Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 322 of 444
Found at i:92887291 original size:42 final size:42
Alignment explanation
Indices: 92887244--92887350 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
92887234 TATTGGTCTC
92887244 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
92887286 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
92887328 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
92887351 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:92890831 original size:12 final size:12
Alignment explanation
Indices: 92890790--92890840 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 12
92890780 ATGTTACCAC
92890790 TTTCTTTTTATTA
1 TTTC-TTTTATTA
92890803 TTATAACTTTTATTA
1 TT-T--CTTTTATTA
92890818 TTTCTTTTATTA
1 TTTCTTTTATTA
92890830 TTTCTTATTAT
1 TTTCTT-TTAT
92890841 AAAATAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 15 0.44
13 6 0.18
14 2 0.06
15 10 0.29
16 1 0.03
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTTATTA
Found at i:92896168 original size:21 final size:22
Alignment explanation
Indices: 92896144--92896191 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
92896134 GATTTCTTAA
92896144 ATATAAATAATTATTTATTT-T
1 ATATAAATAATTATTTATTTAT
* *
92896165 ATATAAATATTTGTTTATTTAT
1 ATATAAATAATTATTTATTTAT
92896187 ATATA
1 ATATA
92896192 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATAAATAATTATTTATTTAT
Found at i:92896187 original size:20 final size:21
Alignment explanation
Indices: 92896144--92896204 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
92896134 GATTTCTTAA
*
92896144 ATATAAATAATTATTTATTTT
1 ATATAAATATTTATTTATTTT
*
92896165 ATATAAATATTTGTTTA-TTT
1 ATATAAATATTTATTTATTTT
* * *
92896185 ATATATATATATATATATTT
1 ATATAAATATTTATTTATTT
92896205 GCTAACGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATAAATATTTATTTATTTT
Found at i:92899750 original size:20 final size:20
Alignment explanation
Indices: 92899725--92899821 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
92899715 AAATGGTATA
92899725 TCATAATTTTTGGTATTTTC
1 TCATAATTTTTGGTATTTTC
**
92899745 TCATAATAATTGGTATATATT-
1 TCATAATTTTTGGTAT-T-TTC
* * **
92899766 T-GTAATTATTGGTATTCCC
1 TCATAATTTTTGGTATTTTC
*
92899785 TTCGAT--TTTTTGGTAATTTC
1 -TC-ATAATTTTTGGTATTTTC
92899805 TCATAATTTTTGGTATT
1 TCATAATTTTTGGTATT
92899822 GTTTTGAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
18 2 0.04
19 3 0.05
20 47 0.82
21 2 0.04
22 3 0.05
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (20 bp):
TCATAATTTTTGGTATTTTC
Found at i:92902012 original size:16 final size:17
Alignment explanation
Indices: 92901981--92902048 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
92901971 TCAATTTTCC
*
92901981 CTTTTCTTCTTTCCTTT
1 CTTTTCTTCCTTCCTTT
92901998 CTTTT-TTCCTTCCTTCT
1 CTTTTCTTCCTTCCTT-T
*
92902015 CTGTTTCATTTCTT-CTATT
1 CT-TTTC-TTCCTTCCT-TT
92902034 CTGTTTCTCTCCTTC
1 CT-TTTCT-TCCTTC
92902049 TTTTTCTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.22
17 8 0.20
18 4 0.10
19 14 0.34
20 6 0.15
ACGTcount: A:0.03, C:0.31, G:0.03, T:0.63
Consensus pattern (17 bp):
CTTTTCTTCCTTCCTTT
Found at i:92902086 original size:2 final size:2
Alignment explanation
Indices: 92902079--92902107 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92902069 ATTAAACTAT
92902079 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
92902108 TATTTATACT
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:92902147 original size:46 final size:46
Alignment explanation
Indices: 92902095--92902185 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 46
92902085 TATATATATA
*
92902095 TATATATATATATTATTTATACTTAATTAGTA-ATACT-TATTTATTATT
1 TATATATATATA-TATGTATA-TT-ATTAGTACATA-TGTATTTATTATT
92902143 TATATATATATATATGTATATTATTAGTACATATGTATTTATT
1 TATATATATATATATGTATATTATTAGTACATATGTATTTATT
92902186 TATAACCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
45 8 0.20
46 13 0.32
47 7 0.17
48 12 0.30
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.55
Consensus pattern (46 bp):
TATATATATATATATGTATATTATTAGTACATATGTATTTATTATT
Found at i:92902260 original size:31 final size:32
Alignment explanation
Indices: 92902204--92902266 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
92902194 TACATTTGTC
*
92902204 ATAATTTAATTTATTTATTACATAAAAATCTT
1 ATAATATAATTTATTTATTACATAAAAATCTT
*
92902236 ATAATATAA-TTATTTAATTA-ATAAATATCTT
1 ATAATATAATTTATTT-ATTACATAAAAATCTT
92902267 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTTATTACATAAAAATCTT
Found at i:92902274 original size:18 final size:19
Alignment explanation
Indices: 92902246--92902299 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
92902236 ATAATATAAT
92902246 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
92902265 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
92902283 TATTTAA-TAACTAAATA
1 TATTTAATTAA-TAAATA
92902300 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:92903230 original size:24 final size:24
Alignment explanation
Indices: 92903189--92903236 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
92903179 CTTCTCAATA
*
92903189 TTTTTAGTATTCCTTCATTTTTTT
1 TTTTTAGTATTCCTTCATATTTTT
*
92903213 TTTTTTGTATT-CTCTCATATTTTT
1 TTTTTAGTATTCCT-TCATATTTTT
92903237 GGTACATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTTTAGTATTCCTTCATATTTTT
Found at i:92903274 original size:20 final size:20
Alignment explanation
Indices: 92903251--92903310 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
92903241 CATCATTATA
92903251 TTTTTACATCCTCATTTTTT
1 TTTTTACATCCTCATTTTTT
* * ** *
92903271 TTTTTACTTTCTCAAATTTA
1 TTTTTACATCCTCATTTTTT
**
92903291 TTGGTACATCCTCATTTTTT
1 TTTTTACATCCTCATTTTTT
92903311 AATACTTCCT
Statistics
Matches: 28, Mismatches: 12, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTTACATCCTCATTTTTT
Found at i:92903422 original size:20 final size:19
Alignment explanation
Indices: 92903399--92903476 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
92903389 TACTATGCAT
*
92903399 CCTCATATTTTTTGGGTATC
1 CCTCATAATTTTT-GGTATC
* *
92903419 CCTCATAACTTTTGATATC
1 CCTCATAATTTTTGGTATC
* *
92903438 CGATCATAATTTTTGGTACTT
1 C-CTCATAATTTTTGGTA-TC
*
92903459 CCTCATATTTTTTGGTAT
1 CCTCATAATTTTTGGTAT
92903477 TCTCTAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
19 7 0.15
20 38 0.81
21 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.49
Consensus pattern (19 bp):
CCTCATAATTTTTGGTATC
Found at i:92903553 original size:20 final size:20
Alignment explanation
Indices: 92903440--92903553 Score: 55
Period size: 20 Copynumber: 5.9 Consensus size: 20
92903430 TTGATATCCG
*
92903440 ATCATAATTTTTGGTACTTC-
1 ATCATAATTTTTTGTA-TTCT
*
92903460 CTCAT-ATTTTTTGGTATTCT
1 ATCATAATTTTTT-GTATTCT
* * * *
92903480 CTAATAA-TCTTT-TATAC-
1 ATCATAATTTTTTGTATTCT
*
92903497 ATC-TAAGTTTTTGTACTT-T
1 ATCATAATTTTTTGTA-TTCT
* *
92903516 CTCAT-ATTTATTTATATTCT
1 ATCATAATTT-TTTGTATTCT
92903536 ATCATAATTTTTTGTATT
1 ATCATAATTTTTTGTATT
92903554 GTTTCGAAAG
Statistics
Matches: 69, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
16 3 0.04
17 5 0.07
18 6 0.09
19 17 0.25
20 33 0.48
21 5 0.07
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.56
Consensus pattern (20 bp):
ATCATAATTTTTTGTATTCT
Found at i:92906019 original size:20 final size:21
Alignment explanation
Indices: 92905977--92906026 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
92905967 TTCTACTTTC
92905977 TTTTAGTATTTCCTCAAAATT
1 TTTTAGTATTTCCTCAAAATT
** *
92905998 TTTTA-TATTTCCTCGTATTT
1 TTTTAGTATTTCCTCAAAATT
92906018 TTTTAGTAT
1 TTTTAGTAT
92906027 ACCCTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (21 bp):
TTTTAGTATTTCCTCAAAATT
Found at i:92906440 original size:19 final size:21
Alignment explanation
Indices: 92906394--92906439 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
92906384 GAGAATATTA
*
92906394 AAAAAATATGATGTGAGTATC
1 AAAAAATATGATGTAAGTATC
*
92906415 AAAAAATATGATG-AAGTACC
1 AAAAAATATGATGTAAGTATC
92906435 AAAAA
1 AAAAA
92906440 TTATAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAAAATATGATGTAAGTATC
Found at i:92906654 original size:19 final size:20
Alignment explanation
Indices: 92906630--92906667 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
92906620 TGGCTTACGA
92906630 GAAAATACT-AAAATTATGG
1 GAAAATACTAAAAATTATGG
92906649 GAAAATACTAAAAATTATG
1 GAAAATACTAAAAATTATG
92906668 AGGGATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.26
Consensus pattern (20 bp):
GAAAATACTAAAAATTATGG
Found at i:92908575 original size:16 final size:16
