Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 94 of 106
Found at i:35864888 original size:66 final size:66
Alignment explanation
Indices: 35864703--35864891 Score: 231
Period size: 66 Copynumber: 2.9 Consensus size: 66
35864693 CTTTTCTTCG
* * * *
35864703 AAAACCTCCGGGTACAT-CTTTC-AAACCTCCGGGTATATTCTCCAAAATCTCCGAGTATATTCG
1 AAAACCTCCGGATACCTGC-TTCAAAACCTCCGGGTATATTCTCCAAAACCTCCGGGTATATTCG
35864766 CT
65 CT
* * * *
35864768 AAAACCTCC-TAGTATCTGCTTCAAAACCTCCGGGTATATTCTCCAAAACCTCCGGGTATGTTCT
1 AAAACCTCCGGA-TACCTGCTTCAAAACCTCCGGGTATATTCTCCAAAACCTCCGGGTATATTCG
35864832 CT
65 CT
* * **
35864834 AAAACCTCCGGATACCTGCTTCAAAACCTCCAGGCATATTCTTTAAAACCTCCGGGTA
1 AAAACCTCCGGATACCTGCTTCAAAACCTCCGGGTATATTCTCCAAAACCTCCGGGTA
35864892 CCTGCTTCAA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
65 15 0.14
66 90 0.85
67 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (66 bp):
AAAACCTCCGGATACCTGCTTCAAAACCTCCGGGTATATTCTCCAAAACCTCCGGGTATATTCGC
T
Found at i:35864903 original size:22 final size:22
Alignment explanation
Indices: 35864698--35864913 Score: 138
Period size: 22 Copynumber: 9.8 Consensus size: 22
35864688 TCAACCTTTT
35864698 CTTCGAAAACCTCCGGGTA-CAT-
1 CTTC-AAAACCTCCGGGTATC-TG
* *
35864720 CTTTC-AAACCTCCGGGTATATT
1 C-TTCAAAACCTCCGGGTATCTG
* * * *
35864742 CTCCAAAATCTCCGAGTATATTCG
1 CTTCAAAACCTCCGGGTAT-CT-G
**
35864766 C-T-AAAACCTCCTAGTATCTG
1 CTTCAAAACCTCCGGGTATCTG
* *
35864786 CTTCAAAACCTCCGGGTATATT
1 CTTCAAAACCTCCGGGTATCTG
* * *
35864808 CTCCAAAACCTCCGGGTATGTT
1 CTTCAAAACCTCCGGGTATCTG
* *
35864830 C-TCTAAAACCTCCGGATACCTG
1 CTTC-AAAACCTCCGGGTATCTG
* * * *
35864852 CTTCAAAACCTCCAGGCATATT
1 CTTCAAAACCTCCGGGTATCTG
* *
35864874 CTTTAAAACCTCCGGGTACCTG
1 CTTCAAAACCTCCGGGTATCTG
*
35864896 CTTCAAAACCTCAGGGTA
1 CTTCAAAACCTCCGGGTA
35864914 ATTAGTTTCA
Statistics
Matches: 149, Mismatches: 35, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.01
21 19 0.13
22 121 0.81
23 6 0.04
24 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (22 bp):
CTTCAAAACCTCCGGGTATCTG
Found at i:35865003 original size:21 final size:21
Alignment explanation
Indices: 35864977--35865059 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 21
35864967 AACCTTTTTC
*
35864977 TAAAACCTCCGGGTACATCTT
1 TAAAACCTCCAGGTACATCTT
* *
35864998 TAAAACCTCCAGGTATATTCTC
1 TAAAACCTCCAGGTACA-TCTT
* * * * *
35865020 CAAAACTTCCAAGTACTTGTT
1 TAAAACCTCCAGGTACATCTT
*
35865041 TCAAAACCTCCGGGTACAT
1 T-AAAACCTCCAGGTACAT
35865060 TCTCAAAATC
Statistics
Matches: 45, Mismatches: 15, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
21 17 0.38
22 28 0.62
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (21 bp):
TAAAACCTCCAGGTACATCTT
Found at i:35865067 original size:21 final size:21
Alignment explanation
Indices: 35864974--35865077 Score: 77
Period size: 21 Copynumber: 4.9 Consensus size: 21
35864964 AACAACCTTT
35864974 TTCT-AAAACCTCCGGGTACA
1 TTCTCAAAACCTCCGGGTACA
* * *
35864994 -TCTTTAAAACCTCCAGGTATA
1 TTC-TCAAAACCTCCGGGTACA
* ** *
35865015 TTCTCCAAAACTTCCAAGTACT
1 TTCT-CAAAACCTCCGGGTACA
*
35865037 TGTTTCAAAACCTCCGGGTACA
1 T-TCTCAAAACCTCCGGGTACA
* *
35865059 TTCTCAAAATCTCAGGGTA
1 TTCTCAAAACCTCCGGGTA
35865078 ATTAGTTTCA
Statistics
Matches: 64, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.03
20 1 0.02
21 30 0.47
22 29 0.45
23 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (21 bp):
TTCTCAAAACCTCCGGGTACA
Found at i:35865161 original size:22 final size:21
Alignment explanation
Indices: 35865136--35865197 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
35865126 GAAACAACCT
* *
35865136 TTTTCTAAAACCTTCGGGTACA
1 TTTTC-AAAACCTCCGAGTACA
35865158 TTTTCAAAACCTCCGAGTACA
1 TTTTCAAAACCTCCGAGTACA
* ** *
35865179 CTCCCAAAACCTCTGAGTA
1 TTTTCAAAACCTCCGAGTA
35865198 ATTAGTTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (21 bp):
TTTTCAAAACCTCCGAGTACA
Found at i:35865208 original size:164 final size:165
Alignment explanation
Indices: 35864812--35865210 Score: 506
Period size: 164 Copynumber: 2.4 Consensus size: 165
35864802 TATATTCTCC
** * * * * *
35864812 AAAACCTCCGGGTATGTTCTCTAAAACCTCC-GGATAC-CTGCTTCAAAACCTCCAGGCATATTC
1 AAAACCTCCGGGTA-CATCTTTAAAACCTCCAGG-TACACT-CTCCAAAACCTCCAAGTA-ATTG
*
35864875 TTT-AAAACCTCCGGGTACCTGCTTCAAAACCTCAGGGTAATTAGTTTCAAGTTTTCTTCAAAGT
62 TTTCAAAACCTCCGGGTACATGCTTCAAAACCTCAGGGTAATTAGTTTCAAGTTTTCTTCAAAGT
* *
35864939 TACGTAACCTCATTCTAAGATGAGGAACAACCTTTTTCT
127 TACATAACCTCATTCTAAGATGAGAAACAACCTTTTTCT
* * * *
35864978 AAAACCTCCGGGTACATCTTTAAAACCTCCAGGTATATTCTCCAAAACTTCCAAGTACTTGTTTC
1 AAAACCTCCGGGTACATCTTTAAAACCTCCAGGTACACTCTCCAAAACCTCCAAGTAATTGTTTC
* *
35865043 AAAACCTCCGGGTACATTC-TCAAAATCTCAGGGTAATTAGTTTCAAGTTTTCTTCAAAGTTACA
66 AAAACCTCCGGGTACATGCTTCAAAACCTCAGGGTAATTAGTTTCAAGTTTTCTTCAAAGTTACA
*
35865107 TAACCTCATTCTGAGATGAGAAACAACCTTTTTCT
131 TAACCTCATTCTAAGATGAGAAACAACCTTTTTCT
* **
35865142 AAAACCTTCGGGTACAT-TTTCAAAACCTCC-GAGTACACTC-CCAAAACCTCTGAGTAATTAGT
1 AAAACCTCCGGGTACATCTTT-AAAACCTCCAG-GTACACTCTCCAAAACCTCCAAGTAATT-GT
35865204 TTCAAAA
63 TTCAAAA
35865211 TTTCTTTAAA
Statistics
Matches: 203, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
163 19 0.09
164 121 0.60
165 46 0.23
166 17 0.08
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (165 bp):
AAAACCTCCGGGTACATCTTTAAAACCTCCAGGTACACTCTCCAAAACCTCCAAGTAATTGTTTC
AAAACCTCCGGGTACATGCTTCAAAACCTCAGGGTAATTAGTTTCAAGTTTTCTTCAAAGTTACA
TAACCTCATTCTAAGATGAGAAACAACCTTTTTCT
Found at i:35865252 original size:120 final size:120
Alignment explanation
Indices: 35865039--35865424 Score: 415
Period size: 120 Copynumber: 3.1 Consensus size: 120
35865029 CAAGTACTTG
* * * *
35865039 TTTCAAAACCTCCGGGTACATTCTCAAAATCTCAGGGTAATTAGTTTCAAGTTTTCTTCAAAGTT
1 TTTCAAAACCTCCGAGTACATTCTCAAAACCTC-TGGTAATTAGTTTCAAGATTTCTTCAAAGTT
* * * *
35865104 ACATAACCTCATTCTGAGATGAGAAACAACC-TTTTTCTAAAACCTTCGGGTACAT
65 ACATAGCCTCATTTTGAGATCAGGAACAACCTTTTTTCTAAAACCTTCGGGTACAT
* * * *
35865159 TTTCAAAACCTCCGAGTACACTCCCAAAACCTCTGAGTAATTAGTTTCAAAATTTCTTTAAAGTT
1 TTTCAAAACCTCCGAGTACATTCTCAAAACCTCTG-GTAATTAGTTTCAAGATTTCTTCAAAGTT
* *
35865224 A-AGTAGCCTCATTTTGAGATCAGGAACAACCTTTTCTTTTTAAAA-CTTCCGAGTACAT
65 ACA-TAGCCTCATTTTGAGATCAGGAACAACC-TTT-TTTCTAAAACCTT-CGGGTACAT
* * *
35865282 CTTCAAAACCTCC-AGGTATATTCTTCAAAACCTCTGGATAATTAGTTTCAAGATTTCTACAAAG
1 TTTCAAAACCTCCGA-GTACATTC-TCAAAACCTCTGG-TAATTAGTTTCAAGATTTCTTCAAAG
* * *
35865346 TTACATAGCCTCATTTTGAGA-C-GTGAAACAACCTTTTTTTCTTAAACCTCTGGGGTATAT
63 TTACATAGCCTCATTTTGAGATCAG-G-AACAACC-TTTTTTCTAAAACCT-TCGGGTACAT
*
35865406 TCTCCAAAACCTCCGAGTA
1 T-TTCAAAACCTCCGAGTA
35865425 ATTGATTTCA
Statistics
Matches: 222, Mismatches: 28, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
119 2 0.01
120 80 0.36
122 7 0.03
123 44 0.20
124 72 0.32
125 16 0.07
126 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (120 bp):
TTTCAAAACCTCCGAGTACATTCTCAAAACCTCTGGTAATTAGTTTCAAGATTTCTTCAAAGTTA
CATAGCCTCATTTTGAGATCAGGAACAACCTTTTTTCTAAAACCTTCGGGTACAT
Found at i:35865589 original size:21 final size:22
Alignment explanation
Indices: 35865556--35865615 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
35865546 CTTTTTTTTT
* *
35865556 AAATAGTATAAAAAT-AATAATA
1 AAATAATA-AAAAATAAAAAATA
35865578 AAATAATAAAAAATAAAAAATA
1 AAATAATAAAAAATAAAAAATA
35865600 AAA-AAT-AAAAATAAAA
1 AAATAATAAAAAATAAAA
35865616 GTAGAAAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.29
21 9 0.26
22 16 0.46
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATAATAAAAAATAAAAAATA
Found at i:35865614 original size:6 final size:7
Alignment explanation
Indices: 35865565--35865615 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
35865555 TAAATAGTAT
35865565 AAAAAT-
1 AAAAATA
*
35865571 AATAATA
1 AAAAATA
35865578 AAATAATA
1 AAA-AATA
35865586 AAAAATA
1 AAAAATA
35865593 AAAAATA
1 AAAAATA
35865600 AAAAAT-
1 AAAAATA
35865606 AAAAATA
1 AAAAATA
35865613 AAA
1 AAA
35865616 GTAGAAAGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
6 11 0.28
7 22 0.55
8 7 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:35867050 original size:13 final size:13
Alignment explanation
Indices: 35867032--35867056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35867022 AATCCATGAA
35867032 AAATAATAATAAC
1 AAATAATAATAAC
35867045 AAATAATAATAA
1 AAATAATAATAA
35867057 ACATATAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAATAAC
Found at i:35869358 original size:59 final size:58
Alignment explanation
Indices: 35869265--35869376 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 58
35869255 CTTGAAAAAT
*
35869265 ATATATTTTCCTAGGAATGGCTTATGCGAAATGAGTATATGTGGCTATATTTTGTGANA
1 ATATATTTTCCTAGGAATGGCTTATGAGAAATGAGTATATGTGGCTATATTTTGTGA-A
* * * *
35869324 ATATATTTTCTTATGAATGGCTTATGATATATGAGTATATGTGGCTATATTTT
1 ATATATTTTCCTAGGAATGGCTTATGAGAAATGAGTATATGTGGCTATATTTT
35869377 ATAATTGCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (58 bp):
ATATATTTTCCTAGGAATGGCTTATGAGAAATGAGTATATGTGGCTATATTTTGTGAA
Found at i:35872639 original size:29 final size:29
