Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006554.1 Hibiscus syriacus cultivar Beakdansim tig00016023_pilon, whole genome shotgun sequence
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: 206650
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:9358 original size:301 final size:301
Alignment explanation
Indices: 8816--9414 Score: 1013
Period size: 301 Copynumber: 2.0 Consensus size: 301
8806 AGTTAAAAGA
** *
8816 TGTTTTATAACTAACAATCTCACTGCAGGCCATTTACAGTCGAGAATATTTGATAACCTATCTAA
1 TGTTTTATAACTAACAATCTCACAACAGGCCATCTACAGTCGAGAATATTTGATAACCTATCTAA
* * * * * *
8881 ATTGCAAGAATTAAGTTTGACTGGGAATCAGATTTCTGGTAGCATTCCTAATAGTTTATTCAAGT
66 ATTGCAAGAATTAAGTTGGACTGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAAGT
8946 GCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAATC
131 GCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAATC
9011 GGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTCCT
196 GGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTCCT
*
9076 CATTTGTATTTTGTTCTCCTTTACTTTTATTAGATAAAAAT
261 CATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAAAAT
* * * *
9117 TGTTTTATAACTAACAATCTCACAACATGCCATCTAGAGTC-AGGAATATTTGATAATCTTTCTA
1 TGTTTTATAACTAACAATCTCACAACAGGCCATCTACAGTCGA-GAATATTTGATAACCTATCTA
*
9181 AATTGCAAGTATTAAGCTTGGA-TGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAA
65 AATTGCAAGAATTAAG-TTGGACTGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAA
*
9245 GTGCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCGTAGAAA
129 GTGCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAA
*
9310 TCGGAAATTTGACAATGCTCCAATCTTTGTATCTTGGTTACAACAACCTCAAAGGTAAACAATTC
194 TCGGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTC
9375 CTCATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAA
259 CTCATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAA
9415 TGACTCATCC
Statistics
Matches: 279, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
300 1 0.00
301 274 0.98
302 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (301 bp):
TGTTTTATAACTAACAATCTCACAACAGGCCATCTACAGTCGAGAATATTTGATAACCTATCTAA
ATTGCAAGAATTAAGTTGGACTGGGAATCAGATATCTGGTAGAATTCCCAATAGCTTATCCAAGT
GCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCCATAGAAATC
GGAAATTTGACAATGCTCCAATCTTTGTATCTGGGTTACAACAACCTCAAAGGTAAACAATTCCT
CATTTGCATTTTGTTCTCCTTTACTTTTATTAGATAAAAAT
Found at i:17261 original size:21 final size:21
Alignment explanation
Indices: 17237--17284 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
17227 TGAAGCACCA
*
17237 CCAATTACGACAATAGTTAGT
1 CCAATTACAACAATAGTTAGT
17258 CCAATTACAACAATAGTTAGT
1 CCAATTACAACAATAGTTAGT
17279 CCAATT
1 CCAATT
17285 CCATCGACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (21 bp):
CCAATTACAACAATAGTTAGT
Found at i:29841 original size:19 final size:19
Alignment explanation
Indices: 29803--29841 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
29793 CTACTAACAT
* **
29803 AGATGAACTTAAATCTATA
1 AGATGAACCTAAATAAATA
29822 AGATGAACCTAAATAAATA
1 AGATGAACCTAAATAAATA
29841 A
1 A
29842 AATCTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (19 bp):
AGATGAACCTAAATAAATA
Found at i:31908 original size:19 final size:20
Alignment explanation
Indices: 31864--31913 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31854 CTTACTGCAA
31864 AGTATCCATACTAAAGGGCT
1 AGTATCCATACTAAAGGGCT
* *
31884 AGTATCGATACTAAAGGTC-
1 AGTATCCATACTAAAGGGCT
*
31903 AGTATCTATAC
1 AGTATCCATAC
31914 CATCATACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
AGTATCCATACTAAAGGGCT
Found at i:33788 original size:44 final size:44
Alignment explanation
Indices: 33720--33869 Score: 248
Period size: 44 Copynumber: 3.4 Consensus size: 44
33710 GCGAAGACTC
*
33720 TTGACGTAGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
1 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
*
33764 TTGACGTGGACTTGGGTATG-ATTTGCTTTAATTGATTCGCTTTG
1 TTGACGTGGACTTGGGTA-GAATTTGCTTTTATTGATTCGCTTTG
* *
33808 TTGACTTGGACTTGGGTAGAATTTGCTTTTATTGATTCCCTTTG
1 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
33852 TTGACGTGGACTTGGGTA
1 TTGACGTGGACTTGGGTA
33870 CAATAATAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
43 1 0.01
44 96 0.98
45 1 0.01
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.45
Consensus pattern (44 bp):
TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
Found at i:63468 original size:15 final size:15
Alignment explanation
Indices: 63450--63479 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63440 CCACGGTGCT
63450 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
63465 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
63480 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:64782 original size:32 final size:32
Alignment explanation
Indices: 64746--64808 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
64736 CCTGTCAGGT
64746 TCCCTTCAGTAGGCTCTCAAGCCCCAAGGTAC
1 TCCCTTCAGTAGGCTCTCAAGCCCCAAGGTAC
** * * *
64778 TCCCTTGGGTAGGTTCTGAGGCCCCAAGGTA
1 TCCCTTCAGTAGGCTCTCAAGCCCCAAGGTA
64809 TTCCTTGGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.24
Consensus pattern (32 bp):
TCCCTTCAGTAGGCTCTCAAGCCCCAAGGTAC
Found at i:64831 original size:31 final size:31
Alignment explanation
Indices: 64758--64845 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
64748 CCTTCAGTAG
* * *
64758 GCTCTCAA-GCCCCAAGGTACTCCCTTGGGTAG
1 GCTCT-AAGGCCCCAAGGTA-TTCCTTGGATAC
* *
64790 GTTCTGAGGCCCCAAGGTATTCCTTGGATAC
1 GCTCTAAGGCCCCAAGGTATTCCTTGGATAC
*
64821 GCTCTAAGGCCCCAAGGCATTCCTT
1 GCTCTAAGGCCCCAAGGTATTCCTT
64846 AGGTTGGCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 32 0.68
32 15 0.32
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.25
Consensus pattern (31 bp):
GCTCTAAGGCCCCAAGGTATTCCTTGGATAC
Found at i:70642 original size:16 final size:16
Alignment explanation
Indices: 70621--70653 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
70611 CAAAAAATAT
70621 TGTTCGTTTATATTCG
1 TGTTCGTTTATATTCG
*
70637 TGTTCGTTTATGTTCG
1 TGTTCGTTTATATTCG
70653 T
1 T
70654 TTATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATATTCG
Found at i:71596 original size:49 final size:50
Alignment explanation
Indices: 71525--71619 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 50
71515 TTATTAAAAC
* * *
71525 TCGTCACGTTAAGGTGATGAGTTTCAATAAAAAAT-ATTTTTTATTCGAA
1 TCGTCACGTTAAGATGACGAGTTCCAATAAAAAATAATTTTTTATTCGAA
* *
71574 TCGTCACGTTGAGATGACGAGTTCCAATAAAATATAATTTTTTATT
1 TCGTCACGTTAAGATGACGAGTTCCAATAAAAAATAATTTTTTATT
71620 AAAATCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 30 0.75
50 10 0.25
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (50 bp):
TCGTCACGTTAAGATGACGAGTTCCAATAAAAAATAATTTTTTATTCGAA
Found at i:74039 original size:17 final size:17
Alignment explanation
Indices: 74017--74051 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
74007 TTATTTCCTA
74017 ATTTTT-TTATATTTTAT
1 ATTTTTATT-TATTTTAT
74034 ATTTTTATTTATTTTAT
1 ATTTTTATTTATTTTAT
74051 A
1 A
74052 AATTAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTATTTTAT
Found at i:74289 original size:19 final size:19