Alignment explanation
Indices: 92908550--92908619 Score: 117
Period size: 16 Copynumber: 4.5 Consensus size: 16
92908540 ATCTACATCA
92908550 TAAA-TATAGCTCTAT
1 TAAATTATAGCTCTAT
92908565 TAAATTATAGCTCTAT
1 TAAATTATAGCTCTAT
*
92908581 TAAATTAT-CCTCTAT
1 TAAATTATAGCTCTAT
92908596 TAAATTATAGCTCTAT
1 TAAATTATAGCTCTAT
92908612 TAAATTAT
1 TAAATTAT
92908620 CCTAACTTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
15 18 0.35
16 33 0.65
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (16 bp):
TAAATTATAGCTCTAT
Found at i:92908594 original size:31 final size:31
Alignment explanation
Indices: 92908559--92908622 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
92908549 ATAAATATAG
92908559 CTCTATTAAATTATAGCTCTATTAAATTATC
1 CTCTATTAAATTATAGCTCTATTAAATTATC
92908590 CTCTATTAAATTATAGCTCTATTAAATTATC
1 CTCTATTAAATTATAGCTCTATTAAATTATC
92908621 CT
1 CT
92908623 AACTTAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.45
Consensus pattern (31 bp):
CTCTATTAAATTATAGCTCTATTAAATTATC
Found at i:92908654 original size:2 final size:2
Alignment explanation
Indices: 92908647--92908698 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
92908637 GTGAAAAATT
92908647 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
92908689 TA TA TT TA TA
1 TA TA TA TA TA
92908699 AAAAATAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92909706 original size:16 final size:15
Alignment explanation
Indices: 92909687--92909723 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
92909677 AAATAATCAC
92909687 AAATATTAACATTTTA
1 AAATATT-ACATTTTA
*
92909703 AAATAGTACATTTTA
1 AAATATTACATTTTA
92909718 AAATAT
1 AAATAT
92909724 CTTAATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATATTACATTTTA
Found at i:92913756 original size:49 final size:49
Alignment explanation
Indices: 92913673--92914043 Score: 289
Period size: 49 Copynumber: 7.8 Consensus size: 49
92913663 ATATAGTGAT
* * * *
92913673 TGAAAACCATCGTTGTC-GGCCACTCAGGATGGTAGAATATGCAAATAG
1 TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
* ** * *
92913721 TGAAAACTATTATTGTCGGGCCACCCAAGATGGTAGAACATGTAAATAG
1 TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
* * ** *
92913770 TGAAAACTATCGTTATCAAGCCACCTGGGATGGTAGAATATGCAAATAG
1 TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
* * * * *
92913819 TAAAAACCATTATTGTCGGGCCACCCAGGATAGTAGAATA--C----A-
1 TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
** * *
92913861 T--AAA-TATCATTGTCGGATCACTCGGGATGGTAGACTATGCAAATAG
1 TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
* * ** * *
92913907 TGGAAACCATCATTGTCGGGCCATTCGAGATGATAGAATATGCAAATAG
1 TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
** * * * *
92913956 TGAAAACTATCATTGTCCAGCCACCGGGGATGGTAGAATATGTAGATAA
1 TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
* * * * *
92914005 TG-AAAGTAATCTTTGCCGGGCCAACCGTGATGGTAGAAT
1 TGAAAACT-ATCATTGTCGGGCCACCCGGGATGGTAGAAT
92914044 GTACAAGTTC
Statistics
Matches: 249, Mismatches: 62, Indels: 23
0.75 0.19 0.07
Matches are distributed among these distances:
39 25 0.10
40 3 0.01
41 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 21 0.08
49 194 0.78
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
TGAAAACTATCATTGTCGGGCCACCCGGGATGGTAGAATATGCAAATAG
Found at i:92914043 original size:186 final size:185
Alignment explanation
Indices: 92913685--92914043 Score: 443
Period size: 186 Copynumber: 1.9 Consensus size: 185
92913675 AAAACCATCG
* *
92913685 TTGTCGGCCACTCAGGATGGTAGAATATGCAAATAGTGAAAACTATTATTGTCGGGCCACCCAAG
1 TTGTCGGCCACTCAGGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCCAAG
* * * *
92913750 ATGGTAGAACATGTAAATAGTGAAAACTATCGTTATCAAGCCACCTGGGATGGTAGAATATGCAA
66 ATGATAGAACATGCAAATAGTGAAAACTATCATTATCAAGCCACCGGGGATGGTAGAATATGCAA
* * * *
92913815 ATAGTAAAAACCATTATTGTCGGGCCACCCAGGATAGTAGAATACATAAATATCA
131 ATAATAAAAACAATTATTGCCGGGCCAACCAGGATAGTAGAATACATAAATATCA
* * * * ** *
92913870 TTGTCGGATCACTCGGGATGGTAGACTATGCAAATAGTGGAAACCATCATTGTCGGGCCATTCGA
1 TTGTCGG-CCACTCAGGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCCAA
* * * *
92913935 GATGATAGAATATGCAAATAGTGAAAACTATCATTGTCCAGCCACCGGGGATGGTAGAATATGTA
65 GATGATAGAACATGCAAATAGTGAAAACTATCATTATCAAGCCACCGGGGATGGTAGAATATGCA
* * ** *
92914000 GATAATGAAAGTAATCT-TTGCCGGGCCAACC-GTGATGGTAGAAT
130 AATAATAAAAACAAT-TATTGCCGGGCCAACCAG-GATAGTAGAAT
92914044 GTACAAGTTC
Statistics
Matches: 145, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
185 8 0.06
186 136 0.94
187 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (185 bp):
TTGTCGGCCACTCAGGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCCAAG
ATGATAGAACATGCAAATAGTGAAAACTATCATTATCAAGCCACCGGGGATGGTAGAATATGCAA
ATAATAAAAACAATTATTGCCGGGCCAACCAGGATAGTAGAATACATAAATATCA
Found at i:92916993 original size:6 final size:7
Alignment explanation
Indices: 92916973--92917003 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
92916963 TATTTTAAAA
92916973 TTATTTT
1 TTATTTT
92916980 TTATTTT
1 TTATTTT
92916987 TTATTTT
1 TTATTTT
92916994 TTATTTT
1 TTATTTT
92917001 TTA
1 TTA
92917004 AATTTAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTATTTT
Found at i:92919139 original size:21 final size:22
Alignment explanation
Indices: 92919090--92919139 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
92919080 AAATATATAC
92919090 ATACT-ATATATATATGAACAT
1 ATACTAATATATATATGAACAT
* *
92919111 ATAC-AATATATATAT-TAGAT
1 ATACTAATATATATATGAACAT
92919131 ATACTAATA
1 ATACTAATA
92919140 ACATGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (22 bp):
ATACTAATATATATATGAACAT
Found at i:92919179 original size:3 final size:3
Alignment explanation
Indices: 92919171--92919200 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
92919161 ATAAATATAC
*
92919171 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92919201 AAAGATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:92919680 original size:24 final size:24
Alignment explanation
Indices: 92919619--92919680 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
92919609 ATAGTGTTAG
*
92919619 AAATATGTACATAA-GATAGTATA
1 AAATATATACATAATGATAGTATA
*
92919642 AAATATATA-ACTAATGATA-TTTAA
1 AAATATATACA-TAATGATAGTAT-A
92919666 AAATATATACATAAT
1 AAATATATACATAAT
92919681 AAAAAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 1 0.03
23 13 0.39
24 18 0.55
25 1 0.03
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AAATATATACATAATGATAGTATA
Found at i:92919746 original size:24 final size:27
Alignment explanation
Indices: 92919714--92919768 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 27
92919704 AAAAATATAT
92919714 ATATTTACATAA-TATA-ATATTA-AA
1 ATATTTACATAAGTATACATATTAGAA
92919738 ATATTTACATAATGTATACATATTAGAA
1 ATATTTACATAA-GTATACATATTAGAA
92919766 ATA
1 ATA
92919769 AAAAGCGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 12 0.44
26 4 0.15
27 6 0.22
28 5 0.19
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (27 bp):
ATATTTACATAAGTATACATATTAGAA
Found at i:92919818 original size:36 final size:35
Alignment explanation
Indices: 92919778--92919866 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 35
92919768 AAAAAGCGAC
* *
92919778 TATTAATA-ATACTACATAAATATGTACA-TATATATA
1 TATTAATATATA-TA-ATAAAAATATACACTA-ATATA
92919814 TATTAAATATATATAATAAAAATATACACTAATATA
1 TATT-AATATATATAATAAAAATATACACTAATATA
92919850 TA-TAATAGTA-ATAATAA
1 TATTAATA-TATATAATAA
92919867 TGACAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
34 11 0.23
35 3 0.06
36 22 0.47
37 8 0.17
38 3 0.06
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (35 bp):
TATTAATATATATAATAAAAATATACACTAATATA
Found at i:92919825 original size:13 final size:13
Alignment explanation
Indices: 92919807--92919856 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
92919797 ATATGTACAT
*
92919807 ATATATATATTAA
1 ATATATATAATAA
92919820 ATATATATAATAA
1 ATATATATAATAA
* * *
92919833 AAATATACACT-A
1 ATATATATAATAA
92919845 ATATATATAATA
1 ATATATATAATA
92919857 GTAATAATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATATATAATAA
Found at i:92921762 original size:13 final size:13
Alignment explanation
Indices: 92921744--92921779 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
92921734 AATTGACTCT
*
92921744 TTAAAAATAGACA
1 TTAAAAATAGAAA
92921757 TTAAAAATAGAAA
1 TTAAAAATAGAAA
*
92921770 TTGAAAATAG
1 TTAAAAATAG
92921780 CTCAGCACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.25
Consensus pattern (13 bp):
TTAAAAATAGAAA
Found at i:92921941 original size:16 final size:16
Alignment explanation
