Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 240 of 378
Found at i:71315379 original size:41 final size:40
Alignment explanation
Indices: 71315292--71315449 Score: 133
Period size: 41 Copynumber: 3.9 Consensus size: 40
71315282 CAGCTATATG
* * * * * *
71315292 TGGCACTTAGTGTAC-GATTCGATATAACTTCGACTATATA
1 TGGCACTTAATGTGCAGA-TCGAGATAGCTTCGGCTACATA
*
71315332 TAGCACTTAATGTGCAAGATCGAGATAGCTTCGGCTACATA
1 TGGCACTTAATGTGC-AGATCGAGATAGCTTCGGCTACATA
* * *
71315373 TGGCACTTAGTGTGCGAGATTGAGATAGCTTCAGCT-CTATA
1 TGGCACTTAATGTGC-AGATCGAGATAGCTTCGGCTAC-ATA
* * *
71315414 CGGCACTTACTGTGC-GATTTGAGATAGCTTCGGCTA
1 TGGCACTTAATGTGCAGA-TCGAGATAGCTTCGGCTA
71315450 TGTACAGCAC
Statistics
Matches: 98, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 29 0.30
41 65 0.66
42 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
TGGCACTTAATGTGCAGATCGAGATAGCTTCGGCTACATA
Found at i:71319059 original size:12 final size:11
Alignment explanation
Indices: 71319044--71319097 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
71319034 TCGTAAGTAA
71319044 AAAAAAGTTTCG
1 AAAAAAG-TTCG
*
71319056 AAAAAAAAGTTCAA
1 --AAAAAAGTTC-G
71319070 AAAAAAGTTCG
1 AAAAAAGTTCG
*
71319081 AAAAAAATTCG
1 AAAAAAGTTCG
71319092 AAAAAA
1 AAAAAA
71319098 ATTAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 16 0.44
12 10 0.28
13 3 0.08
14 7 0.19
ACGTcount: A:0.65, C:0.07, G:0.11, T:0.17
Consensus pattern (11 bp):
AAAAAAGTTCG
Found at i:71319098 original size:12 final size:13
Alignment explanation
Indices: 71319042--71319098 Score: 84
Period size: 12 Copynumber: 4.5 Consensus size: 13
71319032 GTTCGTAAGT
71319042 AAAAAAAAGTTTCG
1 AAAAAAAAG-TTCG
71319056 AAAAAAAAGTTC-
1 AAAAAAAAGTTCG
71319068 AAAAAAAAGTTCG
1 AAAAAAAAGTTCG
71319081 -AAAAAAA-TTCG
1 AAAAAAAAGTTCG
71319092 AAAAAAA
1 AAAAAAA
71319099 TTAAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.10
12 25 0.61
13 3 0.07
14 9 0.22
ACGTcount: A:0.67, C:0.07, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAAAAAGTTCG
Found at i:71319099 original size:11 final size:11
Alignment explanation
Indices: 71319052--71319108 Score: 64
Period size: 12 Copynumber: 5.1 Consensus size: 11
71319042 AAAAAAAAGT
71319052 TTCGAAAAAAAA
1 TTCG-AAAAAAA
*
71319064 GTTCAAAAAAAA
1 -TTCGAAAAAAA
71319076 GTTCGAAAAAAA
1 -TTCGAAAAAAA
71319088 TTCGAAAAAAA
1 TTCGAAAAAAA
71319099 TT--AAAAAAA
1 TTCGAAAAAAA
71319108 T
1 T
71319109 ATGTGTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.19
11 13 0.31
12 18 0.43
13 3 0.07
ACGTcount: A:0.65, C:0.07, G:0.09, T:0.19
Consensus pattern (11 bp):
TTCGAAAAAAA
Found at i:71337644 original size:37 final size:37
Alignment explanation
Indices: 71337585--71337693 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
71337575 AGCTCAGACG
* *
71337585 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
71337622 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
71337659 TAATCTCCACACGTAGTCATTGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
71337694 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:71337978 original size:50 final size:50
Alignment explanation
Indices: 71337843--71337989 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
71337833 CATCGCCTAC
* *
71337843 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
71337893 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
71337943 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
71337990 TCACCACATT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 6 0.06
50 86 0.92
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:71338039 original size:47 final size:47
Alignment explanation
Indices: 71337948--71338092 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
71337938 TATATATATT
* * *
71337948 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
71337993 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
71338040 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
71338087 TCACAT
1 TCACAT
71338093 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 19 0.21
46 1 0.01
47 70 0.78
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:71343263 original size:28 final size:28
Alignment explanation
Indices: 71343198--71343298 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71343188 ATAGTGAATC
*
71343198 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
71343227 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71343255 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
71343285 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71343299 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:71350991 original size:28 final size:28
Alignment explanation
Indices: 71350922--71351022 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71350912 GACAAGATTG
* * * *
71350922 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71350952 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71350980 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71351009 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71351023 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71358938 original size:28 final size:28
Alignment explanation
Indices: 71358869--71358969 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71358859 GACAAGATTG
* * * *
