Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 114 of 427
Found at i:30166849 original size:25 final size:25
Alignment explanation
Indices: 30166820--30166870 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
30166810 AAATTGTTTT
* * *
30166820 GGTAGTATGTCCTGAAACTATTATA
1 GGTAGTATATACTGAAACTACTATA
*
30166845 GGTAGTATATACTGAGACTACTATA
1 GGTAGTATATACTGAAACTACTATA
30166870 G
1 G
30166871 ATAGGTTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (25 bp):
GGTAGTATATACTGAAACTACTATA
Found at i:30171970 original size:49 final size:49
Alignment explanation
Indices: 30171584--30171962 Score: 605
Period size: 49 Copynumber: 7.7 Consensus size: 49
30171574 ATCAAGATTC
*
30171584 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
30171633 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
30171682 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
30171731 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
30171780 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
30171829 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
30171878 GTGAAAGTGTATGTATATGTGATAAGGCTTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
30171927 GTGAAAGTGTATATATATGTGGTAAAGCCGAATGGC
1 GTGAAAATGTATATATATGTGATAAGGCCTAATGGC
30171963 TAATGTGAAT
Statistics
Matches: 309, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 309 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:30172066 original size:37 final size:36
Alignment explanation
Indices: 30172011--30172097 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
30172001 AACTTGGAAA
30172011 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
30172049 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
30172086 TATGTCCGGGTA
1 TATGTCCGGGTA
30172098 AGACTTTGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:30176159 original size:27 final size:27
Alignment explanation
Indices: 30176078--30176167 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
30176068 TTTAGTTTAC
* *
30176078 TAAAATTACCGAAATACCCTT-AGTTTG
1 TAAAATTACTGAAATA-CCTTCAATTTG
* * *
30176105 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCAATTTG
*
30176132 TAAAATTACTGAAATACCTTCAACTTG
1 TAAAATTACTGAAATACCTTCAATTTG
30176159 TAAAATTAC
1 TAAAATTAC
30176168 CAAAGTACCC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCAATTTG
Found at i:30176177 original size:54 final size:54
Alignment explanation
Indices: 30176078--30176184 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
30176068 TTTAGTTTAC
** * *
30176078 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAACTTGTAAAAATACTCAAATACCCCCGATTTG
* *
30176132 TAAAATTACTGAAATA-CCTTCAACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTT-AACTTGTAAAAATACTCAAA-TACCCCCGATTT
30176185 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAACTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:30176192 original size:27 final size:27
Alignment explanation
Indices: 30176162--30176222 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
30176152 CAACTTGTAA
30176162 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
30176189 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
30176216 AATTACC
1 AATTACC
30176223 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:30176225 original size:27 final size:27
Alignment explanation
Indices: 30176173--30176383 Score: 246
Period size: 27 Copynumber: 7.8 Consensus size: 27
30176163 ATTACCAAAG
* *
30176173 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30176200 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30176227 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
30176254 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
30176281 TACCCTCGATTTACAGAATT-CCAGTTT
1 TACCCTCGATTTACAGAATTACC-GTTT
* **
30176308 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
30176335 TACCATTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
30176362 TACCCTTAATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
30176384 TAAAATACCC
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.02
27 158 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:30176392 original size:27 final size:27
Alignment explanation
Indices: 30176362--30176592 Score: 148
Period size: 27 Copynumber: 8.5 Consensus size: 27
30176352 ATTACTGTTT
* *
30176362 TACCCTTAATTTACAAAATTACTAAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* *
30176389 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* *
30176416 TACCCCTAGTTTGTAAAATTA-TCAAAA
1 TACCCTTAGTTTGCAAAATTACT-AAAA
* ** **
30176443 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* * * *
30176470 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* * *
30176497 TACCCCT-GATTTACAAAGTTAC-AGAAA
1 TACCCTTAG-TTTGCAAAATTACTA-AAA
*
30176524 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTT-AGTTTGC--AAAATTACTA-AAA
* * * *
30176553 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
*
30176580 TACCCTTGGTTTG
1 TACCCTTAGTTTG
30176593 TAGATTTACC
Statistics
Matches: 162, Mismatches: 31, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 136 0.84
28 7 0.04
29 18 0.11
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTAGTTTGCAAAATTACTAAAA
Found at i:30176420 original size:54 final size:54
Alignment explanation
Indices: 30176362--30176501 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
30176352 ATTACTGTTT
**
30176362 TACCCTTAATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
30176416 TACCCCTAGTTTGTAAAATTA-TCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTAATTTGTAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCAAAA
* *
30176470 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTTAATTTGTAAAATTACTAAAATACCC
30176502 CTGATTTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.99
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (54 bp):
TACCCTTAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:30176525 original size:81 final size:81
Alignment explanation
Indices: 30176377--30176531 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
30176367 TTAATTTACA
* * * *
30176377 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
30176442 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
30176458 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTATCA
30176520 GAAATACCCTTG
64 -AAATACCCTTG
30176532 ACTTTCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 56 0.85
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:30177966 original size:9 final size:9
Alignment explanation
Indices: 30177954--30178010 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
30177944 TTTGATAAAC
30177954 ATGATATGT
1 ATGATATGT
*
30177963 ATGATATGCAC
1 ATGATATG--T
*
30177974 ATGACATGT
1 ATGATATGT
*
30177983 ATGATATGCAC
1 ATGATATG--T
30177994 ATGATATGT
1 ATGATATGT
30178003 ATGATATG
1 ATGATATG
30178011 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:30177977 original size:20 final size:20
Alignment explanation
Indices: 30177952--30178014 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
30177942 ATTTTGATAA
30177952 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30177972 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30177992 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30178012 ACA
1 ACA
30178015 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30178125 original size:24 final size:24
Alignment explanation
Indices: 30178069--30178258 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
30178059 GAGGAAGTGA
30178069 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
30178092 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
30178116 AAAAGGGCTTATGCCTCAGTTAGC
1 AAAAGGGCTTATGCCCCAGTTATC
30178140 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
30178164 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
30178187 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
30178211 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
30178235 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30178259 ATGATAAAGC
Statistics
Matches: 149, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
23 43 0.29
24 95 0.64
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:30178192 original size:71 final size:71
Alignment explanation
Indices: 30178067--30178258 Score: 262
Period size: 71 Copynumber: 2.7 Consensus size: 71
30178057 TGGAGGAAGT
* * *
30178067 GAAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCT
1 GAAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
30178132 CAGTTA
66 CAGTTA
* *
30178138 GCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCC
1 GAAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCC
30178202 CCAGTTA
65 CCAGTTA
* * *
30178209 TAAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 GAAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
30178259 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (71 bp):
GAAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
CAGTTA
Found at i:30178215 original size:47 final size:47
Alignment explanation
Indices: 30178068--30178259 Score: 269
Period size: 47 Copynumber: 4.0 Consensus size: 47
