397217 AACAGAAATT-AAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGA
* * *
6397281 ATTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGATGCTCAACTTATTT
65 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
6397336 CTCGCAATAT
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
120 4 0.04
121 107 0.96
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (121 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:6397327 original size:72 final size:72
Alignment explanation
Indices: 6397220--6397450 Score: 277
Period size: 72 Copynumber: 3.1 Consensus size: 72
6397210 CATTTTGAAC
*
6397220 AGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
6397285 TGAAAAT
66 TGAAAAT
* *
6397292 AGAAATTGAAATTACCTCAACGTGTCTTGATGCTCAACTTATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA---
6397357 TTTTTGAAAGAT
63 -TTTTGAAA-AT
* * * * * *
6397369 AGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACTTCTCGCAATATGAGCTG-A
1 AGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6397432 TTTTGAAAAAGT
63 TTTTG-AAAA-T
6397444 AGAAATT
1 AGAAATT
6397451 AAAAGGTTCA
Statistics
Matches: 138, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
72 59 0.43
74 6 0.04
75 11 0.08
76 8 0.06
77 20 0.14
78 1 0.01
79 32 0.23
80 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (72 bp):
AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAAT
Found at i:6397504 original size:54 final size:54
Alignment explanation
Indices: 6397404--6397509 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
6397394 GAACCGAGGC
* *
6397404 TCAACTCACTTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
6397458 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
6397510 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:6397625 original size:141 final size:140
Alignment explanation
Indices: 6397360--6397986 Score: 1125
Period size: 140 Copynumber: 4.5 Consensus size: 140
6397350 TGAATTTTTT
* *
6397360 TTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACTTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
6397424 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
6397489 TTGAACAACGTAAA
127 TTGAACAACGTAAA
*
6397503 TTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6397568 CTGATTTTGAAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTG
66 CTGATTTTG-AAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTG
6397633 AACAACGTAAA
130 AACAACGTAAA
6397644 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6397709 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
6397774 ACAACGTAAA
131 ACAACGTAAA
*
6397784 TTGAAAACAGAAATTGAAAATACC-CAGTGTGA-CTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6397847 CTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
6397912 ACAACGTAAA
131 ACAACGTAAA
6397922 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
6397987 TTGAAATTAA
Statistics
Matches: 471, Mismatches: 9, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
138 128 0.27
139 17 0.04
140 160 0.34
141 138 0.29
142 22 0.05
143 6 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:6397785 original size:54 final size:54
Alignment explanation
Indices: 6397685--6397790 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
6397675 GACCTGAGGC
*
6397685 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
6397739 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
6397791 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:6397923 original size:54 final size:54
Alignment explanation
Indices: 6397823--6397928 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
6397813 TGACTGAGGC
*
6397823 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGT-AAAATTGAAAAGGT
* *
6397877 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
6397929 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:6398012 original size:72 final size:71
Alignment explanation
Indices: 6397919--6398084 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
6397909 TGAACAACGT
* * * *
6397919 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
6397984 GAGTTG
66 GAGTTG
*
6397990 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
6398055 TGAGTTG
65 TGAGTTG
**
6398062 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
6398085 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:6398179 original size:122 final size:124
Alignment explanation
Indices: 6397959--6398205 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
6397949 GCGTGACCTG
* *
6397959 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
6398024 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * **
6398084 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACGTAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
6398146 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
6398205 A
1 A
6398206 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 16 0.14
122 62 0.55
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:6398241 original size:70 final size:69
Alignment explanation
Indices: 6398084--6398257 Score: 208
Period size: 70 Copynumber: 2.5 Consensus size: 69
6398074 AAAAATTAAA
* * * ** *
6398084 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACGTAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
6398148 CCCCG
65 CCCCG
*
6398153 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
6398218 -TCTTG
64 GCCCCG
6398223 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTT
6398258 CCCTTGAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
68 1 0.01
69 25 0.27
70 40 0.44
71 25 0.27
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (69 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTGC
CCCG
Found at i:6403403 original size:12 final size:12
Alignment explanation
Indices: 6403386--6403421 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6403376 TGGGATATGC
6403386 AATGTATGAATG
1 AATGTATGAATG
6403398 AATGTATGAATG
1 AATGTATGAATG
*
6403410 AATGCATGAATG
1 AATGTATGAATG
