Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 307 of 310
Found at i:101203871 original size:108 final size:108
Alignment explanation
Indices: 101203682--101203877 Score: 313
Period size: 108 Copynumber: 1.8 Consensus size: 108
101203672 GAAAAATGCT
101203682 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTATAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTATAAACAAACAAAT
101203747 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGTATAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGTATAAGA
* * * * **
101203790 TGAAAAAGATTATCACAATGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTGTTGAGAGCAAAGCTATAAACAAACAAA
*
101203854 TTAATCAAGATAGCAAATTTTGCT
65 TCAATCAAGATAGCAAATTTTGCT
101203878 AGAATACAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 76 0.95
109 4 0.05
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTATAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGTATAAGA
Found at i:101203941 original size:45 final size:43
Alignment explanation
Indices: 101203843--101203943 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 43
101203833 GCAAAGCTCT
* * *
101203843 AAATGAACAAATTAATCAAGATAGCAAATTTTGCTAGAATACA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
* **
101203886 AAATGAGAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAA
1 AAAT--GAATAAATTAATCAAGATAGCAAATTTTG-CAAAAATAC-A
101203933 AAATGAATAAA
1 AAATGAATAAA
101203944 ATGGAAATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.08
45 32 0.67
46 7 0.15
47 5 0.10
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (43 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
Found at i:101204231 original size:13 final size:12
Alignment explanation
Indices: 101204213--101204276 Score: 76
Period size: 13 Copynumber: 5.1 Consensus size: 12
101204203 TGGCCTCTCC
101204213 TTTTTCTTTTTCT
1 TTTTTCTTTTT-T
101204226 TTTTTCTTTTTT
1 TTTTTCTTTTTT
101204238 TCTTTTCTTTTTT
1 T-TTTTCTTTTTT
*
101204251 TGTTTT-TTTGTT
1 T-TTTTCTTTTTT
101204263 TTTTTCGTTTTTT
1 TTTTTC-TTTTTT
101204276 T
1 T
101204277 CAAGTGAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
11 4 0.09
12 8 0.18
13 33 0.73
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:101204236 original size:8 final size:8
Alignment explanation
Indices: 101204219--101204277 Score: 63
Period size: 8 Copynumber: 7.8 Consensus size: 8
101204209 CTCCTTTTTC
101204219 TTTTTC-T
1 TTTTTCTT
101204226 TTTTTCTT
1 TTTTTCTT
101204234 TTTTTC--
1 TTTTTCTT
101204240 -TTTTCTT
1 TTTTTCTT
*
101204247 TTTTTGTT
1 TTTTTCTT
*
101204255 TTTTTGTT
1 TTTTTCTT
101204263 TTTTTCGTT
1 TTTTTC-TT
101204272 TTTTTC
1 TTTTTC
101204278 AAGTGAAGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
5 5 0.11
7 6 0.13
8 26 0.58
9 8 0.18
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Found at i:101204239 original size:21 final size:22
Alignment explanation
Indices: 101204213--101204265 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
101204203 TGGCCTCTCC
101204213 TTTTTCTTTTTC-TTTTTTCTT
1 TTTTTCTTTTTCTTTTTTTCTT
*
101204234 TTTTTC-TTTTCTTTTTTTGTT
1 TTTTTCTTTTTCTTTTTTTCTT
*
101204255 TTTTTGTTTTT
1 TTTTTCTTTTT
101204266 TTCGTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 5 0.18
21 19 0.68
22 4 0.14
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (22 bp):
TTTTTCTTTTTCTTTTTTTCTT
Found at i:101204705 original size:8 final size:8
Alignment explanation
Indices: 101204688--101204735 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
101204678 GTAGAGGTTT
101204688 TTTTTCTTA
1 TTTTT-TTA
101204697 TTTTTTTA
1 TTTTTTTA
*
101204705 TTCTTTTA
1 TTTTTTTA
*
101204713 TTCTTTTA
1 TTTTTTTA
101204721 TTTTTATT-
1 TTTTT-TTA
101204729 TTTTTTT
1 TTTTTTT
101204736 TGCTTTTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
7 2 0.06
8 27 0.75
9 7 0.19
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:101204708 original size:14 final size:14
Alignment explanation
Indices: 101204685--101204733 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
101204675 CCGGTAGAGG
101204685 TTTTTT-TTCTTAT
1 TTTTTTATTCTTAT
101204698 TTTTTTATTCTTTTAT
1 TTTTTTATTC--TTAT
* *
101204714 TCTTTTATTTTTAT
1 TTTTTTATTCTTAT
101204728 TTTTTT
1 TTTTTT
101204734 TTTGCTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
16 12 0.40
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTATTCTTAT
Found at i:101204716 original size:22 final size:22
Alignment explanation
Indices: 101204686--101204747 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
101204676 CGGTAGAGGT
*
101204686 TTTTTTTCTTATT-TTTTTATTC
1 TTTTATTCTT-TTATTTTTATTC
*
101204708 TTTTATTCTTTTATTTTTATTT
1 TTTTATTCTTTTATTTTTATTC
* *
101204730 TTTTTTTGCTTTTGTTTT
1 TTTTATT-CTTTTATTTT
101204748 CTCGTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 23 0.68
23 9 0.26
ACGTcount: A:0.08, C:0.06, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTTATTCTTTTATTTTTATTC
Found at i:101204742 original size:9 final size:9
Alignment explanation
Indices: 101204730--101204809 Score: 58
Period size: 8 Copynumber: 8.6 Consensus size: 9
101204720 ATTTTTATTT
101204730 TTTTTTTGC
1 TTTTTTTGC
*
101204739 TTTTGTTTTC
1 TTTT-TTTGC
*
101204749 TCGTTTTTTTAC
1 T---TTTTTTGC
101204761 TTTTTTTGC
1 TTTTTTTGC
101204770 -TTTTTTGC
1 TTTTTTTGC
101204778 -TTTTTTGCTC
1 TTTTTTTG--C
*
101204788 TTTTTTTGT
1 TTTTTTTGC
101204797 TTTTTTTG-
1 TTTTTTTGC
101204805 TTTTT
1 TTTTT
101204810 GCCTCCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
8 20 0.33
9 19 0.32
10 6 0.10
11 7 0.12
12 5 0.08
13 3 0.05
ACGTcount: A:0.01, C:0.10, G:0.10, T:0.79
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:101204773 original size:17 final size:16
Alignment explanation
Indices: 101204753--101204792 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
101204743 GTTTTCTCGT
101204753 TTTTTTACTTTTTTTGC
1 TTTTTTAC-TTTTTTGC
*
101204770 TTTTTTGCTTTTTTGC
1 TTTTTTACTTTTTTGC
101204786 TCTTTTT
1 T-TTTTT
101204793 TTGTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.03, C:0.12, G:0.07, T:0.78
Consensus pattern (16 bp):
TTTTTTACTTTTTTGC
Found at i:101204799 original size:8 final size:8
Alignment explanation
Indices: 101204721--101204809 Score: 54
Period size: 8 Copynumber: 10.4 Consensus size: 8
101204711 TATTCTTTTA
*
101204721 TTTTTATT
1 TTTTTGTT
101204729 TTTTT-TT
1 TTTTTGTT
101204736 TGCTTTTGTT
1 T--TTTTGTT
* *
101204746 TTCTCGTT
1 TTTTTGTT
*
101204754 TTTTTACTT
1 TTTTT-GTT
*
101204763 TTTTTGCT
1 TTTTTGTT
101204771 TTTTTGCTT
1 TTTTTG-TT
*
101204780 TTTTGCTCTT
1 TTTT--TGTT
101204790 TTTTTGTTT
1 TTTTTG-TT
101204799 TTTTTGTT
1 TTTTTGTT
101204807 TTT
1 TTT
101204810 GCCTCCACTG
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
7 3 0.05
8 26 0.41
9 24 0.38
10 9 0.14
11 1 0.02
ACGTcount: A:0.02, C:0.09, G:0.09, T:0.80
Consensus pattern (8 bp):
TTTTTGTT
Found at i:101206204 original size:62 final size:62
Alignment explanation
Indices: 101206096--101206220 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
101206086 CTAAACTCGA
*
101206096 CGTACTTTTAGATTTTAGGAAATTTACTGTATGCAATGAAACGTAATGTTGATGCATGAATG
1 CGTACTTTTAGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATG
* * * * *
101206158 CGTATTTTTGGATTTTAGGAAATTTATTGCATGCGATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTAGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATG
101206220 C
1 C
101206221 AAAAAAGAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (62 bp):
CGTACTTTTAGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATG
Found at i:101207649 original size:37 final size:36
Alignment explanation
Indices: 101207597--101207669 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 36
101207587 AAATTCTAGT
*
101207597 AAAAAATATGTAGATGGGAATATGAGTCTAGTTTCA
1 AAAAAATATGGAGATGGGAATATGAGTCTAGTTTCA
*
101207633 AAAAAATTATGGAGATGGGCATATGAGTCTAGTTTCA
1 AAAAAA-TATGGAGATGGGAATATGAGTCTAGTTTCA
101207670 GGGAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (36 bp):
AAAAAATATGGAGATGGGAATATGAGTCTAGTTTCA
Found at i:101211575 original size:66 final size:66
Alignment explanation
Indices: 101211469--101211599 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
101211459 TTGTTTCGAG
101211469 ATGTTTAATATGTCAACAAGTGAAAGCGGAACATCAAGTGCCTTTC-GGATTACTTCAGCCGATC
1 ATGTTTAATATGTCAACAAGTGAAAGCGGAACATCAAGTGCC-TTCAGGATTACTTCAGCCGATC
101211533 AC
65 AC
101211535 ATGTTTAATATGTCAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCA
1 ATGTTTAATATGTCAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCA
101211600 TGATACCCGA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
65 3 0.05
66 61 0.95
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (66 bp):
ATGTTTAATATGTCAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCA
C
Found at i:101213753 original size:29 final size:28
Alignment explanation
Indices: 101213717--101213794 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
101213707 TCATGAGATT
101213717 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
101213747 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
101213774 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
101213795 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:101214012 original size:174 final size:174