Alignment explanation
Indices: 74273--74310 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
74263 AAGTAATTCG
74273 AATTGAATTTTTAAATTTC
1 AATTGAATTTTTAAATTTC
* *
74292 AATTTAATTTTTAATTTTC
1 AATTGAATTTTTAAATTTC
74311 GTAATTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
AATTGAATTTTTAAATTTC
Found at i:85588 original size:60 final size:60
Alignment explanation
Indices: 85495--85619 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 60
85485 GACTTTTAAC
* * ** * * *
85495 AAATGGTCCTCCTATTATAGGGTGTTGCTTTGTTGAGTCCCTTGACTATTAGAAGTTATA
1 AAATGATCCTCCAATTATAGGGCATTGCTTTGTTGAATCCCTTGACTATTAAAAGTTACA
*
85555 AAATGATCCTCCAATTATTGGGCATTGCTTTGTTGAATCCCTTGACTATTAAAAGTTACA
1 AAATGATCCTCCAATTATAGGGCATTGCTTTGTTGAATCCCTTGACTATTAAAAGTTACA
85615 AAATG
1 AAATG
85620 GCCACCCGAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (60 bp):
AAATGATCCTCCAATTATAGGGCATTGCTTTGTTGAATCCCTTGACTATTAAAAGTTACA
Found at i:86026 original size:85 final size:84
Alignment explanation
Indices: 85879--86159 Score: 264
Period size: 85 Copynumber: 3.3 Consensus size: 84
85869 TTAAATTAAG
* * *
85879 GGCCTCAATTATAAAAGTAAAAAGGTGAGATTGAGACAA-TTAGGAGGCTTAATTATAAAGGTAA
1 GGCCTCAATTATAAAGGTAAAAA-GTGAGATTGAGAAAATTTA-G-GGCTCAATTATAAAGGTAA
85943 AAAATGGAATTAAAAAAAAGTAA
63 AAAATGGAATTAAAAAAAA-TAA
* * * *
85966 GAGCCTCAATCATAAAGGTAGAAAGTGAGATTGA-AAAATTTTGGCCTCAATTATAAAGGTAAAA
1 G-GCCTCAATTATAAAGGTAAAAAGTGAGATTGAGAAAATTTAGGGCTCAATTATAAAGGTAAAA
* * *
86030 AGT-GATATTACAAAAAATTA
65 AATGGA-ATTAAAAAAAATAA
* * * * * *
86050 GGCACTCAATTATAAAGATAAAAAGTGAGATT-ATAAAACTTAGGGATGCAATTATAAAGATAGA
1 GGC-CTCAATTATAAAGGTAAAAAGTGAGATTGAGAAAATTTAGGGCT-CAATTATAAAGGTAAA
*
86114 AAATGAAATTAAAAAAAATCAA
64 AAATGGAATTAAAAAAAAT-AA
* * *
86136 GGGCGTCAATTACAAAGATAAAAA
1 -GGCCTCAATTATAAAGGTAAAAA
86160 ATTTAATTAA
Statistics
Matches: 160, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
83 3 0.02
84 39 0.24
85 59 0.37
86 24 0.15
87 16 0.10
88 19 0.12
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.23
Consensus pattern (84 bp):
GGCCTCAATTATAAAGGTAAAAAGTGAGATTGAGAAAATTTAGGGCTCAATTATAAAGGTAAAAA
ATGGAATTAAAAAAAATAA
Found at i:86060 original size:43 final size:42
Alignment explanation
Indices: 85879--86159 Score: 194
Period size: 44 Copynumber: 6.5 Consensus size: 42
85869 TTAAATTAAG
* * * *
85879 GGCCTCAATTATAAAAGTAAAAAGGTGAGATT-GAGACAATTA
1 GGCCTCAATTATAAAGGTAAAAA-GTGAGATTAAAAAAAATTA
* * * *
85921 GGAGGCTTAATTATAAAGGTAAAAAATG-GAATTAAAAAAAAGTAA
1 -G-GCCTCAATTATAAAGGTAAAAAGTGAG-ATTAAAAAAAA-TTA
* * * * *
85966 GAGCCTCAATCATAAAGGTAGAAAGTGAGATT-GAAAAATTTT
1 G-GCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAAATTA
* *
86008 GGCCTCAATTATAAAGGTAAAAAGTGATATTACAAAAAATTA
1 GGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAAATTA
* * *
86050 GGCACTCAATTATAAAGATAAAAAGTGAGATT-ATAAAACTTA
1 GGC-CTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAAATTA
** * * *
86092 GGGATGCAATTATAAAGATAGAAAA-TGAAATTAAAAAAAATCAA
1 GGCCT-CAATTATAAAGGTA-AAAAGTGAGATTAAAAAAAAT-TA
* * *
86136 GGGCGTCAATTACAAAGATAAAAA
1 -GGCCTCAATTATAAAGGTAAAAA
86160 ATTTAATTAA
Statistics
Matches: 189, Mismatches: 37, Indels: 24
0.76 0.15 0.10
Matches are distributed among these distances:
41 28 0.15
42 42 0.22
43 51 0.27
44 62 0.33
45 6 0.03
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.23
Consensus pattern (42 bp):
GGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAAATTA
Found at i:86106 original size:42 final size:42
Alignment explanation
Indices: 85929--86178 Score: 170
Period size: 42 Copynumber: 5.9 Consensus size: 42
85919 TAGGAGGCTT
* * * *
85929 AATTATAAAGGTAAAAAATGGAATTAAAAAAAAGTAAGAGC-CTC
1 AATTATAAAGATAAAAAGTGAAATT-AAAAAAA-TTAG-GCACTC
* * * * * * *
85973 AATCATAAAGGTAGAAAGTGAGATTGAAAAATTTTGGC-CTC
1 AATTATAAAGATAAAAAGTGAAATTAAAAAAATTAGGCACTC
* *
86014 AATTATAAAGGTAAAAAGTGATATTACAAAAAATTAGGCACTC
1 AATTATAAAGATAAAAAGTGAAATTA-AAAAAATTAGGCACTC
* * * *
86057 AATTATAAAGATAAAAAGTGAGATTATAAAACTTAGGGA-TGC
1 AATTATAAAGATAAAAAGTGAAATTAAAAAAATTAGGCACT-C
* *
86099 AATTATAAAGATAGAAAA-TGAAATTAAAAAAAATCAAGGGC-GTC
1 AATTATAAAGATA-AAAAGTGAAATT-AAAAAAAT-TA-GGCACTC
* * **
86143 AATTACAAAGATAAAAAATTTAATT-AAAAAATTAGG
1 AATTATAAAGATAAAAAGTGAAATTAAAAAAATTAGG
86179 GGTCCTATAA
Statistics
Matches: 168, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.01
41 29 0.17
42 49 0.29
43 46 0.27
44 39 0.23
45 3 0.02
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.24
Consensus pattern (42 bp):
AATTATAAAGATAAAAAGTGAAATTAAAAAAATTAGGCACTC
Found at i:86123 original size:21 final size:21
Alignment explanation
Indices: 86057--86124 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
86047 TTAGGCACTC
86057 AATTATAAAGATA-AAAAGTGA
1 AATTATAAAGATAGAAAA-TGA
* ** *
86078 GATTATAAA-ACTTAG-GGATGC
1 AATTATAAAGA--TAGAAAATGA
86099 AATTATAAAGATAGAAAATGA
1 AATTATAAAGATAGAAAATGA
86120 AATTA
1 AATTA
86125 AAAAAAATCA
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
20 4 0.12
21 26 0.76
22 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.26
Consensus pattern (21 bp):
AATTATAAAGATAGAAAATGA
Found at i:86418 original size:60 final size:60
Alignment explanation
Indices: 86326--86485 Score: 198
Period size: 60 Copynumber: 2.7 Consensus size: 60
86316 ATAGTCATGT
* * *
86326 GACCATTTTTAACTTTTAATAGTCAGGGGACTCAACAAAA-TAATGCCCTATAATTAGAG
1 GACCATTTTTAACTTTTAATAGTCAGAGGACTCAACAAAAGAAATACCCTATAATTAGAG
* * *
86385 GACCATTTTGTAACTTCTAATAGTTAGAGGACTCAA-AAAAGAAATACCCTATAGTTAGAG
1 GACCATTTT-TAACTTTTAATAGTCAGAGGACTCAACAAAAGAAATACCCTATAATTAGAG
** **
86445 GAATATTTTTTATTTTTTAATAGTCAGAGGACTCAACAAAA
1 GACCA-TTTTTAACTTTTAATAGTCAGAGGACTCAACAAAA
86486 CAAAATCTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
59 13 0.15
60 64 0.75
61 8 0.09
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (60 bp):
GACCATTTTTAACTTTTAATAGTCAGAGGACTCAACAAAAGAAATACCCTATAATTAGAG
Found at i:87095 original size:32 final size:30
Alignment explanation
Indices: 87059--87145 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
87049 GAGGTCTATT
** *
87059 GGGCCTAGGAGCCAACTTAAGGTAATACCTTG
1 GGGCCTA-GAGCCAACCCAAGG-AATACCTTA
*
87091 GGGCCTTAGAGCCTACCCAAGGAATACCTTA
1 GGGCC-TAGAGCCAACCCAAGGAATACCTTA
* *
87122 GGGCCTCAGAGCCTACCCGAGGAA
1 GGGCCT-AGAGCCAACCCAAGGAA
87146 GCACCTTGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
30 1 0.02
31 29 0.60
32 16 0.33
33 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (30 bp):
GGGCCTAGAGCCAACCCAAGGAATACCTTA
Found at i:87165 original size:32 final size:31
Alignment explanation
Indices: 87085--87180 Score: 111
Period size: 31 Copynumber: 3.0 Consensus size: 31
87075 TTAAGGTAAT
* *
87085 ACCTTGGGGCCTTAGAGCCTACCCAAGGAAT
1 ACCTTGGGGCCTCAGAGCCTACCCAAGGAAC
* *
87116 ACCTTAGGGCCTCAGAGCCTACCCGAGGAAGC
1 ACCTTGGGGCCTCAGAGCCTACCCAAGGAA-C
* * *
87148 ACCTTGGGGCATGAGAGCCTACCTAAGGGAAC
1 ACCTTGGGGCCTCAGAGCCTACCCAA-GGAAC
87180 A
1 A
87181 TCTCGGAGGC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
31 27 0.50
32 23 0.43
33 4 0.07
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.16
Consensus pattern (31 bp):
ACCTTGGGGCCTCAGAGCCTACCCAAGGAAC
