Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 271 of 290
Found at i:93604150 original size:151 final size:151
Alignment explanation
Indices: 93603865--93604150 Score: 396
Period size: 151 Copynumber: 1.9 Consensus size: 151
93603855 TGGCATCAAC
* *
93603865 GATGGTATATGTGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGCGATGATATATGTGCCAG
1 GATGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCAG
* * * *
93603930 TGTAAGACCATGTCTAGGACATGGCATTAGCGATGATATGTGTGCCTGTGTAAGACCATGTTTGG
66 CGTAAGACCATGTCTAGGACATGGCATCAGCGATGATATGTGTGACTATGTAAGACCATGTTTGG
93603995 GACATAGCACATATCATCGGT
131 GACATAGCACATATCATCGGT
* * ** *
93604016 GATGATATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATGTGTGCCAG
1 GATGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCAG
* * * * *
93604081 CGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATGTG-GATTCATGTAAGACCATG-TTG
66 CGTAAGACCATGTCTAGGACATGGCATCAGCGATGATATGTGTGACT-ATGTAAGACCATGTTTG
93604144 GAGACAT
130 G-GACAT
93604151 GGCATTGGTA
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
150 6 0.05
151 111 0.95
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (151 bp):
GATGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCAG
CGTAAGACCATGTCTAGGACATGGCATCAGCGATGATATGTGTGACTATGTAAGACCATGTTTGG
GACATAGCACATATCATCGGT
Found at i:93604941 original size:12 final size:12
Alignment explanation
Indices: 93604924--93604948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93604914 ACAAGTCAAG
93604924 GAGTCCCAATTA
1 GAGTCCCAATTA
93604936 GAGTCCCAATTA
1 GAGTCCCAATTA
93604948 G
1 G
93604949 GTAAACATGA
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (12 bp):
GAGTCCCAATTA
Found at i:93626248 original size:93 final size:93
Alignment explanation
Indices: 93626089--93626259 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93626079 GCCCATAAGT
* * *
93626089 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93626154 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
* *
93626182 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93626247 CGAGTTCGGATGC
66 CGAGTTCGGATGC
93626260 TCAACAATCC
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:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:93626256 original size:46 final size:46
Alignment explanation
Indices: 93626081--93626256 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
93626071 TGTAACCCGC
* * * *
93626081 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
93626127 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
93626177 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
93626220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
93626257 TGCTCAACAA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.57
47 29 0.26
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:93629352 original size:78 final size:80
Alignment explanation
Indices: 93629211--93629392 Score: 203
Period size: 78 Copynumber: 2.3 Consensus size: 80
93629201 TACTCGTTCA
* * *
93629211 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGAACTTAACCCGGA
* * *
93629275 TTTAGTGA-TCGCACC
66 TATAGTCACTAGCA-C
* * **
93629290 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTGACTCGCACAAATGCCTTC-GAATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGAA-CTTAACCCGG
93629352 ATATAGTCACTTAGCAC
65 ATATAGTCAC-TAGCAC
*
93629369 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
93629393 CATCATTCGA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
77 2 0.02
78 45 0.52
79 25 0.29
80 15 0.17
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGAACTTAACCCGGA
TATAGTCACTAGCAC
Found at i:93629392 original size:40 final size:40
Alignment explanation
Indices: 93629209--93629392 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
93629199 GCTACTCGTT
* * *
93629209 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTGACT-AGCA
* * *
93629249 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGA-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTGACTAGCA
* *
93629288 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTGACTAGCA
* * *
93629327 CAAATGCCTTC-GAATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTGAC-TAGCA
93629368 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93629393 CATCATTCGA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 17 0.14
39 31 0.26
40 61 0.51
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTGACTAGCA
Found at i:93633533 original size:27 final size:28
Alignment explanation
Indices: 93633503--93633582 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 28
93633493 AAACATACAT
* *
93633503 CACAT-AGGGACAAAACAGTCATTTTAG
1 CACATAAGGGACAAAATAGTCATTTTAC
*
93633530 CACATAAGGG-CAAAATAATCATTTTAC
1 CACATAAGGGACAAAATAGTCATTTTAC
* *
93633557 CTCATAAGGGA-AAAATAGTGATTTTA
1 CACATAAGGGACAAAATAGTCATTTTA
93633583 TCAATTAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 41 0.91
28 4 0.09
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (28 bp):
CACATAAGGGACAAAATAGTCATTTTAC
Found at i:93635287 original size:11 final size:10
Alignment explanation
Indices: 93635241--93635296 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
93635231 AGTTCCCATC
* *
93635241 AGCTCGCTTG
1 AGCTCGATTT
*
93635251 AGCTCGATTC
1 AGCTCGATTT
93635261 AGCTC-ATTT
1 AGCTCGATTT
93635270 GAGCTCGAATTT
1 -AGCTCG-ATTT
*
93635282 AGCTCGTTTT
1 AGCTCGATTT
93635292 AGCTC
1 AGCTC
93635297 ATTCCTTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 3 0.08
10 26 0.67
11 6 0.15
12 4 0.10
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (10 bp):
AGCTCGATTT
Found at i:93635295 original size:21 final size:20
Alignment explanation
Indices: 93635239--93635300 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
93635229 TCAGTTCCCA
*
93635239 TCAGCTCGCTTGAGCTCGAT
1 TCAGCTCGTTTGAGCTCGAT
*
93635259 TCAGCTCATTTGAGCTCGAAT
1 TCAGCTCGTTTGAGCTCG-AT
* *
93635280 TTAGCTCGTTTTAGCTC-AT
1 TCAGCTCGTTTGAGCTCGAT
93635299 TC
1 TC
93635301 CTTCTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 3 0.09
20 16 0.46
21 16 0.46
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (20 bp):
TCAGCTCGTTTGAGCTCGAT
Found at i:93640825 original size:80 final size:79
Alignment explanation
Indices: 93640741--93640912 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
93640731 GGACTAAGAT
*
93640741 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
93640805 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
93640821 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
93640886 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
93640900 CCGAAGGCATTTG
1 CCGAAGGCATTTG
93640913 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:93640892 original size:39 final size:39
Alignment explanation
Indices: 93640688--93640910 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
93640678 TTGAATGCTG
* * * * *
93640688 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
93640728 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
93640767 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
93640808 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
93640848 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
93640887 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
93640911 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:93640930 original size:79 final size:80
Alignment explanation
Indices: 93640768--93640945 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
93640758 AGATACAAAT
* * * *
93640768 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
93640833 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
93640848 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
93640912 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
93640927 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93640946 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:93642070 original size:236 final size:237
Alignment explanation
Indices: 93641599--93642060 Score: 890
Period size: 236 Copynumber: 2.0 Consensus size: 237
93641589 TGATCATATG
93641599 TGGGCATATGAATGAAAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAAGGTTTACTTT
1 TGGGCATATGAATGAAAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAAGGTTTACTTT
93641664 GAAAACAGAGGCTGACAGCAGCAGTGGTGTGGATTGGAAAAATCACAAGAATTTGTAGGAGTGGA
66 GAAAACAGAGGCTGACAGCAGCAGTGGTGTGGATTGGAAAAATCACAAGAATTTGTAGGAGTGGA
*
93641729 ATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTACTTTGATATGAAAGTAACGAA
131 ATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTACTTTCATATGAAAGTAACGAA
* *
93641794 ACAATCATATGAGCAGTACAGTAAGAGATATTCAGGTTCTTC
196 AAAATCATATGAACAGTACAGTAAGAGATATTCAGGTTCTTC
93641836 TGGG-ATATGAATGAAAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAAGGTTTACTTT
1 TGGGCATATGAATGAAAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAAGGTTTACTTT
93641900 GAAAACAGAGGCTGACAGCAGCAGTGGTGTGGATTGGAAAAATCACAAGAATTTGTAGGAGTGGA
66 GAAAACAGAGGCTGACAGCAGCAGTGGTGTGGATTGGAAAAATCACAAGAATTTGTAGGAGTGGA
93641965 ATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTACTTTCATATGAAAGTAACGAA
131 ATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTACTTTCATATGAAAGTAACGAA
93642030 AAAATCATATGAACAGTACAGTAAGAGATAT
196 AAAATCATATGAACAGTACAGTAAGAGATAT
93642061 CTGGGTTCTT
Statistics
Matches: 222, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
236 218 0.98
237 4 0.02
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (237 bp):
TGGGCATATGAATGAAAAGGCCCTAGTTGGTCCATGAAACCCCGAAAATAGGTAAGGTTTACTTT
GAAAACAGAGGCTGACAGCAGCAGTGGTGTGGATTGGAAAAATCACAAGAATTTGTAGGAGTGGA
ATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTACTTTCATATGAAAGTAACGAA
AAAATCATATGAACAGTACAGTAAGAGATATTCAGGTTCTTC
Found at i:93644375 original size:21 final size:21
Alignment explanation
Indices: 93644349--93644406 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
93644339 AATGAGAGTG
**
93644349 GAAAAAGAAAGACCAGAAAAT
1 GAAAAAGAAAGAAAAGAAAAT
* *
93644370 GAAAAAGAGAGAAAAGAAATT
1 GAAAAAGAAAGAAAAGAAAAT
*
93644391 GAAAGAGAAAAGAAAA
1 GAAAAAG-AAAGAAAA
93644407 AGAGTTGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.05
Consensus pattern (21 bp):
GAAAAAGAAAGAAAAGAAAAT
Found at i:93645532 original size:21 final size:20
Alignment explanation
Indices: 93645493--93645545 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
93645483 ATCAGCTTGC
93645493 TTGAGCTCGATTCAGCTCAT
1 TTGAGCTCGATTCAGCTCAT
* *
93645513 TTGAGCTTGAATTTAGCTCAT
1 TTGAGCTCG-ATTCAGCTCAT
*
93645534 TTCAGCTC-ATTC
1 TTGAGCTCGATTC
93645546 CTTCTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.11
20 8 0.30
21 16 0.59
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGAGCTCGATTCAGCTCAT
Found at i:93647678 original size:39 final size:39
Alignment explanation
Indices: 93647589--93647801 Score: 272
Period size: 39 Copynumber: 5.5 Consensus size: 39
93647579 ACAAAGCATG
* *
93647589 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* *
93647629 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
93647668 CGGGACTTAGCCCGGGTATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
93647707 CGGGACTTAGCCCGGAAAT-ATA--AGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
93647743 CGGGACTTAGCCTGGATATAACACCAGTACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
93647782 CGGGAATTAGCCTGGATATA
1 CGGGACTTAGCCCGGATATA
93647802 TATCTCACAC
Statistics
Matches: 153, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
36 30 0.20
37 2 0.01
38 23 0.15
39 93 0.61
40 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:93647749 original size:75 final size:76
Alignment explanation
Indices: 93647589--93647803 Score: 272
Period size: 75 Copynumber: 2.8 Consensus size: 76
93647579 ACAAAGCATG
* * * *
93647589 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTTCAGGACTTAGCCCGGATATAACAC
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATAT-ATA-
*
93647653 CAGCACGAATGCCTT
62 CAGCACAAATGCCTT
* *
93647668 CGGGACTTAGCCCGGGTATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGAAATATA-AGC
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATATACAGC
93647732 ACAAATGCCTT
66 ACAAATGCCTT
* * * * *
93647743 CGGGACTTAGCCTGGATATAACACCAGTACGAATGCCTTCGGGAATTAGCCTGGATATATA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATATA
93647804 TCTCACACAA
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
75 67 0.55
77 22 0.18
78 26 0.21
79 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (76 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATATACAGC
ACAAATGCCTT
Found at i:93653344 original size:27 final size:27
Alignment explanation
Indices: 93653304--93653492 Score: 209
Period size: 27 Copynumber: 7.0 Consensus size: 27
93653294 ACAAAATGAT
* *
93653304 TGAAATACCTCTGTAGGGTAGAATTAT
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
93653331 TGAAATACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
93653358 TGAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
93653385 TGAAATACCCCTGAAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * *
93653412 CGAAATA-CCCTCATAGGGTAGAAATAC
1 TGAAATACCCCT-GTAGGGTAGAATTAC
** * *
93653439 CAAAATACCCTTGTAGGGTACAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
93653466 CGAGATACCCTTGTGGGGTAAAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
93653493 CATTTTGCCC
Statistics
Matches: 140, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 4 0.03
27 133 0.95
28 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAGAATTAC
Found at i:93653732 original size:27 final size:26
Alignment explanation
Indices: 93653694--93653781 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
93653684 ATGGAGGAAG
93653694 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
*
93653721 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * * * *
93653747 TGTATCTGATGACTTTGTCATAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
93653774 TGTTCTGG
1 TGTTCTGG
93653782 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:93653907 original size:6 final size:6
Alignment explanation
Indices: 93653898--93654022 Score: 76
Period size: 6 Copynumber: 20.3 Consensus size: 6
93653888 TTGCATTCAC
* * * * *
93653898 ATTCTG ATTCTG ATTCTG CTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
93653948 ATTCTG AGTCTG GTTCTA ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
93653997 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
93654023 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
5 3 0.03
6 74 0.83
7 10 0.11
8 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:93653946 original size:25 final size:25
Alignment explanation
Indices: 93653901--93653964 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
93653891 CATTCACATT
*
93653901 CTGATTCTGATTCTGCTACCTGATA
1 CTGATTCTGATTCTGCTACCTAATA
*
93653926 CTGATTCTGATTCTG-TCACCTAATT
1 CTGATTCTGATTCTGCT-ACCTAATA
* *
93653951 CTGAGTCTGGTTCT
1 CTGATTCTGATTCT
93653965 AATTCTGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (25 bp):
CTGATTCTGATTCTGCTACCTAATA
Found at i:93653951 original size:19 final size:19
Alignment explanation
Indices: 93653929--93653996 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
93653919 CCTGATACTG
93653929 ATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
* *
93653948 ATTCTGAGTCTGGT--TCTA
1 ATTCTGATTCT-GTCACCTA
*
93653966 ATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGTCACCTA
93653985 ATTCTGATTCTG
1 ATTCTGATTCTG
93653997 ATTCTCATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 2 0.05
18 13 0.32
19 24 0.59
20 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:93653970 original size:37 final size:37
Alignment explanation
Indices: 93653920--93654013 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
93653910 ATTCTGCTAC
* *
93653920 CTGATACTGATTCTGATTCTGTCACCTAATTCTGAGT
1 CTGATTCTAATTCTGATTCTGTCACCTAATTCTGAGT
* * *
93653957 CTGGTTCTAATTCTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTAATTCTGATTCTGTCACCTAATTCTGAGT
* *
93653994 CTGATTCTCATTTTGATTCT
1 CTGATTCTAATTCTGATTCT
93654014 AGTTCTGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (37 bp):
CTGATTCTAATTCTGATTCTGTCACCTAATTCTGAGT
Found at i:93655469 original size:8 final size:8
Alignment explanation
Indices: 93655456--93655495 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
93655446 ACTAGTCGGC
*
93655456 AAAAGCCA
1 AAAAGCCG
93655464 AAAAGCCG
1 AAAAGCCG
*
93655472 AAAAGCTG
1 AAAAGCCG
93655480 AAAAGCCG
1 AAAAGCCG
93655488 AAAAGCCG
1 AAAAGCCG
93655496 GTATTTTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:93655952 original size:27 final size:26
Alignment explanation
Indices: 93655910--93655993 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
93655900 AGGGAGTATA
* *
93655910 CTGGTGGCTTTGCCACAAATATCTATT
1 CTGGTGGCTCTGCCAC-AATATCTGTT
*
93655937 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGT-T
* *
93655964 CTGGTGACTCTGTCACAATATCTGTT
1 CTGGTGGCTCTGCCACAATATCTGTT
93655990 CTGG
1 CTGG
93655994 CAGCTATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.26
27 37 0.74
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:93672337 original size:27 final size:27
Alignment explanation
Indices: 93672307--93672495 Score: 254
Period size: 27 Copynumber: 7.0 Consensus size: 27
93672297 ACAAAATGAT
93672307 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
93672334 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* *
93672361 TAAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
93672388 TGAAATACCCCTGTAGGGTAGAATTAT
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
93672415 TGAAATA-CCCTCGTAGGGTAGAAATAC
1 TGAAATACCCCT-GTAGGGTAGAATTAC
* * *
93672442 CGAAATACCCTTGTAGGGTACAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
93672469 CGAGATACCCTTGTGGGGTAAAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
93672496 AATTTTGCCC
Statistics
Matches: 146, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.03
27 139 0.95
28 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAGAATTAC
Found at i:93672736 original size:28 final size:28
Alignment explanation
Indices: 93672699--93672816 Score: 195
Period size: 28 Copynumber: 4.3 Consensus size: 28
93672689 GGAGGAAGTG
*
93672699 TTCTGGTGGCTATGCCACAAGTATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
93672727 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
93672755 TTCTGGTGGCTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
93672782 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
93672809 ATCTGGTG
1 TTCTGGTG
93672817 ACTCTATCAT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.09
27 24 0.28
28 54 0.63
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:93672821 original size:27 final size:26
Alignment explanation
Indices: 93672697--93672840 Score: 180
Period size: 28 Copynumber: 5.3 Consensus size: 26
93672687 ATGGAGGAAG
93672697 TGTTCTGGTGGCTATGCCACAAGTATC
1 TGTTCTGGTGGCTATGCCACAA-TATC
93672724 TGTTTCTGGTGGCTATGCCACAAATATC
1 TG-TTCTGGTGGCTATGCCAC-AATATC
93672752 TGTTTCTGGTGGCTATGCCACAAATATC
1 TG-TTCTGGTGGCTATGCCAC-AATATC
*
93672780 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * ** *
93672806 TGTATCTGGTGACTCTATCATAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
