Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 321 of 378
Found at i:97648606 original size:22 final size:22
Alignment explanation
Indices: 97648581--97648623 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
97648571 ATGTTATATT
97648581 TTAA-TAAAAATTAAAAGAAAAG
1 TTAAGTAAAAA-TAAAAGAAAAG
* *
97648603 TTAAGTTAAAATAAAATAAAA
1 TTAAGTAAAAATAAAAGAAAA
97648624 TAAACAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (22 bp):
TTAAGTAAAAATAAAAGAAAAG
Found at i:97649455 original size:45 final size:45
Alignment explanation
Indices: 97649382--97649504 Score: 126
Period size: 45 Copynumber: 2.7 Consensus size: 45
97649372 CATTGTTTGA
* * * *
97649382 GAAAAGGGAAAGACCAT-GATTGAGAGATA-TCATGACAATATAATC-
1 GAAAAGGAAAAGACCATAG-TTGAAAGATACT-ACGACAATAT-ACCG
*
97649427 GAAAAGGAAAAGACCATAGTTGAAAGATACTACGACACTATACCG
1 GAAAAGGAAAAGACCATAGTTGAAAGATACTACGACAATATACCG
* *
97649472 GAAAATGATCAAGACCATAGTTGAAAGATACTA
1 GAAAAGGA-AAAGACCATAGTTGAAAGATACTA
97649505 TGGCATCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
44 2 0.03
45 40 0.60
46 25 0.37
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (45 bp):
GAAAAGGAAAAGACCATAGTTGAAAGATACTACGACAATATACCG
Found at i:97655068 original size:17 final size:17
Alignment explanation
Indices: 97655046--97655080 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
97655036 TGATCCCCCA
97655046 AATAGATAGATTAAGCT
1 AATAGATAGATTAAGCT
97655063 AATAGATAGATTAAGCT
1 AATAGATAGATTAAGCT
97655080 A
1 A
97655081 TCTCGATTTC
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:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (17 bp):
AATAGATAGATTAAGCT
Found at i:97656781 original size:6 final size:6
Alignment explanation
Indices: 97656743--97656780 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
97656733 ATAAGATCTT
* *
97656743 TCGGGT TCGGGC TCGGGC TCGGGC TCGGGC TCAGGC TC
1 TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TCGGGC TC
97656781 AAGCTTGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.32, G:0.45, T:0.21
Consensus pattern (6 bp):
TCGGGC
Found at i:97664077 original size:128 final size:128
Alignment explanation
Indices: 97663849--97664098 Score: 437
Period size: 128 Copynumber: 2.0 Consensus size: 128
97663839 AAGTTGAAGA
* *
97663849 ATGTAAAAGTATGTATTTCTTTTGGCCAAAAGATAGCTTTTCAGCCTATTACAACCCAATTTATG
1 ATGTAAAAGTATGTATTTCTCTCGGCCAAAAGATAGCTTTTCAGCCTATTACAACCCAATTTATG
* *
97663914 TGACCAAAATATCCCTCAATGTCTAATATTGATTGGTATTGAGGTTGGACAATGACTACTGCT
66 TGACCAAAATATCCCTCAATGCCTAATATTGATTGGTATTGAGGTTGGAAAATGACTACTGCT
*
97663977 ATGTAAAAGTATGTATTTCTCTCGGCCAAAAGATAGCTTTTCAGCTTATTACAACCCAATTTATG
1 ATGTAAAAGTATGTATTTCTCTCGGCCAAAAGATAGCTTTTCAGCCTATTACAACCCAATTTATG
* *
97664042 TGACCAAAATATCCCTCAATGCCTAATTTTGATTGGTGTTGAGGTTGGAAAATGACT
66 TGACCAAAATATCCCTCAATGCCTAATATTGATTGGTATTGAGGTTGGAAAATGACT
97664099 GCTATTGCAG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (128 bp):
ATGTAAAAGTATGTATTTCTCTCGGCCAAAAGATAGCTTTTCAGCCTATTACAACCCAATTTATG
TGACCAAAATATCCCTCAATGCCTAATATTGATTGGTATTGAGGTTGGAAAATGACTACTGCT
Found at i:97677105 original size:28 final size:28
Alignment explanation
Indices: 97677064--97677121 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
97677054 TAAGTGTGAC
97677064 TCCTATTTCAGTCAAGTTTGAGAAATAA
1 TCCTATTTCAGTCAAGTTTGAGAAATAA
*
97677092 TCCTATTTCTGTCAAGTTTGAGAAATAA
1 TCCTATTTCAGTCAAGTTTGAGAAATAA
97677120 TC
1 TC
97677122 TTCTAGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (28 bp):
TCCTATTTCAGTCAAGTTTGAGAAATAA
Found at i:97679888 original size:10 final size:10
Alignment explanation
Indices: 97679873--97679902 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
97679863 TAAATATTTG
97679873 AATAAAAATA
1 AATAAAAATA
97679883 AAT-AAAATA
1 AATAAAAATA
97679892 AATAAAAATA
1 AATAAAAATA
97679902 A
1 A
97679903 TATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AATAAAAATA
Found at i:97679991 original size:19 final size:21
Alignment explanation
Indices: 97679963--97680020 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 21
97679953 ACCCTTTCAC
97679963 TTTTTC-TTT-TAATTTTATA
1 TTTTTCTTTTATAATTTTATA
*
97679982 TTTTTGTTTTATAATTTTATAA
1 TTTTTCTTTTATAATTTTAT-A
**
97680004 TTTATAATTTTATAATT
1 TTT-TTCTTTTATAATT
97680021 CAATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 5 0.16
20 3 0.09
21 9 0.28
22 4 0.12
23 11 0.34
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTCTTTTATAATTTTATA
Found at i:97680009 original size:7 final size:8
Alignment explanation
Indices: 97679972--97680020 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
97679962 CTTTTTCTTT
97679972 TAATTTTA
1 TAATTTTA
97679980 T-ATTTT-
1 TAATTTTA
*
97679986 T-GTTTTA
1 TAATTTTA
97679993 TAATTTTA
1 TAATTTTA
97680001 TAA-TTTA
1 TAATTTTA
97680008 TAATTTTA
1 TAATTTTA
97680016 TAATT
1 TAATT
97680021 CAATTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 5 0.14
7 13 0.36
8 18 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
TAATTTTA
Found at i:97680009 original size:15 final size:15
Alignment explanation
Indices: 97679989--97680020 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
97679979 ATATTTTTGT
97679989 TTTATAATTTTATAA
1 TTTATAATTTTATAA
97680004 TTTATAATTTTATAA
1 TTTATAATTTTATAA
97680019 TT
1 TT
97680021 CAATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATAATTTTATAA
Found at i:97680078 original size:15 final size:15
Alignment explanation
Indices: 97680053--97680087 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
97680043 AGCTGAGTTG
*
97680053 TTTTA-TTTTTATAA
1 TTTTATTTTTTAAAA
97680067 TTTTATTTTTTAAAA
1 TTTTATTTTTTAAAA
97680082 TTTTAT
1 TTTTAT
97680088 AATTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTTTTAAAA
Found at i:97682464 original size:9 final size:9
Alignment explanation
Indices: 97682450--97682474 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
97682440 ACACATCCAC
97682450 TAAAATTAA
1 TAAAATTAA
97682459 TAAAATTAA
1 TAAAATTAA
97682468 TAAAATT
1 TAAAATT
97682475 TTATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAATTAA
Found at i:97685245 original size:46 final size:44
Alignment explanation
Indices: 97685141--97685248 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
97685131 TGTCTTTGAC
** * * *
97685141 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
97685185 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
97685231 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
97685249 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:97691382 original size:46 final size:44
Alignment explanation
Indices: 97691278--97691385 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
97691268 TGTCTTTGAC
** * * *
97691278 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
97691322 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
97691368 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
97691386 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:97696912 original size:64 final size:64
Alignment explanation
Indices: 97696831--97697013 Score: 185
Period size: 64 Copynumber: 2.8 Consensus size: 64
97696821 AGACATTATG
* *
97696831 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
97696895 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAA-AGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
97696959 AA
63 AA
* * * *
97696961 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
97697014 CGAACTATAT
Statistics
Matches: 96, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 13 0.14
63 6 0.06
64 24 0.25
65 18 0.19
66 16 0.17
67 18 0.19
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:97696991 original size:65 final size:66
Alignment explanation
Indices: 97696864--97696991 Score: 170
Period size: 65 Copynumber: 1.9 Consensus size: 66
97696854 TACTATGTGT
* * * *
97696864 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAA
97696929 GG
65 GG
* *
97696931 ACACCATGTAGACAA-AGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
97696992 TTCACCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
65 23 0.43
66 14 0.26
67 17 0.31
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAG
G
Found at i:97698106 original size:2 final size:2
Alignment explanation
Indices: 97698099--97698132 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
97698089 TCATGACATG
97698099 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97698133 GACTAGTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97703831 original size:30 final size:30
Alignment explanation
Indices: 97703797--97703857 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
97703787 TCATTAACTC
97703797 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
97703827 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
97703857 A
1 A
