Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 154 of 444
Found at i:41894797 original size:27 final size:27
Alignment explanation
Indices: 41894766--41894890 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
41894756 CATCACATAT
* *
41894766 GGGCAAAACAGCCATCTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * *
41894793 GGGCAAAATAGTAATTTTACC--ACAA
1 GGGCAAAACAGTCATTTTACCATATAA
*
41894818 GGGCAAAACGGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
41894845 GGGCAAAATAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
41894872 GAGCAAAACAATCATTTTA
1 GGGCAAAACAGTCATTTTA
41894891 TCAAATTGGG
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 21 0.26
27 60 0.74
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCATATAA
Found at i:41894838 original size:52 final size:52
Alignment explanation
Indices: 41894766--41894868 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
41894756 CATCACATAT
41894766 GGGCAAAACAGCCATCTTACCATATAAGGGCAAAATAGTAATTTTACCACAA
1 GGGCAAAACAGCCATCTTACCATATAAGGGCAAAATAGTAATTTTACCACAA
* * * *
41894818 GGGCAAAACGGTCATTTTACCATATAAGGGCAAAATAGTCATTTTACCACA
1 GGGCAAAACAGCCATCTTACCATATAAGGGCAAAATAGTAATTTTACCACA
41894869 TAAGAGCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (52 bp):
GGGCAAAACAGCCATCTTACCATATAAGGGCAAAATAGTAATTTTACCACAA
Found at i:41898221 original size:18 final size:18
Alignment explanation
Indices: 41898198--41898232 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41898188 TGGCCCATTA
41898198 CAGTAACAATAAACAGTG
1 CAGTAACAATAAACAGTG
*
41898216 CAGTAACAGTAAACAGT
1 CAGTAACAATAAACAGT
41898233 ATGCAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
CAGTAACAATAAACAGTG
Found at i:41898618 original size:27 final size:27
Alignment explanation
Indices: 41898549--41898658 Score: 105
Period size: 27 Copynumber: 4.0 Consensus size: 27
41898539 AAATATACAT
* * * *
41898549 CACATAGGGGCAAAACAGTCATCTTAT
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
41898576 CATATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
41898603 CACATAAGGGCAAAAT-GATCATTTTATCAC
1 CACATAAGGGCAAAATAG-TCA-TTT-T-AC
* *
41898633 CACATAAGGGTAGAATAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
41898659 TAAATTTTGG
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
26 1 0.01
27 39 0.57
28 4 0.06
29 4 0.06
30 19 0.28
31 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:41898630 original size:54 final size:55
Alignment explanation
Indices: 41898549--41898658 Score: 125
Period size: 57 Copynumber: 2.0 Consensus size: 55
41898539 AAATATACAT
* *
41898549 CACATAGGGGCAAAACAGTCATCTTAT-CATATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTATCCACATAAGGGAAAAATAGTCATTTTAC
* * * *
41898603 CACATAAGGGCAAAA-TGATCATTTTATCACCACATAAGGGTAGAATAGTCATTTTA
1 CACATAAGGGCAAAACAG-TCATCTTAT--CCACATAAGGGAAAAATAGTCATTTTA
41898659 TAAATTTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
53 1 0.02
54 22 0.48
57 23 0.50
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (55 bp):
CACATAAGGGCAAAACAGTCATCTTATCCACATAAGGGAAAAATAGTCATTTTAC
Found at i:41901349 original size:36 final size:36
Alignment explanation
Indices: 41901288--41901358 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
41901278 GGAGCACATC
*
41901288 AGTCAAAATAGATCTGAAAAACTGTTGGAA-TGAATT
1 AGTCAAAATAGATCCGAAAAACTGTT-GAATTGAATT
* **
41901324 AGTCAGAATAGATCCGAAAGGCTGTTGAATTGAAT
1 AGTCAAAATAGATCCGAAAAACTGTTGAATTGAAT
41901359 AGAGTTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (36 bp):
AGTCAAAATAGATCCGAAAAACTGTTGAATTGAATT
Found at i:41903394 original size:18 final size:20
Alignment explanation
Indices: 41903371--41903415 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
41903361 ATAGTTTAAC
41903371 ATTTAATTAAA-CCTAATT-
1 ATTTAATTAAATCCTAATTA
* *
41903389 ATTTAACTAAATCTTAATTA
1 ATTTAATTAAATCCTAATTA
41903409 ATTTAAT
1 ATTTAAT
41903416 ATTAAGCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATTAAATCCTAATTA
Found at i:41905363 original size:20 final size:19
Alignment explanation
Indices: 41905340--41905396 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
41905330 AAAAATATAA
41905340 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTATAAAT
*
41905360 ATTTTGATTTTTTATAAAT
1 ATTTTGAATTTTTATAAAT
*
41905379 ATATTGAATTTTTA-AAAT
1 ATTTTGAATTTTTATAAAT
41905397 TTATTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 4 0.12
19 24 0.71
20 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Found at i:41905373 original size:19 final size:19
Alignment explanation
Indices: 41905335--41905401 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
41905325 TTAAAAAAAA
41905335 TATAAAT-T-TTGAAATTTT
1 TATAAATATATTG-AATTTT
* *
41905353 TATAAATATTTTGATTTTT
1 TATAAATATATTGAATTTT
41905372 TATAAATATATTGAATTTT
1 TATAAATATATTGAATTTT
*
41905391 TA-AAATTTATT
1 TATAAATATATT
41905402 TCAAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.35
19 25 0.58
20 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TATAAATATATTGAATTTT
Found at i:41909340 original size:38 final size:38
Alignment explanation
Indices: 41909298--41909375 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
41909288 AACTACAGGG
41909298 AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
1 AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
*
41909336 AATTACAAGCTGAACAGTAAGTTACTAACTATAAAACT
1 AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
41909374 AA
1 AA
41909376 CTGCAAAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (38 bp):
AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
Found at i:41913084 original size:26 final size:26
Alignment explanation
Indices: 41913025--41913077 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
41913015 TGAATTTTCA
* * *
41913025 TCAAATAAAGAAAGTGAGAATTATAT
1 TCAAAAAAAGAAAGTGAGAATCAAAT
*
41913051 TCAAAAAAAGAAAGTGATAATCAAAT
1 TCAAAAAAAGAAAGTGAGAATCAAAT
41913077 T
1 T
41913078 AACAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.25
Consensus pattern (26 bp):
TCAAAAAAAGAAAGTGAGAATCAAAT
Found at i:41914008 original size:27 final size:28
Alignment explanation
Indices: 41913970--41914501 Score: 220
Period size: 28 Copynumber: 19.2 Consensus size: 28
41913960 TCAGTAGAAA
* * *
41913970 GGTACCTTTAGGAGTTGTGCTGT-GATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
*
41913997 GGTACCATTAGGAGTAGTACCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * *
41914025 GGAACCATTAGGAGTTATACCAT-GAAG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * * * * **
41914052 GATACTAGTAAGAGTTATACCGTAGAAA
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * *
41914080 GATACCTTTAAGAGTTGTATCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * *
41914108 AGTACCA-TAGGAGTCGTACCATGGAGG
1 GGTACCATTAGGAGTTGTACCGTGGATG
*** *
41914135 GGTACCATTAGGAGCCATACCATGGAT-
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * ****
41914162 GATACCTTTAAGAGTTGTGTAATGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* *
41914190 GGTGCCATTAGGAGTTGTACCGTAGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
** * **
41914218 CATACCTTTAGGAGTCATACCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* **** * *
41914246 GGTACC-TATACGAACCATGCCATGGATG
1 GGTACCAT-TAGGAGTTGTACCGTGGATG
* ** * * *
41914274 GATACCATTATGG-GTCATACCATAGATA
1 GGTACCATTA-GGAGTTGTACCGTGGATG
* * ** * *
41914302 GGTACCTTTAGGAGTCGTGTCGTAGACG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * * *
41914330 GATACAACTAGGAGTTGTACCATGGAGG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * **
41914358 GGAACCATTAGGAGTTTTATTGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * *
41914386 GCTACTATTAGGAGTCATGT--TGTGGAT-
1 GGTACCATTAGGAGT--TGTACCGTGGATG
* * * *
41914413 GGTACCGTTAGGAGTCGTACCATGGATA
1 GGTACCATTAGGAGTTGTACCGTGGATG
* *
41914441 GGTACCTTTCA-GAGTTGTATCGTGGATG
1 GGTACCATT-AGGAGTTGTACCGTGGATG
* *
41914469 GATACCATTAGGAGTTGTATCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
41914497 GGTAC
1 GGTAC
41914502 TATAACACCC
Statistics
Matches: 370, Mismatches: 120, Indels: 29
0.71 0.23 0.06
Matches are distributed among these distances:
25 2 0.01
27 99 0.27
28 264 0.71
29 3 0.01
30 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (28 bp):
GGTACCATTAGGAGTTGTACCGTGGATG
Found at i:41914231 original size:83 final size:82
Alignment explanation
Indices: 41914080--41914245 Score: 197
Period size: 83 Copynumber: 2.0 Consensus size: 82
41914070 ACCGTAGAAA
** * **
41914080 GATACCTTTAAGAGTTGTATCGTGGATGAGTACCATAGGAGTCGTACCATGGAGGGGTACCATTA
1 GATACCTTTAAGAGTTGTATAATGGATGAGTACCATAGGAGTCGTACCATAGAGGCATACCATTA
41914145 GGAGCCATACCATGGAT
66 GGAGCCATACCATGGAT
* * * * * * *
41914162 GATACCTTTAAGAGTTGTGTAATGGATGGGTGCCATTAGGAGTTGTACCGTAGATGCATACCTTT
1 GATACCTTTAAGAGTTGTATAATGGATGAGTACCA-TAGGAGTCGTACCATAGAGGCATACCATT
* *
41914227 AGGAGTCATACCGTGGAT
65 AGGAGCCATACCATGGAT
41914245 G
1 G
41914246 GGTACCTATA
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
82 30 0.43
83 39 0.57
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (82 bp):
GATACCTTTAAGAGTTGTATAATGGATGAGTACCATAGGAGTCGTACCATAGAGGCATACCATTA
GGAGCCATACCATGGAT
Found at i:41914494 original size:83 final size:82
