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 82 of 290
Found at i:27276934 original size:21 final size:20
Alignment explanation
Indices: 27276908--27276960 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
27276898 TTTCTTTCTA
27276908 TATTATTATATTATT-AATAT
1 TATTA-TATATTATTAAATAT
27276928 TATTTATATATTATTAAATAT
1 TA-TTATATATTATTAAATAT
27276949 TATTAATATATT
1 TATT-ATATATT
27276961 TAAATTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATATATTATTAAATAT
Found at i:27276973 original size:14 final size:14
Alignment explanation
Indices: 27276954--27276992 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
27276944 AATATTATTA
27276954 ATATATTTAAATTT
1 ATATATTTAAATTT
27276968 ATATATTTAAA-TT
1 ATATATTTAAATTT
*
27276981 ATATATTGAAAT
1 ATATATTTAAAT
27276993 GATAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
ATATATTTAAATTT
Found at i:27287157 original size:29 final size:29
Alignment explanation
Indices: 27287115--27287172 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
27287105 TATCTTCTAT
* *
27287115 TAGGAATAGTGTTTTGATATGATAATAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
27287144 TAGGAATAGCGTTTCGATATGATAATAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
27287173 AATGGGTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (29 bp):
TAGGAATAGCGTTTCGATATGATAATAAA
Found at i:27290427 original size:16 final size:16
Alignment explanation
Indices: 27290402--27290434 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27290392 ACGGTATTCT
*
27290402 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
27290418 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
27290434 A
1 A
27290435 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:27290929 original size:15 final size:15
Alignment explanation
Indices: 27290896--27290929 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27290886 AGTTATGTCT
*
27290896 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
27290911 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
27290926 ATGT
1 ATGT
27290930 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:27291952 original size:19 final size:19
Alignment explanation
Indices: 27291930--27291973 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27291920 TTAAACTTTT
* *
27291930 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
27291949 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
27291968 ATTAAA
1 ATTAAA
27291974 AAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:27295003 original size:17 final size:17
Alignment explanation
Indices: 27294981--27295014 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27294971 ATAGACTCGC
*
27294981 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
27294998 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
27295015 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:27296398 original size:320 final size:320
Alignment explanation
Indices: 27295816--27296456 Score: 1228
Period size: 320 Copynumber: 2.0 Consensus size: 320
27295806 TTTCCACAAG
27295816 GAATCGTGATGTCTTTCTATGGGATCGCAGGCCTCTTTATTAGTTCCTATTTGTGGTGCACAATT
1 GAATCGTGATGTCTTTCTATGGGATCGCAGGCCTCTTTATTAGTTCCTATTTGTGGTGCACAATT
27295881 TTTTGGAATGTAGGCAGTGGTTATGATCGATTCGATAGAAAGGAGGGAATAGTATGTATTTTTCG
66 TTTTGGAATGTAGGCAGTGGTTATGATCGATTCGATAGAAAGGAGGGAATAGTATGTATTTTTCG
27295946 TTGGGGTTTTCCTGGAAAAAATCGTCGCATCTTTCTACGATTCCTTATGAAAGATATTCAGTCCA
131 TTGGGGTTTTCCTGGAAAAAATCGTCGCATCTTTCTACGATTCCTTATGAAAGATATTCAGTCCA
27296011 TCAAAATAGAAGTTAAAGAGGGTATTTATGCTCGTCGTATCCTTTATAGGGAAATCAGAGGCCAG
196 TCAAAATAGAAGTTAAAGAGGGTATTTATGCTCGTCGTATCCTTTATAGGGAAATCAGAGGCCAG
*
27296076 GGGGCCGTTCCCTTGACTCGTACTAATGAGAATTTGACTTCGCGCGAAATTGAACAAAAA
261 GGGGCCGTTCCCTTGACTCGTACTAATGAGAATTTGACTCCGCGCGAAATTGAACAAAAA
27296136 GAATCGTGATGTCTTTCTATGGGATCGCAGGCCTCTTTATTAGTTCCTATTTGTGGTGCACAATT
1 GAATCGTGATGTCTTTCTATGGGATCGCAGGCCTCTTTATTAGTTCCTATTTGTGGTGCACAATT
*
27296201 TTTTGGAATGTAGGCAGTGGTTATGATCGATTCGATAGAAAGGAGGGAATAGTCTGTATTTTTCG
66 TTTTGGAATGTAGGCAGTGGTTATGATCGATTCGATAGAAAGGAGGGAATAGTATGTATTTTTCG
27296266 TTGGGGTTTTCCTGGAAAAAATCGTCGCATCTTTCTACGATTCCTTATGAAAGATATTCAGTCCA
131 TTGGGGTTTTCCTGGAAAAAATCGTCGCATCTTTCTACGATTCCTTATGAAAGATATTCAGTCCA
* * *
27296331 TCAGAATAGAAGTTAAAGAGGGTATTTATGCTCGTCGTGTCCTTTATATGGAAATCAGAGGCCAG
196 TCAAAATAGAAGTTAAAGAGGGTATTTATGCTCGTCGTATCCTTTATAGGGAAATCAGAGGCCAG
*
27296396 GGGGCCGTTCCCTTGACTCGTACTGATGAGAATTTGACTCCGCGCGAAATTGAACAAAAA
261 GGGGCCGTTCCCTTGACTCGTACTAATGAGAATTTGACTCCGCGCGAAATTGAACAAAAA
27296456 G
1 G
27296457 CTGCTGAATT
Statistics
Matches: 315, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
320 315 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (320 bp):
GAATCGTGATGTCTTTCTATGGGATCGCAGGCCTCTTTATTAGTTCCTATTTGTGGTGCACAATT
TTTTGGAATGTAGGCAGTGGTTATGATCGATTCGATAGAAAGGAGGGAATAGTATGTATTTTTCG
TTGGGGTTTTCCTGGAAAAAATCGTCGCATCTTTCTACGATTCCTTATGAAAGATATTCAGTCCA
TCAAAATAGAAGTTAAAGAGGGTATTTATGCTCGTCGTATCCTTTATAGGGAAATCAGAGGCCAG
GGGGCCGTTCCCTTGACTCGTACTAATGAGAATTTGACTCCGCGCGAAATTGAACAAAAA
Found at i:27297082 original size:120 final size:120
Alignment explanation
Indices: 27296869--27297086 Score: 436
Period size: 120 Copynumber: 1.8 Consensus size: 120
27296859 TCTCTACTTT
27296869 TCTTTTCTCAATCGGCCCCTCCCCTTTTATCCTTTCTTTTGTGCTCCTTAAGAACTAAAGAACTA
1 TCTTTTCTCAATCGGCCCCTCCCCTTTTATCCTTTCTTTTGTGCTCCTTAAGAACTAAAGAACTA
27296934 AACAAGTGGATTTCTTTCTTATAACATAATGATAAACGTAATGATACCTTTTCTG
66 AACAAGTGGATTTCTTTCTTATAACATAATGATAAACGTAATGATACCTTTTCTG
27296989 TCTTTTCTCAATCGGCCCCTCCCCTTTTATCCTTTCTTTTGTGCTCCTTAAGAACTAAAGAACTA
1 TCTTTTCTCAATCGGCCCCTCCCCTTTTATCCTTTCTTTTGTGCTCCTTAAGAACTAAAGAACTA
27297054 AACAAGTGGATTTCTTTCTTATAACATAATGAT
66 AACAAGTGGATTTCTTTCTTATAACATAATGAT
27297087 CATAAGGAAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 98 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (120 bp):
TCTTTTCTCAATCGGCCCCTCCCCTTTTATCCTTTCTTTTGTGCTCCTTAAGAACTAAAGAACTA
AACAAGTGGATTTCTTTCTTATAACATAATGATAAACGTAATGATACCTTTTCTG
Found at i:27305403 original size:39 final size:40
Alignment explanation
Indices: 27305286--27305469 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
27305276 GCTCCTCGTT
*
27305286 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
27305326 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
27305366 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
27305405 CAAATGCCTTC-GGATTTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
27305446 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27305470 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 63 0.51
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:27305430 original size:79 final size:82
Alignment explanation
Indices: 27305286--27305469 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
27305276 GCTCCTCGTT
* *
27305286 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
27305350 GAT-TTAGTAAC-TCGCA
66 GATATT-GTAACTTAGCA
* **
27305366 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATTTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
27305427 CGGATATTGTCACTTAGCA
64 CGGATATTGTAACTTAGCA
27305446 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27305470 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATATTGTAACTTAGCA
Found at i:27323583 original size:14 final size:14
Alignment explanation
Indices: 27323564--27323592 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27323554 ACAGATGGAT
27323564 TCGTATAATTCTTA
1 TCGTATAATTCTTA
27323578 TCGTATAATTCTTA
1 TCGTATAATTCTTA
27323592 T
1 T
27323593 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:27327824 original size:20 final size:21
Alignment explanation
Indices: 27327758--27327826 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
27327748 TCACTTCGTT
27327758 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
27327779 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
27327800 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
27327821 -CTTTTT
1 TCTTTTT
27327827 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:27330224 original size:18 final size:18
Alignment explanation
Indices: 27330191--27330266 Score: 104
Period size: 18 Copynumber: 4.4 Consensus size: 18
27330181 AAGGTTTTCT
27330191 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
27330206 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* *
27330224 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
27330242 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
27330260 TATTGAT
1 TATTGAT
27330267 CGTGACCTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.20
16 1 0.02
18 43 0.78
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:27338526 original size:14 final size:14
Alignment explanation
Indices: 27338507--27338534 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27338497 TATATTAGTA
27338507 TTTTCTATTCTATT
1 TTTTCTATTCTATT
27338521 TTTTCTATTCTATT
1 TTTTCTATTCTATT
27338535 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:27338542 original size:6 final size:6
Alignment explanation
Indices: 27338531--27338574 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
27338521 TTTTCTATTC
27338531 TATTAG TATTAG -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
27338574 T
1 T
27338575 TAGTGATCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.11
5 14 0.40
6 17 0.49
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:27338546 original size:11 final size:11
Alignment explanation
Indices: 27338532--27338578 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
27338522 TTTCTATTCT
27338532 ATTAGTATTAG
1 ATTAGTATTAG
27338543 ATTAGTATTAG
1 ATTAGTATTAG
27338554 -TTAG-ATTAG
1 ATTAGTATTAG
27338563 ATTAGTATTAG
1 ATTAGTATTAG
27338574 -TTAGT
1 ATTAGT
27338579 GATCCCGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:27338563 original size:20 final size:21
Alignment explanation
Indices: 27338533--27338578 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
27338523 TTCTATTCTA
27338533 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