97703858 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:97710395 original size:13 final size:13
Alignment explanation
Indices: 97710379--97710412 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
97710369 ATCACACACT
97710379 GGCGTGTCACATG
1 GGCGTGTCACATG
97710392 GGCGTGTCACATG
1 GGCGTGTCACATG
*
97710405 GGCATGTC
1 GGCGTGTC
97710413 CCTGTCGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.38, T:0.24
Consensus pattern (13 bp):
GGCGTGTCACATG
Found at i:97716238 original size:68 final size:65
Alignment explanation
Indices: 97716166--97716331 Score: 167
Period size: 66 Copynumber: 2.5 Consensus size: 65
97716156 CATCATGTGT
* * *
97716166 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATAC-AGTGAAGGACACCA
97716229 TGTAG
61 TGTAG
** * *
97716234 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCAGGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACA-GTGAAGGACACCATGTA
97716299 G
65 G
* * *
97716300 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTC
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTC
97716332 ACGTGGGTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
63 1 0.01
64 23 0.27
65 14 0.16
66 34 0.40
68 13 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACAGTGAAGGACACCATGTAG
Found at i:97716271 original size:64 final size:64
Alignment explanation
Indices: 97716190--97716371 Score: 192
Period size: 66 Copynumber: 2.8 Consensus size: 64
97716180 AGACATTATG
* * *
97716190 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
97716254 ATGTAGCTAGGTCGCATGCGTGGTTC-AGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
97716318 AA
63 AA
* * * *
97716320 AT-TGGCTAGGTCACGTGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAG
97716372 TCGAACTATA
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 24 0.25
65 20 0.21
66 32 0.33
67 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:97719319 original size:21 final size:22
Alignment explanation
Indices: 97719290--97719334 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
97719280 TGGAATTTGA
* *
97719290 TTTTGGTTTTGAATTTTA-AAT
1 TTTTAGTTTTGAAATTTATAAT
97719311 TTTTAGTTTTGAAATTTATAAT
1 TTTTAGTTTTGAAATTTATAAT
97719333 TT
1 TT
97719335 ATGATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTTAGTTTTGAAATTTATAAT
Found at i:97721164 original size:31 final size:31
Alignment explanation
Indices: 97721129--97721192 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
97721119 CCTTTTCATG
*
97721129 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTAGGCCGAAGCCT
* **
97721160 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTCCATAACACTAGGCCGAAGCCT
97721191 TT
1 TT
97721193 ACTGTAAACG
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:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTAGGCCGAAGCCT
Found at i:97721435 original size:24 final size:24
Alignment explanation
Indices: 97721403--97721526 Score: 196
Period size: 24 Copynumber: 5.2 Consensus size: 24
97721393 GGCCTAGACT
*
97721403 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
97721427 CTTTCAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
97721451 CTTTT-ATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
97721474 CTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
97721498 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
97721522 CTTTT
1 CTTTT
97721527 TCACTTCCTC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
23 23 0.24
24 71 0.76
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:97721463 original size:47 final size:48
Alignment explanation
Indices: 97721403--97721525 Score: 194
Period size: 47 Copynumber: 2.6 Consensus size: 48
97721393 GGCCTAGACT
* *
97721403 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATAAGCC
**
97721451 CTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATAAGCC
*
97721498 CTTTTGATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
97721526 TTCACTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 43 0.61
48 27 0.39
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATAAGCC
Found at i:97721601 original size:20 final size:20
Alignment explanation
Indices: 97721576--97721636 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
97721566 TTATGATTAC
97721576 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
97721596 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
97721616 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
97721636 A
1 A
97721637 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:97722987 original size:27 final size:27
Alignment explanation
Indices: 97722966--97723333 Score: 406
Period size: 27 Copynumber: 13.7 Consensus size: 27
97722956 AAGGGTATTT
*
97722966 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
97722993 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
97723020 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
97723047 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
*
97723074 -CGATAATTCTGTAAATCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
** * **
97723101 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
97723128 CAGTAATTCTAT-AATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
97723154 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
97723181 CAATAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
97723208 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
97723235 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
** * **
97723262 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
97723289 CAGTAATTCTATAAAGT-GAGGGTAAAA
1 TAGTAATTCTGTAAA-TCGAGGGTAAAA
**
97723316 CGGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
97723334 GGAGTACTTT
Statistics
Matches: 297, Mismatches: 33, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
26 30 0.10
27 262 0.88
28 5 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:97723051 original size:81 final size:81
Alignment explanation
Indices: 97722967--97723332 Score: 483
Period size: 81 Copynumber: 4.5 Consensus size: 81
97722957 AGGGTATTTT
* * *
97722967 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAC
*
97723032 AAATCGAGGGTAAAAT
66 AAATCGAGGGTAAAAC
* * *
97723048 AGTAATTCTGTAAA-CTGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAACGGTAATTTT
1 AGTAATTCTGTAAATC-GAGGGTAAAACAG-TAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
97723111 ACAAATCGAGGGTAAAAC
64 ACAAATCGAGGGTAAAAC
* * **
97723129 AGTAATTCTAT-AATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGT
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAC
97723193 AAA-CTGAGGGTAAAAC
66 AAATC-GAGGGTAAAAC
* * * * *
97723209 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTTTA
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGGTAAAACAGTAATTCTA
97723273 CAAATCGAGGGTAAAAC
65 CAAATCGAGGGTAAAAC
* *
97723290 AGTAATTCTATAAAGT-GAGGGTAAAACGGTAATTCTGTAAATC
1 AGTAATTCTGTAAA-TCGAGGGTAAAACAGTAATTCTGTAAATC
97723333 GGGAGTACTT
Statistics
Matches: 248, Mismatches: 27, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
79 1 0.00
80 69 0.28
81 175 0.71
82 3 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAC
AAATCGAGGGTAAAAC
Found at i:97723332 original size:54 final size:54
Alignment explanation
Indices: 97722967--97723333 Score: 467
Period size: 54 Copynumber: 6.8 Consensus size: 54
97722957 AGGGTATTTT
* * ** *
97722967 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
**
97723021 AGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAAC
* * **
97723075 -GATAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 AG-TAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* *
97723129 AGTAATTCTAT-AATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * *
97723182 AATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * **
97723236 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
97723290 AGTAATTCTATAAAGT-GAGGGTAAAACGGTAATTCTGTAAATCG
1 AGTAATTCTATAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCG
97723334 GGAGTACTTT
Statistics
Matches: 276, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
53 49 0.18
54 225 0.82
55 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (54 bp):
AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:97724909 original size:12 final size:11
Alignment explanation
Indices: 97724892--97724916 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97724882 ATTATATATA
97724892 AATTTTTAGTC
1 AATTTTTAGTC
97724903 AATTTTTAGTC
1 AATTTTTAGTC
97724914 AAT
1 AAT
97724917 ATATAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (11 bp):
AATTTTTAGTC
Found at i:97726549 original size:30 final size:30
Alignment explanation
Indices: 97726508--97726583 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
97726498 TTACGAGGAT
*
97726508 GTTCAGCAGCTTGGGAAGACCCGATATCTC
1 GTTCAGGAGCTTGGGAAGACCCGATATCTC