Alignment explanation
Indices: 35872606--35872661 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
35872596 ATTTAAAAAA
* *
35872606 ATTCAAATAAATATTTATTCTTTTATTGT
1 ATTCAAATAAACATTTATACTTTTATTGT
*
35872635 ATTCAATTAAACATTTATACTTTTATT
1 ATTCAAATAAACATTTATACTTTTATT
35872662 TTGAATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.54
Consensus pattern (29 bp):
ATTCAAATAAACATTTATACTTTTATTGT
Found at i:35872948 original size:29 final size:30
Alignment explanation
Indices: 35872916--35872982 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
35872906 AAGTAATAGT
*
35872916 TATAAGAATTTATTT-AATTCAAATAAAAA
1 TATAAGAATTTATTTGAATTAAAATAAAAA
**
35872945 TATAAGAATTTATTTGGTTTAAAATAAAAA
1 TATAAGAATTTATTTGAATTAAAATAAAAA
35872975 TATAAGAA
1 TATAAGAA
35872983 CTTGATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (30 bp):
TATAAGAATTTATTTGAATTAAAATAAAAA
Found at i:35879075 original size:15 final size:15
Alignment explanation
Indices: 35879044--35879077 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35879034 ATAGAGAACC
* *
35879044 AAAAAAAAAATTTAT
1 AAAAAAAAAAATGAT
35879059 AAAAAAAAAAATGAT
1 AAAAAAAAAAATGAT
35879074 AAAA
1 AAAA
35879078 TTTTGATTCA
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:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAAAAAAAATGAT
Found at i:35880172 original size:2 final size:2
Alignment explanation
Indices: 35880167--35880195 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35880157 CCTGCTGCAA
35880167 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
35880196 TGAACAAAAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:35882623 original size:32 final size:34
Alignment explanation
Indices: 35882566--35882631 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
35882556 GACAAATTCT
35882566 TATCAATCTTGCAAGAAATGGTTAC-TAGAGTCA
1 TATCAATCTTGCAAGAAATGGTTACTTAGAGTCA
35882599 TATCAATCTTGCAAG-AATGGTTACTTAGAGTCA
1 TATCAATCTTGCAAGAAATGGTTACTTAGAGTCA
35882632 GAAATAAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (34 bp):
TATCAATCTTGCAAGAAATGGTTACTTAGAGTCA
Found at i:35891984 original size:18 final size:18
Alignment explanation
Indices: 35891961--35891997 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35891951 TACTGATCAG
35891961 CTGTATCTGCTTCAGTTT
1 CTGTATCTGCTTCAGTTT
*
35891979 CTGTATCTGTTTCAGTTT
1 CTGTATCTGCTTCAGTTT
35891997 C
1 C
35891998 AATTGATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.16, T:0.51
Consensus pattern (18 bp):
CTGTATCTGCTTCAGTTT
Found at i:35894617 original size:10 final size:12
Alignment explanation
Indices: 35894592--35894617 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35894582 ATGCACTAAG
35894592 ACACCTCATAAC
1 ACACCTCATAAC
35894604 ACACCTCATAAC
1 ACACCTCATAAC
35894616 AC
1 AC
35894618 TGGTGTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (12 bp):
ACACCTCATAAC
Found at i:35899174 original size:2 final size:2
Alignment explanation
Indices: 35899167--35899196 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
35899157 CCACCAAAGC
*
35899167 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35899197 AATAAATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:35907265 original size:12 final size:12
Alignment explanation
Indices: 35907250--35907275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35907240 TTGGTAAATT
35907250 TTTTTTTATAAG
1 TTTTTTTATAAG
35907262 TTTTTTTATAAG
1 TTTTTTTATAAG
35907274 TT
1 TT
35907276 ATAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTTTTATAAG
Found at i:35907295 original size:18 final size:19
Alignment explanation
Indices: 35907255--35907295 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
35907245 AAATTTTTTT
* *
35907255 TTATAAGTTTTTTTATAAG
1 TTATAAGTTTTTTTAAAAA
35907274 TTATAA-TTTTTTTAAAAA
1 TTATAAGTTTTTTTAAAAA
35907292 TTAT
1 TTAT
35907296 CATAGAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATAAGTTTTTTTAAAAA
Found at i:35910649 original size:15 final size:14
Alignment explanation
Indices: 35910623--35910664 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
35910613 TAAAACATAA
35910623 TAATA-TAATATTT
1 TAATATTAATATTT
35910636 TAATATTAATTATTT
1 TAATATTAA-TATTT
* *
35910651 AAATATTAAAATTT
1 TAATATTAATATTT
35910665 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTAATATTT
Found at i:35912810 original size:2 final size:2
Alignment explanation
Indices: 35912803--35912834 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35912793 TTCATTAGGA
35912803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35912835 TCAACTCATG
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):
AT
Found at i:35915262 original size:14 final size:16
Alignment explanation
Indices: 35915243--35915274 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
35915233 AACAGGACCT
35915243 ATGTATT-TTTT-TAA
1 ATGTATTATTTTATAA
35915257 ATGTATTATTTTATAA
1 ATGTATTATTTTATAA
35915273 AT
1 AT
35915275 TTAGTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
ATGTATTATTTTATAA
Found at i:35918892 original size:40 final size:41
Alignment explanation
Indices: 35918814--35918892 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
35918804 GTAATTTGAA
* *
35918814 TAAAATAGTTTGATACAATTGATTTATTGAGTCTATTGTTT
1 TAAAATAGTTTGATACAACTGATTTATTGAGTCGATTGTTT
*
35918855 TAAAA-AGTTTGATTCAACTGATTTATTTGA-TCGATTGT
1 TAAAATAGTTTGATACAACTGATTTA-TTGAGTCGATTGT
35918893 CGATTCTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 25 0.74
41 9 0.26
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (41 bp):
TAAAATAGTTTGATACAACTGATTTATTGAGTCGATTGTTT
Found at i:35918956 original size:22 final size:22
Alignment explanation
Indices: 35918930--35918972 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35918920 ATAAAAAATT
*
35918930 AAATTAATATTATATATATTTA
1 AAATTAATATAATATATATTTA
*
35918952 AAATTTATATAATATATATTT
1 AAATTAATATAATATATATTT
35918973 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTAATATAATATATATTTA
Found at i:35919860 original size:2 final size:2
Alignment explanation
Indices: 35919853--35919878 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35919843 TCCACTTACT
35919853 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
35919879 GCGTTTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:35927441 original size:27 final size:27
Alignment explanation
Indices: 35927411--35927498 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
35927401 TTATCATGGT
*
35927411 ATGTAACAATTAAATTTTTAACATGAC
1 ATGTAACAATTAAATTTTAAACATGAC
** *
35927438 ATGTAATC-ATTTTATTGTTAAACATGAT
1 ATGTAA-CAATTAAATT-TTAAACATGAC
* *
35927466 ATGTAACAACTAAATTTTCAACATGAC
1 ATGTAACAATTAAATTTTAAACATGAC
*
35927493 GTGTAA
1 ATGTAA
35927499 TAACTACATT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
27 27 0.56
28 21 0.44
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (27 bp):
ATGTAACAATTAAATTTTAAACATGAC
Found at i:35927503 original size:27 final size:27
Alignment explanation
Indices: 35927411--35927509 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
35927401 TTATCATGGT
* *
35927411 ATGTAACAATTAAATTTTTAACATGAC
1 ATGTAACAACTAAATTTTAAACATGAC
* ** *
35927438 ATGTAATC-ATTTTATTGTTAAACATGAT
1 ATGTAA-CAACTAAATT-TTAAACATGAC
*
35927466 ATGTAACAACTAAATTTTCAACATGAC
1 ATGTAACAACTAAATTTTAAACATGAC
* * *
35927493 GTGTAATAACTACATTT
1 ATGTAACAACTAAATTT
35927510 GACAACTAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 36 0.63
28 21 0.37
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (27 bp):
ATGTAACAACTAAATTTTAAACATGAC
Found at i:35927537 original size:94 final size:95
Alignment explanation
Indices: 35927416--35927686 Score: 237
Period size: 83 Copynumber: 3.0 Consensus size: 95
35927406 ATGGTATGTA
* ** * * * *
35927416 ACAATTAAATTTTTAACATGACATGTAATCATTTTATTGTTAAACATGATATGTAACAACTA-AA
1 ACAACTAAATTTTTAACATGACATGTAAT-AACTAAATCTTAAACATGACATGTAACAACTATAA
35927480 TTTTCAACATGACGTGTAATAACTACATTTG
65 TTTTCAACATGACGTGTAATAACTACATTTG
* * * * *
35927511 ACAACTAAA-TTTTAACATGGCATGTAATAACTAAATCTTCAACATGACGTGTAATAACTATATT
1 ACAACTAAATTTTTAACATGACATGTAATAACTAAATCTTAAACATGACATGTAACAACTATAAT
*
35927575 TTTTAACATGACGTG---TAA-TA-A-TT-
66 TTTCAACATGACGTGTAATAACTACATTTG
* * * * * *
35927598 AC-A-T---TTTTTAACATGACGTGTAATAACTAAATCTTCAACATGACGTGTAACAATTACATT
1 ACAACTAAATTTTTAACATGACATGTAATAACTAAATCTTAAACATGACATGTAACAACTATAAT
** *
35927658 TTTCAATTTGACGTGTAATAACTAAATTT
66 TTTCAACATGACGTGTAATAACTACATTT
35927687 TCAACATAGC
Statistics
Matches: 147, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
83 62 0.42
85 1 0.01
86 4 0.03
87 4 0.03
88 3 0.02
89 3 0.02
90 2 0.01
91 3 0.02
93 23 0.16
94 34 0.23
95 8 0.05
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (95 bp):
ACAACTAAATTTTTAACATGACATGTAATAACTAAATCTTAAACATGACATGTAACAACTATAAT
TTTCAACATGACGTGTAATAACTACATTTG
Found at i:35927595 original size:55 final size:55
Alignment explanation
Indices: 35927520--35927729 Score: 219
Period size: 55 Copynumber: 3.8 Consensus size: 55
35927510 GACAACTAAA
* * * * *