30178058 GGAGGAAGTG
30178068 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * **
30178115 CAAAAGGGCTTATGCCTCAGTTAGCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TTAAAGGGCTTATGCCCCAGTTAT
* *
30178163 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
30178210 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTAT
30178259 A
1 A
30178260 TGATAAAGCA
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 65 0.50
48 52 0.40
49 12 0.09
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:30178488 original size:31 final size:31
Alignment explanation
Indices: 30178452--30178515 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
30178442 CGTTTACCGT
* *
30178452 AAAGGCTTCGGCCTAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30178483 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30178514 AA
1 AA
30178516 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30180539 original size:7 final size:7
Alignment explanation
Indices: 30180527--30180553 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30180517 GGGACATGGT
30180527 TTTAGGG
1 TTTAGGG
30180534 TTTAGGG
1 TTTAGGG
30180541 TTTAGGG
1 TTTAGGG
30180548 TTTAGG
1 TTTAGG
30180554 CATCAGCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:30180628 original size:48 final size:48
Alignment explanation
Indices: 30180552--30180748 Score: 247
Period size: 48 Copynumber: 4.1 Consensus size: 48
30180542 TTAGGGTTTA
* *
30180552 GGCATCAGCGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACAT
1 GGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACAT
* * * **
30180600 GGCATTGGTGATGATATGTGTGCTAGTGTAAGAACATGTCTAAGACAT
1 GGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACAT
**
30180648 GGCATCGGCAATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACAT
1 GGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACAT
* *
30180696 GGCATCAGTGATGATATGTG-GATTCA-TGTAAGACCATGTC-GAGGACAT
1 GGCATCGGTGATGATATGTGTG--CCAGTGTAAGACCATGTCTG-GGACAT
30180744 GGCAT
1 GGCAT
30180749 TGGTACTTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.02
48 124 0.97
49 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (48 bp):
GGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACAT
Found at i:30180726 original size:96 final size:96
Alignment explanation
Indices: 30180552--30180748 Score: 290
Period size: 96 Copynumber: 2.1 Consensus size: 96
30180542 TTAGGGTTTA
* **
30180552 GGCATCAGCGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGTGATGATAT
1 GGCATCAGCAATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
*
30180617 GTGTGCTAGTGTAAGAACATGTCTAAGACAT
66 GTGTGCTAGTGTAAGAACATGTCGAAGACAT
*
30180648 GGCATCGGCAATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
1 GGCATCAGCAATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
* * *
30180713 GTG-GATTCA-TGTAAGACCATGTCGAGGACAT
66 GTGTG-CT-AGTGTAAGAACATGTCGAAGACAT
30180744 GGCAT
1 GGCAT
30180749 TGGTACTTTA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 1 0.01
96 89 0.98
97 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (96 bp):
GGCATCAGCAATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
GTGTGCTAGTGTAAGAACATGTCGAAGACAT
Found at i:30184968 original size:7 final size:6
Alignment explanation
Indices: 30184951--30184975 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30184941 TGCAATTCAA
30184951 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
30184976 ATTTCACTAC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:30185143 original size:41 final size:40
Alignment explanation
Indices: 30185096--30185538 Score: 427
Period size: 41 Copynumber: 10.8 Consensus size: 40
30185086 CGAGAAATAA
* * * * *
30185096 CGGCGTTTTCGGAAAAATGCCTCCAAAAGTCCGAGAATTAG
1 CGGCGTTTT-TGAAAAACGCCGCCAAAAGTCTGAGCATTAG
* * * * * * *
30185137 CGGCGTTTTTCAAGAAGCACCACAAAAAGTCTGAGAATTCG
1 CGGCGTTTTTGAA-AAACGCCGCCAAAAGTCTGAGCATTAG
* *
30185178 CGGCATTTTTCCAAAAACGCCGCCAAAAGTCTGAGCATTAG
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCATTAG
* *
30185219 CGGCATTTTTAGAAAAACGCCGCCACAAGTCTGAGCATTAG
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCATTAG
* *
30185260 CGGCGTTTTTAGAAAAACGCCGCCAAAGGTCTGAGCGTTAG
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCATTAG
* * *
30185301 CGGCGTTTTTTACCAAAACACCGCCAAAGGTCTGAGCATTAG
1 CGGCGTTTTTGA--AAAACGCCGCCAAAAGTCTGAGCATTAG
* * * *
30185343 TGGCGTTTTTATAAAAACGCTGCCAAAAGTCTGAGTATTAG
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCATTAG
* * ** *
30185384 CTGCGTTTTTGGTAAAACATCGCCAAAAGTCTGAGTATTAG
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCATTAG
* *
30185425 CGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTATTAG
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCATTAG
* * * *
30185466 CGGCGTTTTTCCAAAAACGCCGCAAAAAGTCTAAGTATTAG
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCATTAG
* * *
30185507 CGGCGTTTTTCCAAAAACGCCGCTAAACGTCT
1 CGGCGTTTTT-GAAAAACGCCGCCAAAAGTCT
30185539 TTTTTGAATT
Statistics
Matches: 347, Mismatches: 50, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
40 3 0.01
41 304 0.88
42 38 0.11
43 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (40 bp):
CGGCGTTTTTGAAAAACGCCGCCAAAAGTCTGAGCATTAG
Found at i:30185359 original size:124 final size:122
Alignment explanation
Indices: 30185012--30185538 Score: 461
Period size: 123 Copynumber: 4.3 Consensus size: 122
30185002 AACGGCGTTT
* * * * **
30185012 TTAGTGGCGTTTTTGGCAAAAACGCCG-CAAATATTAT-A-CATTAGCGGCGTTTGAACCAAAAC
1 TTAGCGGCGTTTTTAG-AAAAACGCCGCCAAA-AGTCTGAGCATTAGCGGCGTTT-TTCCAAAAC
* * * * * * *** * * * *
30185074 GCCACTATAAGTC-GAGAAATAACGGCGTTTTCGGAAAAATGCCTCCAAAAGTCCGAGAA
63 GCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTACAAAAACGCCGCCAAAAGTCTGAGTA
* * * * * * * *
30185133 TTAGCGGCGTTTTTCA-AGAAGCACCACAAAAAGTCTGAGAATTCGCGGCATTTTTCCAAAAACG
1 TTAGCGGCGTTTTT-AGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTCC-AAAACG
* * * *
30185197 CCGCCAAAAGTCTGAGCATTAGCGGCATTTTTAGAAAAACGCCGCCACAAGTCTGAGCA
64 CCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTACAAAAACGCCGCCAAAAGTCTGAGTA
* * *
30185256 TTAGCGGCGTTTTTAGAAAAACGCCGCCAAAGGTCTGAGCGTTAGCGGCGTTTTTTACCAAAACA
1 TTAGCGGCGTTTTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCG-TTTTT-CCAAAACG
* * * *
30185321 CCGCCAAAGGTCTGAGCATTAGTGGCGTTTTTATAAAAACGCTGCCAAAAGTCTGAGTA
64 CCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTACAAAAACGCCGCCAAAAGTCTGAGTA
* * * ** * **
30185380 TTAGCTGCGTTTTTGGTAAAACATCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGC
1 TTAGCGGCGTTTTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTT-CCAAAACGC
* * * *
30185445 CGCCAAAAGTCTGAGTATTAGCGGCGTTTTTCCAAAAACGCCGCAAAAAGTCTAAGTA
65 CGCCAAAAGTCTGAGCATTAGCGGCGTTTTTACAAAAACGCCGCCAAAAGTCTGAGTA
** * *
30185503 TTAGCGGCGTTTTTCCAAAAACGCCGCTAAACGTCT
1 TTAGCGGCGTTTTTAGAAAAACGCCGCCAAAAGTCT
30185539 TTTTTGAATT
Statistics
Matches: 323, Mismatches: 74, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
120 9 0.03
121 19 0.06
122 27 0.08
123 162 0.50
124 104 0.32
125 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (122 bp):
TTAGCGGCGTTTTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTCCAAAACGCC
GCCAAAAGTCTGAGCATTAGCGGCGTTTTTACAAAAACGCCGCCAAAAGTCTGAGTA
Found at i:30185702 original size:7 final size:7
Alignment explanation
Indices: 30185692--30185717 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30185682 TGGGTTTGAG
30185692 GTTTAGT
1 GTTTAGT
30185699 GTTTAGT
1 GTTTAGT
30185706 GTTTAGT
1 GTTTAGT
30185713 GTTTA
1 GTTTA
30185718 TGATCTTAAT
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:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTAGT
Found at i:30186500 original size:14 final size:14
Alignment explanation
Indices: 30186458--30186501 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
30186448 GCGGTATTAA
30186458 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
30186472 TGG-TTAGGGGTTAG
1 -GGTTTAAGGGTTAG
*
30186486 GGTTTAAGGGATAG
1 GGTTTAAGGGTTAG
30186500 GG
1 GG
30186502 GATAAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:30186907 original size:21 final size:21
Alignment explanation
Indices: 30186853--30186928 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
30186843 ATTTAGTATC
*
30186853 TAGAATTTAGGGTTTAAT-GTT
1 TAGAGTTTAGGGTTT-ATGGTT
* *
30186874 TATAAGGTTAGGGTTTATGGTT
1 TA-GAGTTTAGGGTTTATGGTT
* *
30186896 TAGAGTTTAGGG-TTAAGATT
1 TAGAGTTTAGGGTTTATGGTT
*
30186916 TAGGGTTTAGGGT
1 TAGAGTTTAGGGT
30186929 CTGATTTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 17 0.39
21 12 0.27
22 15 0.34
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (21 bp):
TAGAGTTTAGGGTTTATGGTT
Found at i:30186926 original size:7 final size:7
Alignment explanation
Indices: 30186792--30186928 Score: 55
Period size: 7 Copynumber: 19.4 Consensus size: 7
30186782 GGTTTAGGCA
30186792 GGTTTAG
1 GGTTTAG
* *
30186799 AGTATAG
1 GGTTTAG
*
30186806 GGTTTAA
1 GGTTTAG
*
30186813 GGTTAAG
1 GGTTTAG
*
30186820 TGTTT-G
1 GGTTTAG
30186826 TGGTTTAG
1 -GGTTTAG
30186834 GGATTTAG
1 GG-TTTAG
*
30186842 GATTTAG
1 GGTTTAG
** *
30186849 TATCTAG
1 GGTTTAG
