Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 59 of 295
Found at i:17294786 original size:41 final size:41
Alignment explanation
Indices: 17294741--17294937 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
17294731 ACCGGCTCTT
*
17294741 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17294782 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17294823 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17294864 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
17294905 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
17294938 TAACGATAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 139 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:17296489 original size:13 final size:13
Alignment explanation
Indices: 17296471--17296495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17296461 CCATCGAATG
17296471 CACACAAAATAAA
1 CACACAAAATAAA
17296484 CACACAAAATAA
1 CACACAAAATAA
17296496 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:17296586 original size:3 final size:3
Alignment explanation
Indices: 17296572--17296615 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
17296562 GGGTTGTTAC
* * *
17296572 ATT ATT AGT ATT ATT AGT ATT ACT ATT ATT ATT ATT ATGT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A
17296616 GTATATGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:17296586 original size:9 final size:9
Alignment explanation
Indices: 17296572--17296619 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
17296562 GGGTTGTTAC
17296572 ATTATTAGT
1 ATTATTAGT
17296581 ATTATTAGT
1 ATTATTAGT
* *
17296590 ATTACTATT
1 ATTATTAGT
*
17296599 ATTATTATT
1 ATTATTAGT
17296608 ATGTATTAGT
1 AT-TATTAGT
17296618 AT
1 AT
17296620 ATGTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.56
Consensus pattern (9 bp):
ATTATTAGT
Found at i:17298183 original size:43 final size:43
Alignment explanation
Indices: 17298136--17298263 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
17298126 GGTGTCAACA
*
17298136 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGTTAAATGTCATG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATGTCATG
**
17298179 ACCTTTAGCGGCATTTTTCCCACAAACGCCGCT-AATGGTCATG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAT-GTCATG
** *
17298222 ACCTTTAGCGGCGCTAATCCCACAAACGCCGCTAAAGGTCAT
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATGTCAT
17298264 AAAATTTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.04
43 70 0.93
44 2 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATGTCATG
Found at i:17298305 original size:41 final size:40
Alignment explanation
Indices: 17298254--17298333 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
17298244 CAAACGCCGC
**
17298254 TAAAGGTCATAAAATTTTAAAAAAATTATTAT-AAAATATTA
1 TAAAGGTCATAAAAAATT--AAAAATTATTATCAAAATATTA
* *
17298295 TAAAGTTCATAAAAAATTAAAATTTATTATCAAAATATT
1 TAAAGGTCATAAAAAATTAAAAATTATTATCAAAATATT
17298334 GAGAAGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 11 0.32
40 8 0.24
41 15 0.44
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TAAAGGTCATAAAAAATTAAAAATTATTATCAAAATATTA
Found at i:17298839 original size:23 final size:23
Alignment explanation
Indices: 17298809--17299011 Score: 218
Period size: 23 Copynumber: 8.9 Consensus size: 23
17298799 AAACAGATGC
* *
17298809 CAATTTACAACATTTAAGCACTT
1 CAATTTACAGCATTTAAACACTT
17298832 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
17298855 CAATTTGCAGCACTTT-AACA-TCT
1 CAATTTACAGCA-TTTAAACACT-T
* * *
17298878 CAATTAACAACATTTATACAAC-T
1 CAATTTACAGCATTTAAAC-ACTT
* *
17298901 CAA-TTACAGCAATAAAACA-TCT
1 CAATTTACAGCATTTAAACACT-T
* **
17298923 CAATTTTCAGCAACTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
17298946 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
17298969 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
17298992 CAATTTGCAGCATTTAAACA
1 CAATTTACAGCATTTAAACA
17299012 ACAGCATCCA
Statistics
Matches: 150, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.12
23 126 0.84
24 5 0.03
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
CAATTTACAGCATTTAAACACTT
Found at i:17298927 original size:22 final size:23
Alignment explanation
Indices: 17298871--17298927 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
17298861 GCAGCACTTT
* *
17298871 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACAATAA
* * *
17298894 TACAACTCAATT-ACAGCAATAA
1 AACATCTCAATTAACAACAATAA
17298916 AACATCTCAATT
1 AACATCTCAATT
17298928 TTCAGCAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACAATAA
Found at i:17298995 original size:91 final size:91
Alignment explanation
Indices: 17298831--17298996 Score: 212
Period size: 91 Copynumber: 1.8 Consensus size: 91
17298821 TTTAAGCACT
** * * *
17298831 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATA
1 TCAATTTACAGCAACTAAACACTTCAATTTACAACACTTTAACATCTCAATTAACAACATTTAAA
17298896 CAACTCAATTACAGCAATAAAACATC
66 CAACTCAATTACAGCAATAAAACATC
* * *
17298922 TCAATTTTCAGCAACTAAACACTTCAATTTACAACA-TTTAAACA-CTTCAATTTACAGCATTTA
1 TCAATTTACAGCAACTAAACACTTCAATTTACAACACTTT-AACATC-TCAATTAACAACATTTA
17298985 AAC-ACTTCAATT
64 AACAAC-TCAATT
17298997 TGCAGCATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
90 6 0.09
91 58 0.91
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.33
Consensus pattern (91 bp):
TCAATTTACAGCAACTAAACACTTCAATTTACAACACTTTAACATCTCAATTAACAACATTTAAA
CAACTCAATTACAGCAATAAAACATC
Found at i:17302931 original size:27 final size:26
Alignment explanation
Indices: 17302894--17303035 Score: 131
Period size: 27 Copynumber: 5.3 Consensus size: 26
17302884 AGCATGGCTG
* **
17302894 CCAGAACAGATAATGTGACAGAGTTA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
17302920 CCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
17302948 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
17302975 CCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
17303002 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
17303029 CCCGAAC
1 CCAGAAC
17303036 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.05
27 79 0.80
28 15 0.15
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17302959 original size:54 final size:54
Alignment explanation
Indices: 17302894--17303030 Score: 150
Period size: 54 Copynumber: 2.5 Consensus size: 54
17302884 AGCATGGCTG
** *
17302894 CCAGAACAGATA-ATGTGACAGAGTTACCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
17302948 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * * *
17303002 CCAGATCAGATATTTGTGGCATAGCCACC
1 CCAGAACAGATATATGTGACAGAGCCACC
17303031 CGAACGCTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
54 53 0.76
55 17 0.24
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:17304687 original size:26 final size:26
Alignment explanation
Indices: 17304651--17304760 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
17304641 CATGAAATTC
*
17304651 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
17304677 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
17304703 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
17304729 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
17304755 TTATCA
1 TTATCA
17304761 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:17306397 original size:41 final size:40
Alignment explanation
Indices: 17306352--17306476 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 40
17306342 TAATTTCACC
* *
17306352 TTTTGCGGCGTTTTAAAAAACAACGCCACTATAGTTTAGTT
1 TTTTGCGGCGTTTTAAAAAA-AACGCCACTATAGCTTAATT
* *
17306393 TTTTGCGGCGTTTTTGATAAAAACGCCACTATAGCTTAATT
1 TTTTGCGGCG-TTTTAAAAAAAACGCCACTATAGCTTAATT
* * *** * *
17306434 TTTTGTGGCATTTTTCCTAAAAACGCCATTATTGCTTAATT
1 TTTTGCGGC-GTTTTAAAAAAAACGCCACTATAGCTTAATT
17306475 TT
1 TT
17306477 AATTTTTTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 64 0.89
42 8 0.11
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (40 bp):
TTTTGCGGCGTTTTAAAAAAAACGCCACTATAGCTTAATT
Found at i:17306510 original size:17 final size:17
Alignment explanation
Indices: 17306473--17306509 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17306463 TATTGCTTAA
*
17306473 TTTTAATTTTTTGTTAT
1 TTTTAATATTTTGTTAT
17306490 TTTTAATATTTT-TTAT
1 TTTTAATATTTTGTTAT
17306506 TTTT
1 TTTT
17306510 TCTTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTAATATTTTGTTAT
Found at i:17306657 original size:8 final size:7
Alignment explanation
Indices: 17306617--17306656 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
17306607 ATTTTTTAGT
*
17306617 TTTTTAG
1 TTTTTAA
17306624 TTTTTAA