Alignment explanation
Indices: 41914338--41914497 Score: 189
Period size: 83 Copynumber: 1.9 Consensus size: 82
41914328 CGGATACAAC
* * * * * *
41914338 TAGGAGTTGTACCATGGAGGGGAACCATTAGGAGTTTTATTGTGGATGGCTACTATTAGGAGTCA
1 TAGGAGTCGTACCATGGAGAGGAACCATTAGGAGTTGTATCGTGGATGGATACCATTAGGAGT-A
41914403 TGTTGTGGATGGTACCGT
65 TGTTGTGGATGGTACCGT
* * *
41914421 TAGGAGTCGTACCATGGATAGGTACCTTTCA-GAGTTGTATCGTGGATGGATACCATTAGGAGT-
1 TAGGAGTCGTACCATGGAGAGGAACCATT-AGGAGTTGTATCGTGGATGGATACCATTAGGAGTA
41914484 TGTATCGTGGATGG
65 TGT-T-GTGGATGG
41914498 GTACTATAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
81 3 0.05
82 1 0.02
83 60 0.92
84 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.32
Consensus pattern (82 bp):
TAGGAGTCGTACCATGGAGAGGAACCATTAGGAGTTGTATCGTGGATGGATACCATTAGGAGTAT
GTTGTGGATGGTACCGT
Found at i:41914877 original size:81 final size:81
Alignment explanation
Indices: 41914709--41914930 Score: 313
Period size: 81 Copynumber: 2.8 Consensus size: 81
41914699 ACGAATTATG
* * * * *
41914709 ACCAAATTGAAAAGTTCTAAAAATTCAGGATCAA-ATCGTGACATCATCTCTCTCTGGTTGGATG
1 ACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCTTTCGTTGGATG
* * *
41914773 ACGCACCCCTCATTTG
66 ACACACCCCTCACTTA
*
41914789 ACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCATGACGTCATCTCTCTTTCGTTGGAT-
1 ACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCTTTCGTTGGATG
*
41914853 ATCACACTCCTCACTTA
66 A-CACACCCCTCACTTA
* *
41914870 ACCAAATTGCAAATTTTTAAAAATTCAAGATCAATATCGTGACGTCATCTCTCTTTCGTTG
1 ACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCTTTCGTTG
41914931 TCGCACTCCT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 33 0.26
81 94 0.74
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (81 bp):
ACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCTTTCGTTGGATG
ACACACCCCTCACTTA
Found at i:41916814 original size:29 final size:29
Alignment explanation
Indices: 41916772--41916828 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
41916762 AACACCAAAC
41916772 AAGTTGATTCTTCAGGGACTAATCGACAT
1 AAGTTGATTCTTCAGGGACTAATCGACAT
*
41916801 AAGTTGATTCTTCAGGGACTAATTGACA
1 AAGTTGATTCTTCAGGGACTAATCGACA
41916829 ATTTTAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (29 bp):
AAGTTGATTCTTCAGGGACTAATCGACAT
Found at i:41916948 original size:150 final size:149
Alignment explanation
Indices: 41916718--41917164 Score: 704
Period size: 150 Copynumber: 3.0 Consensus size: 149
41916708 ATCAAATACA
*
41916718 TAACAACCTAAATAAATAAATACCATATGAACTTACCTGATCAAAACACCAAACAAGTTGATTCT
1 TAACAA-CTAAATAAATAAATACCATATGAACTTACCTGAACAAAACACCAAACAAGTTGATTCT
41916783 TCAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAAT
65 TCAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAAT
41916848 TACCTCCGTTTTGATCCAAT
130 TACCTCCGTTTTGATCCAAT
* *
41916868 TAACAATCTAAATAAATAAATACCATATGAACTTACTTGAACAAAAAACCAAACAAGTTGATTCT
1 TAACAA-CTAAATAAATAAATACCATATGAACTTACCTGAACAAAACACCAAACAAGTTGATTCT
* * *
41916933 TCAGGGACTAATCGACATAAGTTGATTATTAAGGGACTAATTGACAATTTTAGCTTTTCTTCAGT
65 TCAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAAT
41916998 TACCTCCGTTTTGATCCAAT
130 TACCTCCGTTTTGATCCAAT
**
41917018 TAAC-AC--CCTAAATAAATACCATATGAACTTACCT-AATCAAAACACCAAACAAGTTGATTCT
1 TAACAACTAAATAAATAAATACCATATGAACTTACCTGAA-CAAAACACCAAACAAGTTGATTCT
* * * * * *
41917079 TCGGGGACTAAACGACACAAGTTAATTCTTCAGGGACTAATCGACAATTTTAGCTTTTCTTTAAT
65 TCAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAAT
*
41917144 TACCTCCATTTTGATCCAAT
130 TACCTCCGTTTTGATCCAAT
41917164 T
1 T
41917165 TTTGATCTAT
Statistics
Matches: 275, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
145 2 0.01
146 124 0.45
148 1 0.00
149 1 0.00
150 147 0.53
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (149 bp):
TAACAACTAAATAAATAAATACCATATGAACTTACCTGAACAAAACACCAAACAAGTTGATTCTT
CAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAATT
ACCTCCGTTTTGATCCAAT
Found at i:41916967 original size:29 final size:29
Alignment explanation
Indices: 41916922--41916978 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
41916912 AAAACCAAAC
* *
41916922 AAGTTGATTCTTCAGGGACTAATCGACAT
1 AAGTTGATTATTAAGGGACTAATCGACAT
*
41916951 AAGTTGATTATTAAGGGACTAATTGACA
1 AAGTTGATTATTAAGGGACTAATCGACA
41916979 ATTTTAGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (29 bp):
AAGTTGATTATTAAGGGACTAATCGACAT
Found at i:41917108 original size:29 final size:29
Alignment explanation
Indices: 41917066--41917124 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
41917056 AAAACACCAA
* *
41917066 ACAAGTTGATTCTTCGGGGACTAAACGAC
1 ACAAGTTAATTCTTCAGGGACTAAACGAC
*
41917095 ACAAGTTAATTCTTCAGGGACTAATCGAC
1 ACAAGTTAATTCTTCAGGGACTAAACGAC
41917124 A
1 A
41917125 ATTTTAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (29 bp):
ACAAGTTAATTCTTCAGGGACTAAACGAC
Found at i:41918796 original size:40 final size:40
Alignment explanation
Indices: 41918750--41918879 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
41918740 GACTAGCTCA
*
41918750 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCACG
* *
41918790 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
*
41918830 AATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCACG
*
41918869 AACGCCTTCGG
1 AATGCCTTCGG
41918880 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.36
40 39 0.48
41 9 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
Found at i:41926835 original size:40 final size:40
Alignment explanation
Indices: 41926789--41926918 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
41926779 GACTAGCTCA
*
41926789 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCACG
* *
41926829 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
*
41926869 AATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCACG
*
41926908 AACGCCTTCGG
1 AATGCCTTCGG
41926919 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.36
40 39 0.48
41 9 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
Found at i:41938178 original size:15 final size:13
Alignment explanation
Indices: 41938151--41938188 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
41938141 TTGTTATATA
41938151 TATATATAATTTT
1 TATATATAATTTT
41938164 TATATATAATTTT
1 TATATATAATTTT
41938177 T-T-TATAATTTT
1 TATATATAATTTT
41938188 T
1 T
41938189 GAGATGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 10 0.40
12 1 0.04
13 14 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATATATAATTTT
Found at i:41946137 original size:5 final size:5
Alignment explanation
Indices: 41946129--41946161 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
41946119 TCAACATTAG
41946129 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
41946162 TTGCCTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:41948158 original size:3 final size:3
Alignment explanation
Indices: 41948150--41948196 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
41948140 TCCTTTGTTG
41948150 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
41948197 GAGGTAAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:41948633 original size:31 final size:31
Alignment explanation
Indices: 41948598--41948664 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
41948588 TAATAGTTTG
*
41948598 GTGACATGAATAAAAATTTTCAAATAATTCA
1 GTGACATAAATAAAAATTTTCAAATAATTCA
* *
41948629 GTGACTTAAATGAAAATTTTCAAATAATTCA
1 GTGACATAAATAAAAATTTTCAAATAATTCA
*
41948660 CTGAC
1 GTGAC
41948665 TATTTTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (31 bp):
GTGACATAAATAAAAATTTTCAAATAATTCA
Found at i:41949338 original size:18 final size:20
Alignment explanation
Indices: 41949295--41949339 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
41949285 TTTATTCAAT
*
41949295 AATA-ATATTTTAATTTTTG
1 AATATATATTTTAATTTGTG
*
41949314 AATATATATTTTAATTTGTA
1 AATATATATTTTAATTTGTG
41949334 AATATA
1 AATATA
41949340 ATTATATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
AATATATATTTTAATTTGTG
Found at i:41958226 original size:11 final size:11
Alignment explanation
Indices: 41958210--41958234 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41958200 GTATATAAAG
41958210 CTTGTGAAGTA
1 CTTGTGAAGTA
41958221 CTTGTGAAGTA
1 CTTGTGAAGTA
41958232 CTT
1 CTT
41958235 TGTGTTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (11 bp):
CTTGTGAAGTA
Found at i:41958469 original size:42 final size:43
Alignment explanation
Indices: 41958410--41958496 Score: 158
Period size: 42 Copynumber: 2.0 Consensus size: 43
41958400 ACACATTGGG
*
41958410 ATTTAGATTTATATAAGCGTTTGGGTTAATGAT-AAAGGACAT
1 ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAAGGACAT
41958452 ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAAGGACAT
1 ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAAGGACAT
41958495 AT
1 AT
41958497 GTGTACTTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (43 bp):
ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAAGGACAT
Found at i:41960378 original size:68 final size:69
Alignment explanation
Indices: 41960300--41960432 Score: 223
Period size: 68 Copynumber: 1.9 Consensus size: 69
41960290 TAATATTATT
* *
41960300 TTAATATTAAATTTAATTTAATATTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
41960364 CATC