*
97726538 GTTCAGGAGCTTGGGAAGACTCGATATCTC
1 GTTCAGGAGCTTGGGAAGACCCGATATCTC
*
97726568 GTTCAGGATCTTGGGA
1 GTTCAGGAGCTTGGGA
97726584 TTGAGAAGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (30 bp):
GTTCAGGAGCTTGGGAAGACCCGATATCTC
Found at i:97726643 original size:36 final size:35
Alignment explanation
Indices: 97726522--97726653 Score: 132
Period size: 36 Copynumber: 3.9 Consensus size: 35
97726512 AGCAGCTTGG
*
97726522 GAAGACCCGATATCTCGTTCAGGAGCTT-G---G-
1 GAAGACCCGATATCTCATTCAGGAGCTTGGATTGA
* * *
97726552 GAAGACTCGATATCTCGTTCAGGATCTTGGGATTGA
1 GAAGACCCGATATCTCATTCAGGAGCTT-GGATTGA
*
97726588 GAAGACCCAATAT-TGCATTCAGGAGCTTAGGATTGA
1 GAAGACCCGATATCT-CATTCAGGAGCTT-GGATTGA
* *
97726624 GAAGACCTGATATCTCATTCAAGAGCTTGG
1 GAAGACCCGATATCTCATTCAGGAGCTTGG
97726654 GAAGATCCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
30 26 0.31
32 1 0.01
35 4 0.05
36 52 0.62
37 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (35 bp):
GAAGACCCGATATCTCATTCAGGAGCTTGGATTGA
Found at i:97733792 original size:20 final size:20
Alignment explanation
Indices: 97733767--97733833 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
97733757 ATTCTGATAT
97733767 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
* *
97733787 ACATGATATGTACGATATGT
1 ACATGATATGTATGATATGC
97733807 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
97733827 ACATGAT
1 ACATGAT
97733834 GTATTCATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:97733794 original size:11 final size:11
Alignment explanation
Indices: 97733778--97733833 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
97733768 CATGATTGAT
97733778 ATGATATGCAC
1 ATGATATGCAC
*
97733789 ATGATATGTAC
1 ATGATATGCAC
*
97733800 --GATATGTAC
1 ATGATATGCAC
*
97733809 ATGATATG--T
1 ATGATATGCAC
97733818 ATGATATGCAC
1 ATGATATGCAC
97733829 ATGAT
1 ATGAT
97733834 GTATTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 17 0.45
11 21 0.55
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:97733912 original size:26 final size:26
Alignment explanation
Indices: 97733883--97733955 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
97733873 GAGAAAGTGC
97733883 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAATTTACCG
* * *
97733909 AAAATGGCTCATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAATTTACCG
*
97733935 AAAAGGGCTTTTGCCCCAATT
1 AAAAGGGCTTATGCCCCAATT
97733956 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAATTTACCG
Found at i:97737805 original size:19 final size:19
Alignment explanation
Indices: 97737781--97737871 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
97737771 ATAATCTTCA
97737781 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
97737800 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
97737819 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97737836 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97737854 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
97737872 ATATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:97737852 original size:35 final size:37
Alignment explanation
Indices: 97737781--97737878 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
97737771 ATAATCTTCA
97737781 ATGATATGCAATCTTAGATATGATATGCAATATTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATATTAGAT
*
97737819 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATATTAGAT
97737854 ATGATATGCAATCTTAGA-AT-ATATG
1 ATGATA-GCAATCTTAGATATGATATG
97737879 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 20 0.36
36 20 0.36
37 10 0.18
38 6 0.11
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATATTAGAT
Found at i:97738182 original size:17 final size:18
Alignment explanation
Indices: 97738160--97738194 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97738150 TGTTTCTCGG
*
97738160 ATTTTTTTTAT-ATTTTA
1 ATTTTTTTAATAATTTTA
97738177 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
97738195 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:97748273 original size:89 final size:87
Alignment explanation
Indices: 97748144--97748305 Score: 200
Period size: 89 Copynumber: 1.8 Consensus size: 87
97748134 ATTCGACGGA
* * * *
97748144 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATTGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATG-TTT-ACACTGAAGCAAATCCAAGATG
97748209 ATTTGGCATCCTTGCGTTGACAAG
64 ATTTGGCATCCTTGCGTTGACAAG
* ** * * *
97748233 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAAATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTACACTGAAGCAAATCCAAGATGA
97748297 TTTGGCATC
65 TTTGGCATC
97748306 TCTGTACTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 27 0.44
88 3 0.05
89 31 0.50
90 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACACTGAAGCAAATCCAAGATGAT
TTGGCATCCTTGCGTTGACAAG
Found at i:97748473 original size:78 final size:78
Alignment explanation
Indices: 97748338--97748554 Score: 339
Period size: 78 Copynumber: 2.8 Consensus size: 78
97748328 CGAAGAAACA
** * *
97748338 GATTTGGCATCTCCATATTCGAC-GGAGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAGG-GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
97748402 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
97748416 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGGCATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
97748480 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
97748494 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
97748555 GTGTTTACAT
Statistics
Matches: 126, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
77 1 0.01
78 122 0.97
79 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:97748648 original size:45 final size:45
Alignment explanation
Indices: 97748494--97748761 Score: 212
Period size: 45 Copynumber: 5.9 Consensus size: 45
97748484 GATCCAAGAT
*
97748494 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATC-GAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAGAAG--ATAACA
* * * * * * * *
97748541 GATCTGACCT-TCATGTGTTTACATC-GAAGCAGATC-CAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGAGCAGATCAGAAGATAACA
* * *
97748586 GATTTGACATCTTTGTATTAGACGGCGAGCAAATCAG-AGATAACA
1 GATTTGGCATCTCTGTATTAGACGG-GAGCAGATCAGAAGATAACA
* * **
97748631 GATTTGGCATCTCTGTATTAGATGGGAAGCAGAT-TGAAGA-AGTA
1 GATTTGGCATCTCTGTATTAGACGGG-AGCAGATCAGAAGATAACA
*
97748675 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-GAAGATAACA
1 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAGAAGATAACA
* *
97748720 GATTTGGCGTCTCTGTATTAGACGAAGAGCAGATCA-AAGATA
1 GATTTGGCATCTCTGTATTAGACG-GGAGCAGATCAGAAGATA
97748762 GTAGATATCG
Statistics
Matches: 177, Mismatches: 30, Indels: 30
0.75 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 43 0.24
45 103 0.58
46 3 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGAGCAGATCAGAAGATAACA
Found at i:97748751 original size:89 final size:90
Alignment explanation
Indices: 97748566--97748767 Score: 241
Period size: 89 Copynumber: 2.3 Consensus size: 90
97748556 TGTTTACATC
* * *
97748566 GAAGCAGATCCAAGAT-GACAGATTTGACATCTTTGTATTAGACGGCGAGCAAATCAGAGATAAC
1 GAAGCAGATCAAAGATAG-TAGATTTGACATCTCTGTATTAGACGGCGAGCAAATCAGAGATAAC
* *
97748630 AGATTTGGCATCTCTGTATTAGATGG
65 AGATTTGGCATCTCTGTATTAGACGA
** * * * *
97748656 GAAGCAGATTGAAGA-AGTAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-GAAGATAAC
1 GAAGCAGATCAAAGATAGTAGATTTGACATCTCTGTATTAGACGGCGAGCAAATCAG-AGATAAC
*
97748719 AGATTTGGCGTCTCTGTATTAGACGA
65 AGATTTGGCATCTCTGTATTAGACGA
97748745 -AGAGCAGATCAAAGATAGTAGAT
1 GA-AGCAGATCAAAGATAGTAGAT
97748768 ATCGCCTTTC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
88 2 0.02
89 72 0.76
90 21 0.22
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (90 bp):
GAAGCAGATCAAAGATAGTAGATTTGACATCTCTGTATTAGACGGCGAGCAAATCAGAGATAACA
GATTTGGCATCTCTGTATTAGACGA
Found at i:97749192 original size:35 final size:37
Alignment explanation
Indices: 97749121--97749218 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
97749111 ATAATCTTCA
97749121 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
97749159 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
97749194 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
97749219 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:97749218 original size:17 final size:19
Alignment explanation
Indices: 97749121--97749211 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
97749111 ATAATCTTCA
97749121 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97749140 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97749159 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97749176 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97749194 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
97749212 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:97749237 original size:22 final size:22