1 TTTTTAA
17306631 TTTTTAA
1 TTTTTAA
17306638 TTTTTAA
1 TTTTTAA
17306645 TTTTTAA
1 TTTTTAA
17306652 TTTTT
1 TTTTT
17306657 TTGAGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:17307239 original size:21 final size:22
Alignment explanation
Indices: 17307208--17307254 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
17307198 TATAACACTT
* *
17307208 AACCCCAAACCCATAAGCCTTA
1 AACCCCAAACCCATAAACCATA
*
17307230 AACCCC-AACCCTTAAACCATA
1 AACCCCAAACCCATAAACCATA
17307251 AACC
1 AACC
17307255 ATAATCCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.43, C:0.43, G:0.02, T:0.13
Consensus pattern (22 bp):
AACCCCAAACCCATAAACCATA
Found at i:17307314 original size:14 final size:14
Alignment explanation
Indices: 17307292--17307336 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
17307282 TCATACACTT
17307292 TAAACCCTAAA-TAA
1 TAAACCCTAAACT-A
*
17307306 TATACCCTAAACTA
1 TAAACCCTAAACTA
17307320 TAAACCCTAAACTA
1 TAAACCCTAAACTA
17307334 TAA
1 TAA
17307337 TGATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:17307551 original size:11 final size:11
Alignment explanation
Indices: 17307535--17307566 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17307525 TAAACCCCAA
*
17307535 CCTTAAACTAC
1 CCTTAAACCAC
17307546 CCTTAAACCAC
1 CCTTAAACCAC
17307557 CCTTAAACCA
1 CCTTAAACCA
17307567 TGATCCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (11 bp):
CCTTAAACCAC
Found at i:17308034 original size:40 final size:38
Alignment explanation
Indices: 17307971--17308071 Score: 105
Period size: 40 Copynumber: 2.6 Consensus size: 38
17307961 TTTTTTTTGT
* *
17307971 GGCGCTTTTTAAAAACGTCGCTAAAGATCAAGCAT-TAGC
1 GGCG-TTTTTAAAAGCGCCGCTAAAGATCAA-CATATAGC
* ** *
17308010 GGCGTTTTTTATAAAGCGCCGCTAAAGGTGTACCTATAGC
1 GGCG-TTTTTA-AAAGCGCCGCTAAAGATCAACATATAGC
17308050 GGCGTTTTTAAAAGCGCCGCTA
1 GGCGTTTTTAAAAGCGCCGCTA
17308072 CAGCAACTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
38 12 0.23
39 18 0.34
40 23 0.43
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (38 bp):
GGCGTTTTTAAAAGCGCCGCTAAAGATCAACATATAGC
Found at i:17308113 original size:94 final size:95
Alignment explanation
Indices: 17308008--17308301 Score: 320
Period size: 115 Copynumber: 2.9 Consensus size: 95
17307998 TCAAGCATTA
* * *
17308008 GCGGCGTTTTTTATAAAGCGCCGCTAAAGGTGTACCTATAGCGGCGTTTTT-AAAAGCGCCGCTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
* *
17308072 CAGCAACTAAAAGGTCAATAAAACTCTTTT
66 AAGCAACAAAAAGGTCAATAAAACTCTTTT
17308102 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
*
17308167 AAGCCACAAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTT
66 AAGCAACAAAAAGGTC-A-AT-AAA--A---------------CTCTTTT
*
17308217 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
* *
17308282 AAGCCACTAAAAGGTCAATA
66 AAGCAACAAAAAGGTCAATA
17308302 CAAAACGATG
Statistics
Matches: 171, Mismatches: 8, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
94 48 0.28
95 26 0.15
96 1 0.01
97 2 0.01
98 3 0.02
100 1 0.01
112 1 0.01
113 2 0.01
114 1 0.01
115 86 0.50
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (95 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
AAGCAACAAAAAGGTCAATAAAACTCTTTT
Found at i:17308294 original size:115 final size:115
Alignment explanation
Indices: 17308090--17308474 Score: 680
Period size: 115 Copynumber: 3.3 Consensus size: 115
17308080 AAAAGGTCAA
17308090 TAAAACTCTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
1 TAAAACTCTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
* * *
17308155 AAAGCGCCGCTAAAGCCACAAAAAGGTCAATATAAAACGACGTCGTTTTG
66 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTG
*
17308205 TAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
1 TAAAACTCTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
*
17308270 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGATGTTGTTTTG
66 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTG
* *
17308320 TAAAACTCTTTTGCGGCGTTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
1 TAAAACTCTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
* *
17308385 GAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTG
66 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTG
*
17308435 TAAAACTCTTTTGCGGCGCTTTTTAAAAAACACCGCTAAA
1 TAAAACTCTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAA
17308475 AACGCCGCTA
Statistics
Matches: 258, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 258 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (115 bp):
TAAAACTCTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTTGTTTTG
Found at i:17308475 original size:12 final size:12
Alignment explanation
Indices: 17308460--17308489 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17308450 GCGCTTTTTA
17308460 AAAAACACCGCT
1 AAAAACACCGCT
*
17308472 AAAAACGCCGCT
1 AAAAACACCGCT
17308484 AAAAAC
1 AAAAAC
17308490 CTGTTTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.30, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAACACCGCT
Found at i:17313149 original size:35 final size:35
Alignment explanation
Indices: 17313103--17313173 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
17313093 ATAGGTTAAC
17313103 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
1 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
17313138 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
1 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
17313173 T
1 T
17313174 GCTAGTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.46
Consensus pattern (35 bp):
TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
Found at i:17320309 original size:6 final size:7
Alignment explanation
Indices: 17320292--17320319 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17320282 AGTGTATGAT
17320292 TTTTTTA
1 TTTTTTA
17320299 TTTTTTA
1 TTTTTTA
17320306 TTTTTTA
1 TTTTTTA
17320313 TTTTTTA
1 TTTTTTA
17320320 AGTAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:17326752 original size:13 final size:14
Alignment explanation
Indices: 17326722--17326754 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
17326712 TAATATTATT
17326722 ATATTAATTATAAA
1 ATATTAATTATAAA
*
17326736 ATATTAA-TATCAA
1 ATATTAATTATAAA
17326749 ATATTA
1 ATATTA
17326755 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAATTATAAA
Found at i:17327743 original size:15 final size:17
Alignment explanation
Indices: 17327708--17327746 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
17327698 GCATATTAAA
*
17327708 ATATTAAAATAATATAT
1 ATATTAAAATAATATAC
17327725 ATATTAAAA-AA-ATAC
1 ATATTAAAATAATATAC
17327740 ATATTAA
1 ATATTAA
17327747 TTTTTTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 9 0.43
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATTAAAATAATATAC
Found at i:17330058 original size:16 final size:18
Alignment explanation
Indices: 17330032--17330098 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
17330022 TAAAATTTAA
17330032 AAAAAATTAT-AATTTTT
1 AAAAAATTATAAATTTTT
*
17330049 AAAAAA-TATAAATTTTG
1 AAAAAATTATAAATTTTT
* * *
17330066 AAATATTTATAAATATTT
1 AAAAAATTATAAATTTTT
* *
17330084 AAAAATTTAAAAATT
1 AAAAAATTATAAATT
17330099 ATTTTGAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
16 3 0.08
17 16 0.40
18 21 0.52
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (18 bp):
AAAAAATTATAAATTTTT
Found at i:17330806 original size:16 final size:16
Alignment explanation
Indices: 17330775--17330805 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
17330765 TTCACTGCTG
17330775 CTTTTTCATTTTTTTT
1 CTTTTTCATTTTTTTT
17330791 CTTTTTC-TTTTTTTT
1 CTTTTTCATTTTTTTT
17330806 TTTGCTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (16 bp):
CTTTTTCATTTTTTTT
Found at i:17341437 original size:88 final size:88
Alignment explanation
Indices: 17341336--17341507 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 88
17341326 CAACTAATCG
*
17341336 AGATTGTTGTTAAATCTCTTATGAGAGAATGACATGACAGTTAAAAAATTAATATAATAACAAAT
1 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
*
17341401 TTTTAAAATTTACCTTTATATCA
66 TCTTAAAATTTACCTTTATATCA
*
17341424 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAATAAAT
1 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
17341489 TCTTAAAATTTACCTTTAT
66 TCTTAAAATTTACCTTTAT
17341508 CTTCCGCTTC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (88 bp):
AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
TCTTAAAATTTACCTTTATATCA
Found at i:17349101 original size:14 final size:14
Alignment explanation
Indices: 17349082--17349115 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