Found at i:88102 original size:20 final size:20
Alignment explanation
Indices: 88027--88098 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
88017 TTAGTTCATA
*
88027 TTGACTCAGACCGATTCAAG
1 TTGACTCAGACCGATTCGAG
*
88047 TTGACTCA-ATTCGATTCGAG
1 TTGACTCAGA-CCGATTCGAG
* *
88067 ATGACTCAGTCC-AGTTCGAG
1 TTGACTCAGACCGA-TTCGAG
88087 TTGACTCAGACC
1 TTGACTCAGACC
88099 AGTTTTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 40 0.95
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (20 bp):
TTGACTCAGACCGATTCGAG
Found at i:92187 original size:32 final size:31
Alignment explanation
Indices: 92126--92229 Score: 111
Period size: 32 Copynumber: 3.3 Consensus size: 31
92116 CCTCAAAGCT
*
92126 TACCCAAGGAATACCTTGGGGCCTTAGAGCC
1 TACCCAAGGAACACCTTGGGGCCTTAGAGCC
*
92157 TACCCAAGGAAGCACCTT-GGGTCTTGAGAGCC
1 TACCCAAGGAA-CACCTTGGGGCCTT-AGAGCC
* ** * *
92189 TACCGAAGGGAACATATCGGGGCCTAAGAGCC
1 TACCCAA-GGAACACCTTGGGGCCTTAGAGCC
92221 TACCCAAGG
1 TACCCAAGG
92230 TTCACCTTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
31 19 0.32
32 32 0.53
33 9 0.15
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (31 bp):
TACCCAAGGAACACCTTGGGGCCTTAGAGCC
Found at i:94156 original size:70 final size:69
Alignment explanation
Indices: 94043--94175 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 69
94033 ATGGGGCTTG
* * * * *
94043 AAGAATAATGAAACAAAAATTTTGGGAGAGACCATGATTTAATTTTAGTACTTTTAAAAGTAATA
1 AAGAATAATGAAACAAAAATATTAGGAGAGACCAGGACTTAATTTTAGTACTATTAAAA-TAATA
94108 GCCTA
65 GCCTA
**
94113 AAGAATAAATGAAACAAAAATATTAGGA-AGGGCAGGACTTAATTTTAGTACTATTAAAATAAT
1 AAGAAT-AATGAAACAAAAATATTAGGAGAGACCAGGACTTAATTTTAGTACTATTAAAATAAT
94176 TTGATTTCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
69 4 0.07
70 32 0.58
71 19 0.35
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (69 bp):
AAGAATAATGAAACAAAAATATTAGGAGAGACCAGGACTTAATTTTAGTACTATTAAAATAATAG
CCTA
Found at i:94218 original size:2 final size:2
Alignment explanation
Indices: 94207--94288 Score: 119
Period size: 2 Copynumber: 40.0 Consensus size: 2
94197 TTTTATAATA
*
94207 AT AT AC AT AT 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 AT AT AT AT AT
* *
94249 AT AT AT AT AT AT AT AT TT CAT AT GT GAT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT AT AT AT AT AT
94289 CATACAAAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 70 0.97
3 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95355 original size:14 final size:14
Alignment explanation
Indices: 95332--95362 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
95322 TTATATTTAG
*
95332 TTTATTTATTTTTT
1 TTTATATATTTTTT
95346 TTTATATATTTTTT
1 TTTATATATTTTTT
95360 TTT
1 TTT
95363 TCAAACTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTATATATTTTTT
Found at i:117983 original size:31 final size:31
Alignment explanation
Indices: 117931--118061 Score: 120
Period size: 31 Copynumber: 4.1 Consensus size: 31
117921 GAGCCAACAT
* * *
117931 AAGGTAATGCCTTAGGGCCTTAGAGACTACCC
1 AAGG-AATACCTTGGGGCCTTAGAGCCTACCC
*
117963 AAGGAATACCTTGGGGCCTTAGAGCCCACCC
1 AAGGAATACCTTGGGGCCTTAGAGCCTACCC
* * *
117994 AAGGAAGCACCTT-GGGTCTTGAGAGCCTACCG
1 AAGGAA-TACCTTGGGGCCTT-AGAGCCTACCC
* * * *
118026 AAGGGAATATCTCGGGGCCTAAAAGCCTACCC
1 AA-GGAATACCTTGGGGCCTTAGAGCCTACCC
118058 AAGG
1 AAGG
118062 TTCACTTTAG
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
31 37 0.46
32 34 0.43
33 9 0.11
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (31 bp):
AAGGAATACCTTGGGGCCTTAGAGCCTACCC
Found at i:119972 original size:70 final size:69
Alignment explanation
Indices: 119858--119990 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 69
119848 ATGGGGCTTG
* * * *
119858 AAGAATAATGAAACAAAAATTTTGGGAGAGACCATGATATAATTTTAGTACTTTTAAAAGTAATA
1 AAGAATAATGAAACAAAAATATTAGGAGAGACCAGGATATAATTTTAGTACTATTAAAA-TAATA
119923 GCCTA
65 GCCTA
* *
119928 AAGAATAAATGAAACAAAAATATTAGGAGGGA-CGGGACT-TAATTTTAGTACTATTAAAATAAT
1 AAGAAT-AATGAAACAAAAATATTAGGAGAGACCAGGA-TATAATTTTAGTACTATTAAAATAAT
119991 TTGATTCCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
69 4 0.07
70 28 0.51
71 23 0.42
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.29
Consensus pattern (69 bp):
AAGAATAATGAAACAAAAATATTAGGAGAGACCAGGATATAATTTTAGTACTATTAAAATAATAG
CCTA
Found at i:121544 original size:182 final size:182
Alignment explanation
Indices: 121237--121836 Score: 1128
Period size: 182 Copynumber: 3.3 Consensus size: 182
121227 ATCATCACCA
* * *
121237 ATTAAAGTATCGACACTTTCAACATATCTGGTAGTGCTTTACCGGTTTTGTTATTTCGAGACCTG
1 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
121302 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
66 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
121367 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
131 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
121419 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
1 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
*
121484 TTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTT
66 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
121549 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
131 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
*
121601 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTA
1 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
121666 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
66 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
*
121731 TTTAGGCTCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
131 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
* *
121783 ATTAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTATCAT
1 ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCAT
121837 ATTTTTACAT
Statistics
Matches: 409, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 409 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (182 bp):
ATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTG
TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTAT
Found at i:121858 original size:162 final size:162
Alignment explanation
Indices: 121666--122180 Score: 717
Period size: 162 Copynumber: 3.1 Consensus size: 162
121656 TCGAGACCTA
* * *
121666 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
1 TTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
*
121731 TTTAGGCTCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGA
66 TTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGA
121796 CACTTTCAACATATCTGGTAGCGCTTTACCGG
131 CACTTTCAACATATCTGGTAGCGCTTTACCGG
121828 TTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
1 TTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
121893 TTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGA
66 TTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGA
* *
121958 CACTTTCAACATATCCGATAGCGCTTTACCGG
131 CACTTTCAACATATCTGGTAGCGCTTTACCGG
* *
121990 TTTTGTCATTTCGAGACCTGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 -TTT-T-A--TC-ATA--T-TTTT-ACATA---TT--A---TAT--TGTTATGGATCGATACATT
* *
122055 TTCATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTATGAAAGTTTCGA
46 TTCATAAAGTATCGACACTTTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGA
* *
122120 TACTTATATTAAATTATCGACACTTTCAACATAT-TCGGTAGCGTTTTACCGG
111 TACTTATATTAAAGTATCGACACTTTCAACATATCT-GGTAGCGCTTTACCGG
*
122172 TTTTGTCAT
1 TTTTATCAT
122181 TTCGAGACCT
Statistics
Matches: 316, Mismatches: 16, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
162 156 0.49
163 3 0.01
164 1 0.00
165 1 0.00
167 2 0.01
168 2 0.01
170 1 0.00
171 4 0.01
172 4 0.01
175 2 0.01
176 1 0.00
177 3 0.01
180 4 0.01
181 3 0.01
182 129 0.41
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (162 bp):
TTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
TTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGA
CACTTTCAACATATCTGGTAGCGCTTTACCGG
Found at i:121941 original size:344 final size:344
Alignment explanation
Indices: 121483--122180 Score: 1272
Period size: 344 Copynumber: 2.0 Consensus size: 344
121473 TTCGAGACCT
* *
121483 GTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACT
1 GTTTTGTCATATTTTTACATATTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACT
*
121548 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
66 TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
*
121613 ACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCTATTTTGTCATATT
131 ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCTATTTTGTCATATT
* *
121678 TTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGCTCTAT
196 TTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTAT
121743 AACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGACACTTTCAACAT
261 AACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGACACTTTCAACAT
121808 A-TCTGGTAGCGCTTTACCG
326 ATTC-GGTAGCGCTTTACCG
* *
121827 GTTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
1 GTTTTGTCATATTTTTACATATTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACT
121892 TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
66 TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
*
121957 ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCTGTTTTGTCATATT
131 ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCTATTTTGTCATATT
122022 TTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTAT
196 TTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTAT
* *
122087 AACTTCTTCTCTTTTAAATTATGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACAT
261 AACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGACACTTTCAACAT
*
122152 ATTCGGTAGCGTTTTACCG
326 ATTCGGTAGCGCTTTACCG
122171 GTTTTGTCAT
1 GTTTTGTCAT
122181 TTCGAGACCT
Statistics
Matches: 340, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
344 338 0.99
345 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (344 bp):
GTTTTGTCATATTTTTACATATTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACT
TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCTATTTTGTCATATT
TTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTAT
AACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCGACACTTTCAACAT
ATTCGGTAGCGCTTTACCG
Found at i:122140 original size:182 final size:182
Alignment explanation
Indices: 121827--122254 Score: 750
Period size: 182 Copynumber: 2.4 Consensus size: 182
121817 CGCTTTACCG
* *
121827 GTTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
1 GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
121892 TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
66 TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
121957 ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCT
131 ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCT
122009 GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
1 GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
* * *
122074 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTATGAAAGTTTCGATACTTATATTAAATTATCG
66 TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
* * *
122139 ACACTTTCAACATATTCGGTAGCGTTTTACCGGTTTTGTCATTTCGAGACCT
131 ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCT
* *
122191 GTTTTGTCATATTCTTACATGTTATATTGCTATGGATCGATACATTTGT-ATAAAGTATCGACAC
1 GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT-TCATAAAGTATCGACAC
122255 AAACCGAGAA
Statistics
Matches: 235, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
182 234 1.00
183 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
TTTTAGGCACTATAACTTCTTCTCTTTTAAATTACGAAAGTTTCGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTCGAGACCT
Found at i:124131 original size:288 final size:288
Alignment explanation
Indices: 123615--124195 Score: 1004
Period size: 288 Copynumber: 2.0 Consensus size: 288
123605 CACGGGCACC
123615 ATCCCATCTCAATTAGGAAATTTATCTTTCCTTGCCTACCTCAACATTCGTCACAATAGTTTCCA
1 ATCCCATCTCAATTAGGAAATTTATCTTTCCTTGCCTACCTCAACATTCGTCACAATAGTTTCCA
123680 TGGCTCTTTACCTACTGAGTTAGCCAATTTGCATCGGCTGAAGTATTTGAACTTTGGTAACAACA
66 TGGCTCTTTACCTACTGAGTTAGCCAATTTGCATCGGCTGAAGTATTTGAACTTTGGTAACAACA
* * *
123745 GCTTCAGTGGAGAAATCCCATCATGGTTTGGTTGTTTTGCTCAACTTCAACGCTTGTTTTTGTAT
131 GCTTCAGTGGAGAAATCCCATCATGGTTTGGTTGTTTTGCTCAACTTCAAAGCTTGTTGTTGTAC
123810 GGTAACAACTTCACGGGTGTTTTCCCGTCCACTCTTGGGAATTTGTCAAAACTTGAAACGTTGGC
196 GGTAACAACTTCACGGGTGTTTTCCCGTCCACTCTTGGGAATTTGTCAAAACTTGAAACGTTGGC
123875 CTTCTACAACAACAACCTCGAAGGAAAA
261 CTTCTACAACAACAACCTCGAAGGAAAA
* * * * *
123903 ATCCCATCTCAATTGGGAAATTTATCTTTCCTTGCCTCCCTCAGCATT-GATGACAATTGTTTCC
1 ATCCCATCTCAATTAGGAAATTTATCTTTCCTTGCCTACCTCAACATTCG-TCACAATAGTTTCC
*
123967 ATGGCTCTTTACCTACTGAGTTAGCCAATTTGCATCGGCTGGAGTATTTGAACTTTGGTAACAAC
65 ATGGCTCTTTACCTACTGAGTTAGCCAATTTGCATCGGCTGAAGTATTTGAACTTTGGTAACAAC
*
124032 AGCTTCAGTGGAGAAATCCCATCATGGTTTGGTTGTTTTGCTCATCTTCAAAGCTTGTTGTTGTA
130 AGCTTCAGTGGAGAAATCCCATCATGGTTTGGTTGTTTTGCTCAACTTCAAAGCTTGTTGTTGTA
*
124097 CGGTAACAACTTCACTGGTGTTATT-CCGTCCACTCTTGGGAATTTGTCAAAACTTGAAACGTTG
195 CGGTAACAACTTCACGGGTGTT-TTCCCGTCCACTCTTGGGAATTTGTCAAAACTTGAAACGTTG
** *
124161 GGGTTCTACAACAACAACCTCGAAGGACAA
259 GCCTTCTACAACAACAACCTCGAAGGAAAA
124191 ATCCC
1 ATCCC
124196 CATGACTATG
Statistics
Matches: 277, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
287 1 0.00
288 274 0.99
289 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (288 bp):
ATCCCATCTCAATTAGGAAATTTATCTTTCCTTGCCTACCTCAACATTCGTCACAATAGTTTCCA
TGGCTCTTTACCTACTGAGTTAGCCAATTTGCATCGGCTGAAGTATTTGAACTTTGGTAACAACA
GCTTCAGTGGAGAAATCCCATCATGGTTTGGTTGTTTTGCTCAACTTCAAAGCTTGTTGTTGTAC
GGTAACAACTTCACGGGTGTTTTCCCGTCCACTCTTGGGAATTTGTCAAAACTTGAAACGTTGGC
CTTCTACAACAACAACCTCGAAGGAAAA
Found at i:127435 original size:29 final size:29
Alignment explanation
Indices: 127393--127474 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
127383 AAACTAAACT
*
127393 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
127422 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
127451 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
127475 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:132197 original size:29 final size:29
Alignment explanation
Indices: 132162--132243 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
132152 AAACTAAATT
*
132162 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