71358869 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71358899 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71358927 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71358956 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71358970 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71365582 original size:67 final size:65
Alignment explanation
Indices: 71365369--71365575 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 65
71365359 ATATAGTTCG
* * * *
71365369 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CA-GTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTCACATATATCTCGT
71365431 A
65 A
* * * * * *
71365432 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATACGACCTAGCT-ACATATATCCC
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTCACATATATCTC
71365496 GTA
63 GTA
* * * *
71365499 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACACATAATGTCTTG
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCT-CACAT-ATATCTCG
71365564 TA
64 TA
71365566 GCTCTCTTGT
1 GCTCTCTTGT
71365576 ACACATGATG
Statistics
Matches: 115, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 23 0.20
66 27 0.23
67 46 0.40
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTCACATATATCTCGTA
Found at i:71367506 original size:10 final size:10
Alignment explanation
Indices: 71367491--71367530 Score: 62
Period size: 10 Copynumber: 3.8 Consensus size: 10
71367481 GAAAATGATC
71367491 AAAATTAATA
1 AAAATTAATA
71367501 AAAATTAGATA
1 AAAATTA-ATA
71367512 TAAAATTAATA
1 -AAAATTAATA
71367523 AAAATTAA
1 AAAATTAA
71367531 ATATGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 15 0.54
11 6 0.21
12 7 0.25
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAATTAATA
Found at i:71367543 original size:22 final size:22
Alignment explanation
Indices: 71367491--71367534 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
71367481 GAAAATGATC
*
71367491 AAAATTAATAAAAATTAGATAT
1 AAAATTAATAAAAATTAAATAT
71367513 AAAATTAATAAAAATTAAATAT
1 AAAATTAATAAAAATTAAATAT
71367535 GTTAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAATTAATAAAAATTAAATAT
Found at i:71377741 original size:2 final size:2
Alignment explanation
Indices: 71377700--71377730 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71377690 GCTCCATTTG
71377700 AT 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 AT A
71377731 GGAAGATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71377896 original size:15 final size:14
Alignment explanation
Indices: 71377871--71377917 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
71377861 CATAGTACCG
71377871 TATCTTAGGTTTCTT
1 TATC-TAGGTTTCTT
71377886 TATTCTAGGTTTCTT
1 TA-TCTAGGTTTCTT
*
71377901 TATCTTGGATTTCTT
1 TATCTAGG-TTTCTT
71377916 TA
1 TA
71377918 CTCGATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 5 0.17
15 22 0.76
16 2 0.07
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.60
Consensus pattern (14 bp):
TATCTAGGTTTCTT
Found at i:71386369 original size:30 final size:30
Alignment explanation
Indices: 71386335--71386395 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
71386325 TCCATAACTC
71386335 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * *
71386365 AAACTTTTGAATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
71386395 A
1 A
71386396 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:71389683 original size:29 final size:29
Alignment explanation
Indices: 71389650--71389781 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
71389640 GTGACGAGAT
71389650 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71389679 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
71389708 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
71389737 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
71389766 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71389782 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71399742 original size:34 final size:34
Alignment explanation
Indices: 71399704--71399775 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
71399694 GTAACAGTCC
71399704 AGTATCAGT-TAAGGCCTTAGCCCATTACAGTAAA
1 AGTATCAGTGT-AGGCCTTAGCCCATTACAGTAAA
* * * *
71399738 AGTATTAGTGTGGGCCTTAGCCCATTTCAGTAAT
1 AGTATCAGTGTAGGCCTTAGCCCATTACAGTAAA
71399772 AGTA
1 AGTA
71399776 ACAAGACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (34 bp):
AGTATCAGTGTAGGCCTTAGCCCATTACAGTAAA
Found at i:71410392 original size:9 final size:9
Alignment explanation
Indices: 71410374--71410403 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
71410364 TGAAAGTGAG
71410374 AGAAGAAAA
1 AGAAGAAAA
*
71410383 AGATGAAAA
1 AGAAGAAAA
71410392 AGAAGAAAA
1 AGAAGAAAA
71410401 AGA
1 AGA
71410404 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:71418413 original size:12 final size:12
Alignment explanation
Indices: 71418385--71418424 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
71418375 AAAAATGGAC
*
71418385 ATGCCTGTGTGCC
1 ATGCCT-TGTGCT
71418398 ATGCCTTGTGCT
1 ATGCCTTGTGCT
71418410 ATGCCTTGTGCT
1 ATGCCTTGTGCT
71418422 ATG
1 ATG
71418425 TCGTGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.10, C:0.25, G:0.28, T:0.38
Consensus pattern (12 bp):
ATGCCTTGTGCT
Found at i:71422904 original size:76 final size:77
Alignment explanation
Indices: 71422748--71422925 Score: 216
Period size: 76 Copynumber: 2.3 Consensus size: 77
71422738 CAGCACAAAA
* * * * * *
71422748 CCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAA
1 CCTGCGGGA-TTTAAGCCCGGATATAATACCAACACGAAGCCTGCAGGATTTAACCCGGATATAA