27338554 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
27338574 TTAGT
1 TTAGT
27338579 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:27338577 original size:15 final size:14
Alignment explanation
Indices: 27338539--27338568 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
27338529 TCTATTAGTA
27338539 TTAGATTAGTATTAG
1 TTAGATTAG-ATTAG
27338554 TTAGATTAGATTAG
1 TTAGATTAGATTAG
27338568 T
1 T
27338569 ATTAGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (14 bp):
TTAGATTAGATTAG
Found at i:27342431 original size:21 final size:21
Alignment explanation
Indices: 27342384--27342431 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
27342374 GATTTTTGAA
*
27342384 GTTTGATGTTAGAAAATCAAT
1 GTTTGTTGTTAGAAAATCAAT
*
27342405 GGTTGTTGTTAGATAAA-CAAT
1 GTTTGTTGTTAGA-AAATCAAT
*
27342426 TTTTGT
1 GTTTGT
27342432 AAAGGAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (21 bp):
GTTTGTTGTTAGAAAATCAAT
Found at i:27343106 original size:25 final size:25
Alignment explanation
Indices: 27343044--27343125 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
27343034 TACTAATTTT
*
27343044 AGCTCGTGAGAGCTTATCGATTCT-C
1 AGCTCGTGAGAGCTTACCGATT-TAC
* *
27343069 AACTCAT-ATGAGCTTACCGATTTAC
1 AGCTCGTGA-GAGCTTACCGATTTAC
* * * *
27343094 AGCTCGTGAGAGCATACCAATTCAT
1 AGCTCGTGAGAGCTTACCGATTTAC
27343119 AGCTCGT
1 AGCTCGT
27343126 ATGAGCATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 2 0.04
25 42 0.93
26 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCTCGTGAGAGCTTACCGATTTAC
Found at i:27343129 original size:50 final size:49
Alignment explanation
Indices: 27343019--27343131 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 49
27343009 GGACACACCA
* * * * * *
27343019 CAACTTGTATGAGCTTACTAATTTTAGCTCGTGAGAGCTTATCGATTCT
1 CAACTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATTCT
* *
27343068 CAACTCATATGAGCTTACCGATTTACAGCTCGTGAGAGCATACCAATTCAT
1 CAACTCGTATGAGCTTACCAATTT-CAGCTCGTGAGAGCATACCAATTC-T
*
27343119 -AGCTCGTATGAGC
1 CAACTCGTATGAGC
27343132 ATAAATGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
49 20 0.38
50 31 0.60
51 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (49 bp):
CAACTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATTCT
Found at i:27343131 original size:25 final size:25
Alignment explanation
Indices: 27343075--27343134 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
27343065 TCTCAACTCA
* * *
27343075 TATGAGCTTACCGATTTACAGCTCG
1 TATGAGCATACCAATTCACAGCTCG
*
27343100 TGA-GAGCATACCAATTCATAGCTCG
1 T-ATGAGCATACCAATTCACAGCTCG
27343125 TATGAGCATA
1 TATGAGCATA
27343135 AATGTACAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
TATGAGCATACCAATTCACAGCTCG
Found at i:27347403 original size:26 final size:26
Alignment explanation
Indices: 27347367--27347420 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
27347357 GTTTAAAAGT
27347367 TCAATTCTTGCTCAAATCACTTACCA
1 TCAATTCTTGCTCAAATCACTTACCA
27347393 TCAATTCTTGCTCAAATCACTTACCA
1 TCAATTCTTGCTCAAATCACTTACCA
27347419 TC
1 TC
27347421 TTTAAAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.31, G:0.04, T:0.35
Consensus pattern (26 bp):
TCAATTCTTGCTCAAATCACTTACCA
Found at i:27355162 original size:15 final size:15
Alignment explanation
Indices: 27355142--27355177 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27355132 CCACATATCC
**
27355142 CAAAATAAATTTTTT
1 CAAAATAAAAATTTT
27355157 CAAAATAAAAATTTT
1 CAAAATAAAAATTTT
27355172 CAAAAT
1 CAAAAT
27355178 GTATCGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (15 bp):
CAAAATAAAAATTTT
Found at i:27365470 original size:18 final size:18
Alignment explanation
Indices: 27365443--27365485 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
27365433 TATGACAAGC
* *
27365443 TTATGGTTATGGTTGATT
1 TTATGCTTATGGTTGATA
* *
27365461 TTATGCTTATGTTTTATA
1 TTATGCTTATGGTTGATA
27365479 TTATGCT
1 TTATGCT
27365486 AATGATATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (18 bp):
TTATGCTTATGGTTGATA
Found at i:27367303 original size:16 final size:16
Alignment explanation
Indices: 27367282--27367313 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27367272 GAAGTCGTTC
27367282 CAGTTCAGATATAGAA
1 CAGTTCAGATATAGAA
*
27367298 CAGTTCAGTTATAGAA
1 CAGTTCAGATATAGAA
27367314 GCAGAAGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (16 bp):
CAGTTCAGATATAGAA
Found at i:27368713 original size:23 final size:23
Alignment explanation
Indices: 27368683--27368728 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
27368673 GAACTCACTT
27368683 GAAAGAGGAAAAAG-AAGAAAAA
1 GAAAGAGGAAAAAGAAAGAAAAA
* *
27368705 GAAATGAGGGAAACGAAAGAAAAA
1 GAAA-GAGGAAAAAGAAAGAAAAA
27368729 CAATAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.02
Consensus pattern (23 bp):
GAAAGAGGAAAAAGAAAGAAAAA
Found at i:27377794 original size:39 final size:38
Alignment explanation
Indices: 27377740--27377816 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 38
27377730 AATCTGAGAG
*
27377740 GGAAAGATCACTGTAAAGCCATCACTCTTAGGAGTGGT
1 GGAAAGAGCACTGTAAAGCCATCACTCTTAGGAGTGGT
27377778 NGGAAAGAGCACTGTAAAGCCATCACTCTTAGGAGTGGT
1 -GGAAAGAGCACTGTAAAGCCATCACTCTTAGGAGTGGT
27377817 AAACAAACTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.22
Consensus pattern (38 bp):
GGAAAGAGCACTGTAAAGCCATCACTCTTAGGAGTGGT
Found at i:27384669 original size:15 final size:15
Alignment explanation
Indices: 27384649--27384684 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
27384639 TGAAAGAGGA
27384649 ATTTTTT-TTACCACT
1 ATTTTTTCTTACC-CT
27384664 ATTTTTTCTTACCCT
1 ATTTTTTCTTACCCT
27384679 ATTTTT
1 ATTTTT
27384685 GAAGCTTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTTTCTTACCCT
Found at i:27395004 original size:13 final size:13
Alignment explanation
Indices: 27394986--27395012 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27394976 TTTCCAGAAA
27394986 TTATGAATTTATT
1 TTATGAATTTATT
27394999 TTATGAATTTATT
1 TTATGAATTTATT
27395012 T
1 T
27395013 AATGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:27395197 original size:50 final size:50
Alignment explanation
Indices: 27395112--27396154 Score: 1854
Period size: 50 Copynumber: 20.8 Consensus size: 50
27395102 ATTTGGGTAA
* * *
27395112 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
**
27395162 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAATGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
* * *
27395212 AGAGGTT-TCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGA-GTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395262 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395312 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395362 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395412 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395462 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395512 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395562 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395612 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395662 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395712 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395762 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395812 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395862 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395912 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
27395962 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
*
27396012 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
* ** * * * * *
27396062 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
* ** * * *
27396112 AAAAAATCCCATGGAAGACCATGTCTGGGACATGGCTTTGGCA
1 -AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA
27396155 TGTTATTATA
Statistics
Matches: 960, Mismatches: 30, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
49 3 0.00
50 921 0.96
51 36 0.04
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (50 bp):
AGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
Found at i:27427110 original size:19 final size:20
Alignment explanation
Indices: 27427069--27427122 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
27427059 TACGAGTTTG
* *
27427069 CACTTTTGTGCTTCTATTCA
1 CACTTTGGTGCCTCTATTCA
27427089 CACTTTGGTGCCTCTATT-A
1 CACTTTGGTGCCTCTATTCA
* *
27427108 CACTTCGATGCCTCT
1 CACTTTGGTGCCTCT
27427123 GATTGCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.43
Consensus pattern (20 bp):
CACTTTGGTGCCTCTATTCA
Found at i:27428756 original size:38 final size:38
Alignment explanation
Indices: 27428652--27428888 Score: 253
Period size: 39 Copynumber: 6.2 Consensus size: 38
27428642 ATAATTATAC
* * *
27428652 CCCTGATTGCAGTTATGTGCCCTTGTTGTACTTTGGTA
1 CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGTA
** *
27428690 CCCCTGATCGCACTTACATTCCCCTGTTGTACTTTGGTA
1 -CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGTA
* ** *
27428729 CTCTGATCGCACTTATGTGCCGTTGTTGTACTTTGATA
1 CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGTA
*
27428767 CCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGGTA
1 -CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGTA
* * *
27428806 CCCTGATCGCACTAATGTGCCCCTATTGTACTTCGGTA
1 CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGTA
* * * **
27428844 CCCCTGATTGTACTTA--TGCCCCTATTGTACTCCGGTA
1 -CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGTA
27428881 CTCCTGAT
1 C-CCTGAT
27428889 AGCATTTTTT
Statistics
Matches: 169, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
36 1 0.01
37 26 0.15
38 65 0.38
39 77 0.46
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.37
Consensus pattern (38 bp):
CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGTA
Found at i:27428781 original size:77 final size:77
Alignment explanation
Indices: 27428652--27428888 Score: 307
Period size: 77 Copynumber: 3.1 Consensus size: 77
27428642 ATAATTATAC
* * *
27428652 CCCTGATTGCAGTTATGTGCCCTTGTTGTACTTTGGTACCCCTGATCGCACTTACATTCCCCTGT
1 CCCTGATCGCACTTATGTGCCCTTGTTGTACTTTGGTACCCCTGATCGCACTTACATGCCCCTGT