Alignment explanation
Indices: 97749121--97749234 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
97749111 ATAATCTTCA
97749121 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
97749140 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
97749159 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
97749176 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
97749194 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
97749216 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
97749235 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:97749517 original size:17 final size:18
Alignment explanation
Indices: 97749495--97749529 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97749485 TGTTTCCCAG
*
97749495 ATTTTTTTTAT-ATTTTA
1 ATTTTTTTAATAATTTTA
97749512 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
97749530 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:97750277 original size:50 final size:50
Alignment explanation
Indices: 97750197--97750361 Score: 190
Period size: 50 Copynumber: 3.3 Consensus size: 50
97750187 TCACTCATTT
* *
97750197 GGCCAAATATACAAGATCAAATACAATATCACATATGTGCTTACCTATAA
1 GGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATAA
* * * * *
97750247 GGTCGAATATGCAAGATCAAATTTAATATCACATGTGTGCTTACCTATAT
1 GGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATAA
* * * *
97750297 GGCCGAATATACAA-ATTCAAATATATTATCACATTTGTGCATACCT-TCAT
1 GGCCGAATATACAAGA-TCAAATATAATATCACATATGTGCTTACCTAT-AA
*
97750347 GGCAGAATATACAAG
1 GGCCGAATATACAAG
97750362 GTCATTTAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.02
50 96 0.98
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (50 bp):
GGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATAA
Found at i:97760516 original size:50 final size:50
Alignment explanation
Indices: 97760363--97760528 Score: 210
Period size: 50 Copynumber: 3.3 Consensus size: 50
97760353 ATCACTCATT
* *
97760363 TGGCCAAATATACAAGATCAAATACAATATCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
* ** * *
97760413 AGATCGAATATGCAAGATCAAATTTAATATCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
* *
97760463 TGGCCGAATATACAA-ATTCAAATATAATATCACATTTGTGCATACCT-TCA
1 TGGCCGAATATACAAGA-TCAAATATAATATCACATATGTGCTTACCTAT-A
*
97760513 TGGCTGAATATACAAG
1 TGGCCGAATATACAAG
97760529 GTCATTTAGC
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 96 0.98
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
Found at i:97760648 original size:16 final size:16
Alignment explanation
Indices: 97760608--97760651 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
97760598 GTAAATCACC
* *
97760608 GGCATAAAACCTACTA
1 GGCATAAAGCCTGCTA
*
97760624 GGCAT-AAGCCTGTTA
1 GGCATAAAGCCTGCTA
97760639 GGCATAAAGCCTG
1 GGCATAAAGCCTG
97760652 ATTTTTATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (16 bp):
GGCATAAAGCCTGCTA
Found at i:97760692 original size:16 final size:16
Alignment explanation
Indices: 97760671--97760709 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
97760661 CAGCAGCAAT
97760671 AAGCCTGTTAGGCATA
1 AAGCCTGTTAGGCATA
97760687 AAGCCTGTTAGGCATA
1 AAGCCTGTTAGGCATA
97760703 AAGCCTG
1 AAGCCTG
97760710 ATTACATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (16 bp):
AAGCCTGTTAGGCATA
Found at i:97765239 original size:17 final size:16
Alignment explanation
Indices: 97765193--97765248 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
97765183 AGTAGATAAG
97765193 AAAAATTCATTTTTATA
1 AAAAATT-ATTTTTATA
*
97765210 TAAAA-TATCTTTTATA
1 AAAAATTAT-TTTTATA
*
97765226 AAATAATTATTTTT-CA
1 AAA-AATTATTTTTATA
97765242 AAAAATT
1 AAAAATT
97765249 TAATGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 6 0.18
16 14 0.42
17 10 0.30
18 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAAATTATTTTTATA
Found at i:97765828 original size:16 final size:16
Alignment explanation
Indices: 97765807--97765845 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
97765797 GTTTGGTTGA
97765807 CTGTAATGGAATATG-G
1 CTGTAATGGAATA-GAG
*
97765823 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
97765839 CTGTAAT
1 CTGTAAT
97765846 CAGTAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:97766848 original size:25 final size:25
Alignment explanation
Indices: 97766820--97766872 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
97766810 TTGAGTTTGC
97766820 GAATCTCAACAATGCCTTCTCTGCT
1 GAATCTCAACAATGCCTTCTCTGCT
97766845 GAATCTCAACAATGCCTTCTCTGCT
1 GAATCTCAACAATGCCTTCTCTGCT
97766870 GAA
1 GAA
97766873 ATATCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (25 bp):
GAATCTCAACAATGCCTTCTCTGCT
Found at i:97770144 original size:20 final size:20
Alignment explanation
Indices: 97770119--97770181 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
97770109 TTAAATTATC
97770119 AAAAAAATAATAAATATTGT
1 AAAAAAATAATAAATATTGT
*
97770139 -AAAAAA-ACTAAATATTGTT
1 AAAAAAATAATAAATATTG-T
* **
97770158 AAAAATATTTTAAA-ATTGT
1 AAAAAAATAATAAATATTGT
97770177 AAAAA
1 AAAAA
97770182 GTTATTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 10 0.28
19 13 0.36
20 9 0.25
21 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAAAAATAATAAATATTGT
Found at i:97770187 original size:21 final size:21
Alignment explanation
Indices: 97770147--97770204 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
97770137 GTAAAAAAAC
97770147 TAAATATTGTTAAAAATATTT
1 TAAATATTGTTAAAAATATTT
*
97770168 TAAA-ATTG-TAAAAAGT-TAT
1 TAAATATTGTTAAAAA-TATTT
* *
97770187 TAAAAATTATTAAAAATA
1 TAAATATTGTTAAAAATA
97770205 ATAAAACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 12 0.39
20 9 0.29
21 10 0.32
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TAAATATTGTTAAAAATATTT
Found at i:97770191 original size:10 final size:10
Alignment explanation
Indices: 97770176--97770263 Score: 56
Period size: 10 Copynumber: 8.6 Consensus size: 10
97770166 TTTAAAATTG
97770176 TAAAAAGTTAT
1 TAAAAA-TTAT
97770187 TAAAAATTAT
1 TAAAAATTAT
*
97770197 TAAAAA-TAA
1 TAAAAATTAT
97770206 TAAAACATTAT
1 TAAAA-ATTAT
* *
97770217 T-TAAATTTT
1 TAAAAATTAT
97770226 TAGAAAAATTAT
1 T--AAAAATTAT
* **
97770238 TCAAAACCA-
1 TAAAAATTAT
97770247 TAAATAATTAT
1 TAAA-AATTAT
97770258 TAAAAA
1 TAAAAA
97770264 GTTGTAAATA
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
9 15 0.26
10 23 0.40
11 13 0.22
12 7 0.12
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:97770465 original size:19 final size:19
Alignment explanation
Indices: 97770438--97770476 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
97770428 TTATTCGATT
97770438 AAAAATTGTAAAATCATTG
1 AAAAATTGTAAAATCATTG
* * *
97770457 AAAATTTGTGAAATTATTG
1 AAAAATTGTAAAATCATTG
97770476 A
1 A
97770477 TTAAATTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (19 bp):
AAAAATTGTAAAATCATTG
Found at i:97770550 original size:18 final size:18
Alignment explanation
Indices: 97770524--97770568 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
97770514 CATTTTTTAA
* * *
97770524 TAATTATTTGTAATTTTT
1 TAATAATTTCTAAGTTTT
97770542 TAATAATTTCTAAGTTTT
1 TAATAATTTCTAAGTTTT
*
97770560 TAATCATTT
1 TAATAATTT
97770569 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (18 bp):
TAATAATTTCTAAGTTTT
Found at i:97770600 original size:20 final size:19
Alignment explanation
Indices: 97770577--97770637 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
97770567 TTTTAAAAAA
97770577 TTAATAACTTTTTTACAATT
1 TTAATAA-TTTTTTACAATT
*
97770597 TTAA-AATATTTTAACAATAT
1 TTAATAAT-TTTTTACAAT-T
*
97770617 TTAATAATTATTTACAATT
1 TTAATAATTTTTTACAATT
97770636 TT
1 TT
97770638 TATATATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 1 0.03
19 14 0.40
20 17 0.49
21 3 0.09
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATAATTTTTTACAATT
Found at i:97771432 original size:6 final size:6
Alignment explanation
Indices: 97771423--97771467 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
97771413 ATTTGGGTTC
* *
97771423 GGGTCT GGGTCA GGGTCA GGGTCA GGGTCA GGGTCG GGGTC- GGGT
1 GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGT
97771468 TCCGGGTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.09, C:0.16, G:0.56, T:0.20
Consensus pattern (6 bp):
GGGTCA
Found at i:97780924 original size:39 final size:39
Alignment explanation
Indices: 97780858--97781230 Score: 577
Period size: 39 Copynumber: 9.5 Consensus size: 39
97780848 CAAAGCATGA
* * * *
97780858 GGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTAC
1 GGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTC
*
97780898 GGGACTTTAGCCCAGATATAACACCAGCACGAATGCCTTC
1 GGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTTC
* *
97780938 GGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTT
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