6403422 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (12 bp):
AATGTATGAATG
Found at i:6405275 original size:13 final size:15
Alignment explanation
Indices: 6405244--6405273 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6405234 TTAGGAAACG
6405244 TACATAAAAAATATA
1 TACATAAAAAATATA
6405259 TACATAAAAAATATA
1 TACATAAAAAATATA
6405274 CAACAATAAT
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:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:6405481 original size:2 final size:2
Alignment explanation
Indices: 6405432--6405462 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6405422 GGTATTTAAA
6405432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6405463 ATAGTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6405534 original size:39 final size:40
Alignment explanation
Indices: 6405401--6405534 Score: 121
Period size: 39 Copynumber: 3.3 Consensus size: 40
6405391 ATAATTTGTA
* *
6405401 ATAATA-ATATATACACAATATGGTATTTAAAATATATATATAT
1 ATAATATATATATACACTA-ATGGTA-TTAAAA-A-ATATATAC
* * * *
6405444 ATATATATATATATATA-TAATAGTATTTAAGAATATATAC
1 ATA-ATATATATATACACTAATGGTATTAAAAAATATATAC
* * *
6405484 ATAAGAAATATATA-ACTAATGGCATTAAAAAATATATAC
1 ATAATATATATATACACTAATGGTATTAAAAAATATATAC
6405523 ATAATATATATA
1 ATAATATATATA
6405535 AAATACCTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 38 0.51
40 10 0.14
41 1 0.01
42 4 0.05
43 8 0.11
44 4 0.05
45 8 0.11
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.37
Consensus pattern (40 bp):
ATAATATATATATACACTAATGGTATTAAAAAATATATAC
Found at i:6406073 original size:26 final size:26
Alignment explanation
Indices: 6406013--6406087 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
6406003 GGTTTCTTGG
*
6406013 TTTTTTTTGGGGGGTTAGGTTTTTTC
1 TTTTTTTTTGGGGGTTAGGTTTTTTC
6406039 TTTTTTTTTGGGGGTTAGGTTTTTTC
1 TTTTTTTTTGGGGGTTAGGTTTTTTC
*
6406065 TTTTTTTTT--TGGTTAGGTTTTTT
1 TTTTTTTTTGGGGGTTAGGTTTTTT
6406088 TTGGGGGGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.28
26 34 0.72
ACGTcount: A:0.04, C:0.03, G:0.25, T:0.68
Consensus pattern (26 bp):
TTTTTTTTTGGGGGTTAGGTTTTTTC
Found at i:6406773 original size:21 final size:22
Alignment explanation
Indices: 6406733--6406792 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
6406723 TAAAAATTTT
*
6406733 AATAAATAAATAAATAAATTAA
1 AATAATTAAATAAATAAATTAA
*
6406755 AATAATTAAAT-ACTAAATTAA
1 AATAATTAAATAAATAAATTAA
*
6406776 AATAATTCAA-AAATAAA
1 AATAATTAAATAAATAAA
6406793 ATGGGTGGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATTAAATAAATAAATTAA
Found at i:6406782 original size:9 final size:10
Alignment explanation
Indices: 6406736--6406780 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
6406726 AAATTTTAAT
6406736 AAATAAA-T-
1 AAATAAATTA
6406744 AAATAAATTA
1 AAATAAATTA
6406754 AAAT-AATTA
1 AAATAAATTA
6406763 AATACTAAATTA
1 AA-A-TAAATTA
6406775 AAATAA
1 AAATAA
6406781 TTCAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 7 0.22
9 8 0.25
10 8 0.25
11 2 0.06
12 7 0.22
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATAAATTA
Found at i:6409989 original size:2 final size:2
Alignment explanation
Indices: 6409984--6410010 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6409974 ATAAAAAATG
6409984 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6410011 AACTCAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6413699 original size:34 final size:33
Alignment explanation
Indices: 6413647--6413710 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
6413637 GTCCAATGTT
*
6413647 TTTTTTGGCTAAATTTTAATTTTAATCTCTTTAA
1 TTTTATGGCTAAATTTTAATTTTAAT-TCTTTAA
*
6413681 TTTTATGGTTAAATTTTAATTTTAATTCTT
1 TTTTATGGCTAAATTTTAATTTTAATTCTT
6413711 ATATTTCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (33 bp):
TTTTATGGCTAAATTTTAATTTTAATTCTTTAA
Found at i:6417227 original size:28 final size:28
Alignment explanation
Indices: 6417165--6417249 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
6417155 AACTAAAATG
*
6417165 AAAA-TATTAAATTTATTATAAAATTTATAG
1 AAAATTATTAAA--TATTATAAAATTT-TAA
6417195 AAAATTATTAAATATTATAAAATTTTAA
1 AAAATTATTAAATATTATAAAATTTTAA
* *
6417223 AAAATTACTAAATGTTATAAAATTTTA
1 AAAATTATTAAATATTATAAAATTTTA
6417250 TTAATATGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 27 0.53
29 13 0.25
30 4 0.08
31 7 0.14
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (28 bp):
AAAATTATTAAATATTATAAAATTTTAA
Found at i:6417342 original size:18 final size:19
Alignment explanation
Indices: 6417311--6417361 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
6417301 GAAATGATAG
*
6417311 AAAATTATATAAAATTAATT
1 AAAATTA-ATAAAATTAATA
*
6417331 AAAA-TAATAAAATTTATA
1 AAAATTAATAAAATTAATA
6417349 AAAATTAATAAAA
1 AAAATTAATAAAA
6417362 AAAGTTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 14 0.50
19 10 0.36
20 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTAATAAAATTAATA
Found at i:6417349 original size:9 final size:9
Alignment explanation
Indices: 6417311--6417361 Score: 59
Period size: 10 Copynumber: 5.4 Consensus size: 9
6417301 GAAATGATAG
6417311 AAAATTATAT
1 AAAATTA-AT
6417321 AAAATTAATT
1 AAAATTAA-T
6417331 AAAA-TAAT
1 AAAATTAAT
*
6417339 AAAATTTAT
1 AAAATTAAT
6417348 AAAAATTAAT
1 -AAAATTAAT
6417358 AAAA
1 AAAA
6417362 AAAGTTAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
8 5 0.14
9 11 0.31
10 20 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTAAT
Found at i:6417364 original size:22 final size:22
Alignment explanation
Indices: 6417333--6417374 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6417323 AATTAATTAA
* * *
6417333 AATAATAAAATTTATAAAAATT
1 AATAAAAAAAGTTAGAAAAATT
6417355 AATAAAAAAAGTTAGAAAAA
1 AATAAAAAAAGTTAGAAAAA
6417375 CTTATTGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (22 bp):
AATAAAAAAAGTTAGAAAAATT
Found at i:6417889 original size:31 final size:30
Alignment explanation
Indices: 6417847--6417927 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
6417837 ATATAATCCC
*
6417847 TAAAAATCAATTAAGCTCTCCTAAAATACT-