Alignment explanation
Indices: 101213747--101214074 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
101213737 AAATTGTACA
*
101213747 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
101213812 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
101213877 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
101213921 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
101213986 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
101214051 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
101214075 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:101217814 original size:68 final size:64
Alignment explanation
Indices: 101217728--101217949 Score: 223
Period size: 67 Copynumber: 3.4 Consensus size: 64
101217718 TAATACGGGA
* *
101217728 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
101217793 ATG
62 ATG
* * * * * * *
101217796 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTATCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--
101217860 TG
63 TG
* * ** * *
101217862 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
101217926 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
101217950 CAAAATTATG
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 20 0.16
64 24 0.19
65 2 0.02
66 22 0.18
67 29 0.23
68 27 0.22
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:101220369 original size:69 final size:69
Alignment explanation
Indices: 101220284--101220418 Score: 270
Period size: 69 Copynumber: 2.0 Consensus size: 69
101220274 GTATGTGAAA
101220284 TTATTAAATAGGACTTATGTGAGGAAATTTAGAAATGTGCTAGGCAAATGTTATAGTGGCCTATT
1 TTATTAAATAGGACTTATGTGAGGAAATTTAGAAATGTGCTAGGCAAATGTTATAGTGGCCTATT
101220349 ACAT
66 ACAT
101220353 TTATTAAATAGGACTTATGTGAGGAAATTTAGAAATGTGCTAGGCAAATGTTATAGTGGCCTATT
1 TTATTAAATAGGACTTATGTGAGGAAATTTAGAAATGTGCTAGGCAAATGTTATAGTGGCCTATT
101220418 A
66 A
101220419 AAGCATGTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (69 bp):
TTATTAAATAGGACTTATGTGAGGAAATTTAGAAATGTGCTAGGCAAATGTTATAGTGGCCTATT
ACAT
Found at i:101221073 original size:82 final size:82
Alignment explanation
Indices: 101220936--101221096 Score: 313
Period size: 82 Copynumber: 2.0 Consensus size: 82
101220926 ATTTCGATAT
*
101220936 TGAGATGTCTAGAACTTTCGGCCCTTGTAGCTATGGAGAAATAAGGTTTTTGTTTCTTGTTAAAT
1 TGAGATGTCTAGAACTTTCGGCCATTGTAGCTATGGAGAAATAAGGTTTTTGTTTCTTGTTAAAT
101221001 TTAGATGAACAAGGTAC
66 TTAGATGAACAAGGTAC
101221018 TGAGATGTCTAGAACTTTCGGCCATTGTAGCTATGGAGAAATAAGGTTTTTGTTTCTTGTTAAAT
1 TGAGATGTCTAGAACTTTCGGCCATTGTAGCTATGGAGAAATAAGGTTTTTGTTTCTTGTTAAAT
101221083 TTAGATGAACAAGG
66 TTAGATGAACAAGG
101221097 GTAGATGAGT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (82 bp):
TGAGATGTCTAGAACTTTCGGCCATTGTAGCTATGGAGAAATAAGGTTTTTGTTTCTTGTTAAAT
TTAGATGAACAAGGTAC
Found at i:101222158 original size:40 final size:40
Alignment explanation
Indices: 101222097--101222318 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
101222087 TATTCGAATG
*
101222097 ATATTCGGGCTAAGT-TCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCT-CGAAGGCATTTGTGCTATTGACT
*
101222137 ATATCTGGGCTAAGTCTCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTATTGACT
* *
101222177 ATATTCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTATTGACT
* *
101222217 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTATTGACT
* * * *
101222257 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCTG-CT
1 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTA-TTGACT
* *
101222297 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCTCGAAGG
101222319 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.08
40 148 0.90
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTATTGACT
Found at i:101229357 original size:40 final size:40
Alignment explanation
Indices: 101229302--101229389 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
101229292 TATTCGAATG
101229302 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
101229342 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
101229382 ATATCCGG
1 ATATCCGG
101229390 CATTTGTGCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:101229391 original size:25 final size:25
Alignment explanation
Indices: 101229363--101229414 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
101229353 AAGTCCCGAA
101229363 GGCATTTGTGCTATTGATTATATCC
1 GGCATTTGTGCTATTGATTATATCC
101229388 GGCATTTGTGCTATTGATTATATCC
1 GGCATTTGTGCTATTGATTATATCC
101229413 GG
1 GG
101229415 GCTAAGTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.42
Consensus pattern (25 bp):
GGCATTTGTGCTATTGATTATATCC
Found at i:101229427 original size:65 final size:65
Alignment explanation
Indices: 101229323--101229454 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 65
101229313 AAGTCCCGAA
* *
101229323 GGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATTATATCC
1 GGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
101229388 GGCATTTGTGCTATTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
1 GGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
101229453 GG
1 GG
101229455 GCTAAGTCCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (65 bp):
GGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
Found at i:101229450 original size:40 final size:40
Alignment explanation
Indices: 101229388--101229548 Score: 236
Period size: 40 Copynumber: 4.0 Consensus size: 40
101229378 GATTATATCC
* *
101229388 GGCATTTGTGCTATTGATTATATCCGGGCTAAGTCCCGAA
1 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
101229428 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
1 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
* * *
101229468 GGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAA
1 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
* *
101229508 GGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAA
1 GGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAA
101229547 GG
1 GG
101229549 TACTTGGGTT
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 14 0.13
40 94 0.85
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
Found at i:101229484 original size:105 final size:105
Alignment explanation
Indices: 101229302--101229494 Score: 359
Period size: 105 Copynumber: 1.8 Consensus size: 105
101229292 TATTCGAATG
*
101229302 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
101229367 TTTGTGCTATTGATTATATCCGGCATTTGTGCTATTGATT
66 TTTGTGCTATTGACTATATCCGGCATTTGTGCTATTGATT
*
101229407 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
101229472 TTTGTGCTATTGACTATATCCGG
66 TTTGTGCTATTGACTATATCCGG
101229495 GCTAAGACCC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 85 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (105 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTATTGACTATATCCGGCATTTGTGCTATTGATT
Found at i:101230488 original size:74 final size:73
Alignment explanation
Indices: 101230399--101230544 Score: 256
Period size: 74 Copynumber: 2.0 Consensus size: 73
101230389 TTCATATGAG
101230399 AGAAACAAAACGACCATATGAGCCGTATTTTATGAGATGTTTAAGTTTTCGTGAAACAGGGCCAG
1 AGAAACAAAACGACCATATGAGCCGTATTTTATGAGATGTTT-AGTTTTCGTGAAACAGGGCCAG
101230464 AGCATTTTA
65 AGCATTTTA
* *
101230473 AGAAACGAAACGACCATATGAGCCGTATTTTATGAGATGTTTAGTTTTCGTGAAATAGGGCCAGA
1 AGAAACAAAACGACCATATGAGCCGTATTTTATGAGATGTTTAGTTTTCGTGAAACAGGGCCAGA
*
101230538 GCGTTTT
66 GCATTTT
101230545 CTGGATCCCC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 28 0.41
74 41 0.59
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (73 bp):
AGAAACAAAACGACCATATGAGCCGTATTTTATGAGATGTTTAGTTTTCGTGAAACAGGGCCAGA
GCATTTTA
Found at i:101231421 original size:42 final size:42
Alignment explanation
Indices: 101231354--101231473 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 42
101231344 ATGTCAAATA
101231354 CTCGAATTCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT
1 CTCGAA-TCTCGCACACTAAGTGCC-ATACATAGCCGAAGCTAT
** * *
101231398 -TTTAATCTCGCACACTAAATGCCATACATAGCTGAAGCTAT
1 CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT
101231439 CTCGAA--TCGCACACTAAGTGCCATACATAGCCGAA
1 CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAA
101231474 TTGTCGTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
40 27 0.40
41 17 0.25
42 20 0.30
43 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (42 bp):
CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT
Found at i:101234165 original size:99 final size:99
Alignment explanation
Indices: 101233990--101234188 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
101233980 CTGTTACGAA
101233990 AGTAACTAGGTCCATTTCATGCCTACCCTTGATCCAACTCAATCGAACATTCGTGCCATTTTCGC
1 AGTAACTAGGTCCATTTCATGCCTACCCTTGATCCAACTCAATCGAACATTCGTGCCATTTTCGC
101234055 ATGGCTAAAAGTTTACATGCCATAATTCAAACAC
66 ATGGCTAAAAGTTTACATGCCATAATTCAAACAC
101234089 AGTAACTAGGTCCATTTCATGCCTACCCTTGATCCAACTCAATCGAACATTCGTGCCATTTTCGC
1 AGTAACTAGGTCCATTTCATGCCTACCCTTGATCCAACTCAATCGAACATTCGTGCCATTTTCGC
*
101234154 ATGGCTTAAAGTTTACATGCCATAATTCAAACAC
66 ATGGCTAAAAGTTTACATGCCATAATTCAAACAC
101234188 A
1 A
101234189 ACGTACTAGC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (99 bp):