27428717 TGTACTTTGGTA
66 TGTACTTTGGTA
* * * *
27428729 CTCTGATCGCACTTATGTGCCGTTGTTGTACTTTGATACCCCTGATCGCACTTACGTGCCCCTGT
1 CCCTGATCGCACTTATGTGCCCTTGTTGTACTTTGGTACCCCTGATCGCACTTACATGCCCCTGT
27428794 TGTACTTTGGTA
66 TGTACTTTGGTA
* * * * * * *
27428806 CCCTGATCGCACTAATGTGCCCCTATTGTACTTCGGTACCCCTGATTGTACTT--ATGCCCCTAT
1 CCCTGATCGCACTTATGTGCCCTTGTTGTACTTTGGTACCCCTGATCGCACTTACATGCCCCTGT
**
27428869 TGTACTCCGGTA
66 TGTACTTTGGTA
27428881 CTCCTGAT
1 C-CCTGAT
27428889 AGCATTTTTT
Statistics
Matches: 139, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
75 19 0.14
76 6 0.04
77 114 0.82
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.37
Consensus pattern (77 bp):
CCCTGATCGCACTTATGTGCCCTTGTTGTACTTTGGTACCCCTGATCGCACTTACATGCCCCTGT
TGTACTTTGGTA
Found at i:27428872 original size:17 final size:18
Alignment explanation
Indices: 27428823--27428874 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
27428813 CGCACTAATG
*
27428823 TGCCCCTATTGTACTTCGG
1 TGCCCCTATTGTACTTC-A
*
27428842 TACCCCTGATTGTACTT-A
1 TGCCCCT-ATTGTACTTCA
27428860 TGCCCCTATTGTACT
1 TGCCCCTATTGTACT
27428875 CCGGTACTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.28
18 6 0.21
19 6 0.21
20 9 0.31
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (18 bp):
TGCCCCTATTGTACTTCA
Found at i:27434826 original size:19 final size:20
Alignment explanation
Indices: 27434783--27434829 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
27434773 TAAAGGTATT
27434783 AAATAGCTATGGAAACATAA
1 AAATAGCTATGGAAACATAA
*
27434803 AAATAGCTATGGAACCATAA
1 AAATAGCTATGGAAACATAA
27434823 AATATAG
1 AA-ATAG
27434830 GCCCTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.53, C:0.11, G:0.15, T:0.21
Consensus pattern (20 bp):
AAATAGCTATGGAAACATAA
Found at i:27435762 original size:39 final size:39
Alignment explanation
Indices: 27435699--27435907 Score: 226
Period size: 39 Copynumber: 5.4 Consensus size: 39
27435689 TATATAACTA
* *
27435699 TACCCCTGATCGCACTTATGTGCCCTTGTTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* * *
27435738 TACCCCTGATCGCTCTTACATGCCCCTGTTGTACTTCAG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* **
27435777 TA-CCCTGATCGCACTTACGTGTCCCTGTTGTACTTTAG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* * * *
27435815 TAACCCTGATCGCACTTACGTGCCCTTGTTGTACTTTGA
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* ** *
27435854 TACCCTTGATCGTTCTTAC-T-CCCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* * *
27435891 TACTCCTAATAGCACTT
1 TACCCCTGATCGCACTT
27435908 TTTTGTCGTG
Statistics
Matches: 142, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
37 24 0.17
38 35 0.25
39 83 0.58
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.36
Consensus pattern (39 bp):
TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
Found at i:27435859 original size:77 final size:77
Alignment explanation
Indices: 27435702--27435850 Score: 219
Period size: 77 Copynumber: 1.9 Consensus size: 77
27435692 ATAACTATAC
* * * *
27435702 CCCTGATCGCACTTATGTGCCCTTGTTGTACTTCGGTACCCCTGATCGCTCTTACATGCCCCTGT
1 CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCAGTAACCCTGATCGCACTTACATGCCCCTGT
27435767 TGTACTTCAGTA
66 TGTACTTCAGTA
* * *
27435779 CCCTGATCGCACTTACGTGTCCC-TGTTGTACTTTAGTAACCCTGATCGCACTTACGTGCCCTTG
1 CCCTGATCGCACTTACGTG-CCCTTGTTGTACTTCAGTAACCCTGATCGCACTTACATGCCCCTG
27435843 TTGTACTT
65 TTGTACTT
27435851 TGATACCCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
77 61 0.95
78 3 0.05
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.36
Consensus pattern (77 bp):
CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCAGTAACCCTGATCGCACTTACATGCCCCTGT
TGTACTTCAGTA
Found at i:27451607 original size:50 final size:49
Alignment explanation
Indices: 27451482--27451721 Score: 169
Period size: 50 Copynumber: 4.7 Consensus size: 49
27451472 TAATAACATA
* * ** * *
27451482 CCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCCTGTAC-TG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAT-CGTG
* * * * *
27451531 CCAATGCCATATCTCAGATATGGTCTTATATGGGA-GTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATATC-GTG
* ** *
27451581 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTCAGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATC-GTG
* * * * *
27451631 CCAACGCCATGTCCCAGACATGGTCTTATACGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCAT-A--TC----GTG
* *
27451687 CCAATGTCATGTCCCAGATATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
27451722 TCTCATTCCC
Statistics
Matches: 150, Mismatches: 31, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
48 4 0.03
49 33 0.22
50 76 0.51
51 2 0.01
53 2 0.01
56 33 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATCGTG
Found at i:27451672 original size:100 final size:99
Alignment explanation
Indices: 27451487--27451674 Score: 232
Period size: 100 Copynumber: 1.9 Consensus size: 99
27451477 ACATACCAAA
* * ** * * * * *
27451487 GCCATGTCCTAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCTCAGATAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTTTCATCTACTGCCAACGCCATATCCCAGACAT
* **
27451552 GGTCTTATATGGGAGTTCTCATATCGGTGCCCAT
66 GGTCTTATACGGGACCTCTCATATCGGTGCCCAT
* * *
27451586 GCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTCAGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTTTCATCT-ACTGCCAACGCCATATCCCAGACA
27451651 TGGTCTTATACGGGACCTCTCATA
65 TGGTCTTATACGGGACCTCTCATA
27451675 ACCTCAATAA
Statistics
Matches: 73, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
99 33 0.45
100 40 0.55
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTTTCATCTACTGCCAACGCCATATCCCAGACAT
GGTCTTATACGGGACCTCTCATATCGGTGCCCAT
Found at i:27453993 original size:42 final size:42
Alignment explanation
Indices: 27453934--27454028 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
27453924 CGAATAAGGG
* *
27453934 ATGATATGTATGAATTGGATTGGTTTTAAGATGAGTATTGAT
1 ATGATTTGTATGAATTGGATCGGTTTTAAGATGAGTATTGAT
27453976 ATGATTTGTATGAATTGGATCGGTTTTAAGATGAGTATTGAT
1 ATGATTTGTATGAATTGGATCGGTTTTAAGATGAGTATTGAT
27454018 ATGATTTGTAT
1 ATGATTTGTAT
27454029 TCGTTTCAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.44
Consensus pattern (42 bp):
ATGATTTGTATGAATTGGATCGGTTTTAAGATGAGTATTGAT
Found at i:27456812 original size:28 final size:26
Alignment explanation
Indices: 27456761--27456812 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
27456751 ATTATATATT
*
27456761 AAATATATATTTTTTTATTTTTAATC
1 AAATATATATTTTTTTATTATTAATC
27456787 AAATATATATTTTTTATATATATTAA
1 AAATATATATTTTTT-TAT-TATTAA
27456813 ATATTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 3 0.13
28 5 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
AAATATATATTTTTTTATTATTAATC
Found at i:27457716 original size:16 final size:18
Alignment explanation
Indices: 27457695--27457732 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
27457685 AAACCACAAT
27457695 TAATATTA-CAAATTA-A
1 TAATATTATCAAATTACA
*
27457711 TAATATTATCCAATTACA
1 TAATATTATCAAATTACA
27457729 TAAT
1 TAAT
27457733 CAGTAGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
TAATATTATCAAATTACA
Found at i:27461990 original size:17 final size:17
Alignment explanation
Indices: 27461968--27462000 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27461958 ATTTTTTTTA
27461968 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
27461985 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
27462001 TATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:27470088 original size:33 final size:33
Alignment explanation
Indices: 27470051--27470133 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
27470041 CTGTTTTACA
*
27470051 ATTATTTCGTTATTATATTA-TTATT-TTGTTATT
1 ATTATTTCGTTATTATATAACTT-TTATT-TTATT
* * *
27470084 ATTATTTGGATGTTATATAACTTTTATTTTATT
1 ATTATTTCGTTATTATATAACTTTTATTTTATT
*
27470117 ATTAATTTTGTTATTAT
1 ATT-ATTTCGTTATTAT
27470134 TTTAAAGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
33 26 0.65
34 14 0.35
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (33 bp):
ATTATTTCGTTATTATATAACTTTTATTTTATT
Found at i:27470097 original size:17 final size:14
Alignment explanation
Indices: 27470066--27470134 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 14
27470056 TTCGTTATTA
27470066 TATTATTATTTTGT
1 TATTATTATTTTGT
27470080 TATTATTATTTGGATGT
1 TATTATTATTT---TGT
27470097 TATATAACTT-TTATT-T
1 TAT-T-A-TTATT-TTGT
27470113 TATTATTAATTTTGT
1 TATTATT-ATTTTGT
27470128 TATTATT
1 TATTATT
27470135 TTAAAGTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 19
0.70 0.00 0.30
Matches are distributed among these distances:
13 2 0.04
14 14 0.31
15 11 0.24
16 4 0.09
17 7 0.16
18 1 0.02
19 3 0.07
20 3 0.07
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.65
Consensus pattern (14 bp):
TATTATTATTTTGT
Found at i:27472867 original size:23 final size:25
Alignment explanation
Indices: 27472814--27472868 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
27472804 TTTTCCCTTC
*
27472814 AATTTTATATAAAAAATTATTTTAA
1 AATTTTATATAAAAAATTATTTGAA
** *
27472839 TCTTTTATTTAAAAAA-T-TTTGAA
1 AATTTTATATAAAAAATTATTTGAA
27472862 AATTTTA
1 AATTTTA
27472869 AACTTGCAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 13 0.54
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
AATTTTATATAAAAAATTATTTGAA
Found at i:27474585 original size:12 final size:11
Alignment explanation
Indices: 27474543--27474599 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
27474533 ATTTAGATTT
* *
27474543 TTTTCTTTTTC
1 TTTTATTTTTA
*
27474554 TTTATATTTCTA
1 TTT-TATTTTTA
*
27474566 TTTCTATTTTTC
1 TTT-TATTTTTA
27474578 TTGTTATTTTTA
1 TT-TTATTTTTA
27474590 TTTTATTTTT
1 TTTTATTTTT
27474600 TAGACTTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 11 0.30
12 25 0.68
13 1 0.03
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:27474593 original size:50 final size:50
Alignment explanation
Indices: 27474555--27474653 Score: 130
Period size: 50 Copynumber: 1.9 Consensus size: 50
27474545 TTCTTTTTCT