**
30186856 AATTTAG
1 GGTTTAG
*
30186863 GGTTTAAT
1 GGTTT-AG
* *
30186871 GTTTATAA
1 GGTT-TAG
30186879 GG-TTAG
1 GGTTTAG
*
30186885 GGTTTAT
1 GGTTTAG
30186892 GGTTTAG
1 GGTTTAG
*
30186899 AGTTTAG
1 GGTTTAG
*
30186906 GG-TTAA
1 GGTTTAG
*
30186912 GATTTAG
1 GGTTTAG
30186919 GGTTTAG
1 GGTTTAG
30186926 GGT
1 GGT
30186929 CTGATTTTGT
Statistics
Matches: 93, Mismatches: 30, Indels: 14
0.68 0.22 0.10
Matches are distributed among these distances:
6 9 0.10
7 70 0.75
8 13 0.14
9 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.32, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:30188352 original size:24 final size:26
Alignment explanation
Indices: 30188325--30188379 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
30188315 AATTTTTTTA
*
30188325 ATTAAT-CGAAATTTTT-TATCTAAT
1 ATTAATCCGAAATTTTTATATATAAT
* *
30188349 ATT-ATCCTAAATTTTTATATATTAT
1 ATTAATCCGAAATTTTTATATATAAT
30188374 ATTAAT
1 ATTAAT
30188380 TTAATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 9 0.36
26 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTAATCCGAAATTTTTATATATAAT
Found at i:30191722 original size:9 final size:9
Alignment explanation
Indices: 30191659--30191795 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
30191649 ATTGATCATT
*
30191659 ACTTAAATA
1 ACTTACATA
*
30191668 AGTTACATA
1 ACTTACATA
* **
30191677 ACTCATGTA
1 ACTTACATA
30191686 ACTTACATA
1 ACTTACATA
*
30191695 ATTTACATAACA
1 ACTTACAT---A
*
30191707 ACCTACATA
1 ACTTACATA
30191716 ACTTACATA
1 ACTTACATA
30191725 ACTTACATA
1 ACTTACATA
* *
30191734 ATTTATATA
1 ACTTACATA
*
30191743 ACTCACATA
1 ACTTACATA
* *
30191752 ACGTATATAACA
1 AC-T-TA-CATA
30191764 ACTTACATA
1 ACTTACATA
*
30191773 ACTCACATA
1 ACTTACATA
30191782 ACTTACATA
1 ACTTACATA
30191791 ACTTA
1 ACTTA
30191796 ACTAATACAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 81 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:30191733 original size:57 final size:57
Alignment explanation
Indices: 30191659--30191793 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
30191649 ATTGATCATT
* * * * **
30191659 ACTTAAATAAGTTACATAACTCATGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
* * * *
30191716 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
*
30191773 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
30191794 TAACTAATAC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
Found at i:30197924 original size:43 final size:43
Alignment explanation
Indices: 30197831--30197986 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
30197821 GGCTAAAGCT
* *
30197831 CCGCTAAAGGTCTGTACTTTTAGCGGCGCTTTGCAAACAAACG
1 CCGCTAAAGGTCCGCACTTTTAGCGGCGCTTTGCAAACAAACG
* * ****
30197874 CCACTAAAGGTCCGCACTTTTAGCGGCGCTTTTCCCGGAAACG
1 CCGCTAAAGGTCCGCACTTTTAGCGGCGCTTTGCAAACAAACG
** * * * * *
30197917 CCGCTAAAGGTCTACACCTTTAGTGGCGTTTGTGGATA-AAACG
1 CCGCTAAAGGTCCGCACTTTTAGCGGCGCTT-TGCAAACAAACG
** *
30197960 CCGCTAAAGGTCTACACCTTTAGCGGC
1 CCGCTAAAGGTCCGCACTTTTAGCGGC
30197987 ATTTTTTGGG
Statistics
Matches: 92, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
43 91 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGGTCCGCACTTTTAGCGGCGCTTTGCAAACAAACG
Found at i:30198005 original size:43 final size:42
Alignment explanation
Indices: 30197915--30198184 Score: 244
Period size: 43 Copynumber: 6.3 Consensus size: 42
30197905 TTCCCGGAAA
* * *
30197915 CGCCGCTAAAGGTCTACACCTTTAGTGGCG-TTTGTGGATAAAA
1 CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTTTTGG-T-AAG
*
30197958 CGCCGCTAAAGGTCTACACCTTTAGCGGCATTTTTTGGGTAAG
1 CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTTTT-GGTAAG
* ** * *
30198001 CGCCGCTAAAGGTATGTGA-TTTTAGCGGCGTTTGTTTGCTAAG
1 CGCCGCTAAAGGTCT-ACACCTTTAGCGGCGTTT-TTTGGTAAG
* *
30198044 CGCCGCTAAAGGTCTGCACCTTTAGCAGCGTTTTTTGGGTAAG
1 CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTTTT-GGTAAG
* ** * *
30198087 CGCCGCTAAAGGTATGTGA-TTTTAGCGGCGTTTGTTTGCTAAG
1 CGCCGCTAAAGGTCT-ACACCTTTAGCGGCGTTT-TTTGGTAAG
* * *
30198130 CGCCGCTAAAGGTCTATA-CTATTAGCGGTG-TTTATGGTAAAG
1 CGCCGCTAAAGGTCTACACCT-TTAGCGGCGTTTTTTGGT-AAG
30198172 CGCCGCTAAAGGT
1 CGCCGCTAAAGGT
30198185 ATCTACTTTT
Statistics
Matches: 188, Mismatches: 29, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
41 4 0.02
42 24 0.13
43 145 0.77
44 13 0.07
45 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (42 bp):
CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTTTTGGTAAG
Found at i:30198005 original size:86 final size:85
Alignment explanation
Indices: 30197718--30198200 Score: 345
Period size: 86 Copynumber: 5.6 Consensus size: 85
30197708 AATCTGTAAA
* * * * * * *
30197718 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGACTCTACTTTTGGCAGCATTTGTGGATAAA
1 TTTAGCGGCGTTTTTTGGGTAAGCGCCGCTAAAGGTCTC-ACTTTTAGCGGCGTTTGTGGATAAA
* * **
30197783 GCGCCGCTAAAAGGTCTGTAAA
65 ACGCCGCT-AAAGGTCTGCACC
** * * * * * *
30197805 TTTAGCGGTTTTTTTTGGCTAAAGCTCCGCTAAAGGTCTGTACTTTTAGCGGCGCTT-TGCAAAC
1 TTTAGCGGCGTTTTTTGGGT-AAGCGCCGCTAAAGGTCT-CACTTTTAGCGGCGTTTGTGGATA-
* * *
30197869 AAACGCCACTAAAGGTCCGCACT
63 AAACGCCGCTAAAGGTCTGCACC
*** * * *
30197892 TTTAGCGGCGCTTTTCCCGG-AAACGCCGCTAAAGGTCTACACCTTTAGTGGCGTTTGTGGATAA
1 TTTAGCGGCG-TTTTTTGGGTAAGCGCCGCTAAAGGTCT-CACTTTTAGCGGCGTTTGTGGATAA
*
30197956 AACGCCGCTAAAGGTCTACACC
64 AACGCCGCTAAAGGTCTGCACC
* * * * *
30197978 TTTAGCGGCATTTTTTGGGTAAGCGCCGCTAAAGGTATGTGA-TTTTAGCGGCGTTTGTTTGCT-
1 TTTAGCGGCGTTTTTTGGGTAAGCGCCGCTAAAGG--TCTCACTTTTAGCGGCGTTTG-TGGATA
*
30198041 AAGCGCCGCTAAAGGTCTGCACC
63 AAACGCCGCTAAAGGTCTGCACC
* * * * *
30198064 TTTAGCAGCGTTTTTTGGGTAAGCGCCGCTAAAGGTATGTGA-TTTTAGCGGCGTTTGTTTGCT-
1 TTTAGCGGCGTTTTTTGGGTAAGCGCCGCTAAAGG--TCTCACTTTTAGCGGCGTTTG-TGGATA
* **
30198127 AAGCGCCGCTAAAGGTCTATA-C
63 AAACGCCGCTAAAGGTCTGCACC
* * *
30198149 TATTAGCGGTG-TTTAT-GGTAAAGCGCCGCTAAAGGTATCTACTTTTAGCGGC
1 T-TTAGCGGCGTTTTTTGGGT-AAGCGCCGCTAAAGGTCTC-ACTTTTAGCGGC
30198201 ATTTTGCCGT
Statistics
Matches: 321, Mismatches: 62, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
83 2 0.01
84 4 0.01
85 37 0.12
86 192 0.60
87 43 0.13
88 43 0.13
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTTGGGTAAGCGCCGCTAAAGGTCTCACTTTTAGCGGCGTTTGTGGATAAAA
CGCCGCTAAAGGTCTGCACC
Found at i:30198010 original size:129 final size:129
Alignment explanation
Indices: 30197872--30198143 Score: 275
Period size: 129 Copynumber: 2.1 Consensus size: 129
30197862 TGCAAACAAA
*
30197872 CGCCACTAAAGGTCCG-CACTTTTAGCGGCGCTT-TTCCCGGAAACGCCGCTAAAGGTCTACACC
1 CGCCGCTAAAGGTCCGTCA-TTTTAGCGGCGCTTGTTCCC-GAAACGCCGCTAAAGGTCTACACC
** * *
30197935 TTTAGTGGCG-TTTGTGGATAAAACGCCGCTAAAGGTCT-ACACCTTTAGCGGCATTT-TTTGGG
64 TTTAGCAGCGTTTTGTGGAT-AAACGCCGCTAAAGGTATGACA-CTTTAGCGGCATTTGTTT-GC
30197997 TAAG
126 TAAG
** * * ** * * *
30198001 CGCCGCTAAAGGTATGTGATTTTAGCGGCGTTTGTTTGCTAAGCGCCGCTAAAGGTCTGCACCTT
1 CGCCGCTAAAGGTCCGTCATTTTAGCGGCGCTTGTTCCCGAAACGCCGCTAAAGGTCTACACCTT
* * * ** * *
30198066 TAGCAGCGTTTTTTGGGTAAGCGCCGCTAAAGGTATGTGATTTTAGCGGCGTTTGTTTGCTAAG
66 TAGCAGCGTTTTGTGGATAAACGCCGCTAAAGGTATGACACTTTAGCGGCATTTGTTTGCTAAG
30198130 CGCCGCTAAAGGTC
1 CGCCGCTAAAGGTC
30198144 TATACTATTA
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
129 101 0.87
130 15 0.13
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (129 bp):
CGCCGCTAAAGGTCCGTCATTTTAGCGGCGCTTGTTCCCGAAACGCCGCTAAAGGTCTACACCTT
TAGCAGCGTTTTGTGGATAAACGCCGCTAAAGGTATGACACTTTAGCGGCATTTGTTTGCTAAG
Found at i:30198155 original size:129 final size:128
Alignment explanation
Indices: 30197915--30198184 Score: 289
Period size: 129 Copynumber: 2.1 Consensus size: 128
30197905 TTCCCGGAAA
** *
30197915 CGCCGCTAAAGGTCTACACCTTTAGTGGCGTTTGTGGATAAAACGCCGCTAAAGGTCTACACCTT
1 CGCCGCTAAAGGTCTACACCTTTAGCAGCGTTTGTGGATAAAACGCCGCTAAAGGTATACACCTT
* * * *
30197980 TAGCGGCATTTTTTGGGTAAGCGCCGCTAAAGGTATGTGATTTTAGCGGCGTTTGTTTGCT-AAG
66 TAGCGGCATTTTTTGGCTAAGCGCCGCTAAAGGTATATGATATTAGCGGCG-TT-TATGCTAAAG
* * * * ** *
30198044 CGCCGCTAAAGGTCTGCACCTTTAGCAGCGTTTTTTGGGT-AAGCGCCGCTAAAGGTATGTGA-T
1 CGCCGCTAAAGGTCTACACCTTTAGCAGCG-TTTGTGGATAAAACGCCGCTAAAGGTAT-ACACC
* * * *
30198107 TTTAGCGGCGTTTGTTT-GCTAAGCGCCGCTAAAGGTCTAT-ACTATTAGCGGTGTTTATGGTAA
64 TTTAGCGGCATTT-TTTGGCTAAGCGCCGCTAAAGGTATATGA-TATTAGCGGCGTTTATGCTAA
30198170 AG
127 AG
30198172 CGCCGCTAAAGGT
1 CGCCGCTAAAGGT
30198185 ATCTACTTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
127 4 0.03
128 19 0.16
129 84 0.71
130 11 0.09
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (128 bp):
CGCCGCTAAAGGTCTACACCTTTAGCAGCGTTTGTGGATAAAACGCCGCTAAAGGTATACACCTT
TAGCGGCATTTTTTGGCTAAGCGCCGCTAAAGGTATATGATATTAGCGGCGTTTATGCTAAAG
Found at i:30204069 original size:30 final size:30
Alignment explanation
Indices: 30204035--30204094 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
30204025 ATATTGATTC
*
30204035 AAGCTAAGCTCCAGAGGAGGAATAGACCCT
1 AAGCTAAGATCCAGAGGAGGAATAGACCCT
*** *
30204065 AAGCTCTTATTCAGAGGAGGAATAGACCCT
1 AAGCTAAGATCCAGAGGAGGAATAGACCCT
30204095 GTAAGAGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (30 bp):
AAGCTAAGATCCAGAGGAGGAATAGACCCT
Found at i:30205409 original size:17 final size:18
Alignment explanation
