Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 216 of 292
Found at i:63507879 original size:27 final size:27
Alignment explanation
Indices: 63507849--63507902 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
63507839 ATTTTTAATT
63507849 ATTTA-TAATGATAATAATTGAAAAATA
1 ATTTATTAAT-ATAATAATTGAAAAATA
* *
63507876 ATTTATTAATTTAATAATTTAAAAATA
1 ATTTATTAATATAATAATTGAAAAATA
63507903 TATTCAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTTATTAATATAATAATTGAAAAATA
Found at i:63507913 original size:27 final size:27
Alignment explanation
Indices: 63507860--63507916 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
63507850 TTTATAATGA
* *
63507860 TAATAATTGAAAAATAATTTATTAATT
1 TAATAATTGAAAAATAATTCATGAATT
*
63507887 TAATAATTTAAAAATATATTCA-GAATT
1 TAATAATTGAAAAATA-ATTCATGAATT
63507914 TAA
1 TAA
63507917 AAATATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (27 bp):
TAATAATTGAAAAATAATTCATGAATT
Found at i:63519614 original size:16 final size:17
Alignment explanation
Indices: 63519593--63519625 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63519583 TAAGAGCTAA
63519593 AAAAAGATAAAA-AAAT
1 AAAAAGATAAAATAAAT
*
63519609 AAAAAGCTAAAATAAAT
1 AAAAAGATAAAATAAAT
63519626 TTTCTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAGATAAAATAAAT
Found at i:63519929 original size:3 final size:3
Alignment explanation
Indices: 63519921--63519952 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
63519911 CACTATAATC
63519921 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
63519953 CTTTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:63520731 original size:159 final size:158
Alignment explanation
Indices: 63520438--63520731 Score: 441
Period size: 159 Copynumber: 1.9 Consensus size: 158
63520428 TTTTTTTCTC
**
63520438 GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAAACGATTTCGCAGTAGCATTTTAGTTG
1 GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAAACGATTTCGCAGTAGCATTTTAGGCG
* *
63520503 ATATCCTAATGCTTAATTTCGTCATTCTTATGCTGAATTATTTGTGGTTTAATGGATTTTACTCT
66 ATATCCTAATGCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTACTCT
63520568 CTATTCAATGCTACTTTTTGTGTTCATT
131 CTATTCAATGCTACTTTTTGTGTTCATT
* * * * **
63520596 GTTCCATTTAGTTTGATTATAAGCTTATGATGGAA-TAAGGGCGATTTCG-AGTTTTCATTTTAG
1 GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAA--ACGATTTCGCAG-TAGCATTTTAG
63520659 GCGATATCCTGAA-GCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTA
63 GCGATATCCT-AATGCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTA
63520723 CTCTCTATT
127 CTCTCTATT
63520732 TGCAAATTAG
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
157 3 0.02
158 34 0.28
159 83 0.68
160 2 0.02
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (158 bp):
GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAAACGATTTCGCAGTAGCATTTTAGGCG
ATATCCTAATGCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTACTCT
CTATTCAATGCTACTTTTTGTGTTCATT
Found at i:63524483 original size:28 final size:28
Alignment explanation
Indices: 63524449--63524601 Score: 173
Period size: 28 Copynumber: 5.5 Consensus size: 28
63524439 CAAACCAAAA
* **
63524449 AAGTGCAAGCCAAAGTGGCGGACAATTT
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* * *
63524477 AAGTGCAAACCAAAATGGCGGACAGTTC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* *
63524505 AAGT-AAAGCCAAAATGACGGACAATCC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* * * *
63524532 AAGTACAAGCTAAAATGGTGGACAGTCC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* *
63524560 AAGTACAAGCTAAAATGGCGGACAATCC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
63524588 AAGTGCAAGCCAAA
1 AAGTGCAAGCCAAA
63524602 GCGCCAGACA
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.21
28 84 0.79
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (28 bp):
AAGTGCAAGCCAAAATGGCGGACAATCC
Found at i:63524526 original size:55 final size:56
Alignment explanation
Indices: 63524449--63524601 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 56
63524439 CAAACCAAAA
* * ** * *
63524449 AAGTGCAAGCCAAAGTGGCGGACAATTTAAGTGCAAACCAAAATGGCGGACAGTTC
1 AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAAATGGCGGACAGTCC
* * * *
63524505 AAGTA-AAGCCAAAATGACGGACAATCCAAGTACAAGCTAAAATGGTGGACAGTCC
1 AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAAATGGCGGACAGTCC
*
63524560 AAGTACAAGCTAAAATGGCGGACAATCCAAGTGCAAGCCAAA
1 AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAA
63524602 GCGCCAGACA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
55 46 0.56
56 36 0.44
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (56 bp):
AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAAATGGCGGACAGTCC
Found at i:63524832 original size:101 final size:100
Alignment explanation
Indices: 63524727--63524922 Score: 266
Period size: 101 Copynumber: 1.9 Consensus size: 100
63524717 AAAGTGGGTG
* * ** *
63524727 CAAGCCAAAATTGCAGACAACCCAAGTGTAAGCCAAAGCGGCGGACAGTCTAAATGCAAGCCAAA
1 CAAGCCAAAATGGCAGACAACCCAAGTGCAAGCCAAAGCAACGAACAGTCTAAATGCAAGCCAAA
* *
63524792 AGTAGGTGCAAGTTAAAGTGGTGGACAGTCTAAATA
66 A-TAGGTGCAAGCTAAAATGGTGGACAGTCTAAATA
* * * *
63524828 CAAGCCAAAATGGTAGACAACCCAAGTGCAAGCCAAAGCAATGAATAGTCTAAATTCAAGCCAAA
1 CAAGCCAAAATGGCAGACAACCCAAGTGCAAGCCAAAGCAACGAACAGTCTAAATGCAAGCCAAA
* *
63524893 ATTGGTGCCAGCTAAAATGGTGGACAGTCT
66 ATAGGTGCAAGCTAAAATGGTGGACAGTCT
63524923 GTCACACCCC
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 25 0.30
101 57 0.70
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (100 bp):
CAAGCCAAAATGGCAGACAACCCAAGTGCAAGCCAAAGCAACGAACAGTCTAAATGCAAGCCAAA
ATAGGTGCAAGCTAAAATGGTGGACAGTCTAAATA
Found at i:63530797 original size:28 final size:28
Alignment explanation
Indices: 63530757--63530815 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
63530747 AAATGGGTGT
* * *
63530757 AAGCCAATGTGGCGGGCAATCCAAGTGC
1 AAGCCAAAGTGGCAGACAATCCAAGTGC
*
63530785 AAGCCAAAGTGGCAGACAGTCCAAGTGC
1 AAGCCAAAGTGGCAGACAATCCAAGTGC
63530813 AAG
1 AAG
63530816 ATATTTCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.31, T:0.12
Consensus pattern (28 bp):
AAGCCAAAGTGGCAGACAATCCAAGTGC
Found at i:63533809 original size:20 final size:19
Alignment explanation
Indices: 63533786--63533834 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
63533776 TCCATTAAAA
*
63533786 ATTTTAGTATTTGATTAGAG
1 ATTTTAGTATCTG-TTAGAG
* *
63533806 ATTTTTGCATCTGTTAGAG
1 ATTTTAGTATCTGTTAGAG
*
63533825 ATTTTGGTAT
1 ATTTTAGTAT
63533835 AGCATTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.51
Consensus pattern (19 bp):
ATTTTAGTATCTGTTAGAG
Found at i:63534021 original size:38 final size:40
Alignment explanation
Indices: 63533947--63534022 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 40
63533937 TTCGTTAGAG
* *
63533947 ATTTAGTTAGGAAATTTTGGTAATCCTTACAGATTTTGAT
1 ATTTAGTTAGGAAATTTTGGTAATCCTTAAAAATTTTGAT
*
63533987 ATTT-GTTA-GAAATTTTGGT-ATCAGTTAAAAATTTTG
1 ATTTAGTTAGGAAATTTTGGTAATC-CTTAAAAATTTTG
63534023 GTACTCCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 3 0.09
38 21 0.66
39 4 0.12
40 4 0.12
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (40 bp):
ATTTAGTTAGGAAATTTTGGTAATCCTTAAAAATTTTGAT
Found at i:63534023 original size:19 final size:18
Alignment explanation
Indices: 63533958--63534046 Score: 70
Period size: 19 Copynumber: 4.7 Consensus size: 18
63533948 TTTAGTTAGG
* *
63533958 AAATTTTGGTAATCCTTAC
1 AAATTTTGGT-ATCGTTAA
* * * *
63533977 AGATTTTGATATTTGTTAG
1 AAATTTTGGTA-TCGTTAA
63533996 AAATTTTGGTATCAGTTAA
1 AAATTTTGGTATC-GTTAA
*
63534015 AAATTTTGGTACTCCTTCAA
1 AAATTTTGGTA-TCGTT-AA
63534035 AAATTTTGGTAT
1 AAATTTTGGTAT
63534047 GCCACATAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
18 2 0.04
19 39 0.70
20 15 0.27
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (18 bp):
AAATTTTGGTATCGTTAA
Found at i:63534038 original size:20 final size:19
Alignment explanation
Indices: 63533996--63534046 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
63533986 TATTTGTTAG
*
63533996 AAATTTTGGTATCAGTTAA
1 AAATTTTGGTATCACTTAA
63534015 AAATTTTGGTACTC-CTTCAA
1 AAATTTTGGTA-TCACTT-AA
63534035 AAATTTTGGTAT
1 AAATTTTGGTAT
63534047 GCCACATAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (19 bp):
AAATTTTGGTATCACTTAA
Found at i:63534203 original size:20 final size:19
Alignment explanation
Indices: 63534178--63534271 Score: 82
Period size: 19 Copynumber: 4.8 Consensus size: 19
63534168 TTATAGAAAT
63534178 TTAGAAATTTTGGTATTCAA
1 TTAGAAATTTTGGTATTC-A
* *
63534198 TTAGAAATATTGGCA-TCTA
1 TTAGAAATTTTGGTATTC-A
* * *
63534217 TTAAAAATATTGGTATTTGA
1 TTAGAAATTTTGGTA-TTCA
* *
63534237 TTAGAGATTTTGATATTCA
1 TTAGAAATTTTGGTATTCA
*
63534256 TTAGAAATTTTAGTAT
1 TTAGAAATTTTGGTAT
63534272 ATTATTTGCC
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
19 32 0.55
20 25 0.43
21 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (19 bp):
TTAGAAATTTTGGTATTCA
Found at i:63534854 original size:13 final size:14
Alignment explanation
Indices: 63534826--63534858 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
63534816 TTTCCGTGAA
*
63534826 ATTTATTCATAAAT
1 ATTTATTCAGAAAT
63534840 ATTTATT-AGAAAT
1 ATTTATTCAGAAAT
63534853 ATTTAT
1 ATTTAT
63534859 GAATTATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (14 bp):
ATTTATTCAGAAAT
Found at i:63549499 original size:204 final size:210
Alignment explanation
Indices: 63549119--63549537 Score: 622
Period size: 204 Copynumber: 2.0 Consensus size: 210
63549109 TAAGAACTTG
*
63549119 CTCAATTCAGAACCATTATCCAACAAACCATTCATGAAGAATATAAAAAAAAATAAAATCATCAT
1 CTCAATTCAAAACCATTATCCAACAAACCATTCATGAAGAATATAAAAAAAAATAAAATCATCAT
*
63549184 AAAACCATTCCAAGTAAGTCAATCAACCGTAAAATTAGAGCTTATAGCAAATGAAACTACTTGCA
66 AAAACCATTCCAAGTAAGTCAATCAACCGTAAAATTAGAGCTCATAGCAAATG-AACTACTTGCA
* *
63549249 TTCATGCAAATGAAGTTTCCATACTATTCTCATAATGTCACATAAGACATAAGGCTTCAACAACT
130 TGCATGCAAATGAAGTTTCCATACTATTCTCATAATGTCACATAAGACATAAGCCTTCAACAACT
63549314 ACATCACAACC-ATGC
195 ACATCACAACCAATGC
* * * *
63549329 CTCAATTCAAAACCATTATCTAACAGACCATTCATGAAGAATAT-TAACAAAATAAAATCAT-AT
1 CTCAATTCAAAACCATTATCCAACAAACCATTCATGAAGAATATAAAAAAAAATAAAATCATCAT
* *
63549392 AAAACCATTCTAAGTAAGTCAA-CTAATCGTAAAATCTA-AGCTCATAGCAAATG-A-T-CTTGC
66 AAAACCATTCCAAGTAAGTCAATC-AACCGTAAAAT-TAGAGCTCATAGCAAATGAACTACTTGC
* * *
63549452 ATGCATGCAAATGAGGTTTCCATA-TGATTCTCGTAATGTCACATAAGACATAAGCCTTTAACAA
129 ATGCATGCAAATGAAGTTTCCATACT-ATTCTCATAATGTCACATAAGACATAAGCCTTCAACAA
63549516 CTACATCACAACCAATGC
193 CTACATCACAACCAATGC
63549534 CTCA
1 CTCA
63549538 TGTACTGAAT
Statistics
Matches: 192, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
203 1 0.01
204 75 0.39
205 9 0.05
206 1 0.01
207 1 0.01
208 47 0.24
209 17 0.09
210 41 0.21
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.26
Consensus pattern (210 bp):
CTCAATTCAAAACCATTATCCAACAAACCATTCATGAAGAATATAAAAAAAAATAAAATCATCAT
AAAACCATTCCAAGTAAGTCAATCAACCGTAAAATTAGAGCTCATAGCAAATGAACTACTTGCAT
GCATGCAAATGAAGTTTCCATACTATTCTCATAATGTCACATAAGACATAAGCCTTCAACAACTA
