Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 94 of 171
Found at i:30547263 original size:30 final size:30
Alignment explanation
Indices: 30547218--30547368 Score: 99
Period size: 30 Copynumber: 5.0 Consensus size: 30
30547208 TATTTTAACA
30547218 CCTAAA-TTTTCCAAAAATTCAAATTTGACC
1 CCTAAACTTTT-CAAAAATTCAAATTTGACC
* * **
30547248 CTTACACTTTTCAAAAATTTGAATTTGACC
1 CCTAAACTTTTCAAAAATTCAAATTTGACC
*** *
30547278 CCTAAAC-TTTCTAAAAATTTTGATTTAACC
1 CCTAAACTTTTC-AAAAATTCAAATTTGACC
* * * * * *
30547308 CCCAAAATTTCCAAAATTTCCAATTTAACC
1 CCTAAACTTTTCAAAAATTCAAATTTGACC
* * * * *
30547338 CTTGAAGTTTCCAAAAATTCAAATCTGACC
1 CCTAAACTTTTCAAAAATTCAAATTTGACC
30547368 C
1 C
30547369 GATTTTAATA
Statistics
Matches: 94, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
29 4 0.04
30 83 0.88
31 7 0.07
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (30 bp):
CCTAAACTTTTCAAAAATTCAAATTTGACC
Found at i:30558248 original size:78 final size:78
Alignment explanation
Indices: 30558119--30558407 Score: 404
Period size: 78 Copynumber: 3.7 Consensus size: 78
30558109 GATTCCGATA
*
30558119 TCTTACCCCGAGCCTAGGGCAGATTGTAGCCATCCGATCTTTTATCCCGAGCTTGAGGTAGATCA
1 TCTTACCCCGAGCCTAGGGCAGATTATAGCCATCCGATCTTTTATCCCGAGCTTGAGGTAGATCA
30558184 CCATCAGCCAATC
66 CCATCAGCCAATC
* *
30558197 TCTTACCCCGAGCCTAGGGCAGATTATAGCCATCCGATCTTTTATCCCGAGCCT-AGGACAGATC
1 TCTTACCCCGAGCCTAGGGCAGATTATAGCCATCCGATCTTTTATCCCGAGCTTGAGG-TAGATC
30558261 ACCATCAGCCAATC
65 ACCATCAGCCAATC
* * ** * *
30558275 TCTTACCCCGAGCCT-GGGATAAATTGCAGCCATCCGATCTTTTACCCCAAGCTTGAGGTAGATC
1 TCTTACCCCGAGCCTAGGG-CAGATTATAGCCATCCGATCTTTTATCCCGAGCTTGAGGTAGATC
30558339 ACCATCAGCCAATC
65 ACCATCAGCCAATC
* * * * *
30558353 TCTTACCCCGAGCCTAGGGCAGATCACTA-TCAACCAATCTCTTATCCCGAGCTTG
1 TCTTACCCCGAGCCTAGGGCAGATTA-TAGCCATCCGATCTTTTATCCCGAGCTTG
30558408 GGGCAGATTG
Statistics
Matches: 184, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
77 6 0.03
78 171 0.93
79 7 0.04
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (78 bp):
TCTTACCCCGAGCCTAGGGCAGATTATAGCCATCCGATCTTTTATCCCGAGCTTGAGGTAGATCA
CCATCAGCCAATC
Found at i:30558320 original size:117 final size:118
Alignment explanation
Indices: 30558194--30558493 Score: 295
Period size: 117 Copynumber: 2.6 Consensus size: 118
30558184 CCATCAGCCA
* * * * * * *
30558194 ATCTCTTACCCCGAGCCTAG-GGCAGATTA-TAGCCATCCGATCTTTTATCCCGAGCCTAGGACA
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCA-CCAGCCAATCTCTTACCCCGAGCCTAGGACA
* *
30558257 GATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGATAAATTGCA-GCCATCCG
65 GATCACCATCAACCAATCTCTTACCCCGAGCCTGGGACAAATTG-AGGCCATCCG
* * * * *
30558311 ATCTTTTACCCCAAG-CTTGAGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCACCAGCCAATCTCTTACCCCGAGCCTAGGACAG
* * * * * *
30558375 ATCACTATCAACCAATCTCTTATCCCGAGCTTGGGGCAGATTGAGGTCATCCG
66 ATCACCATCAACCAATCTCTTACCCCGAGCCTGGGACAAATTGAGGCCATCCG
* * * * * * * *
30558428 ATCTTTTATCCCGAG-CTTGAGGCATATCACCATCAGCCAGTCTCTTACCTCGAGCTTAGGGCAG
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCACCAGCCAATCTCTTACCCCGAGCCTAGGACAG
30558492 AT
66 AT
30558494 TGCAGCCATC
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
116 4 0.03
117 148 0.97
118 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (118 bp):
ATCTTTTACCCCGAGCCTAGAGGCAGATCACCACCAGCCAATCTCTTACCCCGAGCCTAGGACAG
ATCACCATCAACCAATCTCTTACCCCGAGCCTGGGACAAATTGAGGCCATCCG
Found at i:30558441 original size:78 final size:78
Alignment explanation
Indices: 30558350--30558766 Score: 370
Period size: 78 Copynumber: 5.4 Consensus size: 78
30558340 CCATCAGCCA
* *
30558350 ATCTCTTACCCCGAGCCTAG-GGCAGATCACTATCAACCAATCTCTTATCCCGAGCTTGGGGCAG
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCATCAACCAATCTCTTA-CCCGAGCTTGGGGCAG
*
30558414 ATTG-AGGTCATCCG
65 ATTGCA-GCCATCCG
* * * * * *
30558428 ATCTTTTATCCCGAG-CTTGAGGCATATCACCATCAGCCAGTCTCTTACCTCGAGCTTAGGGCAG
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCATCAACCAATCTCTTACC-CGAGCTTGGGGCAG
30558492 ATTGCAGCCATCCG
65 ATTGCAGCCATCCG
* ** * *
30558506 ATCTTTTACCCCAAGCCT-GAAACATATCACCATCAGA-CAATCTCTTACCTCGAGCCTGGGGCA
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCATCA-ACCAATCTCTTACC-CGAGCTTGGGGCA
* *
30558569 TATTGCAGCCATCTG
64 GATTGCAGCCATCCG
* * * * * * * * * *
30558584 ATCTTTTACCCTGAG-TTTGAGGCAAATCACCATCAGCTAATCTCTTACCCCGACCCTAGGGTAG
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCATCAACCAATCTCTTA-CCCGAGCTTGGGGCAG
* * *
30558648 ATTACAACCATTCG
65 ATTGCAGCCATCCG
* * *
30558662 ATCTTTTACCCCGAGCTTAGA-GCAGATCACCATCAATCAATCTCTTACCCTGAGCTTGGGGAAG
1 ATCTTTTACCCCGAGCCTAGAGGCAGATCACCATCAACCAATCTCTTACCC-GAGCTTGGGGCAG
*
30558726 A-T-CA-CCATCAGCCA
65 ATTGCAGCCAT---CCG
30558740 ATCTTTTACCCCGAGCCTA-AGGCAGAT
1 ATCTTTTACCCCGAGCCTAGAGGCAGAT
30558767 TACAGCCATC
Statistics
Matches: 277, Mismatches: 48, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
75 4 0.01
76 2 0.01
77 11 0.04
78 251 0.91
79 9 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (78 bp):
ATCTTTTACCCCGAGCCTAGAGGCAGATCACCATCAACCAATCTCTTACCCGAGCTTGGGGCAGA
TTGCAGCCATCCG
Found at i:30558443 original size:156 final size:156
Alignment explanation
Indices: 30558119--30558404 Score: 450
Period size: 156 Copynumber: 1.8 Consensus size: 156
30558109 GATTCCGATA
* * * * *
30558119 TCTTACCCCGAGCCTAGGG-CAGATTGTAGCCATCCGATCTTTTATCCCGAGCTTGAGGTAGATC
1 TCTTACCCCGAGCCT-GGGATAAATTGCAGCCATCCGATCTTTTACCCCAAGCTTGAGGTAGATC
* * * *
30558183 ACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTATAGCCATCCGATCTTTTATCCCGAG
65 ACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATCATAGCCAACCAATCTCTTATCCCGAG
30558248 CCTAGGACAGATCACCATCAGCCAATC
130 CCTAGGACAGATCACCATCAGCCAATC
30558275 TCTTACCCCGAGCCTGGGATAAATTGCAGCCATCCGATCTTTTACCCCAAGCTTGAGGTAGATCA
1 TCTTACCCCGAGCCTGGGATAAATTGCAGCCATCCGATCTTTTACCCCAAGCTTGAGGTAGATCA
*
30558340 CCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATCACTA-TCAACCAATCTCTTATCCCGAG
66 CCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATCA-TAGCCAACCAATCTCTTATCCCGAG
30558404 C
130 C
30558405 TTGGGGCAGA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
155 3 0.03
156 113 0.96
157 2 0.02
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (156 bp):
TCTTACCCCGAGCCTGGGATAAATTGCAGCCATCCGATCTTTTACCCCAAGCTTGAGGTAGATCA
CCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATCATAGCCAACCAATCTCTTATCCCGAGC
CTAGGACAGATCACCATCAGCCAATC
Found at i:30558476 original size:156 final size:152
Alignment explanation
Indices: 30558155--30558727 Score: 380
Period size: 156 Copynumber: 3.7 Consensus size: 152
30558145 TAGCCATCCG
* * *
30558155 ATCTTTTATCCCGAGCTT-GAGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTCTTACCCCGAGCTTAG-GGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGAGCAG
* * * * * * * * * * * * *
30558219 ATTA-TAGCCATCCGATCTTTTATCCCGAGCCTAGGACAGA-TCACCATCAGCCAATCTCTTACC
65 ATCACCA-TCAACCAATCTCTTA-CCCGAGCCTGGGGCAGATTGA--GTCATCCGATCTTTTA-C
* *
30558282 CCGAGCCTG-GG-ATAAATTGCAGCCATC--CG
125 CCGAGCTTGAGGCAT--A-T-CA-CCATCAGCC
* * *
30558311 ATCTTTTACCCCAAGCTT-GAGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTCTTACCCCGAGCTTAG-GGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGAGCAG
* *
30558375 ATCACTATCAACCAATCTCTTATCCCGAGCTTGGGGCAGATTGAGGTCATCCGATCTTTTATCCC
65 ATCACCATCAACCAATCTCTTA-CCCGAGCCTGGGGCAGATTGA-GTCATCCGATCTTTTA-CCC
30558440 GAGCTTGAGGCATATCACCATCAGCC
127 GAGCTTGAGGCATATCACCATCAGCC
* * * * *
30558466 AGTCTCTTACCTCGAGCTTAGGGCAGATTGCAGCCAT---CCGATCTTTTACCCCAAGCCT-GAA
1 A-TCTCTTACCCCGAGCTTAGGGTAGA-T-CA-CCATCAGCCAATCTCTTACCCCGAGCCTAG-A
* * * * *
30558527 ACATATCACCATCAGA-CAATCTCTTACCTCGAGCCTGGGGCATATTGCAGCCATCTGATCTTTT
61 GCAGATCACCATCA-ACCAATCTCTTACC-CGAGCCTGGGGCAGATTG-AGTCATCCGATCTTTT
* * *
30558591 ACCCTGAGTTTGAGGCAAATCACCATCAGCTA
123 ACCC-GAGCTTGAGGCATATCACCATCAGC-C
* * * * * ** * * *
30558623 ATCTCTTACCCCGACCCTAGGGTAGATTACAACCATTCGATCTTTTACCCCGAGCTTAGAGCAGA
1 ATCTCTTACCCCGAGCTTAGGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGA
* * *
30558688 TCACCATCAATCAATCTCTTACCCTGAGCTTGGGGAAGAT
66 TCACCATCAACCAATCTCTTACCC-GAGCCTGGGGCAGAT
30558728 CACCATCAGC
Statistics
Matches: 342, Mismatches: 52, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
153 7 0.02
154 3 0.01
155 12 0.04
156 300 0.88
157 12 0.04
158 4 0.01
159 4 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (152 bp):
ATCTCTTACCCCGAGCTTAGGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGA
TCACCATCAACCAATCTCTTACCCGAGCCTGGGGCAGATTGAGTCATCCGATCTTTTACCCGAGC
TTGAGGCATATCACCATCAGCC
Found at i:30558571 original size:39 final size:38
Alignment explanation
Indices: 30558155--30558766 Score: 238
Period size: 39 Copynumber: 15.7 Consensus size: 38
30558145 TAGCCATCCG
* * * *
30558155 ATCTTTTATCCCGAGCTTGAGGTAGATCACCATCAGCCA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * *
30558194 ATCTCTTACCCCGAGCCTAGGGCAGATTA-TAGCCATCCG
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCA-TCAGCCA
* * *
30558233 ATCTTTTATCCCGAGCCTAGGACAGATCACCATCAGCCA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
** * *
30558272 ATCTCTTACCCCGAGCCTGGGATAAATTGCAGCCAT---CCG
1 ATCTCTTA-CCCGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* * * * *
30558311 ATCTTTTACCCCAAGCTTGAGGTAGATCACCATCAGCCA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
* * *
30558350 ATCTCTTACCCCGAGCCTAGGGCAGATCACTATCAACCA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
* * ** * *
30558389 ATCTCTTATCCCGAGCTTGGGGCAGATTGA-GGTCATCCG
1 ATCTCTTA-CCCGAGCCTGGGGCAGA-TCACCATCAGCCA
* * * *
30558428 ATCTTTTATCCCGAGCTTGAGGCATATCACCATCAGCCA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * *
30558467 GTCTCTTACCTCGAGCTTAGGGCAGATTGCAGCCAT---CCG
1 ATCTCTTACC-CGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* * *** * *
30558506 ATCTTTTACCCCAAGCCTGAAACATATCACCATCAGACA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
* *
30558545 ATCTCTTACCTCGAGCCTGGGGCATATTGCAGCCATCTG---
1 ATCTCTTACC-CGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* ** * * *
30558584 ATCTTTTACCCTGAGTTTGAGGCAAATCACCATCAGCTA
1 ATCTCTTACCC-GAGCCTGGGGCAGATCACCATCAGCCA
* * * * * * ** *
30558623 ATCTCTTACCCCGACCCTAGGGTAGATTACAACCATTCG
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * **
30558662 ATCTTTTACCCCGAGCTTAGAGCAGATCACCATCAATCA
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCATCAGCCA
* *
30558701 ATCTCTTACCCTGAGCTTGGGGAAGATCACCATCAGCCA
1 ATCTCTTACCC-GAGCCTGGGGCAGATCACCATCAGCCA
* **
30558740 ATCTTTTACCCCGAGCCTAAGGCAGAT
1 ATCTCTTA-CCCGAGCCTGGGGCAGAT
30558767 TACAGCCATC
Statistics
Matches: 423, Mismatches: 121, Indels: 58
0.70 0.20 0.10
Matches are distributed among these distances:
36 14 0.03
37 6 0.01
38 14 0.03
39 355 0.84
40 14 0.03
41 6 0.01
42 14 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCGAGCCTGGGGCAGATCACCATCAGCCA