93672833 TGTTCTGG
1 TGTTCTGG
93672841 CAGCCATGCT
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
26 14 0.13
27 41 0.38
28 52 0.48
29 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:93672967 original size:6 final size:6
Alignment explanation
Indices: 93672958--93673088 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
93672948 TTGCATTCAC
*
93672958 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * * *
93673006 ATCACCTA ATTCTA ATTCTG ATTCTG ATTCTA ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
93673057 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
93673089 GATGTTTCTT
Statistics
Matches: 101, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 6 0.06
6 82 0.81
7 9 0.09
8 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:93672989 original size:25 final size:25
Alignment explanation
Indices: 93672961--93673031 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
93672951 CATTCACATT
*
93672961 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
93672986 CTGATACTGATTCTGATTCTATCAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
93673011 CTAATTCTAATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
93673032 ATTCTAATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:93672996 original size:31 final size:30
Alignment explanation
Indices: 93672958--93673067 Score: 116
Period size: 31 Copynumber: 3.6 Consensus size: 30
93672948 TTGCATTCAC
93672958 ATTCTGATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCT-ATTCTGTTACCTG
* * * *
93672989 ATACTGATTCTGATTCTATCACCTAATT--CTA
1 ATTCTGATTCTGATTCTAT--TCT-GTTACCTG
*
93673020 ATTCTGATTCTGATTCTAATTCTGTCACCTG
1 ATTCTGATTCTGATTCT-ATTCTGTTACCTG
93673051 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
93673068 CATTTTGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.02
30 4 0.06
31 53 0.83
32 4 0.06
33 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTATTCTGTTACCTG
Found at i:93673027 original size:37 final size:37
Alignment explanation
Indices: 93672986--93673080 Score: 127
Period size: 37 Copynumber: 2.6 Consensus size: 37
93672976 ATTCTGTTAC
*
93672986 CTGATACTGATTCTGATTCTATCACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTAATT
* * * *
93673023 CTGATTCTGATTCTAATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTAATT
* *
93673060 CTGATTCTCATTTTGATTCTA
1 CTGATTCTGATTCTGATTCTA
93673081 GTTCTGATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTATCACCTAATTCTAATT
Found at i:93678665 original size:40 final size:40
Alignment explanation
Indices: 93678537--93678845 Score: 347
Period size: 40 Copynumber: 7.6 Consensus size: 40
93678527 TCCTCGTTCA
* * * *
93678537 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
93678576 AATGCCTTCGGGACTTAACCCGGATTTAATAACTGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TT--T-A--GTAACTCGCACG
93678622 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
93678662 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
93678702 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * * *
93678742 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCACG
** * * * *
93678782 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
93678822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
93678846 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 19, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
39 26 0.11
40 161 0.67
41 12 0.05
42 2 0.01
43 2 0.01
45 12 0.05
46 24 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:93678854 original size:41 final size:41
Alignment explanation
Indices: 93678777--93678854 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
93678767 TTTGTATCTC
* * *
93678777 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
93678818 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
93678855 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:93679581 original size:84 final size:84
Alignment explanation
Indices: 93679440--93679607 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
93679430 AACCAATGCA
*
93679440 CATATGTGCTCACACAAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCA
1 CATATGTACTCACACAAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCA
93679505 TCATTAACAAGCTTCATTT
66 TCATTAACAAGCTTCATTT
93679524 CATATGTACTCACACAAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCA
1 CATATGTACTCACACAAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCA
93679589 TCATTAACAAGCTTCATTT
66 TCATTAACAAGCTTCATTT
93679608 TTTGCATGCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (84 bp):
CATATGTACTCACACAAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCA
TCATTAACAAGCTTCATTT
Found at i:93682014 original size:13 final size:13
Alignment explanation
Indices: 93681996--93682021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93681986 TTTTATTCAC
93681996 AAGGCCGCATGCA
1 AAGGCCGCATGCA
93682009 AAGGCCGCATGCA
1 AAGGCCGCATGCA
93682022 CTTGCCGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.31, T:0.08
Consensus pattern (13 bp):
AAGGCCGCATGCA
Found at i:93686616 original size:27 final size:26
Alignment explanation
Indices: 93686556--93686666 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
93686546 AGCATGGCTG
* * *
93686556 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
93686582 CCAGAACAGATAATCGTGGCAGACCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
93686609 CCAAAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
93686636 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
93686663 CCAG
1 CCAG
93686667 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.19
27 57 0.78
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:93694415 original size:27 final size:26
Alignment explanation
Indices: 93694358--93694468 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
93694348 AGCATGGCTT
** *
93694358 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
93694384 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
93694411 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
93694438 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
93694465 CCAG
1 CCAG
93694469 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:93696949 original size:12 final size:12
Alignment explanation
Indices: 93696922--93696962 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
93696912 CAAATAGATA
*
93696922 ATTTCTCATTTTC
1 ATTTCT-ATTTCC
93696935 ATTTCTATTTCC
1 ATTTCTATTTCC
93696947 ATTTCTATTTCC
1 ATTTCTATTTCC
93696959 ATTT
1 ATTT
93696963 TGAGAAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTCTATTTCC
Found at i:93696956 original size:18 final size:19
Alignment explanation
Indices: 93696922--93696962 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
93696912 CAAATAGATA
*
93696922 ATTTCTCATTTTCATTTCT
1 ATTTCTCATTTTCATTTCC
93696941 ATTTC-CA-TTTCTATTTCC
1 ATTTCTCATTTTC-ATTTCC
93696959 ATTT
1 ATTT
93696963 TGAGAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTCTCATTTTCATTTCC
Found at i:93704397 original size:43 final size:43
Alignment explanation
Indices: 93704336--93704491 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
93704326 TTATTTCAAA
* *
93704336 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
* * *
93704379 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
93704422 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
* * *
93704465 AAACGCCGCTAAATATCATGAACTTTA
1 AAACGCCGCTAAAGACCATGACCTTTA
93704492 AAAAAATTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
Found at i:93707638 original size:23 final size:23
Alignment explanation
Indices: 93707611--93707656 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
93707601 TTTTTAAATG
93707611 CCACCTAATCCGATTTAACAGAT
1 CCACCTAATCCGATTTAACAGAT
93707634 CCACCTAATCCGATTTAACAGAT
1 CCACCTAATCCGATTTAACAGAT
93707657 GTTCTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (23 bp):
CCACCTAATCCGATTTAACAGAT
Found at i:93709468 original size:44 final size:45
Alignment explanation
Indices: 93709419--93709509 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
93709409 ACCTCTATTC
* * *
93709419 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
93709463 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
93709508 CA
1 CA
93709510 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:93709511 original size:16 final size:16
Alignment explanation
Indices: 93709490--93709558 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
93709480 GATTAGCTAT
93709490 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
93709506 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
93709523 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
93709539 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
93709555 TACA
1 TACA
93709559 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:93709532 original size:33 final size:32
Alignment explanation
Indices: 93709490--93709558 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
93709480 GATTAGCTAT
93709490 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
93709523 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
93709555 TACA
1 TACA
93709559 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:93710791 original size:21 final size:21
Alignment explanation
Indices: 93710767--93710848 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
93710757 AACCTTAAAC
*
93710767 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
93710788 CTTAAACCATAATTAACTCATAAAC
1 CTTAAACCAT-A--AAC-CATATAT
* *
93710813 CTTAAACCCTAAATCATATAT
1 CTTAAACCATAAACCATATAT
93710834 CTTAAACCATAAACC