1 TAAAAATCAATTAAGC-CTCCTAAAATAATA
*
6417877 TAAAAAGTCAATTAAGACCTCGTAAAATAATAA
1 TAAAAA-TCAATTAAG-CCTCCTAAAATAAT-A
6417910 TAATAAATCAATTAAGCC
1 TAA-AAATCAATTAAGCC
6417928 CTCCACGCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
30 6 0.14
31 20 0.45
32 3 0.07
33 12 0.27
34 3 0.07
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (30 bp):
TAAAAATCAATTAAGCCTCCTAAAATAATA
Found at i:6419392 original size:30 final size:32
Alignment explanation
Indices: 6419336--6419399 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
6419326 TAGTAAACGT
6419336 AAAATTATATTTTAATCCCATTAAAAATAATA
1 AAAATTATATTTTAATCCCATTAAAAATAATA
* * *
6419368 AAAATT-TATTTTAAT-TCTTTAAAAATTATA
1 AAAATTATATTTTAATCCCATTAAAAATAATA
6419398 AA
1 AA
6419400 GACATAGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 14 0.48
31 9 0.31
32 6 0.21
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAATTATATTTTAATCCCATTAAAAATAATA
Found at i:6444946 original size:25 final size:25
Alignment explanation
Indices: 6444912--6444960 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6444902 TTGAAAGTCT
6444912 TAATTGATATTTTCTTTGTTTTTAG
1 TAATTGATATTTTCTTTGTTTTTAG
6444937 TAATTGATATTTTCTTTGTTTTTA
1 TAATTGATATTTTCTTTGTTTTTA
6444961 ATCTATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.10, T:0.65
Consensus pattern (25 bp):
TAATTGATATTTTCTTTGTTTTTAG
Found at i:6445501 original size:11 final size:11
Alignment explanation
Indices: 6445485--6445514 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
6445475 ATAAAGAAAA
6445485 TTATTTTATTT
1 TTATTTTATTT
6445496 TTATTTTATTT
1 TTATTTTATTT
6445507 TTCATTTT
1 TT-ATTTT
6445515 TAATCATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:6446468 original size:24 final size:24
Alignment explanation
Indices: 6446441--6446509 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
6446431 ATTTTTTAGA
6446441 AATAAAATTATATATTTTTATAAT
1 AATAAAATTATATATTTTTATAAT
* * *
6446465 AATAAAAGTA-A-AATTTTATTAT
1 AATAAAATTATATATTTTTATAAT
**
6446487 TTTAATAATT-TATATTTTTATAA
1 AATAA-AATTATATATTTTTATAA
6446510 ATTTTAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 12 0.35
23 5 0.15
24 17 0.50
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
AATAAAATTATATATTTTTATAAT
Found at i:6446537 original size:47 final size:47
Alignment explanation
Indices: 6446446--6446537 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 47
6446436 TTAGAAATAA
* *
6446446 AATTATATATTTTTATAATAATAAAAGTAAAATTTTATTATTTTAAT
1 AATTATATATTTTTATAATAATAAAAGAAAAATTTAATTATTTTAAT
** *
6446493 AATT-TATATTTTTATAAATTTTAAAA-AAATAATTTAATTTTTTTA
1 AATTATATATTTTTAT-AATAATAAAAGAAA-AATTTAATTATTTTA
6446538 TTTTTAGAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
46 13 0.34
47 25 0.66
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (47 bp):
AATTATATATTTTTATAATAATAAAAGAAAAATTTAATTATTTTAAT
Found at i:6448546 original size:17 final size:16
Alignment explanation
Indices: 6448513--6448552 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6448503 TAATTTATTA
6448513 AATAAAA-ATTATCTT
1 AATAAAATATTATCTT
*
6448528 AATTAAAATATTATTTT
1 AA-TAAAATATTATCTT
6448545 AATAAAAT
1 AATAAAAT
6448553 GTTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 9 0.41
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAAAATATTATCTT
Found at i:6449846 original size:20 final size:20
Alignment explanation
Indices: 6449821--6449858 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6449811 AAATTAGTTC
6449821 AAAATAAATTTCAAAAATTA
1 AAAATAAATTTCAAAAATTA
6449841 AAAATAAATTTCAAAAAT
1 AAAATAAATTTCAAAAAT
6449859 CCAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATAAATTTCAAAAATTA
Found at i:6449864 original size:21 final size:20
Alignment explanation
Indices: 6449821--6449866 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
6449811 AAATTAGTTC
*
6449821 AAAATAAATTTCAAAAATTA
1 AAAATAAATTTCAAAAATCA
6449841 AAAATAAATTTCAAAAATCCA
1 AAAATAAATTTCAAAAAT-CA
6449862 AAAAT
1 AAAAT
6449867 TTTCATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATAAATTTCAAAAATCA
Found at i:6451422 original size:31 final size:31
Alignment explanation
Indices: 6451384--6451445 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6451374 CTCCACTTCT
6451384 CCGTAGCTATGGATTGGAGTATGATAGGGGC
1 CCGTAGCTATGGATTGGAGTATGATAGGGGC
6451415 CCGTAGCTATGGATTGGAGTATGATAGGGGC
1 CCGTAGCTATGGATTGGAGTATGATAGGGGC
6451446 TGCACAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.39, T:0.26
Consensus pattern (31 bp):
CCGTAGCTATGGATTGGAGTATGATAGGGGC
Found at i:6452088 original size:11 final size:11
Alignment explanation
Indices: 6452054--6452095 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6452044 ATGAGCACAA
6452054 TATTTTATTTAT
1 TATTTTA-TTAT
**
6452066 TAGCTT-TTAT
1 TATTTTATTAT
6452076 TATTTTATTAT
1 TATTTTATTAT
6452087 TATTTTATT
1 TATTTTATT
6452096 CCGATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 8 0.32
11 13 0.52
12 4 0.16
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:6460264 original size:2 final size:2
Alignment explanation
Indices: 6460257--6460287 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6460247 CTAATAGTGC
6460257 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 T
6460288 TAAAGTACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6460521 original size:18 final size:17
Alignment explanation
Indices: 6460480--6460522 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6460470 ATATTAGGAT
*
6460480 AAAATAATAAGTATAATG
1 AAAAT-ATAAGGATAATG
6460498 ATAAATATAAGGATATATG
1 A-AAATATAAGGATA-ATG
6460517 AAAATA
1 AAAATA
6460523 ATACTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (17 bp):
AAAATATAAGGATAATG
Found at i:6460551 original size:17 final size:17
Alignment explanation
Indices: 6460510--6460551 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
6460500 AAATATAAGG
6460510 ATATATGAAAATAATACT
1 ATATAT-AAAATAATACT
*
6460528 ATTTATAAAATATATA-T
1 ATATATAAAATA-ATACT
6460545 ATATATA
1 ATATATA
6460552 TTTATAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATATAAAATAATACT
Found at i:6460570 original size:26 final size:25
Alignment explanation
Indices: 6460535--6460590 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
6460525 ACTATTTATA
* *
6460535 AAATATATATA-TATATATTTATAAT
1 AAATACATATACTA-ATATTAATAAT
6460560 GAAATACATATACTAATATTAATAAT
1 -AAATACATATACTAATATTAATAAT
6460586 AAATA
1 AAATA
6460591 TACTAGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 5 0.19
26 20 0.74
27 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATACATATACTAATATTAATAAT
Found at i:6461331 original size:26 final size:26
Alignment explanation
Indices: 6461302--6461409 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
6461292 TGATAGAAAT
6461302 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6461328 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6461354 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6461380 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6461406 TGAT
1 TGAT
6461410 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6462796 original size:26 final size:26
Alignment explanation
Indices: 6462759--6462893 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
6462749 TGATACAAAT
* *
6462759 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6462785 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
6462811 TGATAATAGGTTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6462836 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6462862 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6462888 TGATAA
1 TGATAA
6462894 GAATATCATG
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6462850 original size:51 final size:52
Alignment explanation
Indices: 6462759--6462893 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
6462749 TGATACAAAT
6462759 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
6462811 TGATAATAGGTTAGGTAAAT-TTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
6462862 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
6462894 GAATATCATG
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
51 50 0.62
52 30 0.38
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:6464410 original size:25 final size:26
Alignment explanation
Indices: 6464369--6464420 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
6464359 AATTACTGTT
6464369 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
6464394 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
6464420 T
1 T
6464421 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:6464913 original size:137 final size:137
Alignment explanation
Indices: 6464667--6464953 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
6464657 TGAGTAGCTC
6464667 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6464732 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6464797 ACTGTTA
131 ACTGTTA
6464804 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6464869 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6464934 ACTGTTA
131 ACTGTTA
**
6464941 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6464954 AGGCCAATAG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:6471405 original size:26 final size:26
Alignment explanation
Indices: 6471376--6471482 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
6471366 TGATACAAAT
6471376 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6471402 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6471428 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6471453 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6471479 TGAT
1 TGAT
6471483 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6471443 original size:51 final size:52
Alignment explanation
Indices: 6471376--6471482 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
6471366 TGATACAAAT
6471376 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
6471428 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
6471479 TGAT
1 TGAT
6471483 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 46 0.87
52 7 0.13
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:6476158 original size:88 final size:86
Alignment explanation
Indices: 6476045--6476447 Score: 309
Period size: 88 Copynumber: 4.6 Consensus size: 86
6476035 ACGTGAGCAA
* * ** *
6476045 AGGCTCAACTC-ACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTTCCAAACAGATT-T
1 AGGCTCAACTCAAC-TCTCGTAATATGAGTTGATTTTTGAAAACAGAA-ATTAAAAAAAGATTAT
6476108 GGAAAATACCTC-GTCATGTGACC-CG
64 GGAAAATACCTCAG-C--GT-ACCTCG
* * *
6476133 AGGCTCAACTCAACGCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTAAAAAAATATTAAT
1 AGGCTCAACTCAACTCTCGTAATATGAGTTGATTTTTG-AAAACAGAAATTAAAAAAAGATT-AT
* *
6476198 TGAAAATACCTCAGCGTTCCTCG
64 GGAAAATACCTCAGCGTACCTCG
* ** *
6476221 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCTTAAATTGAAAAAAA-ATCAA
1 AGGCTCAACTCAACTCTCGTAATATGAGTTGATTTTTGAAAA-CAGAAATT-AAAAAAAGAT-TA
* * ** *
6476285 TTGAAAATACCTCAGTGTGTCTTG
63 TGGAAAATACCTCAGCGTACCTCG
* * * * *
6476309 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGATGAACAGAAATTGAAAAACAGA-AAT
1 AGGCTCAACTCAACTCTCGTAATATGAGTTGATTTTTGA-AAACAGAAATT-AAAAAAAGATTAT
* * ** * *
6476372 TGAAAAGAATTCAACATGTGAGC-CG
64 GGAAAATACCTCAGC--GT-ACCTCG
* *
6476397 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATT
1 AGGCTCAACTCAACTCTCGTAATATGAGTTGATTTTTGA-AAACAGAAATT
6476448 GAAATTACCT
Statistics
Matches: 267, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
86 13 0.05
87 25 0.09
88 181 0.68
89 34 0.13
90 13 0.05
91 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (86 bp):
AGGCTCAACTCAACTCTCGTAATATGAGTTGATTTTTGAAAACAGAAATTAAAAAAAGATTATGG
AAAATACCTCAGCGTACCTCG
Found at i:6476360 original size:14 final size:14
Alignment explanation
Indices: 6476349--6476377 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6476339 GATTTTGATG
6476349 AACAGAAATTGAAA
1 AACAGAAATTGAAA
6476363 AACAGAAATTGAAA
1 AACAGAAATTGAAA
6476377 A
1 A
6476378 GAATTCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:6476519 original size:75 final size:73