35927520 TTTTAACATGGCATGTAATAACTA-AATCTTCAACATGACGTGTAATAACTATATT
1 TTTTAACATGACGTGTAATAATTACATTTTTCAACATGACGTGTAATAACTA-ATT
* *
35927575 TTTTAACATGACGTGTAATAATTACATTTTTTAACATGACGTGTAATAACTAAAT
1 TTTTAACATGACGTGTAATAATTACATTTTTCAACATGACGTGTAATAACTAATT
* * * ** *
35927630 CTTCAACATGACGTGTAACAATTACATTTTTCAATTTGACGTGTAATAACTAAAT
1 TTTTAACATGACGTGTAATAATTACATTTTTCAACATGACGTGTAATAACTAATT
* * * * *
35927685 TTTCAACAT-AGCGTATAACAATTATATTTTT-AACATGACATGTAA
1 TTTTAACATGA-CGTGTAATAATTACATTTTTCAACATGACGTGTAA
35927730 CAATTATATC
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
54 12 0.09
55 98 0.73
56 24 0.18
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (55 bp):
TTTTAACATGACGTGTAATAATTACATTTTTCAACATGACGTGTAATAACTAATT
Found at i:35927659 original size:83 final size:82
Alignment explanation
Indices: 35927513--35927735 Score: 252
Period size: 83 Copynumber: 2.7 Consensus size: 82
35927503 TACATTTGAC
* * * * *
35927513 AACTAAA-TTTTAACATGGCATGTAATAACTAAATCTTCAACATGACGTGTAATAACTATATTTT
1 AACTAAATTTTTAACATGACGTGTAATAACTAAATCTTCAACATGACGTGTAACAATTACATTTT
*
35927577 TTAACATGACGTGTAAT
66 TCAACATGACGTGTAAT
* *
35927594 AATTACATTTTTTAACATGACGTGTAATAACTAAATCTTCAACATGACGTGTAACAATTACATTT
1 AACTA-AATTTTTAACATGACGTGTAATAACTAAATCTTCAACATGACGTGTAACAATTACATTT
**
35927659 TTCAATTTGACGTGTAAT
65 TTCAACATGACGTGTAAT
* * * * * * * *
35927677 AACTAAATTTTCAACAT-AGCGTATAACAATTATATTTTTAACATGACATGTAACAATTA
1 AACTAAATTTTTAACATGA-CGTGTAATAACTAAATCTTCAACATGACGTGTAACAATTA
35927736 TATCCAACAT
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
81 5 0.04
82 44 0.37
83 70 0.59
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (82 bp):
AACTAAATTTTTAACATGACGTGTAATAACTAAATCTTCAACATGACGTGTAACAATTACATTTT
TCAACATGACGTGTAAT
Found at i:35927713 original size:27 final size:27
Alignment explanation
Indices: 35927548--35927811 Score: 88
Period size: 28 Copynumber: 9.7 Consensus size: 27
35927538 TAACTAAATC
* * * *
35927548 TTCAACATGACGTGTAATAACTATATTT
1 TTCAACATGACATATAACAATTATA-TT
* * * * *
35927576 TTTAACATGACGTGTAATAATTACATTT
1 TTCAACATGACATATAACAATTATA-TT
* * * * * * *
35927604 TTTAACATGACGTGTAATAACTAAATC
1 TTCAACATGACATATAACAATTATATT
* * *
35927631 TTCAACATGACGTGTAACAATTACATTT
1 TTCAACATGACATATAACAATTATA-TT
** * * * * *
35927659 TTCAATTTGACGTGTAATAACTAAATT
1 TTCAACATGACATATAACAATTATATT
*
35927686 TTCAACAT-AGCGTATAACAATTATATT
1 TTCAACATGA-CATATAACAATTATATT
* *
35927713 TTTAACATGACATGTAACAATTATA--
1 TTCAACATGACATATAACAATTATATT
* * * *
35927738 TCCAACATGACATGTTACAATTAAATT
1 TTCAACATGACATATAACAATTATATT
* * * * *
35927765 TTAGAATATGACGTGTAAC-ACTATATTT
1 TT-CAACATGACATATAACAATTATA-TT
*
35927793 TTCAACATGATAT-TAACAA
1 TTCAACATGACATATAACAA
35927812 CATTTTTCCC
Statistics
Matches: 188, Mismatches: 40, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
25 21 0.11
26 5 0.03
27 76 0.40
28 86 0.46
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (27 bp):
TTCAACATGACATATAACAATTATATT
Found at i:35929167 original size:29 final size:30
Alignment explanation
Indices: 35929134--35929191 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
35929124 CTAAATATTT
*
35929134 AAATAAAATC-TTTTTTATTGAAATTAAGA
1 AAATAAAATCTTTTTTTATTAAAATTAAGA
**
35929163 AAATAAGGTCTTTTTTTATTAAAATTAAG
1 AAATAAAATCTTTTTTTATTAAAATTAAG
35929192 GAAGAAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (30 bp):
AAATAAAATCTTTTTTTATTAAAATTAAGA
Found at i:35933196 original size:85 final size:85
Alignment explanation
Indices: 35933055--35933372 Score: 414
Period size: 85 Copynumber: 3.8 Consensus size: 85
35933045 TTCAAAGACT
* * ** * *
35933055 TTAATATTTAGAAATATTGTTT-AGATAATTAATTAAAATGATT--T--GATGTTAGAATTAAAC
1 TTAATGTTTAGAATTATTGTTTGAG-TTTTTAATTAAAATGATTGGTAATATGCTAGAATTAAAC
35933115 ATTAAGAATTATGTTTGGGAA
65 ATTAAGAATTATGTTTGGGAA
* * * * *
35933136 TTAATGTTTGGAATTGTTGTTTGAGTTTTTAATTTAAATAATTGGTAATATGTTAGAATTAAACA
1 TTAATGTTTAGAATTATTGTTTGAGTTTTTAATTAAAATGATTGGTAATATGCTAGAATTAAACA
35933201 TTAAGAATTATGTTTGGGAA
66 TTAAGAATTATGTTTGGGAA
* * **
35933221 TTAATGTTTAGAATTATTGTTTGAATTTTTAATTAAAATGATTAGTAATATGCTAGAATTAATTA
1 TTAATGTTTAGAATTATTGTTTGAGTTTTTAATTAAAATGATTGGTAATATGCTAGAATTAAACA
*
35933286 TTAAAAATTATGTTTGGGAA
66 TTAAGAATTATGTTTGGGAA
* *
35933306 TTAATGTTTAGAATTATTATTT-AGATTTTTAATTAAAATGATTGATAATATGCTAGAATTAAAC
1 TTAATGTTTAGAATTATTGTTTGAG-TTTTTAATTAAAATGATTGGTAATATGCTAGAATTAAAC
35933370 ATT
65 ATT
35933373 GGAATTGATA
Statistics
Matches: 206, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
81 32 0.16
82 2 0.01
83 1 0.00
84 1 0.00
85 170 0.83
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.45
Consensus pattern (85 bp):
TTAATGTTTAGAATTATTGTTTGAGTTTTTAATTAAAATGATTGGTAATATGCTAGAATTAAACA
TTAAGAATTATGTTTGGGAA
Found at i:35936037 original size:25 final size:25
Alignment explanation
Indices: 35936005--35936058 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
35935995 CTTTTGAAAC
*
35936005 TAATGTTTATTTATTATATAAAGAT
1 TAATGTTTATTTATTACATAAAGAT
*
35936030 TAATGTTTATTTATTACATGAAGAT
1 TAATGTTTATTTATTACATAAAGAT
35936055 TAAT
1 TAAT
35936059 ATCATTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (25 bp):
TAATGTTTATTTATTACATAAAGAT
Found at i:35939634 original size:22 final size:23
Alignment explanation
Indices: 35939609--35939671 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 23
35939599 CATTTGTAAC
*
35939609 TAAATTATTAATTTTATA-TAAT
1 TAAATTATTAATTTTAAATTAAT
*
35939631 TAAATATATAAAATTATTAAATTAAT
1 TAAAT-TAT-TAATT-TTAAATTAAT
35939657 TAAACTTATTAATTT
1 TAAA-TTATTAATTT
35939672 ATTTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 5 0.15
25 8 0.24
26 11 0.33
27 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAATTATTAATTTTAAATTAAT
Found at i:35939652 original size:8 final size:8
Alignment explanation
Indices: 35939609--35939674 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 8
35939599 CATTTGTAAC
35939609 TAAATTAT
1 TAAATTAT
35939617 T-AATT-T
1 TAAATTAT
* *
35939623 TATATAAT
1 TAAATTAT
35939631 TAAATATAT
1 TAAAT-TAT
*
35939640 AAAATTAT
1 TAAATTAT
35939648 TAAATTAAT
1 TAAATT-AT
35939657 TAAACTTAT
1 TAAA-TTAT
*
35939666 TAATTTAT
1 TAAATTAT
35939674 T
1 T
35939675 TTTTTTTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.04
7 6 0.13
8 19 0.41
9 17 0.37
10 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (8 bp):
TAAATTAT
Found at i:35941613 original size:15 final size:15
Alignment explanation
Indices: 35941595--35941632 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
35941585 ACAGGTAATG
35941595 TGATTGTAAGCAATA
1 TGATTGTAAGCAATA
* *
35941610 TGATTGCAAGCAATG
1 TGATTGTAAGCAATA
35941625 TGATTGTA
1 TGATTGTA
35941633 GGGAAGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (15 bp):
TGATTGTAAGCAATA
Found at i:35941902 original size:22 final size:22
Alignment explanation
Indices: 35941858--35941902 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35941848 TTATTACAAG
**
35941858 AATATAATTTATTTTTATTTTT
1 AATATAATTTATTAATATTTTT
35941880 AATATAATTT-TTAATATTNTTT
1 AATATAATTTATTAATATT-TTT
35941902 A
1 A
35941903 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATATAATTTATTAATATTTTT
Found at i:35941921 original size:35 final size:35
Alignment explanation
Indices: 35941865--35941946 Score: 121
Period size: 35 Copynumber: 2.4 Consensus size: 35
35941855 AAGAATATAA
* *
35941865 TTTATTTT-TATTTTTAATATAATTTTTAATATTN
1 TTTATTTTATTTTTTTAATATAATTTTTAATATTG
*
35941899 TTTATTTTATTTTTTTAATATAATTTTTTATATTG
1 TTTATTTTATTTTTTTAATATAATTTTTAATATTG
*
35941934 TATATTTTATTTT
1 TTTATTTTATTTT
35941947 AAATTTTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 8 0.19
35 35 0.81
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.71
Consensus pattern (35 bp):
TTTATTTTATTTTTTTAATATAATTTTTAATATTG
Found at i:35941932 original size:23 final size:23
Alignment explanation
Indices: 35941887--35941932 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35941877 TTTAATATAA
**
35941887 TTTTTAATATTNTTTATTTTATT
1 TTTTTAATATAATTTATTTTATT
35941910 TTTTTAATATAATTT-TTTATATT
1 TTTTTAATATAATTTATTT-TATT
35941933 GTATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTAATATAATTTATTTTATT
Found at i:35943588 original size:22 final size:23
Alignment explanation
Indices: 35943517--35943631 Score: 92
Period size: 23 Copynumber: 4.9 Consensus size: 23
35943507 TTTACTAACT
* * *
35943517 AGTCACGTAATACCTTA-CTAACA
1 AGTCACGCAATGCCTTATC-AATA
*
35943540 AGTCTCGCAATGCCTTAAT-AATA
1 AGTCACGCAATGCCTT-ATCAATA
*
35943563 AGTCACGCAATG-CTTATCAATT
1 AGTCACGCAATGCCTTATCAATA
*
35943585 AGTCACGCAATGCCTTATCAGAAA
1 AGTCACGCAATGCCTTATCA-ATA
* *
35943609 CTATTCACGTAATGCCTTATCAA
1 --AGTCACGCAATGCCTTATCAA
35943632 AAACTAGTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
21 2 0.03
22 18 0.24
23 34 0.45
24 2 0.03
25 1 0.01
26 18 0.24
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (23 bp):
AGTCACGCAATGCCTTATCAATA
Found at i:35943622 original size:26 final size:26
Alignment explanation
Indices: 35943584--35943736 Score: 135