17349072 AATTCAAGAG
17349082 AAAGTTATAGAGAA
1 AAAGTTATAGAGAA
17349096 AAAGTTATAGAGAA
1 AAAGTTATAGAGAA
17349110 AAAGTT
1 AAAGTT
17349116 CTCTAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (14 bp):
AAAGTTATAGAGAA
Found at i:17356262 original size:42 final size:42
Alignment explanation
Indices: 17356199--17356359 Score: 189
Period size: 42 Copynumber: 3.7 Consensus size: 42
17356189 CTTCGTTTTC
** *
17356199 TCGATGCCATAGTTCAACTATGGTCTTACACATATTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
17356242 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
17356283 TCGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* *
17356332 TCGATGCCATATCCCAGATATGGTCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
17356360 TACGGAAATC
Statistics
Matches: 103, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 64 0.62
43 1 0.01
45 2 0.02
48 2 0.02
49 32 0.31
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:17356342 original size:49 final size:51
Alignment explanation
Indices: 17356269--17356371 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 51
17356259 TATGGTCTTA
* *
17356269 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAAT
1 CACATATTCACATATCGATGCCATAGCCCAGATATGGTCTTACACGGAAAT
* *
17356319 CACATA-TCACATATCGATGCCATATCCCAGATATGGTCTTATACGGAAAT
1 CACATATTCACATATCGATGCCATAGCCCAGATATGGTCTTACACGGAAAT
17356369 CAC
1 CAC
17356372 TTGTCACTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 34 0.71
50 14 0.29
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (51 bp):
CACATATTCACATATCGATGCCATAGCCCAGATATGGTCTTACACGGAAAT
Found at i:17356416 original size:31 final size:31
Alignment explanation
Indices: 17356381--17356467 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
17356371 CTTGTCACTT
*
17356381 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
17356412 GTAGCCGGAGCTGCCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
17356443 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
17356468 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:17356543 original size:50 final size:51
Alignment explanation
Indices: 17356443--17356571 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
17356433 CACTGATCAG
* * * *
17356443 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
17356494 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
17356544 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
17356572 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 49 0.67
51 24 0.33
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
Found at i:17364938 original size:19 final size:21
Alignment explanation
Indices: 17364902--17364940 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
17364892 CTAGGGTTTG
*
17364902 TTTTGTATTTTGATTGATTTT
1 TTTTGTATTCTGATTGATTTT
17364923 TTTTGT-TTCTGA-TGATTT
1 TTTTGTATTCTGATTGATTT
17364941 GTCCAAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.13, C:0.03, G:0.15, T:0.69
Consensus pattern (21 bp):
TTTTGTATTCTGATTGATTTT
Found at i:17368299 original size:22 final size:23
Alignment explanation
Indices: 17368269--17368313 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17368259 TAGTGTACTA
17368269 TTTTAAAATATATTAA-ATAATT
1 TTTTAAAATATATTAATATAATT
* *
17368291 TTTTTAAATATTTTAATATAATT
1 TTTTAAAATATATTAATATAATT
17368314 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTAAAATATATTAATATAATT
Found at i:17368336 original size:26 final size:28
Alignment explanation
Indices: 17368301--17368355 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
17368291 TTTTTAAATA
17368301 TTTTAATATAA-TTAA-ATAAAAATAAT
1 TTTTAATATAATTTAATATAAAAATAAT
*
17368327 TTTTTATATAATTTAATATAAAAATAAT
1 TTTTAATATAATTTAATATAAAAATAAT
17368355 T
1 T
17368356 ATATTAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 10 0.38
27 4 0.15
28 12 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTTAATATAATTTAATATAAAAATAAT
Found at i:17368618 original size:46 final size:44
Alignment explanation
Indices: 17368534--17368625 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 44
17368524 ATATCTATTC
* *
17368534 CATTCAACCAAACACAATAATGCTATTACAGTTCTATTCCATTA
1 CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
*
17368578 CATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAGCTCTATTCCATTA
17368624 CA
1 CA
17368626 GTTTTATTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.38
45 3 0.07
46 21 0.50
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
Found at i:17368625 original size:16 final size:16
Alignment explanation
Indices: 17368604--17368654 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
17368594 TGAATTACTG
17368604 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
17368620 ATTACAGTTTTATTCA
1 ATTACAGCTCTATTCC
17368636 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
17368652 ATT
1 ATT
17368655 TCAGTGAACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17369226 original size:14 final size:14
Alignment explanation
Indices: 17369207--17369301 Score: 52
Period size: 13 Copynumber: 6.4 Consensus size: 14
17369197 TAATTGTAAT
17369207 AAATATTATTATTA
1 AAATATTATTATTA
*
17369221 AAATATTAATATTGA
1 AAATATTATTATT-A
* *
17369236 ACATTTTCAATACTATGTGA
1 AAATATT--AT--TAT-T-A
17369256 ATAATATTA-T-TTA
1 A-AATATTATTATTA
*
17369269 AAATTATTATTTTTA
1 AAA-TATTATTATTA
17369284 AAAT-TTATTATTA
1 AAATATTATTATTA
17369297 AAATA
1 AAATA
17369302 AATTTGAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
12 2 0.03
13 19 0.30
14 15 0.24
15 13 0.21
16 1 0.02
17 1 0.02
19 4 0.06
20 4 0.06
21 4 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (14 bp):
AAATATTATTATTA
Found at i:17369291 original size:16 final size:16
Alignment explanation
Indices: 17369260--17369296 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17369250 ATGTGAATAA
17369260 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
17369276 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
17369292 TATTA
1 TATTA
17369297 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:17369363 original size:16 final size:17
Alignment explanation
Indices: 17369337--17369368 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17369327 AAAATAATAA
17369337 ATTATATTTATTATATT
1 ATTATATTTATTATATT
17369354 ATTA-ATTTATTATAT
1 ATTATATTTATTATAT
17369369 GACTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATATTTATTATATT
Found at i:17369716 original size:16 final size:16
Alignment explanation
Indices: 17369631--17369718 Score: 115
Period size: 16 Copynumber: 5.5 Consensus size: 16
17369621 CGTTTGGTTG
*
17369631 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
*
17369647 GCTGTAATGAAATAG-
1 GCTGTAATGGAATAGA
*
17369662 GACTGTAATTGAATAGA
1 G-CTGTAATGGAATAGA
17369679 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
17369695 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
*
17369711 GTTGTAAT
1 GCTGTAAT
17369719 AAGTAATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
15 1 0.02
16 62 0.97
17 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:17369752 original size:46 final size:44
Alignment explanation
Indices: 17369700--17369793 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
17369690 ATAGAGCTGT
*
17369700 AATGGAATA-AAGTTGTAATAAGTAATTCAACTGTTTGGTTGAATGA
1 AATGGAATAGAA-CTGTAATAA-T-ATTCAACTGTTTGGTTGAATGA
*** *
17369746 AATGGAATAGAACTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAATATTCAACTGTTTGGTTGAATGA
17369790 AATG
1 AATG
17369794 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 22 0.52
45 1 0.02
46 17 0.40
47 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAATATTCAACTGTTTGGTTGAATGA
Found at i:17369961 original size:58 final size:56
Alignment explanation
Indices: 17369898--17370021 Score: 151
Period size: 58 Copynumber: 2.2 Consensus size: 56
17369888 TTTTAATAAG
* * *
17369898 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAGTTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAATAAAAA-AAT--ATAATTTAACAACATTCTTAACATA
** * *
17369956 ATTATTATTAATTATAATTTAATAAAAAAATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAAAAATATAATTTAACAACATTCTTAACATA
17370012 ATTATTATTA
1 ATTATTATTA
17370022 TATGAATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
55 12 0.21
56 17 0.29
57 3 0.05
58 26 0.45
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (56 bp):
ATTATTATTAAAAATAATTTAATAAAAAAATATAATTTAACAACATTCTTAACATA
Found at i:17371654 original size:26 final size:26
Alignment explanation