71422813 TACCAACACGAAG
65 TACCAACACGAAG
*
71422826 CCTGCGGGATTTAA-CCCGGATATAATACCAACACGAAGCCTGCAGGATTTAACCCGGATATATT
1 CCTGCGGGATTTAAGCCCGGATATAATACCAACACGAAGCCTGCAGGATTTAACCCGGATATAAT
* * *
71422890 TCCATCA-TATAG
66 ACCAACACGA-AG
*
71422902 CCTGCGGGTCTTTAAGCCCGGATA
1 CCTGCGGG-ATTTAAGCCCGGATA
71422926 CACATCAAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
75 1 0.01
76 58 0.67
77 10 0.12
78 17 0.20
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (77 bp):
CCTGCGGGATTTAAGCCCGGATATAATACCAACACGAAGCCTGCAGGATTTAACCCGGATATAAT
ACCAACACGAAG
Found at i:71422906 original size:38 final size:38
Alignment explanation
Indices: 71422748--71422887 Score: 208
Period size: 38 Copynumber: 3.6 Consensus size: 38
71422738 CAGCACAAAA
* * * * *
71422748 CCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGG
1 CCTGCGGGA-TTTAA-CCCGGATATAATACCAACACGAAG
71422788 CCTGCGGGATTTAACCCGGATATAATACCAACACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAACACGAAG
71422826 CCTGCGGGATTTAACCCGGATATAATACCAACACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAACACGAAG
*
71422864 CCTGCAGGATTTAACCCGGATATA
1 CCTGCGGGATTTAACCCGGATATA
71422888 TTTCCATCAT
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 80 0.85
39 5 0.05
40 9 0.10
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCTGCGGGATTTAACCCGGATATAATACCAACACGAAG
Found at i:71425588 original size:48 final size:48
Alignment explanation
Indices: 71425521--71425745 Score: 201
Period size: 48 Copynumber: 5.0 Consensus size: 48
71425511 CACATAGTAA
* *
71425521 GATGCCAAAT-CCATATCCCAAATATGGTCTTACATGGGATCACATATC
1 GATGCC-AATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
*
71425569 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
* * ** *
71425617 GATGTCAATGCCATGTCCCACACATGG---T--AT---CCCACATATT
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
* ** *
71425657 AATGAAAATGCCATGTCCCAGACATGGTC--A-A---GATCACATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
* * *
71425699 AATGCTAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT
71425746 AACCCTAATG
Statistics
Matches: 149, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
40 30 0.20
42 35 0.23
43 2 0.01
44 1 0.01
45 2 0.01
47 3 0.02
48 76 0.51
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
Found at i:71425654 original size:40 final size:40
Alignment explanation
Indices: 71425609--71425726 Score: 130
Period size: 42 Copynumber: 2.9 Consensus size: 40
71425599 TACATGGGAT
* * **
71425609 CACATATCGATGTCAATGCCATGTCCCACACATGGT-ATCC
1 CACATATCAATG-CAATGCCATGTCCCAGACATGGTAAGAC
* * *
71425649 CACATATTAATGAAAATGCCATGTCCCAGACATGGTCAAGAT
1 CACATATCAATG-CAATGCCATGTCCCAGACATGGT-AAGAC
71425691 CACATATCAATGCTAATGCCATGTCCCAGACATGGT
1 CACATATCAATGC-AATGCCATGTCCCAGACATGGT
71425727 CTTACATGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 31 0.48
42 34 0.52
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
CACATATCAATGCAATGCCATGTCCCAGACATGGTAAGAC
Found at i:71429317 original size:17 final size:18
Alignment explanation
Indices: 71429289--71429322 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71429279 TCTCCAAAAA
*
71429289 TTCAATTTTATTTAATTT
1 TTCAATTTTATTGAATTT
71429307 TTCAA-TTTATTGAATT
1 TTCAATTTTATTGAATT
71429323 GTTAGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCAATTTTATTGAATTT
Found at i:71431501 original size:11 final size:12
Alignment explanation
Indices: 71431481--71431514 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
71431471 AAATGCTTGT
71431481 CAAAAAAAAGAA
1 CAAAAAAAAGAA
*
71431493 -AAGAAAAAGAA
1 CAAAAAAAAGAA
71431504 CAAAAAAAAGA
1 CAAAAAAAAGA
71431515 GAAAAGCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAGAA
Found at i:71433801 original size:3 final size:3
Alignment explanation
Indices: 71433795--71433832 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
71433785 ATATCAAAAC
71433795 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
71433833 TAAATGTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:71435477 original size:21 final size:21
Alignment explanation
Indices: 71435453--71435518 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
71435443 TCCATTGAAA
71435453 CTTCAAGGAGATCTGCTGTAG
1 CTTCAAGGAGATCTGCTGTAG
**** * * *
71435474 CTTCGCTTA-ATCTACTGAAA
1 CTTCAAGGAGATCTGCTGTAG
71435494 CTTCAAGGAGATCTGCTGTAG
1 CTTCAAGGAGATCTGCTGTAG
71435515 CTTC
1 CTTC
71435519 GATCAATTCC
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (21 bp):
CTTCAAGGAGATCTGCTGTAG
Found at i:71435548 original size:42 final size:42
Alignment explanation
Indices: 71435432--71435559 Score: 195
Period size: 42 Copynumber: 3.1 Consensus size: 42
71435422 AGACACGTGA
*
71435432 CTTCAATCAATTCCATTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCATTGAAACTTCAAGGAGATCTGCTGTAG
* * * *
71435474 CTTCGCTTAA-TCTACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCATTGAAACTTCAAGGAGATCTGCTGTAG
*
71435515 CTTCGATCAATTCCATTGAAACTTCAAGGAGATCTGCTGTGG
1 CTTCGATCAATTCCATTGAAACTTCAAGGAGATCTGCTGTAG
71435557 CTT
1 CTT
71435560 TTAGCTGCTC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
41 37 0.49
42 38 0.51
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
CTTCGATCAATTCCATTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:71436151 original size:43 final size:44
Alignment explanation
Indices: 71436058--71436151 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
71436048 CTTAGGGGTT