CATCACAACCAATGC
Found at i:63550638 original size:14 final size:15
Alignment explanation
Indices: 63550614--63550642 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63550604 GGCCTGCCCA
63550614 TATTAATTTTTATAT
1 TATTAATTTTTATAT
63550629 TATT-ATTTTTATAT
1 TATTAATTTTTATAT
63550643 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTAATTTTTATAT
Found at i:63562169 original size:5 final size:5
Alignment explanation
Indices: 63562141--63562182 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
63562131 TAGGAATATA
* *
63562141 TTATT TTGTT TTATT ATT-TA TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT -TTATT TTATT TTATT TTATT TTATT TT
63562183 TATTAATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:63562171 original size:25 final size:24
Alignment explanation
Indices: 63562141--63562187 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
63562131 TAGGAATATA
*
63562141 TTATTTTGTTTTATTATTTATTATT
1 TTATTTTATTTTATT-TTTATTATT
63562166 TTATTTTATTTTATTTTTATTA
1 TTATTTTATTTTATTTTTATTA
63562188 ATGTAGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (24 bp):
TTATTTTATTTTATTTTTATTATT
Found at i:63566479 original size:4 final size:4
Alignment explanation
Indices: 63566470--63566499 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
63566460 TTGCTTGTGC
63566470 ATAA ATAA ATAA ATAA ATAAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA A
63566500 GGTTCAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:63568193 original size:44 final size:45
Alignment explanation
Indices: 63568103--63568231 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
63568093 GACAGAACGA
*
63568103 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
63568149 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
63568193 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
63568232 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:63573278 original size:207 final size:203
Alignment explanation
Indices: 63572887--63573280 Score: 632
Period size: 207 Copynumber: 1.9 Consensus size: 203
63572877 ACTTTGGCGC
* *
63572887 AAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAACGAAAGTTTTGTTTGTATACCACAAAAGGCC
1 AAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGG-C
63572952 CTGCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGG
65 CTGCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGG
*
63573017 GAATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTTGGTATTTGTCCCAATAG
130 GAATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGTCCCAATAG
63573082 ACTTTGTCA
195 ACTTTGTCA
63573091 AAGTGCTGTATGCTTTTCTTAAAAAGCGAAAAAGAATAG-AAGTTTTGTTTGTATACCACAAAAG
1 AAGTGCTGTATGCTTTTCTTAAAAA--GAAAAAGAA-AGAAAGTTTTGTTTGTATACCACAAAAG
* *
63573155 G-CT-CGTCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCTGGTTCTCACCCTTTTGATCCTTC
63 GCCTGCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCC-TTTGATCCTTC
* *
63573218 CGGGAAGCATCAGAATCTGGTGATACACTTCTTGCATTGCTAGGATCAGCGTTCGGTATTTGT
127 CGGG-A--ATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGT
63573281 TCGATAGATT
Statistics
Matches: 176, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
203 46 0.26
204 42 0.24
205 1 0.01
206 34 0.19
207 53 0.30
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (203 bp):
AAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGGCC
TGCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGGG
AATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGTCCCAATAGA
CTTTGTCA
Found at i:63582468 original size:2 final size:2
Alignment explanation
Indices: 63582461--63582497 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
63582451 CATAAAATTA
63582461 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
63582498 ATTACCGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63586245 original size:409 final size:403
Alignment explanation
Indices: 63585379--63586359 Score: 1469
Period size: 404 Copynumber: 2.4 Consensus size: 403
63585369 AGTGTGAGGA
63585379 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAG-T
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
* * * *
63585443 TCATTGACATATATTACAAAGGATAGTCATCCTTCCCCTAGTTGAAAAATGTAATTATAATAGTA
66 TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCT-GTTGAAGAACGTAATTATAATAGTA
* *
63585508 AATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATATTCATACATCCTCCGGGT
130 AATCAAATACATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGGT
** * * *
63585573 TATGAATGTAAGTTGTATAAGGAATTACATGAAAAAATGTGCAAAAGTTGAAAGCGAATTTTGGA
195 TACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGGTGAAAGCGAATTTTGGA
* * *
63585638 CTTTCTTGTTCCGGGTGTTTGCTTGTTATAAAGTATTAAAAATAACTTTACAATATTACCAACTT
260 CTTTCTTGTTCCAGGTGTTTACTTGTTATAAAGTATTAAAAACAACTTTACAATATTACCAACTT
* * * *
63585703 TCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCGTTTATGTGTTATTA
325 TCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCAACATCATTCATATGTTATTA
63585768 AAATAAAACAGAAC
390 AAATAAAACAGAAC
*
63585782 TGAACATTCCATATGGCTTGTTATAAATTCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
* *
63585847 TCGTTGACGTATATTACAAAGGATAGTCATCGTTCTTCCTGTTGAAGAACGTAATTATAATAGTA
66 TCATTGACGTATATTACAAAGGATAGTCATCCTTC-TCCTGTTGAAGAACGTAATTATAATAGTA
* * *
63585912 AATCAAATACATAATTTAGCCGGGTGAAGTATGTATTAACAGATATACTCATACGTCCTCCGGGT
130 AATCAAATACATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGGT
* * * * * *
63585977 TACAAATGTAAATTGTATAAGGACTTAAATGCAAAACTGTGTAAACGGTGAAGGCGAATTTTGGA
195 TACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGGTGAAAGCGAATTTTGGA
*
63586042 CTTTCTTGTTCTAGGTGTTTACTTGTTATAAAACCGAGTATTAAAAACAACTTTACAATATTACC
260 CTTTCTTGTTCCAGGTGTTTACTTGTTAT--AA---AGTATTAAAAACAACTTTACAATATTACC
* *
63586107 AACTTTCATTGACTATATAATCCACGAGTTTGCCTTAAATATTAATGTCAATATCATTCATATGT
320 AACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCAACATCATTCATATGT
63586172 TATTAAAATAAAACAGAAC
385 TATTAAAATAAAACAGAAC
* * * *
63586191 TGAACATTCCATATGACTTGTTATATATCCGAGTATTAATAACAACTCTACGATAGTAAAAAAGT
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATA-TTAAAAAGT
* ** * *
63586256 TTCATTGATGTATATTACAAATAATAGTCATCCTTCTCCCGATTGAAGAACGTAATTATAATTGT
65 TTCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCTG-TTGAAGAACGTAATTATAATAGT
* * *
63586321 AAATCAAATTCATAATTTAGCCGAATGATGTATGTATTA
129 AAATCAAATACATAATTTAGCCGGATGAAGTATGTATTA
63586360 GCCGGATGAA
Statistics
Matches: 520, Mismatches: 49, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
403 62 0.12
404 196 0.38
405 3 0.01
406 2 0.00
409 161 0.31
410 96 0.18
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (403 bp):
TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCTGTTGAAGAACGTAATTATAATAGTAA
ATCAAATACATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGGTT
ACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGGTGAAAGCGAATTTTGGAC
TTTCTTGTTCCAGGTGTTTACTTGTTATAAAGTATTAAAAACAACTTTACAATATTACCAACTTT
CATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCAACATCATTCATATGTTATTAA
AATAAAACAGAAC
Found at i:63596018 original size:16 final size:16
Alignment explanation
Indices: 63595988--63596026 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
63595978 AGTTGAATCC
63595988 TAAAAGTTATAAGAAT
1 TAAAAGTTATAAGAAT
63596004 TAAATAGTTAT-AGAAT
1 TAAA-AGTTATAAGAAT
63596020 TAAAAGT
1 TAAAAGT
63596027 GAGAAGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.59
17 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATAAGAAT
Found at i:63597149 original size:33 final size:33
Alignment explanation
Indices: 63597112--63597205 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
63597102 TGGTACAATT
** * *
63597112 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTACACTTTGTGTATACCACA
63597145 TGAAAAGGAAAGGTACACTTTGTGTATACCACA
1 TGAAAAGGAAAGGTACACTTTGTGTATACCACA
*
63597178 TGAAAAGGAAAAGTACACTATATGTGTA
1 TGAAAAGGAAAGGTACACT-T-TGTGTA
63597206 CATTTGAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 47 0.87
34 1 0.02
35 6 0.11
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (33 bp):
TGAAAAGGAAAGGTACACTTTGTGTATACCACA
Found at i:63597212 original size:98 final size:99
Alignment explanation
Indices: 63597104--63597283 Score: 222
Period size: 98 Copynumber: 1.8 Consensus size: 99
63597094 TACCCAAATG
* * *
63597104 GTACAATTTGAAAAGGTTAGGTATACTTTGTGTATAC-CATATG-AAAAGGAAAGGTACACTTTG
1 GTACAATTTGAAAAGGTTAGGTACACTTTGTGTATACAAAT-TGAAAAAGG-AAGGTACACTTCG
63597167 TGTATACCACATGAAAAGGAAAAGTACACTATATGT
64 TGTATACCACATGAAAAGGAAAAGTACACTATATGT
* * * * * *
63597203 GTAC-ATTTGAAATGGTTATGTGCACTTTGTGTGTACAAATTGAAAAAGGTATGTACACTTCGTG
1 GTACAATTTGAAAAGGTTAGGTACACTTTGTGTATACAAATTGAAAAAGGAAGGTACACTTCGTG
* *
63597267 TGTACCACTTGAAAAGG
66 TATACCACATGAAAAGG
63597284 GAATGTGCAC
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
98 56 0.82
99 12 0.18
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (99 bp):
GTACAATTTGAAAAGGTTAGGTACACTTTGTGTATACAAATTGAAAAAGGAAGGTACACTTCGTG
TATACCACATGAAAAGGAAAAGTACACTATATGT
Found at i:63597236 original size:32 final size:31
Alignment explanation
Indices: 63597200--63597314 Score: 88
Period size: 33 Copynumber: 3.5 Consensus size: 31
63597190 GTACACTATA
* * * *
63597200 TGTGTACATTTGAAATGGTTATGTGCACTTTG
1 TGTGTACAATTGAAAAGG-TATGTACACTTCG
63597232 TGTGTACAAATTGAAAAAGGTATGTACACTTCG
1 TGTGTAC-AATTG-AAAAGGTATGTACACTTCG
* * * *
63597265 TGTGTACCACTTGAAAAGGGAATGTGCACCTCAG
1 TGTGTA-CAATTGAAAA-GGTATGTACACTTC-G
63597299 -GTGTACAATTAGAAAA
1 TGTGTACAATT-GAAAA
63597315 TGGAAGGTCC
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
32 15 0.22
33 46 0.68
34 7 0.10
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (31 bp):
TGTGTACAATTGAAAAGGTATGTACACTTCG
Found at i:63597256 original size:33 final size:33
Alignment explanation
Indices: 63597219--63597314 Score: 97
Period size: 33 Copynumber: 2.9 Consensus size: 33
63597209 TTGAAATGGT
*
63597219 TATGTGCACTTTGTGTGTACAAATTGAAAAAGG
1 TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
* * * *
63597252 TATGTACACTTCGTGTGTACCACTTGAAAAGGG
1 TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
* *
63597285 AATGTGCACCTCAG-GTGTAC-AATTAGAAAA
1 TATGTGCACTTC-GTGTGTACAAATT-GAAAA
63597315 TGGAAGGTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
32 3 0.06
33 48 0.92
34 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (33 bp):
TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
Found at i:63598616 original size:15 final size:15
Alignment explanation
Indices: 63598596--63598625 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63598586 CTATCGAGCC
63598596 ATTACCCTTGGAGTA
1 ATTACCCTTGGAGTA
63598611 ATTACCCTTGGAGTA
1 ATTACCCTTGGAGTA
63598626 TTGACATGTG
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:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
ATTACCCTTGGAGTA
Found at i:63602162 original size:30 final size:30
Alignment explanation
Indices: 63602122--63602179 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
63602112 CACGGCCATG