Indices: 17371625--17371701 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
17371615 AAAAAAATTC
17371625 AAAATGTATTAAAACCATTAAAAATA
1 AAAATGTATTAAAACCATTAAAAATA
* *
17371651 AAAATTGT-TT--AA-GA--AAAACT-
1 AAAA-TGTATTAAAACCATTAAAAATA
17371671 AAAATGTATTAAAACCATTAAAAATA
1 AAAATGTATTAAAACCATTAAAAATA
17371697 AAAAT
1 AAAAT
17371702 TACAAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 3 0.08
20 6 0.15
21 5 0.13
22 2 0.05
23 2 0.05
24 2 0.05
25 5 0.13
26 11 0.28
27 3 0.08
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAATGTATTAAAACCATTAAAAATA
Found at i:17375803 original size:23 final size:22
Alignment explanation
Indices: 17375773--17375817 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
17375763 GAAGGATGAG
*
17375773 GGAAAAAAAGGGGTAAATGAGGA
1 GGAAAAAAAAGGGTAAAT-AGGA
17375796 GGAAAAAAAAGGGTAAATAGGA
1 GGAAAAAAAAGGGTAAATAGGA
17375818 AAAACAGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.09
Consensus pattern (22 bp):
GGAAAAAAAAGGGTAAATAGGA
Found at i:17381394 original size:37 final size:37
Alignment explanation
Indices: 17381352--17381427 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
17381342 CTTCAGAGAC
*
17381352 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGTTT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
17381389 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
17381426 AT
1 AT
17381428 AGTATGGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (37 bp):
ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
Found at i:17383387 original size:26 final size:26
Alignment explanation
Indices: 17383358--17383413 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
17383348 TGGTACAAAT
17383358 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
17383384 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17383410 TGAT
1 TGAT
17383414 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17385083 original size:27 final size:26
Alignment explanation
Indices: 17385034--17385192 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 26
17385024 AGGAAGCGTC
17385034 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAA-TATCTGAT
* *
17385061 CTGGTGGCTCTGCTACATATATCTG-T
1 CTGGTGGCTATGCCACA-ATATCTGAT
17385087 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAA-TATCTGAT
* *
17385115 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACA-ATATCTGAT
**
17385142 CTGGTGGCTCCGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATATCTG-AT
* ** *
17385169 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTATGCCACAATATCTG
17385193 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
26 9 0.08
27 103 0.90
28 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTATGCCACAATATCTGAT
Found at i:17385113 original size:54 final size:54
Alignment explanation
Indices: 17385031--17385192 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
17385021 TGGAGGAAGC
*
17385031 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
17385085 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* ** * * *
17385139 GTTCTGGTGGCTCCGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
17385192 G
1 G
17385193 GCAGCCTCGC
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 13 0.13
54 85 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:17385186 original size:81 final size:80
Alignment explanation
Indices: 17385034--17385192 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 80
17385024 AGGAAGCGTC
* * * *
17385034 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCCGCCACATATATCTGTCCTGGTGACTAC
17385099 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
17385115 CTGGTGGCTTTGCCAC-ATATATCTGTTCTGGTGGCTCCGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCCGCCACATATATCTGT-CCTGGTGACT
* *
17385178 CCGTCACAATATCTG
64 ACGCCACAATATCTG
17385193 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
80 16 0.24
81 51 0.76
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCCGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:17387962 original size:15 final size:15
Alignment explanation
Indices: 17387938--17387974 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
17387928 ACTCCATTCC
*
17387938 CTTTACTCATGGTAA
1 CTTTAGTCATGGTAA
17387953 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
17387968 CTTTAGT
1 CTTTAGT
17387975 TATTGTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (15 bp):
CTTTAGTCATGGTAA
Found at i:17393164 original size:29 final size:30
Alignment explanation
Indices: 17393132--17393188 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
17393122 ACCATGAATA
* *
17393132 TAATTAAACTAACAA-ATTCAACCAAAAAT
1 TAATGAAACTAACAAGACTCAACCAAAAAT
*
17393161 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAGACTCAACCAAAA
17393189 GTAATCGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (30 bp):
TAATGAAACTAACAAGACTCAACCAAAAAT
Found at i:17399636 original size:31 final size:32
Alignment explanation
Indices: 17399563--17399642 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
17399553 GAAATTTAGT
* *
17399563 TTGTTGGATTTTGAAATTATTATGTCTTAAAT
1 TTGTTGGATATTGAAATTATTATGTCTTAAAC
* * *
17399595 TTGTTAGATATTGAATTTATTATGT-TTAAGC
1 TTGTTGGATATTGAAATTATTATGTCTTAAAC
17399626 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
17399643 GACTGACAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 19 0.46
32 22 0.54
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTCTTAAAC
Found at i:17400980 original size:20 final size:19
Alignment explanation
Indices: 17400935--17400972 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17400925 AATCCAAACA
17400935 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
17400954 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
17400973 TCCTGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:17401318 original size:16 final size:16
Alignment explanation
Indices: 17401297--17401331 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
17401287 TAAATTTTAA
17401297 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
17401313 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
17401329 TTA
1 TTA
17401332 GTTATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAATTAAGAGATATT
Found at i:17405143 original size:3 final size:3
Alignment explanation
Indices: 17405135--17405162 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17405125 GGAATACTAT
17405135 AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC A
17405163 TAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:17405168 original size:3 final size:3
Alignment explanation
Indices: 17405162--17405206 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
17405152 CAACAACAAC
17405162 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17405207 TAAATAAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17405244 original size:7 final size:6
Alignment explanation
Indices: 17405162--17405245 Score: 51
Period size: 6 Copynumber: 13.3 Consensus size: 6
17405152 CAACAACAAC
* * * * * * * *
17405162 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
17405210 ATAAGGTAA ATTAAA ATAAAA ATAAAA ATAGAAA AT
1 ATAA---AA ATAAAA ATAAAA ATAAAA ATA-AAA AT
17405246 GTATGATTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
6 59 0.86
7 5 0.07
9 5 0.07
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (6 bp):
ATAAAA
Found at i:17405375 original size:24 final size:22
Alignment explanation
Indices: 17405324--17405378 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
17405314 ACGAGTAAAG
*
17405324 AAATAAAAATAAAATAATAACA
1 AAATAAAAATAAAAAAATAACA
17405346 ACAATAATAAATAAAAAAA-ATACA
1 A-AATAA-AAATAAAAAAATA-ACA
17405370 CAAATAAAA
1 -AAATAAAA
17405379 GAGCATAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 1 0.04
23 8 0.29
24 18 0.64
25 1 0.04
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.16
Consensus pattern (22 bp):
AAATAAAAATAAAAAAATAACA
Found at i:17405427 original size:16 final size:16
Alignment explanation
Indices: 17405406--17405441 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17405396 TATTTAAGCG
17405406 TAAAAAGAAAAAAAAA
1 TAAAAAGAAAAAAAAA
* *
17405422 TAAAAAGATAAATAAA
1 TAAAAAGAAAAAAAAA
17405438 TAAA
1 TAAA
17405442 TGCTCGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (16 bp):
TAAAAAGAAAAAAAAA
Found at i:17407142 original size:28 final size:28
Alignment explanation
Indices: 17407089--17407142 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
17407079 CTATAATTAT
* *
17407089 TATATATATAACTAATGTTTATTAAAAA
1 TATATATATAAATAATGTTTAATAAAAA
*