Indices: 92921920--92921951 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
92921910 GTTGATTTTC
*
92921920 GAAAAATATAAATTGA
1 GAAAAATAGAAATTGA
92921936 GAAAAATAGAAATTGA
1 GAAAAATAGAAATTGA
92921952 AGATACCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (16 bp):
GAAAAATAGAAATTGA
Found at i:92922000 original size:89 final size:89
Alignment explanation
Indices: 92921759--92922291 Score: 713
Period size: 89 Copynumber: 6.0 Consensus size: 89
92921749 AATAGACATT
* *** * *
92921759 AAAAATAGAAATTGAAAATAGCTCAGCACGTAAGCCAAGGCTTCAACTCACTTCTCGCAATATGA
1 AAAAATAGAAATTGAAAATACCTCAG--CGTGTCCCGAGGC-TCAACTCACCTCTCGCAATATGA
* *
92921824 GTTGATTTTTG-AAAACAGAAA-T--G
63 GTTGATTTTTGAAAAATATAAATTGAG
* * *
92921847 -AAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
92921911 TTGATTTTCGAAAAATATAAATTGAG
64 TTGATTTTTGAAAAATATAAATTGAG
* * * *
92921937 AAAAATAGAAATTGAAGATACCTCAGCGTGTCCCGAGGCTTAACCCACCTTTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
92922002 GATTTTTGAAAAACATAAATTG-G
66 GATTTTTGAAAAATATAAATTGAG
**
92922025 AAAACGA-AAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
*
92922088 TGATTTTTGAAAAATATAAATTGAA
65 TGATTTTTGAAAAATATAAATTGAG
*
92922113 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
92922178 GATTTTTGAAAAATATAAATTGAA
66 GATTTTTGAAAAATATAAATTGAG
*
92922202 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
92922267 GATTTTTTTGAAAAGTAGAAATTGA
66 GA--TTTTTGAAAAATATAAATTGA
92922292 AAATACCTCA
Statistics
Matches: 400, Mismatches: 32, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
85 1 0.00
86 35 0.09
87 109 0.27
88 12 0.03
89 198 0.50
90 3 0.01
91 42 0.10
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (89 bp):
AAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAATATAAATTGAG
Found at i:92922090 original size:176 final size:176
Alignment explanation
Indices: 92921759--92922369 Score: 744
Period size: 176 Copynumber: 3.5 Consensus size: 176
92921749 AATAGACATT
* *** *
92921759 AAAAATAGAAATTGAAAATAGCTCAGCACGTAAGCCAAGGCTTCAACTCA-CTTCTCGCAATATG
1 AAAAATAGAAATTGAAAATACCTCAG--CGTGTCCCGAGGCTT-AACTCACCTT-TCGCAATATG
* * *
92921823 AGTTGATTTTTG-AAAACAGAAA-T-GAAAATAGAATTTGAAAATACCTCGGCATGTGACCC-GA
62 AGTTGATTTTTGAAAAACATAAATTGGAAAATAGAAATTGAAAATACCTCAGC--GTG-CCCTGA
*
92921884 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAATATAAATTGAG
124 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAATATAAATTGAA
* *
92921937 AAAAATAGAAATTGAAGATACCTCAGCGTGTCCCGAGGCTTAACCCACCTTTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTTTCGCAATATGAGTT
*
92922002 GATTTTTGAAAAACATAAATTGGAAAA-CGAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCA
66 GATTTTTGAAAAACATAAATTGGAAAATAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCA
*
92922066 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAA
130 ACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAATATAAATTGAA
* * *
92922113 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTTTCGCAATATGAGTT
* * *
92922178 GATTTTTGAAAAATATAAATTGAAAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTC
66 GATTTTTGAAAAACATAAATTG--GAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTC
92922243 AACTCACCTCTCGCAATATGAGTTGA-TTT-------T-T---TTG--
129 AACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAATATAAATTGAA
* * *
92922277 AAAAGTAGAAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCC-GAGGCTTAACTCACCTTTCGCAATATGAGT
* * *
92922341 TGATTTTTGACAAATAGAAATT-GAAAATA
65 TGATTTTTGAAAAACATAAATTGGAAAATA
92922370 CCTCGACGTG
Statistics
Matches: 396, Mismatches: 27, Indels: 37
0.86 0.06 0.08
Matches are distributed among these distances:
161 6 0.02
163 2 0.01
164 79 0.20
166 3 0.01
169 1 0.00
170 1 0.00
175 30 0.08
176 160 0.40
177 5 0.01
178 108 0.27
179 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (176 bp):
AAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTTTCGCAATATGAGTT
GATTTTTGAAAAACATAAATTGGAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTCGAAAAATATAAATTGAA
Found at i:92922118 original size:16 final size:16
Alignment explanation
Indices: 92922097--92922130 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
92922087 TTGATTTTTG
*
92922097 AAAAATATAAATTGAA
1 AAAAATAGAAATTGAA
92922113 AAAAATAGAAATTGAA
1 AAAAATAGAAATTGAA
92922129 AA
1 AA
92922131 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAATAGAAATTGAA
Found at i:92922207 original size:16 final size:16
Alignment explanation
Indices: 92922186--92922219 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
92922176 TTGATTTTTG
*
92922186 AAAAATATAAATTGAA
1 AAAAATAGAAATTGAA
92922202 AAAAATAGAAATTGAA
1 AAAAATAGAAATTGAA
92922218 AA
1 AA
92922220 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAATAGAAATTGAA
Found at i:92922330 original size:75 final size:74
Alignment explanation
Indices: 92922202--92922524 Score: 384
Period size: 75 Copynumber: 4.2 Consensus size: 74
92922192 ATAAATTGAA
92922202 AAAAATAGAAATTGAAAATACCTCAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGATCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
92922266 TGATTTTTTTG
65 TGA-TTTTTTG
* *
92922277 AAAAGTAGAAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGATCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
92922341 TGA-TTTTTG
65 TGATTTTTTG
* * * *
92922350 ACAAATAGAAATTGAAAATACCTCGACGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTC-A-GCGTGATCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
92922415 TTGACTTTTTG
64 TTGATTTTTTG
* * * * *
92922426 AAAACAAAAACAGAAATTGAAAATACCGCAACGTGAGATCCGAGGCTCAACCCACTTCTCGCAAT
1 -----AAAAATAGAAATTGAAAATACCTCAGCGT--GATCCGAGGCTCAACTCACCTCTCGCAAT
92922491 ATGAGTTGATTTTTTTG
59 ATGAGTTGA-TTTTTTG
*
92922508 AAAAATAGGAATT-AAAA
1 AAAAATAGAAATTGAAAA
92922525 CATCAGAGTA
Statistics
Matches: 217, Mismatches: 19, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
73 28 0.13
74 1 0.00
75 101 0.47
76 12 0.06
77 11 0.05
79 2 0.01
80 1 0.00
81 55 0.25
82 6 0.03
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (74 bp):
AAAAATAGAAATTGAAAATACCTCAGCGTGATCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTG
Found at i:92922978 original size:15 final size:18
Alignment explanation
Indices: 92922943--92922979 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
92922933 TTAGAGTATG
92922943 TCATTTCACTATTTATCA
1 TCATTTCACTATTTATCA
92922961 TCATTTCACTATTTATCA
1 TCATTTCACTATTTATCA
92922979 T
1 T
92922980 GTAAATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATTTCACTATTTATCA
Found at i:92934850 original size:3 final size:3
Alignment explanation
Indices: 92934842--92934883 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
92934832 ATAAATATAC
*
92934842 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92934884 AAAGATGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:92935327 original size:24 final size:24
Alignment explanation
Indices: 92935299--92935361 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
92935289 ATAGTGTTAG
*
92935299 AAATATGTACATAA-GATAGTATAA
1 AAATATATACATAATGATA-TATAA
*
92935323 AAATATATA-ACTAATGATATTTAA
1 AAATATATACA-TAATGATATATAA
92935347 AAATATATACATAAT
1 AAATATATACATAAT
92935362 AAAAAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 28 0.82
25 5 0.15
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATATATACATAATGATATATAA
Found at i:92935428 original size:24 final size:27
Alignment explanation
Indices: 92935396--92935450 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 27
92935386 AAAAATATAT
92935396 ATATTTACATAA-TATA-ATATT-GAA
1 ATATTTACATAAGTATACATATTAGAA
92935420 ATATTTACATAATGTATACATATTAGAA
1 ATATTTACATAA-GTATACATATTAGAA
92935448 ATA
1 ATA
92935451 AAAAGCGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 12 0.44
26 4 0.15
27 5 0.19
28 6 0.22
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (27 bp):
ATATTTACATAAGTATACATATTAGAA
Found at i:92935509 original size:17 final size:16
Alignment explanation
Indices: 92935487--92935524 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
92935477 AAATATGTAC
*
92935487 ATATATATATATTAAAT
1 ATATATATATA-TAAAA
92935504 ATATATATATATAAAA
1 ATATATATATATAAAA
92935520 ATATA
1 ATATA
92935525 CACTAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATATAAAA
Found at i:92935664 original size:21 final size:23
Alignment explanation
Indices: 92935615--92935668 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
92935605 AAAATAATAC
*
92935615 TATATATATACATATACACGTACG
1 TATATA-ATAAATATACACGTACG
*
92935639 TATATAATAAATATACTC-TA-G