* *
63602122 ACACACGGGCGTGT-GGTCTACCCGTGTGTA
1 ACACAAGGGCGTATGGGTC-ACCCGTGTGTA
63602152 ACACAAGGGCGTATGGGTCACCCGTGTG
1 ACACAAGGGCGTATGGGTCACCCGTGTG
63602180 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (30 bp):
ACACAAGGGCGTATGGGTCACCCGTGTGTA
Found at i:63603626 original size:5 final size:5
Alignment explanation
Indices: 63603611--63603657 Score: 67
Period size: 5 Copynumber: 9.4 Consensus size: 5
63603601 TAAGTAAATA
* * *
63603611 TATAT TGTAT TATAT TATAT TTTAT TATAT CATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
63603658 AAGAATACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:63603701 original size:11 final size:10
Alignment explanation
Indices: 63603679--63603739 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
63603669 AAAATAAATA
63603679 AAAGAAAAAG
1 AAAGAAAAAG
63603689 AAAGAACAAAG
1 AAAGAA-AAAG
*
63603700 AAACGAAACAG
1 AAA-GAAAAAG
*
63603711 AAAGGAAGAAG
1 AAA-GAAAAAG
*
63603722 -AA-AAAGAG
1 AAAGAAAAAG
63603730 AAAGAAAAAG
1 AAAGAAAAAG
63603740 GAGAAAGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 13 0.32
11 18 0.45
12 3 0.08
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:63605823 original size:18 final size:18
Alignment explanation
Indices: 63605802--63605898 Score: 113
Period size: 18 Copynumber: 5.4 Consensus size: 18
63605792 TGATCAATTG
*
63605802 TTCAGTAACAGTCGGTTA
1 TTCAGTAACAGTCAGTTA
*
63605820 TTCAGTAACAGTCAATTA
1 TTCAGTAACAGTCAGTTA
* * *
63605838 TTCAATAATAATCAGTTA
1 TTCAGTAACAGTCAGTTA
* *
63605856 TTCAGTAACAGTTAATTA
1 TTCAGTAACAGTCAGTTA
*
63605874 TTCAGTAGCAGTCAGTTA
1 TTCAGTAACAGTCAGTTA
*
63605892 TTTAGTA
1 TTCAGTA
63605899 CCTTTATTTA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (18 bp):
TTCAGTAACAGTCAGTTA
Found at i:63605823 original size:36 final size:36
Alignment explanation
Indices: 63605795--63605898 Score: 136
Period size: 36 Copynumber: 2.9 Consensus size: 36
63605785 TCAGTAATGA
* *
63605795 TCAATTGTTCAGTAACAGTCGGTTATTCAGTAACAG
1 TCAATTATTCAGTAACAGTCAGTTATTCAGTAACAG
* * *
63605831 TCAATTATTCAATAATAATCAGTTATTCAGTAACAG
1 TCAATTATTCAGTAACAGTCAGTTATTCAGTAACAG
* * *
63605867 TTAATTATTCAGTAGCAGTCAGTTATTTAGTA
1 TCAATTATTCAGTAACAGTCAGTTATTCAGTA
63605899 CCTTTATTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (36 bp):
TCAATTATTCAGTAACAGTCAGTTATTCAGTAACAG
Found at i:63605861 original size:54 final size:54
Alignment explanation
Indices: 63605783--63605893 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 54
63605773 TATCAATATC
* * * **
63605783 ATTCAGTAATGATCAATTGTTCAGTAACAGTCGGTTATTCAGTAACAGTCAATT
1 ATTCAATAATAATCAATTATTCAGTAACAGTCAATTATTCAGTAACAGTCAATT
* * * *
63605837 ATTCAATAATAATCAGTTATTCAGTAACAGTTAATTATTCAGTAGCAGTCAGTT
1 ATTCAATAATAATCAATTATTCAGTAACAGTCAATTATTCAGTAACAGTCAATT
63605891 ATT
1 ATT
63605894 TAGTACCTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (54 bp):
ATTCAATAATAATCAATTATTCAGTAACAGTCAATTATTCAGTAACAGTCAATT
Found at i:63606119 original size:45 final size:45
Alignment explanation
Indices: 63606024--63606123 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
63606014 TAACGGTAGC
* * *
63606024 AGTAACAGTAACAGTATTCAACACACAAAGTGTTAAATCTGCAAC
1 AGTAACAGTAACAATATTCAACACACAAAGTGTTAAATCGGCAAA
* * ** *
63606069 TGTAACGGTAACAATATTTGACACACAAAGTGTCT-AATCGGTAAA
1 AGTAACAGTAACAATATTCAACACACAAAGTGT-TAAATCGGCAAA
63606114 AGTAACAGTA
1 AGTAACAGTA
63606124 GTCGGCACAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
45 43 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (45 bp):
AGTAACAGTAACAATATTCAACACACAAAGTGTTAAATCGGCAAA
Found at i:63607319 original size:21 final size:21
Alignment explanation
Indices: 63607295--63607374 Score: 52
Period size: 24 Copynumber: 3.5 Consensus size: 21
63607285 TAAATTTTCC
*
63607295 CTTTTCTTCTTTCCTTTCTTT
1 CTTTTCTTCTTTCATTTCTTT
* *
63607316 CTTTTTTTCCTTCATTCTCTGTT
1 CTTTTCTTCTTTCATT-TCT-TT
* **
63607339 TTGTTTCTTCTATTTTGTTTCTTT
1 CT-TTTCTTC--TTTCATTTCTTT
63607363 CTTCTTCTTCTT
1 CTT-TTCTTCTT
63607375 CTTTTTAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
21 13 0.30
22 5 0.11
23 4 0.09
24 15 0.34
25 3 0.07
26 4 0.09
ACGTcount: A:0.03, C:0.24, G:0.04, T:0.70
Consensus pattern (21 bp):
CTTTTCTTCTTTCATTTCTTT
Found at i:63609563 original size:31 final size:31
Alignment explanation
Indices: 63609522--63609585 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
63609512 CCTTTTCATA
* *
63609522 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
**
63609553 TTTCAAATTTCATATTACTAGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
63609584 TT
1 TT
63609586 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTAGGCCGAAGCCT
Found at i:63609830 original size:24 final size:24
Alignment explanation
Indices: 63609778--63609967 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
63609768 GCTTTATCAT
* *
63609778 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
63609803 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
63609827 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
63609850 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
63609874 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
63609898 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
63609922 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
63609945 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63609968 TCACTTCCTC
Statistics
Matches: 154, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 99 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:63609858 original size:47 final size:48
Alignment explanation
Indices: 63609777--63609968 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
63609767 TGCTTTATCA
* *
63609777 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
* *
63609826 TATAACTGGGGCATAAGCCC-TTTGATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
63609873 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
63609921 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
63609968 T
1 T
63609969 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 69 0.52
48 51 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:63609879 original size:71 final size:72
Alignment explanation
Indices: 63609778--63609968 Score: 298
Period size: 71 Copynumber: 2.7 Consensus size: 72
63609768 GCTTTATCAT
* *
63609778 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
63609842 GCCC-TTTG
64 GCCCTTTTG
* * *
63609850 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
63609915 CCTTTTG
66 CCTTTTG
63609922 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
63609969 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
71 76 0.69
72 34 0.31
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTG
Found at i:63610039 original size:9 final size:9
Alignment explanation
Indices: 63610025--63610101 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
63610015 ATCTCGTGTG
63610025 CATATCATA
1 CATATCATA
*
63610034 CATATCATGTG
1 CATATCA--TA
63610045 CATATCATA
1 CATATCATA
* *
63610054 CATGTCATGTG
1 CATATCA--TA
63610065 CATATCATA
1 CATATCATA
*
63610074 CATATCATGTG
1 CATATCA--TA
63610085 CATATCATA
1 CATATCATA
63610094 CATATCAT
1 CATATCAT
63610102 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:63610044 original size:20 final size:20
Alignment explanation
Indices: 63610021--63610103 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
63610011 GAACATCTCG
63610021 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
63610041 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
63610061 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
63610081 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
63610101 TGT
1 TGT
63610104 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:63610050 original size:11 final size:11
Alignment explanation
Indices: 63610021--63610092 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
63610011 GAACATCTCG
63610021 TGTGCATATCA
1 TGTGCATATCA
*
63610032 --TACATATCA
1 TGTGCATATCA
63610041 TGTGCATATCA
1 TGTGCATATCA
* *
63610052 --TACATGTCA
1 TGTGCATATCA
63610061 TGTGCATATCA
1 TGTGCATATCA
*
63610072 --TACATATCA
1 TGTGCATATCA
63610081 TGTGCATATCA
1 TGTGCATATCA
63610092 T
1 T
63610093 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:63610168 original size:25 final size:25
Alignment explanation
Indices: 63610140--63610187 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63610130 ATGTATAAAC
* * *
63610140 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63610165 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63610188 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63611441 original size:27 final size:27
Alignment explanation
Indices: 63611420--63611946 Score: 375
Period size: 27 Copynumber: 19.6 Consensus size: 27
63611410 AAGGGTATTT
* *
63611420 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
63611447 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* * *
63611474 CA--AATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* * *
63611499 TGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** *
63611526 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* * **
63611553 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCAAGGGTAAAA
* * * *
63611580 TGGTAATTATGTAAATTAGGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** * *
63611607 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* *
63611634 TAGTAATTCTGTAAA-CTGATGGTAAAA
1 TAGTAATTCTGTAAATC-AAGGGTAAAA
** * *
63611661 CGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** * ** *
63611688 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** * *
63611715 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* *
63611742 CAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* *
63611769 TAATAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-AAGGGTAAAA
* *
63611796 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** * ** *
63611823 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** * *
63611850 CGGTAATTCTATAAAT-GAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
** * ** *
63611876 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCAAGGGTAAAA
* * *
63611903 CAGTAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-AAGGGTAAAA
**
63611930 CGGTAATTCTGTAAATC
1 TAGTAATTCTGTAAATC
63611947 GGGAGTACTT
Statistics
Matches: 433, Mismatches: 56, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
25 21 0.05
26 28 0.06
27 380 0.88
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCAAGGGTAAAA
Found at i:63611604 original size:81 final size:81
Alignment explanation
Indices: 63611422--63611947 Score: 618
Period size: 81 Copynumber: 6.5 Consensus size: 81
63611412 GGGTATTTTA
** *
63611422 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC-A-AATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
*
63611485 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * *
63611501 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
* *
63611566 AATCGGGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * *
63611582 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA-TAGTAATTCTG
1 GTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTA
*
63611645 TAAA-CTGATGGTAAAACG
64 TAAATC-GAGGGTAAAACG
* ** *
63611663 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
*
63611728 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* *** * * *
63611744 GTAATTTTGTAAATCAAGGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTGT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTAT
63611808 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
** * * * *
63611825 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAAT-GAGGGTAAAACGGTAATTTTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
*
63611889 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* *
63611905 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
63611948 GGAGTACTTT
Statistics
Matches: 384, Mismatches: 51, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
79 49 0.13
80 75 0.20
81 258 0.67
82 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAACG
Found at i:63611964 original size:54 final size:54
Alignment explanation
Indices: 63611422--63611947 Score: 616
Period size: 54 Copynumber: 9.8 Consensus size: 54
63611412 GGGTATTTTA
* ** * *
63611422 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * *
63611475 -AAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * * * *
63611528 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * **
63611582 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * *
63611636 GTAATTCTGTAAA-CTGATGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* ** *
63611690 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * *** * *
63611744 GTAATTTTGTAAATCAAGGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACG
* *
63611798 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * * *
63611852 GTAATTCTATAAAT-GAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* *
63611905 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCG
63611948 GGAGTACTTT
Statistics
Matches: 405, Mismatches: 58, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
52 46 0.11
53 53 0.13
54 303 0.75
55 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
Found at i:63614666 original size:31 final size:31
Alignment explanation
Indices: 63614625--63614688 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63614615 CCTTTTCATA
*
63614625 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
63614656 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
63614687 TT
1 TT
63614689 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:63614983 original size:24 final size:24
Alignment explanation
Indices: 63614881--63615068 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
63614871 GCTTTATCAT
* *
63614881 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
63614906 ATAACTGGGGCAAAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
63614929 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTG
63614951 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
63614975 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
63614999 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
63615023 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
63615046 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63615069 TCACTTCCTC
Statistics
Matches: 155, Mismatches: 4, Indels: 9
0.92 0.02 0.05
Matches are distributed among these distances:
22 22 0.14
23 43 0.28
24 78 0.50
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:63615140 original size:9 final size:9
Alignment explanation
Indices: 63615126--63615202 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
63615116 ATCTCGTGTG
63615126 CATATCATA
1 CATATCATA
*
63615135 CATATCATGTG
1 CATATCA--TA
63615146 CATATCATA
1 CATATCATA
* *
63615155 CATGTCATGTG
1 CATATCA--TA
63615166 CATATCATA
1 CATATCATA
*
63615175 CATATCATGTG
1 CATATCA--TA
63615186 CATATCATA
1 CATATCATA
63615195 CATATCAT
1 CATATCAT
63615203 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:63615145 original size:20 final size:20
Alignment explanation
Indices: 63615122--63615204 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
63615112 GAACATCTCG
63615122 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
63615142 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
63615162 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
63615182 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
63615202 TGT
1 TGT
63615205 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:63615151 original size:11 final size:11
Alignment explanation
Indices: 63615122--63615193 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
63615112 GAACATCTCG
63615122 TGTGCATATCA
1 TGTGCATATCA
*
63615133 --TACATATCA
1 TGTGCATATCA
63615142 TGTGCATATCA
1 TGTGCATATCA
* *
63615153 --TACATGTCA
1 TGTGCATATCA
63615162 TGTGCATATCA
1 TGTGCATATCA
*
63615173 --TACATATCA
1 TGTGCATATCA
63615182 TGTGCATATCA
1 TGTGCATATCA
63615193 T
1 T
63615194 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:63615269 original size:25 final size:25
Alignment explanation
Indices: 63615240--63615287 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63615230 CATTATAAAC
* * *
63615240 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63615265 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63615288 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63616539 original size:27 final size:27
Alignment explanation
Indices: 63616519--63617047 Score: 566
Period size: 27 Copynumber: 19.6 Consensus size: 27
63616509 AGGGTATTTT
*
63616519 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63616546 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
63616573 AATAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63616600 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63616627 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63616654 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
63616680 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
63616707 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63616734 AGTAATTTTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
63616761 GGCAATTCTGTAAATCCAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
63616788 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63616815 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
63616842 AGTAATTTTATAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63616869 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
63616896 GGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
63616923 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63616950 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
63616977 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63617004 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
63617031 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
63617048 GGAGTACTTT
Statistics
Matches: 433, Mismatches: 58, Indels: 22
0.84 0.11 0.04
Matches are distributed among these distances:
26 25 0.06
27 405 0.94
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:63616605 original size:81 final size:81
Alignment explanation
Indices: 63616520--63617047 Score: 625
Period size: 81 Copynumber: 6.5 Consensus size: 81
63616510 GGGTATTTTA
* * * **
63616520 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
63616585 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * *
63616601 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
63616666 AATCG-GGGTAAAATG
66 AATCGAGGGTAAAACG
* * * ** * *
63616681 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
63616745 AAA-CTGAGGGTAAAATG
65 AAATC-GAGGGTAAAACG
* * * **
63616762 GCAATTCTGTAAATCCAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
63616827 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* * * *** *
63616843 GTAATTTTATAAATCAAGGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTAT
*
63616907 AAATTGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* ** * * *
63616924 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
63616989 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
*
63617005 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
63617048 GGAGTACTTT
Statistics
Matches: 388, Mismatches: 51, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.01
80 71 0.18
81 312 0.80
82 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:63617064 original size:54 final size:54
Alignment explanation
Indices: 63616520--63617047 Score: 625
Period size: 54 Copynumber: 9.8 Consensus size: 54
63616510 GGGTATTTTA
* * * * *
63616520 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
63616574 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
63616628 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * **
63616681 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
63616735 GTAATTTTGTAAA-CTGAGGGTAAAATGGCAATTCTGTAAATCCAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
63616789 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * ***
63616843 GTAATTTTATAAATCAAGGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
* * * **
63616897 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ** *
63616951 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
63617005 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
63617048 GGAGTACTTT
Statistics
Matches: 409, Mismatches: 57, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
52 1 0.00
53 47 0.11
54 358 0.88
55 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:63624220 original size:20 final size:20
Alignment explanation
Indices: 63624180--63624216 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
63624170 TTTCAAATAT
63624180 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
63624200 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
63624217 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:63625071 original size:33 final size:33
Alignment explanation
Indices: 63625032--63625106 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
63625022 AGAAATTATA
63625032 ATTTTACCATATATTAACTTAAGATTTTATAAT
1 ATTTTACCATATATTAACTTAAGATTTTATAAT
63625065 ATTTTACCATATATTAACTTAAGATTTTATAAT
1 ATTTTACCATATATTAACTTAAGATTTTATAAT
63625098 ATTTTACCA
1 ATTTTACCA
63625107 ATTGAAGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.48
Consensus pattern (33 bp):
ATTTTACCATATATTAACTTAAGATTTTATAAT
Found at i:63627568 original size:37 final size:37
Alignment explanation
Indices: 63627518--63627593 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
63627508 GAGAGTAATG
63627518 TATAATTCAAAAGTCAGTATTTTATAATTAGTTAAAA
1 TATAATTCAAAAGTCAGTATTTTATAATTAGTTAAAA
63627555 TATAATTCAAAAGTCAGTATTTTATAATTAGTTAAAA
1 TATAATTCAAAAGTCAGTATTTTATAATTAGTTAAAA
63627592 TA
1 TA
63627594 ATTACTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (37 bp):
TATAATTCAAAAGTCAGTATTTTATAATTAGTTAAAA
Found at i:63632760 original size:13 final size:13