Found at i:30558763 original size:156 final size:155
Alignment explanation
Indices: 30558350--30558755 Score: 421
Period size: 156 Copynumber: 2.6 Consensus size: 155
30558340 CCATCAGCCA
* * *
30558350 ATCTCTTACCCCGAGCCTAGGGCAGATCACTATCAACCAATCTCTTATCCC-GAGCTTGGGGCAG
1 ATCTTTTACCCCGAGCCTAGAGCAGATCACCATCAA-CAATCTCTTA-CCCTGAGCTTGGGGCAG
* ** * * * * *
30558414 ATTGA-GGTCATCCGATCTTTTATCCCGAGCTTGAGGCATATCACCATCAGCCAGTCTCTTACCT
64 ATTCACCATCAGCC-ATCTTTTACCCCGAGCTTGAGGCAAATCACCATCAGCCAATCTCTTACCC
* * * *
30558478 CGAGCTTAGGGCAGATTGCAGCCATCCG
128 CGACCCTAGGGCAGATTACAACCATCCG
* * * *
30558506 ATCTTTTACCCCAAGCCT-GAAACATATCACCATCAGACAATCTCTTA-CCTCGAGCCTGGGGCA
1 ATCTTTTACCCCGAGCCTAG-AGCAGATCACCATCA-ACAATCTCTTACCCT-GAGCTTGGGGCA
* * * * *
30558569 TATTGCAGCCATCTG--ATCTTTTACCCTGAGTTTGAGGCAAATCACCATCAGCTAATCTCTTAC
63 GATT-CA-CCATCAGCCATCTTTTACCCCGAGCTTGAGGCAAATCACCATCAGCCAATCTCTTAC
* *
30558632 CCCGACCCTAGGGTAGATTACAACCATTCG
126 CCCGACCCTAGGGCAGATTACAACCATCCG
* *
30558662 ATCTTTTACCCCGAGCTTAGAGCAGATCACCATCAATCAATCTCTTACCCTGAGCTTGGGGAAGA
1 ATCTTTTACCCCGAGCCTAGAGCAGATCACCATCAA-CAATCTCTTACCCTGAGCTTGGGGCAGA
30558727 -TCACCATCAGCCAATCTTTTACCCCGAGC
65 TTCACCATCAGCC-ATCTTTTACCCCGAGC
30558756 CTAAGGCAGA
Statistics
Matches: 201, Mismatches: 36, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
153 6 0.03
154 4 0.02
155 3 0.01
156 180 0.90
157 6 0.03
159 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (155 bp):
ATCTTTTACCCCGAGCCTAGAGCAGATCACCATCAACAATCTCTTACCCTGAGCTTGGGGCAGAT
TCACCATCAGCCATCTTTTACCCCGAGCTTGAGGCAAATCACCATCAGCCAATCTCTTACCCCGA
CCCTAGGGCAGATTACAACCATCCG
Found at i:30558788 original size:78 final size:77
Alignment explanation
Indices: 30558662--30558992 Score: 246
Period size: 77 Copynumber: 4.2 Consensus size: 77
30558652 CAACCATTCG
* * * * * *
30558662 ATCTTTTACCCCGAGCTTAGAGCAGATCACCATCAATC-AATCTCTTACCCTGAGCTTGGGGAAG
1 ATCTTTTACCCCGAGCCTAGAGCAGATTA-CAGCCATCTGATCTTTTACCCTGAGCTTGGGGAA-
30558726 ATCACCATCAGCCA
64 ATCACCATCAGCCA
30558740 ATCTTTTACCCCGAGCCTA-AGGCAGATTACAGCCATCTGATCTTTTACCCT-AGCTTGGGGTAA
1 ATCTTTTACCCCGAGCCTAGA-GCAGATTACAGCCATCTGATCTTTTACCCTGAGCTTGGGG-AA
*
30558803 ATCACCATCAGTCA
64 ATCACCATCAGCCA
* * * *
30558817 ATCTTTTAATCTCTTACCCTGAGCCTGGAGCAAATTGCAGCCATCTGATCTTTTA-TCTCGAGCT
1 ATCTTTT-A---C---CCC-GAGCCTAGAGCAGATTACAGCCATCTGATCTTTTACCCT-GAGCT
* *
30558881 TGGGGCATATCACCAT-TGCCCA
57 TGGGG-AAATCACCATCAG-CCA
* * * * * ** *
30558903 ATCTCTTACCCCGAGCCT-GAGGCAGATTGCAGTCAT-TCGAT-TTTTACCCCGACCCTAAGGAA
1 ATCTTTTACCCCGAGCCTAGA-GCAGATTACAGCCATCT-GATCTTTTACCCTGA-GCTTGGGGA
*
30558965 AATCACCGTCAGCCA
63 AATCACCATCAGCCA
30558980 ATCTTTTACCCCG
1 ATCTTTTACCCCG
30558993 TGATAGGGGC
Statistics
Matches: 205, Mismatches: 28, Indels: 41
0.75 0.10 0.15
Matches are distributed among these distances:
77 69 0.34
78 67 0.33
79 3 0.01
81 1 0.00
82 1 0.00
84 5 0.02
85 32 0.16
86 27 0.13
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (77 bp):
ATCTTTTACCCCGAGCCTAGAGCAGATTACAGCCATCTGATCTTTTACCCTGAGCTTGGGGAAAT
CACCATCAGCCA
Found at i:30559618 original size:6 final size:6
Alignment explanation
Indices: 30559607--30559639 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
30559597 TAACCAAAAA
*
30559607 TAAATT TAAATT TAAATT T-ATTT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
30559640 AATATCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:30571036 original size:50 final size:50
Alignment explanation
Indices: 30570923--30571045 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 50
30570913 TAGAGGAACG
* ** * * *
30570923 AATTGAAGACACAATGGAAAATCTCATATACCTAAAGCTGTAGAGGGGTA
1 AATTGAAGACGCAATGGCGAATCTCATATACCTAAAGATGTAAAGGGGCA
* * *
30570973 GATTGAAGCCGCAATGGCGAATCTCAT-TCACTTAAAGATGTAAAGGGGCA
1 AATTGAAGACGCAATGGCGAATCTCATAT-ACCTAAAGATGTAAAGGGGCA
*
30571023 AATTGAAGTCGCAA-GGACGAATC
1 AATTGAAGACGCAATGG-CGAATC
30571046 ATATACTCCT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.05
50 57 0.95
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (50 bp):
AATTGAAGACGCAATGGCGAATCTCATATACCTAAAGATGTAAAGGGGCA
Found at i:30571144 original size:40 final size:40
Alignment explanation
Indices: 30571081--30571219 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
30571071 TGAAGTTACA
*
30571081 ACCATCCAATCTTTTTTCC-CGACCATTGGGCAGATTGAAG
1 ACCATCCAATC-TTTTACCTCGACCATTGGGCAGATTGAAG
*
30571121 ACCATCCAATCTTTTACCTCGACCATGGGGCAGATTGAAG
1 ACCATCCAATCTTTTACCTCGACCATTGGGCAGATTGAAG
* * * *
30571161 ACCAGCCAATCTCTTACCCCGATCA-TGAGGCAGATTGAAG
1 ACCATCCAATCTTTTACCTCGACCATTG-GGCAGATTGAAG
* *
30571201 -CAATCTAATCTTTTACCTC
1 ACCATCCAATCTTTTACCTC
30571220 TAAAGCTATA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 21 0.25
40 64 0.75
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (40 bp):
ACCATCCAATCTTTTACCTCGACCATTGGGCAGATTGAAG
Found at i:30572946 original size:30 final size:30
Alignment explanation
Indices: 30572899--30573048 Score: 146
Period size: 30 Copynumber: 5.0 Consensus size: 30
30572889 GTTTTGACCT
* *
30572899 CCCAAACTTTT-CAAAAATTTGAATTTGAC
1 CCCAAAATTTTCCAAAAATTTAAATTTGAC
* *
30572928 CCTC-GAATTTTCCAAAAATTCAAATTTGAC
1 CC-CAAAATTTTCCAAAAATTTAAATTTGAC
30572958 CCCAAAATTTTCC-AAAATTTCAAATTTGAC
1 CCCAAAATTTTCCAAAAATTT-AAATTTGAC
* * *
30572988 TCCTAAATTTTCCAAAAATTCT-AATTTAAC
1 CCCAAAATTTTCCAAAAATT-TAAATTTGAC
* * * *
30573018 CCCTAAAGTTTCCAAAAATTCAAATCTGAC
1 CCCAAAATTTTCCAAAAATTTAAATTTGAC
30573048 C
1 C
30573049 TGATTTTAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
29 14 0.14
30 79 0.79
31 6 0.06
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (30 bp):
CCCAAAATTTTCCAAAAATTTAAATTTGAC
Found at i:30572997 original size:60 final size:60
Alignment explanation
Indices: 30572899--30573048 Score: 187
Period size: 60 Copynumber: 2.5 Consensus size: 60
30572889 GTTTTGACCT
* * * * *
30572899 CCCAAACTTTTCAAAAATTT-GAATTTGACCCTCGAATTTTCCAAAAATTCAAATTTGAC
1 CCCAAAATTTTCCAAAATTTCAAATTTGACCCTCAAATTTTCCAAAAATTCAAATTTAAC
*
30572958 CCCAAAATTTTCCAAAATTTCAAATTTGACTCCT-AAATTTTCCAAAAATTCTAATTTAAC
1 CCCAAAATTTTCCAAAATTTCAAATTTGAC-CCTCAAATTTTCCAAAAATTCAAATTTAAC
* * * *
30573018 CCCTAAAGTTTCCAAAAATTCAAATCTGACC
1 CCCAAAATTTTCCAAAATTTCAAATTTGACC
30573049 TGATTTTAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 19 0.24
60 57 0.72
61 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (60 bp):
CCCAAAATTTTCCAAAATTTCAAATTTGACCCTCAAATTTTCCAAAAATTCAAATTTAAC
Found at i:30573129 original size:15 final size:15
Alignment explanation
Indices: 30573089--30573134 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
30573079 TTTTATCATA
30573089 TATGTATAT-TATTT
1 TATGTATATATATTT
*
30573103 TAT-TTTATTATATTT
1 TATGTATA-TATATTT
30573118 TATGTATATATAGTTT
1 TATGTATATATA-TTT
30573134 T
1 T
30573135 CTATTATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 4 0.15
15 12 0.46
16 7 0.27
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (15 bp):
TATGTATATATATTT
Found at i:30574280 original size:22 final size:22
Alignment explanation
Indices: 30574223--30574285 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
30574213 AAAGTTTTAA
* **
30574223 AAATATTAATTATGTTAAATGGT
1 AAATATTAATT-TTTTAAACAGT
* * *
30574246 AAATGTCATTTTTTTAAACAGT
1 AAATATTAATTTTTTAAACAGT
30574268 AAATATTAATTTTGTTAA
1 AAATATTAATTTT-TTAA
30574286 TATTTGATCT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (22 bp):
AAATATTAATTTTTTAAACAGT
Found at i:30575445 original size:7 final size:7
Alignment explanation
Indices: 30575433--30575472 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
30575423 TTTCCTCAAA
30575433 TTCTTTC
1 TTCTTTC
30575440 TTCTTTC
1 TTCTTTC
30575447 TTCTTTC
1 TTCTTTC
30575454 TTCTTTC
1 TTCTTTC
30575461 TTCTTTC
1 TTCTTTC
30575468 TTCTT
1 TTCTT
30575473 CTCCTTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTC
Found at i:30577795 original size:42 final size:42
Alignment explanation
Indices: 30577736--30577820 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
30577726 AATAAAATCT
30577736 ATTAGATGCATGTCAAGTTTTTCATGTACTGCTAGACTAATA
1 ATTAGATGCATGTCAAGTTTTTCATGTACTGCTAGACTAATA
30577778 ATTAGATGCATGTCAAGTTTTTCATGTACTGCTAGACTAATA
1 ATTAGATGCATGTCAAGTTTTTCATGTACTGCTAGACTAATA
30577820 A
1 A
30577821 GATATCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (42 bp):
ATTAGATGCATGTCAAGTTTTTCATGTACTGCTAGACTAATA
Found at i:30580728 original size:132 final size:132
Alignment explanation
Indices: 30580449--30580713 Score: 478
Period size: 132 Copynumber: 2.0 Consensus size: 132
30580439 CGGGTGGTTT
30580449 TTCATCAACAACTCATTATTTTGTTCAACCACCAAAAGACATGAAATCAATTTAGAATACTTTTT
1 TTCATCAACAACTCATTATTTTGTTCAACCACCAAAAGACATGAAATCAATTTAGAATACTTTTT
30580514 AAAACTTTTTTCACAGTATTGCTGCTGCAACAGCACATTAGTAACATTAAAGGTTGAAAAGGTTT
66 AAAACTTTTTTCACAGTATTGCTGCTGCAACAGCACATTAGTAACATTAAAGGTTGAAAAGGTTT
30580579 TC
131 TC
* *
30580581 TTCATCAACAACTCATTATTTTGTTTAACCACCAAAAGACATGAACTCAATTTAGAATACTTTTT
1 TTCATCAACAACTCATTATTTTGTTCAACCACCAAAAGACATGAAATCAATTTAGAATACTTTTT
* *
30580646 AAAA-TCTTTTTCACAGTATTGCTGTTGCAAGAGCACATTAGTAACATTAAAGGTTGAAAAGGTT
66 AAAACT-TTTTTCACAGTATTGCTGCTGCAACAGCACATTAGTAACATTAAAGGTTGAAAAGGTT
30580710 TTC
130 TTC
30580713 T
1 T
30580714 CTAACAAATT
Statistics
Matches: 128, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
131 1 0.01
132 127 0.99
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (132 bp):
TTCATCAACAACTCATTATTTTGTTCAACCACCAAAAGACATGAAATCAATTTAGAATACTTTTT
AAAACTTTTTTCACAGTATTGCTGCTGCAACAGCACATTAGTAACATTAAAGGTTGAAAAGGTTT
TC
Found at i:30583028 original size:16 final size:18
Alignment explanation
Indices: 30583007--30583041 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30582997 CATGCCTATA
30583007 TTATTT-TT-AAAATTTT
1 TTATTTATTGAAAATTTT
30583023 TTATTTATTGAAAATTTT
1 TTATTTATTGAAAATTTT
30583041 T
1 T
30583042 ATATAGTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTATTTATTGAAAATTTT
Found at i:30586038 original size:11 final size:11
Alignment explanation
Indices: 30586022--30586057 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
30586012 GCTTTAGAGA
30586022 GAAATTTGTGT
1 GAAATTTGTGT
*
30586033 GAAA-TTGAGT
1 GAAATTTGTGT
30586043 GAAATTTGTGT
1 GAAATTTGTGT
30586054 GAAA
1 GAAA
30586058 AATAAGGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (11 bp):
GAAATTTGTGT
Found at i:30603712 original size:3 final size:3
Alignment explanation
Indices: 30603704--30603745 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
30603694 AAGGGCCCAA
30603704 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30603746 GTTGTTGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30603750 original size:3 final size:3
Alignment explanation
Indices: 30603744--30603781 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30603734 ATTATTATTA
30603744 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