Indices: 30205384--30205418 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30205374 GGCTAGGTCG
30205384 TGTGATCC-ACACGGGCA
1 TGTGATCCAACACGGGCA
*
30205401 TGTGGTCCAACACGGGCA
1 TGTGATCCAACACGGGCA
30205419 GACAACATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.29, G:0.31, T:0.17
Consensus pattern (18 bp):
TGTGATCCAACACGGGCA
Found at i:30207174 original size:17 final size:18
Alignment explanation
Indices: 30207154--30207189 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30207144 TGAAATTTTA
30207154 TGAA-TTTTTTATAATTT
1 TGAATTTTTTTATAATTT
30207171 TGAATTTTTTTATAATTT
1 TGAATTTTTTTATAATTT
30207189 T
1 T
30207190 TAAATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TGAATTTTTTTATAATTT
Found at i:30207190 original size:19 final size:19
Alignment explanation
Indices: 30207138--30207195 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
30207128 CTTTCTCTTT
30207138 TTTTTTTGA-AATTTTATGAA
1 TTTTTTT-ATAATTTT-TGAA
30207158 -TTTTTTATAA-TTTTGAA
1 TTTTTTTATAATTTTTGAA
*
30207175 TTTTTTTATAATTTTTAAA
1 TTTTTTTATAATTTTTGAA
30207194 TT
1 TT
30207196 ATTTGTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 4 0.12
18 14 0.41
19 16 0.47
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTTATAATTTTTGAA
Found at i:30207338 original size:51 final size:51
Alignment explanation
Indices: 30207262--30207365 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
30207252 GACTGCCATG
30207262 TAGGTTACCATGCCAAAATCGTTAAAAAACTAATGATTTAGTTAACATTTT
1 TAGGTTACCATGCCAAAATCGTTAAAAAACTAATGATTTAGTTAACATTTT
30207313 TAGGTTACCATGCCAAAATCGTTAAAAAACTAATGATTTAGTTAACATTTT
1 TAGGTTACCATGCCAAAATCGTTAAAAAACTAATGATTTAGTTAACATTTT
30207364 TA
1 TA
30207366 TTAAAAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (51 bp):
TAGGTTACCATGCCAAAATCGTTAAAAAACTAATGATTTAGTTAACATTTT
Found at i:30221057 original size:28 final size:27
Alignment explanation
Indices: 30220996--30221060 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
30220986 TATTTCAGTG
*
30220996 TCTAAATTTTTTTAATCACAAGTTGTA
1 TCTAAATTTTTTTAATCACAAGCTGTA
30221023 TCTAAATTTTTTTAATCACAAGCTGTA
1 TCTAAATTTTTTTAATCACAAGCTGTA
*
30221050 TCTAAAATTTT
1 TCTAAATTTTT
30221061 CTTTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (27 bp):
TCTAAATTTTTTTAATCACAAGCTGTA
Found at i:30224469 original size:21 final size:21
Alignment explanation
Indices: 30224424--30224470 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
30224414 AAAGTAGGTT
*
30224424 ATATATTATTTTTATAATATT
1 ATATATTATTTTTATAATATC
30224445 ATATATTATGATTTT-TAAT-TC
1 ATATATTAT--TTTTATAATATC
30224466 ATATA
1 ATATA
30224471 ATAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 15 0.65
22 4 0.17
23 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATTATTTTTATAATATC
Found at i:30224534 original size:58 final size:59
Alignment explanation
Indices: 30224469--30224608 Score: 169
Period size: 61 Copynumber: 2.4 Consensus size: 59
30224459 TTAATTCATA
* * *
30224469 TAATAATAATTATATTAAGAATGTTATTAAATTATGTA-TT-TTTTTA-TAAAATTGTATT
1 TAATAATAATTATATTAA-AATATGATTAAATTATGTATTTATTTTTATTAAAA-TATATT
* *
30224527 TAATAATAATTATGTTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATT
1 TAATAATAATTATATTAAAATATGATTAAATTATGTA--TTTATTTTTATTAAAATATATT
*
30224588 TAATAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
30224609 TTAATAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
57 16 0.23
58 17 0.24
60 2 0.03
61 30 0.43
62 5 0.07
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (59 bp):
TAATAATAATTATATTAAAATATGATTAAATTATGTATTTATTTTTATTAAAATATATT
Found at i:30224622 original size:25 final size:26
Alignment explanation
Indices: 30224571--30224622 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
30224561 TTATTTTTAT
*
30224571 TTTTATTAAAATATATTTAATAATAA
1 TTTTATTAAAATATATATAATAATAA
*
30224597 TTTTATTAAAATTTA-ATAATAATAA
1 TTTTATTAAAATATATATAATAATAA
30224622 T
1 T
30224623 AATAATTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTATTAAAATATATATAATAATAA
Found at i:30230300 original size:17 final size:16
Alignment explanation
Indices: 30230269--30230314 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
30230259 ACTAATTTTG
*
30230269 ATTTTTAATTATAATT
1 ATTTTAAATTATAATT
30230285 ATTTTAAATGTATAATT
1 ATTTTAAAT-TATAATT
*
30230302 ATTATAAATTATA
1 ATTTTAAATTATA
30230315 TTTTATATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTTTAAATTATAATT
Found at i:30232784 original size:15 final size:17
Alignment explanation
Indices: 30232752--30232785 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30232742 TTGTTTGTCA
30232752 AAAAAGGAGAGAAAATG
1 AAAAAGGAGAGAAAATG
30232769 AAAAAGGA-AG-AAATG
1 AAAAAGGAGAGAAAATG
30232784 AA
1 AA
30232786 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 2 0.12
17 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (17 bp):
AAAAAGGAGAGAAAATG
Found at i:30232792 original size:2 final size:2
Alignment explanation
Indices: 30232785--30232834 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
30232775 GAAGAAATGA
30232785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30232827 AT AT AT AT
1 AT AT AT AT
30232835 GGGATCAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30235787 original size:12 final size:12
Alignment explanation
Indices: 30235770--30235795 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30235760 AATTATATTT
30235770 TTAACTATTTTA
1 TTAACTATTTTA
30235782 TTAACTATTTTA
1 TTAACTATTTTA
30235794 TT
1 TT
30235796 TATAAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAACTATTTTA
Found at i:30236594 original size:18 final size:19
Alignment explanation
Indices: 30236549--30236600 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
30236539 AAAAATTTCC
*
30236549 CAAGAATTTTAATATGCTT
1 CAAGAATTTTAATATCCTT
* *
30236568 CTAGCATTTTAA-ATCCTT
1 CAAGAATTTTAATATCCTT
*
30236586 CAAGGATTTTAATAT
1 CAAGAATTTTAATAT
30236601 AAACTTTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (19 bp):
CAAGAATTTTAATATCCTT
Found at i:30239559 original size:32 final size:32
Alignment explanation
Indices: 30239523--30239589 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
30239513 TCCTTAAAAT
30239523 AAGTTAATCAAAACAATAATAACATATAATGA
1 AAGTTAATCAAAACAATAATAACATATAATGA
30239555 AAGTTAATCAAAACAATAATAACATATAATGA
1 AAGTTAATCAAAACAATAATAACATATAATGA
30239587 AAG
1 AAG
30239590 AAGAATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (32 bp):
AAGTTAATCAAAACAATAATAACATATAATGA
Found at i:30245212 original size:18 final size:17
Alignment explanation
Indices: 30245176--30245212 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
30245166 CAATAGATTC
*
30245176 AATTAAAAAATATTGAA
1 AATTAAAAAATATTAAA
30245193 AATTAAAAAATTATTAAA
1 AATTAAAAAA-TATTAAA
30245211 AA
1 AA
30245213 AAGTCCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AATTAAAAAATATTAAA
Found at i:30251805 original size:29 final size:29
Alignment explanation
Indices: 30251763--30251818 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
30251753 TTATGGAAGA
* * *
30251763 GATGGAGAACTTGTTCGTTGAGAGTTCAC
1 GATGAAGAACTTGTTCATTAAGAGTTCAC
30251792 GATGAAGAACTTGTTCATTAAGAGTTC
1 GATGAAGAACTTGTTCATTAAGAGTTC
30251819 GTGTCAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTAAGAGTTCAC
Found at i:30251902 original size:16 final size:18
Alignment explanation
Indices: 30251866--30251903 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30251856 ATCTATATTT
*
30251866 AAATAAAATAGAGTGGTA
1 AAATAAAATAGAATGGTA
30251884 AAATAAAATA-AAT-GTA
1 AAATAAAATAGAATGGTA
30251900 AAAT
1 AAAT
30251904 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (18 bp):
AAATAAAATAGAATGGTA
Found at i:30252164 original size:5 final size:5
Alignment explanation
Indices: 30252154--30252184 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
30252144 AAAATCTGTG
30252154 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
30252185 CACATTCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:30253251 original size:6 final size:6
Alignment explanation
Indices: 30253242--30253276 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
30253232 TTGGAAAAGA
30253242 AAAAAT AAAAGAT AAAAGAT AAAAAT AAAAAT AAA
1 AAAAAT AAAA-AT AAAA-AT AAAAAT AAAAAT AAA
30253277 GATTTAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 15 0.54
7 13 0.46
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:30253260 original size:19 final size:19
Alignment explanation
Indices: 30253236--30253276 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
30253226 AGATTTTTGG
30253236 AAAAGA-AAAAATAAAAGAT
1 AAAAGATAAAAATAAAA-AT
30253255 AAAAGATAAAAATAAAAAT
1 AAAAGATAAAAATAAAAAT
30253274 AAA
1 AAA
30253277 GATTTAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAGATAAAAATAAAAAT
Found at i:30261006 original size:16 final size:17
Alignment explanation
Indices: 30260976--30261008 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30260966 ATTGAATTTT
*
30260976 TTTTATAAAAGATTATA
1 TTTTATAAAAAATTATA
30260993 TTTTA-AAAAAATTATA
1 TTTTATAAAAAATTATA
30261009 AGAAGTACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTATAAAAAATTATA
Found at i:30261651 original size:20 final size:20