27474555 TTATAT-TTCTATTTCTATTTTT-CTTGTTATTTTTATTTTATTTTTTAGAC
1 TTATATGTTCTATTT-TATTTTTAC-TGTTATTTTTATTTTATTTTTTAGAC
27474605 TTATATGTTCTATTTTATTTTTACTGTTATTGTTTTATTAATTATTTTT
1 TTATATGTTCTATTTTATTTTTACTGTTA-T-TTTTATT--TTATTTTT
27474654 CTATTTTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
50 18 0.42
51 10 0.23
52 7 0.16
54 8 0.19
ACGTcount: A:0.19, C:0.06, G:0.05, T:0.70
Consensus pattern (50 bp):
TTATATGTTCTATTTTATTTTTACTGTTATTTTTATTTTATTTTTTAGAC
Found at i:27474600 original size:24 final size:24
Alignment explanation
Indices: 27474548--27474599 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
27474538 GATTTTTTTC
27474548 TTTTTCTTTATATTTCTATTTCTA
1 TTTTTCTTTATATTTCTATTTCTA
*
27474572 TTTTTCTTGT-TATTTTTATTT-TA
1 TTTTTCTT-TATATTTCTATTTCTA
27474595 TTTTT
1 TTTTT
27474600 TAGACTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.27
24 18 0.69
25 1 0.04
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTCTTTATATTTCTATTTCTA
Found at i:27474850 original size:14 final size:16
Alignment explanation
Indices: 27474808--27474875 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
27474798 CTCTCTCTCT
* *
27474808 CTCTCCCTCCTTACCC
1 CTCTCTCTCCTTCCCC
*
27474824 CTC-C-CTCTTTCCCC
1 CTCTCTCTCCTTCCCC
*
27474838 CTCTCTC-CCTCCCCC
1 CTCTCTCTCCTTCCCC
*
27474853 CTCTCTCTCCTTCCCT
1 CTCTCTCTCCTTCCCC
27474869 CTCTCTC
1 CTCTCTC
27474876 ACTCACTCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.26
15 15 0.35
16 17 0.40
ACGTcount: A:0.01, C:0.63, G:0.00, T:0.35
Consensus pattern (16 bp):
CTCTCTCTCCTTCCCC
Found at i:27474858 original size:2 final size:2
Alignment explanation
Indices: 27474853--27474913 Score: 56
Period size: 2 Copynumber: 32.0 Consensus size: 2
27474843 TCCCTCCCCC
* * * * *
27474853 CT CT CT CT C- CT -T CC CT CT CT CT CA CT CA CT CA CT CA CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27474893 CT CT CT C- CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
27474914 GTCTTAATCT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.07, C:0.52, G:0.00, T:0.41
Consensus pattern (2 bp):
CT
Found at i:27474860 original size:17 final size:16
Alignment explanation
Indices: 27474834--27474867 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
27474824 CTCCCTCTTT
27474834 CCCCCTCTCTCCCTCC
1 CCCCCTCTCTCCCTCC
*
27474850 CCCCTCTCTCTCCTTCC
1 CCCC-CTCTCTCCCTCC
27474867 C
1 C
27474868 TCTCTCTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (16 bp):
CCCCCTCTCTCCCTCC
Found at i:27488707 original size:20 final size:20
Alignment explanation
Indices: 27488682--27488719 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27488672 ACGGAATTTC
*
27488682 ATTTCTCTATTTATCCATCT
1 ATTTCTCCATTTATCCATCT
*
27488702 ATTTCTCCATTTTTCCAT
1 ATTTCTCCATTTATCCAT
27488720 TTCTAACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTCTCCATTTATCCATCT
Found at i:27505358 original size:30 final size:30
Alignment explanation
Indices: 27505324--27505380 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
27505314 ATTTAATACG
27505324 AACTTTAACAAAATTACACTTTTGCCCCTA
1 AACTTTAACAAAATTACACTTTTGCCCCTA
** *
27505354 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAACAAAATTACACTTTTGCCC
27505381 TAGGCTCGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAACAAAATTACACTTTTGCCCCTA
Found at i:27508198 original size:119 final size:120
Alignment explanation
Indices: 27508014--27508238 Score: 289
Period size: 119 Copynumber: 1.9 Consensus size: 120
27508004 GCTCCTCGTT
* *
27508014 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
27508079 AT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATT-GTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
27508134 CAAATGACTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGACTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
27508196 GGATATTGTCACTTAGCCCAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATTGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
27508239 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27508238 original size:40 final size:41
Alignment explanation
Indices: 27508014--27508238 Score: 286
Period size: 40 Copynumber: 5.6 Consensus size: 41
27508004 GCTCCTCGTT
* *
27508014 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
27508054 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
27508094 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
27508134 CAAATGACTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * * *
27508173 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
27508214 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27508239 CATCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:27516591 original size:25 final size:25
Alignment explanation
Indices: 27516563--27516637 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
27516553 GCCGTGAATT
27516563 GGTATGCTCACTCAAGCTATAGGTC
1 GGTATGCTCACTCAAGCTATAGGTC
* * **
27516588 GGTATGCTC-TTACAAACTATAAATC
1 GGTATGCTCACT-CAAGCTATAGGTC
* * *
27516613 GGTATGCTCACACGAGCTATGGGTC
1 GGTATGCTCACTCAAGCTATAGGTC
27516638 AGAATGTAGC
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
GGTATGCTCACTCAAGCTATAGGTC
Found at i:27528626 original size:53 final size:53
Alignment explanation
Indices: 27528546--27528652 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
27528536 GATCTTGCCA
27528546 CCCTTGGCGGGAATAATGTGATGGATATGAAGGCCATGGATAATGACATTCTT
1 CCCTTGGCGGGAATAATGTGATGGATATGAAGGCCATGGATAATGACATTCTT
27528599 CCCTTGGCGGGAATAATGTGATGGATATGAAGGCCATGGATAATGACATTCTT
1 CCCTTGGCGGGAATAATGTGATGGATATGAAGGCCATGGATAATGACATTCTT
27528652 C
1 C
27528653 GCAAATTGGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (53 bp):
CCCTTGGCGGGAATAATGTGATGGATATGAAGGCCATGGATAATGACATTCTT
Found at i:27531955 original size:40 final size:39
Alignment explanation
Indices: 27531857--27532119 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
27531847 TCCTCGTTCA
* * * *
27531857 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
27531896 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
27531935 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
27531975 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
27532015 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
27532055 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
27532096 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27532120 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:27532079 original size:120 final size:119
Alignment explanation
Indices: 27531857--27532119 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
27531847 TCCTCGTTCA
* * *
27531857 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
27531922 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
27531975 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
27532040 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
27532096 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27532120 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:27532128 original size:41 final size:41
Alignment explanation
Indices: 27532051--27532128 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27532041 TTTGTATCTC
* * *
27532051 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27532092 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27532129 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:27539901 original size:40 final size:40
Alignment explanation
Indices: 27539803--27540065 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 40
27539793 TCCTCGTTCA
* * * * *
27539803 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27539842 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27539882 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27539922 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27539962 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
27540002 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
27540042 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27540066 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.19
40 156 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27551575 original size:40 final size:40
Alignment explanation
Indices: 27551484--27551853 Score: 336
Period size: 40 Copynumber: 9.3 Consensus size: 40
27551474 TCCTCGTTCA
* * * *
27551484 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * **
27551523 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
27551563 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * *
27551603 AATGCCCTCGGGACTTAACCCGGATTTAGTATCAC-CAATTCG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGC-A--CG
** * * * * * ** *
27551645 CGTACCTCCGGGATTTAA-CCGGATATAGCT-CCTCGTTCA
1 AATGCCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACG
* * * *
27551684 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * **
27551723 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
27551763 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * *
27551803 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
27551843 AAGGCCTTCGG
1 AATGCCTTCGG
27551854 ATCTTAGTCC
Statistics
Matches: 263, Mismatches: 59, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
39 78 0.30
40 159 0.60
41 11 0.04
42 15 0.06
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:27551585 original size:79 final size:80
Alignment explanation
Indices: 27551484--27551853 Score: 336
Period size: 79 Copynumber: 4.6 Consensus size: 80
27551474 TCCTCGTTCA
* * * * * *
27551484 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-CATGCCTTCGGGACGTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
*
27551548 TTAACAACTCGCACG
66 TTAATAACTCGCACG
* * *
27551563 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
* * *
27551628 TTAGTATCAC-CAATTCG
66 TTAATAACTCGC-A--CG
** * * * * * ** * * * *
27551645 CGTACCTCCGGGATTTAA-CCGGATATAGCT-CCTCGTTCAAATGCCTTCGGGACATAGCCCGGT
1 AATGCCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
* *
27551708 TTTAGTAACTCACAC-
65 TTTAATAACTCGCACG
* * ** *