30603782 AGGATTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:30604466 original size:145 final size:146
Alignment explanation
Indices: 30604199--30604565 Score: 524
Period size: 145 Copynumber: 2.5 Consensus size: 146
30604189 TTGGGAAAAA
* * * * * * *
30604199 TTTGATTTTTTTAACAATTTCGAAATAAAAGTTTTTAGATTTAAAAAAAATTGTGATTTTCTTTA
1 TTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTAAGTTTTAAGAAAAATAGTGATTTTCATT-
* *
30604264 AAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAAA-TT
65 AAAAAAA-AAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTAATCATTTTAAAGAAAAAGTT
30604328 TAAATTTTTAAACAAAGT
129 TAAATTTTTAAACAAAGT
* * **
30604346 TTTGATTTTTTTAAGTATTTTGAAATAAAAATTTGGAGTTTTAAGAAAAATAGTGATTTTCATTA
1 TTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTAAGTTTTAAGAAAAATAGTGATTTTCATTA
* *
30604411 AAAAATAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTAATCATTTTAAAGAAAAAGTTTT
66 AAAAAAAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTAATCATTTTAAAGAAAAAGTTTA
*
30604476 AATTTTTAAATAAAGT
131 AATTTTTAAACAAAGT
* *
30604492 TTTGA-TTTTTTAATTATTTTGAAATAAAAGTTTTAATTTTTAAGAAAAATAGTGATTTT-ATTT
1 TTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTAAGTTTTAAGAAAAATAGTGATTTTCA-TT
30604555 AAAAAAAAAAG
65 AAAAAAAAAAG
30604566 AAAACTTTTG
Statistics
Matches: 197, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
144 1 0.01
145 113 0.57
146 29 0.15
147 54 0.27
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (146 bp):
TTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTAAGTTTTAAGAAAAATAGTGATTTTCATTA
AAAAAAAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTAATCATTTTAAAGAAAAAGTTTA
AATTTTTAAACAAAGT
Found at i:30604522 original size:50 final size:49
Alignment explanation
Indices: 30604272--30604534 Score: 155
Period size: 50 Copynumber: 5.3 Consensus size: 49
30604262 TAAAAAAAAG
* * * * * *
30604272 AAAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTTAGTCATTTTAAAGA
1 AAAGTTTAAATTTTT--AAATAAAATTTTGATTTTTTAATTATTTTAAATA
* * * *
30604322 AAAATTTAAATTTTTAAACAAAGTTTTGATTTTTTTAAGTATTTTGAAATA
1 AAAGTTTAAATTTTTAAATAAAATTTTGA-TTTTTTAATTATTTT-AAATA
* ** * ** * **
30604373 AAAATTTGGAGTTTTAAGA-AAAATAGTGA--TTTTCATTA--AAAAAT-
1 AAAGTTTAAATTTTTAA-ATAAAATTTTGATTTTTTAATTATTTTAAATA
* * * *
30604417 AAAGTTTAAATTTTTAAAAATAAAAATATG-TTTTTTAATCATTTTAAAGAA
1 AAAGTTTAAATTTTT--AAATAAAATTTTGATTTTTTAATTATTTTAAA-TA
* *
30604468 AAAGTTTTAATTTTTAAATAAAGTTTTGATTTTTTAATTATTTTGAAATA
1 AAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTAATTATTTT-AAATA
*
30604518 AAAGTTTTAATTTTTAA
1 AAAGTTTAAATTTTTAA
30604535 GAAAAATAGT
Statistics
Matches: 160, Mismatches: 38, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
44 11 0.07
45 5 0.03
46 8 0.05
47 7 0.04
48 16 0.10
49 13 0.08
50 57 0.36
51 42 0.26
52 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (49 bp):
AAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTAATTATTTTAAATA
Found at i:30604533 original size:30 final size:30
Alignment explanation
Indices: 30604477--30604534 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
30604467 AAAAGTTTTA
* *
30604477 ATTTTTAAATAAAGTTTTGATTTTTTAATT
1 ATTTTGAAATAAAGTTTTGAATTTTTAATT
30604507 ATTTTGAAATAAAAGTTTT-AATTTTTAA
1 ATTTTGAAAT-AAAGTTTTGAATTTTTAA
30604535 GAAAAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (30 bp):
ATTTTGAAATAAAGTTTTGAATTTTTAATT
Found at i:30611997 original size:20 final size:21
Alignment explanation
Indices: 30611959--30612000 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30611949 TAGGATTTTG
* *
30611959 AAAAATTTAAACTTTAGATAA
1 AAAAATTTAAACGTAAGATAA
30611980 AAAAATTTAAA-GTAAGATAA
1 AAAAATTTAAACGTAAGATAA
30612000 A
1 A
30612001 TCATAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAAATTTAAACGTAAGATAA
Found at i:30612077 original size:3 final size:3
Alignment explanation
Indices: 30612069--30612106 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30612059 AAATCTCTTA
30612069 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
30612107 AAGATCGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30628162 original size:19 final size:19
Alignment explanation
Indices: 30628138--30628185 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
30628128 ATAGTTTTCA
30628138 TGCATTTTTATTTTATCAT
1 TGCATTTTTATTTTATCAT
*
30628157 TGCATTTTTATTTTGTCAT
1 TGCATTTTTATTTTATCAT
30628176 TGCATTTTTA
1 TGCATTTTTA
30628186 AGTTAGTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.10, G:0.08, T:0.62
Consensus pattern (19 bp):
TGCATTTTTATTTTATCAT
Found at i:30628789 original size:15 final size:15
Alignment explanation
Indices: 30628768--30628799 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30628758 AAGAAAAATG
30628768 AGAAAAACGAAGAAAA
1 AGAAAAA-GAAGAAAA
30628784 AGAAAAAGAAGAAAA
1 AGAAAAAGAAGAAAA
30628799 A
1 A
30628800 AATTTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAAA
Found at i:30630606 original size:18 final size:18
Alignment explanation
Indices: 30630583--30630619 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
30630573 CTAGTGACGT
30630583 TGCACCCATTCAAGTCGC
1 TGCACCCATTCAAGTCGC
30630601 TGCACCCATTCAAGTCGC
1 TGCACCCATTCAAGTCGC
30630619 T
1 T
30630620 TAACAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (18 bp):
TGCACCCATTCAAGTCGC
Found at i:30630731 original size:44 final size:44
Alignment explanation
Indices: 30630668--30630755 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
30630658 CGGTGACAAC
* *
30630668 CACAGTTATTAAGATTGTCCACAGCACGCGGAGAATTCTTTCTA
1 CACAGTTATGAAGATTGTCCACAGCACGCGGAGAATGCTTTCTA
*
30630712 CACAGTTATGGAGATTGTCCACAGCACGCGGAGAATGCTTTCTA
1 CACAGTTATGAAGATTGTCCACAGCACGCGGAGAATGCTTTCTA
30630756 TGTCAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
CACAGTTATGAAGATTGTCCACAGCACGCGGAGAATGCTTTCTA
Found at i:30648944 original size:52 final size:52
Alignment explanation
Indices: 30648864--30649205 Score: 438
Period size: 52 Copynumber: 6.6 Consensus size: 52
30648854 TAAATGAAAA
* *
30648864 AGGTTCGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* ** * *
30648916 AGGTTCGATGACTACATGTCATCATGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
30648968 AGGTCCGATGACTATGTGCCATCGTGAGTATATGAATCCTTTACGAATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * *
30649020 AGGTCTGATGACTACGTGTTATCGTGAGTATATGAGTCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
30649072 AGGTCCAATGACTATGTGTCATCGTGAGTATA-AAAGTCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAA-TCCTTTACGGATTATG
* * *
30649124 AGGTCCGATGATTATGTGTCATCGTGAGTATATG-ATCCCTCTACGGATTA-A
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAAT-CCTTTACGGATTATG
* * *
30649175 AGGTCTGCTGACTCTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
30649206 CAAATATGCA
Statistics
Matches: 252, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
51 29 0.12
52 223 0.88
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:30655332 original size:15 final size:14
Alignment explanation
Indices: 30655312--30655342 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
30655302 TTTAAAACGT
30655312 AACAAGTAAAAGTAA
1 AACAAGTAAAAG-AA
30655327 AACAAGTAAAAGAA
1 AACAAGTAAAAGAA
30655341 AA
1 AA
30655343 GGTGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.71, C:0.06, G:0.13, T:0.10
Consensus pattern (14 bp):
AACAAGTAAAAGAA
Found at i:30659353 original size:14 final size:14
Alignment explanation
Indices: 30659334--30659365 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
30659324 CATGGTCTTG
30659334 GTTCGAACTACTTA
1 GTTCGAACTACTTA
*
30659348 GTTCGAACTGCTTA
1 GTTCGAACTACTTA
30659362 GTTC
1 GTTC
30659366 AGCCGTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (14 bp):
GTTCGAACTACTTA
Found at i:30666247 original size:17 final size:17
Alignment explanation
Indices: 30666203--30666254 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
30666193 TAAATATATA
*
30666203 AATAGAAATGCAATGAC
1 AATAAAAATGCAATGAC
** * *
30666220 AATGTAGATGCAGTGAC
1 AATAAAAATGCAATGAC
30666237 AATAAAAATGCAATGAC
1 AATAAAAATGCAATGAC
30666254 A
1 A
30666255 TTAATAATGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (17 bp):
AATAAAAATGCAATGAC
Found at i:30666263 original size:17 final size:17
Alignment explanation
Indices: 30666209--30666263 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
30666199 TATAAATAGA
*
30666209 AATGCAATGACAAT-GT
1 AATGCAATGACAATAAT
* *
30666225 AGATGCAGTGACAATAAA
1 A-ATGCAATGACAATAAT
*
30666243 AATGCAATGACATTAAT
1 AATGCAATGACAATAAT
30666260 AATG
1 AATG
30666264 AGGGGACAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (17 bp):
AATGCAATGACAATAAT
Found at i:30673109 original size:26 final size:26
Alignment explanation
Indices: 30673049--30673109 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
30673039 AATTCTGGGC
* * *
30673049 ACAATTCTGGACTTGCTCATGCAGCG
1 ACAATTCTGGACATACTCACGCAGCG
* *
30673075 ACAACTCTGGACATATTCACGCAGCG
1 ACAATTCTGGACATACTCACGCAGCG
*
30673101 ATAATTCTG
1 ACAATTCTG
30673110 AACAAGTTCC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (26 bp):
ACAATTCTGGACATACTCACGCAGCG
Found at i:30674202 original size:19 final size:19
Alignment explanation
Indices: 30674178--30674235 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
30674168 AAAGTAAGGG
30674178 AAACTGGAACATAAAGTGC
1 AAACTGGAACATAAAGTGC
* **
30674197 AAACTGGAGCACGAAGTGC
1 AAACTGGAACATAAAGTGC
* * *
30674216 ATACTGGCACGTAAAGTGC
1 AAACTGGAACATAAAGTGC
30674235 A
1 A
30674236 TCTTATGGCA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.16
Consensus pattern (19 bp):
AAACTGGAACATAAAGTGC
Found at i:30689729 original size:35 final size:35
Alignment explanation
Indices: 30689689--30689759 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
30689679 AGTCTATTCT
*
30689689 CGAAGAATGAGAATTCTTGCAGAAATTCTCTAAGG
1 CGAAGAATGAGAATTCCTGCAGAAATTCTCTAAGG
* *
30689724 CGAAGAATGAGAATTCCTGGAGAAATTCTTTAAGG
1 CGAAGAATGAGAATTCCTGCAGAAATTCTCTAAGG
30689759 C
1 C
30689760 ACCAAAGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (35 bp):
CGAAGAATGAGAATTCCTGCAGAAATTCTCTAAGG
Found at i:30696683 original size:28 final size:26
Alignment explanation
Indices: 30696639--30696691 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
30696629 TTAAATTATT
*
30696639 TAAGTTTAAAATTTTAAGA-AAAAATG
1 TAAGTTTAAAATATTAA-ATAAAAATG
30696665 TAAGTTTACTAAATATTAAATAAAAAT
1 TAAGTTTA--AAATATTAAATAAAAAT
30696692 AAAATATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 8 0.35
27 1 0.04
28 14 0.61
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.36
Consensus pattern (26 bp):
TAAGTTTAAAATATTAAATAAAAATG
Found at i:30696698 original size:18 final size:19
Alignment explanation
Indices: 30696675--30696714 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
30696665 TAAGTTTACT
30696675 AAATATTAAATAA-AAATA
1 AAATATTAAATAATAAATA
**
30696693 AAATATTACTTAATAAATA