17407117 TATATATATAAATTAT-TTTAAATAAA
1 TATATATATAAATAATGTTT-AATAAA
17407143 TTAAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
TATATATATAAATAATGTTTAATAAAAA
Found at i:17408628 original size:4 final size:4
Alignment explanation
Indices: 17408621--17408649 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
17408611 AATAAATAGA
17408621 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
17408650 TCTTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:17411527 original size:27 final size:27
Alignment explanation
Indices: 17411462--17411558 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
17411452 GAATATCCAA
*
17411462 CCCAAACACACCCAGAATAATATAAATCCT
1 CCCAAACACA-CCAGTATAATAT--ATCCT
*
17411492 -CCATAACACACCAGTATAATATAGCCT
1 CCCA-AACACACCAGTATAATATATCCT
*
17411519 CCCAAACACACCGGTAT-ATCATATCCT
1 CCCAAACACACCAGTATAAT-ATATCCT
17411546 CCCAAACACACCA
1 CCCAAACACACCA
17411559 ATAAGGCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 34 0.58
28 3 0.05
29 14 0.24
30 6 0.10
ACGTcount: A:0.41, C:0.36, G:0.05, T:0.18
Consensus pattern (27 bp):
CCCAAACACACCAGTATAATATATCCT
Found at i:17412089 original size:17 final size:18
Alignment explanation
Indices: 17412059--17412092 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17412049 AATTTTTATT
*
17412059 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
17412077 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
17412093 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:17425747 original size:21 final size:21
Alignment explanation
Indices: 17425721--17425763 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
17425711 GAAGACTAAA
17425721 AAAGTATAAATTTAAAATTAT
1 AAAGTATAAATTTAAAATTAT
17425742 AAAGTATAAATTTAAAATTAT
1 AAAGTATAAATTTAAAATTAT
17425763 A
1 A
17425764 TGAGGATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
AAAGTATAAATTTAAAATTAT
Found at i:17426410 original size:18 final size:18
Alignment explanation
Indices: 17426383--17426422 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17426373 TTGATTTTCA
* *
17426383 TTTATATTCTTTTATTTG
1 TTTATATTCTTGTATGTG
*
17426401 TTTATGTTCTTGTATGTG
1 TTTATATTCTTGTATGTG
17426419 TTTA
1 TTTA
17426423 ACTTCTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTATATTCTTGTATGTG
Found at i:17428691 original size:148 final size:150
Alignment explanation
Indices: 17428464--17428777 Score: 399
Period size: 151 Copynumber: 2.1 Consensus size: 150
17428454 GAAAAGTTTA
*
17428464 AATTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTCA
1 AATTTTTTTAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTCA
* * *
17428529 AATGGAAAGTTTAAA-TTTTTAAAATAA-ATTTTGA-TTTTTTAACTATTTCAAAATAAAAATTT
66 AATGAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCAAAATAAAAACTT
*
17428591 TGATTTTTAAGAAAAATAGT
131 TGATTTGTAAGAAAAATAGT
*
17428611 AATTTTTTTAGAAAAAGGAGAAAGTTTAGATTTTTAAAATAAAAAT-T-TATTTT-TTTAGTCAT
1 AATTTTTTTAGAAAAA-GAG--AGTTTAGATTTTAAAAATAAAAATATGT-TTTTCTTTAGTCA-
* * * * *
17428673 TTTTAAA-GAAAAGTTTAAATTTTTTAAAGTAATTTTTTTATTTTTTTAACTAATTCGAAATAAA
61 TTTCAAATGAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCAAAATAAA
* *
17428737 AGCTTTGATTTGTAAGAAAAGTAGT
126 AACTTTGATTTGTAAGAAAAATAGT
* *
17428762 GATTTTTTTAAAAAAA
1 AATTTTTTTAGAAAAA
17428778 ACTTCGATTT
Statistics
Matches: 144, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
147 15 0.10
148 23 0.16
149 22 0.15
150 28 0.19
151 56 0.39
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (150 bp):
AATTTTTTTAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTCA
AATGAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCAAAATAAAAACTT
TGATTTGTAAGAAAAATAGT
Found at i:17429015 original size:12 final size:12
Alignment explanation
Indices: 17428995--17429027 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17428985 CGTTTCATCG
17428995 CACACGGCCTAC
1 CACACGGCCTAC
*
17429007 CACATGGCCTAC
1 CACACGGCCTAC
17429019 CACACGGCC
1 CACACGGCC
17429028 GTGTAGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:17434471 original size:20 final size:20
Alignment explanation
Indices: 17434425--17434472 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
17434415 GGTCACACAT
* *
17434425 GCCCGTATGGCTTAGGACAC
1 GCCCGTGTGGCTCAGGACAC
17434445 GCCCGTGTGGCTCAGGACAC
1 GCCCGTGTGGCTCAGGACAC
*
17434465 GTCCGTGT
1 GCCCGTGT
17434473 CCTCCACCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCTCAGGACAC
Found at i:17436408 original size:48 final size:48
Alignment explanation
Indices: 17436331--17436757 Score: 430
Period size: 48 Copynumber: 8.9 Consensus size: 48
17436321 GTAAAATGTT
* * *
17436331 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * * *
17436379 AATGCCATATCCCAGACATGGTCTGACACTAGCTCCCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
** *
17436427 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-AT-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCAAGGCC
* *
17436475 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * **
17436523 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
** * * *
17436571 GATGTTATATCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * **
17436619 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
* * * * ** *
17436667 GATGTCATATCCCAGAAATGGTCTTACACTAGCACACATATCAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * **
17436715 GATGTCATGTCCTAGACATGGTCTTAGACTAAATCACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
17436758 CATGTTCGCA
Statistics
Matches: 305, Mismatches: 66, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
46 5 0.02
47 6 0.02
48 285 0.93
49 5 0.02
50 4 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
Found at i:17436453 original size:96 final size:96
Alignment explanation
Indices: 17436331--17436740 Score: 570
Period size: 96 Copynumber: 4.3 Consensus size: 96
17436321 GTAAAATGTT
* * *
17436331 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-GTCGAGGCCAATGCCATATCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GTGGCCGATGCCATATCCCAGA
* * * * * *
17436395 CATGGTCTGACACTAGCTCCCGTCTCAATGCC
65 CATGGTCTTACACTAGCACACATATCAACGCC
* * * * *
17436427 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATGTGGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
17436492 ATGGTCTTACACTAGCACACATATCAACGCC
66 ATGGTCTTACACTAGCACACATATCAACGCC
* **
17436523 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGTTATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
17436588 ATGGTCTTACACTAGCACACATATCAACGCC
66 ATGGTCTTACACTAGCACACATATCAACGCC
* * * * *
17436619 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGTCATATCCCAGAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
* *
17436684 ATGGTCTTACACTAGCACACATATCAACACT
66 ATGGTCTTACACTAGCACACATATCAACGCC
* *
17436715 GATGTCATGTCCTAGACATGGTCTTA
1 GATGCCATGTCCCAGACATGGTCTTA
17436741 GACTAAATCA
Statistics
Matches: 284, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 283 1.00
97 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
ATGGTCTTACACTAGCACACATATCAACGCC
Found at i:17440033 original size:38 final size:39
Alignment explanation
Indices: 17439942--17440035 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
17439932 CGGTACCTTT
* *
17439942 TGGTGTGTAGGGTTGGATAGGTTGATTATATCCCCATGCT
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCA-GCA
* * *
17439982 TGGTGTGTAGGGTTGGGTGGGTTAATTCTATCCCCA-CA
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAGCA
*
17440020 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
17440036 TCGGAGATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 16 0.33
40 32 0.67
ACGTcount: A:0.14, C:0.12, G:0.37, T:0.37
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAGCA
Found at i:17442057 original size:37 final size:37
Alignment explanation
Indices: 17441956--17442058 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 37
17441946 TAGTTTACTT
* *
17441956 GATGCCATAGTCCAACTATGGTCTTACACAAAATCAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
* * * * * *** *
17441993 AATGCCATAGCCCAGCTAAGATATTACATGTCATTAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
17442030 GATGCCATAGCCCAACTATGGTCTTACAT
1 GATGCCATAGCCCAACTATGGTCTTACAT
17442059 TCCATACTTT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (37 bp):
GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
Found at i:17445091 original size:96 final size:96
Alignment explanation
Indices: 17444920--17445337 Score: 570
Period size: 96 Copynumber: 4.4 Consensus size: 96
17444910 AGGGTAAAAT
* * * *