1 CTTAAACCATAAACC
93710849 TTAAACTATA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
21 27 0.56
22 3 0.06
24 4 0.08
25 14 0.29
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:93710793 original size:14 final size:14
Alignment explanation
Indices: 93710776--93710854 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
93710766 CCTTAAACCC
93710776 TAAACCATATATCT
1 TAAACCATATATCT
*
93710790 TAAACCATAATTAACTCA
1 TAAACCAT-A-T-A-TCT
* * * *
93710808 TAAACCTTAAACCC
1 TAAACCATATATCT
*
93710822 TAAATCATATATCT
1 TAAACCATATATCT
* *
93710836 TAAACCATAAACCT
1 TAAACCATATATCT
93710850 TAAAC
1 TAAAC
93710855 TATAATGATA
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
14 34 0.71
15 2 0.04
16 1 0.02
17 2 0.04
18 9 0.19
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCATATATCT
Found at i:93711073 original size:41 final size:41
Alignment explanation
Indices: 93711016--93711265 Score: 342
Period size: 41 Copynumber: 6.1 Consensus size: 41
93711006 GTTACATGAC
93711016 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
93711057 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGTTCTTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
93711098 TTTTAGCGGCATTTTACCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
93711139 TTTTAGCGGCGTTTTAGCAAAAGCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * *
93711180 TTTTAGTGGCGTTTTACCAAAAGTGCTGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
93711220 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTG-GT
93711263 TTT
1 TTT
93711266 ACAATTTTTG
Statistics
Matches: 181, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 11 0.06
41 156 0.86
42 10 0.06
43 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:93714570 original size:21 final size:22
Alignment explanation
Indices: 93714527--93714582 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
93714517 AATAGGAAGA
*
93714527 TATTATTTTGTTTCATTTCATTT
1 TATTA-TTTATTTCATTTCATTT
*
93714550 TATTATTTATTT-ATTTTATTT
1 TATTATTTATTTCATTTCATTT
93714571 TATT-TTTGATTT
1 TATTATTT-ATTT
93714583 TATATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 16 0.53
22 6 0.20
23 5 0.17
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (22 bp):
TATTATTTATTTCATTTCATTT
Found at i:93714584 original size:17 final size:18
Alignment explanation
Indices: 93714552--93714585 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
93714542 TTTCATTTTA
*
93714552 TTATTTATTTATTTTATT
1 TTATTTATTGATTTTATT
93714570 TTATTT-TTGATTTTAT
1 TTATTTATTGATTTTAT
93714586 ATTAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
TTATTTATTGATTTTATT
Found at i:93717168 original size:18 final size:18
Alignment explanation
Indices: 93717145--93717180 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
93717135 ACCTGGCATG
93717145 AGTCGCGGCC-ACGACACT
1 AGTCGC-GCCAACGACACT
93717163 AGTCGCGCCAACGACACT
1 AGTCGCGCCAACGACACT
93717181 GGTCAAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.25, C:0.39, G:0.25, T:0.11
Consensus pattern (18 bp):
AGTCGCGCCAACGACACT
Found at i:93721744 original size:18 final size:18
Alignment explanation
Indices: 93721717--93721751 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93721707 TACCGCCGAT
93721717 CACCGCCGTCGCACCCCG
1 CACCGCCGTCGCACCCCG
*
93721735 CACCGTCGTCGCACCCC
1 CACCGCCGTCGCACCCC
93721752 ACGCCACCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.60, G:0.20, T:0.09
Consensus pattern (18 bp):
CACCGCCGTCGCACCCCG
Found at i:93724377 original size:5 final size:5
Alignment explanation
Indices: 93724361--93724407 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
93724351 TAGGAAGATA
* *
93724361 TTATT TTGTT TTATT TTATT TTATT TTATT ATT-TA TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TT
93724408 TGATTTCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 2 0.06
5 32 0.89
6 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:93732743 original size:46 final size:46
Alignment explanation
Indices: 93732693--93732868 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
93732683 TGGTTGAGCA
*
93732693 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGTGAATG
*
93732739 TCCGAACTCGTTGAGTTGAGTCCGAGTTCG-TGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGTGAA-T--G
* *
93732784 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGTGAATG
*
93732832 -CACGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
93732869 GCAGGTTACA
Statistics
Matches: 114, Mismatches: 6, Indels: 20
0.81 0.04 0.14
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
45 4 0.04
46 63 0.55
47 30 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGTGAATG
Found at i:93732849 original size:93 final size:93
Alignment explanation
Indices: 93732690--93732861 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
93732680 GGATGGTTGA
* *
93732690 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
93732755 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
93732783 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACG-CACGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
93732847 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
93732862 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93735500 original size:27 final size:27
Alignment explanation
Indices: 93735476--93735683 Score: 272
Period size: 27 Copynumber: 7.7 Consensus size: 27
93735466 TTAGTTTACC
* *
93735476 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
93735503 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
93735530 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
*
93735557 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
93735584 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
93735611 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
93735638 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
93735665 AAATTACCAAAATATCCCT
1 AAATTACCAAAATA-CCCT
93735684 GATTTGTGAA
Statistics
Matches: 158, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 155 0.98
28 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:93735535 original size:54 final size:54
Alignment explanation
Indices: 93735476--93735705 Score: 327
Period size: 54 Copynumber: 4.3 Consensus size: 54
93735466 TTAGTTTACC
* *
93735476 AAATTACTAAAATACCATTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * *
93735530 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
*
93735584 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * *
93735638 AAATTA-TCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGATTTGTG
1 AAATTACT-AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
*
93735692 AAATTACTGAAATA
1 AAATTACTAAAATA
93735706 TCTTCGACCT
Statistics
Matches: 158, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 156 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (54 bp):
AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:93735762 original size:27 final size:27
Alignment explanation
Indices: 93735476--93735816 Score: 224
Period size: 27 Copynumber: 12.6 Consensus size: 27
93735466 TTAGTTTACC
* * * * *
93735476 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
93735503 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
93735530 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
93735557 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
93735584 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
93735611 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
93735638 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
93735665 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
** * * **
93735692 AAATTACTGAAATATCTTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * *
93735719 AAATTATTGAAACACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* ** **
93735746 AAATTACCAAAGTACCCTTAATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** *
93735773 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
93735800 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
93735817 CTGTAGGGTA
Statistics
Matches: 248, Mismatches: 57, Indels: 18
0.77 0.18 0.06
Matches are distributed among these distances:
26 3 0.01
27 238 0.96
28 7 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:93735831 original size:27 final size:27
Alignment explanation
Indices: 93735801--93736264 Score: 599
Period size: 27 Copynumber: 17.3 Consensus size: 27
93735791 CGATTTATAA
*
93735801 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
93735828 AATTACCGTAACACCCCTATAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
93735855 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93735882 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93735909 AATTACCGAAATA-CCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93735935 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93735962 GATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93735989 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93736016 AATTACCGAAACACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
93736043 AATTATCGCAACACCCGTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
93736070 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93736097 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
93736124 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
93736151 AATTATCGCAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93736178 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
93736205 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
93736232 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
93736258 AATTACC