97780977 GGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
97781016 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
97781055 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
97781094 AGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
* *
97781133 GAGACTTAGCTCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
* * *
97781172 GAGACTTAGCCCGGATATAACACAAGCACGAATGCCTTT
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
97781211 GGGACTTAGCTCGGATATAA
1 GGGACTTAGCCCGGATATAA
97781231 TTCTCCATTA
Statistics
Matches: 313, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 294 0.94
40 19 0.06
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.19
Consensus pattern (39 bp):
GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
Found at i:97784448 original size:20 final size:20
Alignment explanation
Indices: 97784423--97784489 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
97784413 ATTTTGATAT
97784423 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
97784443 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
97784463 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
97784483 ACATGAT
1 ACATGAT
97784490 GTATTCATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:97784450 original size:11 final size:11
Alignment explanation
Indices: 97784434--97784489 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
97784424 CATGATATGT
97784434 ATGATATGCAC
1 ATGATATGCAC
*
97784445 ATGATATGTAC
1 ATGATATGCAC
97784456 --GATATGCAC
1 ATGATATGCAC
*
97784465 ATGATATG--T
1 ATGATATGCAC
97784474 ATGATATGCAC
1 ATGATATGCAC
97784485 ATGAT
1 ATGAT
97784490 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:97784568 original size:26 final size:24
Alignment explanation
Indices: 97784540--97784608 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
97784530 AGGAAGTGCA
*
97784540 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* * *
97784564 GAAAAGGGTTTTTGCCCCAATTTATC
1 -AAAAGGG-CTTTGCCCCAGTTTACC
97784590 AAAAGGGCTTTGCCCCAGT
1 AAAAGGGCTTTGCCCCAGT
97784609 GATTAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 10 0.27
25 14 0.38
26 13 0.35
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:97784868 original size:31 final size:34
Alignment explanation
Indices: 97784832--97784917 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 34
97784822 GTTTACAGTG
97784832 AAGGCTTCGGCCTAGTA-A-A-ATGAAATATGAA
1 AAGGCTTCGGCCTAGTAGAGATATGAAATATGAA
97784863 AAGGCTTCGGCCTAGTGTTATGAGATATGAAATATGAA
1 AAGGCTTCGGCCTA--G-TA-GAGATATGAAATATGAA
97784901 AAGGCTTCGGCCTAGTA
1 AAGGCTTCGGCCTAGTA
97784918 TATGCTGAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
31 14 0.29
33 1 0.02
34 2 0.04
35 2 0.04
36 2 0.04
37 1 0.02
38 26 0.54
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (34 bp):
AAGGCTTCGGCCTAGTAGAGATATGAAATATGAA
Found at i:97792573 original size:20 final size:20
Alignment explanation
Indices: 97792548--97792614 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
97792538 ATTTTGATAT
97792548 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
97792568 ACATGATATGTACGAAATGC
1 ACATGATATGTATGATATGC
97792588 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
97792608 ACATGAT
1 ACATGAT
97792615 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:97792575 original size:11 final size:11
Alignment explanation
Indices: 97792559--97792614 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
97792549 CATGATATGT
97792559 ATGATATGCAC
1 ATGATATGCAC
*
97792570 ATGATATGTAC
1 ATGATATGCAC
*
97792581 --GAAATGCAC
1 ATGATATGCAC
*
97792590 ATGATATG--T
1 ATGATATGCAC
97792599 ATGATATGCAC
1 ATGATATGCAC
97792610 ATGAT
1 ATGAT
97792615 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:97792693 original size:26 final size:24
Alignment explanation
Indices: 97792665--97792733 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
97792655 AGGAAGTGCA
* *
97792665 AAAAGGGCTATGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
97792689 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGTTTACC
97792715 AAAAGGGCTTTGCCCCAGT
1 AAAAGGGCTTTGCCCCAGT
97792734 GATTAAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 11 0.28
25 16 0.40
26 13 0.32
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:97792747 original size:24 final size:24
Alignment explanation
Indices: 97792665--97792747 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
97792655 AGGAAGTGCA
* * * *
97792665 AAAAGGGCTATGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTGATC
*
97792689 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGTTGATC
*
97792715 AAAAGGGCTTTGCCCCAG-TGATT
1 AAAAGGGCTTTGCCCCAGTTGATC
97792738 AAAAGAGGCT
1 AAAAG-GGCT
97792748 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.16
24 14 0.27
25 16 0.31
26 13 0.25
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTGATC
Found at i:97815890 original size:26 final size:26
Alignment explanation
Indices: 97815861--97815944 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
97815851 TGGTACAAAT
* *
97815861 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
97815887 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
97815913 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
97815939 TGATAA
1 TGATAA
97815945 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:97817458 original size:26 final size:26
Alignment explanation
Indices: 97817429--97817482 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
97817419 AATTACTGTT
97817429 ATACCCCTAGGTGTAAAATT-ACCGAA
1 ATACCCCTAGG-GTAAAATTGACCGAA
* *
97817455 ATACCCCTAGGGTTAAATTGACCTAA
1 ATACCCCTAGGGTAAAATTGACCGAA
97817481 AT
1 AT
97817483 GCATGTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (26 bp):
ATACCCCTAGGGTAAAATTGACCGAA
Found at i:97817976 original size:137 final size:137
Alignment explanation
Indices: 97817730--97818016 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
97817720 GAGTAGTCTC
97817730 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
97817795 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
97817860 ACTGTTA
131 ACTGTTA
*
97817867 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
97817932 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
97817997 ACTGTTA
131 ACTGTTA
**
97818004 CCTGAATGGGCTT
1 CCCAAATGGGCTT
97818017 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:97819248 original size:34 final size:33
Alignment explanation
Indices: 97819150--97819249 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 33
97819140 TGAACTTATG
* *
97819150 ATATATATACATGGGCTTTATTTTAT-ATATAGT
1 ATATATATACATGGGTTTTATTATATAATATA-T
97819183 ATATATATTA-ATGGGTTTT-TGTA-ATATATATAT
1 ATATATA-TACATGGGTTTTAT-TATATA-ATATAT
*
97819216 ATATTATATGCATGGGTTTTATTATATAATATAT
1 ATA-TATATACATGGGTTTTATTATATAATATAT
97819250 GTTTATAGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
32 3 0.05
33 21 0.38
34 28 0.50
35 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (33 bp):
ATATATATACATGGGTTTTATTATATAATATAT
Found at i:97820398 original size:17 final size:17
Alignment explanation
Indices: 97820378--97820440 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
97820368 TATGAATTGA
97820378 TATTTCATATGAACTAT
1 TATTTCATATGAACTAT
*** *
97820395 TATTTTGCATGAGCTAT
1 TATTTCATATGAACTAT
* ** *
97820412 CATTTGGTAAGAACTAT
1 TATTTCATATGAACTAT
97820429 TATTTCATATGA
1 TATTTCATATGA
97820441 GCAGATGTTT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (17 bp):
TATTTCATATGAACTAT
Found at i:97820507 original size:18 final size:18
Alignment explanation
Indices: 97820486--97820531 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
97820476 CTGCCCATTT
*
97820486 TATGTGAATTGCTTATTA
1 TATGTGAACTGCTTATTA
* *
97820504 TATGTGCACTGCTTATTG
1 TATGTGAACTGCTTATTA
*
97820522 TATGAGAACT
1 TATGTGAACT
97820532 ATTATGTCGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (18 bp):
TATGTGAACTGCTTATTA
Found at i:97826757 original size:59 final size:60
Alignment explanation
Indices: 97826686--97826802 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 60
97826676 ATCACTTTAA
* * * * *
97826686 TATTAAATTAATATAATATTTATCT-TGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAATACTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
97826745 TATTAAAATAATATAATGCTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATACTTATCT--AAGATAAACATTAAATTAAATTTAATATTAA
97826803 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
62 27 0.55
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (60 bp):
TATTAAAATAATATAATACTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:97826823 original size:37 final size:35
Alignment explanation
Indices: 97826781--97826871 Score: 134
Period size: 32 Copynumber: 2.6 Consensus size: 35
97826771 CAAGATAAAC
*
97826781 ATTAAATTAAATTTAATATTAAGATAATCACTTTAAT