AGTAACTAGGTCCATTTCATGCCTACCCTTGATCCAACTCAATCGAACATTCGTGCCATTTTCGC
ATGGCTAAAAGTTTACATGCCATAATTCAAACAC
Found at i:101234824 original size:27 final size:27
Alignment explanation
Indices: 101234794--101234971 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
101234784 ATATTGAGCC
* *
101234794 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** *
101234821 CGCACACTTAGTGCTATGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
101234848 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
101234876 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
101234903 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
101234930 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
101234957 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
101234972 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:101234933 original size:82 final size:81
Alignment explanation
Indices: 101234814--101234970 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
101234804 GTGCTATATA
* *
101234814 ATCAACTCGCACACTTAGTGCTATGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
101234879 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * ** *
101234896 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGC
1 ATCAACTCGCACACTTAGTGCTAT-ATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGC
101234960 ACACTTAGTGC
65 ACACTTAGTGC
101234971 TGTACAATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATG
Found at i:101241785 original size:58 final size:59
Alignment explanation
Indices: 101241690--101241810 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 59
101241680 GTTTTAAAAA
101241690 TCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGAC
1 TCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGAC
101241749 TCAT-TCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGAC
1 TCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGAC
101241807 TCAT
1 TCAT
101241811 GTGCCCATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 58 0.94
59 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (59 bp):
TCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGAC
Found at i:101243008 original size:27 final size:27
Alignment explanation
Indices: 101242978--101243155 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
101242968 ATATTGAGCC
* *
101242978 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** *
101243005 CGCACACTTAGTGCTATGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
101243032 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
101243060 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
101243087 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
101243114 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
101243141 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
101243156 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:101243117 original size:82 final size:81
Alignment explanation
Indices: 101242998--101243154 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
101242988 GTGCTATATA
* *
101242998 ATCAACTCGCACACTTAGTGCTATGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
101243063 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * ** *
101243080 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGC
1 ATCAACTCGCACACTTAGTGCTAT-ATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGC
101243144 ACACTTAGTGC
65 ACACTTAGTGC
101243155 TGTACAATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATG
Found at i:101245686 original size:53 final size:54
Alignment explanation
Indices: 101245618--101245821 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 54
101245608 TTCCTTTTTA
* * *
101245618 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
101245671 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
101245725 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCATTTTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
101245780 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
101245822 TTTAAACCCT
Statistics
Matches: 120, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 46 0.38
54 34 0.28
55 40 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:101248659 original size:27 final size:28
Alignment explanation
Indices: 101248575--101248672 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
101248565 CATGAGATTG
* * * *
101248575 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
101248604 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
101248632 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
101248659 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
101248673 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:101248683 original size:27 final size:27
Alignment explanation
Indices: 101248603--101248683 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
101248593 TAAATTGTAC
* *
101248603 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
101248631 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
101248658 AGCACTGAGTGTGCGGACTT-AATATA
1 AGCACTAAGTGTGC-GACTTGAATATA
101248684 AATTTTTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 28 0.58
28 20 0.42
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:101252995 original size:22 final size:24
Alignment explanation
Indices: 101252959--101253006 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
101252949 AATTTTATGC
101252959 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
101252981 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
101253005 TA
1 TA
101253007 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:101264956 original size:65 final size:65
Alignment explanation
Indices: 101264814--101264966 Score: 171
Period size: 65 Copynumber: 2.4 Consensus size: 65
101264804 TGCAGACTGC
* * *
101264814 CGCAACTCTTTGTGATCATCCTGTTATATGATCAATTTTGATCTTATATATATTGCAGACACAAA
1 CGCAACTCTTTGTGAGCATCCTGTTATATGATCAATTGTGATCTTACATATATTGCAGACACAAA
* * * * *** * *
101264879 CGCAAATATTTGTGAGCGTCTTGTTATATGATTGGTTGTGATCTTGCATATGTTGCAGACACAAA
1 CGCAACTCTTTGTGAGCATCCTGTTATATGATCAATTGTGATCTTACATATATTGCAGACACAAA
* * *
101264944 TGTAGCTCTTTGTGAGCATCCTG
1 CGCAACTCTTTGTGAGCATCCTG
101264967 ATATGGCTCG
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (65 bp):
CGCAACTCTTTGTGAGCATCCTGTTATATGATCAATTGTGATCTTACATATATTGCAGACACAAA
Found at i:101265149 original size:26 final size:26
Alignment explanation
Indices: 101265098--101265149 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
101265088 TGATAGGCTC
*
101265098 TTTGTGAGCTTCTTGATTAATGGCTT
1 TTTGTGAGCTTCTTGATTAATAGCTT
*
101265124 TTTGTGAGGTTCTTG-TTATATAGCTT
1 TTTGTGAGCTTCTTGATTA-ATAGCTT
101265150 GAGAGAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.52
Consensus pattern (26 bp):
TTTGTGAGCTTCTTGATTAATAGCTT
Found at i:101269932 original size:50 final size:50
Alignment explanation
Indices: 101269821--101270091 Score: 128
Period size: 46 Copynumber: 5.7 Consensus size: 50
101269811 CATGGGGTAA
** * *
101269821 GATGCCGATGCCATGTCCCAGACATGGTCTTACA-T-AGGCTCTAGCATATCT
1 GATG-CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCT--CGTAGCT
101269872 G-TGCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCT
1 GATGC-GATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCTCGTAGCT
*
101269923 GATGC-ATG-C----CCCAGACAT-GTCTTACACCGACTTACGTCTCG-AG--
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTGAC--AC-TCTCGTAGCT
* *
101269966 GA--AGATG-CATGTCCCAGACAT-GTCTTACACT-AGCACTCGTC-TCA-AT
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTC-TCGT-AGCT
* * * * *
101270012 -AT-CGATGCGATGTCCCAGACATGGTCTTACACTGGCTCTCAC-AATG-T
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCTCGTA-GCT
*
101270059 GA-CCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTG
101270092 GCTTACAATA
Statistics
Matches: 179, Mismatches: 15, Indels: 57
0.71 0.06 0.23
Matches are distributed among these distances:
42 4 0.02
43 4 0.02
44 16 0.09
45 14 0.08
46 42 0.23
47 28 0.16
48 20 0.11
49 2 0.01
50 33 0.18
51 8 0.04
52 5 0.03
53 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
GATGCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCTCGTAGCT
Found at i:101270007 original size:46 final size:45
Alignment explanation
Indices: 101269877--101270091 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 45
101269867 TATCTGTGCT
* * *
101269877 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G-CT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTCGTCTCG-AGGACC
* * *
101269923 GATGCATGCCCCAGACATGTCTTACACCGACTTACGTCTCGAGGA-A
1 GATGCATGTCCCAGACATGTCTTACACTGAC-T-CGTCTCGAGGACC
** *
101269969 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-AATATC
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACTCGTCTCGAGGACC
* * *
101270015 GATGCGATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATGTGACC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGACTCGTCTCGA-G-GACC
101270063 GATGCATGTCCCAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
101270092 GCTTACAATA
Statistics
Matches: 142, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
44 12 0.08
45 19 0.13
46 63 0.44
47 29 0.20
48 19 0.13
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTCGTCTCGAGGACC
Found at i:101270041 original size:94 final size:90
Alignment explanation
Indices: 101269877--101270091 Score: 222
Period size: 94 Copynumber: 2.3 Consensus size: 90
101269867 TATCTGTGCT
*
101269877 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATGCATGCCCCAGACATG
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCATAGCTGATGCATGCCCCAGACATG
* *
101269942 TCTTACACCGACTTACGTCTCGA-G-GA-A
64 TCTTACACCGAC-T-C-TCACAATGTGACA
* * * *
101269969 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATATC-GATGCGATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTC-ATAGCTGATGC-ATGCCCCAGACA
* * *
101270033 TGGTCTTACACTGGCTCTCACAATGTGACC
62 T-GTCTTACACCGACTCTCACAATGTGACA
101270063 GATGCATGTCCCAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
101270092 GCTTACAATA
Statistics
Matches: 105, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
90 10 0.10
91 19 0.18
92 18 0.17
93 19 0.18
94 39 0.37
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTCATAGCTGATGCATGCCCCAGACATGTC
TTACACCGACTCTCACAATGTGACA
Found at i:101270094 original size:46 final size:44
Alignment explanation
Indices: 101269969--101270094 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 44
101269959 TCTCGAGGAA
* * *
101269969 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATATC
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCACAATACC
101270015 GATGCGATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATGTGACC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCGTCACAA--T-ACC
101270063 GATGCATGTCCCAGACATGTCTTACACTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCT
101270095 TACAATAGCC
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
45 5 0.07
46 22 0.31
47 28 0.39
48 17 0.24
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCGTCACAATACC
Found at i:101272382 original size:40 final size:40
Alignment explanation
Indices: 101272327--101272548 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
101272317 TATTCAAATG
* * *
101272327 ATATCCGGGCTAAGTCCTGGAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
101272367 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
101272407 ATATCCAGGCTAAGTCATGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
101272447 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
101272487 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
101272527 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
101272549 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 14 0.09
40 146 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:101275097 original size:16 final size:15
Alignment explanation
Indices: 101275073--101275102 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
101275063 AACTGTTTTA
101275073 TTACAAATTTCACTC
1 TTACAAATTTCACTC
101275088 TTACATAATTTCACT
1 TTACA-AATTTCACT
101275103 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:101275421 original size:50 final size:50
Alignment explanation
Indices: 101275300--101275742 Score: 297
Period size: 50 Copynumber: 8.8 Consensus size: 50
101275290 GTAACCGAAG
* * * * * * *
101275300 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACGACACATGCG-ACCAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * * *
101275349 CAATCTGGTACATGTAGTAGCCTGTACTTAGTACTACACACGTGAACTAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * *
101275399 CCATCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTG-ATTGAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACT-AA
* * * * * * ** * * * *
101275449 GTTGTCGGGTACCCATAGTATTCTACACTTAGTACTGCACAAGTGACCTAA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * *
101275500 CTATCT-AGTACACGTAGTACCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * * *
101275550 CCATTTGATACACGTAATAGCCTGCACTTAGTACTACACACGTG-ATTGAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACT-AA
* * * * ** * *
101275600 GTTGTCGGGTATGCATAGTAGCCTCCACTTAGTACTACACA--TGCAACTTAA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-AAC-TAA
* * * *
101275651 CTATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACT--AA
* * * * *
101275703 GC-ATCTTAAACACATAGTAGCCTGCACATAGGACTACACA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
101275743 TGTGTTCTCA
Statistics
Matches: 305, Mismatches: 73, Indels: 29
0.75 0.18 0.07
Matches are distributed among these distances:
49 41 0.13
50 158 0.52
51 68 0.22
52 37 0.12
53 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
Found at i:101275579 original size:151 final size:151
Alignment explanation
Indices: 101275306--101275742 Score: 572
Period size: 151 Copynumber: 2.9 Consensus size: 151
101275296 GAAGCTATCT
* *
101275306 GGTACGCATAGTAGCCTGCACTTAGTAC-GACACATGCGACC-AACAATCTGGTACATGTAGTAG
1 GGTACGCATAGTAGCCTACACTTAGTACTG-CACATGCGACCTAACTATCTGGTACATGTAGTAG
* * * *
101275369 CCTGTACTTAGTACTACACACGTGAACTAACCATCTGATACACGTAGTAGCCTGTACTTAGTACT
65 CCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTTAGTACT
101275434 ACACACGTGATTGAAGTTGTCG
130 ACACACGTGATTGAAGTTGTCG
* ** * * * * *
101275456 GGTACCCATAGTATTCTACACTTAGTACTGCACAAGTGACCTAACTATCTAGTACACGTAGTACC
1 GGTACGCATAGTAGCCTACACTTAGTACTGCACATGCGACCTAACTATCTGGTACATGTAGTAGC
* *
101275521 CTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAATAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTTAGTACTA
101275586 CACACGTGATTGAAGTTGTCG
131 CACACGTGATTGAAGTTGTCG
* * * * *
101275607 GGTATGCATAGTAGCCTCCACTTAGTACTACACATGCAACTTAACTATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTGCACATGCGACCTAACTATCTGGTACATGTAGTAGC
* * * * * * * *
101275672 CTGCACTTAGTACTACACACATGACCTAAAAGCATCTTAAACACATAGTAGCCTGCACATAGGAC
66 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAATAGCCTGCACTTAGTAC
101275737 TACACA
129 TACACA
101275743 TGTGTTCTCA
Statistics
Matches: 244, Mismatches: 39, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
150 33 0.14
151 177 0.73
153 34 0.14
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTACACTTAGTACTGCACATGCGACCTAACTATCTGGTACATGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTTAGTACTA
CACACGTGATTGAAGTTGTCG
Found at i:101286284 original size:73 final size:73
Alignment explanation
Indices: 101286165--101286308 Score: 279
Period size: 73 Copynumber: 2.0 Consensus size: 73
101286155 NNNNNNNNNN
101286165 GGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGAA
1 GGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGAA
101286230 GCTTGACC
66 GCTTGACC
*
101286238 GGGACTCCAAAAATGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGAA
1 GGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGAA
101286303 GCTTGA
66 GCTTGA
101286309 AAAACCCTAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (73 bp):
GGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGAA
GCTTGACC
Found at i:101287889 original size:30 final size:30
Alignment explanation
Indices: 101287845--101287933 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
101287835 CAAAGATAAC
101287845 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
101287874 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
101287904 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
101287934 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:101287893 original size:15 final size:15
Alignment explanation
Indices: 101287845--101287924 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
101287835 CAAAGATAAC
*
101287845 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
101287859 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
101287874 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
101287889 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
101287904 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
101287919 AAGAAA
1 AAGAAA
101287925 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:101287933 original size:15 final size:15
Alignment explanation
Indices: 101287856--101287933 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
101287846 AGAAAACCGA
101287856 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
101287871 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
101287885 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
101287900 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
101287916 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
101287931 ATA
1 ATA
101287934 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:101291726 original size:27 final size:28
Alignment explanation
Indices: 101291696--101291846 Score: 132
Period size: 27 Copynumber: 5.5 Consensus size: 28
101291686 ATATTGAGCC
* *
101291696 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
101291723 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
** ** *
101291751 CGCACACTTAGTGCCGCATGGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* **
101291778 CGCACACTTAGTGC-ATCATATTC-ATTT
1 CGCACACTTAGTGCTA-CATAATCAAACT
* * *
101291805 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATCAAACT
101291832 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
101291847 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
27 80 0.77
28 24 0.23