27551723 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGCT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
27551788 TTAATAACTCGCACG
66 TTAATAACTCGCACG
* * * *
27551803 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGG
27551854 ATCTTAGTCC
Statistics
Matches: 227, Mismatches: 55, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
78 13 0.06
79 83 0.37
80 72 0.32
81 42 0.19
82 17 0.07
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
TTAATAACTCGCACG
Found at i:27551779 original size:200 final size:200
Alignment explanation
Indices: 27551436--27551835 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
27551426 CTCATTCGTT
*
27551436 ACCAATTCGCGTACCTTCGGGATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATA
1 ACCAATTCGCGTACCTCCGGGATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATA
27551501 GCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAAT
66 GCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAAT
27551566 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGATTTA
131 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGATTTA
27551631 GTATC
196 GTATC
27551636 ACCAATTCGCGTACCTCCGGGATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATA
1 ACCAATTCGCGTACCTCCGGGATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATA
27551701 GCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAAT
66 GCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAAT
27551766 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGATTTA
131 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGATTTA
27551831 GTATC
196 GTATC
27551836 TCGCACAAAG
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (200 bp):
ACCAATTCGCGTACCTCCGGGATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATA
GCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAAT
GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGATTTA
GTATC
Found at i:27559778 original size:40 final size:40
Alignment explanation
Indices: 27559595--27559764 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
27559585 TCCTCGTTCA
* * * *
27559595 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27559634 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27559674 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27559714 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27559754 AAGGCCTTCGG
1 AATGCCTTCGG
27559765 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27567948 original size:40 final size:40
Alignment explanation
Indices: 27567765--27567934 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
27567755 TCCTCGTTCA
* * * *
27567765 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27567804 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27567844 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27567884 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27567924 AAGGCCTTCGG
1 AATGCCTTCGG
27567935 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27569456 original size:83 final size:83
Alignment explanation
Indices: 27569356--27569521 Score: 278
Period size: 83 Copynumber: 2.0 Consensus size: 83
27569346 CAACCAAATT
**
27569356 GAAGCTTGAAATTTTCACACATTCATAATTACATATTCTACACAATAAGTATCACATTCAAACAT
1 GAAGCTTGAAATTTTCACACATTCATAATTACATATTCTACACAATAAACATCACATTCAAACAT
27569421 TTCGGTGACTCGGTTTAG
66 TTCGGTGACTCGGTTTAG
* * * *
27569439 GAAGCTTGAAATTTTCACACATTCCTGATTACATATTCTAGACAATAAACATCACATTCAAACCT
1 GAAGCTTGAAATTTTCACACATTCATAATTACATATTCTACACAATAAACATCACATTCAAACAT
27569504 TTCGGTGACTCGGTTTAG
66 TTCGGTGACTCGGTTTAG
27569522 CGGTCCCGAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (83 bp):
GAAGCTTGAAATTTTCACACATTCATAATTACATATTCTACACAATAAACATCACATTCAAACAT
TTCGGTGACTCGGTTTAG
Found at i:27575502 original size:27 final size:27
Alignment explanation
Indices: 27575472--27575622 Score: 135
Period size: 27 Copynumber: 5.6 Consensus size: 27
27575462 TTATTGAGCC
* *
27575472 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27575499 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
27575526 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAAT-CAACT
** ** *
27575554 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
27575581 CGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTA-CATAAT-CAACT
27575608 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27575623 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 80 0.77
28 23 0.22
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27575564 original size:55 final size:54
Alignment explanation
Indices: 27575472--27575622 Score: 164
Period size: 55 Copynumber: 2.8 Consensus size: 54
27575462 TTATTGAGCC
* * *
27575472 CGCACACTCAGTGCTAT-ATAAT-CAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCAT-ATCCATCTCGCACACTTAGTGCTACATAATCAAAT
** ** *
27575526 CGCACACTTAGTGCCA-CATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTG-CATCATA-TCCATCTCGCACACTTAGTGCTACATAATCAAAT
*
27575581 CGCACACTTAGTGCATCATATCCATTTCGCACACTTAGTGCT
1 CGCACACTTAGTGCATCATATCCATCTCGCACACTTAGTGCT
27575623 GTACAATTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 38 0.46
55 43 0.52
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATATCCATCTCGCACACTTAGTGCTACATAATCAAAT
Found at i:27582321 original size:27 final size:27
Alignment explanation
Indices: 27582271--27582322 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
27582261 GTTTATATTA
*
27582271 ATTAATAAAGGTTATATATGTAAAATT
1 ATTAATAAAGGTTATATATATAAAATT
*
27582298 ATTAAT-AATGTTATATAATATAAAA
1 ATTAATAAAGGTTATAT-ATATAAAA
27582323 CATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (27 bp):
ATTAATAAAGGTTATATATATAAAATT
Found at i:27583295 original size:56 final size:56
Alignment explanation
Indices: 27583231--27583451 Score: 316
Period size: 56 Copynumber: 3.9 Consensus size: 56
27583221 CATGGCATCG
* * * *
27583231 ATATATGTGTGCGAGTAAGACCACATTTAATATGTTGGCATCGATATGTGATTTCG
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
*
27583287 ATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTCA
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
* * * * *
27583343 ATATATTTGTGCAAGTAAGGCCATGTTTAATACGTTGGCATCAATATGTGATTCCA
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
** * *
27583399 ATATATGTGTGTGAGTAAGACCACGTTTAGTACATTGGCATCGATATGTGATT
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
27583452 ACATGTAAGA
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 148 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
Found at i:27595110 original size:38 final size:38
Alignment explanation
Indices: 27595054--27595133 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
27595044 GATGTGTATT
* * *
27595054 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
27595092 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
27595130 CGGG
1 CGGG
27595134 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:27595180 original size:43 final size:42
Alignment explanation
Indices: 27595105--27595237 Score: 196
Period size: 43 Copynumber: 3.1 Consensus size: 42
27595095 GATAAATCCC
* * *
27595105 GCAGGCCTAGTGCTGGTAT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTATGTGTATTCGGGCCTTCGTGCCTA
27595146 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGT-ATGTGTATTCGGGCCTTCGTGCCTA
*
27595189 GCAGGCTTCGTGCCGGTTATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGG-TATGTGTATTCGGGCCTTCGTGCCTA
*
27595232 GTAGGC
1 GCAGGC
27595238 GTAATGCCAG
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
41 15 0.18
42 2 0.02
43 66 0.79
44 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (42 bp):
GCAGGCTTAGTGCCGGTATGTGTATTCGGGCCTTCGTGCCTA
Found at i:27597942 original size:105 final size:106
Alignment explanation
Indices: 27597760--27597970 Score: 334
Period size: 105 Copynumber: 2.0 Consensus size: 106
27597750 TGTGTTGCAA
* * *
27597760 AAAATGATTTAGCCCGGATGGGTAATCTGTTGATCTCAAATATAGAAAAGGATCTAGCCCAGACG
1 AAAATGATTTAACCCGGATGAGTAATCCGTTGATCTCAAATATAGAAAAGGATCTAGCCCAGACG
* * *
27597825 GGTGTTCCTTGAGTGATCGAGCCTTCCGAAGAA-ATGTGTG
66 GGTGTTCCTTGAGTGATCAAGCCTCCCAAAGAATATGTGTG
* * *
27597865 AAAATGATTTAACCTGGATGAGTAATCCGTTGATCTCAAATATAGAAAAGGATCTAGTCCGGACG
1 AAAATGATTTAACCCGGATGAGTAATCCGTTGATCTCAAATATAGAAAAGGATCTAGCCCAGACG
27597930 GGTGTTCCTTGAGTGATCAAGCCTCCCAAAGAATATGTGTG
66 GGTGTTCCTTGAGTGATCAAGCCTCCCAAAGAATATGTGTG
27597971 CATTAAGGAT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 89 0.93
106 7 0.07
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (106 bp):
AAAATGATTTAACCCGGATGAGTAATCCGTTGATCTCAAATATAGAAAAGGATCTAGCCCAGACG
GGTGTTCCTTGAGTGATCAAGCCTCCCAAAGAATATGTGTG
Found at i:27605703 original size:93 final size:93
Alignment explanation
Indices: 27605544--27605729 Score: 266
Period size: 93 Copynumber: 2.0 Consensus size: 93
27605534 GGAGTTGATT
* * *
27605544 TGATTAAAGATGCTGAACAGAAAGTAAAAATAATTCGTAAAAGTCTGAAGGTAGCATCAGATCGT
1 TGATTAAAGATGCCGAACAGAAAGTAAAAATAATCCGTAAAAGTCTGAAGGCAGCATCAGATCGT
* *
27605609 CAGAAGTCGTATGCGGATTTAAAACGAA
66 CAAAAATCGTATGCGGATTTAAAACGAA
* ** *
27605637 TGATTAAGGATGCCGAACAGAAAGTAAAGGTAATCCGTGAAAGTCTGAAGGCAGCCA-CAGATCG
1 TGATTAAAGATGCCGAACAGAAAGTAAAAATAATCCGTAAAAGTCTGAAGGCAG-CATCAGATCG
*
27605701 TCAAAAATCGTATGCGGATTTGAAACGAA
65 TCAAAAATCGTATGCGGATTTAAAACGAA
27605730 AGGACATTGA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 80 0.98
94 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (93 bp):
TGATTAAAGATGCCGAACAGAAAGTAAAAATAATCCGTAAAAGTCTGAAGGCAGCATCAGATCGT
CAAAAATCGTATGCGGATTTAAAACGAA
Found at i:27608132 original size:39 final size:40
Alignment explanation
Indices: 27608031--27608132 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
27608021 TACTCGGATG
* *
27608031 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
27608071 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CT
* * *
27608111 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
27608133 TACTTGGTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 16 0.29
40 40 0.71
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
Found at i:27611089 original size:19 final size:18