132191 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
132220 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
132244 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:134525 original size:44 final size:45
Alignment explanation
Indices: 134457--134564 Score: 202
Period size: 44 Copynumber: 2.4 Consensus size: 45
134447 TCATATAAAG
134457 TTGTTGACGTGGACTT-GGTCAGAATTTGCTTTTATTGACTCGCT
1 TTGTTGACGTGGACTTGGGTCAGAATTTGCTTTTATTGACTCGCT
134501 TTGTTGACGTGGACTTGGGT-AGAATTTGCTTTTATTGACTCGCT
1 TTGTTGACGTGGACTTGGGTCAGAATTTGCTTTTATTGACTCGCT
134545 TTGTTGACGTGGACTTGGGT
1 TTGTTGACGTGGACTTGGGT
134565 TGAAGACTCT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
44 60 0.95
45 3 0.05
ACGTcount: A:0.15, C:0.14, G:0.29, T:0.43
Consensus pattern (45 bp):
TTGTTGACGTGGACTTGGGTCAGAATTTGCTTTTATTGACTCGCT
Found at i:139956 original size:21 final size:21
Alignment explanation
Indices: 139932--139992 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
139922 AAACATCTAC
139932 CAAACTTTGAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
**
139953 CAAA----G--AAACATTTAC
1 CAAACTTTGAAAAACATTTTT
*
139968 CAAACTTTGAAAAGCATTTTT
1 CAAACTTTGAAAAACATTTTT
139989 CAAA
1 CAAA
139993 GTTGGTTGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 12
0.63 0.11 0.26
Matches are distributed among these distances:
15 12 0.41
17 1 0.03
19 1 0.03
21 15 0.52
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (21 bp):
CAAACTTTGAAAAACATTTTT
Found at i:139969 original size:36 final size:36
Alignment explanation
Indices: 139914--139993 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
139904 CCCATTCCTA
*
139914 TTTTC-AACAAACATCTACCAAACTTTGAAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
* *
139949 TTTTCAAAGAAACATTTACCAAACTTTGAAAAGCAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
139985 TTTTCAAAG
1 TTTTCAAAG
139994 TTGGTTGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 5 0.12
36 36 0.88
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (36 bp):
TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
Found at i:142467 original size:15 final size:15
Alignment explanation
Indices: 142447--142500 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
142437 ATGTGGAGTT
142447 TTAAGAAATTTTAGA
1 TTAAGAAATTTTAGA
142462 TTAAGAAATTTTAGA
1 TTAAGAAATTTTAGA
142477 TTAAGAAATTTTAGA
1 TTAAGAAATTTTAGA
142492 TTAA-AAATT
1 TTAAGAAATT
142501 GTTTTATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
14 5 0.13
15 34 0.87
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (15 bp):
TTAAGAAATTTTAGA
Found at i:143902 original size:33 final size:33
Alignment explanation
Indices: 143860--143930 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
143850 CCTAGCAAGC
*
143860 GTTTCATCTCGCGCCGTAACTCCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
143893 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
143926 GTTTC
1 GTTTC
143931 CTCGCGTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.14, C:0.34, G:0.21, T:0.31
Consensus pattern (33 bp):
GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
Found at i:148160 original size:13 final size:13
Alignment explanation
Indices: 148144--148203 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
148134 GAAAAAAAAC
148144 AAAAAACAAAGAA
1 AAAAAACAAAGAA
* *
148157 AAAAGAAAAAAG-G
1 AAAA-AACAAAGAA
148170 AAAAAACAAAAGAA
1 AAAAAAC-AAAGAA
* *
148184 CAAAAAGAAAGAA
1 AAAAAACAAAGAA
*
148197 CAAAAAC
1 AAAAAAC
148204 TGAAAGAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 2 0.05
13 24 0.65
14 11 0.30
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAGAA
Found at i:148165 original size:26 final size:27
Alignment explanation
Indices: 148135--148202 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
148125 TAAAAGAAGG
148135 AAAAAAAACAAAAAAC-AAAGAA-AAA
1 AAAAAAAACAAAAAACAAAAGAACAAA
**
148160 AGAAAAAAGGAAAAAACAAAAGAACAAA
1 A-AAAAAAACAAAAAACAAAAGAACAAA
*
148188 AAGAAAGAACAAAAA
1 AA-AAAAAACAAAAA
148203 CTGAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 13 0.38
27 7 0.21
28 13 0.38
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.00
Consensus pattern (27 bp):
AAAAAAAACAAAAAACAAAAGAACAAA
Found at i:148203 original size:27 final size:26
Alignment explanation
Indices: 148134--148212 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
148124 ATAAAAGAAG
*
148134 GAAAAAAAACAAAAAACAAAGAAAAAA
1 GAAAAAAGA-AAAAAACAAAGAAAAAA
* *
148161 GAAAAAAGGAAAAAACAAAAGAACAAA
1 GAAAAAAGAAAAAAAC-AAAGAAAAAA
*
148188 -AAGAAAGAACAAAAACTGAAAGAAA
1 GAAAAAAGAA-AAAAAC--AAAGAAA
148213 GAGGGACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
26 14 0.33
27 22 0.52
28 6 0.14
ACGTcount: A:0.78, C:0.08, G:0.13, T:0.01
Consensus pattern (26 bp):
GAAAAAAGAAAAAAACAAAGAAAAAA
Found at i:149349 original size:18 final size:18
Alignment explanation
Indices: 149322--149357 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
149312 TCAACATCAA
*
149322 ATATTAGGGCATTTTTGG
1 ATATTAGGGCATCTTTGG
*
149340 ATATTGGGGCATCTTTGG
1 ATATTAGGGCATCTTTGG
149358 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTAGGGCATCTTTGG
Found at i:149745 original size:36 final size:37
Alignment explanation
Indices: 149705--149788 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
149695 GATTACTTTT
149705 CTTAAAACAAA-TTTCGTCTCCCTTAAGACAGTTTCC
1 CTTAAAACAAATTTTCGTCTCCCTTAAGACAGTTTCC
* * ** *
149741 CTTAAAAAAAATTTTTGTCTTTCTTGAGACAGTTTCC
1 CTTAAAACAAATTTTCGTCTCCCTTAAGACAGTTTCC
*
149778 CTTGAAACAAA
1 CTTAAAACAAA
149789 ATCTTTGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 10 0.25
37 30 0.75
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (37 bp):
CTTAAAACAAATTTTCGTCTCCCTTAAGACAGTTTCC
Found at i:149912 original size:62 final size:62
Alignment explanation
Indices: 149735--149913 Score: 180
Period size: 62 Copynumber: 2.8 Consensus size: 62
149725 CCTTAAGACA
* * **
149735 GTTTCCCTTAAAAAAAATTTTTGTCTTTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATA
1 GTTTCCCTT-AAACAAA-TTTCGTCTCACTTGAGACAGTTTCCCTTGAAACAAAATCTTT--ATA
149800 T
62 T
* * * * * *
149801 ATTTCACATTAAACAAGTTTCATCTCACTTGAGGCGGTTTCCCTTGAAACAAAATCTTT-TAT
1 GTTTC-CCTTAAACAAATTTCGTCTCACTTGAGACAGTTTCCCTTGAAACAAAATCTTTATAT
* * *
149863 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTCTTGAAACA
1 GTTTCCCTT-AAACAAATTTCGTCTCACTTGAGACAGTTTCCCTTGAAACA
149914 TAAAAATTGA
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
61 3 0.03
62 41 0.45
65 36 0.39
66 9 0.10
67 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (62 bp):
GTTTCCCTTAAACAAATTTCGTCTCACTTGAGACAGTTTCCCTTGAAACAAAATCTTTATAT
Found at i:149996 original size:37 final size:37
Alignment explanation
Indices: 149943--150015 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
149933 TCTTGAAATG
* *
149943 AATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAA
* *
149980 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA
150016 TAAAAATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAA
Found at i:150088 original size:37 final size:37
Alignment explanation
Indices: 150045--150116 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