1 AATTACC
93736265 ATTTTGCCCT
Statistics
Matches: 380, Mismatches: 56, Indels: 3
0.87 0.13 0.01
Matches are distributed among these distances:
26 38 0.10
27 342 0.90
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:93736742 original size:22 final size:22
Alignment explanation
Indices: 93736691--93736754 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
93736681 TAAAGCCTTT
* *
93736691 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
*
93736713 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
93736735 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
93736755 ACATATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:93736943 original size:27 final size:27
Alignment explanation
Indices: 93736913--93737014 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
93736903 ATTTTGTTAA
* *
93736913 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* * *
93736940 GTGGCTATGCTACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
93736967 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
93736994 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
93737015 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.79
28 6 0.10
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:93737177 original size:6 final size:6
Alignment explanation
Indices: 93737146--93737239 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
93737136 TTGCATTCAC
* * *
93737146 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
93737195 -TTACCTG ATACTA ATTCTG ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
93737240 AATGTTTCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.07
6 55 0.80
7 7 0.10
8 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:93737184 original size:31 final size:31
Alignment explanation
Indices: 93737146--93737224 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
93737136 TTGCATTCAC
*
93737146 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
93737177 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
93737208 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
93737225 AATTCTAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:93744460 original size:25 final size:25
Alignment explanation
Indices: 93744404--93744474 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
93744394 CACTTTTATC
* *
93744404 TTTATTT-ATCTT-CTTTAAGTACTT
1 TTTATTTCATTTTCCTTTAA-TAATT
93744428 TTTATTTCATTTTCCTTTAATAATT
1 TTTATTTCATTTTCCTTTAATAATT
93744453 TTTATTTCATTTTCCTTTAATA
1 TTTATTTCATTTTCCTTTAATA
93744475 TTAGTTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 7 0.16
25 30 0.70
26 6 0.14
ACGTcount: A:0.23, C:0.13, G:0.01, T:0.63
Consensus pattern (25 bp):
TTTATTTCATTTTCCTTTAATAATT
Found at i:93744482 original size:11 final size:11
Alignment explanation
Indices: 93744468--93744492 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
93744458 TTCATTTTCC
93744468 TTTAATATTAG
1 TTTAATATTAG
93744479 TTTAATATTAG
1 TTTAATATTAG
93744490 TTT
1 TTT
93744493 TTACAATTTT
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:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAATATTAG
Found at i:93750018 original size:58 final size:57
Alignment explanation
Indices: 93749951--93750120 Score: 180
Period size: 58 Copynumber: 2.9 Consensus size: 57
93749941 GGTTCGCCAT
* ** * *
93749951 AAAGTCTTACCTTTCTATTGTTTTGCCACAAA-ACGTTTTCCTTTAGCAGGTTCACAAC
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGA--TTGTCCTTTAGCAAGTTCACAAC
* * *
93750009 AAAGGCTTACCTTTCTAGAGTTTTGCCACACAGATTGTCCTTTAGCAAGTTCGCCAC
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGATTGTCCTTTAGCAAGTTCACAAC
* * *
93750066 AAAGGCTTTTCTTTTCTTATAGAATTTTGCCACAAAGATTGTCCTTTAGCAAGTT
1 AAAGGC-TTACCTTTC---TAGAGTTTTGCCACAAAGATTGTCCTTTAGCAAGTT
93750121 TGCCACAAAG
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 25 0.26
58 35 0.37
59 1 0.01
61 34 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (57 bp):
AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGATTGTCCTTTAGCAAGTTCACAAC
Found at i:93750110 original size:61 final size:61
Alignment explanation
Indices: 93750024--93750142 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 61
93750014 CTTACCTTTC
* * *
93750024 TAGAGTTTTGCCACACAGATTGTCCTTTAGCAAGTTCGCCACAAAGGCTTTTCTTTTCTTA
1 TAGAATTTTGCCACAAAGATTGTCCTTTAGCAAGTTCGCCACAAAGGATTTTCTTTTCTTA
*
93750085 TAGAATTTTGCCACAAAGATTGTCCTTTAGCAAGTTTGCCACAAAGGATTTTCTTTTC
1 TAGAATTTTGCCACAAAGATTGTCCTTTAGCAAGTTCGCCACAAAGGATTTTCTTTTC
93750143 CTAGTGATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (61 bp):
TAGAATTTTGCCACAAAGATTGTCCTTTAGCAAGTTCGCCACAAAGGATTTTCTTTTCTTA
Found at i:93750140 original size:28 final size:26
Alignment explanation
Indices: 93750077--93750140 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 26
93750067 AAGGCTTTTC
*
93750077 TTTTCTTATAGAATTTTGCCACAAAGA
1 TTTTCTT-TAGAAGTTTGCCACAAAGA
*
93750104 TTGTCCTTTAGCAAGTTTGCCACAAAGGA
1 TT-TTCTTTAG-AAGTTTGCCACAAA-GA
93750133 TTTTCTTT
1 TTTTCTTT
93750141 TCCTAGTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.16
28 22 0.71
29 4 0.13
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (26 bp):
TTTTCTTTAGAAGTTTGCCACAAAGA
Found at i:93754198 original size:24 final size:24
Alignment explanation
Indices: 93754166--93754220 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
93754156 ACACCTTCAT
*
93754166 ATACATATACACATGAACACATAC
1 ATACATATACACATAAACACATAC
* *
93754190 ATACTTATACACATAAACACATAT
1 ATACATATACACATAAACACATAC
93754214 ATACATA
1 ATACATA
93754221 CCTTCCACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (24 bp):
ATACATATACACATAAACACATAC
Found at i:93765394 original size:15 final size:15
Alignment explanation
Indices: 93765376--93765407 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
93765366 TTGGGTCGAT
93765376 TTTGGTAGGGTAAGA
1 TTTGGTAGGGTAAGA
93765391 TTTGGTAGGGTAAGA
1 TTTGGTAGGGTAAGA
93765406 TT
1 TT
93765408 CTTTGGGTCG
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:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (15 bp):
TTTGGTAGGGTAAGA
Found at i:93771936 original size:29 final size:29
Alignment explanation
Indices: 93771872--93771937 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
93771862 CTTTCATTTA
* *
93771872 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
93771901 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
93771929 TTTACTCAA
1 TTT-CTCAA
93771938 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:93778469 original size:41 final size:41
Alignment explanation
Indices: 93778413--93778535 Score: 144
Period size: 41 Copynumber: 3.0 Consensus size: 41
93778403 AAATGCTGCA
* **
93778413 AAAAACTGAGCAATAGCGGCGCTTTTGATCCAAACGCCGCT
1 AAAAACTGAACAATAGCGGCGCTTTTGATAAAAACGCCGCT
** * *
93778454 AAAAA-TAGAGTAATAGTGGCG-TTTTCAGTAAAAACGCCGCT
1 AAAAACT-GAACAATAGCGGCGCTTTTGA-TAAAAACGCCGCT
93778495 AAAAACTGAACAATAGCGGCGCTTTTGA-AAAAACGCCGCT
1 AAAAACTGAACAATAGCGGCGCTTTTGATAAAAACGCCGCT
93778535 A
1 A
93778536 TAGGTCGAGC
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
40 19 0.28
41 44 0.64
42 6 0.09
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAAACTGAACAATAGCGGCGCTTTTGATAAAAACGCCGCT
Found at i:93778568 original size:41 final size:41
Alignment explanation
Indices: 93778508--93778696 Score: 254
Period size: 41 Copynumber: 4.6 Consensus size: 41
93778498 AACTGAACAA
* * *
93778508 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* * * * *
93778549 TAGCGGCACTTTTTGAAAAACGCCGCTATTGCTC-AGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
93778589 TAGCAGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
93778630 TAGCGGCGCTTTTGGGAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
93778671 TAGCGGCGCTTTTGGGAAAATGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
93778697 AAAAAATTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 33 0.25
41 97 0.75
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:93778598 original size:81 final size:82
Alignment explanation
Indices: 93778508--93778684 Score: 248
Period size: 81 Copynumber: 2.2 Consensus size: 82
93778498 AACTGAACAA
* * *
93778508 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTTTTAGCGGCACTTTTTGAAAAACGCC
1 TAGCGGCGCTTTTGAAAAAACGCCACTATAGATCGAGCTTTTAGCGGCACTTTTGGAAAAACGCC
* * *
93778573 GCTATTGCTC-AGTTTT
66 GCTATAGATCGAGGTTT
* * * * *
93778589 TAGCAGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGGAAAACGCC
1 TAGCGGCGCTTTTGAAAAAACGCCACTATAGATCGAGCTTTTAGCGGCACTTTTGGAAAAACGCC
93778654 GCTATAGATCGAGGTTT
66 GCTATAGATCGAGGTTT
93778671 TAGCGGCGCTTTTG
1 TAGCGGCGCTTTTG
93778685 GGAAAATGCC
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
81 65 0.78
82 18 0.22
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (82 bp):
TAGCGGCGCTTTTGAAAAAACGCCACTATAGATCGAGCTTTTAGCGGCACTTTTGGAAAAACGCC
GCTATAGATCGAGGTTT
Found at i:93779192 original size:23 final size:23
Alignment explanation
Indices: 93779166--93779232 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
93779156 TTTATGGGTT
93779166 AAGGGTTAGGGTTTAAGTTTTAG
1 AAGGGTTAGGGTTTAAGTTTTAG
* *
93779189 AAGGGTTGGGGTTTAAGGTTTAG
1 AAGGGTTAGGGTTTAAGTTTTAG
*
93779212 --GGGTTAAGGGTTTATGTTTTA
1 AAGGGTT-AGGGTTTAAGTTTTA
93779233 TGATTTAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 5 0.13
22 12 0.32
23 21 0.55
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.40
Consensus pattern (23 bp):
AAGGGTTAGGGTTTAAGTTTTAG
Found at i:93781390 original size:23 final size:23
Alignment explanation
Indices: 93781364--93781409 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
93781354 ACTAGAGAAC