1 TATATAATAAATATACACGTACG
92935660 TATATAATA
1 TATATAATA
92935669 GTAATAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.36
22 2 0.07
23 10 0.36
24 6 0.21
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (23 bp):
TATATAATAAATATACACGTACG
Found at i:92959208 original size:26 final size:26
Alignment explanation
Indices: 92959168--92959276 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
92959158 TGATACAAAT
92959168 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
92959194 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92959220 TGATAATGGG-TAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92959245 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92959271 TGATAA
1 TGATAA
92959277 GAATTTCATG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 23 0.31
26 51 0.69
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:92959245 original size:51 final size:52
Alignment explanation
Indices: 92959168--92959276 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
92959158 TGATACAAAT
92959168 TGATAATGGGTTAGGTAAATGTTTCATGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCATGACAATGGATTAGGTAAATATTCCA
* * * *
92959220 TGATAATGGG-TAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCATGACAATGGATTAGGTAAATATTCCA
92959271 TGATAA
1 TGATAA
92959277 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 43 0.81
52 10 0.19
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTTCATGACAATGGATTAGGTAAATATTCCA
Found at i:92964839 original size:21 final size:21
Alignment explanation
Indices: 92964780--92964840 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
92964770 GATTATATGA
* * *
92964780 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
92964801 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
92964822 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
92964841 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:92965233 original size:5 final size:5
Alignment explanation
Indices: 92965187--92965232 Score: 65
Period size: 5 Copynumber: 9.0 Consensus size: 5
92965177 AGTGGAAAAG
* *
92965187 TGAATT TGAAT TAAAT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
92965233 GAAATTATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:92965697 original size:45 final size:45
Alignment explanation
Indices: 92965633--92965817 Score: 325
Period size: 45 Copynumber: 4.1 Consensus size: 45
92965623 TTATGTGCTA
*
92965633 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
*
92965678 GTTACCGTTACCGATTCGGCACTTTGTGTGTCTAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
*
92965723 GTTACCGTTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
* *
92965768 GTTACCGTTACCGATTCAGCACTTTGTGTGTTGAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
92965813 GTTAC
1 GTTAC
92965818 TGTTTCGAAT
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 133 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (45 bp):
GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
Found at i:92966042 original size:18 final size:18
Alignment explanation
Indices: 92965997--92966186 Score: 131
Period size: 18 Copynumber: 10.6 Consensus size: 18
92965987 TAACTGATTA
92965997 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
92966015 TCAC-CAGATAATTGACTG
1 TTACTGA-ATAATTGACTG
* * *
92966033 TTACTGGAT-ATCAGACTA
1 TTACTGAATAAT-TGACTG
* * *
92966051 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
92966069 TTACTGAATAATTGA-TA
1 TTACTGAATAATTGACTG
* *
92966086 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
92966104 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
92966122 CTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
92966141 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
92966158 TTACTGAATAATTGACTA
1 TTACTGAATAATTGACTG
*
92966176 TTACTGGATAA
1 TTACTGAATAA
92966187 CCGATCAATT
Statistics
Matches: 136, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
17 35 0.26
18 86 0.63
19 15 0.11
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:92966066 original size:8 final size:8
Alignment explanation
Indices: 92966053--92966100 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
92966043 TCAGACTATT
92966053 ACTGAATA
1 ACTGAATA
92966061 ACTGAATA
1 ACTGAATA
92966069 TTACTGAATA
1 --ACTGAATA
* *
92966079 ATTGATATT
1 ACTGA-ATA
92966088 ACTGAATA
1 ACTGAATA
92966096 ACTGA
1 ACTGA
92966101 TTGTCACTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 19 0.58
9 6 0.18
10 8 0.24
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (8 bp):
ACTGAATA
Found at i:92966089 original size:35 final size:35
Alignment explanation
Indices: 92966049--92966186 Score: 127
Period size: 35 Copynumber: 3.9 Consensus size: 35
92966039 GATATCAGAC
92966049 TATTACTGAATAACTGAATATTACTGAATAATTGA
1 TATTACTGAATAACTGAATATTACTGAATAATTGA
* * *
92966084 TATTACTGAATAACTGATTGTCACTGAATGAA-TGA
1 TATTACTGAATAACTGAATATTACTGAAT-AATTGA
** * *
92966119 CTGCTACTGAATAACTTAATTGTTACTGAAT-ATCTGA
1 -TATTACTGAATAACTGAA-TATTACTGAATAAT-TGA
* * * *
92966156 TTTTACTGAATAATTGACTATTACTGGATAA
1 TATTACTGAATAACTGAATATTACTGAATAA
92966187 CCGATCAATT
Statistics
Matches: 82, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
35 39 0.48
36 30 0.37
37 13 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.38
Consensus pattern (35 bp):
TATTACTGAATAACTGAATATTACTGAATAATTGA
Found at i:92966246 original size:18 final size:18
Alignment explanation
Indices: 92966225--92966266 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
92966215 GGTTATTATG
* *
92966225 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
92966243 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
92966261 GAATAA
1 GAATAA
92966267 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:92970039 original size:16 final size:16
Alignment explanation
Indices: 92970018--92970052 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
92970008 GGTTGGGGTG
**
92970018 AATGGAATAGGGTTGT
1 AATGGAATAAAGTTGT
92970034 AATGGAATAAAGTTGT
1 AATGGAATAAAGTTGT
92970050 AAT
1 AAT
92970053 TAGTAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (16 bp):
AATGGAATAAAGTTGT
Found at i:92970243 original size:22 final size:22
Alignment explanation
Indices: 92970213--92970265 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
92970203 TTTCTTATTG
*
92970213 TTATTAAATGTTAATAAGATTA
1 TTATGAAATGTTAATAAGATTA
* *
92970235 TTATGAAATGTTAGTGAGATTA
1 TTATGAAATGTTAATAAGATTA
92970257 TTATGAAAT
1 TTATGAAAT
92970266 ATAATTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (22 bp):
TTATGAAATGTTAATAAGATTA
Found at i:92974040 original size:18 final size:18
Alignment explanation
Indices: 92974013--92974056 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
92974003 TGTGGTAGGC
*
92974013 CGTGTAATGGGACACGGG
1 CGTGTGATGGGACACGGG
92974031 CGTGTGATGGGACACGGG
1 CGTGTGATGGGACACGGG
92974049 CGTGTGAT
1 CGTGTGAT
92974057 CGAAGAGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (18 bp):
CGTGTGATGGGACACGGG
Found at i:92975085 original size:17 final size:17
Alignment explanation
Indices: 92975051--92975090 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
92975041 GATTTTAAAT
92975051 TTTAGATTTTTAACTAC
1 TTTAGATTTTTAACTAC
92975068 TTTACGATTTTTAA-TAC
1 TTTA-GATTTTTAACTAC
92975085 TGTTAG
1 T-TTAG
92975091 GCATGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (17 bp):
TTTAGATTTTTAACTAC
Found at i:92983286 original size:72 final size:72
Alignment explanation
Indices: 92983209--92983353 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
92983199 AAGGTGTAAA
* *
92983209 AGTTTAATTCTATTATTTAAAAGGGTTAAATGGCTATGGAAAGGTAAATTAATGGACTTAGATGG
1 AGTTTAATTCTATTAGTTAAAAGGCTTAAATGGCTATGGAAAGGTAAATTAATGGACTTAGATGG
92983274 TAATTAT
66 TAATTAT
92983281 AGTTTAATTCTATTAGTTAAAAGGCTTAAATGGCTATGGAAAGGTAAATTAATGGACTTAGATGG
1 AGTTTAATTCTATTAGTTAAAAGGCTTAAATGGCTATGGAAAGGTAAATTAATGGACTTAGATGG
92983346 TAATTAT
66 TAATTAT
92983353 A
1 A
92983354 CCACATATGT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.37
Consensus pattern (72 bp):
AGTTTAATTCTATTAGTTAAAAGGCTTAAATGGCTATGGAAAGGTAAATTAATGGACTTAGATGG
TAATTAT
Found at i:92990868 original size:18 final size:18
Alignment explanation
Indices: 92990845--92990879 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92990835 TTAAAATTTG
* *
92990845 ATTTTTTTATTTTTTAAT
1 ATTTTTATAATTTTTAAT
92990863 ATTTTTATAATTTTTAA
1 ATTTTTATAATTTTTAA
92990880 AATATTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATAATTTTTAAT
Found at i:92993186 original size:14 final size:14
Alignment explanation