Alignment explanation
Indices: 30261614--30261651 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30261604 AAACATATTA
*
30261614 TATAATATAATTATAAATTT
1 TATAATATAATTACAAATTT
30261634 TATAATTATAA-TACAAAT
1 TATAA-TATAATTACAAAT
30261652 ATGATCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATATAATTACAAATTT
Found at i:30262481 original size:21 final size:20
Alignment explanation
Indices: 30262449--30262489 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
30262439 ATAAGCATGT
30262449 ATTTTGATGTTTGATGATAG
1 ATTTTGATGTTTGATGATAG
30262469 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTGATGATAG
30262490 TTATACAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTGATGATAG
Found at i:30263140 original size:29 final size:28
Alignment explanation
Indices: 30263107--30263161 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
30263097 GCGAGTTATA
30263107 CTGATTTGGCTTCGGGCCATGAATATCGG
1 CTGATTTGGCTTCGGGCCATG-ATATCGG
*
30263136 CTGATTTGGCTTTGGGCCATGATATC
1 CTGATTTGGCTTCGGGCCATGATATC
30263162 AGTACTACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (28 bp):
CTGATTTGGCTTCGGGCCATGATATCGG
Found at i:30265364 original size:27 final size:27
Alignment explanation
Indices: 30265334--30265474 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
30265324 TTGACGAACT
*
30265334 CACCAGATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
30265361 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
30265388 TACCAGAT-CAGATAATTGTGGTATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
30265415 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
30265442 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
30265469 CACCAG
1 CACCAG
30265475 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:30265475 original size:54 final size:54
Alignment explanation
Indices: 30265334--30265477 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
30265324 TTGACGAACT
* *
30265334 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGC
*
30265388 TACCAGATCAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGC
*
30265442 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGTATAGCCACCAGGAC
30265478 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:30267126 original size:26 final size:26
Alignment explanation
Indices: 30267095--30267202 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
30267085 TGAAATGCCC
* *
30267095 ATCATGGAACATTTATCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
30267121 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
30267147 ATCACGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
30267173 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30267199 ATCA
1 ATCA
30267203 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30270909 original size:46 final size:45
Alignment explanation
Indices: 30270859--30271027 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
30270849 GCATCCAAAT
*
30270859 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAGC
*** * *
30270905 TCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCGAGC
30270952 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC-CGAGC
*
30270998 TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
30271028 GCGGGTTTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.58
47 32 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (45 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCGAGC
Found at i:30276225 original size:27 final size:26
Alignment explanation
Indices: 30276195--30276335 Score: 194
Period size: 27 Copynumber: 5.2 Consensus size: 26
30276185 GTGATGAAGT
30276195 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGAT-CAGATATTGTGGCAGAGC
*
30276222 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAT-TGTGGCAGAGC
*
30276249 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGAT-ATTGTGGCAGAGC
30276276 CACCAGGAT-AGATATATGTGGCAGAGC
1 CACCA-GATCAGATAT-TGTGGCAGAGC
*
30276303 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGAT-ATTGTGGCAGAGC
30276330 CACCAG
1 CACCAG
30276336 GACGCTTCCT
Statistics
Matches: 103, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
26 12 0.12
27 84 0.82
28 7 0.07
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CACCAGATCAGATATTGTGGCAGAGC
Found at i:30276336 original size:54 final size:54
Alignment explanation
Indices: 30276195--30276338 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
30276185 GTGATGAAGT
* *
30276195 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
30276249 CACCAGATCAGATAATTGTGGCATAGCCACCAGGATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
30276303 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
30276339 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:30276503 original size:28 final size:25
Alignment explanation
Indices: 30276439--30276514 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 25
30276429 CAAAATTAAC
30276439 CCTAGGGGTATAAAGGTAATTTTGCA
1 CCTAGGGGTATAAA-GTAATTTTGCA
30276465 CCTAGGGGTATAACAGTAATTTT-CTA
1 CCTAGGGGTATAA-AGTAATTTTGC-A
*
30276491 CACATAGGGGTATTATAGTAATTT
1 C-C-TAGGGGTA-TAAAGTAATTT
30276515 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
25 1 0.02
26 23 0.52
27 2 0.05
28 16 0.36
29 2 0.05
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (25 bp):
CCTAGGGGTATAAAGTAATTTTGCA
Found at i:30277985 original size:26 final size:26
Alignment explanation
Indices: 30277954--30278060 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
30277944 TGAAATGCCC
30277954 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
30277980 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
30278005 ATCGTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
30278031 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
30278057 ATCA
1 ATCA
30278061 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 23 0.31
26 51 0.69
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:30278034 original size:51 final size:52
Alignment explanation
Indices: 30277958--30278059 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 52
30277948 ATGCCCATCA
30277958 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAA-CCATTATCG
1 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCG
* *
30278009 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATC
1 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATC
30278060 AATTTGTACC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 40 0.83
52 8 0.17
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (52 bp):
TGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCG
Found at i:30286795 original size:18 final size:19
Alignment explanation
Indices: 30286759--30286795 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30286749 ATTGAATTAT
*
30286759 TTTTATTTTTATTAGTAAA
1 TTTTATTTTTATTAATAAA
30286778 TTTTATTTTTA-TAATAAA
1 TTTTATTTTTATTAATAAA
30286796 GTAAACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATTTTTATTAATAAA
Found at i:30288271 original size:22 final size:22
Alignment explanation
Indices: 30288246--30288293 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
30288236 AAACCCTAGA
30288246 ATTTAT-CAAGTGCTTTATTATT
1 ATTTATCCAAGTGCTTTATTA-T
* *
30288268 ATTTTTCCAAGTGTTTTATTAT
1 ATTTATCCAAGTGCTTTATTAT
30288290 ATTT
1 ATTT
30288294 TCTTAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (22 bp):
ATTTATCCAAGTGCTTTATTAT
Found at i:30288278 original size:23 final size:22
Alignment explanation
Indices: 30288252--30288294 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
30288242 TAGAATTTAT
30288252 CAAGTGCTTTATTATTATTTTTC
1 CAAGTGCTTTATTA-TATTTTTC
*
30288275 CAAGTGTTTTATTATATTTT
1 CAAGTGCTTTATTATATTTT
30288295 CTTAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (22 bp):
CAAGTGCTTTATTATATTTTTC
Found at i:30289011 original size:2 final size:2
Alignment explanation
Indices: 30288972--30288996 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30288962 ACTTGAAAAG
30288972 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
30288997 AAATCTTTGC
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:30312698 original size:46 final size:46
Alignment explanation
Indices: 30312631--30312802 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
30312621 TGTAACCCGC
* *
30312631 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30312677 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
30312727 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
30312770 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
30312803 TGGATGCTCA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:30312747 original size:93 final size:93
Alignment explanation
Indices: 30312639--30312809 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30312629 GCCCATAAGT
* * *
30312639 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30312704 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
30312732 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30312797 CGAGTTTGGATGC
66 CGAGTTCGGATGC
30312810 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:30312824 original size:46 final size:44