1 ATTAAATTAAATTCAATATT-A-ATAATCACTTTAAT
97826818 ATTAAATTAAATTCAATA-T--TAATCACTTTAAT
1 ATTAAATTAAATTCAATATTAATAATCACTTTAAT
97826850 ATTAAATTAAATTCAATATTAA
1 ATTAAATTAAATTCAATATTAA
97826872 ACTATTAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
32 31 0.62
33 1 0.02
36 1 0.02
37 17 0.34
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (35 bp):
ATTAAATTAAATTCAATATTAATAATCACTTTAAT
Found at i:97826852 original size:15 final size:15
Alignment explanation
Indices: 97826805--97826854 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
97826795 AATATTAAGA
97826805 TAATCACTTTAATAT
1 TAATCACTTTAATAT
* * *
97826820 TAAATTAAATTCAATAT
1 T-AA-TCACTTTAATAT
97826837 TAATCACTTTAATAT
1 TAATCACTTTAATAT
97826852 TAA
1 TAA
97826855 ATTAAATTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.48
16 4 0.15
17 10 0.37
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATCACTTTAATAT
Found at i:97829559 original size:49 final size:49
Alignment explanation
Indices: 97829449--97829628 Score: 152
Period size: 49 Copynumber: 3.7 Consensus size: 49
97829439 AATTGCTGAC
* * ** * * * *
97829449 GCCATGTCGCAGACATGGTCTTACACTGGCTAGCA-C-ATCAGAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTCTCATCTATCGGTGCCGAA
* * *
97829497 GCCATGTCGCAGACAGGTCTTACACTGACTTTCATAC-ATCGAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCAT-CTATCG-GTGCCGAA
* * * *
97829546 GTCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGAA
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCGGTGCCGAA
* *
97829595 GCCATATCCCAGACAGGTCTTACACTGACACTCA
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCA
97829629 ACAAGATGAT
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
47 16 0.15
48 17 0.15
49 76 0.69
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCGGTGCCGAA
Found at i:97829646 original size:98 final size:97
Alignment explanation
Indices: 97829453--97829628 Score: 237
Period size: 98 Copynumber: 1.8 Consensus size: 97
97829443 GCTGACGCCA
* * * *
97829453 TGTCGCAGACATGGTCTTACACTGGCTAGCACATCAGAGTCGATGCCATGTCGCAGACAGGTCTT
1 TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAGAGTCGAAGCCATATCCCAGACAGGTCTT
**
97829518 ACACTGACTTTCATACATCGAGGCCGATGTCG
66 ACACTGACACTCATACATCGAGGCCGATGTCG
** * *
97829550 TGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCGGTGTCGAAGCCATATCCCAGACAGGTC
1 TGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAGAGTCGAAGCCATATCCCAGACAGGTC
97829614 TTACACTGACACTCA
64 TTACACTGACACTCA
97829629 ACAAGATGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
96 17 0.25
97 11 0.16
98 39 0.58
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (97 bp):
TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAGAGTCGAAGCCATATCCCAGACAGGTCTT
ACACTGACACTCATACATCGAGGCCGATGTCG
Found at i:97829782 original size:46 final size:46
Alignment explanation
Indices: 97829730--97829853 Score: 203
Period size: 46 Copynumber: 2.7 Consensus size: 46
97829720 GTCTCAATGA
97829730 CAATGCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTGGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTGGC
** * *
97829776 TGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTGGC
*
97829822 CAATGCATGTCCCAGACATGTCTTACGCTAGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGC
97829854 ACACATATCA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (46 bp):
CAATGCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTGGC
Found at i:97829794 original size:92 final size:91
Alignment explanation
Indices: 97829682--97829853 Score: 233
Period size: 92 Copynumber: 1.9 Consensus size: 91
97829672 ATATCTCGAC
* *
97829682 GCTGATGCATGTCCCTGACATGTCTTGCACTAGCTCCCGTC-TCAA-T-GACAATGCATGTCCCA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCT--C-TCAT-AAGTGGACAATGCATGTCCCA
97829744 GACATGTCTTACACTAGCTATCATAATGTG
62 GACATGTCTTACACTAGCTATCATAATGTG
* *
97829774 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGGACAATGCATGTCCCAGAC
*
97829839 ATGTCTTACGCTAGC
65 ATGTCTTACACTAGC
97829854 ACACATATCA
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
89 4 0.06
90 2 0.03
91 1 0.01
92 64 0.90
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (91 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGACAATGCATGTCCCAGACA
TGTCTTACACTAGCTATCATAATGTG
Found at i:97831357 original size:18 final size:18
Alignment explanation
Indices: 97831309--97831398 Score: 128
Period size: 18 Copynumber: 4.9 Consensus size: 18
97831299 ATAATCTTCA
*
97831309 ATGATATGCAATCTTAGAC
1 ATGAT-TGCAATCTTAGAT
*
97831328 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
97831345 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
97831363 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
97831381 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
97831399 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
17 15 0.23
18 35 0.54
19 15 0.23
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:97831905 original size:18 final size:17
Alignment explanation
Indices: 97831881--97831940 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
97831871 CCAATATATT
97831881 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
97831898 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
97831914 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
97831932 TTATATTTT
1 TTATATTTT
97831941 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:97831925 original size:15 final size:16
Alignment explanation
Indices: 97831882--97831940 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
97831872 CAATATATTT
97831882 TATATTTTTTATATAA
1 TATATTTTTTATATAA
97831898 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
97831914 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
97831932 TTATATTTT
1 -TATATTTT
97831941 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:97831965 original size:26 final size:26
Alignment explanation
Indices: 97831917--97831966 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
97831907 TTATAAATAT
* * * *
97831917 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
97831943 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
97831967 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:97842987 original size:25 final size:25
Alignment explanation
Indices: 97842936--97842987 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
97842926 ATCTTATTAA
* * *
97842936 AATAATATATTAATATAATCACTTT
1 AATAATAAATTAATAAAATCACATT
97842961 AATAATAAATTAATAAAAT-ACAATT
1 AATAATAAATTAATAAAATCAC-ATT
97842986 AA
1 AA
97842988 GATAAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAATAAATTAATAAAATCACATT
Found at i:97844664 original size:15 final size:15
Alignment explanation
Indices: 97844640--97844671 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
97844630 TATGCATGCA
*
97844640 AAATATAAAAGACAT
1 AAATACAAAAGACAT
97844655 AAATACAAAAGACAT
1 AAATACAAAAGACAT
97844670 AA
1 AA
97844672 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:97846386 original size:33 final size:32
Alignment explanation
Indices: 97846303--97846386 Score: 78
Period size: 33 Copynumber: 2.6 Consensus size: 32
97846293 CCATGGCAAC
* *
97846303 ATTTAAATGTAAGACCATAGCTGGGCTATGGA
1 ATTTGAATGTAAGACCATAACTGGGCTATGGA
* * * * * *
97846335 ATTTTAATGAAAAAACCATAATTGGGTTATGGC
1 ATTTGAATG-TAAGACCATAACTGGGCTATGGA
97846368 ATCTTGAATGTAAGACCAT
1 AT-TTGAATGTAAGACCAT
97846387 GGTTGGACCA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
32 8 0.20
33 26 0.65
34 6 0.15
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (32 bp):
ATTTGAATGTAAGACCATAACTGGGCTATGGA
Found at i:97846456 original size:103 final size:101
Alignment explanation
Indices: 97846277--97846505 Score: 244
Period size: 103 Copynumber: 2.2 Consensus size: 101
97846267 AATTGATGGA
* **
97846277 TAAGACCATGTTTGGACCATGGCAACATTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTAA
1 TAAGACCATGGTTGGACCATGGCAACATTTAAATGTAAGACCATAGCTGGGCTATGGAATCCTAA
* * *
97846342 TGAAAAAACCATAATTGGGTTATGGCATCT-TGAATG
66 TGAAAAAACCATAACTGGGTTATGGCA-CTACGAATC
* ** * * *
97846378 TAAGACCATGGTTGGACCATGGCAGTATATTTATGTGTGATACCATAGCTGGGCTATGGCATCCT
1 TAAGACCATGGTTGGACCATGGCA--ACATTTAAATGTAAGACCATAGCTGGGCTATGGAATCCT
* ** * *
97846443 ATTGGTAAGACCATAACTGGGTTATGGGACTACGAATC
64 AATGAAAAAACCATAACTGGGTTATGGCACTACGAATC
** *
97846481 TAAGACCATGGCAGGGCCATGGCAA
1 TAAGACCATGGTTGGACCATGGCAA
97846506 TGCACGTGTA
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
101 24 0.23
102 2 0.02
103 79 0.75
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAACATTTAAATGTAAGACCATAGCTGGGCTATGGAATCCTAA
TGAAAAAACCATAACTGGGTTATGGCACTACGAATC
Found at i:97850550 original size:103 final size:101
Alignment explanation
Indices: 97850368--97850552 Score: 253
Period size: 103 Copynumber: 1.8 Consensus size: 101