1 AAATATTAAATAATAAATA
30696712 AAA
1 AAA
30696715 AGAATTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATATTAAATAATAAATA
Found at i:30699264 original size:30 final size:30
Alignment explanation
Indices: 30699228--30699287 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30699218 TGGAGTGTCT
30699228 TTTATTAATAGTTCTAATTATATATACATA
1 TTTATTAATAGTTCTAATTATATATACATA
30699258 TTTATTAATAGTTCTAATTATATATACATA
1 TTTATTAATAGTTCTAATTATATATACATA
30699288 GCTGCAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTATTAATAGTTCTAATTATATATACATA
Found at i:30699641 original size:34 final size:34
Alignment explanation
Indices: 30699603--30699670 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
30699593 ACTGACATTA
30699603 ATATACAAATATATTTGGAAATGCAACTACAATG
1 ATATACAAATATATTTGGAAATGCAACTACAATG
30699637 ATATACAAATATATTTGGAAATGCAACTACAATG
1 ATATACAAATATATTTGGAAATGCAACTACAATG
30699671 CAAATGCGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (34 bp):
ATATACAAATATATTTGGAAATGCAACTACAATG
Found at i:30700084 original size:21 final size:21
Alignment explanation
Indices: 30700047--30700089 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
30700037 GACCTGATTC
* *
30700047 TCATCAAGTTGCGCCAGTTCT
1 TCATCAAGTTGCCCCAGATCT
30700068 TCATCAA-TTGCACCCAGATCT
1 TCATCAAGTTGC-CCCAGATCT
30700089 T
1 T
30700090 TGGGTGCGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (21 bp):
TCATCAAGTTGCCCCAGATCT
Found at i:30706144 original size:13 final size:14
Alignment explanation
Indices: 30706126--30706155 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30706116 GTCAATGCAA
30706126 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
30706139 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
30706153 TCA
1 TCA
30706156 ATATACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:30707071 original size:16 final size:16
Alignment explanation
Indices: 30707050--30707086 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
30707040 GACCAACTTG
30707050 TGGCTGCAACTCTGAA
1 TGGCTGCAACTCTGAA
30707066 TGGCTGCAACTCTGAA
1 TGGCTGCAACTCTGAA
30707082 TGGCT
1 TGGCT
30707087 TCAAGAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (16 bp):
TGGCTGCAACTCTGAA
Found at i:30720775 original size:6 final size:6
Alignment explanation
Indices: 30720761--30720843 Score: 62
Period size: 6 Copynumber: 13.8 Consensus size: 6
30720751 TGCGGGTATT
* * * * *
30720761 GAAGCA GAAGAA GAAGAA GAAGAA GAAGCA GAAGCA GAAAAA GGAA-AT
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA -GAAGAA
* * *
30720809 GAAGAA GAAAAA GAAG-A GGAGAAA GAAAAA GAAGA
1 GAAGAA GAAGAA GAAGAA GAAG-AA GAAGAA GAAGA
30720844 TGATGTTGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
5 7 0.11
6 48 0.79
7 6 0.10
ACGTcount: A:0.64, C:0.04, G:0.31, T:0.01
Consensus pattern (6 bp):
GAAGAA
Found at i:30720787 original size:18 final size:18
Alignment explanation
Indices: 30720766--30720843 Score: 79
Period size: 18 Copynumber: 4.3 Consensus size: 18
30720756 GTATTGAAGC
*
30720766 AGAAGAAGAAGAAGAAGA
1 AGAAGAAGAAGAAGAAAA
* *
30720784 AGAAGCAGAAGCAGAAAA
1 AGAAGAAGAAGAAGAAAA
*
30720802 AGGAA-ATGAAGAAGAAAA
1 A-GAAGAAGAAGAAGAAAA
*
30720820 AGAAG-AGGAGAAAGAAAA
1 AGAAGAAGAAG-AAGAAAA
30720838 AGAAGA
1 AGAAGA
30720844 TGATGTTGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
17 6 0.12
18 39 0.81
19 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.31, T:0.01
Consensus pattern (18 bp):
AGAAGAAGAAGAAGAAAA
Found at i:30742777 original size:39 final size:39
Alignment explanation
Indices: 30742734--30742843 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 39
30742724 ACTGAGGTAT
*
30742734 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGG
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGC
* ** ** *
30742773 ATTTTGCTTAAAACTGCCAGATTGAGAATATGGAGATGC
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGC
**
30742812 ATCCTGCTGAAAACTGCTTGAGCGAGAATAGG
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGG
30742844 ACTTCGGGTT
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (39 bp):
ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGC
Found at i:30748094 original size:11 final size:11
Alignment explanation
Indices: 30748066--30748136 Score: 52
Period size: 11 Copynumber: 6.1 Consensus size: 11
30748056 ATTTTTTCAC
*
30748066 TATTATGTTGT
1 TATTATTTTGT
30748077 TATTATTTTGT
1 TATTATTTTGT
*
30748088 TATTATTATTTAGA
1 TATTA-T-TTT-GT
* **
30748102 TATTATATAAT
1 TATTATTTTGT
*
30748113 TATTATTTTAT
1 TATTATTTTGT
30748124 TATTAATTTTGT
1 TATT-ATTTTGT
30748136 T
1 T
30748137 GCTATTTTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
11 28 0.60
12 9 0.19
13 4 0.09
14 6 0.13
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (11 bp):
TATTATTTTGT
Found at i:30749117 original size:20 final size:19
Alignment explanation
Indices: 30749082--30749173 Score: 58
Period size: 20 Copynumber: 4.6 Consensus size: 19
30749072 ATTTTAAGAT
* *
30749082 CAAGTTAAAATGATTTTAAA
1 CAAGTCAAAAT-AATTTAAA
* * *
30749102 CATGTCAAAATAATTTGAC
1 CAAGTCAAAATAATTTAAA
* *
30749121 CTAAGTCAAAATCATTTCAA
1 C-AAGTCAAAATAATTTAAA
** *
30749141 CACTTCAAAATATTTTTCAAA
1 CAAGTCAAAATA-ATTT-AAA
30749162 CAAGTCAAAATA
1 CAAGTCAAAATA
30749174 GCTTCACCCC
Statistics
Matches: 53, Mismatches: 16, Indels: 5
0.72 0.22 0.07
Matches are distributed among these distances:
19 14 0.26
20 27 0.51
21 12 0.23
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (19 bp):
CAAGTCAAAATAATTTAAA
Found at i:30757163 original size:2 final size:2
Alignment explanation
Indices: 30757156--30757194 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
30757146 TCATTTTATT
30757156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30757195 TGTGATGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30764143 original size:18 final size:18
Alignment explanation
Indices: 30764103--30764144 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
30764093 GAATTAAAAT
*
30764103 ATTAATTAAACTAATTAA
1 ATTAATTAAACTAATAAA
*
30764121 ATTAATTAATCTAA-AAA
1 ATTAATTAAACTAATAAA
30764138 ACTTAAT
1 A-TTAAT
30764145 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAATTAAACTAATAAA
Found at i:30767064 original size:16 final size:17
Alignment explanation
Indices: 30767043--30767075 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30767033 AACATTTAAA
30767043 AAACAT-AGAGCTCACC
1 AAACATAAGAGCTCACC
30767059 AAACATGAAGAGCTCAC
1 AAACAT-AAGAGCTCAC
30767076 AAAAAACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.12
Consensus pattern (17 bp):
AAACATAAGAGCTCACC
Found at i:30767150 original size:13 final size:13
Alignment explanation
Indices: 30767115--30767148 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
30767105 AGAGAGCTCG
30767115 CATAAAAACATAT
1 CATAAAAACATAT
*
30767128 CTTAAAAACATAAT
1 CATAAAAACAT-AT
30767142 CATAAAA
1 CATAAAA
30767149 CAGAGTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.24
Consensus pattern (13 bp):
CATAAAAACATAT
Found at i:30772157 original size:13 final size:13
Alignment explanation
Indices: 30772125--30772179 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
30772115 CCTTTAATTG
30772125 TTGACCGTTGACT
1 TTGACCGTTGACT
*
30772138 ATTGACTGTTGACT
1 -TTGACCGTTGACT
* *
30772152 TTGACTGTTGGCT
1 TTGACCGTTGACT
30772165 TTGACCGTTGACT
1 TTGACCGTTGACT
30772178 TT
1 TT
30772180 TTTTGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
13 25 0.68
14 12 0.32
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.44
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:30773389 original size:6 final size:6
Alignment explanation
Indices: 30773378--30773402 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30773368 CCTAAAATTA
30773378 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
30773403 GTGAATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:30777083 original size:18 final size:18
Alignment explanation
Indices: 30777059--30777102 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30777049 AGAATGAATT
30777059 TTTAATTAAATAAATTTAA
1 TTTAATTAAA-AAATTTAA
* *
30777078 -TTAATTGAAAATTTTAA
1 TTTAATTAAAAAATTTAA
30777095 TTTAATTA
1 TTTAATTA
30777103 CAACTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTAATTAAAAAATTTAA
Found at i:30778297 original size:21 final size:21
Alignment explanation
Indices: 30778251--30778307 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
30778241 ACAGTGTAGA
*
30778251 CTTCTACCGATACCTATGACAG
1 CTTCTACCGATA-CAATGACAG
30778273 -TTCTACCGATACAAGTGA-AG
1 CTTCTACCGATACAA-TGACAG
*
30778293 CTTCTACCGAAACAA
1 CTTCTACCGATACAA
30778308 ATTATGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (21 bp):
CTTCTACCGATACAATGACAG
Found at i:30779128 original size:52 final size:52
Alignment explanation
Indices: 30779063--30779561 Score: 674
Period size: 52 Copynumber: 9.6 Consensus size: 52
30779053 TTCTCATTTA
* * * **
30779063 ATACTCACAATGACACATAATCATCGGATCTCATAATTTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * * * *
30779115 ATACTCACGATGACACATAATTATTGAACCTCATAATCCATAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
30779167 TTACTCATGATGACACACAGTCATCGGACCTCATAATCCGTAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
30779219 ATACTTATGATGACACATAGTCATCAGACCTCGTAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
30779271 ATACTCACGATAACACATAGTCATTGGACCTCGTAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
30779323 ATACTCACGATGACACATAGTCATCAGACCTCGTAATCCGTAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
30779375 ATACTCACGATGACACATAATCATTGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
30779427 ATACTCACGATGACACATAGTCATCGAACCTCATAATCCATAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
30779479 ATACTCACGACGACACATAGTCATCAGACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
30779531 ATACTCACTATGACACAGAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
30779562 GTTGCATTTA
Statistics
Matches: 391, Mismatches: 56, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 391 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:30781538 original size:22 final size:22
Alignment explanation
Indices: 30781486--30781530 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30781476 ACTTTTTGAC
30781486 TATGGTTTAGTTACCACTTTGG
1 TATGGTTTAGTTACCACTTTGG
30781508 TATGGTTTAGTTACCACTTTGG
1 TATGGTTTAGTTACCACTTTGG
30781530 T
1 T
30781531 CCTTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.13, G:0.22, T:0.47
Consensus pattern (22 bp):
TATGGTTTAGTTACCACTTTGG
Found at i:30784460 original size:6 final size:6
Alignment explanation
Indices: 30784449--30784474 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30784439 TGGAATTTCA
30784449 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
30784475 AGGTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:30791110 original size:25 final size:26