66 CATC
* *
41960368 TTAATATTAAATTTAATTTAATGTTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
41960433 TAAGTTTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 32 0.53
69 28 0.47
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (69 bp):
TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
CATC
Found at i:41962560 original size:30 final size:30
Alignment explanation
Indices: 41962524--41962683 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
41962514 GACAAGATTG
* * * * *
41962524 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
41962554 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
41962582 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
41962611 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
41962641 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
41962670 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41962684 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:41962651 original size:59 final size:57
Alignment explanation
Indices: 41962524--41962683 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
41962514 GACAAGATTG
* * * * * *
41962524 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
41962582 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
41962641 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
41962684 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:41975374 original size:46 final size:46
Alignment explanation
Indices: 41975324--41975496 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 46
41975314 TTGAGCATCT
41975324 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
41975370 GAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCC
41975417 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
41975462 TGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41975497 GCGGGTTATA
Statistics
Matches: 107, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 3 0.03
46 55 0.51
47 25 0.23
48 2 0.02
50 5 0.05
51 6 0.06
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:41975477 original size:93 final size:93
Alignment explanation
Indices: 41975318--41975487 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
41975308 GGATGGTTGA
41975318 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
41975383 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCAAGTTTGTGAGATGTAACTAG
*
41975411 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
41975475 TTGAGTCCAAGTT
65 TTGAGTCCAAGTT
41975488 CACTTATGGG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCAAGTTTGTGAGATGTAACTAG
Found at i:41976949 original size:16 final size:16
Alignment explanation
Indices: 41976928--41976958 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41976918 TTCACTATTA
*
41976928 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
41976944 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
41976959 GCATGTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:41980599 original size:46 final size:46
Alignment explanation
Indices: 41980465--41980687 Score: 245
Period size: 46 Copynumber: 4.9 Consensus size: 46
41980455 TAACATTCTA
*
41980465 TATTCTCCAGTCCACAACATATGCAGAAGCTGAGAA-CTAAAATCTG
1 TATTCTCCAATCCACAACATATGCAGAAGCTGAGAACCT-AAATCTG
* * *
41980511 TATT-TCC-ATCCCACAACATATGCAGAAGTTGAGAGCCGAAATCTG
1 TATTCTCCAAT-CCACAACATATGCAGAAGCTGAGAACCTAAATCTG
* * * *
41980556 TATTCTCCAGTCCGCAACATATGCTGAAGCTGGGAACCTAAATCTG
1 TATTCTCCAATCCACAACATATGCAGAAGCTGAGAACCTAAATCTG
* ** * **
41980602 TATTCTCCAATCCACAACATATGCAGGATATGAGAATCTAAATCCA
1 TATTCTCCAATCCACAACATATGCAGAAGCTGAGAACCTAAATCTG
* * * *
41980648 TATTCTCCAATTCGCAACATATGCAGGAGCTGGGAACCTA
1 TATTCTCCAATCCACAACATATGCAGAAGCTGAGAACCTA
41980688 GGCAAGAACA
Statistics
Matches: 146, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.01
45 37 0.25
46 107 0.73
47 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (46 bp):
TATTCTCCAATCCACAACATATGCAGAAGCTGAGAACCTAAATCTG
Found at i:41980664 original size:92 final size:91
Alignment explanation
Indices: 41980464--41980687 Score: 283
Period size: 92 Copynumber: 2.5 Consensus size: 91
41980454 TTAACATTCT
* *
41980464 ATATTCTCCAGTCCACAACATATGCAGAAGCTGAGAA-CTAAAATCTGTATTTCCATCCCACAAC
1 ATATTCTCCAGTCCGCAACATATGCAGAAGCTGGGAACCT-AAATCTGTATTTCCATCCCACAAC
* *
41980528 ATATGCAGAAGTTGAGAGCCGAAATCT
65 ATATGCAGAAGTTGAGAACCGAAATCC
* *
41980555 GTATTCTCCAGTCCGCAACATATGCTGAAGCTGGGAACCTAAATCTGTATTCTCCAAT-CCACAA
1 ATATTCTCCAGTCCGCAACATATGCAGAAGCTGGGAACCTAAATCTGTATT-TCC-ATCCCACAA
* * *
41980619 CATATGCAGGA-TATGAGAATCTAAATCC
64 CATATGCAGAAGT-TGAGAACCGAAATCC
* * *
41980647 ATATTCTCCAATTCGCAACATATGCAGGAGCTGGGAACCTA
1 ATATTCTCCAGTCCGCAACATATGCAGAAGCTGGGAACCTA
41980688 GGCAAGAACA
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
91 45 0.39
92 68 0.59
93 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (91 bp):
ATATTCTCCAGTCCGCAACATATGCAGAAGCTGGGAACCTAAATCTGTATTTCCATCCCACAACA
TATGCAGAAGTTGAGAACCGAAATCC
Found at i:41981555 original size:20 final size:19
Alignment explanation
Indices: 41981504--41981558 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
41981494 TTAACTTATT
*
41981504 AATTAATCTTAATTAGTTT
1 AATTAATCTTAATTAGTTA
*
41981523 AATAAATCATTAATTCA-TTAA
1 AATTAATC-TTAATT-AGTT-A
41981544 AATTAATCTTAATTA
1 AATTAATCTTAATTA
41981559 ACACTTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.27
20 14 0.47
21 8 0.27
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTAATCTTAATTAGTTA
Found at i:41983794 original size:30 final size:30
Alignment explanation
Indices: 41983753--41983814 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
41983743 GCTAGGATTC
* *
41983753 TTCAACTCTTTAACTAGTCATATTGAGAAG
1 TTCAACTCTTTAAATAGCCATATTGAGAAG
* *
41983783 TTCAGCTCTTTAAATGGCCATATTGAGAAG
1 TTCAACTCTTTAAATAGCCATATTGAGAAG
41983813 TT
1 TT
41983815 TAAAGTAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (30 bp):
TTCAACTCTTTAAATAGCCATATTGAGAAG
Found at i:41985087 original size:14 final size:14
Alignment explanation
Indices: 41985069--41985110 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
41985059 CTTTATTAAT
41985069 ATATTTTATTTGGG
1 ATATTTTATTTGGG
* *
41985083 TTATTTTATTTAGG
1 ATATTTTATTTGGG
41985097 ATATTTTATGTTGG
1 ATATTTTAT-TTGG
41985111 AAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (14 bp):
ATATTTTATTTGGG
Found at i:41989531 original size:29 final size:29
Alignment explanation
Indices: 41989497--41989552 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
41989487 TTCTGTCGAA
* *
41989497 GTCACATGACTGTGTGGCAGACTGTGTGG
1 GTCACATGACTATGTGGCAGACCGTGTGG
* *
41989526 GTCACATGGCTATGTGGTAGACCGTGT
1 GTCACATGACTATGTGGCAGACCGTGT
41989553 TGCAGACTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.29
Consensus pattern (29 bp):
GTCACATGACTATGTGGCAGACCGTGTGG
Found at i:41989591 original size:40 final size:41
Alignment explanation
Indices: 41989508--41989594 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
41989498 TCACATGACT
* * * *
41989508 GTGTGGCAGACTGTGTGGGTCACATGGCTATGTGGTAGACC
1 GTGTGGCAGACTGTGTGGGTCACACGGCCATGTGGCAAACC
* *
41989549 GTGTTGCAGACTGTGTGTGTCA-ACGGCCATGTGGCAAACC
1 GTGTGGCAGACTGTGTGGGTCACACGGCCATGTGGCAAACC
41989589 GTGTGG
1 GTGTGG
41989595 GTCACACGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 19 0.49
41 20 0.51
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.26
Consensus pattern (41 bp):
GTGTGGCAGACTGTGTGGGTCACACGGCCATGTGGCAAACC
Found at i:41989657 original size:24 final size:24
Alignment explanation
Indices: 41989602--41989659 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
41989592 TGGGTCACAC
41989602 GACCGTGTGGTAAGCAGTGTGGCA
1 GACCGTGTGGTAAGCAGTGTGGCA
* *
41989626 GCCCGTGTGGTAAGCCA-TGTGGTA
1 GACCGTGTGGTAAG-CAGTGTGGCA
*
41989650 GACTGTGTGG
1 GACCGTGTGG
41989660 GTCACATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.17, C:0.17, G:0.41, T:0.24
Consensus pattern (24 bp):
GACCGTGTGGTAAGCAGTGTGGCA
Found at i:41992427 original size:40 final size:40
Alignment explanation
Indices: 41992372--41992555 Score: 257
Period size: 40 Copynumber: 4.6 Consensus size: 40
41992362 CGGATGATAA
* *
41992372 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
41992412 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41992452 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
41992492 CCGGGCTAAGTCCCGATGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
41992532 CC-GGCTAAATCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41992556 GTTGGGGAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 21 0.16
40 110 0.83
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41999761 original size:39 final size:39
Alignment explanation
Indices: 41999714--41999896 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
41999704 AATGTTCGAG
41999714 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
41999753 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
41999792 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
41999831 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
41999871 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
41999897 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42003528 original size:40 final size:40