Indices: 92993163--92993214 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
92993153 ATCCCACCCC
*
92993163 AAATATAGATACAA
1 AAATACAGATACAA
92993177 AAATACAGATAC-A
1 AAATACAGATACAA
** *
92993190 GTATACAAATACAA
1 AAATACAGATACAA
92993204 AAATAACAGAT
1 AAAT-ACAGAT
92993215 TTAACATGCT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 10 0.34
14 14 0.48
15 5 0.17
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.19
Consensus pattern (14 bp):
AAATACAGATACAA
Found at i:92993992 original size:6 final size:6
Alignment explanation
Indices: 92993981--92994024 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
92993971 TTCGGGAAAG
* *
92993981 AAAATA AAAATA AAAATA AAAATA ATTAAATC AAAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA A--AAATA AAAATA AAAATA
92994025 TCTAACAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 28 0.85
8 5 0.15
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:92995091 original size:16 final size:16
Alignment explanation
Indices: 92995070--92995109 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
92995060 ATATGTCTAA
92995070 AAAATTACAATTATTT
1 AAAATTACAATTATTT
*
92995086 AAAATTACAATTTTTT
1 AAAATTACAATTATTT
*
92995102 ATAATTAC
1 AAAATTAC
92995110 TATACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATTACAATTATTT
Found at i:93004694 original size:2 final size:2
Alignment explanation
Indices: 93004687--93004718 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93004677 TTTTGAAGAT
93004687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93004719 AATTATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93004851 original size:2 final size:2
Alignment explanation
Indices: 93004844--93004877 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
93004834 TCACCTACTT
93004844 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93004878 AATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93005028 original size:23 final size:23
Alignment explanation
Indices: 93004998--93005043 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
93004988 GAGAGTATTT
*
93004998 TAGACTTTTCATTTTAATAAAAA
1 TAGACTTTTCATTTTAACAAAAA
93005021 TAGACTTTTCATTTTAACAAAAA
1 TAGACTTTTCATTTTAACAAAAA
93005044 GCAAGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (23 bp):
TAGACTTTTCATTTTAACAAAAA
Found at i:93007272 original size:15 final size:15
Alignment explanation
Indices: 93007252--93007285 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
93007242 AGATATGTCT
*
93007252 ATGTATGAAATTATA
1 ATGTATGAAATTAGA
*
93007267 ATGTATGGAATTAGA
1 ATGTATGAAATTAGA
93007282 ATGT
1 ATGT
93007286 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (15 bp):
ATGTATGAAATTAGA
Found at i:93007919 original size:11 final size:11
Alignment explanation
Indices: 93007905--93007940 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
93007895 ATAGATATCA
93007905 AAACTATATAT
1 AAACTATATAT
93007916 AAACTAT-TA-
1 AAACTATATAT
93007925 AAACTATATAT
1 AAACTATATAT
93007936 AAACT
1 AAACT
93007941 TTATTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.30
10 4 0.17
11 12 0.52
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (11 bp):
AAACTATATAT
Found at i:93007930 original size:9 final size:10
Alignment explanation
Indices: 93007899--93007940 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
93007889 TTTGAGATAG
93007899 ATATCAAAACT
1 ATAT-AAAACT
93007910 ATATATAAACT
1 ATATA-AAACT
93007921 AT-TAAAACT
1 ATATAAAACT
93007930 ATATATAAACT
1 ATATA-AAACT
93007941 TTATTTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.25
10 5 0.18
11 16 0.57
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (10 bp):
ATATAAAACT
Found at i:93011427 original size:153 final size:152
Alignment explanation
Indices: 93010926--93011439 Score: 651
Period size: 153 Copynumber: 3.4 Consensus size: 152
93010916 TTCGTTGGAA
* * ** *
93010926 GATAATGCAGACGTTGAAGCAGCCTCTCTTGACAGATGGACATGGCCTGTTGATTTAATGGTTGT
1 GATAATGCAGACGTTGAAGCAGCCTCTCTTGACAGACGGACATGGTCTGTCAATTCAATGGTTGT
* *
93010991 CATTGTGGCTGCAGCTACTCCTGTTTCATAATCTTCGGAGGAAGGAACTATAGCAACCGGTTCCA
66 CATTGTGGCTGCAGCTACTCCTGTTTCATAATCTTTGGAGGAAGGAATTATAGCAACCGGTTCCA
* *
93011056 CAGTATCTATATCACTTGGTGTG
131 CA-CATCTATATCACTTGGCGTG
* * * * *
93011079 GATAATGCAGACATTGAAGTAGCCTCTCTTGACAGATGGACATGATCTGTCGATTCAATGGTTGT
1 GATAATGCAGACGTTGAAGCAGCCTCTCTTGACAGACGGACATGGTCTGTCAATTCAATGGTTGT
* * * * * *
93011144 CATTGCGGCTG-AGGCTACTCCTGTATCATTATCTTTGGCGAAAGGAATTATAGCAACTGGTT--
66 CATTGTGGCTGCA-GCTACTCCTGTTTCATAATCTTTGGAGGAAGGAATTATAGCAACCGGTTCC
* * *
93011206 TCACATCT-TCATCACTTGGCATT
130 ACACATCTAT-ATCACTTGGCGTG
* * *
93011229 AATAATGCAGATGTTGAAGCAGCCTCTCTTGACAGACGGACATGGTCTGACAATTCAATGGTTGT
1 GATAATGCAGACGTTGAAGCAGCCTCTCTTGACAGACGGACATGGTCTGTCAATTCAATGGTTGT
* * *
93011294 CATTGTGGCTGCAGCTACTTCTGTTTCATCATGTTTGGAGGAAGGAATTATAGCAACCGGTTCCA
66 CATTGTGGCTGCAGCTACTCCTGTTTCATAATCTTTGGAGGAAGGAATTATAGCAACCGGTTCCA
* * *
93011359 CTACATCTATATTACTAGGGGTG
131 C-ACATCTATATCACTTGGCGTG
*
93011382 GATAATGCAGACGTGGAAGCAGCCTCTCTTGACAGAC-GAGCATGGTCTGTCAATTCAA
1 GATAATGCAGACGTTGAAGCAGCCTCTCTTGACAGACGGA-CATGGTCTGTCAATTCAA
93011440 GAACCTCAAC
Statistics
Matches: 308, Mismatches: 45, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
149 1 0.00
150 123 0.40
151 3 0.01
152 4 0.01
153 176 0.57
154 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (152 bp):
GATAATGCAGACGTTGAAGCAGCCTCTCTTGACAGACGGACATGGTCTGTCAATTCAATGGTTGT
CATTGTGGCTGCAGCTACTCCTGTTTCATAATCTTTGGAGGAAGGAATTATAGCAACCGGTTCCA
CACATCTATATCACTTGGCGTG
Found at i:93012472 original size:3 final size:3
Alignment explanation
Indices: 93012464--93012507 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
93012454 GATTTATCAT
93012464 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
93012508 GCTTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:93014322 original size:3 final size:3
Alignment explanation
Indices: 93014316--93014352 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
93014306 TAAAAAACAC
*
93014316 TTA TTA TTA TTA TTA TTA TTA TTA TAGA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
93014353 CAATTTTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:93017861 original size:29 final size:28
Alignment explanation
Indices: 93017821--93017891 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
93017811 TATATACAAT
*
93017821 AATTCTGATTTTTATTCTGGAAAAAAAA
1 AATTCTTATTTTTATTCTGGAAAAAAAA
* *
93017849 CAATTCTTATTTTTATTCTGTAAAAAAGA
1 -AATTCTTATTTTTATTCTGGAAAAAAAA
93017878 AATTCTTATTTTTA
1 AATTCTTATTTTTA
93017892 CATTTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 14 0.36
29 25 0.64
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (28 bp):
AATTCTTATTTTTATTCTGGAAAAAAAA
Found at i:93017874 original size:28 final size:29
Alignment explanation
Indices: 93017821--93017891 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
93017811 TATATACAAT
*
93017821 AATTCTGATTTTTATTCTGGAAAAAAA-A
1 AATTCTTATTTTTATTCTGGAAAAAAAGA
*
93017849 CAATTCTTATTTTTATTCT-GTAAAAAAGA
1 -AATTCTTATTTTTATTCTGGAAAAAAAGA
93017878 AATTCTTATTTTTA
1 AATTCTTATTTTTA
93017892 CATTTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (29 bp):
AATTCTTATTTTTATTCTGGAAAAAAAGA
Found at i:93019594 original size:18 final size:17
Alignment explanation
Indices: 93019568--93019647 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 17
93019558 AGGGGTTAAT
93019568 TTTAA-TTTTTAATATTA
1 TTTAATTTTTTAAT-TTA
*
93019585 TTTAATTTTTTTCATTTA
1 TTTAA-TTTTTTAATTTA
* *
93019603 TGTAA--TTTTAATTAA
1 TTTAATTTTTTAATTTA
*
93019618 TTTTAATTTTTGAATATTA
1 -TTTAATTTTTTAAT-TTA
93019637 TTTAATTTTTT
1 TTTAATTTTTT
93019648 TTCATTTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
15 8 0.16
16 4 0.08
17 5 0.10
18 23 0.47
19 9 0.18
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTAATTTTTTAATTTA
Found at i:93019644 original size:52 final size:52
Alignment explanation
Indices: 93019563--93019673 Score: 206
Period size: 53 Copynumber: 2.1 Consensus size: 52
93019553 TGATAAGGGG
93019563 TTAATTTTAATTTTTAATATTATTTAA-TTTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTAATATTATTTAATTTTTTTTCATTTATGTAATTTTAA
93019614 TTAATTTTAATTTTTGAATATTATTTAATTTTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTT-AATATTATTTAATTTTTTTTCATTTATGTAATTTTAA
93019667 TTAATTT
1 TTAATTT
93019674 GTATTTTATA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 15 0.26
52 12 0.21
53 31 0.53
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (52 bp):
TTAATTTTAATTTTTAATATTATTTAATTTTTTTTCATTTATGTAATTTTAA