Alignment explanation
Indices: 63632742--63632768 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63632732 GGAGTAATCG
63632742 CACACGGGTGTGT
1 CACACGGGTGTGT
63632755 CACACGGGTGTGT
1 CACACGGGTGTGT
63632768 C
1 C
63632769 CTTGCAGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACACGGGTGTGT
Found at i:63632912 original size:30 final size:30
Alignment explanation
Indices: 63632876--63632937 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
63632866 AGGGGGAAAC
63632876 AGAGTAGGAGGCAAGGAATTACTCAAGGGA
1 AGAGTAGGAGGCAAGGAATTACTCAAGGGA
63632906 AGAGTAGGAGGCAAGGAATTACTCAAGGGA
1 AGAGTAGGAGGCAAGGAATTACTCAAGGGA
63632936 AG
1 AG
63632938 CCGATTGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.37, T:0.13
Consensus pattern (30 bp):
AGAGTAGGAGGCAAGGAATTACTCAAGGGA
Found at i:63639636 original size:29 final size:30
Alignment explanation
Indices: 63639579--63639646 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
63639569 CACCCTTAAA
* * * *
63639579 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
63639609 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
63639638 AGTATTTAC
1 A-TATTTAC
63639647 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:63645987 original size:16 final size:17
Alignment explanation
Indices: 63645956--63645988 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63645946 TTCATAAGTA
63645956 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
63645973 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
63645989 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:63646334 original size:46 final size:46
Alignment explanation
Indices: 63646269--63646538 Score: 355
Period size: 46 Copynumber: 5.9 Consensus size: 46
63646259 TTATCTTTGA
* * * * ** * *
63646269 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
* * ****
63646315 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT-CTTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTTATAT
63646360 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
* *
63646406 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
*
63646452 CATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
*
63646498 CTTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
63646539 CATTTCAGAA
Statistics
Matches: 200, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 40 0.20
46 160 0.80
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
Found at i:63651765 original size:16 final size:17
Alignment explanation
Indices: 63651744--63651778 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
63651734 CAATAACAAG
*
63651744 TTTTCTAAT-TATAGTT
1 TTTTCTAATCAATAGTT
63651760 TTTTCTAATCAATAGTT
1 TTTTCTAATCAATAGTT
63651777 TT
1 TT
63651779 ATTTTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTCTAATCAATAGTT
Found at i:63652280 original size:17 final size:17
Alignment explanation
Indices: 63652258--63652291 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63652248 ACTAATCACT
*
63652258 TAAAAGAGAATAAATAA
1 TAAAAGACAATAAATAA
*
63652275 TAAAAGACACTAAATAA
1 TAAAAGACAATAAATAA
63652292 AAATTTCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (17 bp):
TAAAAGACAATAAATAA
Found at i:63661170 original size:36 final size:35
Alignment explanation
Indices: 63661130--63661242 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 35
63661120 ACCATGGTTG
*
63661130 ATCCATAGAAAAATTTTGAAACGTAGGTATGGTATC
1 ATCCATA-AAAAATTGTGAAACGTAGGTATGGTATC
*** * *
63661166 ATCCATACTGAGTTGTGAAACGTAGGTATGGTATT
1 ATCCATAAAAAATTGTGAAACGTAGGTATGGTATC
* *** * * *
63661201 AACCATACTGAGTTGTGAAACGTAAGTATGGTATT
1 ATCCATAAAAAATTGTGAAACGTAGGTATGGTATC
63661236 ATCCATA
1 ATCCATA
63661243 CTGAGTTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 61 0.90
36 7 0.10
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (35 bp):
ATCCATAAAAAATTGTGAAACGTAGGTATGGTATC
Found at i:63661185 original size:35 final size:35
Alignment explanation
Indices: 63661146--63661266 Score: 190
Period size: 35 Copynumber: 3.5 Consensus size: 35
63661136 AGAAAAATTT
*
63661146 TGAAACGTAGGTATGGTATCATCCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTTG
*
63661181 TGAAACGTAGGTATGGTATTAACCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTTG
* *
63661216 TGAAACGTAAGTATGGTATTATCCATACTGAGTTAA
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTT-G
63661252 T-AAACGTAGGTATGG
1 TGAAACGTAGGTATGG
63661267 CATTTCCTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 78 0.99
36 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATTATCCATACTGAGTTG
Found at i:63661924 original size:18 final size:17
Alignment explanation
Indices: 63661903--63661958 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
63661893 TAATAGTCAG
63661903 TTATTCGATAACAATCAA
1 TTATTC-ATAACAATCAA
* *
63661921 TTATTCAATAATAATCAG
1 TTATTC-ATAACAATCAA
*
63661939 TTATTCAGTATCAATCAA
1 TTATTCA-TAACAATCAA
63661957 TT
1 TT
63661959 GATCGGTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (17 bp):
TTATTCATAACAATCAA
Found at i:63662010 original size:18 final size:19
Alignment explanation
Indices: 63661989--63662030 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
63661979 CCAATTATTT
63661989 AGTAAAAATCAAA-TATAC
1 AGTAAAAATCAAATTATAC
* * *
63662007 AGTAACAATTAAATTATTC
1 AGTAAAAATCAAATTATAC
63662026 AGTAA
1 AGTAA
63662031 CAGTCAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (19 bp):
AGTAAAAATCAAATTATAC
Found at i:63662030 original size:19 final size:19
Alignment explanation
Indices: 63661981--63662037 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
63661971 AGTAACAGCC
* *
63661981 AATTATTTAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
63662000 AA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
*
63662018 AATTATTCAGTAACAGTCA
1 AATTATTCAGTAACAATCA
63662037 A
1 A
63662038 TCTTTCCAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:63662426 original size:28 final size:23
Alignment explanation
Indices: 63662371--63662415 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
63662361 CTAGCCTGAC
63662371 TAGTTAATAGGGTATTTAATTTT
1 TAGTTAATAGGGTATTTAATTTT
63662394 TAGTTAATAGGGTATTTAATTT
1 TAGTTAATAGGGTATTTAATTT
63662416 ACTTTTCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (23 bp):
TAGTTAATAGGGTATTTAATTTT
Found at i:63662455 original size:20 final size:22
Alignment explanation
Indices: 63662427--63662482 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
63662417 CTTTTCAGTT
63662427 TTCAATTAATTCATATTTT-AA
1 TTCAATTAATTCATATTTTCAA
*
63662448 TT-AATTAATTATATATTTTCAA
1 TTCAATTAATT-CATATTTTCAA
63662470 TTCAATATAATTC
1 TTCAAT-TAATTC
63662483 CATTCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (22 bp):
TTCAATTAATTCATATTTTCAA
Found at i:63671084 original size:38 final size:38
Alignment explanation
Indices: 63671023--63671320 Score: 359
Period size: 38 Copynumber: 8.1 Consensus size: 38
63671013 ATTTGATGTG
* *
63671023 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* * *
63671063 TATTCAGGTTAAATCCCGCAGGCTTCGTG-TGGGTGTTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GGTATTA
*
63671101 TATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
63671139 TATCC-GG---------G-AGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
63671166 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
63671204 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
**
63671242 TATCCGGGTTAAATCTTGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
63671280 TATCCGGGTTAAATCCCGCAGGCCTAGTACTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
63671318 TAT
1 TAT
63671321 TCAGGCCTTG
Statistics
Matches: 226, Mismatches: 19, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
27 23 0.10
28 3 0.01
37 4 0.02
38 184 0.81
39 6 0.03
40 6 0.03
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:63671151 original size:27 final size:27
Alignment explanation
Indices: 63671120--63671173 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
63671110 TAAATCCCGT
*
63671120 AGGCTTCGTGCTGGTATTATATCCGGG
1 AGGCTTCGTGCTGGTAATATATCCGGG
63671147 AGGCTTCGTGCTGGTAATATATCCGGG
1 AGGCTTCGTGCTGGTAATATATCCGGG
63671174 TTAAATCCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (27 bp):
AGGCTTCGTGCTGGTAATATATCCGGG
Found at i:63671227 original size:103 final size:103
Alignment explanation
Indices: 63671044--63671249 Score: 351
Period size: 103 Copynumber: 2.0 Consensus size: 103
63671034 AAAGACCCGC
* **
63671044 AGGCTTCGTGCTGGTAATATATTCAGGTTAAATCCCGCAGGCTTCGTGTGGGTGTTATATCCGGG
1 AGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGTGGGTAATATATCCGGG
*
63671109 TTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCGGG
66 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
*
63671147 AGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GGTAATATATCCGG
1 AGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTG-TGGGTAATATATCCGG
63671211 GTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
65 GTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
63671250 TTAAATCTTG
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 96 0.99
104 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (103 bp):
AGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGTGGGTAATATATCCGGG
TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
Found at i:63671383 original size:45 final size:44
Alignment explanation
Indices: 63671317--63671443 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 44
63671307 TACTAGTATT
* * *
63671317 ATATTCAGGCCTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
*
63671360 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATTCCGGTGACATG
1 A-TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * *
63671406 ATA-TCGAGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
63671444 ACGAATAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 10 0.14
43 16 0.22
44 15 0.21
45 31 0.42
46 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (44 bp):
ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:63673581 original size:98 final size:98
Alignment explanation
Indices: 63673475--63673653 Score: 243
Period size: 98 Copynumber: 1.8 Consensus size: 98
63673465 CGCCTCTATT
* * * **
63673475 GTGGAAGATGGTTAGGAATGAGTAATAAAGTATTAAATTTCCAAAGTAGACAGATAAATGCGTAA
1 GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
63673540 GTGAG-AAAAACTAAAATTTCTGATTTTGCCCCC
66 GTG-GCAAAAACTAAAATTTCTGATTTTGCCCCC
* * * ***
63673573 GTGGAAGATGATTAAGCATGAGTAATGAAGCATTAAATTTTCAAAGTAGTTGGATAAATGCACAA
1 GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
63673638 GTGGCAAAAACTAAAA
66 GTGGCAAAAACTAAAA
63673654 GTTTATATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
97 1 0.01
98 68 0.99
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (98 bp):
GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
GTGGCAAAAACTAAAATTTCTGATTTTGCCCCC
Found at i:63677846 original size:4 final size:4
Alignment explanation
Indices: 63677837--63677863 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