Alignment explanation
Indices: 6476361--6476761 Score: 342
Period size: 74 Copynumber: 5.2 Consensus size: 73
6476351 CAGAAATTGA
* ** *
6476361 AAAACAGAAATTGAAAAGAATTCAACATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAG
6476425 TTGA-TTTTTG
63 TTGATTTTTTG
* **
6476435 ACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6476500 GATTTTTTTG
65 GA-TTTTTTG
* * ** ** * * *
6476510 AAGAGCAGAAATTGGAAAGCAGAAATCGAAAAT-ACCTCAGCATGCCCTAAGGCTCAACTCACCT
1 AA-AACAGAAATT-GAAA--ATACCTC-AGCATGTCCT--G-A-G-GCT----C-AA-CTCACCT
6476574 CTCGCAATATGAGTTGATTTTTTTG
50 CTCGCAATATGAGTTGA-TTTTTTG
* * *
6476599 ACAAATATAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6476664 GATTTTTTG
65 GATTTTTTG
* * *
6476673 AAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 AAAA-CAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6476738 GA-TTTTTG
65 GATTTTTTG
*
6476746 AAGAACATAAATTGAA
1 AA-AACAGAAATTGAA
6476762 GAAAACAGAA
Statistics
Matches: 266, Mismatches: 37, Indels: 49
0.76 0.11 0.14
Matches are distributed among these distances:
72 2 0.01
73 54 0.20
74 68 0.26
75 62 0.23
76 5 0.02
77 1 0.00
78 6 0.02
79 2 0.01
80 1 0.00
81 3 0.01
82 2 0.01
83 3 0.01
84 1 0.00
85 3 0.01
86 6 0.02
87 1 0.00
88 5 0.02
89 40 0.15
90 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:6476623 original size:164 final size:162
Alignment explanation
Indices: 6476283--6476690 Score: 581
Period size: 164 Copynumber: 2.5 Consensus size: 162
6476273 AAAAAAAATC
* *
6476283 AATTGAAAATACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTG
1 AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* * * * * *
6476346 ATGAACAGAAATTGAAAAACAGAAATTGAAAAGAATTCAACATGTGAGCCGAGGCTCAACTCACC
66 AAGAGCAGAAATTGAAAAACAGAAATCGAAAAGAACTCAACA-GTGACCCAAGGCTCAACTCACC
6476411 TCTCGCAATATGAGTTGATTTTTGACAAACAGA
130 TCTCGCAATATGAGTTGATTTTTGACAAACAGA
6476444 AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* * * * *
6476509 GAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGCA-TG-CCCTAAGGCTCAACTCAC
65 GAAGAGCAGAAATTGAAAAACAGAAATCGAAAAGAACTCAACAGTGACCC-AAGGCTCAACTCAC
* *
6476572 CTCTCGCAATATGAGTTGATTTTTTTGACAAATATA
129 CTCTCGCAATATGAGTTGA--TTTTTGACAAACAGA
**
6476608 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
*
6476673 AAAAGCAGAAATTGAAAA
66 AAGAGCAGAAATTGAAAA
6476691 TACCTCAGCG
Statistics
Matches: 222, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
161 58 0.26
162 34 0.15
163 23 0.10
164 107 0.48
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (162 bp):
AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AAGAGCAGAAATTGAAAAACAGAAATCGAAAAGAACTCAACAGTGACCCAAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGACAAACAGA
Found at i:6476713 original size:74 final size:73
Alignment explanation
Indices: 6476524--6476761 Score: 343
Period size: 74 Copynumber: 3.2 Consensus size: 73
6476514 GCAGAAATTG
* * *
6476524 GAAAGCAGAAATCGAAAATACCTCAGCATGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6476589 GATTTTTTT
66 GA-TTTTTT
* * * *
6476598 GACAAATATAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GA-AAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6476663 TGATTTTTT
65 TGATTTTTT
* *
6476672 GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 GAAAA-CAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6476737 TGA-TTTTT
65 TGATTTTTT
*
6476745 GAAGAACATAAATTGAA
1 GAA-AACAGAAATTGAA
6476762 GAAAACAGAA
Statistics
Matches: 147, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
73 21 0.14
74 68 0.46
75 58 0.39
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (73 bp):
GAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTT
Found at i:6476830 original size:89 final size:90
Alignment explanation
Indices: 6476672--6476836 Score: 269
Period size: 89 Copynumber: 1.8 Consensus size: 90
6476662 TTGATTTTTT
* *
6476672 GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 GAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACATCTCGCAATATGAGC
6476737 TGATTTTTGAAGAACATAAATTGAA
66 TGATTTTTGAAGAACATAAATTGAA
* * * *
6476762 GAAAA-CAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACATTTCGCAATATGAGT
1 GAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACATCTCGCAATATGAGC
6476826 TGATTTTTGAA
66 TGATTTTTGAA
6476837 AAATAGAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 64 0.93
90 5 0.07
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (90 bp):
GAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACATCTCGCAATATGAGC
TGATTTTTGAAGAACATAAATTGAA
Found at i:6476893 original size:73 final size:73
Alignment explanation
Indices: 6476763--6476926 Score: 193
Period size: 73 Copynumber: 2.2 Consensus size: 73
6476753 TAAATTGAAG
* * * * * *
6476763 AAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACATTTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACATCTCACAATATGAGCTG
6476828 ATTTTTGA
66 ATTTTTGA
* * * * *
6476836 AAAATAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCACAATATGAGCTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACATCTCACAATATGAGCTG
6476901 ATTTTTTTGA
66 A--TTTTTGA
* *
6476911 AACACGGAAATTAAAA
1 AAAACAGAAATTAAAA
6476927 TAGAAATTAA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
73 55 0.73
75 20 0.27
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (73 bp):
AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACATCTCACAATATGAGCTG
ATTTTTGA
Found at i:6476982 original size:87 final size:87
Alignment explanation
Indices: 6476836--6477174 Score: 448
Period size: 87 Copynumber: 3.9 Consensus size: 87
6476826 TGATTTTTGA
* * *
6476836 AAAATAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCACAATATGAGCTG
1 AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
6476901 ATTTTTTTGAAACACGGAAATT
66 ATTTTTTTGAAACACGGAAATT
* * * * * * *
6476923 AAAATAGAAATTAAAAATACCTCAACGGGTCTTGAGGCTCAACTTACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
* **
6476988 A--TTTTTGAAAAACATAAATT
66 ATTTTTTTGAAACACGGAAATT