17444920 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-GTCGAGGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCCATATCC
* * * * * * *
17444983 CAAACATAGTCTTACACTAGCTCTCGTCTCAAT
64 CAGACATGGTCTTACACTAGCACACATATCAAC
* * * * * *
17445016 ACCGATGTCATGTCCCAAACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
*
17445081 GACATGGTCTTACACTAGCACACATATCAAT
66 GACATGGTCTTACACTAGCACACATATCAAC
*
17445112 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
17445177 GACATGGTCTTACACTAGCACACATATCAAC
66 GACATGGTCTTACACTAGCACACATATCAAC
* * ** *
17445208 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAATGTGGCTAATGCCATATCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
*
17445273 GACATGGTATTACACTAGCACACATATCAAC
66 GACATGGTCTTACACTAGCACACATATCAAC
*
17445304 GCCGATGCCATGTCCTAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
17445338 AATCACATAT
Statistics
Matches: 289, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
96 287 0.99
97 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
GACATGGTCTTACACTAGCACACATATCAAC
Found at i:17445345 original size:48 final size:48
Alignment explanation
Indices: 17444920--17445349 Score: 398
Period size: 48 Copynumber: 9.0 Consensus size: 48
17444910 AGGGTAAAAT
* * *
17444920 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * * * * * *
17444968 GTCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * * * **
17445016 ACCGATGTCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
* * * *
17445064 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * **
17445112 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
* * * *
17445160 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * **
17445208 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
** * * * * * *
17445256 GCTAATGCCATATCACAGACATGGTATTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* **
17445304 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAATCACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
17445350 CATGTTCGCA
Statistics
Matches: 298, Mismatches: 78, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
47 6 0.02
48 287 0.96
49 5 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
Found at i:17455054 original size:43 final size:43
Alignment explanation
Indices: 17454955--17455056 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
17454945 ACCAAGATGT
* * * *
17454955 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTGA
1 GATTACGTATAAGACCATGTCTAGGACATTGGCATCGTAATCA
* *
17454998 GATTACGTGTAAGACCATGTCTAGGATATTGGCATCGTTAATCA
1 GATTACGTATAAGACCATGTCTAGGACATTGGCATCG-TAATCA
*
17455042 -ATTTCGTATAAGACC
1 GATTACGTATAAGACC
17455057 TTGTTTGGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTACGTATAAGACCATGTCTAGGACATTGGCATCGTAATCA
Found at i:17464004 original size:19 final size:21
Alignment explanation
Indices: 17463966--17464010 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
17463956 AATTATGATA
*
17463966 ATTTTTAATTTTTTATAAA-T
1 ATTTTTAATTTTTGATAAATT
17463986 ATTTTTAATTTTTGA-AAATT
1 ATTTTTAATTTTTGATAAATT
17464006 ATTTT
1 ATTTT
17464011 GATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTAATTTTTGATAAATT
Found at i:17464017 original size:20 final size:19
Alignment explanation
Indices: 17463968--17464018 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
17463958 TTATGATAAT
17463968 TTTTAATTTTTTATAAATA
1 TTTTAATTTTTTATAAATA
*
17463987 TTTTTAATTTTTGA-AAATTA
1 -TTTTAATTTTTTATAAA-TA
*
17464007 TTTTGATTTTTT
1 TTTTAATTTTTT
17464019 TTGTTGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTATAAATA
Found at i:17465232 original size:3 final size:3
Alignment explanation
Indices: 17465226--17465293 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
17465216 CCAAAGGAGG
17465226 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17465274 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
17465294 GGAGAAGGAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17465301 original size:6 final size:6
Alignment explanation
Indices: 17465292--17465352 Score: 86
Period size: 6 Copynumber: 9.8 Consensus size: 6
17465282 TAATAATAAT
* *
17465292 AAGGAG AAGGAG AAGGAG AAGGAG CAGGAG AAGGAG AAGAAG AAGAAGAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG--GAG
17465342 AAGGAG AAGGA
1 AAGGAG AAGGA
17465353 AAAGAAGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
6 44 0.90
8 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.46, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:17465334 original size:3 final size:3
Alignment explanation
Indices: 17465296--17465398 Score: 54
Period size: 3 Copynumber: 35.3 Consensus size: 3
17465286 AATAATAAGG
* * * * * *
17465296 AGA AGG AGA AGG AGA AGG AGC AGG AGA AGG AGA AGA AGA AGA AG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * * *
17465343 AGG AGA AGGA A-A AGA AGA ATA A-A A-A AAA AGA AGG AGA ATG- AGA
1 AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
*
17465386 AGA AAA AGA AGA A
1 AGA AGA AGA AGA A
17465399 AGCTTTATAC
Statistics
Matches: 76, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
2 9 0.12
3 63 0.83
4 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.36, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:17466106 original size:23 final size:23
Alignment explanation
Indices: 17466080--17466125 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17466070 TTCGGTGTTT
17466080 TCCCACTACACGCTTCAACGTTG
1 TCCCACTACACGCTTCAACGTTG
* *
17466103 TCCCATTACACGCTTCGACGTTG
1 TCCCACTACACGCTTCAACGTTG
17466126 CTTCGCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.37, G:0.15, T:0.28
Consensus pattern (23 bp):
TCCCACTACACGCTTCAACGTTG
Found at i:17468631 original size:24 final size:22
Alignment explanation
Indices: 17468578--17468632 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
17468568 TATATATATC
17468578 ATTTAT-TTATTTTAAAAAACT
1 ATTTATATTATTTTAAAAAACT
*
17468599 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATT-TTAAAAA-ACT
17468625 ATTTATAT
1 ATTTATAT
17468633 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.07
23 3 0.11
24 10 0.37
25 7 0.26
26 5 0.19
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATATTATTTTAAAAAACT
Found at i:17468719 original size:24 final size:23
Alignment explanation
Indices: 17468669--17468733 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
17468659 TTCCTATCTA
* *
17468669 TATTATATTTTCTTATATAACATT
1 TATTATATTTT-TTATATATCACT
*
17468693 TATTATATTTTGTTATATATTACT
1 TATTATATTTT-TTATATATCACT
17468717 TA-T-TATTTTTTATATAT
1 TATTATATTTTTTATATAT
17468734 GTTATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 8 0.22
22 6 0.16
23 1 0.03
24 22 0.59
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTATATTTTTTATATATCACT
Found at i:17468775 original size:21 final size:21
Alignment explanation
Indices: 17468746--17468792 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17468736 TATGTATATA
*
17468746 GTATATTATCTAATATATTAT
1 GTATATTATATAATATATTAT
* *
17468767 GTATGTTATATATTATATTAT
1 GTATATTATATAATATATTAT
*
17468788 TTATA
1 GTATA
17468793 ATTTTAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
GTATATTATATAATATATTAT
Found at i:17469013 original size:19 final size:19
Alignment explanation
Indices: 17468989--17469056 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
17468979 CCAATATATT
17468989 TTATTTTTATATATAATTA
1 TTATTTTTATATATAATTA
* *
17469008 TTATTTTT-TTTATTATATA
1 TTATTTTTATATATAAT-TA
* *
17469027 TTATATATTATATATTAAATA
1 TTAT-TTTTATATA-TAATTA
*
17469048 CTATTTTTA
1 TTATTTTTA
17469057 AAATTATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
18 6 0.16
19 14 0.38
20 7 0.19
21 8 0.22
22 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTTTATATATAATTA
Found at i:17469017 original size:22 final size:23
Alignment explanation
Indices: 17468982--17469035 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
17468972 TTTTAAACCA
17468982 ATATATTTTATTTT-TATATATAATT
1 ATATATTTT-TTTTAT-TATAT-ATT
17469007 AT-TATTTTTTTTATTATATATT
1 ATATATTTTTTTTATTATATATT
17469029 ATATATT
1 ATATATT
17469036 ATATATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.19
23 13 0.48
24 7 0.26
25 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATTTTTTTTATTATATATT
Found at i:17469018 original size:23 final size:26
Alignment explanation
Indices: 17468985--17469037 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
17468975 TAAACCAATA
17468985 TATTTTATTT-TTATATATAAT-TAT
1 TATTTTATTTATTATATATAATATAT
* *
17469009 TATTTTTTTTATTATATATTATATAT
1 TATTTTATTTATTATATATAATATAT
17469035 TAT