Period size: 26 Copynumber: 6.2 Consensus size: 26
35943574 GCTTATCAAT
* *
35943584 TAGTCACGCAATGCCTTATCAGAAAC
1 TAGTCACGTAATGCCTTATCAAAAAC
*
35943610 TATTCACGTAATGCCTTATCAAAAAC
1 TAGTCACGTAATGCCTTATCAAAAAC
* **
35943636 TAGTCATGTAATGCC----CAAAGTC
1 TAGTCACGTAATGCCTTATCAAAAAC
35943658 -AGTCACGTAATGCC-TATC---AAC
1 TAGTCACGTAATGCCTTATCAAAAAC
* * *
35943679 TAGTCACGCAATGTCTTATCAGAAAC
1 TAGTCACGTAATGCCTTATCAAAAAC
* * *
35943705 TAGTCATGTAATGACTTATCAAAAAA
1 TAGTCACGTAATGCCTTATCAAAAAC
35943731 TAGTCA
1 TAGTCA
35943737 TGCAATATCC
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
21 14 0.14
22 17 0.17
23 4 0.04
24 1 0.01
26 66 0.65
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (26 bp):
TAGTCACGTAATGCCTTATCAAAAAC
Found at i:35943683 original size:95 final size:95
Alignment explanation
Indices: 35943563--35943798 Score: 289
Period size: 95 Copynumber: 2.5 Consensus size: 95
35943553 CTTAATAATA
* * * *
35943563 AGTCACGCAATGCTTATCAATTAGTCACGCAATGCCTTATCAGAAACTATTCACGTAATGCCTTA
1 AGTCACGCAATGCCTATCAAATAGTCACGCAATGCCTTATCAGAAACTAGTCACGTAATGACTTA
* * * *
35943628 TCAAAAACTAGTCATGTAATGCCCAAAGTC
66 TCAAAAAATAGTCATGCAATACCCAAAATC
* * * *
35943658 AGTCACGTAATGCCTATCAACTAGTCACGCAATGTCTTATCAGAAACTAGTCATGTAATGACTTA
1 AGTCACGCAATGCCTATCAAATAGTCACGCAATGCCTTATCAGAAACTAGTCACGTAATGACTTA
*
35943723 TCAAAAAATAGTCATGCAATATCCAAAATC
66 TCAAAAAATAGTCATGCAATACCCAAAATC
* * *
35943753 AGTTATGCAATGTCC-A--AAATCAGTCACGCAATGCCTTATCAAAAAC
1 AGTCACGCAATG-CCTATCAAAT-AGTCACGCAATGCCTTATCAGAAAC
35943799 CAAGCACAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
93 3 0.02
94 23 0.19
95 93 0.77
96 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (95 bp):
AGTCACGCAATGCCTATCAAATAGTCACGCAATGCCTTATCAGAAACTAGTCACGTAATGACTTA
TCAAAAAATAGTCATGCAATACCCAAAATC
Found at i:35943686 original size:22 final size:22
Alignment explanation
Indices: 35943563--35943691 Score: 82
Period size: 26 Copynumber: 5.5 Consensus size: 22
35943553 CTTAATAATA
* *
35943563 AGTCACGCAATGCTTATCAATT
1 AGTCACGCAATGCCTATCAACT
35943585 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCC-TATC---AACT
* *
35943611 ATTCACGTAATGCCTTATCAAAAACT
1 AGTCACGCAATGCC-TATC---AACT
* * * *
35943637 AGTCATGTAATGCCCA--AAGT
1 AGTCACGCAATGCCTATCAACT
*
35943657 CAGTCACGTAATGCCTATCAACT
1 -AGTCACGCAATGCCTATCAACT
35943680 AGTCACGCAATG
1 AGTCACGCAATG
35943692 TCTTATCAGA
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
20 3 0.03
21 14 0.16
22 24 0.28
23 7 0.08
25 1 0.01
26 38 0.44
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (22 bp):
AGTCACGCAATGCCTATCAACT
Found at i:35943785 original size:21 final size:21
Alignment explanation
Indices: 35943727--35943785 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
35943717 GACTTATCAA
*
35943727 AAAAT-AGTCATGCAATATCC
1 AAAATCAGTCATGCAATGTCC
*
35943747 AAAATCAGTTATGCAATGTCC
1 AAAATCAGTCATGCAATGTCC
*
35943768 AAAATCAGTCACGCAATG
1 AAAATCAGTCATGCAATG
35943786 CCTTATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAATCAGTCATGCAATGTCC
Found at i:35943797 original size:26 final size:26
Alignment explanation
Indices: 35943563--35943797 Score: 74
Period size: 26 Copynumber: 9.9 Consensus size: 26
35943553 CTTAATAATA
*
35943563 AGTCACGCAATG-CTTATC---AATT
1 AGTCACGCAATGCCTTATCAAAAATC
*
35943585 AGTCACGCAATGCCTTATCAGAAA-C
1 AGTCACGCAATGCCTTATCAAAAATC
* *
35943610 TATTCACGTAATGCCTTATCAAAAA-C
1 -AGTCACGCAATGCCTTATCAAAAATC
* * *
35943636 TAGTCATGTAATGCC----C-AAAGTC
1 -AGTCACGCAATGCCTTATCAAAAATC
* *
35943658 AGTCACGTAATGCC-TATC--AACT-
1 AGTCACGCAATGCCTTATCAAAAATC
* *
35943680 AGTCACGCAATGTCTTATCAGAAA-C
1 AGTCACGCAATGCCTTATCAAAAATC
* * *
35943705 TAGTCATGTAATGACTTATCAAAAAAT-
1 -AGTCACGCAATGCCTTATC-AAAAATC
* *
35943732 AGTCATGCAA-----TATCCAAAATC
1 AGTCACGCAATGCCTTATCAAAAATC
* * *
35943753 AGTTATGCAATG-----TCCAAAATC
1 AGTCACGCAATGCCTTATCAAAAATC
35943774 AGTCACGCAATGCCTTATCAAAAA
1 AGTCACGCAATGCCTTATCAAAAA
35943798 CCAAGCACAA
Statistics
Matches: 167, Mismatches: 22, Indels: 44
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.03
21 48 0.29
22 26 0.16
23 13 0.08
24 1 0.01
25 2 0.01
26 68 0.41
27 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (26 bp):
AGTCACGCAATGCCTTATCAAAAATC
Found at i:35944174 original size:23 final size:23
Alignment explanation
Indices: 35944133--35944178 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35944123 AAGTCAAATT
* *
35944133 AAAGAATACAAGAAGAAGATAAAA
1 AAAGAAGACAAGAAAAAGA-AAAA
35944157 AAAGAAGA-AAGAAAAAGAAAAA
1 AAAGAAGACAAGAAAAAGAAAAA
35944179 TGGGAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAGAAGACAAGAAAAAGAAAAA
Found at i:35948426 original size:22 final size:22
Alignment explanation
Indices: 35948398--35948441 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35948388 TGGTCTCTTT
35948398 ACTTAATTAACTATAATGAACG
1 ACTTAATTAACTATAATGAACG
35948420 ACTTAATTAACTATAATGAACG
1 ACTTAATTAACTATAATGAACG
35948442 GTCTATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
ACTTAATTAACTATAATGAACG
Found at i:35954838 original size:2 final size:2
Alignment explanation
Indices: 35954831--35954860 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
35954821 AGTCTAATTA
35954831 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35954861 CCATGTACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35955703 original size:14 final size:14
Alignment explanation
Indices: 35955684--35955712 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35955674 TGAAAATGCA
35955684 CCTTCTATTTTGTT
1 CCTTCTATTTTGTT
35955698 CCTTCTATTTTGTT
1 CCTTCTATTTTGTT
35955712 C
1 C
35955713 ATAGACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.24, G:0.07, T:0.62
Consensus pattern (14 bp):
CCTTCTATTTTGTT
Found at i:35966760 original size:51 final size:51
Alignment explanation
Indices: 35966684--35966785 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
35966674 ATAAATAAAT
*
35966684 CTCAAATTGCCTTGGAATTCAGCATTATTTGAACTGATATATGCTATAGAA
1 CTCAAATTGCCTTGGAATTCAGCATTATTCGAACTGATATATGCTATAGAA
35966735 CTCAAATTGCCTTGGAATTCAGCATTATTCGAACTGATATATGCTATAGAA
1 CTCAAATTGCCTTGGAATTCAGCATTATTCGAACTGATATATGCTATAGAA
35966786 TTAATATGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (51 bp):
CTCAAATTGCCTTGGAATTCAGCATTATTCGAACTGATATATGCTATAGAA
Found at i:35971214 original size:2 final size:2
Alignment explanation
Indices: 35971207--35971240 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
35971197 TTCTTCTTCC
*
35971207 AT AT AT AT AT -T AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35971241 ACTATAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:35974687 original size:2 final size:2
Alignment explanation
Indices: 35974680--35974723 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
35974670 CTAAACAAAC
35974680 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
35974722 TA
1 TA
35974724 ATAGTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35980053 original size:2 final size:2
Alignment explanation
Indices: 35980046--35980085 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
35980036 TAATGCAAGA
35980046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35980086 CACATTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:35980092 original size:15 final size:15
Alignment explanation
Indices: 35980046--35980092 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
35980036 TAATGCAAGA
*
35980046 ATATATATATATATAT
1 ATATATATATACAT-T
*
35980062 ATATATATATATATT
1 ATATATATATACATT
35980077 ATAT-TATATCACATT
1 ATATATATAT-ACATT
35980092 A
1 A
35980093 AACCTTTGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 5 0.17
15 10 0.34
16 14 0.48
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATATATACATT
Found at i:35982854 original size:23 final size:23
Alignment explanation
Indices: 35982814--35982867 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
35982804 AATTTTTAGT
* * *
35982814 CATTACGTGACTGGTTTGTAAAG
1 CATTGCGTAACTGATTTGTAAAG
*
35982837 TATTGCGTAACTGATTTGTAAAG
1 CATTGCGTAACTGATTTGTAAAG
35982860 CATTGCGT
1 CATTGCGT
35982868 GACCAGTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (23 bp):
CATTGCGTAACTGATTTGTAAAG
Found at i:35982992 original size:22 final size:22
Alignment explanation
Indices: 35982967--35983015 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
35982957 TGCCTATAAG
* *
35982967 CCAATCTTGCAATGACTAAAAA
1 CCAATCTCGCAATGACCAAAAA
*
35982989 CCAATCTCGCAATGTCCAAAAA
1 CCAATCTCGCAATGACCAAAAA
35983011 CCAAT
1 CCAAT
35983016 AACGTAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.29, G:0.08, T:0.20
Consensus pattern (22 bp):
CCAATCTCGCAATGACCAAAAA
Found at i:35983690 original size:22 final size:23
Alignment explanation
Indices: 35983640--35983691 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
35983630 GAAACAAAAA
35983640 CGAGAGAAAAATACTAAAGAAAG
1 CGAGAGAAAAATACTAAAGAAAG
* *
35983663 AG-GAGAAAAA-A-TTAAGATAAG
1 CGAGAGAAAAATACTAAAGA-AAG
35983684 CGAGAGAA
1 CGAGAGAA