Alignment explanation
Indices: 30312631--30312825 Score: 141
Period size: 46 Copynumber: 4.2 Consensus size: 44
30312621 TGTAACCCGC
* * * * *
30312631 CCAT-AAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATCAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CAA
30312677 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CCATCAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---A
* * *
30312724 -CATTTC-A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TCAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAA
*
30312770 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAA
1 CCATCAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAA
30312814 CCATCCAAGTGA
1 CCAT-CAAGTGA
30312826 CATGTCACTT
Statistics
Matches: 121, Mismatches: 13, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
43 1 0.01
44 12 0.10
45 4 0.03
46 67 0.55
47 30 0.25
48 2 0.02
49 4 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (44 bp):
CCATCAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAA
Found at i:30313263 original size:29 final size:29
Alignment explanation
Indices: 30313231--30313286 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
30313221 ATTTAATACG
30313231 AACTTTGGAAAAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
* * *
30313260 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
30313287 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:30319309 original size:16 final size:18
Alignment explanation
Indices: 30319288--30319325 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
30319278 TAGGGGAAGA
30319288 GAATAAAA-AATTGG-AT
1 GAATAAAATAATTGGAAT
*
30319304 GAATAAAATACTTGGAAT
1 GAATAAAATAATTGGAAT
30319322 GAAT
1 GAAT
30319326 TCTCAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.53, C:0.03, G:0.18, T:0.26
Consensus pattern (18 bp):
GAATAAAATAATTGGAAT
Found at i:30323204 original size:30 final size:30
Alignment explanation
Indices: 30323180--30323272 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
30323170 GTGACTTGGT
30323180 CGTGTGAGACACACGGCTGGGTGACACGAC
1 CGTGTGAGACACACGGCTGGGTGACACGAC
*
30323210 CGTGTGAGACACACGGCTGGGCGACACGAC
1 CGTGTGAGACACACGGCTGGGTGACACGAC
* * *
30323240 CGTATGAGACACACGGCTGGGCGACACAAC
1 CGTGTGAGACACACGGCTGGGTGACACGAC
30323270 CGT
1 CGT
30323273 CTATCGTTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.25, C:0.29, G:0.34, T:0.12
Consensus pattern (30 bp):
CGTGTGAGACACACGGCTGGGTGACACGAC
Found at i:30323265 original size:15 final size:15
Alignment explanation
Indices: 30323185--30323267 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
30323175 TTGGTCGTGT
30323185 GAGACACACGGCTGG
1 GAGACACACGGCTGG
* * *
30323200 GTGACACGACCG-TGT
1 GAGACAC-ACGGCTGG
30323215 GAGACACACGGCTGG
1 GAGACACACGGCTGG
* * **
30323230 GCGACACGACCG-TAT
1 GAGACAC-ACGGCTGG
30323245 GAGACACACGGCTGG
1 GAGACACACGGCTGG
*
30323260 GCGACACA
1 GAGACACA
30323268 ACCGTCTATC
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
14 6 0.12
15 37 0.76
16 6 0.12
ACGTcount: A:0.27, C:0.29, G:0.35, T:0.10
Consensus pattern (15 bp):
GAGACACACGGCTGG
Found at i:30325187 original size:34 final size:34
Alignment explanation
Indices: 30325143--30325301 Score: 212
Period size: 34 Copynumber: 4.7 Consensus size: 34
30325133 ACATAAATCA
* *
30325143 CATATTATATAGCATGGGGGTTCACATACTACTT
1 CATACTATATAACATGGGGGTTCACATACTACTT
*
30325177 CATACTATATAACATGGGGATTCACATACTA-TGT
1 CATACTATATAACATGGGGGTTCACATACTACT-T
**
30325211 CATACTATATAACATGGGGGTTCACATACTACGC
1 CATACTATATAACATGGGGGTTCACATACTACTT
* ** *
30325245 CATACTATATAACATGAGGGTTTGCATACTACAT
1 CATACTATATAACATGGGGGTTCACATACTACTT
*
30325279 CATACTATATAACATGGGAGTTC
1 CATACTATATAACATGGGGGTTC
30325302 GCATGCTAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
33 1 0.01
34 108 0.99
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (34 bp):
CATACTATATAACATGGGGGTTCACATACTACTT
Found at i:30325586 original size:18 final size:19
Alignment explanation
Indices: 30325550--30325598 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
30325540 ATTAAGGACT
*
30325550 AATTTGAAACAAAACT-AAA
1 AATTTTAAA-AAAACTAAAA
*
30325569 AATTTTAAAAAAATTAAAA
1 AATTTTAAAAAAACTAAAA
30325588 AATTTTGAAAA
1 AATTTT-AAAA
30325599 CAGGGGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 17 0.65
20 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
AATTTTAAAAAAACTAAAA
Found at i:30329703 original size:13 final size:14
Alignment explanation
Indices: 30329678--30329706 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30329668 TATTTGAGTT
30329678 TGATGATTTTGGTA
1 TGATGATTTTGGTA
30329692 TGATGA-TTTGGTA
1 TGATGATTTTGGTA
30329705 TG
1 TG
30329707 TTTTGAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (14 bp):
TGATGATTTTGGTA
Found at i:30341360 original size:50 final size:50
Alignment explanation
Indices: 30341296--30341400 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 50
30341286 GGAACACACC
*
30341296 CGTGTGTTTTTAAATCATGACCAGTGAGCTACATGGCCTGGGCACACT-CT
1 CGTGTGTTTCTAAATCATGACCAGTGAGCTACATGGCCTGGGCACA-TGCT
* *
30341346 CGTGTGTTTCTAAATCGTGACCAGTGAGTTACATGGCCTGGGCACATGCT
1 CGTGTGTTTCTAAATCATGACCAGTGAGCTACATGGCCTGGGCACATGCT
30341396 CGTGT
1 CGTGT
30341401 CCTTAGTCCG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
49 1 0.02
50 50 0.98
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (50 bp):
CGTGTGTTTCTAAATCATGACCAGTGAGCTACATGGCCTGGGCACATGCT
Found at i:30343525 original size:25 final size:25
Alignment explanation
Indices: 30343473--30343525 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
30343463 TTTCATAATA
* * *
30343473 TAATTAATATAAACATGTTTTCTTT
1 TAATTAATATAAAAATGTATTCTAT
30343498 TAATTAATATAAAAATGTAATT-TAT
1 TAATTAATATAAAAATGT-ATTCTAT
30343523 TAA
1 TAA
30343526 ACTTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATTAATATAAAAATGTATTCTAT
Found at i:30348182 original size:21 final size:21
Alignment explanation
Indices: 30348137--30348182 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
30348127 TTAGCTATTT
*
30348137 TTATTTTATTTTTAATTTTAA
1 TTATTTTATTTTTAAATTTAA
30348158 -TATTTT-TGTTTTAAATTTAA
1 TTATTTTAT-TTTTAAATTTAA
30348178 TTATT
1 TTATT
30348183 ACATTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 17 0.77
21 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTTTATTTTTAAATTTAA
Found at i:30351854 original size:38 final size:38
Alignment explanation
Indices: 30351808--30351892 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 38
30351798 ATTTCTTTAT
* *
30351808 TTAC-ATTCTTTTCCAATAATCACTTTCGTTATTGCCA
1 TTACAATTCTTTTCCAATAATCACTCTCATTATTGCCA
**
30351845 TTACAATTCTTTTCGGATAATCACTCTCATTATTGCCA
1 TTACAATTCTTTTCCAATAATCACTCTCATTATTGCCA
*
30351883 TTACATTTCT
1 TTACAATTCT
30351893 GCTCTCACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 4 0.10
38 38 0.90
ACGTcount: A:0.25, C:0.24, G:0.06, T:0.46
Consensus pattern (38 bp):
TTACAATTCTTTTCCAATAATCACTCTCATTATTGCCA
Found at i:30351898 original size:26 final size:26
Alignment explanation
Indices: 30351868--30351917 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
30351858 CGGATAATCA
30351868 CTCTCA-TTATTGCCATTA-CATTTCTG
1 CTCTCACTT-TTGCCA-TAGCATTTCTG
30351894 CTCTCACTTTTGCCATAGCATTTC
1 CTCTCACTTTTGCCATAGCATTTC
30351918 CAGTTATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 18 0.82
27 2 0.09
ACGTcount: A:0.18, C:0.30, G:0.08, T:0.44
Consensus pattern (26 bp):
CTCTCACTTTTGCCATAGCATTTCTG
Found at i:30356201 original size:24 final size:24
Alignment explanation
Indices: 30356173--30356224 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30356163 TTAGTAGGTC
* *
30356173 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30356197 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30356221 AAAT
1 AAAT
30356225 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30358102 original size:24 final size:24
Alignment explanation
Indices: 30358074--30358125 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30358064 TTAGTAGGTC
* *
30358074 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30358098 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30358122 AAAT
1 AAAT
30358126 CTTCTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30358133 original size:24 final size:25
Alignment explanation
Indices: 30358081--30358133 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
30358071 GTCAAATAAA
* *
30358081 CTATGCTAATAAATGCTAAATATAT
1 CTATACTAATAAATACTAAATATAT
*
30358106 -TATACTAATAAATACTAAATCT-T
1 CTATACTAATAAATACTAAATATAT
30358129 CTATA
1 CTATA
30358134 AAGAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (25 bp):
CTATACTAATAAATACTAAATATAT
Found at i:30364403 original size:17 final size:17
Alignment explanation
Indices: 30364381--30364417 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
30364371 ATTAGTAAAC
30364381 AAAATAATGAAACTTTT
1 AAAATAATGAAACTTTT
30364398 AAAATAATGAAACTTTT
1 AAAATAATGAAACTTTT
30364415 AAA
1 AAA
30364418 GTGTTACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAATAATGAAACTTTT
Found at i:30364922 original size:3 final size:3
Alignment explanation