1 TAT
17469038 ATATTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TATTTTATTTATTATATATAATATAT
Found at i:17469030 original size:7 final size:7
Alignment explanation
Indices: 17469018--17469043 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17469008 TTATTTTTTT
17469018 TATTATA
1 TATTATA
17469025 TATTATA
1 TATTATA
17469032 TATTATA
1 TATTATA
17469039 TATTA
1 TATTA
17469044 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:17469068 original size:25 final size:28
Alignment explanation
Indices: 17469033--17469083 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
17469023 TATATTATAT
17469033 ATTATATATTAAATA-C-TATTTTTAAA
1 ATTATATATTAAATATCATATTTTTAAA
17469059 ATTAT-TATTAAATATCATATTTTTA
1 ATTATATATTAAATATCATATTTTTA
17469084 TTTGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATATATTAAATATCATATTTTTAAA
Found at i:17478122 original size:205 final size:205
Alignment explanation
Indices: 17477753--17478541 Score: 1326
Period size: 205 Copynumber: 3.8 Consensus size: 205
17477743 ATAGGCCGCA
* * *
17477753 ACATAACAGATCTCACCTTCAGATCTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
** * *
17477818 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTTGCGTGTTTATGTTGAAGCAAATT
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
*
17477883 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
17477948 GAGAGCAGAT
196 GAGAGCAGAT
* **
17477958 ACATAGCAGATTTAACCTTCAGATGTTGCTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
17478023 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * *
17478088 TAAGATCATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCATTTCGACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
17478153 GAGAGCAGAT
196 GAGAGCAGAT
*
17478163 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCGTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
17478228 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * *
17478293 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCTATTTCAACA
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
17478358 GAGAGCAGAT
196 GAGAGCAGAT
*
17478368 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
* * * * * *
17478433 GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCGAATC
66 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * *
17478498 TAAGATGATTTTGCATCTCTGTATTGTCAGAAAATAAATCGAAG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
17478542 AAGCAGATTT
Statistics
Matches: 549, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 549 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (205 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATTTCGACG
GAGAGCAGAT
Found at i:17480231 original size:24 final size:22
Alignment explanation
Indices: 17480178--17480232 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
17480168 TATATATATC
17480178 ATTTAT-TTATTTTAAAAAACT
1 ATTTATATTATTTTAAAAAACT
*
17480199 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATT-TTAAAAA-ACT
17480225 ATTTATAT
1 ATTTATAT
17480233 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.07
23 3 0.11
24 10 0.37
25 7 0.26
26 5 0.19
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATATTATTTTAAAAAACT
Found at i:17484872 original size:39 final size:39
Alignment explanation
Indices: 17484818--17484925 Score: 198
Period size: 39 Copynumber: 2.8 Consensus size: 39
17484808 AAGACACTGA
17484818 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
17484857 AAATGTATCCGGGCTAAAGTCCCGCAGGTTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
17484896 AAATGTATCCGGGCCAAAGTCCCGCAGGCT
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCT
17484926 CTGTGTTGAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:17490594 original size:39 final size:39
Alignment explanation
Indices: 17490540--17490733 Score: 343
Period size: 39 Copynumber: 5.0 Consensus size: 39
17490530 AAGACACTGA
17490540 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
17490579 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
17490618 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
17490657 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCATGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
17490696 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
17490734 ATAATATAAT
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:17493052 original size:33 final size:33
Alignment explanation
Indices: 17493015--17493113 Score: 117
Period size: 33 Copynumber: 3.0 Consensus size: 33
17493005 ATTTTCAATT
** *
17493015 GTACACTCGTGGTGCACACTCCCTTTTCCAGTG
1 GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
* *
17493048 GTACACTCAAGGTGCACATTTCCTTTTCCAGTA
1 GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
* ** *
17493081 GTACACTCAAGGTGTACGTTTCCTTTTCCAGTA
1 GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
17493114 ATACCTTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (33 bp):
GTACACTCAAGGTGCACACTCCCTTTTCCAGTA
Found at i:17497815 original size:50 final size:50
Alignment explanation
Indices: 17497740--17497851 Score: 206
Period size: 50 Copynumber: 2.2 Consensus size: 50
17497730 TGCACTTTAA
**
17497740 CCGGATAACGTAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
1 CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
17497790 CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
1 CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
17497840 CCGGATAAAATA
1 CCGGATAAAATA
17497852 TGAAGGAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (50 bp):
CCGGATAAAATAAGAATTTCAAGCAGAGCACCAACAGCAACATATTATAC
Found at i:17507854 original size:10 final size:10
Alignment explanation
Indices: 17507823--17507861 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17507813 TAATAATTAA
17507823 ATTTATAATTT
1 ATTTA-AATTT
*
17507834 ATTTAATTTT
1 ATTTAAATTT
*
17507844 ATATAAATTT
1 ATTTAAATTT
17507854 ATTTAAAT
1 ATTTAAAT
17507862 ATTTTGATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:17508259 original size:22 final size:24
Alignment explanation
Indices: 17508229--17508278 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
17508219 ATTTAATTAA
*
17508229 TTTAGGATTAAGG-TTTTT-AGGG
1 TTTAAGATTAAGGTTTTTTAAGGG
*
17508251 TTTAAGATTAGGGTTTTTTAAGGG
1 TTTAAGATTAAGGTTTTTTAAGGG
17508275 TTTA
1 TTTA
17508279 GGTTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.46
23 5 0.21
24 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (24 bp):
TTTAAGATTAAGGTTTTTTAAGGG
Found at i:17509023 original size:125 final size:126
Alignment explanation
Indices: 17508694--17509062 Score: 514
Period size: 126 Copynumber: 2.9 Consensus size: 126
17508684 AATTCTAAGC
* * *
17508694 AGACGTTTCT-AGA-AAATAGTGTTGGAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAATTTC
1 AGACGTTTCTGA-ACAAATAATGTCGGAAAACG-TTCAAGCAGGATGCACTGTCAGCAAAATTTC
* ** *
17508757 TAGAAAAAGCTCCCATGTGAACGCTCTTTTGCTACAGTA-TCTCGTAGAAAAATAATTTTGAGT
64 TGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGT-TCGTAGAAAAATAATTTTGAGT
* * *
17508820 AGATGTTTCTGAACAAATAGTGTCGGAAACAC-TTTAAGCAGGATGCACTGTCAGCAAAATTTCT
1 AGACGTTTCTGAACAAATAATGTCGGAAA-ACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCT
* * * * *
17508884 GGAAAAAGCTCCCACATGGACGCTCTTTCGCTATAATAGTTCATAGAAAAATAATTTTGATT
65 GGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTTTGAGT
*
17508946 AGACGTTTTTGAACAAATAATGTC-GAAAACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCTG
1 AGACGTTTCTGAACAAATAATGTCGGAAAACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCTG
*
17509010 GAAAAAGCTCCCACATGGACGTTCTTTTGCTACAGTAGTTCGTAGAAAAATAA
66 GAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAA
17509063 GGCTATAAAT
Statistics
Matches: 216, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
124 2 0.01
125 84 0.39
126 112 0.52
127 16 0.07
128 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (126 bp):
AGACGTTTCTGAACAAATAATGTCGGAAAACGTTCAAGCAGGATGCACTGTCAGCAAAATTTCTG
GAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTTTGAGT
Found at i:17512579 original size:18 final size:18
Alignment explanation
Indices: 17512558--17512593 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17512548 AAAAGGAAAC
*
17512558 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
17512576 ATATAAGGGCTAGGATAT
1 ATATAAGGGCTAGGATAT
17512594 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.31
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:17513198 original size:7 final size:7
Alignment explanation
Indices: 17513188--17513220 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