35983692 GGACAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 13 0.54
23 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.25, T:0.10
Consensus pattern (23 bp):
CGAGAGAAAAATACTAAAGAAAG
Found at i:35987955 original size:2 final size:2
Alignment explanation
Indices: 35987948--35987998 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
35987938 TTATTATCTT
**
35987948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35987990 TA TA TA TA T
1 TA TA TA TA T
35987999 TTTACATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:35988397 original size:3 final size:3
Alignment explanation
Indices: 35988376--35988422 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
35988366 CTTCTTGCAT
* *
35988376 TTA TTA TTG TCA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35988422 T
1 T
35988423 ATTTTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:35990597 original size:379 final size:378
Alignment explanation
Indices: 35989878--35990609 Score: 1286
Period size: 379 Copynumber: 1.9 Consensus size: 378
35989868 GGTTGTATGC
35989878 GGCTGGTAGTGAAATTAGGATTTTTTTTGTTCTAGAGTTTTTTTTGAAATGGGTATTTCTAGGTT
1 GGCTGGTAGTGAAATTAGGATTTTTTTTGTTCTAGAGTTTTTTTTGAAATGGGTATTTCTAGGTT
* *
35989943 TTTTTTAACTTGGTTGCTAGGTTTTTTATGAATCAGCCCCTTTTAGATTTTTTTCAATTCAACCT
66 TTTTTGAACTTAGTTGCTAGGTTTTTTATGAATCAGCCCCTTTTAGATTTTTTTCAATTCAACCT
* *
35990008 CTCCCCTTTTCCTATGAATTTCAAAGGTTTTTATAGAGCCCGATTGTCTAAGTTTTTAGATAATC
131 CTCCCCCTTTCCTATGAATTTCAAAGGTTTTTATAGAGCCCGATTGTCTAAGTTTTTAGACAATC
* *
35990073 CAAAAGCAAAATCATGCCCTTCTGAGCATGATTTAGGATGTGAGGGACTCTAGGTAAAAAAAAAC
196 CAAAAGCAAAATCATGCCCTTCTGAGCATGATTTAGGAAGTGAGGGACTCCAGGTAAAAAAAAAC
*
35990138 ATTGGATGGCAATCAATGGTGACCCCCTTCCCCAAAATCTAGCTGCCCAAGAGGCATTAAATGCC
261 ATTGGATGGCAACCAATGGTGACCCCCTTCCCCAAAATCTAGCTGCCCAAGAGGCATTAAATGCC
*
35990203 CCGTGCCAATAGCGATGATTAAAAGAGCCCCGTGCCAATAGCGATGATTAGAA
326 CAGTGCCAATAGCGATGATTAAAAGAGCCCCGTGCCAATAGCGATGATTAGAA
35990256 GGCTGGTAGTGAAATTAGGATTTTTTTTTGTTCTAGAGTTTTTTTTGAAATGGGTATTTCTAGGT
1 GGCTGGTAGTGAAATTAGGA-TTTTTTTTGTTCTAGAGTTTTTTTTGAAATGGGTATTTCTAGGT
*
35990321 TTTTTTGAACTTAGTTGCTAGGTTTTTTATGAATCAGCCCCTTTTAGGTTTTTTTCAATTCAACC
65 TTTTTTGAACTTAGTTGCTAGGTTTTTTATGAATCAGCCCCTTTTAGATTTTTTTCAATTCAACC
*
35990386 TCTCCCCCTTTCCTATGAATTTCAAAGGTTTTTATAGAGCTCGATTGTCTAAGTTTTTAGACAAT
130 TCTCCCCCTTTCCTATGAATTTCAAAGGTTTTTATAGAGCCCGATTGTCTAAGTTTTTAGACAAT
** * *
35990451 CCAAAAGTGAAATCATGCTCTTCTGAGCATGATTTCA-GAAGTGAGGGACTCCAGGTAAAAGAAA
195 CCAAAAGCAAAATCATGCCCTTCTGAGCATGATTT-AGGAAGTGAGGGACTCCAGGTAAAAAAAA
*
35990515 ACATTGGGTGGCAACCAATGGTGACCCCCTTCCCCAAAATCTAGCTGCCCAAGAGGCATTAAATG
259 ACATTGGATGGCAACCAATGGTGACCCCCTTCCCCAAAATCTAGCTGCCCAAGAGGCATTAAATG
* *
35990580 CCTAGTGCCAATAGCGATGATTAGAAGAGC
324 CCCAGTGCCAATAGCGATGATTAAAAGAGC
35990610 AATAGGGTGG
Statistics
Matches: 335, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
378 20 0.06
379 314 0.94
380 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (378 bp):
GGCTGGTAGTGAAATTAGGATTTTTTTTGTTCTAGAGTTTTTTTTGAAATGGGTATTTCTAGGTT
TTTTTGAACTTAGTTGCTAGGTTTTTTATGAATCAGCCCCTTTTAGATTTTTTTCAATTCAACCT
CTCCCCCTTTCCTATGAATTTCAAAGGTTTTTATAGAGCCCGATTGTCTAAGTTTTTAGACAATC
CAAAAGCAAAATCATGCCCTTCTGAGCATGATTTAGGAAGTGAGGGACTCCAGGTAAAAAAAAAC
ATTGGATGGCAACCAATGGTGACCCCCTTCCCCAAAATCTAGCTGCCCAAGAGGCATTAAATGCC
CAGTGCCAATAGCGATGATTAAAAGAGCCCCGTGCCAATAGCGATGATTAGAA
Found at i:35990733 original size:12 final size:12
Alignment explanation
Indices: 35990716--35990746 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
35990706 TTAGCAGCGA
35990716 TTTATTTATTTT
1 TTTATTTATTTT
*
35990728 TTTATTGATTTT
1 TTTATTTATTTT
35990740 TTTATTT
1 TTTATTT
35990747 GGGCCTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:36000321 original size:34 final size:33
Alignment explanation
Indices: 36000277--36000342 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
36000267 ATGTCTAGAA
36000277 TGCAGACTTTCGAAGCACTCTGTCTACTGGTCC
1 TGCAGACTTTCGAAGCACTCTGTCTACTGGTCC
*
36000310 TNGCAGACTTTCGACGCACTCTGTCTACTGGTC
1 T-GCAGACTTTCGAAGCACTCTGTCTACTGGTC
36000343 ATCGGATGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.30
Consensus pattern (33 bp):
TGCAGACTTTCGAAGCACTCTGTCTACTGGTCC
Found at i:36003071 original size:16 final size:15
Alignment explanation
Indices: 36003050--36003092 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
36003040 TTACTTGTTT
36003050 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
*
36003066 TTAGTTTATTTTTAAG
1 TTAG-TTATTTTTAAA
*
36003082 TGAGTTATTTT
1 TTAGTTATTTT
36003093 AATTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:36003098 original size:20 final size:21
Alignment explanation
Indices: 36003070--36003118 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
36003060 TTATAATTAG
*
36003070 TTTATTTTTAAGTGAGTTA-T
1 TTTAATTTTAAGTGAGTTATT
* * *
36003090 TTTAATTTTATGTTATTTATT
1 TTTAATTTTAAGTGAGTTATT
36003111 TTTAATTT
1 TTTAATTT
36003119 GATTGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTAATTTTAAGTGAGTTATT
Found at i:36003113 original size:21 final size:22
Alignment explanation
Indices: 36003089--36003132 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
36003079 AAGTGAGTTA
*
36003089 TTTTAATTTTA-TGTTATTTAT
1 TTTTAATTTGATTGTTATTTAT
36003110 TTTTAATTTGATTGTTATTTAT
1 TTTTAATTTGATTGTTATTTAT
36003132 T
1 T
36003133 AGTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTTAATTTGATTGTTATTTAT
Found at i:36004241 original size:14 final size:14
Alignment explanation
Indices: 36004222--36004253 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
36004212 TGTTAGTTTA
*
36004222 AATTTTAGTTAATT
1 AATTTTAGTTAATC
36004236 AATTTTAGTTAATC
1 AATTTTAGTTAATC
36004250 AATT
1 AATT
36004254 AATTTTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (14 bp):
AATTTTAGTTAATC
Found at i:36016428 original size:6 final size:6
Alignment explanation
Indices: 36016417--36016441 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36016407 ACCTTCAATA
36016417 CTGCTT CTGCTT CTGCTT CTGCTT C
1 CTGCTT CTGCTT CTGCTT CTGCTT C
36016442 AGCTCTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGCTT
Found at i:36020787 original size:29 final size:29
Alignment explanation
Indices: 36020755--36020819 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
36020745 ATATCTTTAA
*
36020755 ATTATTTTAAAAAATTTAAATAAATTTTT
1 ATTATTTTAAAAAATTCAAATAAATTTTT
** * *
36020784 ATTATTTTATTACATTCAATTAAATTTTT
1 ATTATTTTAAAAAATTCAAATAAATTTTT
36020813 A-TATTTT
1 ATTATTTT
36020820 TATTTTAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTATTTTAAAAAATTCAAATAAATTTTT
Found at i:36026174 original size:16 final size:16
Alignment explanation
Indices: 36026153--36026200 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
36026143 TTATAAAAAT
36026153 AATAATAACAAAACAA
1 AATAATAACAAAACAA
* *
36026169 AATAATAATAACATC-A
1 AATAATAACAA-AACAA
36026185 AAT-ATAACAAAACAA
1 AATAATAACAAAACAA
36026200 A
1 A
36026201 GGTTCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 2 0.08
15 8 0.31
16 14 0.54
17 2 0.08
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (16 bp):
AATAATAACAAAACAA
Found at i:36026279 original size:12 final size:14
Alignment explanation
Indices: 36026253--36026292 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
36026243 TTTTTATAAA
36026253 ATTTAAAA-AATTT
1 ATTTAAAATAATTT
36026266 A-TTAAAATAA-TT
1 ATTTAAAATAATTT
*
36026278 ATTTAAAATTATTT
1 ATTTAAAATAATTT
36026292 A
1 A
36026293 AGTAAAGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 9 0.39
13 11 0.48
14 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTAAAATAATTT
Found at i:36027187 original size:46 final size:46
Alignment explanation
Indices: 36027101--36027189 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
36027091 AAAAAAAAAG
*
36027101 TGTACATGAAAAGATACAAAGAGAACAAGTGAAAGGGAAAAACCCA
1 TGTACATGAAAAGATACAAAGAGAACAAGTGAAAGAGAAAAACCCA
* *
36027147 TGTACTTGAAAAGGTAC-AAGAGAACAAG-GTAAGAGAGAAAAAC
1 TGTACATGAAAAGATACAAAGAGAACAAGTG-AA-AGAGAAAAAC
36027190 ACTTGTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 1 0.03
45 13 0.34
46 24 0.63
ACGTcount: A:0.53, C:0.11, G:0.24, T:0.12
Consensus pattern (46 bp):
TGTACATGAAAAGATACAAAGAGAACAAGTGAAAGAGAAAAACCCA
Found at i:36027440 original size:35 final size:35
Alignment explanation
Indices: 36027401--36027507 Score: 106
Period size: 35 Copynumber: 3.1 Consensus size: 35
36027391 ACTATAGTTG
* * *
36027401 TTTTACATGAAATAGTAATTCACTTGTTTTAATTA
1 TTTTACGTGAAATAATATTTCACTTGTTTTAATTA
* * * * *
36027436 TTTTATGTGAAACACTATTTCACTTGTTCTAATTG
1 TTTTACGTGAAATAATATTTCACTTGTTTTAATTA
* * **
36027471 TTCTACGTGAAATAATATTTCATTTACTTTAATTA
1 TTTTACGTGAAATAATATTTCACTTGTTTTAATTA
36027506 TT
1 TT
36027508 CTCATCATTA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (35 bp):
TTTTACGTGAAATAATATTTCACTTGTTTTAATTA
Found at i:36027870 original size:31 final size:29
Alignment explanation
Indices: 36027834--36027903 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 29
36027824 TCAACTATTC
*