93781364 ATCTGTTAAATCGGATTAGGTGG
1 ATCTGTTAAATCGGATTAGGTGG
93781387 ATCTGTTAAATCGGATTAGGTGG
1 ATCTGTTAAATCGGATTAGGTGG
93781410 CATTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.35
Consensus pattern (23 bp):
ATCTGTTAAATCGGATTAGGTGG
Found at i:93784497 original size:18 final size:17
Alignment explanation
Indices: 93784461--93784503 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
93784451 TCAAATTTCA
*
93784461 AAAATTAAACATAATAT
1 AAAATTAAACATAAAAT
*
93784478 AAAATTTAACATAAAAAT
1 AAAATTAAACAT-AAAAT
93784496 AAATATTA
1 AAA-ATTA
93784504 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 11 0.52
18 7 0.33
19 3 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTAAACATAAAAT
Found at i:93784582 original size:43 final size:43
Alignment explanation
Indices: 93784529--93784684 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
93784519 ATAATTTTTT
* * *
93784529 TAAAGTTCATGATATTTAGCGGCGTTTGTGAGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGC
* * *
93784572 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGC
* *
93784615 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGC
93784658 TAAAGGTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCATGGTCTTTAGCGGCGTTT
93784685 TTTGAAATAA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGC
Found at i:93792075 original size:12 final size:12
Alignment explanation
Indices: 93792058--93792098 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
93792048 GGTTTTCTCA
93792058 AAATGGAAATAG
1 AAATGGAAATAG
93792070 AAATGGAAATAG
1 AAATGGAAATAG
*
93792082 AAATGAAAATGAG
1 AAATGGAAAT-AG
93792095 AAAT
1 AAAT
93792099 TATCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (12 bp):
AAATGGAAATAG
Found at i:93794673 original size:26 final size:26
Alignment explanation
Indices: 93794570--93794676 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 26
93794560 AGCGTCCTGT
* *
93794570 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCAC-ATTATCTGTTCTGG
*
93794597 TGGCTCTGCCACATATATCTATTCTGG
1 TGGCTCTGCCACAT-TATCTGTTCTGG
93794624 TGGCTCTGCCACGATTATCTGTTCTGG
1 TGGCTCTGCCAC-ATTATCTGTTCTGG
* **
93794651 TGACTCTATCACATTATCTGTTCTGG
1 TGGCTCTGCCACATTATCTGTTCTGG
93794677 AAGCCATGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.23
27 53 0.75
28 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGTTCTGG
Found at i:93802408 original size:27 final size:26
Alignment explanation
Indices: 93802368--93802478 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
93802358 AGGAAGCGTC
* *
93802368 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
93802395 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
93802422 TTGGTGGGTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
93802449 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
93802475 CTGG
1 CTGG
93802479 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:93807029 original size:13 final size:13
Alignment explanation
Indices: 93807013--93807038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93807003 ATGCGGCAAG
93807013 TGCATGCGGCCTT
1 TGCATGCGGCCTT
93807026 TGCATGCGGCCTT
1 TGCATGCGGCCTT
93807039 GTGAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (13 bp):
TGCATGCGGCCTT
Found at i:93810130 original size:40 final size:40
Alignment explanation
Indices: 93810086--93810257 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
93810076 GGACTAAGAT
*
93810086 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
93810126 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
93810166 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
93810206 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
93810245 CCGAAGGCATTTG
1 CCGAAGGCATTTG
93810258 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:93810171 original size:80 final size:79
Alignment explanation
Indices: 93810086--93810257 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
93810076 GGACTAAGAT
*
93810086 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
93810150 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
93810166 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
93810231 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
93810245 CCGAAGGCATTTG
1 CCGAAGGCATTTG
93810258 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:93810275 original size:79 final size:80
Alignment explanation
Indices: 93810113--93810290 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
93810103 AGATACAAAT
* * * *
93810113 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
93810178 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
93810193 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
93810257 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
93810272 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93810291 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:93811384 original size:150 final size:149
Alignment explanation
Indices: 93811193--93811494 Score: 559
Period size: 150 Copynumber: 2.0 Consensus size: 149
93811183 GAACAGGGCC
93811193 AGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTCACTATAAATTGACCAGAGATAATTA
1 AGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTCACTATAAATTGACCAGAGATAATTA
*
93811258 GGGGTCATACCATATATGTATGGATTCCTCTATGAGTCTAGTGTCCATAGAAAGAAACGGCATCA
66 GGGGTCATACCATATATGTATGGATTCCTCTATGAGTCTAGTGTCCATAGAAACAAACGGCATC-
93811323 AGTATTGAAGCTCTGTGCAG
130 AGTATTGAAGCTCTGTGCAG
*
93811343 AGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTCACTATAAATTTACCAGAGATAATTA
1 AGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTCACTATAAATTGACCAGAGATAATTA
* *
93811408 GGGGTCATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGCATCA
66 GGGGTCATACCATATATGTATGGATTCCTCTATGAGTCTAGTGTCCATAGAAACAAACGGCATCA
93811473 GTATTGAAGCTCTGTGCAG
131 GTATTGAAGCTCTGTGCAG
93811492 AGA
1 AGA
93811495 GATATCGAAG
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
149 23 0.16
150 125 0.84
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (149 bp):
AGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTCACTATAAATTGACCAGAGATAATTA
GGGGTCATACCATATATGTATGGATTCCTCTATGAGTCTAGTGTCCATAGAAACAAACGGCATCA
GTATTGAAGCTCTGTGCAG
Found at i:93818211 original size:40 final size:39
Alignment explanation
Indices: 93818174--93818351 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
93818164 ATATCCGGAC
93818174 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
93818214 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
93818254 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
93818294 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
93818333 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
93818352 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:93818264 original size:80 final size:79
Alignment explanation
Indices: 93818180--93818351 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
93818170 GGACTAAGAT
*
93818180 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
93818244 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
93818260 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
93818325 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
93818339 CCGAAGGCATTTG
1 CCGAAGGCATTTG
93818352 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:93818369 original size:79 final size:80
Alignment explanation
Indices: 93818207--93818384 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
93818197 AGATACAAAT
* * * *
93818207 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
93818272 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
93818287 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
93818351 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
93818366 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93818385 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:93830280 original size:46 final size:45
Alignment explanation
Indices: 93830228--93830400 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
93830218 TGGTTGAGCA
* *
93830228 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAACG
* * * * *
93830274 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--A--CG
*
93830321 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGAGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGA-AACG
* * *
93830367 CCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93830401 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.56
47 27 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAACG
Found at i:93830662 original size:19 final size:20
Alignment explanation
Indices: 93830625--93830662 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
93830615 ATAAGCTGGT
93830625 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
93830645 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
93830663 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:93834084 original size:39 final size:40
Alignment explanation
Indices: 93834039--93834210 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
93834029 GCTCCTCGTT
* * *
93834039 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
93834079 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
93834118 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
93834158 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTTGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
93834198 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
93834211 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:93836137 original size:40 final size:40
Alignment explanation