Alignment explanation
Indices: 30791082--30791138 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
30791072 TCTCTCCTAA
30791082 TTTTTAATTT-GTTTAAATTATTAAC
1 TTTTTAATTTAGTTTAAATTATTAAC
* * *
30791107 TTTTTAATTTATTTTAAATTGTTAAT
1 TTTTTAATTTAGTTTAAATTATTAAC
30791133 TTTTTA
1 TTTTTA
30791139 TACTAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTTTAATTTAGTTTAAATTATTAAC
Found at i:30791118 original size:16 final size:17
Alignment explanation
Indices: 30791079--30791119 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
30791069 AAATCTCTCC
*
30791079 TAATTT-TTAATTTGTT
1 TAATTTATTAACTTGTT
*
30791095 TAAATTATTAACTT-TT
1 TAATTTATTAACTTGTT
30791111 TAATTTATT
1 TAATTTATT
30791120 TTAAATTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TAATTTATTAACTTGTT
Found at i:30792017 original size:3 final size:3
Alignment explanation
Indices: 30792009--30792046 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30791999 TGAAGATCCT
30792009 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
30792047 TCTTGAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:30793383 original size:20 final size:20
Alignment explanation
Indices: 30793358--30793398 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
30793348 ATGATGCTCA
30793358 GAAAAA-AAAAAGAGAGAAAAT
1 GAAAAAGAAAAA-AG-GAAAAT
30793379 GAAAAAGAAAAAAGGAAAAT
1 GAAAAAGAAAAAAGGAAAAT
30793399 ATAGAGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (20 bp):
GAAAAAGAAAAAAGGAAAAT
Found at i:30795932 original size:35 final size:35
Alignment explanation
Indices: 30795877--30795943 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
30795867 CAACCAATGT
* *
30795877 AACCCTACTAGTGCGTTCGTTAAAAAAACCCTTAC
1 AACCCTACGAGTGCATTCGTTAAAAAAACCCTTAC
*
30795912 AACCGTACGAGTGCATTCGTTAAAAAAACCCT
1 AACCCTACGAGTGCATTCGTTAAAAAAACCCT
30795944 CACGACCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (35 bp):
AACCCTACGAGTGCATTCGTTAAAAAAACCCTTAC
Found at i:30796546 original size:19 final size:20
Alignment explanation
Indices: 30796503--30796561 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
30796493 ACCAACTTTG
* * *
30796503 TTAATTAGGATTAATGTTAAC
1 TTAATTAAGATTAA-ATTAAA
*
30796524 TTAATTATG-TTAAATTAAA
1 TTAATTAAGATTAAATTAAA
30796543 TTAATTAAGATTAAATTAA
1 TTAATTAAGATTAAATTAA
30796562 TTATAAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 12 0.36
20 13 0.39
21 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (20 bp):
TTAATTAAGATTAAATTAAA
Found at i:30796561 original size:15 final size:14
Alignment explanation
Indices: 30796533--30796564 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
30796523 CTTAATTATG
30796533 TTAAATTAAATTAA
1 TTAAATTAAATTAA
30796547 TTAAGATTAAATTAA
1 TTAA-ATTAAATTAA
30796562 TTA
1 TTA
30796565 TAAACTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
TTAAATTAAATTAA
Found at i:30800615 original size:29 final size:28
Alignment explanation
Indices: 30800582--30800844 Score: 152
Period size: 30 Copynumber: 8.9 Consensus size: 28
30800572 AGGAATTTGG
* *
30800582 GGTCAAAATGTGATTTTGGGAAGTTTGAA
1 GGTCAAAATGTAATTTTGGAAAGTTT-AA
* * ** *
30800611 GGTCAAAATAG-GA-TTTCGAGAAGTCCGAG
1 GGTCAAAAT-GTAATTTTGGA-AAGT-TTAA
* *
30800640 GGTTAAAATATAATTTTGGAAAAGTTTAGA
1 GGTCAAAATGTAATTTTGG-AAAGTTTA-A
* * *
30800670 GGTTAAAATGCAATTTTGGAAAAGTTTAG
1 GGTCAAAATGTAATTTTGG-AAAGTTTAA
*
30800699 GGATCAAAATGCAATTTTGGAAAGTTTAA
1 GG-TCAAAATGTAATTTTGGAAAGTTTAA
*
30800728 GGGTCAAAATGTAATTTTGGAAAAGTTTAGG
1 -GGTCAAAATGTAATTTTGG-AAAGTTTA-A
* * *
30800759 GGTTAAAATGTAATTTTAGAAAAGTTTTAG
1 GGTCAAAATGTAATTTT-GGAAAG-TTTAA
* ** * *
30800789 GGTTAAAATCAAATTTTTGAAAAGTTTAGG
1 GGTCAAAATGTAA-TTTTGGAAAGTTTA-A
* *
30800819 GGTCTAAATATAATTTTTGGAAAGTT
1 GGTCAAAATGTAA-TTTTGGAAAGTT
30800845 CAGGGACCCT
Statistics
Matches: 191, Mismatches: 28, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
28 4 0.02
29 56 0.29
30 121 0.63
31 10 0.05
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (28 bp):
GGTCAAAATGTAATTTTGGAAAGTTTAA
Found at i:30800676 original size:30 final size:29
Alignment explanation
Indices: 30800638--30800849 Score: 232
Period size: 30 Copynumber: 7.1 Consensus size: 29
30800628 GAGAAGTCCG
*
30800638 AGGGTTAAAATATAATTTTGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
*
30800667 AGAGGTTAAAATGCAATTTTGGAAAAGTTT
1 AG-GGTTAAAATGTAATTTTGGAAAAGTTT
* *
30800697 AGGGATCAAAATGCAATTTTGG-AAAGTTT
1 AGGG-TTAAAATGTAATTTTGGAAAAGTTT
*
30800726 AAGGGTCAAAATGTAATTTTGGAAAAGTTT
1 -AGGGTTAAAATGTAATTTTGGAAAAGTTT
*
30800756 AGGGGTTAAAATGTAATTTTAGAAAAGTTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAG-TTT
** *
30800787 AGGGTTAAAATCAAATTTTTGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
* *
30800816 AGGGGTCT-AAATATAATTTTTGG-AAAGTTC
1 A-GGGT-TAAAATGTAA-TTTTGGAAAAGTTT
30800846 AGGG
1 AGGG
30800850 ACCCTTTGAG
Statistics
Matches: 161, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
29 35 0.22
30 116 0.72
31 10 0.06
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (29 bp):
AGGGTTAAAATGTAATTTTGGAAAAGTTT
Found at i:30800797 original size:89 final size:90
Alignment explanation
Indices: 30800638--30800849 Score: 279
Period size: 89 Copynumber: 2.4 Consensus size: 90
30800628 GAGAAGTCCG
* * *
30800638 AGGGTTAAAATATAATTTTGGAAAAGTTTAGAGGTTAAAATGCAATTTTGGAAAAGTTTAGGGAT
1 AGGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATGCAATTTTAGAAAAGTTTAGGGAT
*
30800703 CAAAATGC-AA-TTTTGGAAAGTTTA
66 CAAAAT-CAAATTTTTGAAAAGTTTA
* *
30800727 AGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTTAGGG-
1 AGGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATGCAATTTTAGAAAAG-TTTAGGGA
*
30800791 TTAAAATCAAATTTTTGAAAAGTTTA
65 TCAAAATCAAATTTTTGAAAAGTTTA
* * *
30800817 GGGGTCTAAATATAATTTTTGG-AAAGTTCAGGG
1 AGGGTCAAAATATAA-TTTTGGAAAAGTTTAGGG
30800850 ACCCTTTGAG
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
88 1 0.01
89 59 0.55
90 42 0.39
91 6 0.06
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (90 bp):
AGGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATGCAATTTTAGAAAAGTTTAGGGAT
CAAAATCAAATTTTTGAAAAGTTTA
Found at i:30804968 original size:16 final size:16
Alignment explanation
Indices: 30804943--30804975 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30804933 GACTTTTTCC
30804943 TTTTTCTTATGAAGAGA
1 TTTTTCTTATGAA-AGA
30804960 TTTTT-TTATGAAAGA
1 TTTTTCTTATGAAAGA
30804975 T
1 T
30804976 CAGACTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTTTCTTATGAAAGA
Found at i:30808679 original size:26 final size:26
Alignment explanation
Indices: 30808637--30808686 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
30808627 AATAATGACA
30808637 ATTTAAATATTTCGTGATTTTATTAC
1 ATTTAAATATTTCGTGATTTTATTAC
30808663 ATTTAAATTATTT-GTGATTTTATT
1 ATTTAAA-TATTTCGTGATTTTATT
30808687 GTTACTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (26 bp):
ATTTAAATATTTCGTGATTTTATTAC
Found at i:30809044 original size:16 final size:16
Alignment explanation
Indices: 30809025--30809062 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
30809015 AGAATACGAC
*
30809025 TGTAATGAAATAGAGA
1 TGTAATGAAATAAAGA
*
30809041 TGTAATGAAATAAAGT
1 TGTAATGAAATAAAGA
30809057 TGTAAT
1 TGTAAT
30809063 CAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (16 bp):
TGTAATGAAATAAAGA
Found at i:30809386 original size:21 final size:22
Alignment explanation
Indices: 30809351--30809401 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
30809341 ATGTGTCTTG
*
30809351 AAATGAAACTAAAAT-GTAACC
1 AAATGAAACTAAAATGGAAACC
* *
30809372 AAATGAAAGTTAAATGGAAACC
1 AAATGAAACTAAAATGGAAACC
*
30809394 TAATGAAA
1 AAATGAAA
30809402 AACGTAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.20
Consensus pattern (22 bp):
AAATGAAACTAAAATGGAAACC
Found at i:30811460 original size:61 final size:58
Alignment explanation
Indices: 30811395--30811544 Score: 169
Period size: 61 Copynumber: 2.5 Consensus size: 58
30811385 TTTTAATAAG
* *
30811395 ATTATTATTAAATATATTTTAATAAAAATAAAATTAAATAATTTAATCATATT-ATAATATA
1 ATTATTATTAAATATATTTTAAT-AAAATAAAATT---TAATTTAATAACATTCATAATATA
* * * *
30811456 ATTATTATTAAATACAATTTAATAAAATAATATTTAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATATTTTAATAAAATAAAATTTAATTTAATAACATTCATAATATA
*
30811514 ATTATTATTAAA-ATATGAATTAATAAAATAA
1 ATTATTATTAAATATAT--TTTAATAAAATAA
30811545 TATATAACCT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
57 15 0.19
58 19 0.25
59 12 0.16
60 10 0.13
61 21 0.27
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATATATTTTAATAAAATAAAATTTAATTTAATAACATTCATAATATA
Found at i:30811528 original size:29 final size:27
Alignment explanation
Indices: 30811449--30811525 Score: 75
Period size: 32 Copynumber: 2.7 Consensus size: 27
30811439 AATCATATTA
30811449 TAATATAATTATTATTAAAT-ACAATT
1 TAATATAATTATTATTAAATAACAATT
* * *
30811475 TAATAAAATAATATTTAATTTAATAACATTCT
1 TAATATAAT--TA-TT-ATTAAATAACAAT-T
30811507 TAATATAATTATTATTAAA
1 TAATATAATTATTATTAAA
30811526 ATATGAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
26 8 0.20
28 7 0.17
29 4 0.10
30 8 0.20
31 4 0.10
32 9 0.22
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATATAATTATTATTAAATAACAATT
Found at i:30812426 original size:2 final size:2
Alignment explanation
Indices: 30812419--30812446 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30812409 GTATTAAAAG
30812419 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30812447 AGTGCTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30814417 original size:23 final size:23
Alignment explanation
Indices: 30814391--30814488 Score: 99
Period size: 23 Copynumber: 4.2 Consensus size: 23
30814381 ACAATAGCGC
30814391 GCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTATGTGT
* * **
30814414 GCTCTCTGTTTAGCACGTCT-CAT
1 GCTCTCTGATTAGCAC-TATGTGT
*
30814437 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTATGTGT
* *
30814462 GCTCTCCGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTATGTGT
30814485 GCTC
1 GCTC
30814489 AGTACTTTGT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
23 42 0.69
24 4 0.07
25 15 0.25
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTATGTGT
Found at i:30818616 original size:22 final size:22
Alignment explanation
Indices: 30818564--30818643 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
30818554 GCTAGGGAAA
*
30818564 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
*
30818586 CTAGTAGGCATACACAGTGCAAT
1 C-AGTAGGCACACACAGTGCAAT
* * *
30818609 CAGTAGGCGCACATAGCGCAACT
1 CAGTAGGCACACACAGTGCAA-T
*
30818632 CAGTGGGCACAC
1 CAGTAGGCACAC
30818644 GAGGTGCGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 17 0.35
23 31 0.65
ACGTcount: A:0.34, C:0.28, G:0.24, T:0.15
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:30818664 original size:23 final size:23
Alignment explanation