17513178 CATAATACAT
17513188 AATACTA
1 AATACTA
17513195 AATACTA
1 AATACTA
17513202 AATACTA
1 AATACTA
17513209 AATACTA
1 AATACTA
17513216 AATAC
1 AATAC
17513221 GAAACGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:17514277 original size:48 final size:47
Alignment explanation
Indices: 17514225--17514336 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 47
17514215 AAAATCAAGC
17514225 AGTATTGAAATTGTAATTATAA-TTGCATAAATGAATAA-AATATCAAAT
1 AGTATTGAAATT-TAATTA-AATTTGCATAAATGAA-AATAATATCAAAT
* *
17514273 AGTATTGCAAATTTAATTAAATTTGCATAAATTAAAATAATATCGAAT
1 AGTATTG-AAATTTAATTAAATTTGCATAAATGAAAATAATATCAAAT
17514321 AGTATTGAAAATTTAA
1 AGTATTG-AAATTTAA
17514337 AATTATCACT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
47 4 0.07
48 49 0.84
49 5 0.09
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (47 bp):
AGTATTGAAATTTAATTAAATTTGCATAAATGAAAATAATATCAAAT
Found at i:17523071 original size:30 final size:30
Alignment explanation
Indices: 17523037--17523097 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
17523027 AACCAGAGGG
*
17523037 TTTACAGTATCAGAAAAAGTGGACTATGTT
1 TTTACAGTATCAGAAAAAGAGGACTATGTT
17523067 TTTACAGTATCAGAAAAAGAGGACTATGTT
1 TTTACAGTATCAGAAAAAGAGGACTATGTT
17523097 T
1 T
17523098 GCTTGCTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (30 bp):
TTTACAGTATCAGAAAAAGAGGACTATGTT
Found at i:17525977 original size:16 final size:17
Alignment explanation
Indices: 17525951--17525995 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
17525941 GTTTAATTGG
17525951 TTTAGTTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
17525968 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
17525984 TTTAGTTATTTA
1 TTTAGTTGTTTA
17525996 ATTTCCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:17528043 original size:13 final size:13
Alignment explanation
Indices: 17528025--17528049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17528015 TTTAATTCTA
17528025 AATAATTATCCTT
1 AATAATTATCCTT
17528038 AATAATTATCCT
1 AATAATTATCCT
17528050 AGTATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTATCCTT
Found at i:17529885 original size:15 final size:15
Alignment explanation
Indices: 17529844--17529887 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
17529834 TTAAAATATA
17529844 ATAAAAAATATATTT
1 ATAAAAAATATATTT
17529859 ATAAGAATAATA-ATTAT
1 ATAA-AA-AATATATT-T
17529876 ATAAAAAATATA
1 ATAAAAAATATA
17529888 AAATATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAAATATATTT
Found at i:17530383 original size:18 final size:18
Alignment explanation
Indices: 17530360--17530473 Score: 169
Period size: 18 Copynumber: 6.3 Consensus size: 18
17530350 AAGATTACAA
17530360 AATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
17530378 AATCATATCTAAGATTG-
1 AATCATATCTAAGATTGC
*
17530395 TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
17530413 AATCATATCTAAGATTG-
1 AATCATATCTAAGATTGC
*
17530430 TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
*
17530448 ATATCACATCTAAGATTGC
1 A-ATCATATCTAAGATTGC
17530467 ATATCAT
1 A-ATCAT
17530474 TGAAGATTAT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.37
18 33 0.38
19 22 0.25
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
AATCATATCTAAGATTGC
Found at i:17530400 original size:35 final size:35
Alignment explanation
Indices: 17530361--17530465 Score: 192
Period size: 35 Copynumber: 3.0 Consensus size: 35
17530351 AGATTACAAA
17530361 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
17530396 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
*
17530431 ATCATATCTAAGATTGCATATCACATCTAAGATTG
1 ATCATATCTAAGATTGCA-ATCATATCTAAGATTG
17530466 CATATCATTG
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
35 53 0.78
36 15 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (35 bp):
ATCATATCTAAGATTGCAATCATATCTAAGATTGT
Found at i:17530401 original size:17 final size:18
Alignment explanation
Indices: 17530361--17530473 Score: 167
Period size: 17 Copynumber: 6.3 Consensus size: 18
17530351 AGATTACAAA
*
17530361 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
17530379 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
*
17530396 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
17530414 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
17530431 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
*
17530450 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
17530469 ATCAT
1 ATCAT
17530474 TGAAGATTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
17 32 0.37
18 32 0.37
19 23 0.26
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
ATCATATCTAAGATTGCT
Found at i:17531046 original size:10 final size:10
Alignment explanation
Indices: 17531019--17531068 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
17531009 TTAACTTCTA
17531019 AAAGATAAAT
1 AAAGATAAAT
*
17531029 ACAA-ATAATT
1 A-AAGATAAAT
17531039 AAAGATAAAT
1 AAAGATAAAT
17531049 AAAGATAAAT
1 AAAGATAAAT
17531059 GAAA-ATAAAT
1 -AAAGATAAAT
17531069 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:17532425 original size:18 final size:18
Alignment explanation
Indices: 17532402--17532437 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17532392 TGGGCATCAT
17532402 CAACAACCAAAATAGCAG
1 CAACAACCAAAATAGCAG
*
17532420 CAACAACGAAAATAGCAG
1 CAACAACCAAAATAGCAG
17532438 ATAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.14, T:0.06
Consensus pattern (18 bp):
CAACAACCAAAATAGCAG
Found at i:17533452 original size:13 final size:13
Alignment explanation
Indices: 17533434--17533459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17533424 AAATAATTAG
17533434 TAACATCAGTTCC
1 TAACATCAGTTCC
17533447 TAACATCAGTTCC
1 TAACATCAGTTCC
17533460 AATACGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
TAACATCAGTTCC
Found at i:17534508 original size:23 final size:23
Alignment explanation
Indices: 17534478--17534524 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
17534468 TGGAACAAGA
17534478 GCTGTTTGGCTGCAGGGTTATGG
1 GCTGTTTGGCTGCAGGGTTATGG
*
17534501 GCTGTTTGGCTGTAGGGTTATGG
1 GCTGTTTGGCTGCAGGGTTATGG
17534524 G
1 G
17534525 TCTTCTCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.11, G:0.45, T:0.36
Consensus pattern (23 bp):
GCTGTTTGGCTGCAGGGTTATGG
Found at i:17534615 original size:15 final size:14
Alignment explanation
Indices: 17534589--17534645 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
17534579 ATTTTTTATT
17534589 AATAA-TAA-AATA
1 AATAATTAATAATA
17534601 AATAATTAAGTAATA
1 AATAATTAA-TAATA
17534616 AATAATTAA-AATA
1 AATAATTAATAATA
*
17534629 AAGTAATAAATAATA
1 AA-TAATTAATAATA
17534644 AA
1 AA
17534646 ATTGAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 5 0.13
13 9 0.23
14 6 0.15
15 19 0.49
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAATTAATAATA
Found at i:17534628 original size:28 final size:27
Alignment explanation
Indices: 17534589--17534645 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
17534579 ATTTTTTATT
*
17534589 AATAATAAAATAAA-TAATTAAGTAATA
1 AATAATAAAATAAAGTAA-TAAATAATA
17534616 AATAATTAAAATAAAGTAATAAATAATA
1 AATAA-TAAAATAAAGTAATAAATAATA
17534644 AA
1 AA
17534646 ATTGAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.19
28 19 0.70
29 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (27 bp):
AATAATAAAATAAAGTAATAAATAATA
Found at i:17534634 original size:21 final size:20
Alignment explanation
Indices: 17534608--17534647 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
17534598 ATAAATAATT
17534608 AAGTAATAAATAATTAAAATA
1 AAGTAATAAATAA-TAAAATA
17534629 AAGTAATAAATAATAAAAT
1 AAGTAATAAATAATAAAAT
17534648 TGAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAGTAATAAATAATAAAATA
Found at i:17542299 original size:10 final size:10
Alignment explanation
Indices: 17542272--17542320 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
17542262 TTAACTTCTA
17542272 AAAGATAAAT
1 AAAGATAAAT
17542282 ACAA-ATAAAT
1 A-AAGATAAAT
*
17542292 AAAGATAATT
1 AAAGATAAAT
17542302 AAAGATAAAT
1 AAAGATAAAT
17542312 AAAGATAAA
1 AAAGATAAA
17542321 AGAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:17542329 original size:20 final size:20
Alignment explanation
Indices: 17542284--17542331 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
17542274 AGATAAATAC
*
17542284 AAATAAATAAAGATAATTAA
1 AAATAAATAAAGATAATAAA
*
17542304 AGATAAATAAAGATAA-AAGA
1 AAATAAATAAAGATAATAA-A
17542324 AAATAAAT
1 AAATAAAT
17542332 CCTAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATAAATAAAGATAATAAA
Done.