36027834 AATAATTAATTTTCACATA-TTAAATGATTTT
1 AATAATTAA-ATTCA-ATACTTAAA-GATTTT
*
36027865 CATAATGTAAATTCAATACTTAAAGATTTT
1 AATAAT-TAAATTCAATACTTAAAGATTTT
36027895 AAT-ATTAAA
1 AATAATTAAA
36027904 ATTTTAGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 4 0.12
29 2 0.06
30 11 0.32
31 14 0.41
32 3 0.09
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (29 bp):
AATAATTAAATTCAATACTTAAAGATTTT
Found at i:36027995 original size:29 final size:30
Alignment explanation
Indices: 36027963--36028020 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
36027953 AAATAAGTTC
*
36027963 TTATAG-TTT-TATTATATTCAAATAAAACT
1 TTATAGTTTTATATTA-AGTCAAATAAAACT
*
36027992 TTATATTTTTATATTAAGTCAAATAAAAC
1 TTATAGTTTTATATTAAGTCAAATAAAAC
36028021 CTTAAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 15 0.60
31 5 0.20
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (30 bp):
TTATAGTTTTATATTAAGTCAAATAAAACT
Found at i:36033777 original size:2 final size:2
Alignment explanation
Indices: 36033770--36033798 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36033760 CACCAGTTTC
36033770 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
36033799 GAGTAGGAAG
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36033858 original size:2 final size:2
Alignment explanation
Indices: 36033851--36033880 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36033841 NNNNNNNNNN
36033851 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
36033881 GGATTAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36043531 original size:122 final size:121
Alignment explanation
Indices: 36043294--36043513 Score: 345
Period size: 122 Copynumber: 1.8 Consensus size: 121
36043284 AGGAGTTAGT
36043294 TGCATAAATTGGTACAATTAAGGAGTTTATTTGTTATTTAAATATTTTTTTTCTTAAAAGAAAAG
1 TGCATAAATTGGTACAATTAAGGAGTTTATTTGTTATTTAAATATTTTTTTTCTTAAAAGAAAAG
*****
36043359 TTGGGATTAGAGGTAATGTCACAAGGGTTTGGGTGAGTATAAAAGTTTTTTTAAGTA
66 TTGGGATTAGAGGTAATGTCACAA-GGCCCACGTGAGTATAAAAGTTTTTTTAAGTA
*
36043416 TGCATAAATTGGTATAATTAAGGAGTTTATTTGTTATTTAAATATTTTTTTTTCTTAAAAGAACA
1 TGCATAAATTGGTACAATTAAGGAGTTTATTTGTTATTTAAATA-TTTTTTTTCTTAAAAGAA-A
36043481 A-TTGGGATTAGAGGTAATGTCACAA-GCCCACGT
64 AGTTGGGATTAGAGGTAATGTCACAAGGCCCACGT
36043514 AGTTTATTTG
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
121 3 0.03
122 43 0.48
123 42 0.47
124 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (121 bp):
TGCATAAATTGGTACAATTAAGGAGTTTATTTGTTATTTAAATATTTTTTTTCTTAAAAGAAAAG
TTGGGATTAGAGGTAATGTCACAAGGCCCACGTGAGTATAAAAGTTTTTTTAAGTA
Found at i:36043570 original size:73 final size:74
Alignment explanation
Indices: 36043439--36043576 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 74
36043429 ATAATTAAGG
* *
36043439 AGTTTATTTGTTATTTAAATATTTTTTTTTCTTAAAAGAACAATTGGGATTAGAGGTAATGTCAC
1 AGTTTATTTGTTATTTAAATA-TTTTTTTTCTCAAAAGAACAATTGGGATTAAAGGTAATGTCAC
36043504 AAGCCCACGT
65 AAGCCCACGT
* * *
36043514 AGTTTATTTGTTATTTTTAA-A-TTTTTTTCTCAATAA-AAGAGTTGGGATTAAAGGTAATGTCA
1 AGTTTATTTGTTA-TTTAAATATTTTTTTTCTCAA-AAGAACAATTGGGATTAAAGGTAATGTCA
36043576 C
64 C
36043577 GAGATCACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
73 35 0.62
74 2 0.04
75 14 0.25
76 5 0.09
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (74 bp):
AGTTTATTTGTTATTTAAATATTTTTTTTCTCAAAAGAACAATTGGGATTAAAGGTAATGTCACA
AGCCCACGT
Found at i:36045222 original size:2 final size:2
Alignment explanation
Indices: 36045215--36045260 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
36045205 CATTCTCATC
36045215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36045256 AT AT A
1 AT AT A
36045261 NTTTTCTCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36053754 original size:21 final size:20
Alignment explanation
Indices: 36053728--36053768 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
36053718 TATATATATA
36053728 TATAATTAATGACATAATTT
1 TATAATTAATGACATAATTT
36053748 NTATAATTAATGACATAATTT
1 -TATAATTAATGACATAATTT
36053769 ATATGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TATAATTAATGACATAATTT
Found at i:36053983 original size:20 final size:20
Alignment explanation
Indices: 36053952--36053999 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
36053942 TGTATATGTA
*
36053952 TATATAATATATTTATACAAT
1 TATAT-ATATATTCATACAAT
*
36053973 TATATATATATTCATACCAT
1 TATATATATATTCATACAAT
*
36053993 TTTATAT
1 TATATAT
36054000 TACAAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATATATATTCATACAAT
Found at i:36056374 original size:14 final size:14
Alignment explanation
Indices: 36056352--36056385 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36056342 TCACTTAAAT
*
36056352 TTTTAATATTTTAA
1 TTTTAATATATTAA
*
36056366 TTTTGATATATTAA
1 TTTTAATATATTAA
36056380 TTTTAA
1 TTTTAA
36056386 AAAATAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTAATATATTAA
Found at i:36058128 original size:2 final size:2
Alignment explanation
Indices: 36058121--36058181 Score: 70
Period size: 2 Copynumber: 31.0 Consensus size: 2
36058111 AAAGAGAATT
* * * *
36058121 TA TA TA TA TA TA TA TA CA CA AA TA TG 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
*
36058163 -A TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
36058182 AACACAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:36058251 original size:2 final size:2
Alignment explanation
Indices: 36058244--36058270 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36058234 ATGCATGAAG
36058244 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 T
36058271 TAAAACAAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36059864 original size:18 final size:18
Alignment explanation
Indices: 36059843--36059881 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
36059833 TGTGAAATTA
* *
36059843 ATTATTTTTTTATTTTTT
1 ATTATTTATATATTTTTT
36059861 ATTATTTATATATTTTTT
1 ATTATTTATATATTTTTT
36059879 ATT
1 ATT
36059882 CTTAACTAAT
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:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTATTTATATATTTTTT
Found at i:36059893 original size:18 final size:18
Alignment explanation
Indices: 36059853--36059906 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
36059843 ATTATTTTTT
*
36059853 TATTTTTTATTATTTATA
1 TATTTTTTATTATTAATA
*
36059871 TATTTTTTATTCTTAACTA
1 TATTTTTTATTATTAA-TA
36059890 -ATTTTTT-TTATATAATA
1 TATTTTTTATTAT-TAATA
36059907 AAATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.16
18 24 0.77
19 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTATTATTAATA
Found at i:36060103 original size:14 final size:14
Alignment explanation
Indices: 36060084--36060122 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
36060074 TGTCATGGTA
36060084 ATTTTTATATATAT
1 ATTTTTATATATAT
* *
36060098 ATTTTTATATTTTT
1 ATTTTTATATATAT
36060112 ATTTTTATATA
1 ATTTTTATATA
36060123 CATGTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTATATATAT
Found at i:36060903 original size:37 final size:37
Alignment explanation
Indices: 36060810--36060909 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 37
36060800 CCTCTTCACT
* *
36060810 CTCTCTCTCTACCTGTCGACGATCGACTTTCCCCTTCT
1 CTCTCTCTCTACCTGTCGACGATCGAC-TTCCCATTCG
* * * *
36060848 CTCTCTAT-TCGCCCGTCGATGATCGA-TTCCCTATTCG
1 CTCTCTCTCT-ACCTGTCGACGATCGACTTCCC-ATTCG
36060885 CTCTCTCTCTACCTGTCGACGATCG
1 CTCTCTCTCTACCTGTCGACGATCG
36060910 GTTTTCCCTC
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
36 5 0.10
37 23 0.47
38 21 0.43
ACGTcount: A:0.12, C:0.39, G:0.14, T:0.35
Consensus pattern (37 bp):
CTCTCTCTCTACCTGTCGACGATCGACTTCCCATTCG
Found at i:36066321 original size:2 final size:2
Alignment explanation
Indices: 36066314--36066342 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36066304 CATACAAGGT
36066314 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36066343 AACGCATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36074335 original size:103 final size:103
Alignment explanation
Indices: 36074202--36074427 Score: 364
Period size: 103 Copynumber: 2.2 Consensus size: 103
36074192 TTGTTTATTT
* * * *
36074202 GGCATTAGGTGCCTAAATATTACATGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGG
1 GGCATTACGTGACTGAATATTACATAACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGG
*
36074267 CATTACGTGAATGAATATTTGTTGAGCATTGCGTGACA
66 CATTACGTGAATGAATATTTGTTGAGCATTGCATGACA
*
36074305 GGCATTACGTGACTGAATATTACCTAACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGG
1 GGCATTACGTGACTGAATATTACATAACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGG
* **
36074370 CATTACGTGACTGAATATTTGTTGAGTGTTGCATGACA
66 CATTACGTGAATGAATATTTGTTGAGCATTGCATGACA
36074408 GGCATTAC-TGACTGAATATT
1 GGCATTACGTGACTGAATATT
36074428 TGTTGAGCAT
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 12 0.11
103 102 0.89
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
GGCATTACGTGACTGAATATTACATAACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGG
CATTACGTGAATGAATATTTGTTGAGCATTGCATGACA
Found at i:36074394 original size:48 final size:39