150035 CCTTGAAATG
* *
150045 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
* *
150082 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAAC
150117 TTAAACATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
Found at i:150200 original size:102 final size:102
Alignment explanation
Indices: 149863--150190 Score: 541
Period size: 102 Copynumber: 3.2 Consensus size: 102
149853 AATCTTTTAT
* *
149863 GTTTCCCTTGAAAC-AAATTTCGTCTCCCTTGAGACATTTTCTCTTGAAACATAAAAATTGAAAA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAAATTGAAAA
* * *
149927 CATTTCTCTTGAAATGAATTTTATCTCGCTTGAGATA
66 CATTTCACTTGAAATGAATTTTGTCTCTCTTGAGATA
149964 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAAATTGAAAA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAAATTGAAAA
*
150029 CATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
66 CATTTCACTTGAAATGAATTTTGTCTCTCTTGAGATA
* * *
150066 GTTTCCCTCGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACTTAAACATTGAAAA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAAATTGAAAA
* * *
150131 CATTTCACTTGAACTGAATTTCGTCTCTCTTGAGACA
66 CATTTCACTTGAAATGAATTTTGTCTCTCTTGAGATA
150168 GTTTCCCTTGAAACAAAATTTTG
1 GTTTCCCTTGAAACAAAATTTTG
150191 CTTCTCTTGA
Statistics
Matches: 213, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
101 14 0.07
102 199 0.93
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAAATTGAAAA
CATTTCACTTGAAATGAATTTTGTCTCTCTTGAGATA
Found at i:150306 original size:87 final size:87
Alignment explanation
Indices: 150105--150287 Score: 278
Period size: 87 Copynumber: 2.1 Consensus size: 87
150095 TTGAGACAGT
* * * * *
150105 TTCTCTTGAAACTTAAACATTGAAAACATTTCACTTGAACTGAATTTCGTCTCTCTTGAGACAGT
1 TTCTCTTGAAACATAAACATTAAAAACATTTCACTTGAAATGAATTTCATCTCCCTTGAGACAGT
150170 TTCCCTTGAAACAAAATTTTGC
66 TTCCCTTGAAACAAAATTTTGC
*
150192 TTCTCTTGAAACATAAACATTAAAAACATTTCTCTTGAAATGAATTTCATCTCCCTTGAGACAGT
1 TTCTCTTGAAACATAAACATTAAAAACATTTCACTTGAAATGAATTTCATCTCCCTTGAGACAGT
* *
150257 TTTCCTTGAAACAAAGTTTTG-
66 TTCCCTTGAAACAAAATTTTGC
150278 TCTCTCTTGA
1 T-TCTCTTGA
150288 GACAATTTCT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 1 0.01
87 86 0.99
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (87 bp):
TTCTCTTGAAACATAAACATTAAAAACATTTCACTTGAAATGAATTTCATCTCCCTTGAGACAGT
TTCCCTTGAAACAAAATTTTGC
Found at i:150381 original size:36 final size:35
Alignment explanation
Indices: 150336--150429 Score: 129
Period size: 34 Copynumber: 2.7 Consensus size: 35
150326 TTCTTGAAAC
*
150336 AAAAT-TTTCTCTTGAAACACAAAAAGAAACCTCTG
1 AAAATGTTTCTCTTGAAACACAAAAA-AAACATCTG
* *
150371 AAATTGTTTCTCTTGAAACAC-AAAAAAACATTTG
1 AAAATGTTTCTCTTGAAACACAAAAAAAACATCTG
*
150405 AAAATGTTTCTCTCGAAACACAAAA
1 AAAATGTTTCTCTTGAAACACAAAA
150430 CCTTTGAGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 26 0.50
35 11 0.21
36 15 0.29
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.28
Consensus pattern (35 bp):
AAAATGTTTCTCTTGAAACACAAAAAAAACATCTG
Found at i:150436 original size:31 final size:32
Alignment explanation
Indices: 150336--150455 Score: 93
Period size: 34 Copynumber: 3.6 Consensus size: 32
150326 TTCTTGAAAC
* *
150336 AAAAT-TTTCTCTTGAAACACAAAAAGAAACCTCTG
1 AAAATGTTTCTCTCGAAACAC---AA-AAACCTTTG
* * *
150371 AAATTGTTTCTCTTGAAACACAAAAAAACATTTG
1 AAAATGTTTCTCTCGAAACAC--AAAAACCTTTG
150405 AAAATGTTTCTCTCGAAACAC-AAAACCTTTG
1 AAAATGTTTCTCTCGAAACACAAAAACCTTTG
* *
150436 -AGATCGTTTCCCTCGAAACA
1 AAAAT-GTTTCTCTCGAAACA
150456 AATTTTGTCT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
30 3 0.04
31 23 0.31
34 26 0.35
35 8 0.11
36 15 0.20
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (32 bp):
AAAATGTTTCTCTCGAAACACAAAAACCTTTG
Found at i:150490 original size:67 final size:68
Alignment explanation
Indices: 150411--150540 Score: 174
Period size: 67 Copynumber: 1.9 Consensus size: 68
150401 TTTGAAAATG
* * *
150411 TTTCTCTCGAAACACAAAACCTTTGAGA-TCGTTTCCCTCGAAAC-AAATTTTGTCTCCTTTGAG
1 TTTCTCTCGAAACACAAAACCTTTGA-ATTCATTTCCCTCAAAACAAAATTTTGTCTCCCTTGAG
150474 ACAT
65 ACAT
* * * *
150478 TTTCTCTTGAAACACAAAATCTTTGAATTCATTTCCCTTAAAACAAAATTTTGTTTCCCTTGA
1 TTTCTCTCGAAACACAAAACCTTTGAATTCATTTCCCTCAAAACAAAATTTTGTCTCCCTTGA
150541 AGCAACAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 1 0.02
67 37 0.69
68 16 0.30
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (68 bp):
TTTCTCTCGAAACACAAAACCTTTGAATTCATTTCCCTCAAAACAAAATTTTGTCTCCCTTGAGA
CAT
Found at i:151295 original size:33 final size:33
Alignment explanation
Indices: 151253--151321 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
151243 CCTAGCAAGC
*
151253 GTTTCATCTCGCGCCGTAACTCCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
*
151286 GTTTCATCTCGCGCCGCAACTTCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
151319 GTT
1 GTT
151322 CCCTCGCGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.32
Consensus pattern (33 bp):
GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
Found at i:151331 original size:31 final size:33
Alignment explanation
Indices: 151253--151331 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
151243 CCTAGCAAGC
* *
151253 GTTTCATCTCGCGCCGTAACTCCCTTGGTCAGA
1 GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
* *
151286 GTTTCATCTCGCGCCGCAACTTCCTTGGTCAGA
1 GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
151319 G-TTC-CCTCGCGCC
1 GTTTCACCTCGCGCC
151332 TCACGCACCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 8 0.19
32 3 0.07
33 32 0.74
ACGTcount: A:0.13, C:0.37, G:0.22, T:0.29
Consensus pattern (33 bp):
GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
Found at i:154426 original size:44 final size:44
Alignment explanation
Indices: 154376--154470 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
154366 GCGAAGACTC
*
154376 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTTGCTTTG
1 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
154420 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
1 TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
154464 TTGACGT
1 TTGACGT
154471 CGACAGGAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.46
Consensus pattern (44 bp):
TTGACGTGGACTTGGGTAGAATTTGCTTTTATTGATTCGCTTTG
Found at i:166571 original size:13 final size:13
Alignment explanation
Indices: 166553--166579 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
166543 TTACAGACAC
166553 GCATATGAAGACT
1 GCATATGAAGACT
166566 GCATATGAAGACT
1 GCATATGAAGACT
166579 G
1 G
166580 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:171595 original size:301 final size:301
Alignment explanation
Indices: 171046--171636 Score: 1015
Period size: 301 Copynumber: 2.0 Consensus size: 301
171036 TTTCATCAGT
** * *
171046 TAAAAGATGTTTTATAACTAACAATCTCACTGCAGATGATTTACAGTCGGGAATATTTGATAATC
1 TAAAAGATGTTTTATAACTAACAATCTCACTGCAGACCATTTACAGCCGGGAATATTTGATAACC
* *
171111 TATCTAAATTGCAAGAATTAAGTTTGATTGGGAATCAGATTTCTGGTAGCATTCCTAATAGTTTA
66 TATCTAAATTGCAAGAATTAAGTTTGACTAGGAATCAGATTTCTGGTAGCATTCCTAATAGTTTA
*
171176 TTCAAGTGCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCTATGGAAGGAAGTATACCAAT
131 TTCAAGTGCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCAATGGAAGGAAGTATACCAAT
*
171241 AGAAATTGGAAATTTGACAATGCTCCAATCTTTGTATCTTGGTTACAACAACCTCAAAGGTAAAC
196 AGAAATCGGAAATTTGACAATGCTCCAATCTTTGTATCTTGGTTACAACAACCTCAAAGGTAAAC
*
171306 AATTCCTCATTTGCATTTTGTTCTCCTTTACTTTTATTAGA
261 AATTCCTCATTTGCATTTCGTTCTCCTTTACTTTTATTAGA
* *
171347 TAAAAGTTGTTTTATAACTAACAATCTCACTGCAGGCCATTTACAGCCGGGAATATTTGATAACC
1 TAAAAGATGTTTTATAACTAACAATCTCACTGCAGACCATTTACAGCCGGGAATATTTGATAACC
* *
171412 TATCTAAATTGCAAGTATTAAGTTTGACTAGTAATCAGATTTCTGGTAGCATTCCTAATAGTTTA
66 TATCTAAATTGCAAGAATTAAGTTTGACTAGGAATCAGATTTCTGGTAGCATTCCTAATAGTTTA
*
171477 TTCAAGTGCAAAGAGTTGAGGTATTTATTC-TTG-GAGAACAACTCAATGGAAGGAAGTATACCC
131 TTCAAGTGCAAAGAGTTGAGGTATTTA-TCATTGTG-GAACAACTCAATGGAAGGAAGTATACCA
*
171540 ATGGAAATCGGAAATTTGACAATGCTCCAATCTTTGTATCTTGGTTACAACAACCTCAAAGGTAA
194 ATAGAAATCGGAAATTTGACAATGCTCCAATCTTTGTATCTTGGTTACAACAACCTCAAAGGTAA
171605 ACAATTCCTCATTTGCATTTCGTTCTCCTTTA
259 ACAATTCCTCATTTGCATTTCGTTCTCCTTTA
171637 TTTCGTTAGA
Statistics
Matches: 273, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
300 1 0.00
301 270 0.99
302 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (301 bp):
TAAAAGATGTTTTATAACTAACAATCTCACTGCAGACCATTTACAGCCGGGAATATTTGATAACC
TATCTAAATTGCAAGAATTAAGTTTGACTAGGAATCAGATTTCTGGTAGCATTCCTAATAGTTTA
TTCAAGTGCAAAGAGTTGAGGTATTTATCATTGTGGAACAACTCAATGGAAGGAAGTATACCAAT
AGAAATCGGAAATTTGACAATGCTCCAATCTTTGTATCTTGGTTACAACAACCTCAAAGGTAAAC
AATTCCTCATTTGCATTTCGTTCTCCTTTACTTTTATTAGA
Found at i:176701 original size:73 final size:73
Alignment explanation
Indices: 176618--176757 Score: 246
Period size: 73 Copynumber: 1.9 Consensus size: 73
176608 CTCATATAAT
*
176618 TCATTATCCACACAATCTCATCAATAAAAGTTAAATAATATATG-TTCTAATCAAGTGATGGTAT
1 TCATCATCCACACAATCTCATCAATAAAAGTTAAATAATATATGTTTC-AATCAAGTGATGGTAT
176682 ATTCATATG
65 ATTCATATG
*
176691 TCATCATCCACACAATCTCATCAATAAAAGTTAAATATTATATGTTTCAATCAAGTGATGGTATA
1 TCATCATCCACACAATCTCATCAATAAAAGTTAAATAATATATGTTTCAATCAAGTGATGGTATA
176756 TT
66 TT
176758 AGAAGGTCTG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
73 61 0.95
74 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (73 bp):
TCATCATCCACACAATCTCATCAATAAAAGTTAAATAATATATGTTTCAATCAAGTGATGGTATA
TTCATATG
Found at i:177942 original size:25 final size:26
Alignment explanation
Indices: 177909--177962 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
177899 TGTAAACTAT
177909 ATAATATATATAGTTTAGTAGTTTAC
1 ATAATATATATAGTTTAGTAGTTTAC
177935 ATAA-ATATATAGTTTAGTAGTTTAC
1 ATAATATATATAGTTTAGTAGTTTAC
177960 ATA
1 ATA
177963 TGAACTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (26 bp):
ATAATATATATAGTTTAGTAGTTTAC
Found at i:180215 original size:20 final size:20
Alignment explanation
Indices: 180173--180217 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
180163 GCATTTCTAT
* * *
180173 TTTTTGATCAAAATATTTTA
1 TTTTTGAACAAAATAATTGA
*
180193 TTTTTGAACAAGATAATTGA
1 TTTTTGAACAAAATAATTGA
180213 TTTTT
1 TTTTT
180218 TATGAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTTTGAACAAAATAATTGA
Found at i:189155 original size:2 final size:2
Alignment explanation
Indices: 189148--189178 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
189138 TTTAGCAACA
*
189148 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
189179 ACCCGTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:193988 original size:20 final size:20
Alignment explanation
Indices: 193943--193989 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
193933 TGATCATTTC
*
193943 TTATAAATTATCATTAAATT
1 TTATAAATTATCATCAAATT
* *
193963 TAATAAATT-TTATCAAATT
1 TTATAAATTATCATCAAATT
193982 ATTATAAA
1 -TTATAAA
193990 ACAATTATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATAAATTATCATCAAATT
Found at i:194976 original size:17 final size:17
Alignment explanation
Indices: 194954--195002 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
194944 GTAAATAATA
194954 TTTTCTTGGTATATGAT
1 TTTTCTTGGTATATGAT
194971 TTTTC-T--TA-AT-A-
1 TTTTCTTGGTATATGAT
194982 TTTTCTTGGTATATGAT
1 TTTTCTTGGTATATGAT
194999 TTTT
1 TTTT
195003 TTAGATACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
11 5 0.19
12 2 0.08
13 2 0.08
14 4 0.15
15 2 0.08
16 2 0.08
17 9 0.35
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.63
Consensus pattern (17 bp):
TTTTCTTGGTATATGAT
Found at i:195014 original size:29 final size:28
Alignment explanation
Indices: 194949--195018 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
194939 CAATCGTAAA
194949 TAATATTTTCTTGGTATATGATTTTTCT
1 TAATATTTTCTTGGTATATGATTTTTCT
194977 TAATATTTTCTTGGTATATGATTTTT-T
1 TAATATTTTCTTGGTATATGATTTTTCT
195004 TAGATACTTTTCTTG
1 TA-ATA-TTTTCTTG
195019 ATGGATGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 3 0.08
28 29 0.73
29 8 0.20
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.60
Consensus pattern (28 bp):
TAATATTTTCTTGGTATATGATTTTTCT
Found at i:195026 original size:29 final size:28
Alignment explanation
Indices: 194949--195031 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
194939 CAATCGTAAA
* *
194949 TAATATTTTCTTGGTATATGATTTTTCT
1 TAATATTTTCTTGATAGATGATTTTTCT
* *
194977 TAATATTTTCTTGGTATATGATTTTT-T
1 TAATATTTTCTTGATAGATGATTTTTCT
*
195004 TAGATACTTTTCTTGATGGATGATTTTT
1 TA-ATA-TTTTCTTGATAGATGATTTTT
195032 GTTCACATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 3 0.06
28 29 0.58
29 18 0.36
ACGTcount: A:0.22, C:0.06, G:0.13, T:0.59
Consensus pattern (28 bp):
TAATATTTTCTTGATAGATGATTTTTCT
Found at i:195573 original size:20 final size:22
Alignment explanation
Indices: 195540--195583 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
195530 CACCCGCATC
195540 ATCCATCCACCCAT-TA-ATAT
1 ATCCATCCACCCATATATATAT
* *
195560 ATCCATTCATCCATATATATAT
1 ATCCATCCACCCATATATATAT
195582 AT
1 AT
195584 ATATATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATCCATCCACCCATATATATAT
Found at i:195894 original size:14 final size:14
Alignment explanation
Indices: 195859--195992 Score: 50
Period size: 14 Copynumber: 9.8 Consensus size: 14
195849 AATGAACCCT
195859 AACCCTAAACC-TA
1 AACCCTAAACCTTA
** *
195872 AACTATAAATCTTA
1 AACCCTAAACCTTA
* *
195886 AACCTTAAACCCTA
1 AACCCTAAACCTTA
*
195900 AA-CCTAAGCAC-TA
1 AACCCTAAAC-CTTA
*
195913 AATCCTAAACCTTA
1 AACCCTAAACCTTA
195927 AA--CTATAA-CTATA
1 AACCCTA-AACCT-TA
* * * *
195940 AATCCGATACCTAA
1 AACCCTAAACCTTA
*
195954 AACCATAAAACC-TA
1 AACCCT-AAACCTTA
195968 AACCCTAAA-CTTAA
1 AACCCTAAACCTT-A
*
195982 AACCATAAACC
1 AACCCTAAACC
195993 CAAACCATAA
Statistics
Matches: 88, Mismatches: 20, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
12 6 0.07
13 28 0.32
14 45 0.51
15 9 0.10
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (14 bp):
AACCCTAAACCTTA
Found at i:195902 original size:34 final size:34
Alignment explanation
Indices: 195859--195929 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
195849 AATGAACCCT
*
195859 AACCCTAAACCTAAACTA-TAAATCTTAAACCTTA
1 AACCCTAAACCTAAAC-ACTAAATCCTAAACCTTA
*
195893 AACCCTAAACCTAAGCACTAAATCCTAAACCTTA
1 AACCCTAAACCTAAACACTAAATCCTAAACCTTA
195927 AAC
1 AAC
195930 TATAACTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 1 0.03