Indices: 93836059--93836316 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
93836049 CAACCAAGTA
* * *
93836059 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
93836098 CCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
93836138 CCTTCGGGACTTAGCCCGAATATAGTAACTCAG-ACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-GCACAAATG
*
93836178 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
93836218 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
93836258 CCTTCGGGGCTTAGCCTGGA-ATTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
93836298 CCGTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
93836317 TTATCATCCG
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 15 0.08
40 180 0.92
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:93839246 original size:40 final size:40
Alignment explanation
Indices: 93839196--93839279 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
93839186 TCTGCAGCCA
*
93839196 GTGTAAGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCG
1 GTGTAAGGAACTCGAGATTTGTTAAACCCAAGTGCCAGCG
*
93839236 GTGTAGGGAACTCGAGATTTGTTAAACCCAAGTGCCAGCG
1 GTGTAAGGAACTCGAGATTTGTTAAACCCAAGTGCCAGCG
93839276 GTGT
1 GTGT
93839280 GGTAGAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (40 bp):
GTGTAAGGAACTCGAGATTTGTTAAACCCAAGTGCCAGCG
Found at i:93844057 original size:104 final size:104
Alignment explanation
Indices: 93843877--93844085 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
93843867 ATCAAGAAAA
93843877 ATGAGATTCAAGTCGTGATCAAGGAAAAGAAAAGATTATGGACTAAATTGCAAAATCTTTATATT
1 ATGAGATTCAAGTCGTGATCAAGGAAAAGAAAAGATTATGGACTAAATTGCAAAATCTTTATATT
93843942 TAGGTACCAAGGTAAGTTCATGTGTAAATTATGTAGCAT
66 TAGGTACCAAGGTAAGTTCATGTGTAAATTATGTAGCAT
*
93843981 ATGAGATTCAAGTCGTGATCGAGGAAAAGAAAAGATTATGGACTAAATTGCAAAATCTTTATATT
1 ATGAGATTCAAGTCGTGATCAAGGAAAAGAAAAGATTATGGACTAAATTGCAAAATCTTTATATT
93844046 TAGGTACCAAGGTAAGTTCATGTGTAAATTATGTAGCAT
66 TAGGTACCAAGGTAAGTTCATGTGTAAATTATGTAGCAT
93844085 A
1 A
93844086 AATGTTATTT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (104 bp):
ATGAGATTCAAGTCGTGATCAAGGAAAAGAAAAGATTATGGACTAAATTGCAAAATCTTTATATT
TAGGTACCAAGGTAAGTTCATGTGTAAATTATGTAGCAT
Found at i:93844490 original size:93 final size:93
Alignment explanation
Indices: 93844331--93844501 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
93844321 GGATGGTTGA
* * *
93844331 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCAAGTTCACTTATGGATGCAAACGTCCAAACTCCTTGAGT
93844396 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
93844424 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACG-CCTGAGCTCCTTGAG
1 GCATCCGAACTCGTTGAGTTAAGTCCAAGTTCACTTATGGATGCAAACGTCC-AAACTCCTTGAG
93844488 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
93844502 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCAAGTTCACTTATGGATGCAAACGTCCAAACTCCTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93846992 original size:43 final size:43
Alignment explanation
Indices: 93846941--93847271 Score: 455
Period size: 43 Copynumber: 7.7 Consensus size: 43
93846931 TATGTGTGTG
*
93846941 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *
93846984 CATGTAAGACTACATCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *
93847027 CGTGAAAGACCACATCTGGGATGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
** * * * *
93847070 AATGTAAGGCCACGTCTGGAACATTGGCATCGATATGTTATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * * *
93847113 CGTGTAAGACCACCTCTGAGACGTTGGCATTGATGTGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
*
93847156 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGCGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
*
93847199 CGTGTAAGACCAAGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
** * *
93847242 AATGTAAGACCACGTATGGGGCGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
93847272 TGTACGATAT
Statistics
Matches: 249, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 249 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:93859638 original size:13 final size:14
Alignment explanation
Indices: 93859620--93859650 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
93859610 TGTATGCTAA
93859620 TTACTTGGTAAGT-
1 TTACTTGGTAAGTC
93859633 TTACTTGGTAAGTC
1 TTACTTGGTAAGTC
93859647 TTAC
1 TTAC
93859651 AGTGCTCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (14 bp):
TTACTTGGTAAGTC
Found at i:93861613 original size:26 final size:26
Alignment explanation
Indices: 93861584--93861657 Score: 148
Period size: 26 Copynumber: 2.8 Consensus size: 26
93861574 TGATACAAAT
93861584 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93861610 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93861636 TGATAATGGGTTAGGTAAATGT
1 TGATAATGGGTTAGGTAAATGT
93861658 GTATTAAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93863152 original size:26 final size:26
Alignment explanation
Indices: 93863123--93863175 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
93863113 TTTACAGTTT
93863123 TACCCCTAGTATATAAATT-ACCGAAA
1 TACCCCTAGTAT-TAAATTGACCGAAA
* *
93863149 TACCCCTAGTGTTAAATTGACCTAAA
1 TACCCCTAGTATTAAATTGACCGAAA
93863175 T
1 T
93863176 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (26 bp):
TACCCCTAGTATTAAATTGACCGAAA
Found at i:93866232 original size:27 final size:27
Alignment explanation
Indices: 93866202--93866278 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 27
93866192 GTTACATTGA
93866202 TTTGGCTTCAAGCCATGATATTGGCAC
1 TTTGGCTTCAAGCCATGATATTGGCAC
* * * *
93866229 TTTGGGTGCAAG---TTACATT-G-A-
1 TTTGGCTTCAAGCCATGATATTGGCAC
*
93866250 TTTGGCTTCAGGCCATGATATTGGCAC
1 TTTGGCTTCAAGCCATGATATTGGCAC
93866277 TT
1 TT
93866279 CGGGTGTGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
21 9 0.26
22 1 0.03
23 1 0.03
24 10 0.29
25 1 0.03
26 1 0.03
27 12 0.34
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (27 bp):
TTTGGCTTCAAGCCATGATATTGGCAC
Found at i:93866243 original size:48 final size:48
Alignment explanation
Indices: 93866191--93866333 Score: 207
Period size: 48 Copynumber: 3.0 Consensus size: 48
93866181 TGCCATTAGG
* *
93866191 AGTTACATTGATTTGGCTTCAAGCCATGATATTGGCACTTTGGGTGCA
1 AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTAGGGTGCA
* **
93866239 AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGTG
1 AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTAGGGTGCA
* *
93866287 AGTTACACTGATTTGGCTTC-GGACCATGATAATGGCACTTAGGGTGC
1 AGTTACATTGATTTGGCTTCAGG-CCATGATATTGGCACTTAGGGTGC
93866334 GAGACTTCTA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 2 0.02
48 84 0.98
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (48 bp):
AGTTACATTGATTTGGCTTCAGGCCATGATATTGGCACTTAGGGTGCA
Found at i:93868677 original size:28 final size:28
Alignment explanation
Indices: 93868645--93868762 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
93868635 TGGGAATTAG
* *
93868645 TTGGGCCTGATGGGCCATAAGAATGTGG
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
93868673 TTGGGCCTGATGGGTCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
93868701 TTGGGCCTAATGGGCCATATGAATGTAA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
93868729 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
93868757 TTGGGC
1 TTGGGC
93868763 TTAAAGGGGC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 77 1.00
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:93868714 original size:56 final size:56
Alignment explanation
Indices: 93868645--93868762 Score: 173
Period size: 56 Copynumber: 2.1 Consensus size: 56
93868635 TGGGAATTAG
* ** * * *
93868645 TTGGGCCTGATGGGCCATAAGAATGTGGTTGGGCCTGATGGGTCATGTGAATGTGA
1 TTGGGCCTAATGGGCCATAAGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
*
93868701 TTGGGCCTAATGGGCCATATGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATAAGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
93868757 TTGGGC
1 TTGGGC
93868763 TTAAAGGGGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.27
Consensus pattern (56 bp):
TTGGGCCTAATGGGCCATAAGAATGTAATTGGGCCTGATGGGCCATGTGAACGAGA
Found at i:93869121 original size:27 final size:27
Alignment explanation
Indices: 93869080--93869304 Score: 192
Period size: 27 Copynumber: 8.3 Consensus size: 27
93869070 ATAATAAAGA
* *
93869080 GAAATTACCCCCGATTTGTAGAATTACC
1 GAAA-TACCCTCGATTTGTAAAATTACC
*
93869108 GAAATACCCTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
93869135 G-AATACCC-CTGATTCGTAAAATTATC
1 GAAATACCCTC-GATTTGTAAAATTACC
*
93869161 GAAATACCC-CTGATTTATAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* * * *
93869188 AAAATACCCTTG-TAGTGTAGAATTACC
1 GAAATACCCTCGAT-TTGTAAAATTACC
* *
93869215 GAAATACCTTTGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
93869242 -AATATACCTTCGATTTGTAAAATCACC
1 GAA-ATACCCTCGATTTGTAAAATTACC
* * *
93869269 GAAATACCCTTG-TAGTGTAAAATGACC
1 GAAATACCCTCGAT-TTGTAAAATTACC
*
93869296 GACATACCC
1 GAAATACCC
93869305 CTATAAGGTA
Statistics
Matches: 166, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 27 0.16
27 131 0.79
28 7 0.04
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:93869315 original size:27 final size:27
Alignment explanation
Indices: 93869257--93869321 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
93869247 ACCTTCGATT
* * *
93869257 TGTAAAATCACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCCTATAG
*
93869284 TGTAAAATGACCGACATACCCCTATAAG
1 TGTAAAATGACCGAAATACCCCTAT-AG
93869312 -GTAAAATGAC
1 TGTAAAATGAC
93869322 TGTTTTGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTATAG
Found at i:93869318 original size:81 final size:79
Alignment explanation
Indices: 93869088--93869306 Score: 244