Found at i:93019663 original size:24 final size:25
Alignment explanation
Indices: 93019585--93019668 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
93019575 TTTAATATTA
93019585 TTTAA-TTTTTTTCATTTATGTAAT
1 TTTAATTTTTTTTCATTTATGTAAT
** * * *
93019609 TTTAATTAATTTTAATTTTTGAATATT
1 TTTAATTTTTTTTCATTTATG--TAAT
93019636 ATTTAATTTTTTTTCATTTATGTAAT
1 -TTTAATTTTTTTTCATTTATGTAAT
93019662 TTTAATT
1 TTTAATT
93019669 AATTTGTATT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
24 5 0.11
25 18 0.39
26 3 0.07
27 3 0.07
28 17 0.37
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTAATTTTTTTTCATTTATGTAAT
Found at i:93019664 original size:18 final size:18
Alignment explanation
Indices: 93019582--93019664 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 18
93019572 ATTTTTAATA
*
93019582 TTATTTAATTTTTTTCAT
1 TTATGTAATTTTTTTCAT
* *
93019600 TTATGTAATTTTAATT-AA
1 TTATGTAATTTT-TTTCAT
**
93019618 TT-T-TAA-TTTTTGAAT
1 TTATGTAATTTTTTTCAT
*
93019633 ATTATTTAATTTTTTTTCAT
1 -TTATGTAA-TTTTTTTCAT
93019653 TTATGTAATTTT
1 TTATGTAATTTT
93019665 AATTAATTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
14 1 0.02
15 4 0.08
16 5 0.10
17 2 0.04
18 21 0.43
19 9 0.18
20 7 0.14
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (18 bp):
TTATGTAATTTTTTTCAT
Found at i:93024522 original size:46 final size:44
Alignment explanation
Indices: 93024463--93024577 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93024453 ACAGGACAGA
* *
93024463 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93024509 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93024553 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93024578 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93024558 original size:44 final size:45
Alignment explanation
Indices: 93024463--93024596 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93024453 ACAGGACAGA
* *
93024463 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93024509 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93024553 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93024597 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93031913 original size:44 final size:45
Alignment explanation
Indices: 93031826--93031939 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
93031816 TGAAGACAGA
* *
93031826 ACAGAAATGAGCCATGT-AGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93031871 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* **
93031915 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93031940 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
44 35 0.58
45 15 0.25
46 10 0.17
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93033722 original size:33 final size:33
Alignment explanation
Indices: 93033680--93033746 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
93033670 ATTTCGAAAG
93033680 AATTCTTTCAAAATCCAAACATTTGGCATGTTA
1 AATTCTTTCAAAATCCAAACATTTGGCATGTTA
93033713 AATTCTTTCAAAATCCAAACATTTGGCATGTTA
1 AATTCTTTCAAAATCCAAACATTTGGCATGTTA
93033746 A
1 A
93033747 GGTCCCATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (33 bp):
AATTCTTTCAAAATCCAAACATTTGGCATGTTA
Found at i:93040975 original size:126 final size:126
Alignment explanation
Indices: 93040808--93041061 Score: 368
Period size: 126 Copynumber: 2.0 Consensus size: 126
93040798 GGCAAAACAT
* * *
93040808 GAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGC-TGACATTGTAT
1 GAACTACTGTAGAAAAAGACCATCCACATGGGAGCTTTTTTCAGAAATTTTGCAT-ACAGTGCAT
* * * * *
93040872 CCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAAACGA-CTTCTCAAAATTATTTTTTCAG
65 CCTACTTGAAGCATTTTTGACACTATTTGTTCAGAAAC-ATCTTCTCAAAACTATTTTTGCAG
* * *
93040934 GAACTACTGTAGAAAAAGACCGTCCACTTGGGAGCTTTTTTCAGTAATTTTGCATACAGTGCATC
1 GAACTACTGTAGAAAAAGACCATCCACATGGGAGCTTTTTTCAGAAATTTTGCATACAGTGCATC
*
93040999 CTATTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAACTATTTTTGCAG
66 CTACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAACTATTTTTGCAG
93041060 GA
1 GA
93041062 TAAAAAAAGT
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
125 1 0.01
126 112 0.98
127 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGACCATCCACATGGGAGCTTTTTTCAGAAATTTTGCATACAGTGCATC
CTACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAACTATTTTTGCAG
Found at i:93041188 original size:34 final size:33
Alignment explanation
Indices: 93041144--93041245 Score: 136
Period size: 34 Copynumber: 3.1 Consensus size: 33
93041134 ATTTAACCCT
*
93041144 AAACCCTAAACCTTAATTTAATTAATTTATTTA
1 AAACCCTAAACCCTAATTTAATTAATTTATTTA
*
93041177 AAACCCTTAAACCCTAATTTACTTAATTTATTTAA
1 AAACCC-TAAACCCTAATTTAATTAATTTATTT-A
* *
93041212 AAATCATAAACCCTAATTTAATT-ATTT-TTTA
1 AAACCCTAAACCCTAATTTAATTAATTTATTTA
93041243 AAA
1 AAA
93041246 AATCACACTA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
31 4 0.06
32 3 0.05
33 10 0.16
34 40 0.65
35 5 0.08
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (33 bp):
AAACCCTAAACCCTAATTTAATTAATTTATTTA
Found at i:93043952 original size:28 final size:28
Alignment explanation
Indices: 93043920--93044003 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
93043910 AACCTCGATC
93043920 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
93043948 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
93043970 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
93043998 ACGTGT
1 ACGTGT
93044004 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:93043988 original size:50 final size:49
Alignment explanation
Indices: 93043872--93044047 Score: 208
Period size: 50 Copynumber: 3.5 Consensus size: 49
93043862 TGAGGTCGCA
* * * * * *
93043872 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACCTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TTGGTCACG
* **
93043923 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
93043973 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
*
93044022 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
93044048 TACGTACCAG
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 31 0.29
50 44 0.41
51 33 0.31
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:93045934 original size:2 final size:2
Alignment explanation
Indices: 93045927--93045953 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93045917 AAAGTTTATG
93045927 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
93045954 AGTGATAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93052735 original size:15 final size:14
Alignment explanation
Indices: 93052691--93052757 Score: 107
Period size: 14 Copynumber: 4.7 Consensus size: 14
93052681 GTTTGCAGGT
*
93052691 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
93052705 AAAATGATTTCTGG
1 AAAATGATTTCTGG
93052719 AAAATGATTTCCTGG
1 AAAATGATTT-CTGG
*
93052734 AAAATGATTTCTGA
1 AAAATGATTTCTGG
93052748 AAAATGATTT
1 AAAATGATTT
93052758 ATTTTTCTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
14 36 0.72
15 14 0.28
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:93052739 original size:29 final size:29
Alignment explanation
Indices: 93052691--93052757 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
93052681 GTTTGCAGGT
* *
93052691 AAAATG-TTTTCTGGAAAATGATTTCTGG
1 AAAATGATTTCCTGGAAAATGATTTCTGA
93052719 AAAATGATTTCCTGGAAAATGATTTCTGA
1 AAAATGATTTCCTGGAAAATGATTTCTGA
93052748 AAAATGATTT
1 AAAATGATTT
93052758 ATTTTTCTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.37
Consensus pattern (29 bp):
AAAATGATTTCCTGGAAAATGATTTCTGA
Found at i:93052875 original size:22 final size:22
Alignment explanation
Indices: 93052848--93052889 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
93052838 CTGTTTTTAC
93052848 ATATATTAATAAATTTATATAT
1 ATATATTAATAAATTTATATAT
93052870 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
93052890 TTTAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATATTAATAAATTTATATAT
Found at i:93054335 original size:21 final size:21
Alignment explanation
Indices: 93054311--93054352 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
93054301 TCAATATCAT
93054311 TATCCAAC-TAAATAAATTCAA
1 TATCCAACAT-AATAAATTCAA
*
93054332 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
93054353 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:93054386 original size:21 final size:21
Alignment explanation
Indices: 93054321--93054386 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
93054311 TATCCAACTA
93054321 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
93054342 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