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:101291781 original size:55 final size:54
Alignment explanation
Indices: 101291696--101291846 Score: 153
Period size: 55 Copynumber: 2.8 Consensus size: 54
101291686 ATATTGAGCC
* * * * *
101291696 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTA-CGTAATCAAACT
1 CGCACACTTAGTGCAACATAGTCAA-TCGCACACTTAGTGCTATCATAATC-AACT
** * * **
101291751 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAA-TCGCACACTTAGTGCTATCATAATCAACT
101291805 CGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCAACATAGTC-AATCGCACACTTAGTGCT
101291847 GTACAATTTA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
54 38 0.48
55 41 0.52
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCAACATAGTCAATCGCACACTTAGTGCTATCATAATCAACT
Found at i:101292074 original size:27 final size:27
Alignment explanation
Indices: 101292008--101292131 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
101291998 CGTAATCGAA
* *
101292008 TCGCACACTTAGTGCTACATAGTCAGAC
1 TCGCACACTTAGTGCAACATAGTCA-AT
** *
101292036 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCAACATAGTCAAT
* * *
101292063 TCGCACACTTAGTGCATCATATTCATT
1 TCGCACACTTAGTGCAACATAGTCAAT
101292090 TCGCACACTTAGTGCAACATAGTCGAA-
1 TCGCACACTTAGTGCAACATAGTC-AAT
*
101292117 TCGCACCCTTAGTGC
1 TCGCACACTTAGTGC
101292132 TGTACAATTT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
27 59 0.72
28 23 0.28
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCAACATAGTCAAT
Found at i:101292104 original size:54 final size:55
Alignment explanation
Indices: 101292003--101292132 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 55
101291993 TATCACGTAA
** *
101292003 TCGAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGG
1 TCGAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCAACATAG
* **
101292058 TC-AATTCGCACACTTAGTGC-ATCATATTCA-TTTCGCACACTTAGTGCAACATAG
1 TCGAA-TCGCACACTTAGTGCTA-CATAGTCAGACTCGCACACTTAGTGCAACATAG
*
101292112 TCGAATCGCACCCTTAGTGCT
1 TCGAATCGCACACTTAGTGCT
101292133 GTACAATTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
54 38 0.59
55 26 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (55 bp):
TCGAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCAACATAG
Found at i:101292234 original size:286 final size:286
Alignment explanation
Indices: 101291714--101292281 Score: 1084
Period size: 286 Copynumber: 2.0 Consensus size: 286
101291704 CAGTGCTATA
*
101291714 TAATCAACTCGCACACTTAGTGCTACGTAATCAAACTCGCACACTTAGTGCCGCATGGTCAATTC
1 TAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCCGCATGGTCAATTC
101291779 GCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGT
66 GCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGT
101291844 GCTGTACAATTTAATCCCGCGCACTTAGCGCCAATCTCATGGTCATAAATGGTCATCCCGCACGT
131 GCTGTACAATTTAATCCCGCGCACTTAGCGCCAATCTCATGGTCATAAATGGTCATCCCGCACGT
101291909 TTAGTGCCGAGATCAACAACTCAGTACATCTTACCTCTTTTCATCCATTCAACAATTTCATCATC
196 TTAGTGCCGAGATCAACAACTCAGTACATCTTACCTCTTTTCATCCATTCAACAATTTCATCATC
101291974 ACATACGTACATGCATATATATCACG
261 ACATACGTACATGCATATATATCACG
* *
101292000 TAATCGAA-TCGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 TAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCCGCATGGTCAATT
*
101292064 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACCCTTAG
65 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTAG
101292129 TGCTGTACAATTTAATCCCGCGCACTTAGCGCCAATCTCATGGTCATAAATGGTCATCCCGCACG
130 TGCTGTACAATTTAATCCCGCGCACTTAGCGCCAATCTCATGGTCATAAATGGTCATCCCGCACG
101292194 TTTAGTGCCGAGATCAACAACTCAGTACATCTTACCTCTTTTCATCCATTCAACAATTTCATCAT
195 TTTAGTGCCGAGATCAACAACTCAGTACATCTTACCTCTTTTCATCCATTCAACAATTTCATCAT
101292259 CACATACGTACATGCATATATAT
260 CACATACGTACATGCATATATAT
101292282 ATGTATATTT
Statistics
Matches: 277, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
286 275 0.99
287 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (286 bp):
TAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCCGCATGGTCAATTC
GCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGT
GCTGTACAATTTAATCCCGCGCACTTAGCGCCAATCTCATGGTCATAAATGGTCATCCCGCACGT
TTAGTGCCGAGATCAACAACTCAGTACATCTTACCTCTTTTCATCCATTCAACAATTTCATCATC
ACATACGTACATGCATATATATCACG
Found at i:101294467 original size:93 final size:93
Alignment explanation
Indices: 101294308--101294478 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
101294298 CCCATAAGCG
* * * * *
101294308 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
101294373 GAGCTCAGATGCCTAGTTACATCTCTCA
66 GAGCTCAGATGCCTAGTTACATCTCTCA
* *
101294401 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
101294466 GAGTTCGGATGCC
66 GAGCTCAGATGCC
101294479 CAAATATCCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCAGATGCCTAGTTACATCTCTCA
Found at i:101294474 original size:46 final size:46
Alignment explanation
Indices: 101294299--101294474 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
101294289 TGTAACCCGC
* * * * * *
101294299 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
101294345 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTTGCAT
* *
101294395 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
101294438 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
101294475 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 9 0.08
44 2 0.02
46 60 0.57
47 25 0.24
49 2 0.02
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:101297330 original size:39 final size:39
Alignment explanation
Indices: 101297282--101297359 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
101297272 TGTGAAAATG
101297282 AACCACTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAA
1 AACCACTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAA
*
101297321 AACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAA
1 AACCACTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAA
101297360 CCTTTACCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.31, G:0.09, T:0.38
Consensus pattern (39 bp):
AACCACTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAA
Found at i:101299716 original size:93 final size:93
Alignment explanation
Indices: 101299602--101299773 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
101299592 CGCCCATAAG
* *
101299602 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
101299667 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
101299695 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
101299760 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
101299774 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:101299770 original size:46 final size:46
Alignment explanation
Indices: 101299595--101299770 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
101299585 TGTAACCCGC
* * *
101299595 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
101299641 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
101299691 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
101299734 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
101299771 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:101302303 original size:21 final size:20
Alignment explanation
Indices: 101302269--101302310 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
101302259 CAGCTTCACG
*
101302269 AGCTTCTTCCAGCTCAAATCC
1 AGCTTATTCCAGCTC-AATCC
*
101302290 AGCTTATTCGAGCTCAATCC
1 AGCTTATTCCAGCTCAATCC
101302310 A
1 A
101302311 ACTTGCCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (20 bp):
AGCTTATTCCAGCTCAATCC
Found at i:101302374 original size:30 final size:30
Alignment explanation
Indices: 101302340--101302436 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
101302330 AGCTCACTCC
101302340 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
101302370 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
101302400 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
101302430 TAGCTCA
1 TAGCTCA
101302437 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:101304037 original size:11 final size:12
Alignment explanation
Indices: 101304021--101304074 Score: 81
Period size: 12 Copynumber: 4.4 Consensus size: 12
101304011 TATACAAGTC
*
101304021 AAAAAAATTCGA
1 AAAAAAATTCAA
101304033 AAAAAAATTCAA
1 AAAAAAATTCAA
101304045 AAAAAAATTCAA
1 AAAAAAATTCAA
*
101304057 AAAAAAATCTGAA
1 AAAAAAAT-TCAA
101304070 AAAAA
1 AAAAA
101304075 GTGTTTAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 31 0.79
13 8 0.21
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:101305003 original size:5 final size:5
Alignment explanation
Indices: 101304982--101305048 Score: 50
Period size: 5 Copynumber: 13.0 Consensus size: 5
101304972 ACATTCTTGT
* *
101304982 AAAGA AAAAA CAAAGA AAAG- AAAGAA AAAGTA AAAGA AGA-A AAAGA
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA
101305028 AAATGA AATA-A AAAGA AAAGA
1 AAA-GA AA-AGA AAAGA AAAGA
101305049 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
4 8 0.16
5 24 0.48
6 17 0.34
7 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:101305021 original size:15 final size:15
Alignment explanation
Indices: 101304982--101305048 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
101304972 ACATTCTTGT
*
101304982 AAAGAAAAAACAAAGA