Alignment explanation
Indices: 42003473--42003650 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
42003463 CGGATGATAA
* *
42003473 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
42003513 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
42003553 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
42003593 CCAGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
42003633 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42003651 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 17 0.13
40 108 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42005521 original size:47 final size:47
Alignment explanation
Indices: 42005450--42005662 Score: 216
Period size: 47 Copynumber: 4.7 Consensus size: 47
42005440 GGTAAGGTAC
*
42005450 CGATGCAATGTCCTAGACACGGTCTTACACT-ATCTCATATCTCAAGT
1 CGATGCCATGTCCTAGACACGGTCTTACACTGA-CTCATATCTCAAGT
*
42005497 CGATGCCATGT-CTCAGACATGGTCTTACACTGACT-ATCATCTC--GT
1 CGATGCCATGTCCT-AGACACGGTCTTACACTGACTCAT-ATCTCAAGT
42005542 --A--CCATGTCCTAGACACGGTCTTACACTGACTCATATCTCAAGT
1 CGATGCCATGTCCTAGACACGGTCTTACACTGACTCATATCTCAAGT
* * **
42005585 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTTGTAGT
1 CGATGCCATGTCCTAGACACGGTCTTACACTGACTCAT-ATC-TCAAGT
* * *
42005633 TGATG-CATGTCGTAGACA-TGTCTTACACTG
1 CGATGCCATGTCCTAGACACGGTCTTACACTG
42005663 GCTTATGTCT
Statistics
Matches: 142, Mismatches: 11, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
41 31 0.22
42 4 0.03
43 3 0.02
45 3 0.02
46 17 0.12
47 75 0.53
48 9 0.06
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACACGGTCTTACACTGACTCATATCTCAAGT
Found at i:42005606 original size:88 final size:88
Alignment explanation
Indices: 42005457--42005626 Score: 315
Period size: 88 Copynumber: 1.9 Consensus size: 88
42005447 TACCGATGCA
*
42005457 ATGTCCTAGACACGGTCTTACACTATCTCATATCTCAAGTCGATGCCATGTCTCAGACATGGTCT
1 ATGTCCTAGACACGGTCTTACACTATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
42005522 TACACTGACTATCATCTCGTACC
66 TACACTGACTATCATCTCGTACC
42005545 ATGTCCTAGACACGGTCTTACACTGA-CTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 ATGTCCTAGACACGGTCTTACACT-ATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
42005609 TTACACTGACTATCATCT
65 TTACACTGACTATCATCT
42005627 TGTAGTTGAT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
88 79 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (88 bp):
ATGTCCTAGACACGGTCTTACACTATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
TACACTGACTATCATCTCGTACC
Found at i:42005727 original size:46 final size:47
Alignment explanation
Indices: 42005676--42005804 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 47
42005666 TATGTCTCGA
* *
42005676 GGCCGATGCATGTCCCAGACATGTCTTTCACTAGCCCTCGTCTTAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTC-TCATAAGT
* *
42005723 -GCCGATGCAATGTCCCATACATGGTCTTACACT-G-GCTCTCATAATGT
1 GGCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCCCTCTCATAA-GT
*
42005770 GGCCGATACATGTCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
42005805 TCACACACGA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
45 5 0.07
46 21 0.30
47 27 0.39
48 16 0.23
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCTCATAAGT
Found at i:42007336 original size:18 final size:18
Alignment explanation
Indices: 42007315--42007349 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42007305 CTAGTTTTGT
42007315 ATCTGAATCTGAGTATGC
1 ATCTGAATCTGAGTATGC
* *
42007333 ATCTGTATCTGATTATG
1 ATCTGAATCTGAGTATG
42007350 AAAATACATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (18 bp):
ATCTGAATCTGAGTATGC
Found at i:42007379 original size:24 final size:24
Alignment explanation
Indices: 42007346--42007401 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
42007336 TGTATCTGAT
*
42007346 TATGAAAATACATTTGATTTTGTA
1 TATGAAAATACATTTGAATTTGTA
* *
42007370 TATGAGAATATATTTGAATTTGTA
1 TATGAAAATACATTTGAATTTGTA
*
42007394 TTTGAAAA
1 TATGAAAA
42007402 AGTATCTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (24 bp):
TATGAAAATACATTTGAATTTGTA
Found at i:42007648 original size:19 final size:18
Alignment explanation
Indices: 42007606--42007655 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
42007596 TTTGGACTAA
*
42007606 GTTTTCAGATTTGGTTTT
1 GTTTTCAGTTTTGGTTTT
*
42007624 GATTTTCAGTTTTGTTATTT
1 G-TTTTCAGTTTTGGT-TTT
*
42007644 GTTTTAAGTTTT
1 GTTTTCAGTTTT
42007656 CTGCATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 22 0.81
20 4 0.15
ACGTcount: A:0.14, C:0.04, G:0.18, T:0.64
Consensus pattern (18 bp):
GTTTTCAGTTTTGGTTTT
Found at i:42008380 original size:28 final size:28
Alignment explanation
Indices: 42008335--42008391 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
42008325 GAAGGCAAAT
*
42008335 ACAGTCTGGGCCTAAGCCCTTTTCAGTA
1 ACAGTCTGGGCCTAAGCCCATTTCAGTA
* * *
42008363 ACAGTTTGGGCTTTAGCCCATTTCAGTA
1 ACAGTCTGGGCCTAAGCCCATTTCAGTA
42008391 A
1 A
42008392 AGAGACAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCATTTCAGTA
Found at i:42009902 original size:22 final size:22
Alignment explanation
Indices: 42009877--42009918 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
42009867 AATCCTTACT
42009877 CCTTAAT-TTCCTCACCAAAATC
1 CCTTAATCTT-CTCACCAAAATC
*
42009899 CCTTAATCTTCTCCCCAAAA
1 CCTTAATCTTCTCACCAAAA
42009919 CCGTCCACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (22 bp):
CCTTAATCTTCTCACCAAAATC
Found at i:42012915 original size:40 final size:39
Alignment explanation
Indices: 42012751--42012933 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
42012741 AAATTGAATG
* * *
42012751 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42012791 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42012831 ACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42012870 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42012909 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42012934 CTTGGTACGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.31
40 71 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42025315 original size:22 final size:22
Alignment explanation
Indices: 42025269--42025352 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
42025259 TCAGATCATA
*
42025269 AGAGCTTACTGTTCTCAGGTCGTC
1 AGAGCTTACTG-T-TCAGCTCGTC
*
42025293 AGAGCTTACTGTTCAGCTTGTC
1 AGAGCTTACTGTTCAGCTCGTC
* * **
42025315 AGAGCTTACTATTTCAACTCAAC
1 AGAGCTTACT-GTTCAGCTCGTC
42025338 AGAGCTTACTGTTCA
1 AGAGCTTACTGTTCA
42025353 TCAGCTCAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
22 22 0.43
23 18 0.35
24 11 0.22
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCGTC
Found at i:42038667 original size:32 final size:32
Alignment explanation
Indices: 42038631--42038695 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
42038621 CTAGCTGTTG
42038631 TGTTGCTCGGTCTCAGATTCTATACACTCTCT
1 TGTTGCTCGGTCTCAGATTCTATACACTCTCT
42038663 TGTTGCTCGGTCTCAGATTCTATACACTCTCT
1 TGTTGCTCGGTCTCAGATTCTATACACTCTCT
42038695 T
1 T
42038696 ACTCAACAGG
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:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (32 bp):
TGTTGCTCGGTCTCAGATTCTATACACTCTCT
Found at i:42049910 original size:29 final size:28
Alignment explanation
Indices: 42049876--42049978 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
42049866 TACTCAATCA
*
42049876 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
42049905 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
42049934 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
42049963 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
42049979 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:42055411 original size:18 final size:18
Alignment explanation
Indices: 42055388--42055431 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
42055378 GTATACATGA
42055388 AAGTATATGTGGTATGTG
1 AAGTATATGTGGTATGTG
42055406 AAGTATATGTGGTATGTG
1 AAGTATATGTGGTATGTG
42055424 AAGTATAT
1 AAGTATAT
42055432 TTGGATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.39
Consensus pattern (18 bp):
AAGTATATGTGGTATGTG
Found at i:42055538 original size:46 final size:47
Alignment explanation
Indices: 42055485--42055771 Score: 380
Period size: 47 Copynumber: 6.1 Consensus size: 47
42055475 TTAGGATTTT
** * * *
42055485 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCG-ATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42055531 ATGTGATGAATGTGAACCTGTAAATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* *
42055582 ATGTGATGAATGTGAACATGCGTAT-GGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
42055628 ATGTGATGACTGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
42055675 ATGTGATGAATGTGAACATGCATATATGGGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
42055722 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
42055769 ATG
1 ATG
42055772 CGAAATGTGT
Statistics
Matches: 216, Mismatches: 19, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
46 62 0.29
47 109 0.50
48 6 0.03
49 3 0.01
50 11 0.05
51 25 0.12
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:42055634 original size:22 final size:22
Alignment explanation
Indices: 42055562--42055634 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