Indices: 30818638--30818685 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
30818628 AACTCAGTGG
*
30818638 GCACACGAGGTGCGAAACAGTAA
1 GCACACGAAGTGCGAAACAGTAA
*
30818661 GCACACGAAGTGCGAAATAGTAA
1 GCACACGAAGTGCGAAACAGTAA
30818684 GC
1 GC
30818686 GTGCTAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.29, T:0.10
Consensus pattern (23 bp):
GCACACGAAGTGCGAAACAGTAA
Found at i:30832079 original size:17 final size:17
Alignment explanation
Indices: 30832054--30832095 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
30832044 TTTATTAATT
* *
30832054 CATATAATGAATGGAAC
1 CATACAATGAATCGAAC
30832071 CATACAATGAATCGAAC
1 CATACAATGAATCGAAC
30832088 CATACAAT
1 CATACAAT
30832096 TTAGGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (17 bp):
CATACAATGAATCGAAC
Found at i:30834592 original size:31 final size:29
Alignment explanation
Indices: 30834552--30834618 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 29
30834542 ATTTTAAAAT
*
30834552 TATACATGAATTTTAATTTAATATGTAATTA
1 TATACATGAATTTTAATTT--GATGTAATTA
*
30834583 TATATATGAATTTTAATTTGATGTAATTA
1 TATACATGAATTTTAATTTGATGTAATTA
30834612 TATACAT
1 TATACAT
30834619 AAAACTCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.45
31 18 0.55
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (29 bp):
TATACATGAATTTTAATTTGATGTAATTA
Found at i:30834647 original size:31 final size:30
Alignment explanation
Indices: 30834612--30834679 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
30834602 GATGTAATTA
30834612 TATACATAAAACTCTAATTGTGATTCAAATC
1 TATACATAAAACTCTAATTGTGATT-AAATC
* * * *
30834643 TATACGTAAAACTTTAATTTTGATTTAATC
1 TATACATAAAACTCTAATTGTGATTAAATC
30834673 -ATACATA
1 TATACATA
30834680 TTTAAAGAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 6 0.19
30 4 0.12
31 22 0.69
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (30 bp):
TATACATAAAACTCTAATTGTGATTAAATC
Found at i:30835160 original size:44 final size:44
Alignment explanation
Indices: 30835073--30835161 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
30835063 ACTCTAAGCT
* * * *
30835073 TAAAATTTGTGATAATTATACATTTGAAAGTATTGTTTATTTAA
1 TAAAAGTTGTGATAATTACACATTTGAAAGAATAGTTTATTTAA
30835117 TAAAAGTTGTGATAATTACACATTT-AAA-AATAGTTATACTTTAA
1 TAAAAGTTGTGATAATTACACATTTGAAAGAATAGTT-TA-TTTAA
30835161 T
1 T
30835162 TTATAACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 5 0.13
43 5 0.13
44 29 0.74
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (44 bp):
TAAAAGTTGTGATAATTACACATTTGAAAGAATAGTTTATTTAA
Found at i:30835297 original size:44 final size:43
Alignment explanation
Indices: 30835244--30835329 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
30835234 ACAATATAGA
* *
30835244 AAATTTGTGACAATTATACATTTAAAAGTATTTATAATTTAAC
1 AAATTTGTGACAATTACACATTTAAAAGTAATTATAATTTAAC
* *
30835287 AAATGTTGTGATAATTACACATTTAAACGTAATTATAATTTAA
1 AAAT-TTGTGACAATTACACATTTAAAAGTAATTATAATTTAA
30835330 TTTACACCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 4 0.11
44 34 0.89
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (43 bp):
AAATTTGTGACAATTACACATTTAAAAGTAATTATAATTTAAC
Found at i:30835297 original size:169 final size:168
Alignment explanation
Indices: 30834985--30835414 Score: 513
Period size: 169 Copynumber: 2.6 Consensus size: 168
30834975 AAGTTGTGAG
* * * * * *
30834985 AAAATATTTATATTTTAATTTACAATTATCAATT-AAAAAA-TTGTGCTAGTTATAAAATAGAGT
1 AAAATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTGTGCTAATTATAAAATAGAGT
* * * * *
30835048 TAATACTGGAACAAAACTCTAAG----C--T-T-AAAATTTGTGATAATTATACATTTGAAAGTA
66 TATTACTTGAACAGAACTCTAAGTATACAATATAAAAATTTGTGACAATTATACATTTAAAAGTA
* *
30835105 TTGTTTATTTAATAAAAGTTGTGATAATTACACATTTA
131 TTGTTAATTTAACAAAAGTTGTGATAATTACACATTTA
* * * *
30835143 AAAATAGTTATACTTTAATTTATAACTATTAGTTAAAAAAAGTTGTGCTAATTATAAACTAGAGT
1 AAAATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTGTGCTAATTATAAAATAGAGT
30835208 TATTACTTGAACAGAACTCTAAGTATACAATATAGAAAATTTGTGACAATTATACATTTAAAAGT
66 TATTACTTGAACAGAACTCTAAGTATACAATATA-AAAATTTGTGACAATTATACATTTAAAAGT
*
30835273 ATT-TATAATTTAACAAATGTTGTGATAATTACACATTTA
130 ATTGT-TAATTTAACAAAAGTTGTGATAATTACACATTTA
** * * *
30835312 AACGTAATTATAATTTAATTTACACCTATTAGTTAAAAAAAGTTATGCTAACTATAAAATAGAGT
1 AAAATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTGTGCTAATTATAAAATAGAGT
* * * * *
30835377 TATTACTTAAATAGGACTCCAAGTATAAAATATAAAAA
66 TATTACTTGAACAGAACTCTAAGTATACAATATAAAAA
30835415 CAGGTCATGA
Statistics
Matches: 230, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
158 28 0.12
159 6 0.03
160 41 0.18
164 1 0.00
166 1 0.00
167 1 0.00
168 5 0.02
169 147 0.64
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (168 bp):
AAAATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTGTGCTAATTATAAAATAGAGT
TATTACTTGAACAGAACTCTAAGTATACAATATAAAAATTTGTGACAATTATACATTTAAAAGTA
TTGTTAATTTAACAAAAGTTGTGATAATTACACATTTA
Found at i:30838735 original size:20 final size:20
Alignment explanation
Indices: 30838712--30838751 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30838702 CTTTAAACAA
30838712 TTTTAACTCAAGTGAAAAAATT
1 TTTTAA-TCAAGTGAAAAAA-T
30838734 TTTTAATCAAGTGAAAAA
1 TTTTAATCAAGTGAAAAA
30838752 CTTCTTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (20 bp):
TTTTAATCAAGTGAAAAAAT
Found at i:30843687 original size:24 final size:23
Alignment explanation
Indices: 30843658--30843703 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
30843648 ACCCTCTTCC
* *
30843658 TTGTGCTTCTTCTTCTTTTTATCT
1 TTGTGCCTCTTCCT-TTTTTATCT
30843682 TTGTGCCTCTTCCTTTTTTATC
1 TTGTGCCTCTTCCTTTTTTATC
30843704 CGTTGAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.04, C:0.24, G:0.09, T:0.63
Consensus pattern (23 bp):
TTGTGCCTCTTCCTTTTTTATCT
Found at i:30849024 original size:42 final size:42
Alignment explanation
Indices: 30848962--30849050 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
30848952 GATGTTGCCA
* ** *
30848962 TGTAACATCTGTGTTTTTGAACCGGAGTTGGAATAGTAATAG
1 TGTAACATCTGCGTGCTTGAACCGGAGTTGGAACAGTAATAG
* * *
30849004 TGTAACATCTGCGTGCTTGAATCGGATTTGGAACAGTGATAG
1 TGTAACATCTGCGTGCTTGAACCGGAGTTGGAACAGTAATAG
*
30849046 AGTAA
1 TGTAA
30849051 AATTGAGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAACATCTGCGTGCTTGAACCGGAGTTGGAACAGTAATAG
Found at i:30863833 original size:66 final size:66
Alignment explanation
Indices: 30863745--30863953 Score: 310
Period size: 66 Copynumber: 3.2 Consensus size: 66
30863735 CTTACAACTT
* *
30863745 CTATCGATACAAGTATACTAACTACCGATACATCAATGTACACAACTATCGATACTTGAAATTTA
1 CTATCGATACAAGCATACTAACTACAGATACATCAATGTACACAACTATCGATACTTGAAATTTA
30863810 A
66 A
* * *
30863811 CTATTGATACAAGCATACTAACTACAAATACATCAATGTACATAACTATCGATACTTGAAATTTA
1 CTATCGATACAAGCATACTAACTACAGATACATCAATGTACACAACTATCGATACTTGAAATTTA
30863876 A
66 A
* * * * * *
30863877 CTACCAATACATGCATACTAACTACTGATACATCAATGTACACAACTACCAATACTTGAAATTTA
1 CTATCGATACAAGCATACTAACTACAGATACATCAATGTACACAACTATCGATACTTGAAATTTA
30863942 A
66 A
*
30863943 CTACCGATACA
1 CTATCGATACA
30863954 GCCCAAGTCA
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 128 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (66 bp):
CTATCGATACAAGCATACTAACTACAGATACATCAATGTACACAACTATCGATACTTGAAATTTA
A
Found at i:30864552 original size:24 final size:23
Alignment explanation
Indices: 30864536--30864615 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 23
30864526 AGCTCACGCA
30864536 AGCCCAGAATGGTTAGCTCTTACG
1 AGCCCAGAATGGTTAGCTC-TACG
*
30864560 AGCCCAGAATGGTTAGCTCTTATG
1 AGCCCAGAATGGTTAGCTC-TACG
** * *
30864584 AGCTTAGAATGGTTAGCACTTATG
1 AGCCCAGAATGGTTAGCTC-TACG
30864608 AGCCCAGA
1 AGCCCAGA
30864616 CAGAGTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (23 bp):
AGCCCAGAATGGTTAGCTCTACG
Found at i:30867596 original size:21 final size:20
Alignment explanation
Indices: 30867572--30867616 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30867562 ATATAACATA
* *
30867572 TATTCCATTTATGCTTGTTTT
1 TATT-CATTTATACTTGGTTT
*
30867593 TATTCTTTTATACTTGGTTT
1 TATTCATTTATACTTGGTTT
30867613 TATT
1 TATT
30867617 TATTATCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (20 bp):
TATTCATTTATACTTGGTTT
Found at i:30867602 original size:20 final size:20
Alignment explanation
Indices: 30867579--30867616 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30867569 ATATATTCCA
* *
30867579 TTTATGCTTGTTTTTATTCT
1 TTTATACTTGGTTTTATTCT
30867599 TTTATACTTGGTTTTATT
1 TTTATACTTGGTTTTATT
30867617 TATTATCAAT
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:0.13, C:0.08, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTATACTTGGTTTTATTCT
Found at i:30871492 original size:78 final size:77
Alignment explanation
Indices: 30871352--30871606 Score: 271
Period size: 78 Copynumber: 3.2 Consensus size: 77
30871342 ATTTTATAAT
* * * *
30871352 AATTAATTTAATAATTCTGCTTCGGGATTTATTCCTGTCGTTCAACAGAATTGATTTGGATTTTG
1 AATTAATTAAATAATTCTGTTTCGGGATTTATTCCCGTCGTTCAACAGAATTGATTTGGATTTAG
*
30871417 TTTCCAAATTAAG
66 TTTCCAAA-CAAG
* * * ** *
30871430 AATTAATTGAATAATTTTGTTTCGGAATTTATTCCCGTCGTTCAACAGCTTTTATTCT-GATTTA
1 AATTAATTAAATAATTCTGTTTCGGGATTTATTCCCGTCGTTCAACAGAATTGATT-TGGATTTA
30871494 GTTTCCAAACAAG
65 GTTTCCAAACAAG
* *
30871507 AATTAAAATTAAATAATTCTGTTTCGGGATTTATTCTCGACGTTCAACA-AATTTGATTTGATCT
1 AATT--AATTAAATAATTCTGTTTCGGGATTTATTCCCGTCGTTCAACAGAA-TTGATTTG----
30871571 TGATTTAGTTTCCAAACAAAG
59 -GATTTAGTTTCCAAAC-AAG
*
30871592 AATTAATTAATTAAT
1 AATTAATTAAATAAT
30871607 CCTGCTGTTC
Statistics
Matches: 147, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
77 7 0.05
78 63 0.43
79 44 0.30
83 10 0.07
84 16 0.11
85 7 0.05
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (77 bp):
AATTAATTAAATAATTCTGTTTCGGGATTTATTCCCGTCGTTCAACAGAATTGATTTGGATTTAG
TTTCCAAACAAG
Found at i:30873728 original size:30 final size:30
Alignment explanation
Indices: 30873692--30873753 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
30873682 TAAAAAACTA
*
30873692 TCCTACAACCACTTGAAAATCTGAGGGGTG
1 TCCTACAACCACTTGAAAATCTAAGGGGTG
*
30873722 TCCTACAACCACTTGAAAATGTAAGGGGTG
1 TCCTACAACCACTTGAAAATCTAAGGGGTG
30873752 TC
1 TC
30873754 TTTCTAACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (30 bp):
TCCTACAACCACTTGAAAATCTAAGGGGTG
Found at i:30883192 original size:166 final size:166
Alignment explanation
Indices: 30882908--30883241 Score: 571
Period size: 166 Copynumber: 2.0 Consensus size: 166
30882898 GATGAAGTTG
* *
30882908 ACAAAACAGAGGTGGAGGTTTGAACCTGTATCTTTGTAGAAACGAGGCGAGATCTCATTGATCTG
1 ACAAAACAGAGGTGAAGGTTTGAACCTGTATCTCTGTAGAAACGAGGCGAGATCTCATTGATCTG
*
30882973 CTTCAAGAGTTCAAGGATCTGTTTGCATGGTCCTATTAGGATATGCTCGGTCTAAGCACTGATAT
66 CTTCAAGAGTTCAAGGATCTGTTTGCATGGTCCTATTAGAATATGCTCGGTCTAAGCACTGATAT
*
30883038 CGTAGTGTACAAGCTCCCTATAAGAGAAGAATGTTA
131 CGTAGTGTACAAGCTCCCTATAAGAGAAGAATATTA
* *
30883074 ACAAAACGGAGGTGAAGGTTTGAACCTGTATCTCTGTAGAAACGAGGTGAGATCTCATTGATCTG