97850358 GAATTGATGG
* * **
97850368 ATAAGACCATGTTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTA
1 ATAAGACCATGGTTGGACCATGACAATATTTAAATGTAAGACCATAGCTGGGCTATGGAATCCTA
97850433 ATCAAAAGACCATAACTGGGTTATGGAATCTTGAAC
66 ATCAAAAGACCATAACTGGGTTATGGAATCTTGAAC
* ** *
97850469 ATAATACCATGGTTGGACCATGACAATATATTTATGTGTAAGACCATAGCTGGGCTATGGCATCC
1 ATAAGACCATGGTTGGACCATGAC-A-ATATTTAAATGTAAGACCATAGCTGGGCTATGGAATCC
***
97850534 TAATGGTAAGACCATAACT
64 TAATCAAAAGACCATAACT
97850553 AAGCTATGGC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 21 0.30
102 1 0.01
103 49 0.69
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGACAATATTTAAATGTAAGACCATAGCTGGGCTATGGAATCCTA
ATCAAAAGACCATAACTGGGTTATGGAATCTTGAAC
Found at i:97850576 original size:33 final size:32
Alignment explanation
Indices: 97850505--97850576 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
97850495 TATATTTATG
* ** * *
97850505 TGTAAGACCATAGCTGGGCTATGGCATCCTAA
1 TGTAAGACCATAACTAAGCTATGGCATACAAA
97850537 TGGTAAGACCATAACTAAGCTATGGCACTACAAA
1 T-GTAAGACCATAACTAAGCTATGGCA-TACAAA
97850571 TGTAAG
1 TGTAAG
97850577 GCTATGGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 1 0.03
33 27 0.82
34 5 0.15
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (32 bp):
TGTAAGACCATAACTAAGCTATGGCATACAAA
Found at i:97853411 original size:2 final size:2
Alignment explanation
Indices: 97853404--97853432 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
97853394 TTTAATTCAT
97853404 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 T
97853433 CCAATGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97854817 original size:47 final size:47
Alignment explanation
Indices: 97854764--97854857 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
97854754 ATTATCAATA
*
97854764 ACGTAAGGAAACATCGAGAACGCAACAAATATTTTTTGGTTTTAACC
1 ACGTAAGGAAACATCAAGAACGCAACAAATATTTTTTGGTTTTAACC
97854811 ACGTAAGGAAACATCAAGAACGCAACAAATATTTTTTGGTTTTAACC
1 ACGTAAGGAAACATCAAGAACGCAACAAATATTTTTTGGTTTTAACC
97854858 CTACAACATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (47 bp):
ACGTAAGGAAACATCAAGAACGCAACAAATATTTTTTGGTTTTAACC
Found at i:97855666 original size:14 final size:14
Alignment explanation
Indices: 97855643--97855676 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
97855633 AGGGTGCATT
*
97855643 TGTTTCACAAAAAA
1 TGTTTTACAAAAAA
*
97855657 TGTTTTACAAATAA
1 TGTTTTACAAAAAA
97855671 TGTTTT
1 TGTTTT
97855677 CTGCATTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (14 bp):
TGTTTTACAAAAAA
Found at i:97866353 original size:21 final size:21
Alignment explanation
Indices: 97866327--97866368 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
97866317 GTCGCTTAAA
*
97866327 TTTTGACGGATCCATATTGCC
1 TTTTGACGGATCCAAATTGCC
* *
97866348 TTTTGATGGATTCAAATTGCC
1 TTTTGACGGATCCAAATTGCC
97866369 ATCAATTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (21 bp):
TTTTGACGGATCCAAATTGCC
Found at i:97869351 original size:26 final size:26
Alignment explanation
Indices: 97869322--97869383 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
97869312 ACATATTTTC
* **
97869322 TCAAAATTTTATTA-AGGTCAAAATTG
1 TCAAAATTTTATCAGAGGT-AAAATCA
97869348 TCAAAATTTTATCAGAGGTAAAATCA
1 TCAAAATTTTATCAGAGGTAAAATCA
97869374 TCAAAATTTT
1 TCAAAATTTT
97869384 GTAGGGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (26 bp):
TCAAAATTTTATCAGAGGTAAAATCA
Found at i:97872692 original size:19 final size:17
Alignment explanation
Indices: 97872674--97872708 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
97872664 TCATTCATTA
97872674 AAATATATAATATATATT
1 AAAT-TATAATATATATT
*
97872692 AAATTATCATATATATT
1 AAATTATAATATATATT
97872709 TACTACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTATAATATATATT
Found at i:97875907 original size:49 final size:51
Alignment explanation
Indices: 97875775--97875918 Score: 184
Period size: 49 Copynumber: 2.9 Consensus size: 51
97875765 TCTATTGTGA
* * *
97875775 GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAAAACTGT
* * * * * **
97875826 GATCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGACTA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAAAACTGT
97875875 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
97875919 TAGCTTCGGC
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 40 0.51
50 1 0.01
51 37 0.47
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAAAACTGT
Found at i:97877951 original size:56 final size:57
Alignment explanation
Indices: 97877875--97877990 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 57
97877865 ATGTCATAGT
* *
97877875 ATGATTTGTTCGAGTAGATGAATGGATAAGTCAAGCTATCCAG-AAACATAGGATGC
1 ATGATTTGTTCGAGCAGATGAATGGATAAATCAAGCTATCCAGAAAACATAGGATGC
97877931 ATGATTTGTTCGAGCAGATGAATGGATAAATCAAGCTATCCAGAAAACATAGGATGC
1 ATGATTTGTTCGAGCAGATGAATGGATAAATCAAGCTATCCAGAAAACATAGGATGC
97877988 ATG
1 ATG
97877991 CATAATTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 41 0.72
57 16 0.28
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (57 bp):
ATGATTTGTTCGAGCAGATGAATGGATAAATCAAGCTATCCAGAAAACATAGGATGC
Found at i:97881268 original size:50 final size:49
Alignment explanation
Indices: 97881148--97881332 Score: 167
Period size: 50 Copynumber: 3.7 Consensus size: 49
97881138 AGGCCGCACA
* * * * *
97881148 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACATG
* **
97881199 TGTAGTACTAAGTGTAGGCTACTACGTGTATTAGA-TGGTGAGGTCACATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACATG
* * * * *
97881249 TTTAGTACTAAGTGCAGGCTAGTACGTGTACCATACTGTTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACATG
* * *
97881298 TGTAGTTCTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
97881333 TAGTTTCGGC
Statistics
Matches: 108, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 37 0.34
50 38 0.35
51 28 0.26
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACATG
Found at i:97882091 original size:31 final size:31
Alignment explanation
Indices: 97882056--97882117 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
97882046 ACGGAATTGG
97882056 ATTTCGAGTTTTGTAACTTGAGATATAATTT
1 ATTTCGAGTTTTGTAACTTGAGATATAATTT
*
97882087 ATTTCGATTTTTGTAACTTGAGATATAATTT
1 ATTTCGAGTTTTGTAACTTGAGATATAATTT
97882118 TTTTAACACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTTCGAGTTTTGTAACTTGAGATATAATTT
Found at i:97885722 original size:40 final size:39
Alignment explanation
Indices: 97885667--97885874 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
97885657 TGAATGATAC
* * *
97885667 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
97885707 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
97885747 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
97885787 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
97885827 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
97885867 CC-GGCTAA
1 CCGGGCTAA
97885875 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 6 0.04
40 138 0.93
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:97893832 original size:40 final size:39
Alignment explanation
Indices: 97893775--97893978 Score: 212
Period size: 40 Copynumber: 5.1 Consensus size: 39
97893765 AGAATGATAC
* * * *
97893775 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
97893815 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
97893855 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * * * *
97893895 CCGGGCTTAGACCTGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
97893935 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
97893975 CCGG
1 CCGG
97893979 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 135 0.96
41 2 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:97898938 original size:27 final size:27
Alignment explanation
Indices: 97898907--97898967 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
97898897 TGTCATACAT
97898907 ATACTTACCTTCCATATTCATATGCAC
1 ATACTTACCTTCCATATTCATATGCAC
* *
97898934 ATACTTACTTTCCATTTTCATATGCAC
1 ATACTTACCTTCCATATTCATATGCAC
*
97898961 ATGCTTA
1 ATACTTA
97898968 TCCAAATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.41
Consensus pattern (27 bp):
ATACTTACCTTCCATATTCATATGCAC
Found at i:97905452 original size:14 final size:14
Alignment explanation
Indices: 97905433--97905461 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
97905423 AAAATTTCAT
97905433 TCAACTAAAATCAA
1 TCAACTAAAATCAA
97905447 TCAACTAAAATCAA
1 TCAACTAAAATCAA
97905461 T
1 T
97905462 TTGTCCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
TCAACTAAAATCAA
Found at i:97908448 original size:39 final size:39
Alignment explanation
Indices: 97908367--97908508 Score: 214
Period size: 39 Copynumber: 3.6 Consensus size: 39
97908357 AATGTTCGAG
*
97908367 TGATATCCGGGCTAAGCCC-AAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