42055552 AAATATATGC
42055562 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* * **
42055584 GTGATGAATG-TGAACAT-GCGTAT
1 GTGAT-AAGGCCG-A-ATGGCCAAT
42055607 GGTGATAAGGCCGAATGGCCAAT
1 -GTGATAAGGCCGAATGGCCAAT
42055630 GTGAT
1 GTGAT
42055635 GACTGTGAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
22 13 0.35
23 16 0.43
24 8 0.22
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (22 bp):
GTGATAAGGCCGAATGGCCAAT
Found at i:42055726 original size:140 final size:143
Alignment explanation
Indices: 42055514--42055771 Score: 398
Period size: 140 Copynumber: 1.8 Consensus size: 143
42055504 GTATATATGA
*
42055514 GATAAGGCCGATGGCAAATGTGATGAATGTGAACCTGTAAATATATGCGTGATAAGGCCGAATGG
1 GATAAGGCCGATGGCAAATGTGATGAATGTGAACATG-AAATATATGCGTGATAAGGCCGAATGG
*
42055579 CCAATGTGATGAATGTGAACATGCGTAT-GGTGATAAGGCCGAATGGCCAATGTGATGACTGTGA
65 CCAATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCAATGTGATGACTGTGA
42055643 ACATGCGTATGTGT
130 ACATGCGTATGTGT
* *
42055657 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-CATATATG-G-GATAAGGCCGAATGG
1 GATAAGGCCG-ATGGCAAATGTGATGAATGTGAACATGAAATATATGCGTGATAAGGCCGAATGG
* * * *
42055719 CCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATG
65 CCAATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCAATG
42055772 CGAAATGTGT
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
140 41 0.39
141 22 0.21
142 7 0.07
143 10 0.10
144 25 0.24
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.25
Consensus pattern (143 bp):
GATAAGGCCGATGGCAAATGTGATGAATGTGAACATGAAATATATGCGTGATAAGGCCGAATGGC
CAATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCAATGTGATGACTGTGAA
CATGCGTATGTGT
Found at i:42055881 original size:46 final size:46
Alignment explanation
Indices: 42055745--42055881 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
42055735 GAACATGTAT
* *
42055745 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
42055791 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
42055837 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
42055882 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:42057423 original size:40 final size:40
Alignment explanation
Indices: 42057368--42057538 Score: 315
Period size: 40 Copynumber: 4.3 Consensus size: 40
42057358 ATTGAGAGTT
*
42057368 ATATATCCAGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
42057408 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
42057448 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
42057488 ATATATCCGGGCTAAGTTCCAAAGAGCAATCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
42057528 ATATATCCGGG
1 ATATATCCGGG
42057539 TTAAACCTCG
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:42057551 original size:80 final size:80
Alignment explanation
Indices: 42057368--42057563 Score: 288
Period size: 80 Copynumber: 2.5 Consensus size: 80
42057358 ATTGAGAGTT
* ** *
42057368 ATATATCCAGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGA
1 ATATATCCGGGCTAACCTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGA
*
42057433 GCATTCGTGCTAGTG
66 GCAATCGTGCTAGTG
**
42057448 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGA
1 ATATATCCGGGCTAACCTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGA
42057513 GCAATCGTGCTAGTG
66 GCAATCGTGCTAGTG
* *
42057528 ATATATCCGGGTTAAACCT-CGAAG-GCATTCATGCTA
1 ATATATCCGGGCT-AACCTCCGAAGAGCATTCGTGCTA
42057564 TAATTATGAG
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
79 11 0.10
80 94 0.87
81 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (80 bp):
ATATATCCGGGCTAACCTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGA
GCAATCGTGCTAGTG
Found at i:42057660 original size:57 final size:57
Alignment explanation
Indices: 42057570--42057695 Score: 150
Period size: 57 Copynumber: 2.2 Consensus size: 57
42057560 GCTATAATTA
*
42057570 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGTAGT
* ** * * *
42057627 TGAGGCACTAG-GTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACT-GTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGT-AGT
42057684 TG-GGCACTGTGT
1 TGAGGCACTGTGT
42057696 ATGTGAAGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
55 1 0.02
56 8 0.14
57 47 0.80
58 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGTAGT
Found at i:42061276 original size:47 final size:47
Alignment explanation
Indices: 42061222--42061604 Score: 532
Period size: 47 Copynumber: 8.1 Consensus size: 47
42061212 TTAGGATTTT
** * * *
42061222 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42061269 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* * * *
42061320 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATTGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
42061367 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42061414 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42061461 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
42061508 ATGTGATGAATGAGAACATGCATATATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
42061555 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
42061602 ATG
1 ATG
42061605 CGAAATGTGT
Statistics
Matches: 307, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
47 259 0.84
49 11 0.04
51 37 0.12
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:42061714 original size:46 final size:46
Alignment explanation
Indices: 42061578--42061714 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
42061568 GAACATGTAT
* *
42061578 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
42061624 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
42061670 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
42061715 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:42065039 original size:27 final size:25
Alignment explanation
Indices: 42065007--42065065 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
42064997 GTTAACACTT
42065007 TGAAATGACTATATGAATCGGTTATA
1 TGAAATGACTATATGAAT-GGTTATA
* * *
42065033 TGGAAATAATTATATGAATTGTTATA
1 T-GAAATGACTATATGAATGGTTATA
42065059 TGAAATG
1 TGAAATG
42065066 TTTACATGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.18
26 8 0.29
27 15 0.54
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (25 bp):
TGAAATGACTATATGAATGGTTATA
Found at i:42078261 original size:40 final size:39
Alignment explanation
Indices: 42078206--42078394 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 39
42078196 GGATTTAACC
* * *
42078206 GGATATAGCTACTCGCTCAAATGCCTTCGGAACTTAGCTT
1 GGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCT
*
42078246 GGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCT
* *
42078286 AGATATAGTAACTCGCACAAATGGCTTCGGGACTTAGCCT
1 GGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCT
* * *
42078326 -GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCT
*
42078366 GGA-ATTAGTCACTAGCACAAATGCCTTCG
1 GGATA-TAGT-ACTCGCACAAATGCCTTCG
42078395 TTATCATCCG
Statistics
Matches: 133, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 5 0.04
40 125 0.94
41 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (39 bp):
GGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCT
Found at i:42086027 original size:39 final size:40
Alignment explanation
Indices: 42085902--42086127 Score: 329
Period size: 40 Copynumber: 5.7 Consensus size: 40
42085892 TGGGATTTAA
*
42085902 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
42085942 CCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
42085982 CC-GATATAGTAACT-GCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
42086020 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42086060 CCGGA-ATTAGTCACTAGCACAAATG-CTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42086099 CCGGA-ATTAGTCACTAGCACAAATGCCTT
1 CCGGATA-TAGTAACTCGCACAAATGCCTT
42086128 GTTATCATCC
Statistics
Matches: 176, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
38 26 0.15
39 64 0.36
40 86 0.49
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42086050 original size:78 final size:80
Alignment explanation
Indices: 42085921--42086127 Score: 325
Period size: 78 Copynumber: 2.6 Consensus size: 80
42085911 GCTACTCGCT
*
42085921 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC-G
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
42085985 -ATATAGTAACT-GCA
66 AAT-TAGTAACTAGCA
42085999 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
42086064 AATTAGTCACTAGCA
66 AATTAGTAACTAGCA
* *
42086079 CAAATG-CTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTT
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTT
42086128 GTTATCATCC
Statistics
Matches: 121, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
78 63 0.52
79 47 0.39
80 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTAGCA
Found at i:42092365 original size:40 final size:40
Alignment explanation
Indices: 42092306--42092447 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
42092296 AAATTGAATG
* * *
42092306 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
42092346 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
42092386 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
42092426 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