* *
71436058 TAAGATTTGTACATTTAGTCTGCTCCACTGTGACTTCAAGGAGA
1 TAAGACTTGTACATTTAGTCTGCTCCACTGTCACTTCAAGGAGA
* *
71436102 TGAGACTTGTA-ACTTTAGTCTGCTCCACTG-CACTTCAGGGAGA
1 TAAGACTTGTACA-TTTAGTCTGCTCCACTGTCACTTCAAGGAGA
71436145 TAAGACT
1 TAAGACT
71436152 AGTGACTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 18 0.41
44 26 0.59
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
TAAGACTTGTACATTTAGTCTGCTCCACTGTCACTTCAAGGAGA
Found at i:71436167 original size:43 final size:44
Alignment explanation
Indices: 71436076--71436168 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 44
71436066 GTACATTTAG
* * * * *
71436076 TCTGCTCCACTGTGACTTCAAGGAGATGAGACTTGTAACTTTAG
1 TCTGCTCCACTGTCACTTCAAGGAGATAAGACTAGTAACTTCAA
* *
71436120 TCTGCTCCACTG-CACTTCAGGGAGATAAGACTAGTGACTTCAA
1 TCTGCTCCACTGTCACTTCAAGGAGATAAGACTAGTAACTTCAA
71436163 TCTGCT
1 TCTGCT
71436169 TCGCTGAGGC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 30 0.71
44 12 0.29
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGTCACTTCAAGGAGATAAGACTAGTAACTTCAA
Found at i:71444476 original size:22 final size:22
Alignment explanation
Indices: 71444424--71444488 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
71444414 TTAAAGCCTT
* *
71444424 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
71444446 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
71444468 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
71444489 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:71444721 original size:26 final size:27
Alignment explanation
Indices: 71444669--71444721 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
71444659 CATTACCTGT
*
71444669 TTCTGGTGGCTATACCACTAATATCTG
1 TTCTGGTGACTATACCACTAATATCTG
* *
71444696 TTCTGGTGACTCTATCAC-AATATCTG
1 TTCTGGTGACTATACCACTAATATCTG
71444722 ATAACTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
TTCTGGTGACTATACCACTAATATCTG
Found at i:71444895 original size:6 final size:6
Alignment explanation
Indices: 71444880--71444976 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
71444870 ATTCTGTTAC
* * * *
71444880 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTCATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
71444929 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
71444977 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 61 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:71444908 original size:31 final size:31
Alignment explanation
Indices: 71444870--71444967 Score: 151
Period size: 31 Copynumber: 3.2 Consensus size: 31
71444860 CTGATTTTTT
* *
71444870 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTAATACTGATTCTGATTCTG
*
71444901 ATTCTGTTACCTCATACTGATTCTGATTCTG
1 ATTCTGTTACCTAATACTGATTCTGATTCTG
* *
71444932 ATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTAATACTGATTCTGATTCTG
71444963 ATTCT
1 ATTCT
71444968 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTAATACTGATTCTGATTCTG
Found at i:71445823 original size:28 final size:29
Alignment explanation
Indices: 71445766--71445828 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
71445756 ATATAATAAT
71445766 TATAAAATAATTAAATTTCAATCAAATTA
1 TATAAAATAATTAAATTTCAATCAAATTA
* * *
71445795 T-TAAAAT-ATTAAATTTTAATTAATTTTA
1 TATAAAATAATTAAATTTCAATCAA-ATTA
71445823 TATAAA
1 TATAAA
71445829 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 14 0.48
28 10 0.34
29 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (29 bp):
TATAAAATAATTAAATTTCAATCAAATTA
Found at i:71445841 original size:11 final size:11
Alignment explanation
Indices: 71445801--71445843 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
71445791 ATTATTAAAA
*
71445801 TATTAAATTTT
1 TATTAATTTTT
* *
71445812 AATTAATTTTA
1 TATTAATTTTT
*
71445823 TATAAATTTTT
1 TATTAATTTTT
71445834 TATTAATTTT
1 TATTAATTTT
71445844 GTTCATTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTAATTTTT
Found at i:71452087 original size:40 final size:40
Alignment explanation
Indices: 71452013--71452158 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
71452003 CCGCACCAAG
* * * * * *
71452013 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
71452053 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
71452093 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
71452133 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
71452159 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:71452173 original size:40 final size:40
Alignment explanation
Indices: 71452045--71452196 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
71452035 ATCACGATTT
* * * * *
71452045 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
71452085 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
71452125 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
71452165 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
71452197 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:71455230 original size:40 final size:40
Alignment explanation
Indices: 71455122--71455231 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
71455112 ATTGAATGAT
* * * * *
71455122 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
71455162 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
71455202 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
71455232 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:71455246 original size:40 final size:39
Alignment explanation