1 ACAAAACAGAGGTGAAGGTTTGAACCTGTATCTCTGTAGAAACGAGGCGAGATCTCATTGATCTG
* * *
30883139 CTTTAAGAGTTCAAGGATGTGTTTGCATGGTCCTATTAGAATATG-TCCGGTCTAAGTACTGATA
66 CTTCAAGAGTTCAAGGATCTGTTTGCATGGTCCTATTAGAATATGCT-CGGTCTAAGCACTGATA
30883203 TCGTAGTGTACAAGCTCCCTATAAGAGAAGAATATTA
130 TCGTAGTGTACAAGCTCCCTATAAGAGAAGAATATTA
30883240 AC
1 AC
30883242 TGGTCCAATA
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
165 1 0.01
166 157 0.99
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (166 bp):
ACAAAACAGAGGTGAAGGTTTGAACCTGTATCTCTGTAGAAACGAGGCGAGATCTCATTGATCTG
CTTCAAGAGTTCAAGGATCTGTTTGCATGGTCCTATTAGAATATGCTCGGTCTAAGCACTGATAT
CGTAGTGTACAAGCTCCCTATAAGAGAAGAATATTA
Found at i:30887468 original size:39 final size:40
Alignment explanation
Indices: 30887357--30887608 Score: 160
Period size: 39 Copynumber: 6.3 Consensus size: 40
30887347 TACAACTCTG
* * * *
30887357 AATCTTTTACCCTAATCA-GAGGGCAGATTGAAAACATCATCC
1 AATCTTTTACCCCAACCATGAGGGCAAATTG-AAGCA--ATCC
* * * *
30887399 GATCTCTTACCCCGACCATG-GGACAAATTGAAGCAATCC
1 AATCTTTTACCCCAACCATGAGGGCAAATTGAAGCAATCC
** * *
30887438 AATCTTTTACCTTAACTA-GAGGGCAGATTGAAG-ATCATCC
1 AATCTTTTACCCCAACCATGAGGGCAAATTGAAGCA--ATCC
* * * * *
30887478 GATCTCTTACCCCGACCATGA-GGTAAATTGAAGCAATTC
1 AATCTTTTACCCCAACCATGAGGGCAAATTGAAGCAATCC
* * *
30887517 AATCTTTTACCCTAACCA-GAGAGCAAATTGAAGACCAT-C
1 AATCTTTTACCCCAACCATGAGGGCAAATTGAAG-CAATCC
* * * * *
30887556 AGATCTCTTACCCCGACCATG-GGGCAGATTTAAACAATCC
1 A-ATCTTTTACCCCAACCATGAGGGCAAATTGAAGCAATCC
30887596 AATCTTTTACCCC
1 AATCTTTTACCCC
30887609 TAAAGCTATA
Statistics
Matches: 158, Mismatches: 41, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
38 4 0.03
39 70 0.44
40 54 0.34
41 8 0.05
42 21 0.13
43 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
AATCTTTTACCCCAACCATGAGGGCAAATTGAAGCAATCC
Found at i:30887496 original size:79 final size:78
Alignment explanation
Indices: 30887357--30887607 Score: 333
Period size: 79 Copynumber: 3.2 Consensus size: 78
30887347 TACAACTCTG
*
30887357 AATCTTTTACCCTAA-TCAGAGGGCAGATTGAAAACATCATCCGATCTCTTACCCCGACCATGGG
1 AATCTTTTACCCTAACT-AGAGGGCAGATTG--AAGATCATCCGATCTCTTACCCCGACCATGGG
30887421 ACAAATTGAAGCAATCC
63 -CAAATTGAAGCAATCC
* *
30887438 AATCTTTTACCTTAACTAGAGGGCAGATTGAAGATCATCCGATCTCTTACCCCGACCATGAGGTA
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGATCATCCGATCTCTTACCCCGACCATG-GGCA
*
30887503 AATTGAAGCAATTC
65 AATTGAAGCAATCC
* * * * *
30887517 AATCTTTTACCCTAACCAGAGAGCAAATTGAAGACCATCAGATCTCTTACCCCGACCATGGGGCA
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGATCATCCGATCTCTTACCCCGACCAT-GGGCA
* * *
30887582 GATTTAAACAATCC
65 AATTGAAGCAATCC
30887596 AATCTTTTACCC
1 AATCTTTTACCC
30887608 CTAAAGCTAT
Statistics
Matches: 152, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
79 121 0.80
80 3 0.02
81 27 0.18
82 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (78 bp):
AATCTTTTACCCTAACTAGAGGGCAGATTGAAGATCATCCGATCTCTTACCCCGACCATGGGCAA
ATTGAAGCAATCC
Found at i:30888248 original size:14 final size:15
Alignment explanation
Indices: 30888229--30888258 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30888219 TTATTATTTT
30888229 ATAAATAT-AAATAA
1 ATAAATATAAAATAA
30888243 ATAAATATAAAATAA
1 ATAAATATAAAATAA
30888258 A
1 A
30888259 ATTAATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAAATATAAAATAA
Found at i:30888358 original size:16 final size:17
Alignment explanation
Indices: 30888337--30888370 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
30888327 CCCCTACTAG
30888337 CCCAAATTT-AACAAAA
1 CCCAAATTTAAACAAAA
30888353 CCCAAATTTAAACAAAA
1 CCCAAATTTAAACAAAA
30888370 C
1 C
30888371 AAAAAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (17 bp):
CCCAAATTTAAACAAAA
Found at i:30889458 original size:30 final size:29
Alignment explanation
Indices: 30889424--30889515 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
30889414 ACTTTATTTT
* *
30889424 AAAATTATTTTTTGACCCCCAAATTATCTA
1 AAAATTATATTTT-AACCCCAAATTATCTA
* *
30889454 AAAATTATATTTTAACCCTAAATTTTCTA
1 AAAATTATATTTTAACCCCAAATTATCTA
*
30889483 AAAATTCA-AATTTAACCCCTAAACTT-TCTA
1 AAAATT-ATATTTTAACCCC-AAA-TTATCTA
30889513 AAA
1 AAA
30889516 TTTCAAATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 28 0.53
30 23 0.43
31 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.38
Consensus pattern (29 bp):
AAAATTATATTTTAACCCCAAATTATCTA
Found at i:30889476 original size:29 final size:28
Alignment explanation
Indices: 30889424--30889548 Score: 92
Period size: 30 Copynumber: 4.2 Consensus size: 28
30889414 ACTTTATTTT
* * *
30889424 AAAATTATTTTTTGACCCCCAAATTATCTA
1 AAAATTATATTTT-AACCCTAAATT-TCTA
30889454 AAAATTATATTTTAACCCTAAATTTTCTA
1 AAAATTATATTTTAACCCTAAA-TTTCTA
*
30889483 AAAATTCA-AATTTAACCCCTAAACTTTCTA
1 AAAATT-ATATTTTAA-CCCTAAA-TTTCTA
* *
30889513 AAATTTCA-AATTTAACCCCTAAACTTTCTA
1 AAAATT-ATATTTTAA-CCCTAAA-TTTCTA
*
30889543 GAAATT
1 AAAATT
30889549 TGAATTTGAC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
29 23 0.27
30 61 0.73
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATTATATTTTAACCCTAAATTTCTA
Found at i:30889521 original size:30 final size:30
Alignment explanation
Indices: 30889464--30889594 Score: 167
Period size: 30 Copynumber: 4.4 Consensus size: 30
30889454 AAAATTATAT
* * *
30889464 TTTAA-CCCTAAATTTTCTAAAAATTCAAA
1 TTTAACCCCTAAACTTTCTACAAATTTAAA
30889493 TTTAACCCCTAAACTTTCTA-AAATTTCAAA
1 TTTAACCCCTAAACTTTCTACAAATTT-AAA
* *
30889523 TTTAACCCCTAAACTTTCTAGAAATTTGAA
1 TTTAACCCCTAAACTTTCTACAAATTTAAA
* * *
30889553 TTTGACCCCTAAACTTTTTACAAATTTGAA
1 TTTAACCCCTAAACTTTCTACAAATTTAAA
30889583 TTTAACCCCTAA
1 TTTAACCCCTAA
30889595 TTTTCCAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
29 10 0.11
30 76 0.83
31 6 0.07
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.37
Consensus pattern (30 bp):
TTTAACCCCTAAACTTTCTACAAATTTAAA
Found at i:30889555 original size:60 final size:60
Alignment explanation
Indices: 30889464--30889619 Score: 183
Period size: 60 Copynumber: 2.6 Consensus size: 60
30889454 AAAATTATAT
*
30889464 TTTAA-CCCTAAATTTTCTAAAAATTCAAATTTAACCCCTAAACTTTCTA-AAATTTCAAA
1 TTTAACCCCTAAACTTTCTAAAAATTCAAATTTAACCCCTAAACTTTCTACAAATTT-AAA
* ** * * *
30889523 TTTAACCCCTAAACTTTCTAGAAATTTGAATTTGACCCCTAAACTTTTTACAAATTTGAA
1 TTTAACCCCTAAACTTTCTAAAAATTCAAATTTAACCCCTAAACTTTCTACAAATTTAAA
* * * *
30889583 TTTAACCCCT-AATTTTCCAAAAATTCCAATTTGACCC
1 TTTAACCCCTAAACTTTCTAAAAATTCAAATTTAACCC
30889620 TTGAAGTTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
59 27 0.33
60 50 0.60
61 6 0.07
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (60 bp):
TTTAACCCCTAAACTTTCTAAAAATTCAAATTTAACCCCTAAACTTTCTACAAATTTAAA
Found at i:30889637 original size:59 final size:59
Alignment explanation
Indices: 30889434--30889649 Score: 197
Period size: 59 Copynumber: 3.6 Consensus size: 59
30889424 AAAATTATTT
* *
30889434 TTTGACCCCCAAA-TTATCTAAAAA-TTATATTTTAA-CCCTAAATTTTCTAAAAATTCAAA
1 TTTGACCCCTAAACTT-TC-AAAAATTTA-AATTTAACCCCTAAATTTTCTAAAAATTCAAA
* * * * **
30889493 TTTAACCCCTAAACTTTCTAAAATTTCAAATTTAACCCCTAAACTTTCTAGAAATTTGAA
1 TTTGACCCCTAAACTTTCAAAAATTT-AAATTTAACCCCTAAATTTTCTAAAAATTCAAA
* * * * *
30889553 TTTGACCCCTAAACTTTTTACAAATTTGAATTTAACCCCT-AATTTTCCAAAAATTCCAA
1 TTTGACCCCTAAAC-TTTCAAAAATTTAAATTTAACCCCTAAATTTTCTAAAAATTCAAA
* * * *
30889612 TTTGACCCTTGAAGTTTACAAAAATTTAAATTTGACCC
1 TTTGACCCCTAAACTTT-CAAAAATTTAAATTTAACCC
30889650 GGTCTTAATA
Statistics
Matches: 126, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
58 7 0.06
59 62 0.49
60 48 0.38
61 9 0.07
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (59 bp):
TTTGACCCCTAAACTTTCAAAAATTTAAATTTAACCCCTAAATTTTCTAAAAATTCAAA
Found at i:30906597 original size:24 final size:24
Alignment explanation
Indices: 30906551--30906600 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
30906541 AGAAAGATTG
* *
30906551 GAACAGTTGCAAAAAGAGATGCAA
1 GAACAGATGCAAAAACAGATGCAA
* *
30906575 GAACAGATGCAAACACAGCTGCAA
1 GAACAGATGCAAAAACAGATGCAA
30906599 GA
1 GA
30906601 TCAATTGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.10
Consensus pattern (24 bp):
GAACAGATGCAAAAACAGATGCAA
Found at i:30914612 original size:98 final size:98
Alignment explanation
Indices: 30914465--30915245 Score: 777
Period size: 98 Copynumber: 8.0 Consensus size: 98
30914455 CCTCAAAGAC
* ** ** *
30914465 ATAATGGGAAAGATTGAAGTCATAACGGCAAAT-CTGGTACCATGGAGATATGGAGGGAAAGGTT
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCT-GTACCATGAAGATATGGAGGGAAAGGTT
*
30914529 GAAGCTGTAACAGCGAACCTTATACCTTAGAAAA
65 GAAGCTGCAACAGCGAACCTTATACCTTAGAAAA
* * * *
30914563 ATAATGGGAAAGATTGAAGCCGCAACAGTGAATCCTATACCTTAAAGATATGGAGGGAAAGGTTG
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGAAGATATGGAGGGAAAGGTTG
*
30914628 AAGCTGTAACAGCGAACCTTATACCTTAGAAAA
66 AAGCTGCAACAGCGAACCTTATACCTTAGAAAA
* * *
30914661 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCTTAAAGATATAGAGGGAAAGGTTG
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGAAGATATGGAGGGAAAGGTTG
** * *
30914726 AAGCTATAACTA-CGAACCTTTTACCTTAGAAAT
66 AAGCTGCAAC-AGCGAACCTTATACCTTAGAAAA
* * * * * * ** * *
30914759 GTAGTGGGAAATATTGAAACCGTAATGACGAATCCTGTACCATGAATATATTGAGGGAAAGGTTG
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGAAGATATGGAGGGAAAGGTTG
** * * * *
30914824 AAGCCACAACGGCGAACCCTGTACCTTAGAAAC
66 AAGCTGCAACAGCGAACCTTATACCTTAGAAAA
* * * * * * *
30914857 TTGATGGGAAATATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATGTGGAGGGAAAGGTTA
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGAAGATATGGAGGGAAAGGTTG
* * *
30914922 AAG-TCGTAACAACGAACCTTATACCTTAGGAAA
66 AAGCT-GCAACAGCGAACCTTATACCTTAGAAAA
* *
30914955 ATAATGGGAAAGATTGAAGCTGCAACAGTGAATCCT-TAACCATGAAGATATGGAGGGAAAGGTT
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGT-ACCATGAAGATATGGAGGGAAAGGTT
* * * * * * *
30915019 GAAG-TCCCAACAGCGAACTTTGTACCTCACAGAC
65 GAAGCT-GCAACAGCGAACCTTATACCTTAGAAAA
* * * *
30915053 GTGATGGGAAAGATTGAAGCCGCAATGATGAAT-CTGGTACCATAGAA-ATATGGAGGGAAAGGT
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCT-GTACCAT-GAAGATATGGAGGGAAAGGT
* *
30915116 TGAAGCCGCAAC-GACGAACCTTATACCTTAGGAAA
64 TGAAGCTGCAACAG-CGAACCTTATACCTTAGAAAA
* * ** * * * * * *
30915151 ATAATAGGAAAGATTGAGGCTACAATGGCGAATCCTGTACCATGGAGATATGAAGAGAAAGGTTA
1 ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGAAGATATGGAGGGAAAGGTTG
** *
30915216 AAGCCACAATAGCGAACCTTATACCTTAGA
66 AAGCTGCAACAGCGAACCTTATACCTTAGA
30915246 GATGTGATAA
Statistics
Matches: 566, Mismatches: 104, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
97 6 0.01
98 550 0.97
99 10 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (98 bp):
ATAATGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGAAGATATGGAGGGAAAGGTTG
AAGCTGCAACAGCGAACCTTATACCTTAGAAAA
Found at i:30914768 original size:49 final size:49
Alignment explanation
Indices: 30914519--30915022 Score: 264