42092448 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:42092448 original size:40 final size:39
Alignment explanation
Indices: 42092345--42092473 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
42092335 TGCTGGAAAT
* * *
42092345 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
42092385 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
42092425 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
42092465 TATATCCGG
1 TATATCCGG
42092474 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:42096860 original size:54 final size:53
Alignment explanation
Indices: 42096792--42096971 Score: 184
Period size: 54 Copynumber: 3.3 Consensus size: 53
42096782 CATCAAATAG
* * *
42096792 GGGCTAAACAGTCATTTTGACACATAAGGTTAAAACCATCAATTTAACGCATAA
1 GGGCAAAATAGTCATTTTGACACATAAGG-TAAAACCATCAATTTAACACATAA
* * *
42096846 GGGCAAACTAGTCATTTT-ACCACATAAAGGCAAAATCATCAATTTAACACATAA
1 GGGCAAAATAGTCATTTTGA-CACAT-AAGGTAAAACCATCAATTTAACACATAA
* * ** *
42096900 GGGCAAAATAGTTATTTTGCCACATAATGGCT-AAACTGTCAGTTTAACACATAA
1 GGGCAAAATAGTCATTTTGACACATAA-GG-TAAAACCATCAATTTAACACATAA
* *
42096954 GGGTAAAATAGGCATTTT
1 GGGCAAAATAGTCATTTT
42096972 ACCCTATAGG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
53 3 0.03
54 97 0.93
55 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (53 bp):
GGGCAAAATAGTCATTTTGACACATAAGGTAAAACCATCAATTTAACACATAA
Found at i:42096864 original size:27 final size:27
Alignment explanation
Indices: 42096792--42096972 Score: 134
Period size: 27 Copynumber: 6.7 Consensus size: 27
42096782 CATCAAATAG
* * *
42096792 GGGCTAAACAGTCATTTTGACACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
** * * *
42096819 GGTTAAAACCA-TCAATTTAACGCATAA
1 GGGCAAAA-TAGTCATTTTAACACATAA
* *
42096846 GGGCAAACTAGTCATTTTACCACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
* *
42096873 AGGCAAAATCA-TCAATTTAACACATAA
1 GGGCAAAAT-AGTCATTTTAACACATAA
* **
42096900 GGGCAAAATAGTTATTTTGCCACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
* * *
42096927 TGGCTAAACT-GTCAGTTTAACACATAA
1 GGGC-AAAATAGTCATTTTAACACATAA
* *
42096954 GGGTAAAATAGGCATTTTA
1 GGGCAAAATAGTCATTTTA
42096973 CCCTATAGGG
Statistics
Matches: 115, Mismatches: 33, Indels: 12
0.72 0.21 0.08
Matches are distributed among these distances:
26 6 0.05
27 102 0.89
28 7 0.06
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTAACACATAA
Found at i:42097280 original size:20 final size:20
Alignment explanation
Indices: 42097257--42097343 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
42097247 TGGGCCTACG
*
42097257 TGGCCCAGTTTGGCCTAGAA
1 TGGCCCAGTTCGGCCTAGAA
* *
42097277 TGGCCCAATTTGGCCTAGAA
1 TGGCCCAGTTCGGCCTAGAA
42097297 TGGCCCAGTTCGGCCTAGAA
1 TGGCCCAGTTCGGCCTAGAA
* * *
42097317 TGTCCTAGTTCGGCCCAGAA
1 TGGCCCAGTTCGGCCTAGAA
42097337 TGGCCCA
1 TGGCCCA
42097344 AAATCGTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.23
Consensus pattern (20 bp):
TGGCCCAGTTCGGCCTAGAA
Found at i:42097495 original size:16 final size:16
Alignment explanation
Indices: 42097457--42097495 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
42097447 TCGACAACCC
42097457 ACTTTTCGGCTTTCCA
1 ACTTTTCGGCTTTCCA
* *
42097473 ACCTTTCGGCTTTTCA
1 ACTTTTCGGCTTTCCA
*
42097489 GCTTTTC
1 ACTTTTC
42097496 AGCCTTTGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.10, C:0.31, G:0.13, T:0.46
Consensus pattern (16 bp):
ACTTTTCGGCTTTCCA
Found at i:42098538 original size:10 final size:10
Alignment explanation
Indices: 42098523--42098548 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42098513 CGGCTAACAA
42098523 CAAACTTATT
1 CAAACTTATT
42098533 CAAACTTATT
1 CAAACTTATT
42098543 CAAACT
1 CAAACT
42098549 CTTGGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAACTTATT
Found at i:42099833 original size:38 final size:38
Alignment explanation
Indices: 42099733--42099836 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 38
42099723 TGATGTATGC
42099733 CTACTGTTACTGTTGAACCAAATACATGATAAACATAT
1 CTACTGTTACTGTTGAACCAAATACATGATAAACATAT
* ** *** *
42099771 CTATTGTTACCATTGAATTGAATACATGATAAACATGT
1 CTACTGTTACTGTTGAACCAAATACATGATAAACATAT
*
42099809 CTACTGTTACTGTTGAGCCAAATACATG
1 CTACTGTTACTGTTGAACCAAATACATG
42099837 TGTAACACCC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (38 bp):
CTACTGTTACTGTTGAACCAAATACATGATAAACATAT
Found at i:42102077 original size:16 final size:16
Alignment explanation
Indices: 42102056--42102093 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
42102046 TATTTGAGAG
42102056 TTGATTAAGTGGTAAA
1 TTGATTAAGTGGTAAA
*
42102072 TTGATTAAGTGGTAAC
1 TTGATTAAGTGGTAAA
42102088 TTGATT
1 TTGATT
42102094 TAGTTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.42
Consensus pattern (16 bp):
TTGATTAAGTGGTAAA
Found at i:42107319 original size:43 final size:43
Alignment explanation
Indices: 42107224--42107346 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
42107214 ACCGAGATGT
* * * * *
42107224 GATTACATGTAAGACCATTTTTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
* *
42107267 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGA
* * * *
42107310 GATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
42107347 ATATATATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 64 0.96
44 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
Found at i:42108838 original size:28 final size:28
Alignment explanation
Indices: 42108773--42108873 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42108763 ATAGTGAATC
*
42108773 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
42108802 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42108830 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
42108860 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42108874 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42116787 original size:28 final size:28
Alignment explanation
Indices: 42116722--42116822 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42116712 ATAGTGAATC
*
42116722 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
42116751 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42116779 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
42116809 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42116823 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42131787 original size:13 final size:13
Alignment explanation
Indices: 42131723--42131788 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
42131713 TTTAGAAATA
42131723 TTTATTTTATTA-T
1 TTTATTTT-TTATT
*
42131736 TTTATTTTTAATT
1 TTTATTTTTTATT
***
42131749 TTTATTCAAACTACTT
1 TTTATT--TTTTA-TT
42131765 TTTATTTTTTATT
1 TTTATTTTTTATT
42131778 TTTATTTTTTA
1 TTTATTTTTTA
42131789 GTAGATTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
12 2 0.05
13 28 0.68
14 2 0.05
15 1 0.02
16 8 0.20
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:42138054 original size:39 final size:40
Alignment explanation
Indices: 42138000--42138214 Score: 298
Period size: 39 Copynumber: 5.5 Consensus size: 40
42137990 AAACCAAGTA
* * * *
42138000 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
42138039 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42138078 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42138118 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42138157 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42138196 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42138215 TTATCATCCG
Statistics
Matches: 163, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
38 11 0.07
39 104 0.64
40 48 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42146112 original size:40 final size:40
Alignment explanation
Indices: 42146068--42146255 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
42146058 GCTACTTGCT
42146068 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
42146108 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42146148 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
42146188 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
42146227 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
42146256 CATCCGAAAT
Statistics
Matches: 140, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 104 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42146246 original size:119 final size:119
Alignment explanation
Indices: 42146035--42146255 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
42146025 AAACCAAGTA
* * * *
42146035 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
42146100 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
42146154 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
42146216 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
42146256 CATCCGAAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 1 0.01
119 62 0.67
120 29 0.32
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:42149168 original size:93 final size:93
Alignment explanation
Indices: 42149056--42149227 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42149046 CGCCCATAAG
* *
42149056 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42149121 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