63677827 TTATAAAATT
63677837 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
63677864 TTGTTGGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:63678007 original size:7 final size:7
Alignment explanation
Indices: 63677995--63678020 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
63677985 TCACTTTAAA
63677995 AATTTAT
1 AATTTAT
63678002 AATTTAT
1 AATTTAT
63678009 AATTTAT
1 AATTTAT
63678016 AATTT
1 AATTT
63678021 TTTACCAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:63688580 original size:9 final size:9
Alignment explanation
Indices: 63688568--63688622 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
63688558 ATTTTTTTGG
63688568 AATTTTTAA
1 AATTTTTAA
63688577 AATTTTTAA
1 AATTTTTAA
*
63688586 AA-ATTT-A
1 AATTTTTAA
*
63688593 AA-TTTTGA
1 AATTTTTAA
63688601 AATTTTTATA
1 AATTTTTA-A
63688611 AATATTTTAA
1 AAT-TTTTAA
63688621 AA
1 AA
63688623 ATTAAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 6 0.15
8 6 0.15
9 15 0.38
10 7 0.18
11 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
AATTTTTAA
Found at i:63689437 original size:15 final size:15
Alignment explanation
Indices: 63689391--63689437 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
63689381 ATATATATAT
63689391 ATATATATAATTCAA
1 ATATATATAATTCAA
** *
63689406 ATATA-CCAATTAAAA
1 ATATATATAATT-CAA
63689421 ATATATATAATTCAA
1 ATATATATAATTCAA
63689436 AT
1 AT
63689438 GTGTTTTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATATATAATTCAA
Found at i:63693088 original size:2 final size:2
Alignment explanation
Indices: 63693081--63693109 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
63693071 ATCAAACTTT
63693081 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 T
63693110 TAAATTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63693548 original size:14 final size:14
Alignment explanation
Indices: 63693529--63693600 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 14
63693519 TATCGTATTA
63693529 TTATTATTATTTTG
1 TTATTATTATTTTG
*
63693543 TTATTATTATTTAG
1 TTATTATTATTTTG
*
63693557 ATATTATATAATTCTTG
1 TTATTAT-T-ATT-TTG
*
63693574 TT-TTACTATTAATT-
1 TTATTATTATT--TTG
63693588 TTATTATTATTTT
1 TTATTATTATTTT
63693601 AGAAGCATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
13 2 0.04
14 24 0.52
15 11 0.24
16 6 0.13
17 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (14 bp):
TTATTATTATTTTG
Found at i:63693601 original size:11 final size:11
Alignment explanation
Indices: 63693524--63693601 Score: 52
Period size: 11 Copynumber: 6.9 Consensus size: 11
63693514 TCTGCTATCG
63693524 TATTATTATTAT
1 TATTATT-TTAT
63693536 TATT-TTGTTAT
1 TATTATT-TTAT
*
63693547 TATTA-TTTAGA
1 TATTATTTTA-T
* *
63693558 TATTATATAAT
1 TATTATTTTAT
* * *
63693569 TCTTGTTTTAC
1 TATTATTTTAT
63693580 TATTAATTTTAT
1 TATT-ATTTTAT
63693592 TATTATTTTA
1 TATTATTTTA
63693602 GAAGCATTTG
Statistics
Matches: 49, Mismatches: 13, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
10 3 0.06
11 31 0.63
12 15 0.31
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:63696929 original size:47 final size:47
Alignment explanation
Indices: 63696808--63696985 Score: 218
Period size: 47 Copynumber: 3.8 Consensus size: 47
63696798 ATAGTTTCAC
* *
63696808 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * *
63696854 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* *
63696900 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * * *
63696949 TC-TCACGAACTCAGAACGCAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGAT
63696986 CTCAATTTTC
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
46 44 0.39
47 65 0.57
48 2 0.02
49 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:63700147 original size:39 final size:40
Alignment explanation
Indices: 63700077--63700161 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
63700067 TATAATTAAT
*
63700077 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAAAATTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
* * * * *
63700117 TTTTAATATATTTT-TATTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
63700156 TTTTAA
1 TTTTAA
63700162 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 26 0.67
40 13 0.33
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
Found at i:63701275 original size:20 final size:20
Alignment explanation
Indices: 63701252--63701306 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
63701242 CTTATAAAAT
63701252 ATAATTTATTTAATTATAAA
1 ATAATTTATTTAATTATAAA
*
63701272 ATAAATTTA--AAAGTTATAAA
1 AT-AATTTATTTAA-TTATAAA
63701292 ATAATTT-TTT-ATTAT
1 ATAATTTATTTAATTAT
63701307 TACTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 4 0.14
19 8 0.28
20 11 0.38
21 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATAATTTATTTAATTATAAA
Found at i:63709531 original size:21 final size:21
Alignment explanation
Indices: 63709505--63709545 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63709495 AGACGAGCGA
* *
63709505 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
63709526 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
63709546 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:63712004 original size:2 final size:2
Alignment explanation
Indices: 63711997--63712030 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
63711987 CTATAAATAA
*
63711997 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63712031 GTGCCTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:63713055 original size:62 final size:62
Alignment explanation
Indices: 63712989--63713113 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
63712979 CTGTTCAAAA
63712989 AAAAATTATCAATTAAATGTAATAGTTT-AGATTAAACTATGATGAGTGGATTAATCTATTAC
1 AAAAATTATCAATTAAATGTAATAGTTTGA-ATTAAACTATGATGAGTGGATTAATCTATTAC
* *
63713051 AAAAATTATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGTATTTATCTATTAC
1 AAAAATTATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTAATCTATTAC
63713113 A
1 A
63713114 TATTTTATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 59 0.98
63 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.38
Consensus pattern (62 bp):
AAAAATTATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTAATCTATTAC
Found at i:63713702 original size:5 final size:5
Alignment explanation
Indices: 63713694--63713718 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
63713684 TTCAAAAAAA
63713694 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
63713719 TTAGTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:63715101 original size:18 final size:18
Alignment explanation
Indices: 63715080--63715118 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
63715070 TTTTTTTCAA
63715080 ATTTTTAGATTTTCTAAT
1 ATTTTTAGATTTTCTAAT
* *
63715098 ATTTTTAGTTTTTCTATT
1 ATTTTTAGATTTTCTAAT
63715116 ATT
1 ATT
63715119 GAATTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (18 bp):
ATTTTTAGATTTTCTAAT
Found at i:63715168 original size:42 final size:41
Alignment explanation
Indices: 63715079--63715169 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
63715069 ATTTTTTTCA
* *
63715079 AATTTTTAGATTTTCTAATATTTTTAGTTTTTCTATTATTG
1 AATTTTTAGATTTTCTAATATTTTTAGCTTTTATATTATTG
* *
63715120 AATTTTTATATTTTGTATTATATTTTTA-CTTTTATATTATT-
1 AATTTTTAGATTTTCTA--ATATTTTTAGCTTTTATATTATTG
63715161 ATATTTTTA
1 A-ATTTTTA
63715170 CACTCTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
41 16 0.37
42 18 0.42
43 9 0.21
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.66
Consensus pattern (41 bp):
AATTTTTAGATTTTCTAATATTTTTAGCTTTTATATTATTG
Found at i:63715179 original size:43 final size:43
Alignment explanation
Indices: 63715096--63715180 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
63715086 AGATTTTCTA
* * * *
63715096 ATATTTTTAGTTTTTCTATTATTGAATTTTTATATTTTGTATT
1 ATATTTTTAGCTTTTATATTATTGAATTTTTACATCTTGTATT
63715139 ATATTTTTA-CTTTTATATTATT-ATATTTTTACACTCTTGTAT
1 ATATTTTTAGCTTTTATATTATTGA-ATTTTTACA-TCTTGTAT
63715181 ATCTTTGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 19 0.53
43 16 0.44
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.65
Consensus pattern (43 bp):
ATATTTTTAGCTTTTATATTATTGAATTTTTACATCTTGTATT
Found at i:63715634 original size:3 final size:3
Alignment explanation
Indices: 63715628--63715652 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63715618 TTTTTAATTT
63715628 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
63715653 CTTATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:63715950 original size:6 final size:6
Alignment explanation
Indices: 63715908--63715940 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
63715898 AGTGAGGGTG
63715908 CCATCC CCATCC CCATCC CCATCC CCATCC CCA
1 CCATCC CCATCC CCATCC CCATCC CCATCC CCA
63715941 CAATCCCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.67, G:0.00, T:0.15
Consensus pattern (6 bp):
CCATCC
Found at i:63721661 original size:42 final size:42
Alignment explanation
Indices: 63721615--63721708 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
63721605 CTTCTGCTGG
* *
63721615 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTGC
1 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTAC
* * *
63721657 TCCTACTTCTTCTGGGTTACTTAGGAGTTTTCTTATAACTAC
1 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTAC
*
63721699 TCATACTTCT
1 TCCTACTTCT
63721709 CCTATGACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.43
Consensus pattern (42 bp):
TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTAC
Found at i:63721714 original size:63 final size:63
Alignment explanation
Indices: 63721642--63721771 Score: 233
Period size: 63 Copynumber: 2.1 Consensus size: 63
63721632 TACTTAGGAG
*
63721642 TTCTCCTATGACTGCTCCTACTTCTTCTGGGTTACTTAGGAGTTTTCTTATAACTACTCATAC
1 TTCTCCTATGACTGCTCCTACTTCTTCTGGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
* *
63721705 TTCTCCTATGACTGCTCCTACTTCTTCTGGGTTATTTAGGAGTTTTCCTATAACTACTCCTAC
1 TTCTCCTATGACTGCTCCTACTTCTTCTGGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
63721768 TTCT
1 TTCT
63721772 TCCGGGTAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (63 bp):
TTCTCCTATGACTGCTCCTACTTCTTCTGGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
Found at i:63726037 original size:57 final size:58
Alignment explanation
Indices: 63725968--63726078 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
63725958 GTGCCCACTG
** *
63725968 ACCGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCAGTTAAAAGAACTCGCACACACAGTGCCTCAATT
* * *
63726025 ACCGATTTCGCACACATAGTGCTCAGTTAAAAGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCAGTTAAAAGAACTCGCACACACAGTGCCTC
63726079 TAATCATTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 25 0.53
58 22 0.47
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCAGTTAAAAGAACTCGCACACACAGTGCCTCAATT
Found at i:63726039 original size:29 final size:31
Alignment explanation
Indices: 63726003--63726078 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 31