Indices: 30364914--30364952 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
30364904 AAATTTCACT
30364914 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30364953 AGAGTACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30368700 original size:2 final size:2
Alignment explanation
Indices: 30368693--30368727 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30368683 CTTCAAACTT
30368693 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 T
30368728 GTCATCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30371142 original size:12 final size:12
Alignment explanation
Indices: 30371120--30371158 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30371110 ACTGTTTCCC
*
30371120 AACAGAAGAAAA
1 AACAAAAGAAAA
*
30371132 AGCAAAAGAAAA
1 AACAAAAGAAAA
*
30371144 AATAAAAGAAAA
1 AACAAAAGAAAA
30371156 AAC
1 AAC
30371159 CAAGGAGAGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.03
Consensus pattern (12 bp):
AACAAAAGAAAA
Found at i:30371963 original size:17 final size:17
Alignment explanation
Indices: 30371938--30371973 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30371928 ACTTCCTCTG
30371938 TTTGCTGTTTGCTGCAA
1 TTTGCTGTTTGCTGCAA
* *
30371955 TTTGTTGTTTGCTGTAA
1 TTTGCTGTTTGCTGCAA
30371972 TT
1 TT
30371974 CTATCAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.56
Consensus pattern (17 bp):
TTTGCTGTTTGCTGCAA
Found at i:30372939 original size:465 final size:461
Alignment explanation
Indices: 30372072--30372943 Score: 1609
Period size: 465 Copynumber: 1.9 Consensus size: 461
30372062 TTCGGTAAAA
* * *
30372072 AACATAGCAGTTTTGGTTTTGCTGTTTGTTGCAATTTGGTTTAGTTTTAACATAGCTTATTTTAA
1 AACATAGCAGTTTTGATTTTGCTGTTTGCTGCAATTTGGTTTAGTTTTAACATACCTTATTTTAA
* *
30372137 GCTAAAAGATGGAGGTCGACAAAAAAAGAACGCTAAAAGATCAAGGACCATGTTGCTGAATTTAC
66 GCTAAAAGATGGAGGTCGACAAAAAAAGAACACTAAAAGATCAAGGAACATGTTGCTGAATTTAC
30372202 AGGAAGTAGTTGTTAACTACAACTTCTTTTTTCTGTATGAATGGCAAGAGAATGAAATCAATGAA
131 AGGAAGTAGTTGTTAACTACAACTTCTTTTTTCTGTATGAATGGCAAGAGAATGAAATCAATGAA
30372267 TCAAATTTTGTTTTTTCCTTCTATTTTTCTACTTTTTATGTGTTCGTCAAAACTTTTAACAATGT
196 TCAAATTTTGTTTTTTCCTTCTATTTTTCTACTTTTTATGTGTTCGTCAAAACTTTTAACAATGT
*
30372332 GTTGTCTATTATTTTGATGATGCATGTAAATTGTTCGATGAAATTTCTGAGTGAAACATTGTTAC
261 GTTGTCTATTATTTTGATGATGCATGTAAATTGTTCGATGAAATTCCTGAGTGAAACATTGTTAC
30372397 CTGAAATTAATTGGTTATTCACAGTGCTTTTCTTAAGGCAATGCCTTTGAGGGATGTTGTTTCTT
326 CTGAAATTAATTGGTTATTCACAGTGCTTTTCTTAAGGCAATGCCTTTGAGGGATGTTGTTTCTT
30372462 GGTCTGTCATGTTGCAAAAGGACTAGTGATATTCTTGACATATATACATTAGTTAGATAGATTTT
391 GGTCTGTCATGTTGCAAAAGGACTAGTGATATTCTTGACATATATACATTAGTTAGATAGATTTT
30372527 AGTTTT
456 AGTTTT
30372533 AACATAGCAGTTTTGATTTTGCTGTTTGCTGCAATTTGGTTTAGTTTTAACATACCTTATTTTAA
1 AACATAGCAGTTTTGATTTTGCTGTTTGCTGCAATTTGGTTTAGTTTTAACATACCTTATTTTAA
30372598 GCTAAAAGATGGAGGTCGACAAAAAAAGAACACTAAAAGATCAAGGAACATGTTGCTGAATTTAC
66 GCTAAAAGATGGAGGTCGACAAAAAAAGAACACTAAAAGATCAAGGAACATGTTGCTGAATTTAC
* *
30372663 AGGAAGTAGTTGTTAACTACAGCTTCTTCTTTTTTTCTGTATGGATGGCAAGAGAATGAAATCAA
131 AGGAAGTAGTTGTTAACTACA---ACTTC-TTTTTTCTGTATGAATGGCAAGAGAATGAAATCAA
30372728 TGAATCAAATTTTGTTTTTTCCTTCTATTTTTCTACTTTTTATGTGTTCGTCAAAACTTTTAACA
192 TGAATCAAATTTTGTTTTTTCCTTCTATTTTTCTACTTTTTATGTGTTCGTCAAAACTTTTAACA
*
30372793 ATGTGTTGTCTATTATTTTGATGATGCATGTAAATTGTTTGATGAAATTCCTGAGTGAAACATTG
257 ATGTGTTGTCTATTATTTTGATGATGCATGTAAATTGTTCGATGAAATTCCTGAGTGAAACATTG
* *
30372858 TTACCTGGAATTAATTGGTTATTCACAGTGCTTTTCTTAAGGCAATGCTTTTGAGGGATGTTGTT
322 TTACCTGAAATTAATTGGTTATTCACAGTGCTTTTCTTAAGGCAATGCCTTTGAGGGATGTTGTT
30372923 TCTTGGTCTGTCATGTTGCAA
387 TCTTGGTCTGTCATGTTGCAA
30372944 CTTTACTGAA
Statistics
Matches: 396, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
461 146 0.37
464 4 0.01
465 246 0.62
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (461 bp):
AACATAGCAGTTTTGATTTTGCTGTTTGCTGCAATTTGGTTTAGTTTTAACATACCTTATTTTAA
GCTAAAAGATGGAGGTCGACAAAAAAAGAACACTAAAAGATCAAGGAACATGTTGCTGAATTTAC
AGGAAGTAGTTGTTAACTACAACTTCTTTTTTCTGTATGAATGGCAAGAGAATGAAATCAATGAA
TCAAATTTTGTTTTTTCCTTCTATTTTTCTACTTTTTATGTGTTCGTCAAAACTTTTAACAATGT
GTTGTCTATTATTTTGATGATGCATGTAAATTGTTCGATGAAATTCCTGAGTGAAACATTGTTAC
CTGAAATTAATTGGTTATTCACAGTGCTTTTCTTAAGGCAATGCCTTTGAGGGATGTTGTTTCTT
GGTCTGTCATGTTGCAAAAGGACTAGTGATATTCTTGACATATATACATTAGTTAGATAGATTTT
AGTTTT
Found at i:30375254 original size:12 final size:12
Alignment explanation
Indices: 30375237--30375261 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30375227 TTACGGAGCG
30375237 AGAAGAAAGAGA
1 AGAAGAAAGAGA
30375249 AGAAGAAAGAGA
1 AGAAGAAAGAGA
30375261 A
1 A
30375262 TGATCTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGAAGAAAGAGA
Found at i:30375490 original size:21 final size:21
Alignment explanation
Indices: 30375466--30375531 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
30375456 GTCTTGAATT
30375466 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
30375487 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
30375512 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
30375532 TGGTTGGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:30376455 original size:24 final size:24
Alignment explanation
Indices: 30376423--30376470 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
30376413 CGAGGCCAAA
*
30376423 GTTTTTTTAGTTAAAAGTAAGAAG
1 GTTTTTTTAGTTAAAAATAAGAAG
30376447 GTTTTTTTAGTTAAAAATAAGAAG
1 GTTTTTTTAGTTAAAAATAAGAAG
30376471 CATAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (24 bp):
GTTTTTTTAGTTAAAAATAAGAAG
Found at i:30376895 original size:18 final size:19
Alignment explanation
Indices: 30376858--30376901 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
30376848 TTAATTTAAA
*
30376858 ATATCAATTTACTAAATAT
1 ATATAAATTTACTAAATAT
*
30376877 ATATAAATTTA-TTAATAT
1 ATATAAATTTACTAAATAT
*
30376895 ATGTAAA
1 ATATAAA
30376902 AACAACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (19 bp):
ATATAAATTTACTAAATAT
Found at i:30377021 original size:20 final size:19
Alignment explanation
Indices: 30376977--30377022 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
30376967 CATCCAAACA
30376977 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
30376996 CTAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCA-TTT
30377016 CCAGAAA
1 CCAGAAA
30377023 TTATTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:30379146 original size:17 final size:17
Alignment explanation
Indices: 30379124--30379158 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30379114 ATAAGCTGCA
30379124 ACCCAAATTAGAGTCTT
1 ACCCAAATTAGAGTCTT
30379141 ACCCAAATTAGAGTCTT
1 ACCCAAATTAGAGTCTT
30379158 A
1 A
30379159 ACTACCCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (17 bp):
ACCCAAATTAGAGTCTT
Found at i:30387861 original size:40 final size:40
Alignment explanation
Indices: 30387817--30387896 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
30387807 AAATTTAGAC
30387817 ATATTAACTAATATATGTAATAAGTGTACCTGTTAATGAT
1 ATATTAACTAATATATGTAATAAGTGTACCTGTTAATGAT
*
30387857 ATATTAACTAATATATGTAATAAGTGTACCTTTTAATGAT
1 ATATTAACTAATATATGTAATAAGTGTACCTGTTAATGAT
30387897 TTGTGCTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (40 bp):
ATATTAACTAATATATGTAATAAGTGTACCTGTTAATGAT
Found at i:30389076 original size:72 final size:72
Alignment explanation
Indices: 30388968--30389110 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 72
30388958 AGAAAATCAG
*
30388968 GTCTAAAACCAGTGGCAGTTCTTTGTCTTTTACTCCTCCTAGGTTCAACATCATTGTTAAGAACA
1 GTCTAAAACCAATGGCAGTTCTTTGTCTTTTACTCCTCCTAGGTTCAACATCATTGTTAAGAACA
30389033 TCTCTAA
66 TCTCTAA
* *
30389040 GTCTAAAACCAATGGCAAG-TCTTTGTCTTTTACTCCTTCTAGGTTCAACATCGTTGTTAAGAAC
1 GTCTAAAACCAATGGC-AGTTCTTTGTCTTTTACTCCTCCTAGGTTCAACATCATTGTTAAGAAC
30389104 ATCTCTA
65 ATCTCTA
30389111 TTATGTGTAC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 65 0.97
73 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (72 bp):
GTCTAAAACCAATGGCAGTTCTTTGTCTTTTACTCCTCCTAGGTTCAACATCATTGTTAAGAACA
TCTCTAA
Found at i:30389887 original size:21 final size:21
Alignment explanation
Indices: 30389863--30389906 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30389853 TTCCTATGAG
30389863 TAAGAATTTTTAAAGAAGGTC
1 TAAGAATTTTTAAAGAAGGTC
30389884 TAAGAATTTTTAAAGAAGGTC
1 TAAGAATTTTTAAAGAAGGTC
30389905 TA
1 TA
30389907 GCATGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (21 bp):
TAAGAATTTTTAAAGAAGGTC
Found at i:30393341 original size:15 final size:15
Alignment explanation
Indices: 30393321--30393349 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30393311 TTAGAATTAA
30393321 TTCTTGAAGGATTTT
1 TTCTTGAAGGATTTT
30393336 TTCTTGAAGGATTT
1 TTCTTGAAGGATTT
30393350 CACACATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (15 bp):
TTCTTGAAGGATTTT
Found at i:30395040 original size:15 final size:15
Alignment explanation
Indices: 30395020--30395048 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30395010 TTAGAATTAA
30395020 TTCTTGAAGGATTTT
1 TTCTTGAAGGATTTT
30395035 TTCTTGAAGGATTT
1 TTCTTGAAGGATTT
30395049 CACACATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (15 bp):
TTCTTGAAGGATTTT
Found at i:30396740 original size:15 final size:15