* *
6477008 GAAGAAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTTGCAATATGA
1 ----AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
6477073 GCTGATTTTTTTTGAAACACGGAAATT
62 GCTGA-TTTTTTTGAAACACGGAAATT
* * * *
6477100 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
6477165 ATTTTTTTGA
66 ATTTTTTTGA
6477175 TGATAAAAAT
Statistics
Matches: 216, Mismatches: 29, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
85 16 0.07
87 67 0.31
88 60 0.28
89 57 0.26
92 16 0.07
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (87 bp):
AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
ATTTTTTTGAAACACGGAAATT
Found at i:6477155 original size:177 final size:176
Alignment explanation
Indices: 6476836--6477170 Score: 571
Period size: 177 Copynumber: 1.9 Consensus size: 176
6476826 TGATTTTTGA
*
6476836 AAAATAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCACAATATGAGCTG
1 AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCACAATATGAGCTG
* * *
6476901 ATTTTTTTGAAACACGGAAATTAAAATAGAAATTAAAAATACCTCAACGGGTCTTGAGGCTCAAC
66 ATTTTTTTGAAACACGGAAATTAAAACAGAAATTAAAAATACCTCAACGGGCCCTGAGGCTCAAC
*
6476966 TTACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAG
131 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAG
**
6477012 AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTTGCAATATGAGCTG
1 AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCACAATATGAGCTG
* * *
6477077 ATTTTTTTTGAAACACGGAAATTAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAA
66 A-TTTTTTTGAAACACGGAAATTAAAACAGAAATTAAAAATACCTCAACGGGCCCTGAGGCTCAA
6477142 CTCACCTCTCGCAATATGAGTTGATTTTT
130 CTCACCTCTCGCAATATGAGTTGATTTTT
6477171 TTGATGATAA
Statistics
Matches: 148, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
176 63 0.43
177 85 0.57
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (176 bp):
AAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCACAATATGAGCTG
ATTTTTTTGAAACACGGAAATTAAAACAGAAATTAAAAATACCTCAACGGGCCCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAG
Found at i:6477384 original size:74 final size:74
Alignment explanation
Indices: 6477250--6477630 Score: 466
Period size: 75 Copynumber: 5.0 Consensus size: 74
6477240 AACATAAATT
* * * *
6477250 AAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6477315 TGATTTTTTG
65 TGATTTTTTG
*
6477325 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6477390 GA-TTTTTG
66 GATTTTTTG
* * *
6477398 AAAAACATAAATTCAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCG
1 ------A-AAA---A-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
6477463 CAATATGAGTTGATTTTTTG
55 CAATATGAGTTGATTTTTTG
** * ** * * *
6477483 ---ATGATAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6477545 GATTTTTTTG
66 GA-TTTTTTG
6477555 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6477620 GA-TTTTTG
66 GATTTTTTG
6477628 AAA
1 AAA
6477631 CATAAATTAA
Statistics
Matches: 266, Mismatches: 24, Indels: 34
0.82 0.07 0.10
Matches are distributed among these distances:
71 56 0.21
72 7 0.03
73 15 0.06
74 58 0.22
75 61 0.23
79 1 0.00
80 3 0.01
83 1 0.00
84 58 0.22
85 6 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTG
Found at i:6477387 original size:652 final size:628
Alignment explanation
Indices: 6476607--6477803 Score: 1648
Period size: 652 Copynumber: 1.9 Consensus size: 628
6476597 TGACAAATAT
* *
6476607 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
6476672 GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
66 GAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
* * * *
6476737 TGATTTTTGAAGAACATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCT
131 TGATTTTTGAAAAACATAAATT-AAG----CAGAAATTGAAAATACCTCAACAGGTCCTGAGGCT
*
6476802 CAACTCACATTTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTAAAAATACCTC-ATCGTG
191 CAACTCACATCTCGCAATATGAGTTGATTTTTTG-AAAAT--AAATTAAAAATACCTCAAT-GTG
*
6476865 ACCTGAGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTTGAAACACGGAAATTAAAATAG
252 ACCTGAGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTT--------G--A--AAAACAG
* *
6476930 AAATTAAAAATACCTCAACGGGTCTTGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTG
305 AAATTAAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * * *
6476995 AAAAACATAAATTGAAGAAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACC
370 --AAACATAAATT-AA-AAAACAAAAATTAAAAATACCTCAGCGCGACCCGAGGCTCAACTCACC
* * * * * *
6477060 TCTTGCAATATGAGCTGATTTTTTTTGAAACACGGAAATTAAAACAGAAATTGAAAATACCTCAG
431 TCTCGCAATATGAACTGA--TTTTTTAAAAAACAGAAATTAAAACAGAAATTAAAAATACCTCAG
*
6477125 C-GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGATAAAAATACC
494 CGGTGACCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGATAAAAATACC
6477188 TCAATGTGACTTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAA
558 TCAATGTGACTTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAA
6477253 ACACAA
623 ACACAA
*
6477259 AAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGA-AATTACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
6477323 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAG
65 TGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
6477388 TTGATTTTTGAAAAACATAAATTCAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAAC
130 CTGATTTTTGAAAAACATAAATTAAGCAGAAATTGAAAATACCTCAACAGGTCCTGAGGCTCAAC
* ** * *
6477453 TCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATGTGACTTGAGG
195 TCACATCTCGCAATATGAGTTGATTTTTTGAAAATAAATTAAAAATACCTCAATGTGACCTGAGG
* * * *
6477518 TTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCG
260 TTCAACTCACCTCTCACAATATGAGCTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAACG
* **
6477583 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAGCACAA
325 GGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAAAACAA
* * * *
6477648 AAATTGACAATACCTCAGCGCGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTT
390 AAATTAAAAATACCTCAGCGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTT
* *