Indices: 71455122--71455271 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
71455112 ATTGAATGAT
* * * * * * *
71455122 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
71455162 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
71455202 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
71455242 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
71455272 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:71463216 original size:39 final size:39
Alignment explanation
Indices: 71463160--71463256 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 39
71463150 ATTGAATGAT
* * * *
71463160 ATCCGGGCTAAGTCCCGAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAGACAATTATGCTAGTAACTAC
* * * *
71463199 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCG-AGACAATTATGCTAGTAACTAC
71463239 ATCCGGGCTAAGACCCGA
1 ATCCGGGCTAAGACCCGA
71463257 AGGCATTTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
39 16 0.33
40 32 0.67
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAGACAATTATGCTAGTAACTAC
Found at i:71463283 original size:40 final size:39
Alignment explanation
Indices: 71463197--71463308 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 39
71463187 GCTGGTAATT
*
71463197 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
* *
71463236 TACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-
1 -ACATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGAC
* *
71463278 A-ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGC
71463309 GGGTTACCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 57 0.90
41 1 0.02
43 5 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
Found at i:71468700 original size:42 final size:43
Alignment explanation
Indices: 71468646--71468738 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
71468636 TATTTACGTA
* ** *
71468646 TAAGACCATGTCTGGGACATTGGCATCG-TATTTG-ATTTCATG
1 TAAGACCATGTCTCGGACAGAGGCATCGATA-TTGAATTACATG
*
71468688 TAAGACCCTGTCTCGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTCGGACAGAGGCATCGATATTGAATTACATG
71468731 TAAGACCA
1 TAAGACCA
71468739 CGTCAGGGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
TAAGACCATGTCTCGGACAGAGGCATCGATATTGAATTACATG
Found at i:71469831 original size:31 final size:31
Alignment explanation
Indices: 71469657--71469835 Score: 118
Period size: 25 Copynumber: 6.5 Consensus size: 31
71469647 TATCAGAACT
*
71469657 AGAATCAAAATGAGAATCAGAATCAGGT---
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
71469685 -G-A-CAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
71469713 AGAATC---A---GAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
71469738 AGAATC---A---GAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
71469763 AGAATC---A---GAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
71469788 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
71469819 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
71469836 GTGAATGCAA
Statistics
Matches: 134, Mismatches: 5, Indels: 21
0.84 0.03 0.13
Matches are distributed among these distances:
25 95 0.71
26 1 0.01
27 1 0.01
28 2 0.01
29 1 0.01
30 1 0.01
31 33 0.25
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:71469832 original size:25 final size:25
Alignment explanation
Indices: 71469669--71469807 Score: 278
Period size: 25 Copynumber: 5.6 Consensus size: 25
71469659 AATCAAAATG
71469669 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
71469694 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
71469719 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
71469744 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
71469769 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
71469794 AGAATCAGAATCAG
1 AGAATCAGAATCAG
71469808 TATCAGGTAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 114 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGGTGACAGAATC
Found at i:71470094 original size:27 final size:26
Alignment explanation
Indices: 71470053--71470103 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
71470043 CGAGGCTGCC
*
71470053 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
*
71470079 AGATATATGTGGCGAAGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
71470104 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:71470404 original size:19 final size:19
Alignment explanation
Indices: 71470377--71470441 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
71470367 AGGGTATCTC
* *
71470377 GGTAATTCTACCCTACAAG
1 GGTATTTCTACCCTACAGG
71470396 GGTATTTCTACCCTACAGG
1 GGTATTTCTACCCTACAGG
71470415 GGTATTTCTACCCTACAGG
1 GGTATTTCTACCCTACAGG
71470434 GGTATTTC
1 GGTATTTC
71470442 GGTGATTCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (19 bp):
GGTATTTCTACCCTACAGG
Found at i:71470500 original size:27 final size:27
Alignment explanation
Indices: 71470415--71470494 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 27
71470405 ACCCTACAGG
*
71470415 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71470442 GGTGATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71470469 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
71470495 TAGTAAATCG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71470518 original size:27 final size:27
Alignment explanation
Indices: 71470491--71470645 Score: 238
Period size: 27 Copynumber: 5.7 Consensus size: 27
71470481 CTACAGGGGT
71470491 ATTTTAGTAAATCGAGGGTAAAACGGTA