93054367 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
93054387 AATTCAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 15 0.41
22 2 0.05
23 2 0.05
24 2 0.05
25 16 0.43
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:93054387 original size:32 final size:32
Alignment explanation
Indices: 93054360--93054420 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
93054350 CAACAAGCTT
* *
93054360 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
93054392 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
93054421 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:93061263 original size:15 final size:15
Alignment explanation
Indices: 93061243--93061287 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
93061233 TCATGGAATG
*
93061243 CAAATGACGAAAAAT
1 CAAATGACAAAAAAT
93061258 CAAATGACAAAAAAT
1 CAAATGACAAAAAAT
93061273 CAAATGACAAAAAAT
1 CAAATGACAAAAAAT
93061288 TCAGATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.64, C:0.13, G:0.09, T:0.13
Consensus pattern (15 bp):
CAAATGACAAAAAAT
Found at i:93072088 original size:41 final size:41
Alignment explanation
Indices: 93072011--93072090 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
93072001 AACAAAAATC
* * *
93072011 AGTCGATAAGGAATATAAACCTCGTATGGCAAATCCTAATG
1 AGTCGATAAGAAATATAAACCTCATATGCCAAATCCTAATG
* * *
93072052 AGTCGGTAAGAAATATAAACCTCATGTGCCATATCCTAA
1 AGTCGATAAGAAATATAAACCTCATATGCCAAATCCTAA
93072091 CGGGATGAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (41 bp):
AGTCGATAAGAAATATAAACCTCATATGCCAAATCCTAATG
Found at i:93074423 original size:3 final size:3
Alignment explanation
Indices: 93074403--93074474 Score: 69
Period size: 3 Copynumber: 24.0 Consensus size: 3
93074393 TATTTATTTC
* *
93074403 TTA TCTA TTA TAA TTA TTA TTA GTTA TTA TT- TTA TT- TCT- TTA TTG
1 TTA T-TA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA
*
93074448 TTA TTG TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
93074475 GTAGTAGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 48 0.83
4 6 0.10
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:93074430 original size:38 final size:38
Alignment explanation
Indices: 93074388--93074467 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
93074378 TTTTATTTAT
93074388 TTATTTA-TTTATTTC-TTATCTATTATAATTATTATTA
1 TTATTTATTTTATTTCTTTAT-TATTATAATTATTATTA
* **
93074425 GTTA-TTATTTTATTTCTTTATTGTTATTGTTATTATTA
1 -TTATTTATTTTATTTCTTTATTATTATAATTATTATTA
93074463 TTATT
1 TTATT
93074468 ATTATTAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
37 6 0.17
38 26 0.72
39 4 0.11
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (38 bp):
TTATTTATTTTATTTCTTTATTATTATAATTATTATTA
Found at i:93074479 original size:3 final size:3
Alignment explanation
Indices: 93074473--93074500 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
93074463 TTATTATTAT
93074473 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
93074501 CATTTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:93076245 original size:6 final size:6
Alignment explanation
Indices: 93076234--93076286 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
93076224 TATTTGTTTG
* * *
93076234 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT GTGTTT ATTGTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
93076282 ATTTT
1 ATTTT
93076287 CTTTAACTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:93083960 original size:46 final size:47
Alignment explanation
Indices: 93083890--93084104 Score: 147
Period size: 46 Copynumber: 4.6 Consensus size: 47
93083880 TCATTTGTGT
* *
93083890 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAG-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATATGAGA
* * *
93083936 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCACGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-GATATGA-GA
* * * ** * *
93083984 GCTAGTGTAAGACCTGTCTGAGACATAGCGTCAG-C-TTGTTATGTG-
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACAGATATGAGA
* * * ** *
93084029 TC-AGTGTAAGACTTGTCTGGGGCATGGCATC-GGTACCGATAGTTGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACAGATA--TGAGA
*
93084077 GCTAGTGTAAGACCATGTTTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
93084105 GCGTCGGCAT
Statistics
Matches: 128, Mismatches: 29, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
43 1 0.01
44 24 0.19
45 4 0.03
46 38 0.30
47 5 0.04
48 29 0.23
49 16 0.12
50 11 0.09
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATATGAGA
Found at i:93086543 original size:2 final size:2
Alignment explanation
Indices: 93086536--93086575 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
93086526 TCTTACAAAA
93086536 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
93086576 TAGGAACAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93088211 original size:16 final size:16
Alignment explanation
Indices: 93088172--93088211 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
93088162 TTTTATATTT
*
93088172 TAATTTAGTATATTAA
1 TAATTTATTATATTAA
93088188 -AATATTATTATATTAA
1 TAAT-TTATTATATTAA
93088204 TAATTTAT
1 TAATTTAT
93088212 AATTTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TAATTTATTATATTAA
Found at i:93092513 original size:29 final size:30
Alignment explanation
Indices: 93092481--93092538 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
93092471 CTTAACAAGA
*
93092481 AAATG-CTTCTAAAATAATAA-AAATTTAAC
1 AAATGCCTT-TAAAATAATAAGAAAATTAAC
93092510 AAATGCCTTTAAAATAATAAGAAAATTAA
1 AAATGCCTTTAAAATAATAAGAAAATTAA
93092539 TAATAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATGCCTTTAAAATAATAAGAAAATTAAC
Found at i:93099332 original size:13 final size:13
Alignment explanation
Indices: 93099314--93099345 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
93099304 CCGAAAGAAA
93099314 AACTTTTAACACT
1 AACTTTTAACACT
93099327 AACTTTTAACACT
1 AACTTTTAACACT
*
93099340 ATCTTT
1 AACTTT
93099346 GGCAGTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (13 bp):
AACTTTTAACACT
Found at i:93102939 original size:31 final size:31
Alignment explanation
Indices: 93102903--93102967 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
93102893 TACAATTTGA
**
93102903 TCATTGAACTATTTGAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTTATTTAAG
*
93102934 TCATTGATCTATTCAAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTTATTTAAG
93102965 TCA
1 TCA
93102968 CTAAGTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (31 bp):
TCATTGAACTATTCAAAAGTTTTTATTTAAG
Found at i:93108766 original size:21 final size:21
Alignment explanation
Indices: 93108742--93108782 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
93108732 GAATTAAATT
93108742 AATATACATTTGAAGAATTAC
1 AATATACATTTGAAGAATTAC
* * *
93108763 AATATTCCTTTGATGAATTA
1 AATATACATTTGAAGAATTA
93108783 GCTATAGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (21 bp):
AATATACATTTGAAGAATTAC
Found at i:93112941 original size:3 final size:3
Alignment explanation
Indices: 93112933--93112985 Score: 79
Period size: 3 Copynumber: 16.7 Consensus size: 3
93112923 TTCTTTTTAC
93112933 TTA TTA TTA TTA TTA TTA TTTA TTTA TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA TTA
93112981 TTA TT
1 TTA TT
93112986 TATTTCATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 38 0.79
4 10 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:93112989 original size:13 final size:13
Alignment explanation
Indices: 93112928--93112982 Score: 85
Period size: 13 Copynumber: 4.2 Consensus size: 13
93112918 TCGTGTTCTT
93112928 TTTACTTATTATTA
1 TTTA-TTATTATTA
93112942 -TTATTATTATTTA
1 TTTATTATTA-TTA
93112955 TTTATTATTATTA
1 TTTATTATTATTA
93112968 TTTATTATTATTA
1 TTTATTATTATTA
93112981 TT
1 TT
93112983 ATTTATTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.15
13 24 0.62
14 9 0.23
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:93116439 original size:6 final size:6
Alignment explanation
Indices: 93116428--93116531 Score: 181
Period size: 6 Copynumber: 17.3 Consensus size: 6
93116418 ATCATGCATG
*
93116428 CACATA CACATA CACATA CACATA CACATG CACATA CACATA CACATA
1 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
* *
93116476 CACATG CACATA CACATA CATATA CACATA CACATA CACATA CACATA
1 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
93116524 CACATA CA
1 CACATA CA
93116532 TCATGTTTAA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 92 1.00
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (6 bp):
CACATA
Found at i:93117567 original size:9 final size:9
Alignment explanation