Period size: 49 Copynumber: 10.3 Consensus size: 49
30914509 GAGATATGGA
* *
30914519 GGGAAAGGTTGAAGCTGTAACAGCGAACCTTATACCTTAGAAAAATAAT
1 GGGAAAGGTTGAAGCTGTAACAGCGAACCTTATACCTTAGAAATATAGT
* * * * * *
30914568 GGGAAAGATTGAAGCCGCAACAGTGAATCC-TATACCTTA-AAGATATGGA
1 GGGAAAGGTTGAAGCTGTAACAGCGAA-CCTTATACCTTAGAA-ATATAGT
* *
30914617 GGGAAAGGTTGAAGCTGTAACAGCGAACCTTATACCTTAGAAAAATAAT
1 GGGAAAGGTTGAAGCTGTAACAGCGAACCTTATACCTTAGAAATATAGT
* * * * * * *
30914666 GGGAAAGATTGAAGCCGCAACGGTGAATCC-TGTACCTTA-AAGATATAGA
1 GGGAAAGGTTGAAGCTGTAACAGCGAA-CCTTATACCTTAGAA-ATATAGT
* * *
30914715 GGGAAAGGTTGAAGCTATAACTA-CGAACCTTTTACCTTAGAAATGTAGT
1 GGGAAAGGTTGAAGCTGTAAC-AGCGAACCTTATACCTTAGAAATATAGT
** * * * * * * *
30914764 GGGAAATATTGAAACCGTAA-TGACGAATCC-TGTACCAT-GAATATATTGA
1 GGGAAAGGTTGAAGCTGTAACAG-CGAA-CCTTATACCTTAGAA-ATATAGT
*** * * *
30914813 GGGAAAGGTTGAAGCCACAACGGCGAACCCTGTACCTTAGAAACT-T-GAT
1 GGGAAAGGTTGAAGCTGTAACAGCGAACCTTATACCTTAGAAA-TATAG-T
** * * * * * * * * * *
30914862 GGGAAATATTGAAGCCGCAACGGCGAATCC-TGTACCATGGAGATGTGGA
1 GGGAAAGGTTGAAGCTGTAACAGCGAA-CCTTATACCTTAGAAATATAGT
* * *
30914911 GGGAAAGGTTAAAG-TCGTAACAACGAACCTTATACCTTAGGAAA-ATAAT
1 GGGAAAGGTTGAAGCT-GTAACAGCGAACCTTATACCTTA-GAAATATAGT
* * * * * *
30914960 GGGAAAGATTGAAGCTGCAACAGTGAATCCTTA-ACCAT-GAAGATATGGA
1 GGGAAAGGTTGAAGCTGTAACAGCGAA-CCTTATACCTTAGAA-ATATAGT
30915009 GGGAAAGGTTGAAG
1 GGGAAAGGTTGAAG
30915023 TCCCAACAGC
Statistics
Matches: 342, Mismatches: 85, Indels: 56
0.71 0.18 0.12
Matches are distributed among these distances:
47 3 0.01
48 18 0.05
49 294 0.86
50 27 0.08
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (49 bp):
GGGAAAGGTTGAAGCTGTAACAGCGAACCTTATACCTTAGAAATATAGT
Found at i:30914949 original size:294 final size:291
Alignment explanation
Indices: 30914495--30915245 Score: 902
Period size: 294 Copynumber: 2.5 Consensus size: 291
30914485 CATAACGGCA
* * * *
30914495 AATCTGGTACCATGGAGATATGGAGGGAAAGGTTGAAGCTGTAACAGCGAACCTTATACCTTAGA
1 AATCTGGTACCAT-GAAATATGGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAG-
* * * * **
30914560 AAAATAATGGGAAAGATTGAAGCCGCAACAGTGAATCCTATACCTTAAAGATATGGAGGGAAAGG
64 AAAATAATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATGGAGGGAAAGG
* *
30914625 TTGAAGCTGTAACAGCGAACCTTATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACGGT
129 TTAAAGC-GTAACAGCGAACCTTATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACAGT
* *
30914690 GAATCCTGT-ACCTTAAAGATATAGAGGGAAAGGTTGAAG-CTATAACTA-CGAACCTTT-TACC
193 GAATCCT-TAACCATAAAGATATAGAGGGAAAGGTTGAAGTC-ACAAC-AGCGAA-CTTTGTACC
* * * * *
30914751 TTAGAAATGT-AGTGGGAAATATTGAAACCGTAATGACG
254 TCACAAACGTGA-TGGGAAAGATTGAAACCGCAATGACG
* * * *
30914789 AATCCT-GTACCATGAATATATTGAGGGAAAGGTTGAAGCCACAACGGCGAACCCTGTACCTTAG
1 AAT-CTGGTACCATGAA-ATATGGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAG
* * * *
30914853 AAACTTGATGGGAAATATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATGTGGAGGGAAAG
64 AAA-ATAATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATGGAGGGAAAG
* * *
30914918 GTTAAAGTCGTAACAACGAACCTTATACCTTAGGAAAATAATGGGAAAGATTGAAGCTGCAACAG
128 GTTAAAG-CGTAACAGCGAACCTTATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACAG
* * *
30914983 TGAATCCTTAACCATGAAGATATGGAGGGAAAGGTTGAAGTCCCAACAGCGAACTTTGTACCTCA
192 TGAATCCTTAACCATAAAGATATAGAGGGAAAGGTTGAAGTCACAACAGCGAACTTTGTACCTCA
* * *
30915048 CAGACGTGATGGGAAAGATTGAAGCCGCAATGATG
257 CAAACGTGATGGGAAAGATTGAAACCGCAATGACG
*
30915083 AATCTGGTACCATAGAAATATGGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAGG
1 AATCTGGTACCAT-GAAATATGGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTA-G
* * ** * * *
30915148 AAAATAATAGGAAAGATTGAGGCTACAATGGCGAATCCTGTACCATGGAGATATGAAGAGAAAGG
64 AAAATAATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATGGAGGGAAAGG
** *
30915213 TTAAAGCCACAATAGCGAACCTTATACCTTAGA
129 TTAAAG-CGTAACAGCGAACCTTATACCTTAGA
30915246 GATGTGATAA
Statistics
Matches: 387, Mismatches: 58, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
293 13 0.03
294 362 0.94
295 12 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.21
Consensus pattern (291 bp):
AATCTGGTACCATGAAATATGGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAA
AATAATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATGGAGGGAAAGGTT
AAAGCGTAACAGCGAACCTTATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACAGTGAA
TCCTTAACCATAAAGATATAGAGGGAAAGGTTGAAGTCACAACAGCGAACTTTGTACCTCACAAA
CGTGATGGGAAAGATTGAAACCGCAATGACG
Found at i:30915161 original size:49 final size:48
Alignment explanation
Indices: 30914520--30915167 Score: 186
Period size: 49 Copynumber: 13.2 Consensus size: 48
30914510 AGATATGGAG
* * * *
30914520 GGAAAGGTTGAAGCTGTAAC-AGCGAACCTTATACCTTAGAAAAATAATG
1 GGAAAGATTGAAGCCGCAACGA-CGAACCTTATACCTTAG-AAAATAATA
* *
30914569 GGAAAGATTGAAGCCGCAAC-AGTGAATCC-TATACCTTA-AAGAT-ATGGA
1 GGAAAGATTGAAGCCGCAACGA-CGAA-CCTTATACCTTAGAAAATAAT--A
* * * *
30914617 GGGAAAGGTTGAAGCTGTAAC-AGCGAACCTTATACCTTAGAAAAATAATG
1 -GGAAAGATTGAAGCCGCAACGA-CGAACCTTATACCTTAG-AAAATAATA
** * * *
30914667 GGAAAGATTGAAGCCGCAACGGTGAATCC-TGTACCTTA-AAGATATAGA
1 GGAAAGATTGAAGCCGCAACGACGAA-CCTTATACCTTAGAAAATA-ATA
* *** * * * * *
30914715 GGGAAAGGTTGAAGCTATAACTACGAACCTTTTACCTTAGAAATGTAGTG
1 -GGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAAA-ATAATA
* * * * * * * *
30914765 GGAAATATTGAAACCGTAATGACGAATCC-TGTACCAT-GAATATATTGA
1 GGAAAGATTGAAGCCGCAACGACGAA-CCTTATACCTTAGAAAATAAT-A
* * * * * * * *
30914813 GGGAAAGGTTGAAGCCACAACGGCGAACCCTGTACCTTAGAAACTTGATG
1 -GGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAAA-ATAATA
* * * * * * *
30914863 GGAAATATTGAAGCCGCAACGGCGAATCC-TGTACCAT-GGAGAT-GTGGA
1 GGAAAGATTGAAGCCGCAACGACGAA-CCTTATACCTTAGAAAATAAT--A
* * * * * *
30914911 GGGAAAGGTTAAAGTCGTAACAACGAACCTTATACCTTAGGAAAATAATG
1 -GGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTA-GAAAATAATA
* * * *
30914961 GGAAAGATTGAAGCTGCAAC-AGTGAATCCTTA-ACCAT-GAAGAT-ATGGA
1 GGAAAGATTGAAGCCGCAACGA-CGAA-CCTTATACCTTAGAAAATAAT--A
* * * * * ** * *
30915009 GGGAAAGGTTGAAGTCC-CAAC-AGCGAACTTTGTACCTCACAGACGTGATG
1 -GGAAAGATTGAAG-CCGCAACGA-CGAACCTTATACCTTAGA-AAATAATA
* * * ** *
30915059 GGAAAGATTGAAGCCGCAATGATGAATCTGGTACCATAG-AAAT-ATGGA
1 GGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAAAATAAT--A
*
30915107 GGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAGGAAAATAATA
1 -GGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTA-GAAAATAATA
30915157 GGAAAGATTGA
1 GGAAAGATTGA
30915168 GGCTACAATG
Statistics
Matches: 430, Mismatches: 122, Indels: 94
0.67 0.19 0.15
Matches are distributed among these distances:
46 7 0.02
47 20 0.05
48 20 0.05
49 335 0.78
50 23 0.05
51 18 0.04
52 7 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (48 bp):
GGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAAAATAATA
Found at i:30915680 original size:21 final size:22
Alignment explanation
Indices: 30915655--30915699 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
30915645 GGTCTAACAC
30915655 TAATAAACAAA-TAAAATAAAA
1 TAATAAACAAATTAAAATAAAA
* *
30915676 TAATAACCAAATTCAAATAAAA
1 TAATAAACAAATTAAAATAAAA
30915698 TA
1 TA
30915700 CATTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (22 bp):
TAATAAACAAATTAAAATAAAA
Found at i:30922455 original size:13 final size:13
Alignment explanation
Indices: 30922432--30922482 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
30922422 ATACAAAATC
30922432 TTATATGGAAATAGA
1 TTATAT-GAAAT-GA
30922447 -TATATGAAATGA
1 TTATATGAAATGA
* *
30922459 TTATATGAAGTGT
1 TTATATGAAATGA
30922472 TTATATGAAAT
1 TTATATGAAAT
30922483 ATTTGTAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 2 0.06
13 25 0.78
14 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (13 bp):
TTATATGAAATGA
Found at i:30925153 original size:40 final size:40
Alignment explanation
Indices: 30925100--30925277 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
30925090 TTTCCGAATC
* * *
30925100 AATGAAAAGGTTGAAAAGAATACTATCTGGAAGGATAACA
1 AATGAAAATGTTGAAAAGGATATTATCTGGAAGGATAACA
*
30925140 AATTAAAATGTTGAAAAGGATATTATCTGGAAGGATAACA
1 AATGAAAATGTTGAAAAGGATATTATCTGGAAGGATAACA
* *
30925180 AATGAAAATGTTGAAAAGGATATTATCCGGAAGGATAACG
1 AATGAAAATGTTGAAAAGGATATTATCTGGAAGGATAACA
* * *** *
30925220 AATG--AA--TTGAAAAGAATGTTATCCAAAAAGATAACA
1 AATGAAAATGTTGAAAAGGATATTATCTGGAAGGATAACA
* *
30925256 AATGAAAAGGTCGAAAAGGATA
1 AATGAAAATGTTGAAAAGGATA
30925278 GCAACAAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.24
38 4 0.03
40 86 0.73
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.22
Consensus pattern (40 bp):
AATGAAAATGTTGAAAAGGATATTATCTGGAAGGATAACA
Found at i:30925263 original size:76 final size:79
Alignment explanation
Indices: 30925100--30925277 Score: 209
Period size: 76 Copynumber: 2.3 Consensus size: 79
30925090 TTTCCGAATC
* * *
30925100 AATGAAAAGGTTGAAAAGAATACTATCTGGAAGGATAACAAATTAAAATGTTGAAAAGGATATTA
1 AATGAAAAGGTTGAAAAGGATACTATCCGGAAGGATAACAAATTAAAA-GTTGAAAAGAATATTA
*** *
30925165 TCTGGAAGGATAACA
65 TCCAAAAAGATAACA
* * * * *
30925180 AATGAAAATGTTGAAAAGGATATTATCCGGAAGGATAACGAA-T-GAA-TTGAAAAGAATGTTAT
1 AATGAAAAGGTTGAAAAGGATACTATCCGGAAGGATAACAAATTAAAAGTTGAAAAGAATATTAT
30925242 CCAAAAAGATAACA
66 CCAAAAAGATAACA
*
30925256 AATGAAAAGGTCGAAAAGGATA
1 AATGAAAAGGTTGAAAAGGATA
30925278 GCAACAAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
76 44 0.52
78 2 0.02
79 1 0.01
80 37 0.44
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.22
Consensus pattern (79 bp):
AATGAAAAGGTTGAAAAGGATACTATCCGGAAGGATAACAAATTAAAAGTTGAAAAGAATATTAT
CCAAAAAGATAACA
Found at i:30932622 original size:36 final size:36
Alignment explanation
Indices: 30932580--30932652 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
30932570 CTCTCAAACC
* * *
30932580 CTTTTACTTTC-CTTCAAAAATTTTACTACCCTCAAA
1 CTTTTACTTTCTCCTAAAAAAATTTACTACCC-CAAA
*
30932616 CTTTTACTTTCTCCTAAAAAAATTTACTTCCCCAAA
1 CTTTTACTTTCTCCTAAAAAAATTTACTACCCCAAA
30932652 C
1 C
30932653 CCTCAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.40
Consensus pattern (36 bp):
CTTTTACTTTCTCCTAAAAAAATTTACTACCCCAAA
Found at i:30932741 original size:25 final size:25
Alignment explanation
Indices: 30932706--30932767 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
30932696 CTTTTGCTTT
* *
30932706 CCCC-AAACTTTTACTTCCACCCAC
1 CCCCAAAACTTTTACTTCCACCAAA
* *
30932730 CCCCAAAACTTTTATTTCCTCCAAA
1 CCCCAAAACTTTTACTTCCACCAAA
*
30932755 TCCCAAAACTTTT
1 CCCCAAAACTTTT
30932768 TTTTTTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (25 bp):
CCCCAAAACTTTTACTTCCACCAAA
Found at i:30939882 original size:2 final size:2
Alignment explanation
Indices: 30939875--30939899 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30939865 ACACCTTCAA
30939875 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30939900 ATTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.