Period size: 81 Copynumber: 2.7 Consensus size: 79
93869078 GAGAAATTAC
* * * *
93869088 CCCCGATTTGTAGAATTACCGAAATACCCTCG-ATTTGTAAAATTATCGAATACCCCTGATTCGT
1 CCCCGATTTGTAAAATTACCGAAATACCCTTGTA-GTGTAAAATTACCGAATACCCCTGATTCGT
*
93869152 AAAATTATCGAAATA
65 AAAATTATCCAAATA
* * * ** *
93869167 CCCCTGATTTATAAAATTACCAAAATACCCTTGTAGTGTAGAATTACCGAAATACCTTTGATTTG
1 CCCC-GATTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCG-AATACCCCTGATTCG
93869232 TAAAATTA-CCAATATA
64 TAAAATTATCCAA-ATA
* * *
93869248 CCTTCGATTTGTAAAATCACCGAAATACCCTTGTAGTGTAAAATGACCGACATACCCCT
1 CC-CCGATTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCGA-ATACCCCT
93869307 ATAAGGTAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
79 4 0.03
80 39 0.34
81 71 0.62
82 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.31
Consensus pattern (79 bp):
CCCCGATTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCGAATACCCCTGATTCGTA
AAATTATCCAAATA
Found at i:93869888 original size:27 final size:26
Alignment explanation
Indices: 93869832--93869899 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
93869822 TATGCCTAAG
* *
93869832 ATGGGCTAGGCCCAATTGATTCTGTT
1 ATGGGCTAGGCCCAAATGATTCTGTA
*
93869858 ATGGGCTATGTCCCAAATGATAT-TGTA
1 ATGGGCTA-GGCCCAAATGAT-TCTGTA
*
93869885 ATGGGCGTTGGCCCA
1 ATGGGC-TAGGCCCA
93869900 CGTATGCTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 8 0.24
27 24 0.71
28 2 0.06
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (26 bp):
ATGGGCTAGGCCCAAATGATTCTGTA
Found at i:93872259 original size:28 final size:28
Alignment explanation
Indices: 93872174--93872263 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
93872164 TGGCAAGTAG
*
93872174 TTGGGCCTGATGGGCCATATGAATGTGG
1 TTGGGCCTGATGGGCCATATGAATGTGA
93872202 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
93872230 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
93872258 TTGGGC
1 TTGGGC
93872264 TTAAAGGGGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.19, C:0.16, G:0.39, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:93872628 original size:27 final size:27
Alignment explanation
Indices: 93872598--93872807 Score: 198
Period size: 27 Copynumber: 7.8 Consensus size: 27
93872588 CCCCCGACTG
93872598 GTAAAATTATCGAAATACCCTCGATTT
1 GTAAAATTATCGAAATACCCTCGATTT
93872625 GTAAAATTATCGAAATA-CCTCTGATTT
1 GTAAAATTATCGAAATACCCTC-GATTT
93872652 GTAAAATTA-CTGAAATACCC-CTGATTT
1 GTAAAATTATC-GAAATACCCTC-GATTT
* * *
93872679 GTAAAATTACCGAAATACCCTTG-TAGT
1 GTAAAATTATCGAAATACCCTCGAT-TT
* * * * *
93872706 GTAGAATTATTGAAATGCCTTCTATTT
1 GTAAAATTATCGAAATACCCTCGATTT
* *
93872733 GTAAAATTACCGAAATACCATCGATTT
1 GTAAAATTATCGAAATACCCTCGATTT
* * *
93872760 GTAAAATTA-CTAAAATACCCT-TATAGT
1 GTAAAATTATC-GAAATACCCTCGAT-TT
*
93872787 GTAAAATTATCAAAATACCCT
1 GTAAAATTATCGAAATACCCT
93872808 TGTGTAAAAT
Statistics
Matches: 153, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
26 9 0.06
27 139 0.91
28 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGATTT
Found at i:93872733 original size:81 final size:81
Alignment explanation
Indices: 93872598--93872805 Score: 260
Period size: 81 Copynumber: 2.6 Consensus size: 81
93872588 CCCCCGACTG
* * *
93872598 GTAAAATTATCGAAATACCCTCG-ATTTGTAAAATTATCGAAATACCTCTGATTTGTAAAATTAC
1 GTAAAATTACCGAAATACCCTTGTA-GTGTAAAATTATCGAAATACCTCTGATTTGTAAAATTAC
* *
93872662 TGAAATACC-CCTGATTT
65 CGAAATACCATC-GATTT
* * *
93872679 GTAAAATTACCGAAATACCCTTGTAGTGTAGAATTATTGAAATGCCTTCT-ATTTGTAAAATTAC
1 GTAAAATTACCGAAATACCCTTGTAGTGTAAAATTATCGAAATACC-TCTGATTTGTAAAATTAC
93872743 CGAAATACCATCGATTT
65 CGAAATACCATCGATTT
** * *
93872760 GTAAAATTACTAAAATACCCTTATAGTGTAAAATTATCAAAATACC
1 GTAAAATTACCGAAATACCCTTGTAGTGTAAAATTATCGAAATACC
93872806 CTTGTGTAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
81 104 0.95
82 5 0.05
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (81 bp):
GTAAAATTACCGAAATACCCTTGTAGTGTAAAATTATCGAAATACCTCTGATTTGTAAAATTACC
GAAATACCATCGATTT
Found at i:93875967 original size:26 final size:26
Alignment explanation
Indices: 93875931--93875983 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
93875921 GTATTTGAAG
93875931 TTAGAAGTTTTCCGGGACTAGTTGCC
1 TTAGAAGTTTTCCGGGACTAGTTGCC
93875957 TTAGAAGTTTTCCGGGACTAGTTGCC
1 TTAGAAGTTTTCCGGGACTAGTTGCC
93875983 T
1 T
93875984 ACTATTGACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (26 bp):
TTAGAAGTTTTCCGGGACTAGTTGCC
Found at i:93878128 original size:55 final size:56
Alignment explanation
Indices: 93878006--93878196 Score: 269
Period size: 56 Copynumber: 3.4 Consensus size: 56
93877996 GACCATGGCA
*
93878006 TCGATATATGTGTGCGAGTAAGACCA-AGTTTAATACATTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACA-TTTAATACGTTGGCATCGATATGTGATT
*
93878062 TCGATATATGTGTGCGAGTAAGACCACATTTAATA-GGTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
* * * * *
93878117 TTGATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCAATATGTGGTT
1 TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
* * *
93878173 CCGATTTATGTGTGCAAGTAAGAC
1 TCGATATATGTGTGCGAGTAAGAC
93878197 TTTGTTTGGG
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 50 0.41
56 70 0.58
57 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
Found at i:93879236 original size:31 final size:32
Alignment explanation
Indices: 93879179--93879240 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
93879169 ATGAAGCTAC
* *
93879179 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
93879211 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
93879241 TTGCAACAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:93879939 original size:26 final size:27
Alignment explanation
Indices: 93879910--93879960 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
93879900 CACAAGTTAG
*
93879910 TCATTT-ACGCACGAGGGGCAAAATAA
1 TCATTTAACACACGAGGGGCAAAATAA
* *
93879936 TCATTTAACACCCTAGGGGCAAAAT
1 TCATTTAACACACGAGGGGCAAAAT
93879961 GGTAATTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
TCATTTAACACACGAGGGGCAAAATAA
Found at i:93880034 original size:54 final size:54
Alignment explanation
Indices: 93879974--93880159 Score: 214
Period size: 54 Copynumber: 3.4 Consensus size: 54
93879964 AATTTACCCC
* * * *
93879974 ACAAGGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTGATATTTCTAACCT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGATAATTCTAACCT
* * * *
93880028 ACAAGGGTATTTCAGTAATTTTATCCTACAGGGGTA-TTTCAGTAATTCTACCCT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGA-TAATTCTAACCT
* * * * *
93880082 TCAGGGGTATTTCAATAATTCTACCCTACAGGGATATTTTGGTAATTCT-ACCTT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGATAATTCTAACC-T
*
93880136 ACAGGGGTATTTCAGTAATTCTAC
1 ACAAGGGTATTTCAGTAATTCTAC
93880160 AACTTATCCA
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
53 6 0.05
54 101 0.92
55 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGATAATTCTAACCT
Found at i:93880081 original size:81 final size:81
Alignment explanation
Indices: 93879978--93880159 Score: 233
Period size: 81 Copynumber: 2.2 Consensus size: 81
93879968 TACCCCACAA
* * * ** *
93879978 GGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTGATATTTCTAACCTACAAGGG-TATTTCA
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAACCTAC-AGGGATATTTCA
*
93880042 GTAATTTTATCC-TACAG
65 GTAATTCTA-CCTTACAG
* * **
93880059 GGGTATTTCAGTAATTCTACCCTTCAGGGGTATTTCAATAATTCTACCCTACAGGGATATTTTGG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAACCTACAGGGATATTTCAG
93880124 TAATTCTACCTTACAG
66 TAATTCTACCTTACAG
93880140 GGGTATTTCAGTAATTCTAC
1 GGGTATTTCAGTAATTCTAC
93880160 AACTTATCCA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 6 0.07
81 82 0.93
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAACCTACAGGGATATTTCAG
TAATTCTACCTTACAG
Found at i:93880159 original size:27 final size:26
Alignment explanation
Indices: 93879978--93880159 Score: 186
Period size: 27 Copynumber: 6.8 Consensus size: 26
93879968 TACCCCACAA
* * *
93879978 GGGTATCTCGGTAATTCCACCCTACAG
1 GGGTATTTCAGTAATTCTA-CCTACAG
* * *
93880005 GGGTATTT-TGATATTTCTAACCTACAA
1 GGGTATTTCAG-TAATTCT-ACCTACAG
*
93880032 GGGTATTTCAGTAATTTTATCCTACAG
1 GGGTATTTCAGTAATTCTA-CCTACAG
*
93880059 GGGTATTTCAGTAATTCTACCCTTCAG
1 GGGTATTTCAGTAATTCTA-CCTACAG
*
93880086 GGGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTA-CCTACAG
* **
93880113 GGATATTTTGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACC-TACAG
93880140 GGGTATTTCAGTAATTCTAC
1 GGGTATTTCAGTAATTCTAC
93880160 AACTTATCCA
Statistics
Matches: 129, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.03
27 123 0.95
28 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
GGGTATTTCAGTAATTCTACCTACAG
Found at i:93881375 original size:38 final size:38
Alignment explanation
Indices: 93881332--93881407 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
93881322 TTCATCCTTT
93881332 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
* *
93881370 TTCATTTCTTTTGGCTGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
93881408 GGAGTTCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
Found at i:93882688 original size:40 final size:40
Alignment explanation
Indices: 93882594--93882738 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
93882584 TACTCGAATG
*
93882594 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
93882635 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
93882675 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
93882715 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
93882739 CTTGCGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Done.