Alignment explanation
Indices: 27611033--27611089 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
27611023 AATTGAACTG
27611033 ATGTTCACATGTACGAACA
1 ATGTTCAC-TGTACGAACA
* *
27611052 ATG-T-AGCTATACAAACA
1 ATGTTCA-CTGTACGAACA
27611069 ATGTTCACTTGTACGAACA
1 ATGTTCAC-TGTACGAACA
27611088 AT
1 AT
27611090 CTAGCTACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
17 12 0.40
18 4 0.13
19 14 0.47
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (18 bp):
ATGTTCACTGTACGAACA
Found at i:27611105 original size:30 final size:33
Alignment explanation
Indices: 27611033--27611105 Score: 80
Period size: 36 Copynumber: 2.2 Consensus size: 33
27611023 AATTGAACTG
*
27611033 ATGTTCACATGTACGAACAATGTAGCTATACAAACA
1 ATGTTCACATGTACGAACAATCTAGC-ATAC--ACA
*
27611069 ATGTTCACTTGTACGAACAATCTAGC-TAC-C-
1 ATGTTCACATGTACGAACAATCTAGCATACACA
27611099 ATGTTCA
1 ATGTTCA
27611106 AAGTAGGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 7 0.20
31 1 0.03
34 3 0.09
36 24 0.69
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (33 bp):
ATGTTCACATGTACGAACAATCTAGCATACACA
Found at i:27616720 original size:33 final size:32
Alignment explanation
Indices: 27616673--27616734 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
27616663 CGCTGCAATC
* *
27616673 TGGTGGCTTCGCCACATATATATATATCTGTTA
1 TGGTGGCCTAGCCACA-ATATATATATCTGTTA
* *
27616706 TGGTGGCCTAGCCACAATATCTGTATCTG
1 TGGTGGCCTAGCCACAATATATATATCTG
27616735 GTGACTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATATATATATCTGTTA
Found at i:27617191 original size:27 final size:27
Alignment explanation
Indices: 27617160--27617213 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
27617150 TCTGATTTAA
27617160 TTTTGGGTTTTAAGTTGTAATAAGGCC
1 TTTTGGGTTTTAAGTTGTAATAAGGCC
*
27617187 TTTTGGGTTTTATGTTGTAATAAGGCC
1 TTTTGGGTTTTAAGTTGTAATAAGGCC
27617214 GCTATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.07, G:0.26, T:0.46
Consensus pattern (27 bp):
TTTTGGGTTTTAAGTTGTAATAAGGCC
Found at i:27617792 original size:117 final size:117
Alignment explanation
Indices: 27617585--27617807 Score: 302
Period size: 117 Copynumber: 1.9 Consensus size: 117
27617575 CACGGCACGA
* * * ** * *
27617585 AAGTGCTATCAAGAGTACCGAAGTACAACAGGGGCACGTAAGTGCGGTCAGGGGTACCAAATTAC
1 AAGTGCGATCAAGAGTACCGAAATACAACAAGGGCACGTAAGTGCGACCAAGGGTACCAAAATAC
* *
27617650 AATAGAGGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCAAGT
66 AATAGAGGCACGTAAGAGCGATCAGGGATACCGAAGTACAACAAGGGCAAGT
* * * *
27617702 AAGTGCGATCAGGGGTACTGAAATACAACAAGGGCACTTAAGTGCGACCAAGGGTACCAAAATAC
1 AAGTGCGATCAAGAGTACCGAAATACAACAAGGGCACGTAAGTGCGACCAAGGGTACCAAAATAC
* * *
27617767 AATAGGGGCACGTAAGAGCGGTCAGGGATACCGGAGTACAA
66 AATAGAGGCACGTAAGAGCGATCAGGGATACCGAAGTACAA
27617808 TAGTTATCTA
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
117 90 1.00
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (117 bp):
AAGTGCGATCAAGAGTACCGAAATACAACAAGGGCACGTAAGTGCGACCAAGGGTACCAAAATAC
AATAGAGGCACGTAAGAGCGATCAGGGATACCGAAGTACAACAAGGGCAAGT
Found at i:27617810 original size:39 final size:39
Alignment explanation
Indices: 27617578--27617807 Score: 244
Period size: 39 Copynumber: 5.9 Consensus size: 39
27617568 ACGTAAACAC
* * * *
27617578 GGCACGAAAGTGCTATCAAGAGTACCGAAGTACAACAGG
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * * *
27617617 GGCACGTAAGTGCGGTCAGGGGTACCAAATTACAATAGA
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGG
*
27617656 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAAG
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * *
27617695 GGCAAGTAAGTGCGATCAGGGGTACTGAAATACAACAAG
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * * * *
27617734 GGCACTTAAGTGCGACCAAGGGTACCAAAATACAATAGG
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * *
27617773 GGCACGTAAGAGCGGTCAGGGATACCGGAGTACAA
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAA
27617808 TAGTTATCTA
Statistics
Matches: 156, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 156 1.00
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.14
Consensus pattern (39 bp):
GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGG
Found at i:27620035 original size:153 final size:146
Alignment explanation
Indices: 27619730--27620160 Score: 528
Period size: 154 Copynumber: 2.9 Consensus size: 146
27619720 GATTTTTTTT
* * * * *
27619730 AAAAAAAAGAG--AGTTTAGATTTTTAAAATAATAATATGTTTTTAGTCGTATTAAAGGAAAAGT
1 AAAAAAAAGAGAAAGTTTAGATTTTT-AAATAAAAATATATTTTTAGTCATTTTAAAGGAAAACT
* * * *
27619793 TTAAATTTTTGAAACAAAGTTTTGATCTTTTTCAACAATTTTGTAATAAAACTTTGATTTTTAAG
65 TTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTGATTTTTAAG
27619858 AAAAATAGTGAGTTTTTTTTAAA
130 AAAAATAGTGAG-----TTT-AA
* * *
27619881 AAAAAAAAGAGAAAGTTCAGATTTTTCAAATAAAAATCTTTTTTTAGTCATTTTAAAGGAAAACT
1 AAAAAAAAGAGAAAGTTTAGATTTTT-AAATAAAAATATATTTTTAGTCATTTTAAAGGAAAACT
* * * *
27619946 TTAAATTTTTTAAAACAAAGTTTCGATATTTTTAAACTATTTCGAAATAAAGCTTTGATTTTTAA
65 TTAAA-TTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTGATTTTTAA
*
27620011 GAAAGATAGTGA-TTTAA
129 GAAAAATAGTGAGTTTAA
* * * *
27620028 AAAAAAAAGAGAAAGTTTAG-TTTTTAAAAATAAAATAAAATTTTAGTCATTTTAAAGGAAAATT
1 AAAAAAAAGAGAAAGTTTAGATTTTTAAATA-AAAATATATTTTTAGTCATTTTAAAGGAAAACT
* * *
27620092 TTAAATTTTTAAAACAAAGTTTTGACCTTTTTCAATTATTTCAAAATAAAACTTTGATTTTTAAG
65 TTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTGATTTTTAAG
27620157 AAAA
130 AAAA
27620161 GTTGTGATTT
Statistics
Matches: 244, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
145 60 0.25
146 38 0.16
147 21 0.09
148 3 0.01
151 11 0.05
153 49 0.20
154 62 0.25
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (146 bp):
AAAAAAAAGAGAAAGTTTAGATTTTTAAATAAAAATATATTTTTAGTCATTTTAAAGGAAAACTT
TAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTGATTTTTAAGA
AAAATAGTGAGTTTAA
Found at i:27620072 original size:26 final size:28
Alignment explanation
Indices: 27620023--27620083 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
27620013 AAGATAGTGA
27620023 TTTAAAAAAAAAAGAGAAAGTTTAGT-T
1 TTTAAAAAAAAAAGAGAAAGTTTAGTAT
* * *
27620050 TTTAAAAATAAAATA-AAATTTTAGTCAT
1 TTTAAAAAAAAAAGAGAAAGTTTAGT-AT
27620078 TTTAAA
1 TTTAAA
27620084 GGAAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 13 0.45
28 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (28 bp):
TTTAAAAAAAAAAGAGAAAGTTTAGTAT
Found at i:27620175 original size:21 final size:21
Alignment explanation
Indices: 27620149--27620192 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27620139 AAAACTTTGA
27620149 TTTTT-AAGAAAAGTTGTGATT
1 TTTTTAAAGAAAA-TTGTGATT
*
27620170 TTTTTAAAGAAAATTTTGATT
1 TTTTTAAAGAAAATTGTGATT
27620191 TT
1 TT
27620193 ACAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTTTAAAGAAAATTGTGATT
Found at i:27620208 original size:145 final size:144
Alignment explanation
Indices: 27619881--27620159 Score: 362
Period size: 145 Copynumber: 1.9 Consensus size: 144
27619871 TTTTTTTAAA
* ** * ****
27619881 AAAAAAAAGAGAAAGTTCAGATTTTTCAAATAAAAATCTTTTTTTAGTCATTTTAAAGGAAAACT
1 AAAAAAAAGAGAAAGTTTAG-TTTTAAAAAAAAAAATAAAATTTTAGTCATTTTAAAGGAAAACT
* * *
27619946 TTAAATTTTTTAAAACAAAGTTTCGATATTTTTAAACTATTTCGAAATAAAGCTTTGATTTTTAA
65 TTAAATTTTTTAAAACAAAGTTTCGACATTTTTAAACTATTTCAAAATAAAACTTTGATTTTTAA
27620011 GAAAGATAGTGATTT
130 GAAAGATAGTGATTT
* * *
27620026 AAAAAAAAAAGAGAAAGTTTAGTTTTTAAAAATAAAATAAAATTTTAGTCATTTTAAAGGAAAAT
1 --AAAAAAAAGAGAAAGTTTAGTTTTAAAAAAAAAAATAAAATTTTAGTCATTTTAAAGGAAAAC
* * * *
27620091 TTTAAA-TTTTTAAAACAAAGTTTTGACCTTTTTCAATTATTTCAAAATAAAACTTTGATTTTTA
64 TTTAAATTTTTTAAAACAAAGTTTCGACATTTTTAAACTATTTCAAAATAAAACTTTGATTTTTA
27620155 AGAAA
129 AGAAA
27620160 AGTTGTGATT
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
145 56 0.48
146 41 0.35
147 19 0.16
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (144 bp):
AAAAAAAAGAGAAAGTTTAGTTTTAAAAAAAAAAATAAAATTTTAGTCATTTTAAAGGAAAACTT
TAAATTTTTTAAAACAAAGTTTCGACATTTTTAAACTATTTCAAAATAAAACTTTGATTTTTAAG
AAAGATAGTGATTT
Found at i:27623109 original size:43 final size:42
Alignment explanation
Indices: 27623077--27623155 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
27623067 TACTTATAAT
* *
27623077 CACACAT-CGATGCCACTGTCCCAGACAGGGTCTTACATGAA
1 CACACATACAATGCCAATGTCCCAGACAGGGTCTTACATGAA
* * *
27623118 CTCATATACAATGCCAATGTCCCAGACATGGTCTTACA
1 CACACATACAATGCCAATGTCCCAGACAGGGTCTTACA
27623156 CGTAAATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 5 0.16
42 27 0.84
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (42 bp):
CACACATACAATGCCAATGTCCCAGACAGGGTCTTACATGAA
Found at i:27626090 original size:43 final size:42
Alignment explanation
Indices: 27626058--27626136 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
27626048 TACTTATAAT
* *
27626058 CACACAT-CGATGCCACTGTCCCAGACAGGGTCTTACATGAA
1 CACACATACAATGCCAATGTCCCAGACAGGGTCTTACATGAA
* * *
27626099 CTCATATACAATGCCAATGTCCCAGACATGGTCTTACA
1 CACACATACAATGCCAATGTCCCAGACAGGGTCTTACA
27626137 CGTAAATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 5 0.16
42 27 0.84
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (42 bp):
CACACATACAATGCCAATGTCCCAGACAGGGTCTTACATGAA
Found at i:27633670 original size:24 final size:24
Alignment explanation
Indices: 27633607--27633671 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
27633597 ATGGGAGGTT
*** *
27633607 GGAGTGATTTATGGAGTGTATCAT
1 GGAGTGATTTATGGAGAAAATCAA
* *
27633631 GGTGAGATATTA-GGAGAAAATCAA
1 GGAGTGAT-TTATGGAGAAAATCAA
27633655 GGAGTGATTTATGGAGA
1 GGAGTGATTTATGGAGA
27633672 GATTTAAGGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.29
Consensus pattern (24 bp):
GGAGTGATTTATGGAGAAAATCAA
Found at i:27635504 original size:27 final size:26
Alignment explanation
Indices: 27635431--27635515 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
27635421 GTGCAAATTG
* *
27635431 TATTTACCAGTGGCTATGTGCCTATCA
1 TATTTACCA-TGGCTATGTGTCAATCA
* * *
27635458 TATTTATCGATGACTCTGTGTCAATCA
1 TATTTA-CCATGGCTATGTGTCAATCA
* * *
27635485 TATTTACCCATGGCTGTGTGTCGATTA
1 TATTTA-CCATGGCTATGTGTCAATCA
27635512 TATT
1 TATT