Alignment explanation
Indices: 36074367--36074445 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
36074357 AGTTCTTTAT
** *
36074367 AGGCATTACGTGACTGAATATTTGTTGAGTGTTGCATGAC
1 AGGCATTAC-TGACTGAATATTTGTTGAGCATTGCGTGAC
36074407 AGGCATTACTGACTGAATATTTGTTGAGCATTGCGTGAC
1 AGGCATTACTGACTGAATATTTGTTGAGCATTGCGTGAC
36074446 CTGTTTGTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 27 0.75
40 9 0.25
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (39 bp):
AGGCATTACTGACTGAATATTTGTTGAGCATTGCGTGAC
Found at i:36075633 original size:216 final size:216
Alignment explanation
Indices: 36075259--36075662 Score: 632
Period size: 216 Copynumber: 1.9 Consensus size: 216
36075249 TTTTCACAGT
* *
36075259 TGGTTGGGAAACAAAAGATGTCATTCCTACGAAAACCTTGGACAATTCATCCAAATCTACTGGCT
1 TGGTTGGGAAACAAAAGATGTCATTCCTACGAAAACCTTGGACAATTCATCCAAATATACTGACT
*
36075324 GGGAACAACAAAAGTCACCAGAATGTTATGAAGGTTAGGCCTTTCTTGATGAGTCAAATCAACCA
66 GGGAACAACAAAAGTCACCAGAATGTTATGAAGGTTAGGACTTTCTTGATGAGTCAAATCAACCA
* *
36075389 GCAAGTTCAAATGGTTGGGATACACCAAATGGTTT-GAGTAGCACTCAAAGTGAAAAACCTTATA
131 ACAAGTTCAAATGGCTGGGATACACCAAATGGTTTAG-GTAGCACTCAAAGTGAAAAACCTTATA
36075453 CTAGTGATGCACTGCCACGGTC
195 CTAGTGATGCACTGCCACGGTC
* * * * ** * *
36075475 TGGTTGGGGAGCAGAAGATGTCATTCTTACGAAAACCTTGGATGATTCTTCTAAATATACTGACT
1 TGGTTGGGAAACAAAAGATGTCATTCCTACGAAAACCTTGGACAATTCATCCAAATATACTGACT
*
36075540 GGGAACAACAAAAGTCACCAGAATGTTATGAAGGTTGGGACTCTT-TTGATGAGTCAAATCAACC
66 GGGAACAACAAAAGTCACCAGAATGTTATGAAGGTTAGGACT-TTCTTGATGAGTCAAATCAACC
* *
36075604 AACAAGTTCAATTGGCTGGGATACACCAAATGGTTTAGGTAGCACTTAAAGTGAAAAAC
130 AACAAGTTCAAATGGCTGGGATACACCAAATGGTTTAGGTAGCACTCAAAGTGAAAAAC
36075663 AGCATTAGTC
Statistics
Matches: 170, Mismatches: 16, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
216 167 0.98
217 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (216 bp):
TGGTTGGGAAACAAAAGATGTCATTCCTACGAAAACCTTGGACAATTCATCCAAATATACTGACT
GGGAACAACAAAAGTCACCAGAATGTTATGAAGGTTAGGACTTTCTTGATGAGTCAAATCAACCA
ACAAGTTCAAATGGCTGGGATACACCAAATGGTTTAGGTAGCACTCAAAGTGAAAAACCTTATAC
TAGTGATGCACTGCCACGGTC
Found at i:36077602 original size:23 final size:23
Alignment explanation
Indices: 36077570--36077635 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
36077560 TTATCACATG
*
36077570 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
36077594 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
36077620 AATGATAC--AGAATAAT
1 AATGATACAAAGAATAAT
36077636 GTTAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 8 0.21
23 4 0.11
24 4 0.11
26 22 0.58
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.23
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:36077608 original size:26 final size:26
Alignment explanation
Indices: 36077577--36077628 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
36077567 ATGAATGAAT
*
36077577 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
36077603 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
36077629 GAATAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:36079218 original size:24 final size:24
Alignment explanation
Indices: 36079191--36079344 Score: 143
Period size: 24 Copynumber: 6.5 Consensus size: 24
36079181 GCGTCTGCAT
* * *
36079191 CTGCATCGCCTGCTAGATCTTCAA
1 CTGCATTGACTGCTAGATCTCCAA
* *
36079215 CTGCATTGACTACTGGATCTCCAA
1 CTGCATTGACTGCTAGATCTCCAA
* *
36079239 CTGCATTGACTGC---ATCTACAT
1 CTGCATTGACTGCTAGATCTCCAA
* * * *
36079260 CTGCATCGCCCGCTGGATCTCCAA
1 CTGCATTGACTGCTAGATCTCCAA
36079284 CTGCATTGACTGCTAGATCTCCAA
1 CTGCATTGACTGCTAGATCTCCAA
* * * *
36079308 CTACATTAACTGCTGGATCTCTAA
1 CTGCATTGACTGCTAGATCTCCAA
*
36079332 TTGCATTGACTGC
1 CTGCATTGACTGC
36079345 ATTTGCATCT
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
21 16 0.16
24 87 0.84
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (24 bp):
CTGCATTGACTGCTAGATCTCCAA
Found at i:36079264 original size:69 final size:69
Alignment explanation
Indices: 36079171--36079320 Score: 210
Period size: 69 Copynumber: 2.2 Consensus size: 69
36079161 GATATGCTCA
* * * * * *
36079171 TGCAATGACTGCGTCTGCATCTGCATCGCCTGCTAGATCTTCAACTGCATTGACTACTGGATCTC
1 TGCATTGACTGCATCTACATCTGCATCGCCCGCTAGATCTCCAACTGCATTGACTACTAGATCTC
36079236 CAAC
66 CAAC
* *
36079240 TGCATTGACTGCATCTACATCTGCATCGCCCGCTGGATCTCCAACTGCATTGACTGCTAGATCTC
1 TGCATTGACTGCATCTACATCTGCATCGCCCGCTAGATCTCCAACTGCATTGACTACTAGATCTC
36079305 CAAC
66 CAAC
* *
36079309 TACATTAACTGC
1 TGCATTGACTGC
36079321 TGGATCTCTA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (69 bp):
TGCATTGACTGCATCTACATCTGCATCGCCCGCTAGATCTCCAACTGCATTGACTACTAGATCTC
CAAC
Found at i:36083922 original size:3 final size:3
Alignment explanation
Indices: 36083914--36083940 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
36083904 CAACTTAGTC
36083914 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
36083941 TAATGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:36094275 original size:29 final size:29
Alignment explanation
Indices: 36094236--36094330 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
36094226 AAGAGGTATG
* *
36094236 TGTGAAAAGGTATAAGAGAAAAAGTTGTA
1 TGTGAACAGGTATAAGAGAAAAAGCTGTA
*
36094265 TGTGAACAGGTATAAGAGAAGAAA-CTGTG
1 TGTGAACAGGTATAAGAGAA-AAAGCTGTA
* * * * *
36094294 CGTGAATAGGTACAAGAGAAGAAGGTGTA
1 TGTGAACAGGTATAAGAGAAAAAGCTGTA
36094323 TGTGAACA
1 TGTGAACA
36094331 AGTAAATGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.04
29 48 0.91
30 3 0.06
ACGTcount: A:0.43, C:0.05, G:0.31, T:0.21
Consensus pattern (29 bp):
TGTGAACAGGTATAAGAGAAAAAGCTGTA
Found at i:36094647 original size:35 final size:35
Alignment explanation
Indices: 36094579--36094675 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
36094569 AGTGCTCTGT
* * * * *
36094579 TTATTCTAGTTGTTTTACGTGAAGTAACGCTTTAT
1 TTATTTTAGTTGTTCTACGTGAAGTAGCACTTTAC
* *
36094614 TTGTTTTTGTTGTTCTACGTGAAGTAGCACTTTAC
1 TTATTTTAGTTGTTCTACGTGAAGTAGCACTTTAC
* * *
36094649 TTATTTTAATTGTTCTGCGTAAAGTAG
1 TTATTTTAGTTGTTCTACGTGAAGTAG
36094676 TGCTTCACTC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (35 bp):
TTATTTTAGTTGTTCTACGTGAAGTAGCACTTTAC
Found at i:36099438 original size:13 final size:12
Alignment explanation
Indices: 36099414--36099444 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
36099404 AAGGAGTAAA
36099414 AGAGAATTAGAG
1 AGAGAATTAGAG
36099426 AGAGAATTTAGAG
1 AGAGAA-TTAGAG
36099439 AGAGAA
1 AGAGAA
36099445 GCTCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (12 bp):
AGAGAATTAGAG
Found at i:36099710 original size:29 final size:29
Alignment explanation
Indices: 36099667--36099758 Score: 121
Period size: 29 Copynumber: 3.2 Consensus size: 29
36099657 AGAGGGATAC
* * *
36099667 GTGAAAAGGTGCAAGAGAAGAAGTTGTAT
1 GTGAATAGGTACAAGAAAAGAAGTTGTAT
* *
36099696 GTGAATTGGTACAAGAAAAGAAGTTGTAC
1 GTGAATAGGTACAAGAAAAGAAGTTGTAT
* *
36099725 GTGAATAGGTACAGGAAAAGAAGCTGTAT
1 GTGAATAGGTACAAGAAAAGAAGTTGTAT
36099754 GTGAA
1 GTGAA
36099759 CATGTATACG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (29 bp):
GTGAATAGGTACAAGAAAAGAAGTTGTAT
Found at i:36100062 original size:35 final size:35
Alignment explanation
Indices: 36099966--36100080 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 35
36099956 AGTAGTGTTC
* * * *
36099966 CACTTATTATGGTTGTTTTGCGTGAAGTAATGCTT
1 CACTTATTTTAGTTGTTTTGAGTGAAGTAATACTT
* * * * * *
36100001 CATTTACTCTAGTTGTTCT-ACATGAAGTAACACTT
1 CACTTATTTTAGTTGTTTTGA-GTGAAGTAATACTT
*
36100036 CACTTATTTTAGTTGTTTTGAGTGAAGTAGTACTT
1 CACTTATTTTAGTTGTTTTGAGTGAAGTAATACTT
*
36100071 CACTTGTTTT
1 CACTTATTTT
36100081 GGTTATTCTT
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
35 60 0.98
36 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (35 bp):
CACTTATTTTAGTTGTTTTGAGTGAAGTAATACTT
Found at i:36103574 original size:28 final size:29
Alignment explanation
Indices: 36103528--36103591 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
36103518 GTCTATGGGC
*
36103528 AATTTTTCAGTTTT-TGGGGTAAAAATGT
1 AATTTTTCAGTTTTCGGGGGTAAAAATGT
*
36103556 AATTTTTCA-TTTTACGGGGGTAAAAGTGT
1 AATTTTTCAGTTTT-CGGGGGTAAAAATGT
36103585 AATTTTT
1 AATTTTT
36103592 AAAAATTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 4 0.12
28 9 0.28
29 19 0.59
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (29 bp):
AATTTTTCAGTTTTCGGGGGTAAAAATGT
Found at i:36108545 original size:19 final size:21
Alignment explanation
Indices: 36108501--36108539 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36108491 TCATATTTCT
36108501 TTATAAATATGTGTATCATGGA
1 TTATAAATA-GTGTATCATGGA
36108523 TTATAAATA-TGT-TCATG
1 TTATAAATAGTGTATCATG
36108540 TGTTATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
22 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (21 bp):
TTATAAATAGTGTATCATGGA
Found at i:36109183 original size:24 final size:25
Alignment explanation
Indices: 36109129--36109183 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
36109119 ATTTTACTTA
36109129 GTTTTATTTTTTACTGCCAAATATTT
1 GTTTTATTTTTTACT-CCAAATATTT