Indices: 93117553--93117656 Score: 131
Period size: 9 Copynumber: 11.6 Consensus size: 9
93117543 TTTATACAAA
93117553 TAATTCGGT
1 TAATTCGGT
93117562 TAATTCGGT
1 TAATTCGGT
93117571 TAATTCGGT
1 TAATTCGGT
93117580 TAATTCGGT
1 TAATTCGGT
* *
93117589 TAATTTGGG
1 TAATTCGGT
*
93117598 TAATTCGGG
1 TAATTCGGT
93117607 TAATTCGAG-
1 TAATTCG-GT
93117616 TAATTCAGG-
1 TAATTC-GGT
*
93117625 TAATTCGAT
1 TAATTCGGT
*
93117634 TAATTCGAT
1 TAATTCGGT
93117643 TAATTCGGT
1 TAATTCGGT
93117652 TAATT
1 TAATT
93117657 TTATACTTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
8 1 0.01
9 84 0.97
10 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:93126953 original size:26 final size:26
Alignment explanation
Indices: 93126916--93127051 Score: 202
Period size: 26 Copynumber: 5.2 Consensus size: 26
93126906 TGATACAAAT
93126916 TGATAATA-GGTTAGGTAAATGTTCCA
1 TGATAA-ACGGTTAGGTAAATGTTCCA
93126942 TGATAAACGGTTAGGTAAATGTTCCA
1 TGATAAACGGTTAGGTAAATGTTCCA
93126968 TGATAAACGGTTAGGTAAATGTTCCA
1 TGATAAACGGTTAGGTAAATGTTCCA
** *
93126994 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAACGGTTAGGTAAATGTTCCA
** *
93127020 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAACGGTTAGGTAAATGTTCCA
93127046 TGATAA
1 TGATAA
93127052 GAATTTCATG
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
25 1 0.01
26 105 0.99
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAAACGGTTAGGTAAATGTTCCA
Found at i:93128564 original size:26 final size:26
Alignment explanation
Indices: 93128535--93128587 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
93128525 TTTACAGTTT
93128535 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
93128561 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
93128587 T
1 T
93128588 GTATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:93130077 original size:26 final size:26
Alignment explanation
Indices: 93130047--93130097 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
93130037 AAAATTTGAT
*
93130047 GTCAATTTC-TGTTTCTTCATTTTTCG
1 GTCAAATTCTTGTTTCTT-ATTTTTCG
*
93130073 GTCAAATTCTTTTTTCTTATTTTTC
1 GTCAAATTCTTGTTTCTTATTTTTC
93130098 CTATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.14, C:0.18, G:0.08, T:0.61
Consensus pattern (26 bp):
GTCAAATTCTTGTTTCTTATTTTTCG
Found at i:93133225 original size:54 final size:54
Alignment explanation
Indices: 93133143--93133250 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
93133133 TCAACATAGA
93133143 ATTTGAAGGAGTTAGATCTCGATGGATCGAGGAAGCCTAACAATTCGGGTTTAG
1 ATTTGAAGGAGTTAGATCTCGATGGATCGAGGAAGCCTAACAATTCGGGTTTAG
93133197 ATTTGAAGGAGTTAGATCTCGATGGATCGAGGAAGCCTAACAATTCGGGTTTAG
1 ATTTGAAGGAGTTAGATCTCGATGGATCGAGGAAGCCTAACAATTCGGGTTTAG
93133251 TTTTCCTCGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.28
Consensus pattern (54 bp):
ATTTGAAGGAGTTAGATCTCGATGGATCGAGGAAGCCTAACAATTCGGGTTTAG
Found at i:93140557 original size:77 final size:78
Alignment explanation
Indices: 93140340--93140640 Score: 367
Period size: 78 Copynumber: 3.9 Consensus size: 78
93140330 GTAAAATAAA
* * * * ** * * *
93140340 AAAAATTGTTTTGGGCTTGATTTCCGTTGTTCCACGATTTTATTCTAAATTTGTTTTATTTCTAA
1 AAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
93140405 AAA-ACGAGTAAAAT
66 AAAGA--AGTAAAAT
* * * *
93140419 -AAAACCGTTTTGGGATCGATTCCAGTCGTTCAACGATTTTATTCCGAATTTGTTTTATTTCCAA
1 AAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
93140483 AAAGAAGTAAAAT
66 AAAGAAGTAAAAT
* *
93140496 AAAAATCGTTTCGGGATCGATTCCCGCCGTTCAATGATTTTATTCCAAATTT-TTTTATTTCC-A
1 AAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
*
93140559 AAAGTGAGTAAAAT
66 AAAG-AAGTAAAAT
* * * *
93140573 AAAAATCGTTTTAGGATTGATTCCCACCATTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
1 AAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
93140638 AAA
66 AAA
93140641 TGAGAAATTA
Statistics
Matches: 193, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
76 5 0.03
77 72 0.37
78 111 0.58
79 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (78 bp):
AAAAATCGTTTTGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
AAAGAAGTAAAAT
Found at i:93140724 original size:86 final size:86
Alignment explanation
Indices: 93140621--93140811 Score: 294
Period size: 86 Copynumber: 2.2 Consensus size: 86
93140611 TTTATTCCAA
* * * *
93140621 ATTTGTTTTATTTCCAAAAATGAGAAATTAAATTATATAAAATCTATTTCGGGATTTATTCCCAT
1 ATTTGTTTTATTTCCAAAAATGAGAAATTAAATAAAATAAAATCTATTTCGAGATTTATTCCCAC
93140686 CGTTTAATAAGA-TTTATTTG
66 CGTTTAATAAGATTTTATTTG
* * *
93140706 ATTTGATTTTGTTGCCAAAAATGAGAAATTAAATAAAATAAAATCTGTTTCGAGATTTATTCCCA
1 ATTTG-TTTTATTTCCAAAAATGAGAAATTAAATAAAATAAAATCTATTTCGAGATTTATTCCCA
93140771 CCGTTTAATAAGATTTTATTTG
65 CCGTTTAATAAGATTTTATTTG
93140793 ATATTGTTTTATTTCCAAA
1 AT-TTGTTTTATTTCCAAA
93140812 TAGAGACGTA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
85 5 0.05
86 65 0.69
87 21 0.22
88 3 0.03
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (86 bp):
ATTTGTTTTATTTCCAAAAATGAGAAATTAAATAAAATAAAATCTATTTCGAGATTTATTCCCAC
CGTTTAATAAGATTTTATTTG
Found at i:93140873 original size:57 final size:59
Alignment explanation
Indices: 93140785--93140907 Score: 214
Period size: 57 Copynumber: 2.1 Consensus size: 59
93140775 TTAATAAGAT
* *
93140785 TTTATTTGATATTGTTTTATTTCCAAATAGAGACGTAATTAAATAATTCTATTTC-GG-
1 TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
93140842 TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
1 TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
93140901 TTTATTC
1 TTTATTC
93140908 TTTCCGTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
57 53 0.85
58 2 0.03
59 7 0.11
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (59 bp):
TTTATTCGATATTGTTTTATTTCCAAATAGAGACGTAATCAAATAATTCTATTTCGGGA
Found at i:93145270 original size:15 final size:15
Alignment explanation
Indices: 93145234--93145276 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
93145224 TTATATTAAT
93145234 ATTG-ATTATTAAAA
1 ATTGAATTATTAAAA
93145248 A-TGTAATTATTAAAA
1 ATTG-AATTATTAAAA
*
93145263 ATTGAATTTTTAAA
1 ATTGAATTATTAAA
93145277 TAAACTCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 1 0.04
15 20 0.80
16 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (15 bp):
ATTGAATTATTAAAA
Found at i:93145503 original size:24 final size:22
Alignment explanation
Indices: 93145476--93145522 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
93145466 TTTAAAATAT
*
93145476 TATTACAAATATTAGTATTTTCAA
1 TATTACAAAAATT-GT-TTTTCAA
*
93145500 TATTATAAAAATTGTTTTTCAA
1 TATTACAAAAATTGTTTTTCAA
93145522 T
1 T
93145523 GAATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 2 0.10
24 11 0.52
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (22 bp):
TATTACAAAAATTGTTTTTCAA
Found at i:93145917 original size:17 final size:16
Alignment explanation
Indices: 93145886--93145929 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
93145876 AATCTATAGT
93145886 TATTAAATATTATTCA
1 TATTAAATATTATTCA
*
93145902 TATTAATATTTTATTCA
1 TATTAA-ATATTATTCA
93145919 -ATTAAA-ATTAT
1 TATTAAATATTAT
93145930 CACATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 4 0.16
15 1 0.04
16 11 0.44
17 9 0.36
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTAAATATTATTCA
Found at i:93147274 original size:33 final size:34
Alignment explanation
Indices: 93147201--93147267 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
93147191 GAGTATTCGA
*
93147201 TTACATGTGAATTTATATTGAACAAGTGTATTTAG
1 TTACATGTGAATTTATATTGAAC-AGTATATTTAG
* *
93147236 TTACATGTGAGTTTATATTGAAC-TTATATTTA
1 TTACATGTGAATTTATATTGAACAGTATATTTA
93147268 TATACATTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 7 0.24
35 22 0.76
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (34 bp):
TTACATGTGAATTTATATTGAACAGTATATTTAG
Found at i:93150256 original size:47 final size:49
Alignment explanation
Indices: 93150039--93150341 Score: 438
Period size: 49 Copynumber: 6.3 Consensus size: 49
93150029 GTATGAGATA
* *
93150039 TATATATGTAATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
93150088 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
93150137 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
93150186 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
93150233 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * * *
93150280 TATATGTGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
93150327 TATAAATGTGATAAG
1 TATATATGTGATAAG
93150342 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 98 0.41
48 5 0.02
49 135 0.57
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Done.