27635516 GCCGTCGTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (26 bp):
TATTTACCATGGCTATGTGTCAATCA
Found at i:27639424 original size:55 final size:55
Alignment explanation
Indices: 27639340--27639450 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
27639330 CAAATAGTGA
* *
27639340 ATCAGGGGTAACTTTGAGGAATAAACTGTACTATTTGGCCTAACCAAAAATTCTG
1 ATCAGAGGTAACTTTGAGGAATAAACTGTACTATTCGGCCTAACCAAAAATTCTG
* *
27639395 ATCAGAGGTAACTTTGATGAATAAACTGTACTATTCGGCTTAACCAAAAATTCTG
1 ATCAGAGGTAACTTTGAGGAATAAACTGTACTATTCGGCCTAACCAAAAATTCTG
27639450 A
1 A
27639451 AAATTTTATG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (55 bp):
ATCAGAGGTAACTTTGAGGAATAAACTGTACTATTCGGCCTAACCAAAAATTCTG
Found at i:27640735 original size:16 final size:16
Alignment explanation
Indices: 27640685--27640741 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
27640675 TTTAACAAAA
*
27640685 AAATCCAAAAAATAAT
1 AAATCCAAAAAATCAT
* ** *
27640701 AAA-CCTAAATCTCTCT
1 AAATCCAAAAAATC-AT
27640717 AAATCCAAAAAATCAT
1 AAATCCAAAAAATCAT
27640733 AAATCCAAA
1 AAATCCAAA
27640742 TTAGAAACTT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATCCAAAAAATCAT
Found at i:27641644 original size:41 final size:44
Alignment explanation
Indices: 27641599--27641684 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
27641589 TTCTCATGCA
*
27641599 ATCAACAATCCCAAT-AAAA-AAAA-AGCTTGGATATAAATACT
1 ATCAACAACCCCAATCAAAAGAAAAGAGCTTGGATATAAATACT
*
27641640 ATCAACAACCCCTATGCAAAAGAAAAGAGCTTGGATATAAATACT
1 ATCAACAACCCCAAT-CAAAAGAAAAGAGCTTGGATATAAATACT
27641685 TACGTATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 13 0.33
43 4 0.10
44 4 0.10
45 18 0.46
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (44 bp):
ATCAACAACCCCAATCAAAAGAAAAGAGCTTGGATATAAATACT
Found at i:27641809 original size:37 final size:39
Alignment explanation
Indices: 27641759--27641836 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
27641749 GAAGAGATTG
* *
27641759 AAATAAATAAATAA-AGTGTTA-ATAAGTTGGTTGAATA
1 AAATAAATAAATAATAATATTATATAAGTTGGTTGAATA
* *
27641796 AAATAAATAAATAATAATATTATATTATTTGGTTGAATA
1 AAATAAATAAATAATAATATTATATAAGTTGGTTGAATA
27641835 AA
1 AA
27641837 TTAATAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.40
38 5 0.14
39 16 0.46
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.36
Consensus pattern (39 bp):
AAATAAATAAATAATAATATTATATAAGTTGGTTGAATA
Found at i:27651613 original size:37 final size:37
Alignment explanation
Indices: 27651563--27651638 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
27651553 TAACCCTTTG
27651563 AGTGTCTTCCACCAATGATATGCAGTGTCTCTCAATA
1 AGTGTCTTCCACCAATGATATGCAGTGTCTCTCAATA
27651600 AGTGTCTTCCACCAATGATATGCAGTGTCTCTCAATA
1 AGTGTCTTCCACCAATGATATGCAGTGTCTCTCAATA
27651637 AG
1 AG
27651639 GAAATATCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (37 bp):
AGTGTCTTCCACCAATGATATGCAGTGTCTCTCAATA
Found at i:27655171 original size:40 final size:39
Alignment explanation
Indices: 27655140--27655349 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
27655130 GGACTAAGAT
* *
27655140 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
27655180 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
27655220 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
27655260 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
27655300 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
27655339 CCGAAGGCATT
1 CCGAAGGCATT
27655350 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:27655303 original size:120 final size:120
Alignment explanation
Indices: 27655087--27655349 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
27655077 TTGAATGCTG
* *
27655087 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
27655151 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
27655207 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
27655270 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
27655326 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27655350 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:27655369 original size:79 final size:80
Alignment explanation
Indices: 27655088--27655384 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
27655078 TGAATGCTGT
* ** * * * **
27655088 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
27655151 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
27655168 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
27655232 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
27655248 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
27655312 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
27655327 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
27655385 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:27663121 original size:40 final size:39
Alignment explanation
Indices: 27663090--27663299 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
27663080 GGACTAAGAT
* *
27663090 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
27663130 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
27663170 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
27663210 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
27663250 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
27663289 CCGAAGGCATT
1 CCGAAGGCATT
27663300 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:27663253 original size:120 final size:120
Alignment explanation
Indices: 27663037--27663299 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
27663027 TTGAATGCTG
* *
27663037 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
27663101 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
27663157 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
27663220 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
27663276 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27663300 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:27663319 original size:79 final size:80
Alignment explanation
Indices: 27663038--27663334 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
27663028 TGAATGCTGT
* ** * * * **
27663038 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
27663101 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
27663118 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
27663182 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
27663198 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
27663262 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
27663277 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
27663335 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:27666128 original size:39 final size:39
Alignment explanation
Indices: 27666068--27666183 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
27666058 CCGGACATAT
* * *
27666068 TTCCAGCACGTAGCCTACGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
** *
27666107 TTTTAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
*
27666146 TTCCAGCACATAGTCTGCGGACCCTAAGTCCAGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATA
27666184 CATCACTGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
Found at i:27669561 original size:45 final size:45
Alignment explanation
Indices: 27669487--27669574 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
27669477 CCAAAACATG
* * *
27669487 TGTCACATACATCATGAATTCAGATCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
* *
27669532 TGTCACATATATCATGAACTGAAACCACAACTCAATGAGTTCA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCA
27669575 TACCACATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:27670926 original size:27 final size:27
Alignment explanation
Indices: 27670892--27670949 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
27670882 ATGTTACAAT
27670892 ATTTTAATAAAACCATAAGGTTTTTAC
1 ATTTTAATAAAACCATAAGGTTTTTAC
*
27670919 ATTTTAATGAAACCATAAGGTTTTTAC
1 ATTTTAATAAAACCATAAGGTTTTTAC
27670946 ATTT
1 ATTT
27670950 GGATTTAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (27 bp):
ATTTTAATAAAACCATAAGGTTTTTAC
Found at i:27671227 original size:15 final size:14
Alignment explanation
Indices: 27671203--27671232 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
27671193 AACTGATAAA
27671203 TATTATTTAAGATT
1 TATTATTTAAGATT
27671217 TATTAATTTAAGATT
1 TATT-ATTTAAGATT
27671232 T
1 T
27671233 TGGCGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTATTTAAGATT
Found at i:27673785 original size:32 final size:32
Alignment explanation
Indices: 27673744--27673808 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
27673734 AAGTATCAAT
27673744 ACTAGAGACATTTAATGTCTGATTTAGTGACC
1 ACTAGAGACATTTAATGTCTGATTTAGTGACC
27673776 ACTAGAGACATTTAATGTCTGATTTAGTGACC
1 ACTAGAGACATTTAATGTCTGATTTAGTGACC
27673808 A
1 A
27673809 TTAAAATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
ACTAGAGACATTTAATGTCTGATTTAGTGACC
Found at i:27678101 original size:518 final size:518
Alignment explanation
Indices: 27677124--27678101 Score: 1956
Period size: 518 Copynumber: 1.9 Consensus size: 518
27677114 TTGAGATGAT
27677124 AATCGAAAACATTGGAAACGGTAAGAGCGTGATTTTTTGCTTTCACGGTAAGTTGGGCCTCGAGG
1 AATCGAAAACATTGGAAACGGTAAGAGCGTGATTTTTTGCTTTCACGGTAAGTTGGGCCTCGAGG
27677189 GGCTGAAGTAGGGCCCAATGGGCTTTCGGCCCATTTGGGTAAAATTGGTGGAAAATGAAAACCTG
66 GGCTGAAGTAGGGCCCAATGGGCTTTCGGCCCATTTGGGTAAAATTGGTGGAAAATGAAAACCTG
27677254 TTAAATTTCGTATCGAGACTGATAAAACCATTATGGAATATAGGCTAAATGGGCCTAGATGACAA
131 TTAAATTTCGTATCGAGACTGATAAAACCATTATGGAATATAGGCTAAATGGGCCTAGATGACAA
27677319 AATCGGCTATGTAGGGCCCATTAAGGGTTTTAGGCCCAATAACTCAATTTCGCTAAAAATGGGCC
196 AATCGGCTATGTAGGGCCCATTAAGGGTTTTAGGCCCAATAACTCAATTTCGCTAAAAATGGGCC
27677384 AGAATCACTGTTTGCACCCATGAATTGTTAGTAACCGTTAACGAACTTGGAAACCCTAATTTTTG
261 AGAATCACTGTTTGCACCCATGAATTGTTAGTAACCGTTAACGAACTTGGAAACCCTAATTTTTG
27677449 GTAAATTTAAAGGATTACCCTTATAATATGAAAATGGTCATTTTGCCCCTAGGTAAAAATGACCA
326 GTAAATTTAAAGGATTACCCTTATAATATGAAAATGGTCATTTTGCCCCTAGGTAAAAATGACCA
27677514 TTATACCCCTAGGGTTTATATATGAATTTAATACATGGGATTCTGATAAACATGGTATGTAAGAT
391 TTATACCCCTAGGGTTTATATATGAATTTAATACATGGGATTCTGATAAACATGGTATGTAAGAT