6477713 AAAAAATAGAAATTAAAACAGAAATTAAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCT
455 AAAAAACAGAAATTAAAACAGAAATTAAAAATACCTCAGCG-GTGACCCAAGGCTCAACTCACCT
*
6477778 CTTGCAATATGAGTTGATTTTTTTGA
519 CTCGCAATATGAGTTGATTTTTTTGA
6477804 AAAACAGAAA
Statistics
Matches: 490, Mismatches: 49, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
627 41 0.08
629 96 0.20
630 4 0.01
631 11 0.02
633 66 0.13
635 1 0.00
637 1 0.00
645 59 0.12
646 2 0.00
647 58 0.12
648 6 0.01
651 2 0.00
652 141 0.29
653 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (628 bp):
AAATTGAAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
TGATTTTTGAAAAACATAAATTAAGCAGAAATTGAAAATACCTCAACAGGTCCTGAGGCTCAACT
CACATCTCGCAATATGAGTTGATTTTTTGAAAATAAATTAAAAATACCTCAATGTGACCTGAGGT
TCAACTCACCTCTCACAATATGAGCTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAACGG
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAAAACAAA
AATTAAAAATACCTCAGCGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTTA
AAAAACAGAAATTAAAACAGAAATTAAAAATACCTCAGCGGTGACCCAAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTGATGATAAAAATACCTCAATGTGACTTGAGGCCCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAACACAA
Found at i:6477421 original size:487 final size:474
Alignment explanation
Indices: 6476200--6477878 Score: 1587
Period size: 487 Copynumber: 3.5 Consensus size: 474
6476190 ATATTAATTG
* *
6476200 AAAATACCTCAGCGT-TCCTCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAG
1 AAAATACCTCAGCGTGCCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-
* * **
6476264 CTTAAATTGAAAAA-AAATCAATTGAAAATACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCG
64 CATAAATTGAAAAACAAA--AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
* ** *
6476328 CAATATGAGTTGATTTTGATGAACAGAAATTGAAAAACAGAAATTGAAAAGAATTCAACATGTGA
127 CAATATGAGTTGATTTT--T---------TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-
*
6476393 GCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG---AC-AA--ACAGAAATTGAA
178 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAATTACAGAAATTGAA
* ** * *
6476451 ATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGC
243 AATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-A-C
* * * * * * *
6476516 AGAAATTG-GAAAGCAGAAATCGAAAATACCTCAGCATGCCCTAAGGCTCAACTCACCTCTCGCA
304 ATAAATTGAGAAA-CAGAAATTGAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCGCA
* * *
6476580 ATATGAGTTGATTTTTTTGAC-AAAT-----ATAAATTGAAATTACCTCAGCATGTCCTGAGGCT
368 ATATGAGTTGATTTTTTTGACGAAATAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
*
6476639 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAGAAATTG
433 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--AA--AG--A-TA
*
6476687 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAGAAC
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA-AAC
* * * * * *
6476752 ATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACATTTCGC
65 ATAAATTG-A-AAAACAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
* * * * *
6476817 AATATGAGTTGA--TTTTTGAAAAATAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACT
128 AATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
* * * *
6476880 CACCTCTCACAATATGAGCTGATTTTTTTGAAACACGGAAATTAAAATAGAAATTAAAAATACCT
193 CACCTCTCGCAATATGAGTTGA--TTTTTGAAA-AC--AAATT---ACAGAAATTGAAAATACCT
*
6476945 CAACGGGTCTTGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGA
250 CAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACATAAATTG-
* * *
6477010 AGAAAACAGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTTGCAATATGAGC
312 AG-AAACAGAAATTGAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGT
*
6477075 TGATTTTTTTTGAAACACGGAAATTAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTC
376 TGA-TTTTTTTG----AC-GAAA-TAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTC
*
6477140 AACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ATGATA
434 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATA
** * * *
6477180 AAAATACCTCAATGTGACTTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
* *
6477244 TAAATT-AAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAA
66 TAAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
6477308 TATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
130 TATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
*
6477372 CCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTCAGCAGAAATTGAAAATACCTCAACG
195 CCTCTCGCAATATGAGTTGATTTTTG-AAAAC--AAATT-A-CAGAAATTGAAAATACCTCAACG
* *
6477437 GGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT------T-GA-T--G----AT
255 GGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAGAAACAG
*
6477488 AAATTGAAAATACCTCAAT-GTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
320 AAATTGAAAATACCTC-ATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6477552 TT---G--A-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
384 TTGACGAAATAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
6477611 ATATGAGTTGATTTTTGAAACATAAATTAAAGCACAAAA
449 ATATGAGTTGATTTTT------T---TGAAAG----ATA
* * * *
6477650 ATTGACAATACCTCAGCGCGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTAA
1 A---A-AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* * * * *
6477715 AAAATAGAAATT--AAAACAGAAATTAAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCT
62 AACAT--AAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCT
* * * * *
6477778 CTTGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACTTCAGCATGTGCTAAGGCT
123 CTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
** * * *
6477843 CAACTCATTTCTTGTAATATGAGTTGAATTTTGAAA
188 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
6477879 CAGAAATAAA
Statistics
Matches: 1016, Mismatches: 108, Indels: 146
0.80 0.09 0.11
Matches are distributed among these distances:
456 70 0.07
458 1 0.00
460 1 0.00
462 1 0.00
465 1 0.00
466 2 0.00
468 7 0.01
469 53 0.05
470 5 0.00
472 2 0.00
473 34 0.03
474 49 0.05
475 58 0.06
476 3 0.00
477 42 0.04
478 73 0.07