Alignment explanation
Indices: 30396720--30396748 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30396710 TTAGAATTAA
30396720 TTCTTGAAGGATTTT
1 TTCTTGAAGGATTTT
30396735 TTCTTGAAGGATTT
1 TTCTTGAAGGATTT
30396749 CACACATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (15 bp):
TTCTTGAAGGATTTT
Found at i:30400692 original size:29 final size:29
Alignment explanation
Indices: 30400650--30400728 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 29
30400640 TAAACTATGG
* *
30400650 ATTTAATCCCTATACTTTATT-TTG-TTCAA
1 ATTTAGTCCTTATACTTT-TTATTGATT-AA
30400679 ATTTAGTCCTTATACTTTTTGAATTGATTAA
1 ATTTAGTCCTTATACTTTTT--ATTGATTAA
*
30400710 ATTTAGTCCTTGTACTTTT
1 ATTTAGTCCTTATACTTTT
30400729 CAAGTTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 16 0.37
31 23 0.53
32 2 0.05
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (29 bp):
ATTTAGTCCTTATACTTTTTATTGATTAA
Found at i:30400830 original size:174 final size:173
Alignment explanation
Indices: 30400447--30400830 Score: 434
Period size: 174 Copynumber: 2.2 Consensus size: 173
30400437 AAATTTGTCC
* *
30400447 ATTAATCATTGTACTATGCATAAATTGTGAATTTAATCTTATACTTTAATTAGATCAAATTTAGC
1 ATTAATC-TTGTACTATGCATAAATTATGAATTTAATCCTATACTTTAATTAGATCAAATTTAGC
*
30400512 CCATATACTTTTTGAAATGATTAATTTTAGTCTCTCTACTTTTCAAATTTTGAAATTACAATCCT
65 CCATATACTTTTTGAAATGATTAAATTTAGTCTCTCTACTTTTCAAATTTTGAAATTACAATCCT
** * * *
30400577 AAACCCAAACTGTAGAAGTGAAATCTAGTTGGCTAAATAATGCT
130 AAACCCAAACAATAGAAGTGAAATCCAATTGGCTAAATAATACT
** * * * * *
30400621 ATTAATCTTGTAAC-ATGTGTAAACTATGGATTTAATCCCTATACTTTATTTTGTTCAAATTTAG
1 ATTAATCTTGT-ACTATGCATAAATTATGAATTTAAT-CCTATACTTTAATTAGATCAAATTTAG
* * * * *
30400685 TCCTTATACTTTTTGAATTGATTAAATTTAGTC-CTTGTACTTTTCAAGTTTTGAAATTACAA-C
64 CCCATATACTTTTTGAAATGATTAAATTTAGTCTC-TCTACTTTTCAAATTTTGAAATTACAATC
* * * * **
30400748 CTTAACTCAAACAATAGCAA-TTAAATCCAATTGGTTAAATTTTACT
128 CTAAACCCAAACAATAG-AAGTGAAATCCAATTGGCTAAATAATACT
* *
30400794 ATTAATTTTGTACTATGCATAAAGTTATAAATTTAAT
1 ATTAATCTTGTACTATGCATAAA-TTATGAATTTAAT
30400831 TCACATTCTT
Statistics
Matches: 172, Mismatches: 32, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
172 2 0.01
173 72 0.42
174 98 0.57
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (173 bp):
ATTAATCTTGTACTATGCATAAATTATGAATTTAATCCTATACTTTAATTAGATCAAATTTAGCC
CATATACTTTTTGAAATGATTAAATTTAGTCTCTCTACTTTTCAAATTTTGAAATTACAATCCTA
AACCCAAACAATAGAAGTGAAATCCAATTGGCTAAATAATACT
Found at i:30407985 original size:39 final size:40
Alignment explanation
Indices: 30407884--30408107 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
30407874 TCGAATGATG
* *
30407884 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
30407923 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
30407964 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
30408003 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
30408042 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
30408081 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30408108 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
39 74 0.45
40 82 0.49
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:30408060 original size:79 final size:80
Alignment explanation
Indices: 30407884--30408105 Score: 299
Period size: 79 Copynumber: 2.8 Consensus size: 80
30407874 TCGAATGATG
* * * *
30407884 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
* *
30407948 TGTGCAAGTTACTAAT
65 GGTGCAAGTTACTAAA
30407964 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
30408026 GGTGCGAGTTACTAAA
65 GGTGCAAGTTACTAAA
* * * *
30408042 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
30408106 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
78 35 0.28
79 61 0.48
80 31 0.24
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCAAGTTACTAAA
Found at i:30408138 original size:79 final size:79
Alignment explanation
Indices: 30407884--30408140 Score: 229
Period size: 79 Copynumber: 3.3 Consensus size: 79
30407874 TCGAATGATG
* * * * * *
30407884 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAATA-CCGGGCTAAG-CCCGAAGGCAT
* ** * *
30407947 TTGTGCAAGTTACTAAT
63 TGGAACGAGTTACTAAA
* * *
30407964 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGG
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
**
30408028 TGCGAGTTACTAAA
66 AACGAGTTACTAAA
* *
30408042 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
* *
30408106 TGAACGAG-TAGCTATA
64 GGAACGAGTTA-CTAAA
*
30408122 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
30408141 TACGTGATTC
Statistics
Matches: 150, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 33 0.22
79 76 0.51
80 41 0.27
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
AACGAGTTACTAAA
Found at i:30410379 original size:170 final size:169
Alignment explanation
Indices: 30410090--30410425 Score: 505
Period size: 170 Copynumber: 2.0 Consensus size: 169
30410080 GTAATAATGA
* * * *
30410090 AAAAAATGCATGTATGTCAAACGTGACAATAATAATGAAATTAATGTGAGACGGTGGTTTGGCAT
1 AAAAAACGCATGTATGTCAAACGTGAAAATAATAATGAAATCAATGTGAGACGATGGTTTGGCAT
* * * *
30410155 CTCTATATTTGGTTTGACATCCAGGCTTAGTATGGGATGTTACAACATATGCTTGAGAAATTCAA
66 CTCAATATTTGGCTTGACATCCAAGCTTAGTACGGGATGTTACAACATATGCTTGAGAAATTCAA
*
30410220 TGCTAGTAGTAGAAAACTTGATGATAATCTCATTATTAGT
131 TGCTAGTAGTAGAAAA-TTGATGATAATATCATTATTAGT
*
30410260 AAAAAACGCATGTATGTCAAACGTGAAAATGATAATGAAATCAATGTGAGACGATGGTTTGGCAT
1 AAAAAACGCATGTATGTCAAACGTGAAAATAATAATGAAATCAATGTGAGACGATGGTTTGGCAT
* * *
30410325 CTCAATGTTCT-GCTTGACGTCCAAGC-TAGGTACGGGGTGTTACAACATATGCTTGAGAAATTC
66 CTCAATATT-TGGCTTGACATCCAAGCTTA-GTACGGGATGTTACAACATATGCTTGAGAAATTC
*
30410388 AATGCTAGTAGTAGAAAATTGATGATATTATCATTATT
129 AATGCTAGTAGTAGAAAATTGATGATAATATCATTATT
30410426 GGTAGAATGA
Statistics
Matches: 150, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
169 20 0.13
170 129 0.86
171 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (169 bp):
AAAAAACGCATGTATGTCAAACGTGAAAATAATAATGAAATCAATGTGAGACGATGGTTTGGCAT
CTCAATATTTGGCTTGACATCCAAGCTTAGTACGGGATGTTACAACATATGCTTGAGAAATTCAA
TGCTAGTAGTAGAAAATTGATGATAATATCATTATTAGT
Found at i:30410830 original size:16 final size:17
Alignment explanation
Indices: 30410791--30410832 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
30410781 TATTATATAT
30410791 TTTTAAATAGCTAAGGG
1 TTTTAAATAGCTAAGGG
30410808 TTTTAAATAGCTAAGGG
1 TTTTAAATAGCTAAGGG
*
30410825 TTTAAAAT
1 TTTTAAAT
30410833 GGTAAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (17 bp):
TTTTAAATAGCTAAGGG
Found at i:30413652 original size:20 final size:20
Alignment explanation
Indices: 30413623--30413662 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30413613 AACATATAAT
*
30413623 TATATTTTAAAAATAAAATA
1 TATATCTTAAAAATAAAATA
*
30413643 TATATCTTAAAACTAAAATA
1 TATATCTTAAAAATAAAATA
30413663 GCATGTCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATCTTAAAAATAAAATA
Found at i:30421960 original size:58 final size:57
Alignment explanation
Indices: 30421868--30422026 Score: 182
Period size: 58 Copynumber: 2.8 Consensus size: 57
30421858 TAGTATTATC
* * *
30421868 TATTATGATTTT-TT-AATT-TATATAATAATAATTATATTAAGAATGTTATTAAATTA
1 TATTAT-ATTTTATTAAATTATATTTAATAATAATTATATTAA-AATATGATTAAATTA
*
30421924 TATTATATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTA
1 TATTATATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAATTA
* * * *
30421981 T-TTATTATTTTTAATAAAATATATTTAACAATAATTTTATTAAAAT
1 TATTA-TA-TTTTATTAAATTATATTTAATAATAATTATATTAAAAT
30422027 TTAATAACAA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
55 5 0.06
56 11 0.12
57 20 0.22
58 53 0.60
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.52
Consensus pattern (57 bp):
TATTATATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAATTA
Found at i:30422190 original size:44 final size:46
Alignment explanation
Indices: 30422118--30422209 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 46
30422108 TATTATAACA
* *
30422118 TCTATTTCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTAT
1 TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAACTCTAT
* *
30422162 TCTATTCCATTCAACCAAACA-ATTGAATTACTGATTACAATTCTAT
1 TCTATTCCATTCAACCAAACACA-AGAATTACTGATTACAACTCTAT
30422208 TC
1 TC
30422210 AATTACAGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 25 0.61
45 2 0.05
46 13 0.32
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (46 bp):
TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAACTCTAT
Found at i:30426583 original size:16 final size:16
Alignment explanation
Indices: 30426562--30426600 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30426552 TAAATTACTG
* *
30426562 ATTACAACTCTATTCT
1 ATTACAACTATATTCC
30426578 ATTACAACTATATTCC
1 ATTACAACTATATTCC
30426594 ATTACAA
1 ATTACAA
30426601 TGAACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTACAACTATATTCC
Found at i:30428145 original size:3 final size:3
Alignment explanation
Indices: 30428139--30428164 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30428129 CTTGTTTTAA
30428139 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
30428165 AGTGATGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.