1 AAAGAAAGAA-AAAGA
101304998 AAAGAAAGAAAAAGTA
1 AAAGAAAGAAAAAG-A
101305014 AAAG-AAGAAAAAGA
1 AAAGAAAGAAAAAGA
*
101305028 AAATGAAATAAAAAGA
1 AAA-GAAAGAAAAAGA
101305044 AAAGA
1 AAAGA
101305049 GAGGCAAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
14 4 0.09
15 16 0.35
16 26 0.57
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (15 bp):
AAAGAAAGAAAAAGA
Found at i:101305127 original size:13 final size:12
Alignment explanation
Indices: 101305096--101305127 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
101305086 TTGAGAGAAC
101305096 TTGAAAAAGCCT
1 TTGAAAAAGCCT
101305108 TTGAAAAAGCCT
1 TTGAAAAAGCCT
101305120 TTGAAAAA
1 TTGAAAAA
101305128 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:101305156 original size:24 final size:24
Alignment explanation
Indices: 101305129--101305190 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
101305119 TTTGAAAAAC
*
101305129 AAAAAGAAAAAGAAAATGAGATTG
1 AAAAAGAAAAAGAAAAAGAGATTG
* * *
101305153 AAAAAGAGAATGAAAAAGAGTTTG
1 AAAAAGAAAAAGAAAAAGAGATTG
* *
101305177 AGAGAGAAAAAGAA
1 AAAAAGAAAAAGAA
101305191 TGTGAACAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.11
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAAGAGATTG
Found at i:101305157 original size:13 final size:12
Alignment explanation
Indices: 101305129--101305172 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
101305119 TTTGAAAAAC
* *
101305129 AAAAAGAAAAAG
1 AAAAAGAGAATG
* *
101305141 AAAATGAGATTG
1 AAAAAGAGAATG
101305153 AAAAAGAGAATG
1 AAAAAGAGAATG
101305165 AAAAAGAG
1 AAAAAGAG
101305173 TTTGAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (12 bp):
AAAAAGAGAATG
Found at i:101307502 original size:30 final size:30
Alignment explanation
Indices: 101307468--101307555 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
101307458 CTAGCTTATA
*
101307468 TTCAGCTCACAAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * *
101307498 TTCAGCTTAGGAGTTTAATCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* *
101307528 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
101307556 TTTTAGTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:101308541 original size:30 final size:30
Alignment explanation
Indices: 101308507--101308603 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
101308497 AGCTCACTCC
101308507 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
101308537 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
101308567 CAGCTTAACTTTAGCTCACGAGCTAAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
101308597 TAGCTCA
1 TAGCTCA
101308604 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:101310313 original size:11 final size:11
Alignment explanation
Indices: 101310297--101310340 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
101310287 CAATATAGTA
101310297 CAAAAAAAATT
1 CAAAAAAAATT
101310308 CAAAAAAAA-T
1 CAAAAAAAATT
101310318 CAAAAAAATATT
1 CAAAAAAA-ATT
101310330 CGAAAAGAAAA
1 C-AAAA-AAAA
101310341 AAAAATCTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.31
11 10 0.34
12 2 0.07
13 5 0.17
14 3 0.10
ACGTcount: A:0.73, C:0.09, G:0.05, T:0.14
Consensus pattern (11 bp):
CAAAAAAAATT
Found at i:101310344 original size:22 final size:20
Alignment explanation
Indices: 101310296--101310345 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
101310286 TCAATATAGT
101310296 ACAAAAAAAATTCAAAAAAA
1 ACAAAAAAAATTCAAAAAAA
101310316 ATCAAAAAAATATTCGAAAAGAAA
1 A-CAAAAAAA-ATTC-AAAA-AAA
101310340 A-AAAAA
1 ACAAAAA
101310346 TCTGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.31
22 9 0.35
23 4 0.15
24 4 0.15
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (20 bp):
ACAAAAAAAATTCAAAAAAA
Found at i:101311279 original size:9 final size:10
Alignment explanation
Indices: 101311272--101311328 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
101311262 AAGAGAAAAC
101311272 AAAGAAAAGA
1 AAAGAAAAGA
101311282 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
101311294 AAAGAAGA-A
1 AAAGAAAAGA
101311303 AAAGAAAATGA
1 AAAGAAAA-GA
101311314 AATA-AAAAGA
1 AA-AGAAAAGA
101311324 AAAGA
1 AAAGA
101311329 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:101311295 original size:21 final size:20
Alignment explanation
Indices: 101311261--101311328 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
101311251 ACATTCTTGT
101311261 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
101311282 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
101311303 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
101311324 AAAGA
1 AAAGA
101311329 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:101311296 original size:6 final size:5
Alignment explanation
Indices: 101311272--101311328 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
101311262 AAGAGAAAAC
*
101311272 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
101311319 AAAGA AAAGA
1 AAAGA AAAGA
101311329 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:101311303 original size:15 final size:14
Alignment explanation
Indices: 101311272--101311328 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
101311262 AAGAGAAAAC
101311272 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
101311288 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
101311303 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
101311319 AAAGAAAAGA
1 AAAGAAAAGA
101311329 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:101311431 original size:30 final size:29
Alignment explanation
Indices: 101311397--101311483 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
101311387 TTTGAAAAGC
* *
101311397 AAAAAGAAAAAGAAAATGAAAATGAGATTG
1 AAAAAGAAAAAGAAAA-GAAATTGAGAGTG
* *
101311427 AAAAAGAGAACGAAAAGAAATTTGAGAGTG
1 AAAAAGAAAAAGAAAAGAAA-TTGAGAGTG
* *
101311457 AAAAAGAAGATGAAAAAGAAATTGAGA
1 AAAAAGAAAAAG-AAAAGAAATTGAGA
101311484 CAAAAGAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 4 0.08
30 36 0.75
31 8 0.17
ACGTcount: A:0.63, C:0.01, G:0.23, T:0.13
Consensus pattern (29 bp):
AAAAAGAAAAAGAAAAGAAATTGAGAGTG
Found at i:101311451 original size:24 final size:24
Alignment explanation
Indices: 101311402--101311448 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
101311392 AAAGCAAAAA
* *
101311402 GAAAAAGAAAATGAAAATGAGATT
1 GAAAAAGAAAACGAAAATGAAATT
*
101311426 GAAAAAGAGAACGAAAA-GAAATT
1 GAAAAAGAAAACGAAAATGAAATT
101311449 TGAGAGTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.64, C:0.02, G:0.21, T:0.13
Consensus pattern (24 bp):
GAAAAAGAAAACGAAAATGAAATT
Found at i:101315322 original size:30 final size:30
Alignment explanation
Indices: 101315288--101315384 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
101315278 AGCTCACTCC
101315288 TAGCTCATA-TTCAGCTCAAGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCAAGAGCTAAACCT
* * * * *
101315318 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCAAGAGCTAAACCT
* * * *
101315348 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCAAGAGCTAAACCT
101315378 TAGCTCA
1 TAGCTCA
101315385 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCAAGAGCTAAACCT
Found at i:101323255 original size:30 final size:30
Alignment explanation
Indices: 101323221--101323317 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
101323211 TAAACTAAAA
*
101323221 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
101323251 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
101323281 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
101323310 ATGAGCTA
1 -TGAGCTA
101323318 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:101328184 original size:30 final size:30
Alignment explanation
Indices: 101328109--101328195 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
101328099 TAAAATGAGC
* *
101328109 TTTAGCTCGTGAGCTAAAGTTGAGCTGAGA
1 TTTAGCTCGTGAGCTGAAGTTGAGCTAAGA
* * * * *
101328139 TTAAACTCCTAAGCTGAAGTTGAGCTAAGG
1 TTTAGCTCGTGAGCTGAAGTTGAGCTAAGA
101328169 TTTAGCTCGTGAGCTGAA-TATGAGCTA
1 TTTAGCTCGTGAGCTGAAGT-TGAGCTA
101328196 GGAGTGAGCT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 44 0.98
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (30 bp):
TTTAGCTCGTGAGCTGAAGTTGAGCTAAGA
Found at i:101328904 original size:21 final size:20
Alignment explanation
Indices: 101328868--101328916 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
101328858 ATCAGCTCAC
*
101328868 TTGAGCTCGTTTTAGCTTGT
1 TTGAGCTCGATTTAGCTTGT
101328888 TTGAGCTCGAATTTAGCTTGT
1 TTGAGCTCG-ATTTAGCTTGT
*
101328909 TTCAGCTC
1 TTGAGCTC
101328917 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.45
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTTGT
Found at i:101329156 original size:13 final size:13
Alignment explanation
Indices: 101329138--101329162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101329128 TGAATAGTTG
101329138 TGTTATTTAATTA
1 TGTTATTTAATTA
101329151 TGTTATTTAATT
1 TGTTATTTAATT
101329163 TTGTAGGTTA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:101329917 original size:22 final size:22
Alignment explanation
Indices: 101329887--101329930 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
101329877 TTTGGTATTT
101329887 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