* *
97908405 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
* *
97908444 TGATATCCGGGCTAAGCCCGAAGGCAATTGTTCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
*
97908483 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
97908509 CTTTGTGCGG
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 19 0.20
39 66 0.70
40 9 0.10
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
Found at i:97908480 original size:78 final size:79
Alignment explanation
Indices: 97908367--97908548 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 79
97908357 AATGTTCGAG
97908367 TGATATCCGGGCTAAGCCC-AAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
97908430 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
97908444 TGATATCCGGGCTAAGCCCGAAGGCAATTGTTCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
97908509 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
97908523 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
97908549 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
77 19 0.20
78 33 0.35
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:97917708 original size:12 final size:12
Alignment explanation
Indices: 97917691--97917715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97917681 TGTGAAAAAT
97917691 AAAATAAAATAA
1 AAAATAAAATAA
97917703 AAAATAAAATAA
1 AAAATAAAATAA
97917715 A
1 A
97917716 GAACACACAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:97922147 original size:9 final size:9
Alignment explanation
Indices: 97922133--97922161 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
97922123 AATTTGTGAA
97922133 AAATAAAAT
1 AAATAAAAT
97922142 AAATAAAA-
1 AAATAAAAT
97922150 AAATAAAAT
1 AAATAAAAT
97922159 AAA
1 AAA
97922162 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAATAAAAT
Found at i:97929133 original size:25 final size:25
Alignment explanation
Indices: 97929079--97929135 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
97929069 ATTAAATTCA
*
97929079 ACATAAAAACATATAAAATTTAGTT
1 ACATTAAAACATATAAAATTTAGTT
97929104 ACATTAAAACATATAAAATTTAGTT
1 ACATTAAAACATATAAAATTTAGTT
97929129 ACATTAA
1 ACATTAA
97929136 CTTACCTCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (25 bp):
ACATTAAAACATATAAAATTTAGTT
Found at i:97930797 original size:27 final size:27
Alignment explanation
Indices: 97930759--97930903 Score: 173
Period size: 27 Copynumber: 5.4 Consensus size: 27
97930749 TGGGCCAGAA
* * * **
97930759 GGTAGAATGACCGAAATACCCCAATAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* *
97930786 GGTAAAATGACCGAAATACCCCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* * *
97930813 AGTAAAATTATTGTAATACCCCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
*
97930840 GGTAAAATGACTGTAATACCCCTGTAA
1 GGTAAAATGACTGTAATACCCCTGTAG
* *
97930867 GATAAAATGACTGTAATACCCCTGTAA
1 GGTAAAATGACTGTAATACCCCTGTAG
97930894 GGTAAAATGA
1 GGTAAAATGA
97930904 TTGATTAGCC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCCTGTAG
Found at i:97934840 original size:79 final size:80
Alignment explanation
Indices: 97934664--97934886 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 80
97934654 TCGAATGATG
* * * *
97934664 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
* *
97934728 TGTGCTAGTTACTAAA
65 GGTGCGAGTTACTAAA
*
97934744 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
97934806 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
* * * * *
97934823 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
97934887 TGAACGAGTA
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.54
80 48 0.38
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:97934887 original size:119 final size:120
Alignment explanation
Indices: 97934664--97934888 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
97934654 TCGAATGATG
* *
97934664 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
97934729 GTGCTAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCTAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
97934784 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* *
97934846 TTGTG-TGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCT-AGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
97934889 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 3 0.03
119 70 0.76
120 19 0.21
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCTAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:97934902 original size:40 final size:40
Alignment explanation
Indices: 97934665--97934888 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 40
97934655 CGAATGATGT
* * *
97934665 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
97934705 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
97934744 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
97934785 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
97934823 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
97934864 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
97934889 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
39 35 0.22
40 117 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:97934910 original size:79 final size:79
Alignment explanation
Indices: 97934671--97934921 Score: 271
Period size: 79 Copynumber: 3.2 Consensus size: 79
97934661 ATGTCCGGGC
* * * *
97934671 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCT
1 TAAGTCCCGAAGGCATTTGTG-TGAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
97934734 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
* *
97934751 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGGCATTTGTGTGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
97934813 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * **
97934830 TAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
97934895 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
97934909 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
97934922 TACGTGATTC
Statistics
Matches: 146, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 82 0.56
80 56 0.38
81 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:97941988 original size:86 final size:86
Alignment explanation
Indices: 97941836--97941995 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 86
97941826 GTATCGTACA
* * *
97941836 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCGATGCCACTGTCCCAGACACGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACACGGT
97941901 CTTACACGAATCACAATTACG
66 CTTACACGAATCACAATTACG
* * * **
97941922 ATGCCAATGTTCCAGACATGGTCTTAC-TCGAAATCACATATCGATGCCAAC-GTCCTAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GAAATCACATATCGATGCC-ACTGTCCCAGACACG
97941985 GTCTTACACGA
64 GTCTTACACGA
97941996 GAACACATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.02
86 61 0.95
87 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACACGGT
CTTACACGAATCACAATTACG
Found at i:97942003 original size:43 final size:42
Alignment explanation
Indices: 97941836--97942008 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 42
97941826 GTATCGTACA
* * * *
97941836 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAACACATATCG
* *
97941879 ATGCC-ACTGTCCCAGACACGGTCTTACACGAATCACA-ATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAACACATA-T-CG
* * *
97941922 ATGCCAATGTTCCAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAA-CACATATCG
* *
97941965 ATGCCAACGTCCTAGACGTGGTCTTACACGAGAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AACACATATCG
97942008 A
1 A
97942009 AAATCCTATG
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
42 10 0.09
43 90 0.83
44 8 0.07
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAACACATATCG
Found at i:97942958 original size:30 final size:31
Alignment explanation
Indices: 97942904--97942966 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
97942894 CCTTTTCATA
*
97942904 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
97942935 TTTCAAATTTCATATTA-TGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
97942965 TT
1 TT
97942967 ACTGTAAGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:97943221 original size:24 final size:24
Alignment explanation
Indices: 97943157--97943298 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
97943147 GCTTTATCAT
*
97943157 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
97943182 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
97943205 ATAACTGGGACATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
97943228 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
97943252 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
97943276 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
97943299 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 38 0.35
24 64 0.59
25 7 0.06
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Done.