1 ATTTT-GTAAATCGAGGGTAAAACGGTA
* *
71470519 ATTTTGTAAATTGAGGGTAAAACGATA
1 ATTTTGTAAATCGAGGGTAAAACGGTA
71470546 ATTTTGTAAATCGAGGGTAAAACGGTA
1 ATTTTGTAAATCGAGGGTAAAACGGTA
* * * *
71470573 AATCTATAAATCGAGGGTAAAATGGTA
1 ATTTTGTAAATCGAGGGTAAAACGGTA
71470600 ATTTTGTAAATCGAGGGTAAAACGGTA
1 ATTTTGTAAATCGAGGGTAAAACGGTA
*
71470627 ATTCTGTAAATCGAGGGTA
1 ATTTTGTAAATCGAGGGTA
71470646 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 109 0.96
28 5 0.04
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
ATTTTGTAAATCGAGGGTAAAACGGTA
Found at i:71470653 original size:54 final size:54
Alignment explanation
Indices: 71470491--71470672 Score: 247
Period size: 54 Copynumber: 3.4 Consensus size: 54
71470481 CTACAGGGGT
* * * *
71470491 ATTTTAGTAAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACGATA
1 ATTTT-GTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTA
* *
71470546 ATTTTGTAAATCGAGGGTAAAACGGTAAATCTATAAATCGAGGGTAAAATGGTA
1 ATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTA
***
71470600 ATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGGTA
1 ATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTA
** *
71470654 ATTTTACAAGTCGAGGGTA
1 ATTTTGTAAATCGAGGGTA
71470673 TTTCATTAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 108 0.96
55 5 0.04
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (54 bp):
ATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTA
Found at i:71470667 original size:27 final size:26
Alignment explanation
Indices: 71470635--71470822 Score: 117
Period size: 27 Copynumber: 7.0 Consensus size: 26
71470625 TAATTCTGTA
*
71470635 AATCGAGGGTACTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
*** *
71470661 AAGTCGAGGGTATTTCATTAATTTTAT
1 AA-TCGAGGGTATTTTGGTAATTTTAC
* * * * ** *
71470688 AGGTTGACGGTGTTTCAGTAATTTCAC
1 A-ATCGAGGGTATTTTGGTAATTTTAC
* *
71470715 AAATC-AGAGGTATTTTAGTAAATTTAC
1 -AATCGAG-GGTATTTTGGTAATTTTAC
* *
71470742 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCGA-GGGTATTTTGGTAATTTTAC
* * *
71470769 AAACTAGGGGTATTTTGGTAATTTTATA
1 AATCGA-GGGTATTTTGGTAATTTTA-C
* *
71470797 AACCAAGGGTATTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
71470823 CCTACAGGGG
Statistics
Matches: 129, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
26 6 0.05
27 117 0.91
28 6 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
AATCGAGGGTATTTTGGTAATTTTAC
Found at i:71470837 original size:27 final size:26
Alignment explanation
Indices: 71470705--71470822 Score: 146
Period size: 27 Copynumber: 4.4 Consensus size: 26
71470695 CGGTGTTTCA
* * *
71470705 GTAATTTCACAAATCAGAGGTATTTTA
1 GTAATTTTACAAA-CAGGGGTATTTTG
*
71470732 GTAAATTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAAC-AGGGGTATTTTG
71470759 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAAC-AGGGGTATTTTG
* *
71470786 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAA-CAGGGGTATTTTG
71470813 GTAATTTTAC
1 GTAATTTTAC
71470823 CCTACAGGGG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.98
28 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAACAGGGGTATTTTG
Found at i:71470843 original size:27 final size:27
Alignment explanation
Indices: 71470813--71470871 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
71470803 GGGTATTTTG
* *
71470813 GTAATTTTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
71470840 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
71470867 GTAAT
1 GTAAT
71470872 GCTAGCCTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:71470844 original size:54 final size:54
Alignment explanation
Indices: 71470726--71470845 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
71470716 AATCAGAGGT
* * * *
71470726 ATTTTAGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGT
1 ATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGC
* * **
71470780 ATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACCCTAC-AGGGGC
1 ATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-CAAACTAGGGGC
*
71470834 ATTTCAGTAATT
1 ATTTTAGTAATT
71470846 CTACCTTACA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 52 0.95
55 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
ATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGC
Found at i:71473950 original size:21 final size:20
Alignment explanation
Indices: 71473913--71473952 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
71473903 TCAAGCTGAC
*
71473913 AGGGGCATACGCACGTGTGG
1 AGGGGCACACGCACGTGTGG
*
71473933 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCACGTGTG
71473953 CTTTCTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.25, G:0.42, T:0.12
Consensus pattern (20 bp):
AGGGGCACACGCACGTGTGG
Found at i:71475438 original size:144 final size:143
Alignment explanation
Indices: 71475169--71475497 Score: 462
Period size: 144 Copynumber: 2.3 Consensus size: 143
71475159 TGAATTGCCA
* * * * * *
71475169 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGACCGATGCCTGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGACCGATGCCTGTCCCAGACAT
* ** *
71475234 GGTCTTACACTAGCTCTCATTTTAATGCTGATGCCATGTCCCAAACATGGCCTTAGACTGGCTCT
66 GGTCTTACACTAGATCTCATTACAATGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCTCT
71475299 CATATCGTGGCCG
131 CATATCGTGGCCG
* *
71475312 ATGCCATGTCCCAGACATGGTCTTACATTAGCGCACATATCAATG-CCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA-GACCGATGCC-TGTCCCAGAC
* * * * *