101329909 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
101329931 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:101334783 original size:21 final size:21
Alignment explanation
Indices: 101334757--101334819 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
101334747 TTGGTATTTG
101334757 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
101334778 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
101334799 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
101334820 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:101335726 original size:50 final size:50
Alignment explanation
Indices: 101335657--101335755 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
101335647 ATATTAAAAA
101335657 CGAAATTTAGACAAAATTAATCCAAATAATTAAAACAAAACTCAATTAAG
1 CGAAATTTAGACAAAATTAATCCAAATAATTAAAACAAAACTCAATTAAG
*
101335707 CGAAATTTAGACAACATTAATCCAAATAATTAAAACAAAACTCAATTAA
1 CGAAATTTAGACAAAATTAATCCAAATAATTAAAACAAAACTCAATTAA
101335756 TTAAACTAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (50 bp):
CGAAATTTAGACAAAATTAATCCAAATAATTAAAACAAAACTCAATTAAG
Found at i:101341602 original size:4 final size:4
Alignment explanation
Indices: 101341593--101341626 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
101341583 AAGTTTTATT
101341593 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
101341627 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:101341634 original size:22 final size:22
Alignment explanation
Indices: 101341576--101341635 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
101341566 AAGTGGCCCA
*
101341576 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
101341600 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
101341621 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
101341636 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:101342704 original size:20 final size:20
Alignment explanation
Indices: 101342681--101342718 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
101342671 TCAGCTCCAA
101342681 TCAGCTCACTTGAGCTTGTT
1 TCAGCTCACTTGAGCTTGTT
* *
101342701 TCAGCTTATTTGAGCTTG
1 TCAGCTCACTTGAGCTTG
101342719 ATTTAGCTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (20 bp):
TCAGCTCACTTGAGCTTGTT
Found at i:101342726 original size:20 final size:20
Alignment explanation
Indices: 101342690--101342727 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101342680 ATCAGCTCAC
101342690 TTGAGCTTGTTTCAGCTTAT
1 TTGAGCTTGTTTCAGCTTAT
101342710 TTGAGCTTGATTT-AGCTT
1 TTGAGCTTG-TTTCAGCTT
101342728 CTTTTCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.16, C:0.13, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGAGCTTGTTTCAGCTTAT
Found at i:101345362 original size:12 final size:12
Alignment explanation
Indices: 101345345--101345379 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
101345335 ATGAGAAAAA
*
101345345 GAAAAATGAAATT
1 GAAAAA-GAAAGT
101345358 GAAAAAGAAAGT
1 GAAAAAGAAAGT
101345370 GAAAAAGAAA
1 GAAAAAGAAA
101345380 AAGAGATCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAGT
Found at i:101345372 original size:18 final size:18
Alignment explanation
Indices: 101345338--101345383 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
101345328 AAAGAGAATG
*
101345338 AGAAAAAGAAAAATGAAAT
1 AGAAAAAG-AAAATGAAAA
* *
101345357 TGAAAAAGAAAGTGAAAA
1 AGAAAAAGAAAATGAAAA
101345375 AGAAAAAGA
1 AGAAAAAGA
101345384 GATCGAGACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
AGAAAAAGAAAATGAAAA
Found at i:101345420 original size:40 final size:42
Alignment explanation
Indices: 101345360--101345447 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 42
101345350 ATGAAATTGA
* *
101345360 AAAAGAAAGTGAAAAAGAAAAAGAGATCGAGACTG-AGAGTG
1 AAAAGAAAGTGAAAAAGAAAAAGAAATCGAGACTGAAGAGAG
* * * *
101345401 AAAAGAATGTG-AGAAGAAAAAGAAATTGAGTCTGAAGAGAG
1 AAAAGAAAGTGAAAAAGAAAAAGAAATCGAGACTGAAGAGAG
101345442 AAAAGA
1 AAAAGA
101345448 TATTGAGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 19 0.47
41 21 0.52
ACGTcount: A:0.57, C:0.03, G:0.28, T:0.11
Consensus pattern (42 bp):
AAAAGAAAGTGAAAAAGAAAAAGAAATCGAGACTGAAGAGAG
Found at i:101345620 original size:20 final size:20
Alignment explanation
Indices: 101345597--101345650 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
101345587 AGTTTTTCCC
*
101345597 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
101345617 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
101345637 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
101345651 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:101345632 original size:30 final size:30
Alignment explanation
Indices: 101345597--101345670 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
101345587 AGTTTTTCCC
101345597 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
101345627 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
101345657 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
101345671 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:101345660 original size:20 final size:20
Alignment explanation
Indices: 101345597--101345661 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
101345587 AGTTTTTCCC
* * * *
101345597 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
101345617 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
101345636 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
101345657 AGCTC
1 AGCTC
101345662 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:101348690 original size:18 final size:18
Alignment explanation
Indices: 101348669--101348703 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
101348659 AGAAAAGAAA
101348669 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
101348687 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
101348704 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:101350587 original size:46 final size:46
Alignment explanation
Indices: 101350535--101350622 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
101350525 ATGTGACCAC
101350535 GCCCCAAGCCCCATCAAGTCCTCGTCTTGATTCCCTCGAGCTGCAA
1 GCCCCAAGCCCCATCAAGTCCTCGTCTTGATTCCCTCGAGCTGCAA
*
101350581 GCCCCAAGCCCCATCAAGTTCTCGTCTTGATTCCCTCGAGCT
1 GCCCCAAGCCCCATCAAGTCCTCGTCTTGATTCCCTCGAGCT
101350623 TCCAAAGGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.18, C:0.41, G:0.17, T:0.24
Consensus pattern (46 bp):
GCCCCAAGCCCCATCAAGTCCTCGTCTTGATTCCCTCGAGCTGCAA
Found at i:101351336 original size:56 final size:57
Alignment explanation
Indices: 101351267--101351377 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 57
101351257 AAGAATACAT
*
101351267 GAATATTCTCTTACATGCATCGGTTGCTGTCCATTGAT-TCCTAAGTACCTATTCAA
1 GAATATTCACTTACATGCATCGGTTGCTGTCCATTGATCTCCTAAGTACCTATTCAA
101351323 GAATATTCACTTACATGCATCGGTTGCTGTCCATTGATCTCCTAAGTACCTATTC
1 GAATATTCACTTACATGCATCGGTTGCTGTCCATTGATCTCCTAAGTACCTATTC
101351378 GGCCAAAAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 37 0.70
57 16 0.30
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (57 bp):
GAATATTCACTTACATGCATCGGTTGCTGTCCATTGATCTCCTAAGTACCTATTCAA
Found at i:101355447 original size:20 final size:20
Alignment explanation
Indices: 101355424--101355477 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
101355414 AGTTTTTCCC
*
101355424 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
101355444 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
101355464 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
101355478 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:101355468 original size:30 final size:30
Alignment explanation
Indices: 101355424--101355497 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
101355414 AGTTTTTCCC
101355424 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
101355454 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
101355484 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
101355498 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:101355487 original size:20 final size:20
Alignment explanation
Indices: 101355424--101355488 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
101355414 AGTTTTTCCC
* * * *
101355424 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
101355444 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
101355463 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
101355484 AGCTC
1 AGCTC
101355489 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:101356677 original size:47 final size:47
Alignment explanation
Indices: 101356608--101356700 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
101356598 CCTCTCTATA
* *
101356608 GGTAACGGGTCAAGGTCCATCTTCGACAATCCATTTAATCCACCTTG
1 GGTAACGGGTCAAGGTCCATCTTCGACAATCCATTAAACCCACCTTG
*
101356655 GGTAACGGGTCAAGGTCCATCTTCGACAATCTATTAAACCCACCTT
1 GGTAACGGGTCAAGGTCCATCTTCGACAATCCATTAAACCCACCTT
101356701 AAGCAATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
GGTAACGGGTCAAGGTCCATCTTCGACAATCCATTAAACCCACCTTG
Found at i:101360884 original size:11 final size:11
Alignment explanation
Indices: 101360868--101360898 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
101360858 TTGTAGATTC
101360868 AAAAAAAATCG