34 33 0.97
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (34 bp):
AACCCTAAACCTAAACACTAAATCCTAAACCTTA
Found at i:195941 original size:27 final size:26
Alignment explanation
Indices: 195862--195954 Score: 68
Period size: 27 Copynumber: 3.5 Consensus size: 26
195852 GAACCCTAAC
195862 CCTAAACCTAAACTATAAATCT-TAAA-
1 CCTAAACCTAAACTAT-AA-CTATAAAT
*
195888 CCTTAAACCCTAAACCTA-AGC-ACTAAAT
1 CC-TAAA-CCTAAA-CTATAACTA-TAAAT
195916 CCTAAACCTTAAACTATAACTATAAAT
1 CCTAAACC-TAAACTATAACTATAAAT
* *
195943 CCGATACCTAAA
1 CCTAAACCTAAA
195955 ACCATAAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
26 12 0.22
27 30 0.56
28 9 0.17
29 3 0.06
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.25
Consensus pattern (26 bp):
CCTAAACCTAAACTATAACTATAAAT
Found at i:195984 original size:20 final size:20
Alignment explanation
Indices: 195959--195997 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
195949 CCTAAAACCA
195959 TAAAACC-TAAACCCTAAACT
1 TAAAACCATAAACCC-AAACT
195979 TAAAACCATAAACCCAAAC
1 TAAAACCATAAACCCAAAC
195998 CATAAATCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (20 bp):
TAAAACCATAAACCCAAACT
Found at i:195997 original size:13 final size:13
Alignment explanation
Indices: 195952--196003 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
195942 TCCGATACCT
195952 AAAACCATAAAACC
1 AAAACCAT-AAACC
* * *
195966 TAAACCCTAAACTT
1 AAAACCATAAAC-C
195980 AAAACCATAAACC
1 AAAACCATAAACC
*
195993 CAAACCATAAA
1 AAAACCATAAA
196004 TCCGATTATG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 14 0.47
14 16 0.53
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAACCATAAACC
Found at i:196653 original size:49 final size:50
Alignment explanation
Indices: 196600--196746 Score: 142
Period size: 50 Copynumber: 3.0 Consensus size: 50
196590 GAAAAATTTC
* *
196600 AATAAAAAATA-TTTTTATTCGAACTCATCACATTGAGCTGACGAGTTCT-
1 AATAAAAAATATTTTTTATT-AAACTCATCACATTGAGATGACGAGTTCTA
* * * * **
196649 AATAAAATATATTTTTTAATTAAAATTTATCACATCGAGAT-AAAAGTT-TA
1 AATAAAAAATATTTTTT-ATT-AAACTCATCACATTGAGATGACGAGTTCTA
*
196699 AATAAAAAATATTTTTTATTAAACTCATCAC-TTCGAGGTGACGAGTTC
1 AATAAAAAATATTTTTTATTAAACTCATCACATT-GAGATGACGAGTTC
196747 CATGTCACTG
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
47 1 0.01
48 13 0.17
49 19 0.25
50 26 0.34
51 17 0.22
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (50 bp):
AATAAAAAATATTTTTTATTAAACTCATCACATTGAGATGACGAGTTCTA
Found at i:199429 original size:134 final size:131
Alignment explanation
Indices: 199233--199494 Score: 409
Period size: 134 Copynumber: 2.0 Consensus size: 131
199223 TCAAATTTTC
* * * * *
199233 AAAACCTTACTTTTATTAAGGTCATGGAATACTTACTGTCCACTAGTTAAGCAATAAGGGAACAA
1 AAAACCCTACTTTTATTAAGCTCATAGAATACTTACTCTCCACTAGGTAAGCAATAAGGGAACAA
*
199298 GTGGAGCAATGTAATCATAGAATACTTGGAAGTGTTTGTGGTTATAATACCTATCAAGTATTGTT
66 GTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATAATACCTA-CAAGTATTGTT
199363 CA
130 CA
199365 AAAACCCTACTTTT-TTAAGCTCATAGAATACTTATGCTCTCCACTAGAGTAAGCAATAAGGGAA
1 AAAACCCTACTTTTATTAAGCTCATAGAATACTTA--CTCTCCACTAG-GTAAGCAATAAGGGAA
* *
199429 CAAGTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATGATATCTACAAGTATTG
63 CAAGTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATAATACCTACAAGTATTG
199494 T
128 T
199495 GTGAATAAGT
Statistics
Matches: 119, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
131 18 0.15
132 13 0.11
133 20 0.17
134 68 0.57
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAACCCTACTTTTATTAAGCTCATAGAATACTTACTCTCCACTAGGTAAGCAATAAGGGAACAA
GTGGAGCAATGTAATCATAGAATACTTGGAAGCGTTTGTGGTTATAATACCTACAAGTATTGTTC
A
Found at i:201185 original size:42 final size:42
Alignment explanation
Indices: 201129--201436 Score: 299
Period size: 43 Copynumber: 7.2 Consensus size: 42
201119 TATGGGTTTA
*
201129 AATTATAAAAGTAAAAAGT-ATGATTGAAAAATTAGGGTCCTC
1 AATTATAAAGGTAAAAAGTGA-GATTGAAAAATTAGGGTCCTC
* * *
201171 AATTTTAAAGGTAAAAAGTGAGATTAAAAAAATTAGGGGCCTC
1 AATTATAAAGGTAAAAAGTGAGATT-GAAAAATTAGGGTCCTC
* *
201214 AATTTTGAAGGTAAAAAGT-ATGATTGAAAAATTAGGGGT-CTC
1 AATTATAAAGGTAAAAAGTGA-GATTGAAAAATTA-GGGTCCTC
* *
201256 AATTA-AAAGGT-AAAGGTGATATTGAAAAAATTAGGAGT--TC
1 AATTATAAAGGTAAAAAGTGAGATTG-AAAAATTAGG-GTCCTC
* *
201296 AATTATAAAGGTAAAATGTGAGATTGAAAAAAAAATTAGGGTCATC
1 AATTATAAAGGTAAAAAGTGAGATTG----AAAAATTAGGGTCCTC
** *
201342 AATTATAAATATAAAAAAGTGAGATTGAAAAAATTAATGGT-CTC
1 AATTATAAAGGT-AAAAAGTGAGATTG-AAAAATT-AGGGTCCTC
* *
201386 AATTATAAAGATAAAAAGTGAGATTAGAAAAATTAGGGGCCTC
1 AATTATAAAGGTAAAAAGTGAGATT-GAAAAATTAGGGTCCTC
201429 AATTATAA
1 AATTATAA
201437 TAAAAAATTA
Statistics
Matches: 227, Mismatches: 21, Indels: 35
0.80 0.07 0.12
Matches are distributed among these distances:
40 18 0.08
41 22 0.10
42 51 0.22
43 72 0.32
44 24 0.11
45 15 0.07
46 12 0.05
47 13 0.06
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.28
Consensus pattern (42 bp):
AATTATAAAGGTAAAAAGTGAGATTGAAAAATTAGGGTCCTC
Found at i:201440 original size:90 final size:87
Alignment explanation
Indices: 201155--201443 Score: 233
Period size: 90 Copynumber: 3.4 Consensus size: 87
201145 AGTATGATTG
* * * ** * * * *
201155 AAAAATTAGGGTCCTCAATTTTAAAGGT-AAAAAGTGAGATTAAAAAAATTAGGGGCCTCAATTT
1 AAAAATTAGGGGCATCAATTATAAATATAAAAAAGTGAGATTGAAAAAATTAGGAG-TTCAATTA
* * *
201219 TGAAGGTAAAAAGT-ATGATT--G
65 TAAAGATAAAAAGTGA-GATTAAA
** * *
201240 AAAAATTAGGGGTC-TCAATTA-AAAGGT--AAAGGTGATATTGAAAAAATTAGGAGTTCAATTA
1 AAAAATTAGGGG-CATCAATTATAAATATAAAAAAGTGAGATTGAAAAAATTAGGAGTTCAATTA
* *
201301 TAAAGGTAAAATGTGAGATTGAAAA
65 TAAAGATAAAAAGTGAGATT--AAA
* *
201326 AAAAATTAGGGTCATCAATTATAAATATAAAAAAGTGAGATTGAAAAAATTAATG-GTCTCAATT
1 AAAAATTAGGGGCATCAATTATAAATATAAAAAAGTGAGATTGAAAAAATT-AGGAGT-TCAATT
*
201390 ATAAAGATAAAAAGTGAGATT-AG
64 ATAAAGATAAAAAGTGAGATTAAA
*
201413 AAAAATTAGGGGCCTCAATTAT-AATA-AAAAA
1 AAAAATTAGGGGCATCAATTATAAATATAAAAA
201444 TTAAAGAAAA
Statistics
Matches: 170, Mismatches: 22, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
82 22 0.13
83 23 0.14
84 6 0.04
85 23 0.14
86 23 0.14
87 25 0.15
89 21 0.12
90 27 0.16
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (87 bp):
AAAAATTAGGGGCATCAATTATAAATATAAAAAAGTGAGATTGAAAAAATTAGGAGTTCAATTAT
AAAGATAAAAAGTGAGATTAAA
Found at i:202162 original size:31 final size:31
Alignment explanation
Indices: 202127--202187 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
202117 ATTCAAAAAA
*
202127 TTAGGGACCTC-AATTATAAAGGTAAAAAGTG
1 TTAGGGACCTCAAATT-TAAAGATAAAAAGTG
*
202158 TTAGGGGCCTCAAATTTAAAGATAAAAAGT
1 TTAGGGACCTCAAATTTAAAGATAAAAAGT
202188 AAGATTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (31 bp):
TTAGGGACCTCAAATTTAAAGATAAAAAGTG
Found at i:204642 original size:21 final size:21
Alignment explanation
Indices: 204618--204665 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
204608 CCCGCTACAC
* *
204618 CCGCAATAGCGCCCGCGACGG
1 CCGCAATAACGCCCACGACGG
204639 CCGCAATAACGCCCACGACGG
1 CCGCAATAACGCCCACGACGG
204660 -CGCAAT
1 CCGCAAT
204666 CACAGTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.25, C:0.42, G:0.27, T:0.06
Consensus pattern (21 bp):
CCGCAATAACGCCCACGACGG
Done.