63725993 GTTGAAGAAC
**
63726003 TCGCACACACAGTGCCTCAATT-ACCG-ATT
1 TCGCACACACAGTGCCTCAATTAAAAGAATT
* *
63726032 TCGCACACATAGTG-CTCAGTTAAAAGAATT
1 TCGCACACACAGTGCCTCAATTAAAAGAATT
63726062 T-GCACACACAGTGCCTC
1 TCGCACACACAGTGCCTC
63726079 TAATCATTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.15
29 26 0.67
30 7 0.18
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (31 bp):
TCGCACACACAGTGCCTCAATTAAAAGAATT
Found at i:63727927 original size:38 final size:38
Alignment explanation
Indices: 63727830--63727995 Score: 179
Period size: 38 Copynumber: 4.3 Consensus size: 38
63727820 CAAGGTATAA
* * *
63727830 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTACGGGA-TTT
* * * *
63727869 AAACTCAGATATAATACCAGCACTAGGCCTACGGGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTACGGGATTT
*
63727908 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTACGGGATTT
* ** * *
63727946 AACCCGGATATAATTCCAGCATAAAGCCTGCGGGCCTTT
1 AACCCGGATATAATACCAGCACGAAGCCTACGGG-ATTT
63727985 AAGCCCGGATA
1 AA-CCCGGATA
63727996 CACATCAAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
38 64 0.59
39 8 0.07
40 36 0.33
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTACGGGATTT
Found at i:63727992 original size:78 final size:78
Alignment explanation
Indices: 63727830--63727995 Score: 194
Period size: 78 Copynumber: 2.1 Consensus size: 78
63727820 CAAGGTATAA
* * * *
63727830 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAG
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
63727895 GCCTACGGGATTT
66 GCCTACGGGATTT
* * * *
63727908 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCCAGCA-TAA
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACT-A
* *
63727970 AGCCTGCGGGCCTTT
65 AGCCTACGGG-ATTT
63727985 AAGCCCGGATA
1 AA-CCCGGATA
63727996 CACATCAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
75 1 0.01
76 27 0.36
77 8 0.11
78 39 0.52
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (78 bp):
AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
GCCTACGGGATTT
Found at i:63733142 original size:985 final size:985
Alignment explanation
Indices: 63731229--63733190 Score: 3548
Period size: 985 Copynumber: 2.0 Consensus size: 985
63731219 AATGTGTTTT
* *
63731229 TCTTATAGTAAATGTCTACCGACAAAGCTCAATTTGAGGAAGTTGGGAGTCATGCTCTGGCTTCA
1 TCTTATAGTAAATGTCTACCGACAAAGCTCAATTTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
* * * * * * *
63731294 GTACAAAGAGAAGAAACTAGCAGTAGAAGGCCCGAGACAGAGGGTCGAGGGGAGGAGGCAAAAAT
66 ATACAAAGAGAAAAAACTAGCAATAGAAGGCCAGAGACAAAGGGTCAAGGGGAGGAGGCAAAAAC
*
63731359 AGCCTTCTTTCTAATGATGAATGAATGGTTTAATTAATAATTAAGAACTAACCCTATAGTGCAGC
131 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATAATTAAGAACTAACCCTATAGTGCAGC
* *
63731424 AAGTTCAAGCTCCCCTTCTTACTCCTCCACCGGTTCCCGAGATTCCACAAGGTACAGATACTAAA
196 AAGTTCAAGCTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTCCACAAGGTACAGATACTAAA
* *
63731489 TCTATCAGAAAAGGGAAAGCTCCAGTAGATAAAATTTGAAAATACGGGGCCGAAGAATTTCGAGC
261 TCTATCAGAAAAGGGAAAGCTCCAGTAGATAAAATTTAAAAATACAGGGCCGAAGAATTTCGAGC
63731554 AGCAGTTGATGATGATTCCGAACGGGCTGAATTCTGGTTAGAAAACACTACTCGGGTTCTGGAGG
326 AGCAGTTGATGATGATTCCGAACGGGCTGAATTCTGGTTAGAAAACACTACTCGGGTTCTGGAGG
*
63731619 AATTATCTTGTATAACAGAAGAATGCCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
391 AATTATCTTGTACAACAGAAGAATGCCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
63731684 CATTGGTGGAATACTAAAGCTTCAGTTGTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGAC
456 CATTGGTGGAATACTAAAGCTTCAGTTGTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGAC
63731749 TGAGTTCAGAAAAAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGC
521 TGAGTTCAGAAAAAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGC
*
63731814 TAAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCGATTGAATAAATATGCT
586 TAAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAATAAATATGCT
63731879 CGAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAAAAGGGTTGAATGAAGATAT
651 CGAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAAAAGGGTTGAATGAAGATAT
63731944 TAAACTACTGATCAGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAGAGAGAGCTTATAAAG
716 TAAACTACTGATCAGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAGAGAGAGCTTATAAAG
* *
63732009 CAGAATAATTGAGCAAAGAAAAGAAACAGGCTGAGAGGGAAGCTCGAATTTTTAGTAAAAGACCA
781 CAGAAGAATTGAGCAAAGAAAAGAAACAGGCTGAGAGGAAAGCTCGAATTTTTAGTAAAAGACCA
63732074 ATGGAAAAATCTCATTTTTCTGCTTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGC
846 ATGGAAAAATCTCATTTTTCTGCTTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGC
* * *
63732139 CACTGGGTATTTGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCATCAG
911 CACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCACCAG
63732204 TGATTCAGTA
976 TGATTCAGTA
*
63732214 TCTTATAGTAAATGTCTACCGACAGAGCTCAATTTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
1 TCTTATAGTAAATGTCTACCGACAAAGCTCAATTTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
63732279 ATACAAAGAGAAAAAACTAGCAATAGAAGGCCAGAGACAAAGGGTCAAGGGGAGGAGGCAAAAAC
66 ATACAAAGAGAAAAAACTAGCAATAGAAGGCCAGAGACAAAGGGTCAAGGGGAGGAGGCAAAAAC
*
63732344 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
131 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATAATTAAGAACTAACCCTATAGTGCAGC
* * *
63732409 AAGTTCAAGCTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTTCACAGGGTACAGATACTGAA
196 AAGTTCAAGCTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTCCACAAGGTACAGATACTAAA
*
63732474 TCTATCAGAAAAGGGAAAGCTCCAGTAGATAAAATTTAAAAATATAGGGCCGAAGAATTTCGAGC
261 TCTATCAGAAAAGGGAAAGCTCCAGTAGATAAAATTTAAAAATACAGGGCCGAAGAATTTCGAGC
*
63732539 AGCAGTTGATGATGATTCCGAACGGGCTGAATTCTGGTTAGAAAACACTACTCGGGTTTTGGAGG
326 AGCAGTTGATGATGATTCCGAACGGGCTGAATTCTGGTTAGAAAACACTACTCGGGTTCTGGAGG
* * *
63732604 AATTATCTTGTACACCAGAAGAATGTCTGAAATGTGCCGTCTCACTGCTAAAAGACACAGCTTAC
391 AATTATCTTGTACAACAGAAGAATGCCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
63732669 CATTGGTGGAATACTAAAGCTTCAGTTGTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGAC
456 CATTGGTGGAATACTAAAGCTTCAGTTGTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGAC
*
63732734 TGAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGC
521 TGAGTTCAGAAAAAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGC
* *
63732799 TGAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAGTAAATATGCT
586 TAAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAATAAATATGCT
* *
63732864 CGAGAATGGGTAGAGTCAGAATCTGAAATGTGCAAATGATTC-AAAGAAGGGTTGAATGAAGATA
651 CGAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAA-AAGGGTTGAATGAAGATA
* * *
63732928 TTAAGCTACTGATCGGAATTCTTGAAATTTGAGAGTTTGCTACATTGGCAGAGAGAGCTTATAAA
715 TTAAACTACTGATCAGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAGAGAGAGCTTATAAA
63732993 GCAGAAGAATTGAGCAAAGAAAAGAAACAGGCTGAGAGGAAAGCTCGAATTTTTAGTAAAAGACC
780 GCAGAAGAATTGAGCAAAGAAAAGAAACAGGCTGAGAGGAAAGCTCGAATTTTTAGTAAAAGACC
*
63733058 GATGGAAAAATCTCATTTTTCTGCTTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAG
845 AATGGAAAAATCTCATTTTTCTGCTTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAG
63733123 CCACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCACCA
910 CCACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCACCA
63733188 GTG
975 GTG
63733191 TTGGCAGTGT
Statistics
Matches: 936, Mismatches: 40, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
984 3 0.00
985 933 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (985 bp):
TCTTATAGTAAATGTCTACCGACAAAGCTCAATTTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
ATACAAAGAGAAAAAACTAGCAATAGAAGGCCAGAGACAAAGGGTCAAGGGGAGGAGGCAAAAAC
AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATAATTAAGAACTAACCCTATAGTGCAGC
AAGTTCAAGCTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTCCACAAGGTACAGATACTAAA
TCTATCAGAAAAGGGAAAGCTCCAGTAGATAAAATTTAAAAATACAGGGCCGAAGAATTTCGAGC
AGCAGTTGATGATGATTCCGAACGGGCTGAATTCTGGTTAGAAAACACTACTCGGGTTCTGGAGG
AATTATCTTGTACAACAGAAGAATGCCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
CATTGGTGGAATACTAAAGCTTCAGTTGTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGAC
TGAGTTCAGAAAAAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGC
TAAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAATAAATATGCT
CGAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAAAAGGGTTGAATGAAGATAT
TAAACTACTGATCAGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAGAGAGAGCTTATAAAG
CAGAAGAATTGAGCAAAGAAAAGAAACAGGCTGAGAGGAAAGCTCGAATTTTTAGTAAAAGACCA
ATGGAAAAATCTCATTTTTCTGCTTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGC
CACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCACCAG
TGATTCAGTA
Found at i:63733200 original size:9 final size:9
Alignment explanation
Indices: 63733186--63733214 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
63733176 TCTACTCCAC
63733186 CAGTGTTGG
1 CAGTGTTGG
63733195 CAGTGTTGG
1 CAGTGTTGG
63733204 CAGTGTTGG
1 CAGTGTTGG
63733213 CA
1 CA
63733215 CTCCTAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.41, T:0.31
Consensus pattern (9 bp):
CAGTGTTGG
Found at i:63741632 original size:23 final size:25
Alignment explanation
Indices: 63741591--63741638 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
63741581 AATTTAACTC
*
63741591 AAAAAATAATAAAATTAAATTGATA
1 AAAAAATAATAAAACTAAATTGATA
63741616 AAAAAAT-AT-AAACTAAATTGATA
1 AAAAAATAATAAAACTAAATTGATA
63741639 TTATGCCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 2 0.09
25 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAAAATAATAAAACTAAATTGATA
Found at i:63741824 original size:16 final size:18
Alignment explanation
Indices: 63741805--63741842 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
63741795 TATAAAAACC
*
63741805 TTTTAAT-A-TTTATTTA
1 TTTTAATAATTTTATATA
63741821 TTTTAATAATTTTATATA
1 TTTTAATAATTTTATATA
63741839 TTTT
1 TTTT
63741843 TTGTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTAATAATTTTATATA
Found at i:63743046 original size:16 final size:16
Alignment explanation
Indices: 63743027--63743090 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
63743017 TAATATAGTA
63743027 TTAAAAATTTAAAATC
1 TTAAAAATTTAAAATC
** *
63743043 TTAAAAATAAAAAAAC
1 TTAAAAATTTAAAATC
*
63743059 TCAAAAAATATTAAAATC
1 T-TAAAAAT-TTAAAATC
*
63743077 TTAAAAATTCAAAA
1 TTAAAAATTTAAAA
63743091 ATAATGAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
16 19 0.51
17 12 0.32
18 6 0.16
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
TTAAAAATTTAAAATC
Found at i:63743091 original size:17 final size:16
Alignment explanation
Indices: 63743027--63743092 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 16
63743017 TAATATAGTA
*
63743027 TTAAAAATTTAAAATC
1 TTAAAAATTAAAAATC
* *
63743043 TTAAAAATAAAAAAAC
1 TTAAAAATTAAAAATC
* *
63743059 TCAAAAAATATTAAAATC
1 T-TAAAAAT-TAAAAATC
63743077 TTAAAAATTCAAAAAT
1 TTAAAAATT-AAAAAT
63743093 AATGAATTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
16 15 0.39
17 17 0.45
18 6 0.16