27677579 ATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTCTTATATGGATGGAGGAAGTGCAAA
456 ATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTCTTATATGGATGGAGGAAGTGCAAA
27677642 AATCGAAAACATTGGAAACGGTAAGAGCGTGATTTTTTGCTTTCACGGTAAGTTGGGCCTCGAGG
1 AATCGAAAACATTGGAAACGGTAAGAGCGTGATTTTTTGCTTTCACGGTAAGTTGGGCCTCGAGG
27677707 GGCTGAAGTAGGGCCCAATGGGCTTTCGGCCCATTTGGGTAAAATTGGTGGAAAATGAAAACCTG
66 GGCTGAAGTAGGGCCCAATGGGCTTTCGGCCCATTTGGGTAAAATTGGTGGAAAATGAAAACCTG
27677772 TTAAATTTCGTATCGAGACTGATAAAACCATTATGGAATATAGGCTAAATGGGCCTAGATGACAA
131 TTAAATTTCGTATCGAGACTGATAAAACCATTATGGAATATAGGCTAAATGGGCCTAGATGACAA
27677837 AATCGGCTATGTAGGGCCCATTAAGGGTTTTAGGCCCAATAACTCAATTTCGCTAAAAATGGGCC
196 AATCGGCTATGTAGGGCCCATTAAGGGTTTTAGGCCCAATAACTCAATTTCGCTAAAAATGGGCC
27677902 AGAATCACTGTTTGCACCCATGAATTGTTAGTAACCGTTAACGAACTTGGAAACCCTAATTTTTG
261 AGAATCACTGTTTGCACCCATGAATTGTTAGTAACCGTTAACGAACTTGGAAACCCTAATTTTTG
27677967 GTAAATTTAAAGGATTACCCTTATAATATGAAAATGGTCATTTTGCCCCTAGGTAAAAATGACCA
326 GTAAATTTAAAGGATTACCCTTATAATATGAAAATGGTCATTTTGCCCCTAGGTAAAAATGACCA
27678032 TTATACCCCTAGGGTTTATATATGAATTTAATACATGGGATTCTGATAAACATGGTATGTAAGAT
391 TTATACCCCTAGGGTTTATATATGAATTTAATACATGGGATTCTGATAAACATGGTATGTAAGAT
27678097 ATGCA
456 ATGCA
27678102 AAATTAGGAC
Statistics
Matches: 460, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
518 460 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (518 bp):
AATCGAAAACATTGGAAACGGTAAGAGCGTGATTTTTTGCTTTCACGGTAAGTTGGGCCTCGAGG
GGCTGAAGTAGGGCCCAATGGGCTTTCGGCCCATTTGGGTAAAATTGGTGGAAAATGAAAACCTG
TTAAATTTCGTATCGAGACTGATAAAACCATTATGGAATATAGGCTAAATGGGCCTAGATGACAA
AATCGGCTATGTAGGGCCCATTAAGGGTTTTAGGCCCAATAACTCAATTTCGCTAAAAATGGGCC
AGAATCACTGTTTGCACCCATGAATTGTTAGTAACCGTTAACGAACTTGGAAACCCTAATTTTTG
GTAAATTTAAAGGATTACCCTTATAATATGAAAATGGTCATTTTGCCCCTAGGTAAAAATGACCA
TTATACCCCTAGGGTTTATATATGAATTTAATACATGGGATTCTGATAAACATGGTATGTAAGAT
ATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTCTTATATGGATGGAGGAAGTGCAAA
Found at i:27678220 original size:24 final size:24
Alignment explanation
Indices: 27678186--27678268 Score: 157
Period size: 24 Copynumber: 3.5 Consensus size: 24
27678176 AAAATGGGAA
27678186 CAGTTATTAAAAGGGCTTATGCCC
1 CAGTTATTAAAAGGGCTTATGCCC
*
27678210 CAGCTATTAAAAGGGCTTATGCCC
1 CAGTTATTAAAAGGGCTTATGCCC
27678234 CAGTTATTAAAAGGGCTTATGCCC
1 CAGTTATTAAAAGGGCTTATGCCC
27678258 CAGTTATTAAA
1 CAGTTATTAAA
27678269 NATCTCCCTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (24 bp):
CAGTTATTAAAAGGGCTTATGCCC
Found at i:27679805 original size:46 final size:46
Alignment explanation
Indices: 27679755--27679927 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
27679745 TGGTTGAGCA
27679755 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27679801 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27679846 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27679894 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27679928 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27679911 original size:93 final size:93
Alignment explanation
Indices: 27679752--27679922 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
27679742 GGATGGTTGA
* *
27679752 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27679817 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
27679845 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27679910 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27679923 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27688021 original size:34 final size:34
Alignment explanation
Indices: 27687978--27688047 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
27687968 CTGTACATGT
27687978 AAATCCACCAAAAACAGCCCTTCCAAGCAATTAA
1 AAATCCACCAAAAACAGCCCTTCCAAGCAATTAA
27688012 AAATCCACCAAAAACAGCCCTTCCAAGCAATTAA
1 AAATCCACCAAAAACAGCCCTTCCAAGCAATTAA
27688046 AA
1 AA
27688048 GTAACAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.31, G:0.06, T:0.14
Consensus pattern (34 bp):
AAATCCACCAAAAACAGCCCTTCCAAGCAATTAA
Found at i:27698594 original size:22 final size:22
Alignment explanation
Indices: 27698569--27698612 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27698559 TTACCTTGTC
27698569 AGTCTTTGCAGATTCTGACTCT
1 AGTCTTTGCAGATTCTGACTCT
27698591 AGTCTTTGCAGATTCTGACTCT
1 AGTCTTTGCAGATTCTGACTCT
27698613 TTTAGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (22 bp):
AGTCTTTGCAGATTCTGACTCT
Found at i:27702000 original size:386 final size:386
Alignment explanation
Indices: 27701287--27702057 Score: 1258
Period size: 386 Copynumber: 2.0 Consensus size: 386
27701277 AACAGAATTG
* *
27701287 AGAGAGTGATGATGGATGAGGGATCATGAATGAAGGAATGAAGGGGTCTTATTTATAGGTGAAGA
1 AGAGAGTAATGATGGATGAGGGATCATGAATGAAGGAATGAAGGGGTCCTATTTATAGGTGAAGA
**
27701352 GAGCTCGGAAGTTTACTAAAAATAGTTGGGTTTAGTCTCTTCAAACTTCTTTTGTAACACCCTTA
66 GAGCTCGGAAGTTTACTAAAAATAGTTGAATTTAGTCTCTTCAAACTTCTTTTGTAACACCCTTA
* * *
27701417 ATCCGTACGCCTCGCCGAAATAGGGTTTTAAAGTATTACTAGAACATTCAGAATGTTTTTCCATT
131 ATCCGTACGCCTCGCAGAAATAGGGTTTTAAAGCATTACTAGAACATTCAGAATATTTTTCCATT
*
27701482 AAACTACGTAAATTACTATTTATTTATCGAGATCATCCATAATGTCCCTTGATCAGGCCCTCGAG
196 AAACTACGTAAATTACTATTTATTTATCGAGATCATCCATAATGTCCCTTGATCAGGCCCTCGAA
* *
27701547 GCCCAACACGAGCATTAGAATCGATTCGGGACTTAATTAGGACCTTTAAGAATTTTTCATAACTT
261 GCCCAACACGAGCATTAGAATCGAATCGGGACTTAATTAGGACCTCTAAGAATTTTTCATAACTT
* *
27701612 TTCACAATTTTTCCAAGGTGTAGGGCTCACACGCCCGTGTGGTCCAAAGGACACGCCCATT
326 TTCACAATTTTTCCAAGGTGTACGGCTCACACGCCCATGTGGTCCAAAGGACACGCCCATT
*
27701673 AGAGAGTAATGATGGATGAGGGATGATGAATGAAGGAATGAAGGGGTCCTATTTATAGGTGAAGA
1 AGAGAGTAATGATGGATGAGGGATCATGAATGAAGGAATGAAGGGGTCCTATTTATAGGTGAAGA
* * * * * * *
27701738 GAGGTGGGAATTTTGCTAAATATAGTTGAATTTAGTCTTTTCAAATTTCTTTTGTAACACCCTTA
66 GAGCTCGGAAGTTTACTAAAAATAGTTGAATTTAGTCTCTTCAAACTTCTTTTGTAACACCCTTA
*
27701803 A-CCTGTATC-CCTCGCAGAAATAGGGTTTTGAAGCATTACTAGAACATTCAGAATATTTTTCCA
131 ATCC-GTA-CGCCTCGCAGAAATAGGGTTTTAAAGCATTACTAGAACATTCAGAATATTTTTCCA
27701866 TTAAACTACGTAAATTACTATTTATTTATCGAGATCATCCATAATGTCCCTTGATCAGGCCCTCG
194 TTAAACTACGTAAATTACTATTTATTTATCGAGATCATCCATAATGTCCCTTGATCAGGCCCTCG
* * ** *
27701931 AAGCCTAATACGAGCATTAGAATCGAATCGGGACTTAATTAGGACCTCTAAGAATTTTTTGTGAC
259 AAGCCCAACACGAGCATTAGAATCGAATCGGGACTTAATTAGGACCTCTAAGAATTTTTCATAAC
* *
27701996 TTTTCACAATTTTTCCAAGGTGTACGGCTTACACGCCCATGTGGTCCAAAGGACATGCCCAT
324 TTTTCACAATTTTTCCAAGGTGTACGGCTCACACGCCCATGTGGTCCAAAGGACACGCCCAT
27702058 GTGACCCTAG
Statistics
Matches: 355, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
385 2 0.01
386 352 0.99
387 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (386 bp):
AGAGAGTAATGATGGATGAGGGATCATGAATGAAGGAATGAAGGGGTCCTATTTATAGGTGAAGA
GAGCTCGGAAGTTTACTAAAAATAGTTGAATTTAGTCTCTTCAAACTTCTTTTGTAACACCCTTA
ATCCGTACGCCTCGCAGAAATAGGGTTTTAAAGCATTACTAGAACATTCAGAATATTTTTCCATT
AAACTACGTAAATTACTATTTATTTATCGAGATCATCCATAATGTCCCTTGATCAGGCCCTCGAA
GCCCAACACGAGCATTAGAATCGAATCGGGACTTAATTAGGACCTCTAAGAATTTTTCATAACTT
TTCACAATTTTTCCAAGGTGTACGGCTCACACGCCCATGTGGTCCAAAGGACACGCCCATT
Found at i:27703853 original size:42 final size:42
Alignment explanation
Indices: 27703794--27703957 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
27703784 TTAGGGTTAC
27703794 TGAGATTACGTGTAAGACCATATCTGAGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGAGATATGGCATCGATA
* **
27703836 TGAGACTT-CGTGTAAGACCATATCTGGGATACAGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGAGATATGGCATCGATA
* * *
27703878 TGAGACTT-CGTGTAAGACCATAGCT-AGGCTATTGGCATTGATA
1 TGAGA-TTACGTGTAAGACCATATCTGA-GATA-TGGCATCGATA
* * * *
27703921 CGAGATTACATGTAACACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGAGATATGGCAT
27703958 TGGTACGGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 71 0.70
43 31 0.30
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGAGATATGGCATCGATA
Found at i:27703944 original size:85 final size:84
Alignment explanation
Indices: 27703794--27703951 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 84
27703784 TTAGGGTTAC
* * * *
27703794 TGAGATTACGTGTAAGACCATATCTGAGATATGGCATCGATATGAGACTTCGTGTAAGACCATAT
1 TGAGATTACGTGTAAGACCATAGCTGAGATATGGCATCGATACGAGACTTCATGTAACACCATAT
27703859 CTGGGATACAGCATCGATA
66 CTGGGATACAGCATCGATA
* *
27703878 TGAGACTT-CGTGTAAGACCATAGCT-AGGCTATTGGCATTGATACGAGA-TTACATGTAACACC
1 TGAGA-TTACGTGTAAGACCATAGCTGA-GATA-TGGCATCGATACGAGACTT-CATGTAACACC
27703940 ATATCTGGGATA
62 ATATCTGGGATA
27703952 TGGCATTGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
83 1 0.02
84 26 0.41
85 37 0.58
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGAGATATGGCATCGATACGAGACTTCATGTAACACCATAT
CTGGGATACAGCATCGATA
Found at i:27707440 original size:43 final size:42
Alignment explanation
Indices: 27707393--27707479 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
27707383 TACATGGGAT
* *
27707393 CTCATATAGATGCCAATAGT-CAAGCTATGATCTTACACGAAAA
1 CTCATATAGATGCC-ATA-TCCAAGATATGATCTTACACAAAAA
* *
27707436 CTCATATCGATGCCATATCCCAGATATGATCTTACACAAAAA
1 CTCATATAGATGCCATATCCAAGATATGATCTTACACAAAAA
27707478 CT
1 CT
27707480 TAAATAACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 1 0.03
42 25 0.64
43 13 0.33
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.26
Consensus pattern (42 bp):
CTCATATAGATGCCATATCCAAGATATGATCTTACACAAAAA
Found at i:27714842 original size:42 final size:42
Alignment explanation
Indices: 27714783--27714943 Score: 168
Period size: 42 Copynumber: 3.8 Consensus size: 42
27714773 TTAAGATTAC
*
27714783 TGAGATTACGTGTAAGACCATATCTATGATATGGAATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGAATCGATA
* **
27714825 TGAGACTT-CGTGTAAGACCATATCTGGGATA-CAACATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTAGGATATGGA-ATCGATA
* * * *
27714867 TGAGACTT-CGTGTAAGACCATAGT-TGGGCTATTAGCATCGATA
1 TGAGA-TTACGTGTAAGACCATA-TCTAGGATA-TGGAATCGATA
*
27714910 CGAGATTACGTGTAAGACCATATCTAGGATATGG
1 TGAGATTACGTGTAAGACCATATCTAGGATATGG
27714944 CATTGGTACA
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 66 0.66
43 33 0.33
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGAATCGATA
Done.