71475376 ATGGTCTTATACTAGATCTCATTACATTGCTGATGCCATGTTCTAAACATGGTCTTACACTGGCT
64 ATGGTCTTACACTAGATCTCATTACAATGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCT
71475441 CTCATATCGTGGCCG
129 CTCATATCGTGGCCG
* *
71475456 ATGCCATGTCCCAGACATGGTTTTACACTAACACACATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
71475498 CCCAAATGTC
Statistics
Matches: 164, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
143 44 0.27
144 120 0.73
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (143 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGACCGATGCCTGTCCCAGACAT
GGTCTTACACTAGATCTCATTACAATGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCTCT
CATATCGTGGCCG
Found at i:71475496 original size:48 final size:48
Alignment explanation
Indices: 71475169--71475485 Score: 320
Period size: 48 Copynumber: 6.6 Consensus size: 48
71475159 TGAATTGCCA
* * * * * *
71475169 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGA-GACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCCG
* * *
71475217 ATGCC-TGTCCCAGACATGGTCTTACACTAGCTCTCATTTTAAT-GCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-TATCATGGCCG
* * * * *
71475264 ATGCCATGTCCCAAACATGGCCTTAGACTGGCTCTCATATCGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCG
* * *
71475312 ATGCCATGTCCCAGACATGGTCTTACATTAGCGCACATATCAAT-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCCG
* * * *
71475360 ATGCCATGTCCCAGACATGGTCTTATACTAGATCTCAT-TACATTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-CATGGCCG
* * * * *
71475408 ATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCATATCGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCG
*
71475456 ATGCCATGTCCCAGACATGGTTTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
71475486 ACACACATAT
Statistics
Matches: 217, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
47 41 0.19
48 174 0.80
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCG
Found at i:71476790 original size:96 final size:94
Alignment explanation
Indices: 71476626--71476904 Score: 344
Period size: 96 Copynumber: 2.9 Consensus size: 94
71476616 AAGAGGGTGA
* * * * *
71476626 AATGCTGATACCATGTTCCAAACATGGTCTTACACGGGCTCACATGTCGAGACCGATGCCATGTC
1 AATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTC
*
71476691 CCAGACATGGTCTTACACTAGCTCTCATCTT
66 CCAGACATGGTCTTACACTAGCTCT--TATT
* * * *
71476722 AATGCTGATGCCATGTCCCAAACATGGCCTTAGACTGGCTCTCATATCGTGGCCGATGCCATGTC
1 AATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTC
* *
71476787 CCAGACATGGTCCTACACTGGCTCTTATT
66 CCAGACATGGTCTTACACTAGCTCTTATT
* * *
71476816 ACATTG-TCGATGTCATGTTCCAAACATGGTCTTACACTAGTTCTCATGTCGTGGCCGATGCCAT
1 A-A-TGCT-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCAT
* * *
71476880 GTCTCAGACATAGTCTGACACTAGC
63 GTCCCAGACATGGTCTTACACTAGC
71476905 ACATATATCA
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
94 4 0.03
95 2 0.01
96 150 0.96
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (94 bp):
AATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTC
CCAGACATGGTCTTACACTAGCTCTTATT
Found at i:71476902 original size:48 final size:48
Alignment explanation
Indices: 71476636--71476904 Score: 245
Period size: 48 Copynumber: 5.6 Consensus size: 48
71476626 AATGCTGATA
* * ** * * *
71476636 CCATGTTCCAAACATGGTCTTACACGGGCTCACATGTCGAGACCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCGTGGCCGATG
* ** *
71476684 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAAT-GCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-GTCGTGGCCGATG
* * * * *
71476732 CCATGTCCCAAACATGGCCTTAGACTGGCTCTCATATCGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCGTGGCCGATG
* * * * * *
71476780 CCATGTCCCAGACATGGTCCTACACTGGCTCTTAT-TACATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATGT-CGTGGCCGATG
* * * *
71476828 TCATGTTCCAAACATGGTCTTACACTAGTTCTCATGTCGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCGTGGCCGATG
* * *
71476876 CCATGTCTCAGACATAGTCTGACACTAGC
1 CCATGTCCCAGACATGGTCTTACACTAGC
71476905 ACATATATCA
Statistics
Matches: 173, Mismatches: 44, Indels: 8
0.77 0.20 0.04
Matches are distributed among these distances:
47 3 0.02
48 168 0.97
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCGTGGCCGATG
Found at i:71482337 original size:49 final size:49
Alignment explanation
Indices: 71482277--71482682 Score: 667
Period size: 49 Copynumber: 8.4 Consensus size: 49
71482267 TTTGTATGAG
**
71482277 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAACATGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
**
71482326 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAACATGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
71482375 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
71482424 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
71482473 GCATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * *
71482522 GTGTATATATGTGATAAGGCCTAATGGCTGATGCGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
71482571 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
71482618 GTGTATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
71482667 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
71482683 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 49 0.15
48 7 0.02
49 281 0.83
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:71488568 original size:48 final size:48
Alignment explanation
Indices: 71488495--71488927 Score: 367