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAATTAAAAATC
Found at i:63743192 original size:20 final size:19
Alignment explanation
Indices: 63743167--63743211 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
63743157 AGGTTTTGAA
*
63743167 AAAATTACAAAATAATCTTT
1 AAAATT-CAAAATAATCATT
* *
63743187 AAAATTCCAAATATTCATT
1 AAAATTCAAAATAATCATT
63743206 AAAATT
1 AAAATT
63743212 TCTAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATCATT
Found at i:63746918 original size:29 final size:28
Alignment explanation
Indices: 63746879--63746970 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 28
63746869 ATTAACAATT
63746879 AAACTTAAATTTTGAAATATAAAAAATAAA
1 AAAC-TAAATTTT-AAATATAAAAAATAAA
* *
63746909 AAACTAAATTCTTAAAAATAAAAGAAT-AT
1 AAACTAAATT-TTAAATATAAAA-AATAAA
* * *
63746938 ATACTAAATTTTAAAATTTTGAAAAATAAA
1 AAACTAAATTTT-AAA-TATAAAAAATAAA
63746968 AAA
1 AAA
63746971 AATTATAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
28 2 0.04
29 31 0.63
30 16 0.33
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (28 bp):
AAACTAAATTTTAAATATAAAAAATAAA
Found at i:63753042 original size:47 final size:47
Alignment explanation
Indices: 63752972--63753063 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
63752962 GCTGATCACA
*
63752972 GGACAAACTAGCCTAACAGCGAAGCTAAAATGATGGACAGTTTATAG
1 GGACAAACTAGCCTAACAACGAAGCTAAAATGATGGACAGTTTATAG
*
63753019 GGACAAACTAGCCTAACAACGAAGCTAAAATGCTGGACAGTTTAT
1 GGACAAACTAGCCTAACAACGAAGCTAAAATGATGGACAGTTTAT
63753064 GTGGATGGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (47 bp):
GGACAAACTAGCCTAACAACGAAGCTAAAATGATGGACAGTTTATAG
Found at i:63758163 original size:19 final size:20
Alignment explanation
Indices: 63758127--63758178 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
63758117 AAAAATTACA
* *
63758127 AAAAATTCAATATAATTT-T
1 AAAAATTTAAAATAATTTAT
63758146 CAAAAATTTAAAAT-ATTTAT
1 -AAAAATTTAAAATAATTTAT
*
63758166 AAAAATTTCAAAT
1 AAAAATTTAAAAT
63758179 TTTATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTAAAATAATTTAT
Found at i:63758178 original size:26 final size:27
Alignment explanation
Indices: 63758148--63758207 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
63758138 ATAATTTTCA
*
63758148 AAAATTTAAAATATTTATAAAAATT-T
1 AAAATTTAAAATATTTAAAAAAATTAT
* * * *
63758174 CAAATTTTATATTTTTAAAAAAATTAT
1 AAAATTTAAAATATTTAAAAAAATTAT
63758201 AAAATTT
1 AAAATTT
63758208 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATTTAAAATATTTAAAAAAATTAT
Found at i:63758182 original size:18 final size:19
Alignment explanation
Indices: 63758147--63758184 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
63758137 TATAATTTTC
63758147 AAAAATTTAAAATATTTAT
1 AAAAATTTAAAATATTTAT
*
63758166 AAAAATTTCAAAT-TTTAT
1 AAAAATTTAAAATATTTAT
63758184 A
1 A
63758185 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTTAAAATATTTAT
Found at i:63758860 original size:131 final size:131
Alignment explanation
Indices: 63758582--63759518 Score: 928
Period size: 131 Copynumber: 7.2 Consensus size: 131
63758572 CACCCCTAAT
* * * * *
63758582 GATCAGAACCTAAGTTTATTTGATTTAC-TATCATGAACAAATTT-TTTGAGTTAGTTGATTTTT
1 GATCACAACCTAAGTTCATTTGATTT-CTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTC
* * * * *
63758645 TATCGCTACTCCAAAGAACTCGTTGATTT-AGTATCACAGTTGATATTATTAAGGCTCATTGATT
65 TATCGCTACTCCAAACAGCTCGCTGATTTAAG-ATCACAGCTGATATTATTAAGGCTCGTTGATT
*
63758709 AAA
129 AAC
* * * * *
63758712 AATCA-AAGCCTATGTTCATTTGATTTATTATCGTGAATAATTTTCTTTGAGTTACTTGATTTTC
1 GATCACAA-CCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTC
* * *
63758776 TATCGCTATTCCAAACAGCTCGCTGATTTAAGATCACGGCTGATATTATTAAGGCTTGTTGATTA
65 TATCGCTACTCCAAACAGCTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTA
*
63758841 GC
130 AC
* *
63758843 GATCACAACTTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGC-TGATTTTG
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTA-CTTGATTTTC
* * * * *
63758907 TATCGCTACTCTAAACAACTCGCTCATTTAAGATCACA-CATGATATTATTAAGGCTCGCTAATT
65 TATCGCTACTCCAAACAGCTCGCTGATTTAAGATCACAGC-TGATATTATTAAGGCTCGTTGATT
63758971 AAC
129 AAC
* ** * * * *
63758974 AATCTGAGCCTAAGTTCATTTGATTT-TCTATCATGAATAATTTTTTTTGAGTTAGC-TAATTTT
1 GATCACAACCTAAGTTCATTTGATTTCT-TATCATGAACAATTTTCTTTGAGTTA-CTTGATTTT
* * * * * * * *
63759037 CTATCGCTACTCTAAACAACTTG-TCGATTTAATATCACAGTTGATATTATTAAGCCTCATCGAT
64 CTATCGCTACTCCAAACAGCTCGCT-GATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGAT
63759101 TAAC
128 TAAC
* * * ** * * **
63759105 AATCACAGCCTATGTTCATTTGATTTCTTATCGCGAATAATTTTCTCTGAGTTTGTTGATTTTCT
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTCT
* * * * * *
63759170 ATCACTACTCCAAATAGCTCGCTGATTTAAGATCACAACTAATATTATGAATGCTCGTTGATTAA
66 ATCGCTACTCCAAACAGCTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTAA
*
63759235 T
131 C
* * *
63759236 GATCACAACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCT
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTCT
* * * * *
63759301 ATCGCTACTCCAAACAGCTCTCTAATTTAATATCACACCTAATATTATTAAGGCTCGTTGATTAA
66 ATCGCTACTCCAAACAGCTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTAA
63759366 C
131 C
* * * * * * *
63759367 GATTAGAGCCTAAGTTCATTTGATTTCTTATTATGAACAATTTT-TTCTAAGTTAGC-TAATTTA
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTT-TGAGTTA-CTTGATTTT
* ** * * * * *
63759430 CTATCGCTACTCCAAATAGCTTACTGATTTTATATCATAGTTGATATTACTAAGGCTCGTTGACT
64 CTATCGCTACTCCAAACAGCTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGA-T
63759495 T-AC
128 TAAC
* *
63759498 GATTAC-ACACTAAGTTTATTT
1 GATCACAAC-CTAAGTTCATTT
63759519 ACTTGTGATC
Statistics
Matches: 672, Mismatches: 118, Indels: 33
0.82 0.14 0.04
Matches are distributed among these distances:
129 2 0.00
130 39 0.06
131 622 0.93
132 9 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (131 bp):
GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTCT
ATCGCTACTCCAAACAGCTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTAA
C
Found at i:63759348 original size:393 final size:393
Alignment explanation
Indices: 63758590--63759483 Score: 1220
Period size: 393 Copynumber: 2.3 Consensus size: 393
63758580 ATGATCAGAA
* * * * * *
63758590 CCTAAGTTTATTTGATTTACTATCATGAACAA-ATTTTTTGAGTTAGTTGATTTTTTATCGCTAC
1 CCTAAGTTCATTTGATTTTCTATCATGAACAATTTTTTTTGAGTTAGCTAATTTTCTATCGCTAC
* * * * * *
63758654 TCCAAAGAACTCGTTGATTTAGTATCACAGTTGATATTATTAAGGCTCATTGATTAAAAATCAAA
66 TCCAAACAACTTGTCGATTTAATATCACAGTTGATATTATTAAGCCTCATCGATTAAAAATCAAA
* * *
63758719 GCCTATGTTCATTTGATTTATTATCGTGAATAATTTTCTTTGAGTTACTTGATTTTCTATCGCTA
131 GCCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACTA
* ** * * * *
63758784 TTCCAAACAGCTCGCTGATTTAAGATCACGGCTGATATTATTAAGGCTTGTTGATTAGCGATCAC
196 CTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCAC
* * * *
63758849 AACTTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGCTGATTTTGTATCGCT
261 AACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGCT
* * *
63758914 ACTCTAAACAACTCGCTCATTTAAGATCACACATGATATTATTAAGGCTCGCTAATTAACAATCT
326 ACTCCAAACAACTCGCTAATTTAAGATCACACATAATATTATTAAGGCTCGCTAATTAACAAT-T
63758979 -GAG
390 AGAG
*
63758982 CCTAAGTTCATTTGATTTTCTATCATGAATAATTTTTTTTGAGTTAGCTAATTTTCTATCGCTAC
1 CCTAAGTTCATTTGATTTTCTATCATGAACAATTTTTTTTGAGTTAGCTAATTTTCTATCGCTAC
* * *
63759047 TCTAAACAACTTGTCGATTTAATATCACAGTTGATATTATTAAGCCTCATCGATTAACAATCACA
66 TCCAAACAACTTGTCGATTTAATATCACAGTTGATATTATTAAGCCTCATCGATTAAAAATCAAA
* **
63759112 GCCTATGTTCATTTGATTTCTTATCGCGAATAATTTTCTCTGAGTTTGTTGATTTTCTATCACTA
131 GCCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACTA
* * *
63759177 CTCCAAATAGCTCGCTGATTTAAGATCACAACTAATATTATGAATGCTCGTTGATTAATGATCAC
196 CTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCAC
*
63759242 AACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCTATCGCT
261 AACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGCT
* * * * * * *
63759307 ACTCCAAACAGCTCTCTAATTTAATATCACACCTAATATTATTAAGGCTCGTTGATTAACGATTA
326 ACTCCAAACAACTCGCTAATTTAAGATCACACATAATATTATTAAGGCTCGCTAATTAACAATTA
63759372 GAG
391 GAG
* * * *
63759375 CCTAAGTTCATTTGA-TTTCTTATTATGAACAATTTTTTCTAAGTTAGCTAATTTACTATCGCTA
1 CCTAAGTTCATTTGATTTTC-TATCATGAACAATTTTTTTTGAGTTAGCTAATTTTCTATCGCTA
* * * * * *
63759439 CTCCAAATAGCTT-ACTGATTTTATATCATAGTTGATATTACTAAG
65 CTCCAAACAACTTGTC-GATTTAATATCACAGTTGATATTATTAAG
63759484 GCTCGTTGAC
Statistics
Matches: 439, Mismatches: 59, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
392 35 0.08
393 404 0.92
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (393 bp):
CCTAAGTTCATTTGATTTTCTATCATGAACAATTTTTTTTGAGTTAGCTAATTTTCTATCGCTAC
TCCAAACAACTTGTCGATTTAATATCACAGTTGATATTATTAAGCCTCATCGATTAAAAATCAAA
GCCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACTA
CTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCAC
AACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGCT
ACTCCAAACAACTCGCTAATTTAAGATCACACATAATATTATTAAGGCTCGCTAATTAACAATTA
GAG
Found at i:63765985 original size:302 final size:302
Alignment explanation
Indices: 63765438--63766026 Score: 1018
Period size: 302 Copynumber: 2.0 Consensus size: 302
63765428 AAAGTGTATA
63765438 CAATAAGTTTCTCTCTCAATAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
1 CAATAAGTTTCTCTCTCAATAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
* *
63765503 AACTCTTCTTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCGCTACCT
66 AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
* *
63765568 AGTTACCTGATTGGATTTCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
131 AGTTACCTAATCGGATTTCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
*
63765633 TTAGCGTCTTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACAT-
196 TTAGCGTCCTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATAC-TC
63765697 AGAAAAAACGTGTTAATTTTAGAGTAGGATAGGTATTGACATG
260 AGAAAAAACGTGTTAATTTTAGAGTAGGATAGGTATTGACATG
* * * *
63765740 CAATAAGTTTCTCTCTCAGTAATCTCTCACCTCGCGAAGCCAAGTTCTTAGAAGAGTCACTTTAT
1 CAATAAGTTTCTCTCTCAATAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
* * *
63765805 AACTCTTATTCGAACTAGGTGGGGGACAAATTGTTATGGTATTCATCATTACCATCGCACTACCT
66 AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
63765870 AGTTACCTAATCGGATTTCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
131 AGTTACCTAATCGGATTTCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
* *
63765935 TTAGCGTCCTTTAATGAGCTCGCACGATGTGGGTTCGCACTACGATGCAGGCAAACCCATACTCA
196 TTAGCGTCCTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACTCA
* *
63766000 GAAAACATGTGTTAATTTTAGAGTAGG
261 GAAAAAACGTGTTAATTTTAGAGTAGG
63766027 GTACATATTG
Statistics
Matches: 270, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
301 1 0.00
302 269 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (302 bp):
CAATAAGTTTCTCTCTCAATAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
AGTTACCTAATCGGATTTCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
TTAGCGTCCTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACTCA
GAAAAAACGTGTTAATTTTAGAGTAGGATAGGTATTGACATG
Done.