* * * *
36109155 ATTTTATTTTTTTCT-CATATTTTT
1 GTTTTATTTTTTACTCCAAATATTT
36109179 GTTTT
1 GTTTT
36109184 TAACTTAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 11 0.46
26 13 0.54
ACGTcount: A:0.18, C:0.09, G:0.05, T:0.67
Consensus pattern (25 bp):
GTTTTATTTTTTACTCCAAATATTT
Found at i:36110578 original size:18 final size:18
Alignment explanation
Indices: 36110550--36110616 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 18
36110540 TGTTCTTTTT
36110550 TTTTTTAATTTATTTCTTA
1 TTTTTT-ATTTATTTCTTA
*
36110569 TTTTTTATTT-TTT-GT-
1 TTTTTTATTTATTTCTTA
36110584 TTTTTTATTATATTTCATTA
1 TTTTTTATT-TATTTC-TTA
*
36110604 TTATTTA-TTATTT
1 TTTTTTATTTATTT
36110617 ATTTTTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
15 9 0.22
16 2 0.05
17 6 0.15
18 9 0.22
19 8 0.20
20 6 0.15
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (18 bp):
TTTTTTATTTATTTCTTA
Found at i:36110579 original size:7 final size:7
Alignment explanation
Indices: 36110558--36110623 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 7
36110548 TTTTTTTTAA
36110558 TTTATTT
1 TTTATTT
*
36110565 CTTATTT
1 TTTATTT
36110572 TTTATTT
1 TTTATTT
*
36110579 TTTGTTT
1 TTTATTT
*
36110586 TTT-TAT
1 TTTATTT
*
36110592 TATATTT
1 TTTATTT
* *
36110599 CATTATTA
1 -TTTATTT
*
36110607 TTTATTA
1 TTTATTT
36110614 TTTATTT
1 TTTATTT
36110621 TTT
1 TTT
36110624 TGAAATAGGT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
6 4 0.09
7 38 0.83
8 4 0.09
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTATTT
Found at i:36110605 original size:35 final size:32
Alignment explanation
Indices: 36110545--36110624 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 32
36110535 TTTCCTGTTC
* *
36110545 TTTTTTTTTTTAATTTATTTCTTATTTTTTAT
1 TTTTTTTTTTTTATTTATTTCTTATTATTTAT
36110577 TTTTTGTTTTTTTATTATATTTCATTATTATTTAT
1 TTTTT-TTTTTTTATT-TATTTC-TTATTATTTAT
*
36110612 TATTTATTTTTTT
1 T-TTTTTTTTTTT
36110625 GAAATAGGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 5 0.12
33 9 0.22
34 6 0.15
35 18 0.44
36 3 0.07
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (32 bp):
TTTTTTTTTTTTATTTATTTCTTATTATTTAT
Found at i:36110882 original size:81 final size:78
Alignment explanation
Indices: 36110791--36110945 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 78
36110781 AATTATCATA
* *
36110791 ATTTTTTAGAGATAAATTGGATGA-CCAATAATTAAAGATTGATTGGTTAAAAATATAAATATTA
1 ATTTTTTAGAGATAAATTGAAT-ATCCAATAATTAAAGATTAATTGGTT--AAATATAAATATTA
*
36110855 TCTCTATATTATTTTG
63 TCTCTAAATTATTTTG
* ** *
36110871 ATTTATTTAGAGATAAATTGAATATTCAATAATTAAATTTTAATTGGTTAAATTTAAATATTATC
1 ATTT-TTTAGAGATAAATTGAATATCCAATAATTAAAGATTAATTGGTTAAATATAAATATTATC
*
36110936 TTTAAATTAT
65 TCTAAATTAT
36110946 CTCAAAAGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
79 23 0.35
80 5 0.08
81 37 0.57
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (78 bp):
ATTTTTTAGAGATAAATTGAATATCCAATAATTAAAGATTAATTGGTTAAATATAAATATTATCT
CTAAATTATTTTG
Found at i:36112212 original size:29 final size:29
Alignment explanation
Indices: 36112170--36112226 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
36112160 TGATAACATT
*
36112170 TTGAATGGTGCTCTTTATAATAGTACTTA
1 TTGAAGGGTGCTCTTTATAATAGTACTTA
*
36112199 TTGAAGGGTGCTCTTTATAATTGTACTT
1 TTGAAGGGTGCTCTTTATAATAGTACTT
36112227 GTCGATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.46
Consensus pattern (29 bp):
TTGAAGGGTGCTCTTTATAATAGTACTTA
Found at i:36112286 original size:35 final size:37
Alignment explanation
Indices: 36112203--36112291 Score: 130
Period size: 36 Copynumber: 2.5 Consensus size: 37
36112193 TACTTATTGA
*
36112203 AGGGTGCTCTTTATAAT-TGTACTTGTCGATATTTGG
1 AGGGTGCTTTTTATAATATGTACTTGTCGATATTTGG
*
36112239 AGGGTGCTTTTTATAATAT-TACTTGTCGATCTTTGG
1 AGGGTGCTTTTTATAATATGTACTTGTCGATATTTGG
*
36112275 -GGGTGCTTTTTACAATA
1 AGGGTGCTTTTTATAATA
36112292 GCACACAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
35 16 0.33
36 32 0.65
37 1 0.02
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.45
Consensus pattern (37 bp):
AGGGTGCTTTTTATAATATGTACTTGTCGATATTTGG
Found at i:36112391 original size:76 final size:76
Alignment explanation
Indices: 36112288--36112454 Score: 192
Period size: 76 Copynumber: 2.2 Consensus size: 76
36112278 TGCTTTTTAC
* * * * * *
36112288 AATAGCACACAATTGGTTGTTCCTTAGATGATGCTCTTTACAATAGCACTTGTCAACCCTTGAG-
1 AATAGCACATAATTTGTTGATCATTAGAGGATGCTCTTTACAATAGCACTTATCAACCCTTG-GT
36112352 GGTGCTCTCTAT
65 GGTGCTCTCTAT
* * ** * *
36112364 AATAGCACATAATTTGTTGATCATTAGAGGGTGCTCTTTACAATAGTACTTATTGATCTTTGGTG
1 AATAGCACATAATTTGTTGATCATTAGAGGATGCTCTTTACAATAGCACTTATCAACCCTTGGTG
*
36112429 GTGCTCTTTAT
66 GTGCTCTCTAT
*
36112440 AATAGCATATAATTT
1 AATAGCACATAATTT
36112455 AGAATCACCA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 1 0.01
76 75 0.99
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (76 bp):
AATAGCACATAATTTGTTGATCATTAGAGGATGCTCTTTACAATAGCACTTATCAACCCTTGGTG
GTGCTCTCTAT
Found at i:36112409 original size:41 final size:40
Alignment explanation
Indices: 36112275--36112409 Score: 118
Period size: 41 Copynumber: 3.5 Consensus size: 40
36112265 CGATCTTTGG
* * *
36112275 GGGTGCTTTTTACAATAGCACACAATTGGTTGTTCCTTAGA
1 GGGTGCTCTTTACAATAGCACA-AATTTGTTGATCCTTAGA
* * ** *
36112316 TGATGCTCTTTACAATAGCAC----TTGTCAACCCTT-GA
1 GGGTGCTCTTTACAATAGCACAAATTTGTTGATCCTTAGA
* * *
36112351 GGGTGCTCTCTATAATAGCACATAATTTGTTGATCATTAGA
1 GGGTGCTCTTTACAATAGCACA-AATTTGTTGATCCTTAGA
36112392 GGGTGCTCTTTACAATAG
1 GGGTGCTCTTTACAATAG
36112410 TACTTATTGA
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
35 19 0.27
36 7 0.10
40 8 0.11
41 36 0.51
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (40 bp):
GGGTGCTCTTTACAATAGCACAAATTTGTTGATCCTTAGA
Found at i:36113377 original size:76 final size:76
Alignment explanation
Indices: 36113245--36113471 Score: 253
Period size: 76 Copynumber: 3.0 Consensus size: 76
36113235 CAATGATTCT
* * * *
36113245 AAATTGTGTGCTATTATAAAAAGCACTCCCAAGGATCGACAAATACTATTGA-AAAGAGCACTTT
1 AAATTGTGTGCTATTATAAAGAGCACTCCCAAAGATCGACAAGTACTATT-ATAAAGAGCACCTT
*
36113309 CCAAGGATCAAC
65 CCAAGGAACAAC
* *
36113321 AAATTATGTGCTATTATAAAGAGCAC-CCCTAAAGATTC-ACAAGTACTATTATAAAGAGTACCT
1 AAATTGTGTGCTATTATAAAGAGCACTCCC-AAAGA-TCGACAAGTACTATTATAAAGAGCACCT
*
36113384 TCTAAGGAACAAC
64 TCCAAGGAACAAC
** ** * * * *
36113397 AAATTGCCTATTATTGTAAAGAGCACTCCCAAAGATCGACAAGTGCTATTGTAAAGAGCACCCTC
1 AAATTGTGTGCTATTATAAAGAGCACTCCCAAAGATCGACAAGTACTATTATAAAGAGCACCTTC
*
36113462 TAAGGAACAA
66 CAAGGAACAA
36113472 GTGCTATTAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
75 6 0.05
76 117 0.91
77 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (76 bp):
AAATTGTGTGCTATTATAAAGAGCACTCCCAAAGATCGACAAGTACTATTATAAAGAGCACCTTC
CAAGGAACAAC
Found at i:36113453 original size:35 final size:35
Alignment explanation
Indices: 36113252--36113490 Score: 132
Period size: 35 Copynumber: 6.5 Consensus size: 35
36113242 TCTAAATTGT
* *
36113252 GTGCTATTATAAAAAGCACTCCCAAGGATCGACAA
1 GTGCTATTATAAAGAGCACTCCCAAGGATCAACAA
* * *
36113287 ATACTATTGA-AAAGAGCACTTTCCAAGGATCAACAAATTA
1 GTGCTATT-ATAAAGAGCAC-TCCCAAGGATCAAC--A--A
*
36113327 TGTGCTATTATAAAGAGCAC-CCCTAAAGATTC-ACAA
1 -GTGCTATTATAAAGAGCACTCCC-AAGGA-TCAACAA
* * * * *
36113363 GTACTATTATAAAGAGTACCTTCTAAGGAACAACAAA
1 GTGCTATTATAAAGAGCA-CTCCCAAGGATCAAC-AA
* * *
36113400 TTGCCTATTATTGTAAAGAGCACTCCCAAAGATCGACAA
1 GTG-CTATTA---TAAAGAGCACTCCCAAGGATCAACAA
*
36113439 GTGCTATTGTAAAGAGCAC-CCTCTAAGG---AACAA
1 GTGCTATTATAAAGAGCACTCC-C-AAGGATCAACAA
*
36113472 GTGCTATTATATAGAGCAC
1 GTGCTATTATAAAGAGCAC
36113491 CTTTTGACAA
Statistics
Matches: 155, Mismatches: 29, Indels: 42
0.69 0.13 0.19
Matches are distributed among these distances:
33 21 0.14
34 2 0.01
35 42 0.27
36 24 0.15
37 4 0.03
38 13 0.08
39 6 0.04
40 18 0.12
41 25 0.16
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (35 bp):
GTGCTATTATAAAGAGCACTCCCAAGGATCAACAA
Found at i:36113527 original size:26 final size:28
Alignment explanation
Indices: 36113476--36113528 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
36113466 GAACAAGTGC
36113476 TATTATATAGAGCACCTTTTGACAAATGT
1 TATTATATAGAGCACCTTTT-ACAAATGT
36113505 TATTATA-ATGAGCA-CTTTT-CAAAT
1 TATTATATA-GAGCACCTTTTACAAAT
36113529 TGCTATCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 5 0.22
28 6 0.26
29 12 0.52
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (28 bp):
TATTATATAGAGCACCTTTTACAAATGT
Found at i:36117534 original size:31 final size:32
Alignment explanation
Indices: 36117468--36117546 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
36117458 GGCACAATTT
*
36117468 TGATGACGTGGC-ATGCCACATGCCACCGATG
1 TGATGACGTGGCAATGCCACATGCCACCGATA
* *
36117499 TGATGACGT-GCAATGCCACATGGCA-CTACTA
1 TGATGACGTGGCAATGCCACATGCCACCGA-TA
*
36117530 TGATGACATGGCAATGC
1 TGATGACGTGGCAATGC
36117547 TGACGTGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 4 0.10
31 30 0.73
32 7 0.17
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (32 bp):
TGATGACGTGGCAATGCCACATGCCACCGATA
Done.