42149149 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42149214 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42149228 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42149224 original size:46 final size:46
Alignment explanation
Indices: 42149049--42149224 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42149039 TGTAACCCGC
* * *
42149049 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42149095 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42149145 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
42149188 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42149225 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42156730 original size:93 final size:93
Alignment explanation
Indices: 42156618--42156789 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42156608 CGCCCATAAG
* *
42156618 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42156683 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
42156711 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42156776 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42156790 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42156786 original size:46 final size:46
Alignment explanation
Indices: 42156611--42156786 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42156601 TGTAACCCGC
* * *
42156611 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42156657 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42156707 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
42156750 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42156787 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42160053 original size:40 final size:39
Alignment explanation
Indices: 42159988--42160151 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 39
42159978 CGGAATACAA
* *
42159988 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
42160028 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
42160068 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
42160108 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
42160148 CCGG
1 CCGG
42160152 GTATCATTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42160306 original size:64 final size:64
Alignment explanation
Indices: 42160238--42160426 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
42160228 GAACACAAAC
42160238 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
42160302 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
42160359 AC
63 AT
42160361 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
42160425 AT
1 AT
42160427 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:42160339 original size:123 final size:123
Alignment explanation
Indices: 42160120--42160458 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
42160110 GGATATAATT
* * * * * * *
42160120 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
42160185 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
42160243 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
42160308 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
42160366 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
42160431 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
42160459 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:42167386 original size:40 final size:39
Alignment explanation
Indices: 42167321--42167484 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 39
42167311 CGGAATACAA
* *
42167321 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
42167361 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
42167401 CCGGATATAGTCACTAGCA-AAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAA-TGCCTTCGGGTCTTAGC
* * * *
42167441 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
42167481 CCGG
1 CCGG
42167485 GTATCATTCA
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
39 4 0.04
40 97 0.92
41 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42167639 original size:64 final size:64
Alignment explanation
Indices: 42167571--42167759 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
42167561 GAACACAAAC
42167571 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
42167635 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
42167692 AC
63 AT
42167694 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
42167758 AT
1 AT
42167760 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:42167672 original size:123 final size:123
Alignment explanation
Indices: 42167453--42167791 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
42167443 GGATATAATT
* * * * * * *
42167453 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
42167518 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
42167576 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
42167641 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
42167699 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
42167764 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
42167792 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:42170258 original size:43 final size:41
Alignment explanation
Indices: 42170119--42170273 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 41
42170109 CATCCATTAT
* ** * * * *
42170119 GAACTCGGACCACTCAACGAGCTCAAATGCTCTCATCCATAAT
1 GAACTCGGACCACTCAACGAGTTCGGATGC-CACAT-AATCAC
*
42170162 GAACTCGGACCACTCAACGAGCTT-GGATGCCATATAATCAC
1 GAACTCGGACCACTCAACGAG-TTCGGATGCCACATAATCAC
* * * *
42170203 AAACTTGGACCACTCAACAAGTTCGGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGTTCGGATGC-CACATA-ATCAC
*
42170246 GAACTCGGACCACTCAACGAGCTCGGAT
1 GAACTCGGACCACTCAACGAGTTCGGAT
42170274 ATCTTAATTC
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.02
41 26 0.29
42 8 0.09
43 54 0.59
44 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (41 bp):
GAACTCGGACCACTCAACGAGTTCGGATGCCACATAATCAC
Found at i:42178895 original size:2 final size:2
Alignment explanation
Indices: 42178888--42178916 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42178878 GAGACTAGTC
42178888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42178917 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42178988 original size:16 final size:15
Alignment explanation
Indices: 42178962--42179004 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
42178952 TTGTAAACAC
42178962 ATATCATATTTCATT
1 ATATCATATTTCATT
42178977 ATATCAATATTTCA-T
1 ATATC-ATATTTCATT
*
42178992 ATACCATAGTTTC
1 ATATCATA-TTTC
42179005 CATGTATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 14 0.56
16 8 0.32
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (15 bp):
ATATCATATTTCATT
Found at i:42180180 original size:67 final size:65
Alignment explanation
Indices: 42179992--42180253 Score: 193
Period size: 68 Copynumber: 4.0 Consensus size: 65
42179982 ATATAGTTCG
* * * *
42179992 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CA-ATTTAT-CTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCACATATATCCT-G
42180053 TA
64 TA
* * * * *
42180055 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCT-ACATATATCCT
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTCACATATATCCT
42180119 GTA
63 GTA
* * *
42180122 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATATTGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCT-CA-CATA-TATCCT
*
42180187 TTA
63 GTA
* * * *
42180190 GCTCTCTTGTAC-ACA-GGATGTGCAC-TCAGCACCATCCATGTGACCTAGCT-ACATACTAT-C
1 GCTCTCTTGT-CTACATGG-TGTACACAT-AGTACCACCCATGCGACCTAGCTCACATA-TATCC
42180250 TGTA
62 TGTA
42180254 TCATCCAATC
Statistics
Matches: 159, Mismatches: 26, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 18 0.11
64 27 0.17
65 6 0.04
66 25 0.16
67 35 0.22
68 46 0.29
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCACATATATCCTGTA
Found at i:42182147 original size:15 final size:15
Alignment explanation
Indices: 42182127--42182157 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42182117 GTATAATGAT
42182127 ACTCTAGAAGAAGGA
1 ACTCTAGAAGAAGGA
42182142 ACTCTAGAAGAAGGA
1 ACTCTAGAAGAAGGA
42182157 A
1 A
42182158 GAAGAGAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.26, T:0.13
Consensus pattern (15 bp):
ACTCTAGAAGAAGGA
Found at i:42182702 original size:20 final size:20
Alignment explanation
Indices: 42182677--42182716 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
42182667 TGATAAAATA
*
42182677 AAGATTATTTATCATCCATC
1 AAGATTATTTAGCATCCATC
42182697 AAGATTATTTAGCATCCATC
1 AAGATTATTTAGCATCCATC
42182717 CATTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (20 bp):
AAGATTATTTAGCATCCATC
Found at i:42185571 original size:17 final size:18
Alignment explanation
Indices: 42185538--42185571 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42185528 TGGGCCGGAC
*
42185538 TGGGCTATGTGGGCCCAA
1 TGGGCTATGTAGGCCCAA
42185556 TGGGCT-TGTAGGCCCA
1 TGGGCTATGTAGGCCCA
42185572 CACGGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.24, G:0.38, T:0.24
Consensus pattern (18 bp):
TGGGCTATGTAGGCCCAA
Found at i:42185806 original size:17 final size:18
Alignment explanation
Indices: 42185774--42185809 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42185764 GATGGGTCAA
*
42185774 AATGGGCCTTGTGGGCCC