1 AAAAAAAATCG
101360879 AAAAAAAATCG
1 AAAAAAAATCG
101360890 AGAAAAAAA
1 A-AAAAAAA
101360899 AATTGCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:101367404 original size:34 final size:33
Alignment explanation
Indices: 101367340--101367405 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
101367330 TTAAAGATGT
* *
101367340 TGTTCTACATGCATGGAACGGCAATTAATGAGA
1 TGTTCCACATGCATGGAACGACAATTAATGAGA
*
101367373 TGTTCCACATGCAATGG-ACGACATTTAAATGAG
1 TGTTCCACATGC-ATGGAACGACAATT-AATGAG
101367406 GGAGAGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
TGTTCCACATGCATGGAACGACAATTAATGAGA
Found at i:101386927 original size:40 final size:40
Alignment explanation
Indices: 101386872--101387013 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
101386862 TATTCGGATG
101386872 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
101386912 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
101386952 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
101386992 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
101387014 TACTTGTTGG
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.17
40 77 0.83
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:101389903 original size:23 final size:23
Alignment explanation
Indices: 101389873--101389920 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
101389863 TATATGTGAA
101389873 ACCTTAGCATCCAGTAAGACTCT
1 ACCTTAGCATCCAGTAAGACTCT
101389896 ACCTTAGCATCCAGTAAGACTCT
1 ACCTTAGCATCCAGTAAGACTCT
101389919 AC
1 AC
101389921 AATTTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (23 bp):
ACCTTAGCATCCAGTAAGACTCT
Found at i:101391119 original size:40 final size:40
Alignment explanation
Indices: 101391075--101391264 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 40
101391065 GGATATAGCT
* *
101391075 ACTCGCTCAAATGCCTTCGGGACATAGCCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
* * *
101391115 ACTCGCACAAATGCCTTTGGGACTTAACCCGAATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-AGTTATAGTA
* * **
101391155 ACTCGCTCCAATGCCTTCGGG-CTTAGCCC-GGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTA-TAGTA
* ** * *
101391194 ACTCGCACAAATGCCTTC-GGATCTTAGTCTGGATATAGTT
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCAGTTATAGTA
* * *
101391234 ACTTAGCATAAAAGCCTTCGGGACTTAGCCC
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCC
101391265 GGATATCATT
Statistics
Matches: 118, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
38 2 0.02
39 28 0.24
40 61 0.52
41 24 0.20
42 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
Found at i:101399130 original size:40 final size:40
Alignment explanation
Indices: 101399079--101399270 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
101399069 AGATATAGCT
* *
101399079 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
101399119 ACTTGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* * *
101399159 ACTCGCTCCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * * *
101399198 ACACGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTT
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
* *
101399238 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
101399271 ATATCATTCG
Statistics
Matches: 125, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.23
40 66 0.53
41 25 0.20
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:101399199 original size:79 final size:81
Alignment explanation
Indices: 101399070--101399271 Score: 234
Period size: 79 Copynumber: 2.5 Consensus size: 81
101399060 AATTTAACTA
* * **
101399070 GATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGC
1 GATATAG-TAACTCGCTCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGC
101399133 CTTCGGGA-CTTAACCCG
65 CTTC-GGATCTTAACCCG
* *
101399150 GATTTAGTAACTCGCTCCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACACGCACAAATGCC
1 GATATAGTAACTCGCTCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCC
**
101399213 TTCGGATCTTAGTCCG
66 TTCGGATCTTAACCCG
* * * *
101399229 GATATAGTTACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 GATATAGTAAC-TCGCTCAAATGCCTTCGGGACTTAGCCCGGA
101399272 TATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 47 0.46
80 42 0.41
81 11 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
GATATAGTAACTCGCTCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCC
TTCGGATCTTAACCCG
Found at i:101404677 original size:40 final size:40
Alignment explanation
Indices: 101404563--101404678 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
101404553 TATTCGGATG
*
101404563 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
101404603 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
101404643 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
101404679 AGCTATATCG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:101415975 original size:26 final size:26
Alignment explanation
Indices: 101415939--101415991 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
101415929 CTATAAGAAG
101415939 TACAATTTATACTTATGATGTTTCGA
1 TACAATTTATACTTATGATGTTTCGA
101415965 TACAATTTATACTTATGATGTTTCGA
1 TACAATTTATACTTATGATGTTTCGA
101415991 T
1 T
101415992 GATGAGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (26 bp):
TACAATTTATACTTATGATGTTTCGA
Found at i:101418210 original size:25 final size:25
Alignment explanation
Indices: 101418171--101418227 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
101418161 GTAAGGAGGG
*
101418171 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAAGAGCT
101418195 GATAAGGGGAGAAGATTTAAGAGCT
1 GATAAGGGGAGAAGATTTAAGAGCT
101418220 GATCAAGG
1 GAT-AAGG
101418228 AGCAAGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.17
25 21 0.70
26 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.37, T:0.19
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAAGAGCT
Found at i:101419714 original size:27 final size:27
Alignment explanation
Indices: 101419655--101419720 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
101419645 AACTAACTGA
*
101419655 TCTGGTGGCTCTGCCACATATATATTT
1 TCTGGTGGCTCTACCACATATATATTT
*
101419682 TTTGGTGGCTCTACCACA-AT-TATCTAT
1 TCTGGTGGCTCTACCACATATATAT-T-T
*
101419709 TCTGGTGACTCT
1 TCTGGTGGCTCT
101419721 GTCACATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 3 0.09
26 3 0.09
27 27 0.82
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (27 bp):
TCTGGTGGCTCTACCACATATATATTT
Found at i:101426054 original size:25 final size:25
Alignment explanation
Indices: 101426013--101426069 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
101426003 GTAAGGAGGG
101426013 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
*
101426037 GATAAGGGGAGAATATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
101426062 GATCAAGG
1 GAT-AAGG
101426070 AGCAAGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.17
25 21 0.70
26 4 0.13
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:101427556 original size:54 final size:53
Alignment explanation
Indices: 101427472--101427582 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
101427462 AGGAAGCGTC
*
101427472 CTGGTGGCTATGCCACAACTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACAT-TATCTATT
* * * * *
101427526 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTTTT
1 CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACATTATCTATT
101427579 CTGG
1 CTGG
101427583 CAGCCGTGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACATTATCTATT
Found at i:101427580 original size:26 final size:26
Alignment explanation
Indices: 101427472--101427582 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
101427462 AGGAAGCGTC
* *
101427472 CTGGTGGCTATGCCACAACTATCTGA-T
1 CTGGTGGCTCTGCCAC-ATTATCT-ATT
101427499 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
101427526 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* * *
101427553 CTGGTGACTCTGTCACATTATCTTTT
1 CTGGTGGCTCTGCCACATTATCTATT
101427579 CTGG
1 CTGG
101427583 CAGCCGTGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:101429894 original size:29 final size:29
Alignment explanation
Indices: 101429831--101429938 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 29
101429821 TTAACATACC
* ** *
101429831 TGTATTTGGCCCATTAATCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
101429859 TTTATATGGCCCATT-GGACCCAAATCACC
1 TGTATATGGCCCATTAGG-CCCAAATCACA
*
101429888 TGTATATGGCCCATTAGGCCCAAATTACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
101429917 TTTATATGGCCCATTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
101429939 GTCACATTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
28 16 0.24
29 49 0.73
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:101435236 original size:51 final size:51
Alignment explanation
Indices: 101435181--101435280 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
101435171 CCACCACATA
* *
101435181 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCTATAAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGTT
* * * *
101435232 ACATGAATCCCATCCATTATGAACTGGGACCTCTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATG
101435281 CCACATATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGTT
Done.