479 3 0.00
482 2 0.00
484 1 0.00
485 14 0.01
486 4 0.00
487 237 0.23
488 85 0.08
489 63 0.06
490 67 0.07
491 10 0.01
492 3 0.00
493 54 0.05
494 4 0.00
495 1 0.00
496 1 0.00
498 1 0.00
500 57 0.06
501 7 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (474 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA
TAAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGAAAACAAATTACAGAAATTGAAAATACCTCAACGGGTCTT
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAGAAACAGAAATTG
AAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACGA
AATAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAGATA
Found at i:6477533 original size:71 final size:72
Alignment explanation
Indices: 6477414--6477638 Score: 319
Period size: 71 Copynumber: 3.1 Consensus size: 72
6477404 ATAAATTCAG
*
6477414 CAGAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
6477479 TTTG-AT
66 TTTGAAA
* * * * *
6477485 GATAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
6477550 TTTTGAAAAA
65 TTTTG--AAA
* *
6477560 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
6477624 TTTGAAA
66 TTTGAAA
*
6477631 CATAAATT
1 CAGAAATT
6477639 AAAGCACAAA
Statistics
Matches: 135, Mismatches: 15, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
71 66 0.49
72 7 0.05
73 6 0.04
75 56 0.41
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTGAAA
Found at i:6477597 original size:230 final size:238
Alignment explanation
Indices: 6477283--6477878 Score: 766
Period size: 248 Copynumber: 2.5 Consensus size: 238
6477273 TCAGCGTGCC
6477283 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACC
6477347 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATT-
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTA
* * * * ** *
6477411 CAG-CAGAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
131 AAGACAAAAATTGAAAATACCTCAACGCGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
* *
6477475 ATTTTTT-GAT-G-A-T-AAATTGAAAATACCTCA-ATGTGA-
196 ATTTTTTAAATAGAATTAAAATTAAAAATACCTCACATGTGAG
* *
6477511 CTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAC
1 C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAC
*
6477576 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACATAAATT
65 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATT
* *
6477639 AAAGCACAAAAATTGACAATACCTCAGCGCGCCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
130 AAAG-ACAAAAATTGAAAATACCTCAACGCGCCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
*
6477704 TGATTTTTTAAAAAATAGAAATTAAAACAGAAATTAAAAATACCTCAGCGTGTGAG
194 TGATTTTTT---AAATAG-AATT-----A-AAATTAAAAATACCTCA-CATGTGAG
* * *
6477760 CCAAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACC
* * * ** * *
6477825 TCAGCATGTGCTAAGGCTCAACTCATTTCTTGTAATATGAGTTGAATTTTGAAA
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAA
6477879 CAGAAATAAA
Statistics
Matches: 315, Mismatches: 28, Indels: 28
0.85 0.08 0.08
Matches are distributed among these distances:
228 12 0.04
229 34 0.11
230 79 0.25
231 60 0.19
235 2 0.01
236 1 0.00
238 1 0.00
239 1 0.00
246 16 0.05
248 107 0.34
249 1 0.00
250 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (238 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTA
AAGACAAAAATTGAAAATACCTCAACGCGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
ATTTTTTAAATAGAATTAAAATTAAAAATACCTCACATGTGAG
Found at i:6477786 original size:88 final size:86
Alignment explanation
Indices: 6477556--6477820 Score: 331
Period size: 85 Copynumber: 3.0 Consensus size: 86
6477546 ATTTTTTTGA
6477556 AAAACAGAAATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6477620 GA-TTTTTGAAACAT--AAATT
65 GATTTTTTGAAAAATAGAAATT
* * * ** *
6477639 AAAGCACAAAAATTGACAATACCTCAGCGCGCCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
1 AAA--ACAGAAATTGAAAATACCTCAGCGTGTGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
6477704 TGATTTTTTAAAAAATAGAAATT
64 TGATTTTTTGAAAAATAGAAATT
* * *
6477727 AAAACAGAAATTAAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT--GCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
6477792 TGATTTTTTTGAAAAACAGAAATT
64 TGA-TTTTTTGAAAAATAGAAATT
6477816 GAAAA
1 -AAAA
6477821 TACTTCAGCA
Statistics
Matches: 154, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
83 3 0.02
85 55 0.36
86 34 0.22
88 40 0.26
89 18 0.12
90 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (86 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGAAAAATAGAAATT
Found at i:6477863 original size:75 final size:76
Alignment explanation
Indices: 6477727--6477874 Score: 208
Period size: 75 Copynumber: 1.9 Consensus size: 76
6477717 AATAGAAATT
*
6477727 AAAACAGAAATTAAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACAGAAATTAAAAATACCTCAGCATGT-AGCCAAGGCTCAACTCACCTCTTGCAATATGAGT
*
6477792 TGATTTTTTTGA
65 TGAATTTTTTGA
* * * ** *
6477804 AAAACAGAAATTGAAAATACTTCAGCATGT-GCTAAGGCTCAACTCATTTCTTGTAATATGAGTT
1 AAAACAGAAATTAAAAATACCTCAGCATGTAGCCAAGGCTCAACTCACCTCTTGCAATATGAGTT
6477868 GAATTTT
66 GAATTTT
6477875 GAAACAGAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 36 0.57
77 27 0.43
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (76 bp):
AAAACAGAAATTAAAAATACCTCAGCATGTAGCCAAGGCTCAACTCACCTCTTGCAATATGAGTT
GAATTTTTTGA
Found at i:6484370 original size:18 final size:17
Alignment explanation
Indices: 6484329--6484371 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6484319 ATATTAGGAT
*
6484329 AAAATAATAAGTATAATG
1 AAAAT-ATAAGGATAATG
6484347 ATAAATATAAGGATATATG
1 A-AAATATAAGGATA-ATG
6484366 AAAATA
1 AAAATA
6484372 ATACTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (17 bp):
AAAATATAAGGATAATG
Found at i:6488156 original size:20 final size:20
Alignment explanation
Indices: 6488131--6488170 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6488121 AACTCCATTT
6488131 GTATTAAGTTTAACCAATCC
1 GTATTAAGTTTAACCAATCC
*
6488151 GTATTAAGTTTAACCCATCC
1 GTATTAAGTTTAACCAATCC
6488171 TCTAGTCGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (20 bp):
GTATTAAGTTTAACCAATCC
Done.