1 AATGGGCCTCGTGGGCCC
42185792 AATGGG-CTCGTGGGCCC
1 AATGGGCCTCGTGGGCCC
42185809 A
1 A
42185810 CACGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.14, C:0.28, G:0.39, T:0.19
Consensus pattern (18 bp):
AATGGGCCTCGTGGGCCC
Found at i:42186054 original size:27 final size:27
Alignment explanation
Indices: 42186022--42186211 Score: 165
Period size: 27 Copynumber: 7.1 Consensus size: 27
42186012 TTAAGACCCT
42186022 GATTTGTAAAATTACTGAAATACCCCC
1 GATTTGTAAAATTACTGAAATACCCCC
* *
42186049 GATTTGTAAAATTACCGAAGTA-CCCC
1 GATTTGTAAAATTACTGAAATACCCCC
*
42186075 GATTTGTAAAATTACTGAAATACCCTC
1 GATTTGTAAAATTACTGAAATACCCCC
** * *
42186102 -AGTTTGTAAAATTACCAAAATACTCTC
1 GA-TTTGTAAAATTACTGAAATACCCCC
* * * * *
42186129 -AGTTATAAAATTACTAAAATATCCTC
1 GATTTGTAAAATTACTGAAATACCCCC
* * *
42186155 AATTTTTAAAATTA-TCGAAATA-CCCT
1 GATTTGTAAAATTACT-GAAATACCCCC
* *
42186181 TAGTTTATAAAATTACTGAAATACCCCC
1 GA-TTTGTAAAATTACTGAAATACCCCC
42186209 GAT
1 GAT
42186212 CGAAATACCC
Statistics
Matches: 134, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
26 49 0.37
27 80 0.60
28 5 0.04
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
GATTTGTAAAATTACTGAAATACCCCC
Found at i:42186108 original size:53 final size:53
Alignment explanation
Indices: 42186017--42186206 Score: 204
Period size: 53 Copynumber: 3.6 Consensus size: 53
42186007 GGTCGTTAAG
* * * *
42186017 ACCCTGATTTGTAAAATTACTGAAATACCC-CCGATTTGTAAAATTACCGAAGT
1 ACCCCGATTTATAAAATTACTGAAATACCCTCAG-TTTGTAAAATTACCGAAAT
* *
42186070 ACCCCGATTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCAAAAT
1 ACCCCGATTTATAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCGAAAT
* * * * * * *
42186123 ACTCTC-AGTTATAAAATTACTAAAATATCCTCAATTTTTAAAATTATCGAAAT
1 AC-CCCGATTTATAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCGAAAT
**
42186176 ACCCTTAGTTTATAAAATTACTGAAATACCC
1 ACCCCGA-TTTATAAAATTACTGAAATACCC
42186207 CCGATCGAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 90 0.78
54 24 0.21
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (53 bp):
ACCCCGATTTATAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCGAAAT
Found at i:42186258 original size:27 final size:27
Alignment explanation
Indices: 42186210--42186288 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
42186200 AATACCCCCG
*
42186210 ATCGAAATACCCCTGGT-TTGTAAAATT
1 ATCGAAATACCCCT-GTAGTGTAAAATT
* * *
42186237 ATTGAAATGCCCTTGTAGTGTAAAATT
1 ATCGAAATACCCCTGTAGTGTAAAATT
*
42186264 ATCGAAATACCCCTGTAGGGTAAAA
1 ATCGAAATACCCCTGTAGTGTAAAA
42186289 AGATTATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 41 0.95
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.30
Consensus pattern (27 bp):
ATCGAAATACCCCTGTAGTGTAAAATT
Found at i:42190391 original size:26 final size:26
Alignment explanation
Indices: 42190320--42190393 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
42190310 TTTCTCATCC
*
42190320 CAATTTTA-CTCTAGTAAAATTTTGA
1 CAATTTTACCACTAGTAAAATTTTGA
* *
42190345 CAATTTTACCATTCGGT-AAATTTTGA
1 CAATTTTACCACT-AGTAAAATTTTGA
** *
42190371 TGATTTTACCCCTAGTAAAATTT
1 CAATTTTACCACTAGTAAAATTT
42190394 CAAGAAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 10 0.26
26 26 0.68
27 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (26 bp):
CAATTTTACCACTAGTAAAATTTTGA
Found at i:42192034 original size:29 final size:29
Alignment explanation
Indices: 42191973--42192029 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
42191963 GTTCCCATCA
*
42191973 TTTCTTTTTGTTTTCCTTCCTATTTTTCT
1 TTTCTTTTTCTTTTCCTTCCTATTTTTCT
*
42192002 TTTCTTTTTCTTTT-TTTCCT-TTTTTCT
1 TTTCTTTTTCTTTTCCTTCCTATTTTTCT
42192029 T
1 T
42192030 GTTTCCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.31
28 5 0.19
29 13 0.50
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (29 bp):
TTTCTTTTTCTTTTCCTTCCTATTTTTCT
Found at i:42195438 original size:49 final size:49
Alignment explanation
Indices: 42195366--42195541 Score: 334
Period size: 49 Copynumber: 3.6 Consensus size: 49
42195356 GTATGAGATA
42195366 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
42195415 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
* *
42195464 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
42195513 TATATATGTGATAAGGCCTAATGGCCGAT
1 TATATATGTGATAAGGCCTAATGGCCGAT
42195542 ATGATAAGTC
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 125 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
Found at i:42201117 original size:40 final size:40
Alignment explanation
Indices: 42201033--42201217 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
42201023 TCGAATGATG
* *
42201033 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
42201072 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42201113 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
42201152 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42201191 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42201218 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42201169 original size:79 final size:81
Alignment explanation
Indices: 42201033--42201215 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
42201023 TCGAATGATG
* *
42201033 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
42201097 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
42201112 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
42201174 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
42201192 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42201216 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42201239 original size:79 final size:78
Alignment explanation
Indices: 42201034--42201250 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
42201024 CGAATGATGT
* *
42201034 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
42201097 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
42201114 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
42201177 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
42201193 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
42201251 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:42209174 original size:40 final size:40
Alignment explanation
Indices: 42209090--42209274 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
42209080 TCGAATGATG
* *
42209090 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
42209129 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42209170 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
42209209 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42209248 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42209275 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42209226 original size:79 final size:81
Alignment explanation
Indices: 42209090--42209272 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
42209080 TCGAATGATG
* *
42209090 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
42209154 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
42209169 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
42209231 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
42209249 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42209273 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42209296 original size:79 final size:78
Alignment explanation
Indices: 42209091--42209307 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
42209081 CGAATGATGT
* *
42209091 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
42209154 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
42209171 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
42209234 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
42209250 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
42209308 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:42210951 original size:93 final size:93
Alignment explanation
Indices: 42210839--42211010 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
42210829 CGCCCATAAG
* *
42210839 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42210904 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
42210932 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42210997 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42211011 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42211007 original size:46 final size:46
Alignment explanation
Indices: 42210832--42211007 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
42210822 TGTAACCCGC
* * * *
42210832 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42210878 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42210928 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
42210971 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42211008 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42211026 original size:46 final size:46
Alignment explanation
Indices: 42210881--42211019 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
42210871 TTCGCATCCA
42210881 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
42210929 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
42210974 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
42211020 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Done.