Period size: 48 Copynumber: 9.0 Consensus size: 48
71488485 AAGAGGGTGA
* * * * ** *
71488495 AATGCTGATACCATGTTCCAAACATGGTCTTACACGGGCTCACATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
* * * **
71488543 GA-GACCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCTCATCCC
1 AATG-CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
* * * * * * * *
71488591 AATGCCGATGCCATGTCCCAGAGATGGTTTTATATTATCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
* *
71488639 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
* * * * *
71488687 -GTGGTCGATGCTATTTCCCAAACATGGTCTTACACTAG-TGCACATATC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATC
71488735 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATC
* * **
71488783 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTAT-TAC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT-C
* * * * * * * *
71488831 ATTGTCGATGTCATGTTCCAAACATGGTCTTACACTAGTTCTCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
* * * *
71488879 -ATGGCCGATGCCATGTCTCAGACATAGT-TTGACACTAGCACATATATC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTT-ACACTAGCTCACATATC
71488927 A
1 A
71488928 CCTAAATGTC
Statistics
Matches: 310, Mismatches: 64, Indels: 21
0.78 0.16 0.05
Matches are distributed among these distances:
47 7 0.02
48 299 0.96
49 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
Found at i:71488717 original size:144 final size:142
Alignment explanation
Indices: 71488495--71488923 Score: 422
Period size: 144 Copynumber: 3.0 Consensus size: 142
71488485 AAGAGGGTGA
* * * * * * ** * *
71488495 AATGCTGATACCATGTTCCAAACATGGTCTTACACGGGCTCACATGTCGAGACCGATGCCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-TCGTGGTCGATGCTATTTC
* * ** * * *
71488560 CCAGACATGGTCTTACATTAGCTCTCATCCCAATGCCGATGCCATGTCCCAGAGATGGTTTTATA
65 CCAAACATGGTCTTACACTAG-TCTCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACA
* * * * *
71488625 TTA-TCTCTCGTCTC
129 CTAGT-GCACATATC
*
71488639 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCATATCGTGGTCGATGCTATTTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-TCGTGGTCGATGCTATTTC
*
71488704 CCAAACATGGTCTTACACTAGTGCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACA
65 CCAAACATGGTCTTACACTAGT-CTCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACA
71488769 CTAGTGCACATATC
129 CTAGTGCACATATC
* ** * *
71488783 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATTACATTGTCGATG-TCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATT-CGTGGTCGATGCT-AT-T
* * *
71488847 T-CCAAACATGGTCTTACACTAGTTCTCATGTC-ATGGCCGATGCCATGTCTCAGACATAGT-TT
63 TCCCAAACATGGTCTTACACTAG-TCTCATATCAAT-GCCGATGCCATGTCCCAGACATGGTCTT
71488909 GACACTA--GCACATAT
126 -ACACTAGTGCACATAT
71488924 ATCACCTAAA
Statistics
Matches: 243, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
142 8 0.03
143 7 0.03
144 224 0.92
145 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (142 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATTCGTGGTCGATGCTATTTCC
CAAACATGGTCTTACACTAGTCTCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
AGTGCACATATC
Found at i:71494884 original size:79 final size:79
Alignment explanation
Indices: 71494730--71494952 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 79
71494720 TCGAATGATG
* * * *
71494730 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATT
*
71494794 TGTGCGAGTTACTAAA
64 GGTGCGAGTTACTAAA
*
71494810 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT-CCGGGCTAAGACCCGAAGGCATT
71494873 GGTGCGAGTTACTAAA
64 GGTGCGAGTTACTAAA
* * * * * *
71494889 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATT
71494953 TGAACGAGTA
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.55
80 46 0.37
81 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGACCCGAAGGCATTGG
TGCGAGTTACTAAA
Found at i:71494918 original size:40 final size:40
Alignment explanation
Indices: 71494730--71494954 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
71494720 TCGAATGATG
* * *
71494730 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
71494770 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71494810 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71494849 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71494889 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
71494930 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71494955 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.21
40 120 0.72
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71494961 original size:119 final size:120
Alignment explanation
Indices: 71494731--71494961 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 120
71494721 CGAATGATGT
* *
71494731 CCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
* **
71494796 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAATC
* * **
71494851 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGG-ATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
*
71494913 TGTGCGAGCTACTATAA-CCAGG-CTATG-TCCCGAAGGCATTTGAACGAGT
64 TGTGCGAGCTACTA-AATCC-GGACTAAGAT-CCGAAGGCATTTGAACGAGT
71494962 AGCTATATCC
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
118 2 0.02
119 73 0.76
120 21 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAATC
Found at i:71494985 original size:79 final size:79
Alignment explanation
Indices: 71494783--71494987 Score: 238
Period size: 79 Copynumber: 2.6 Consensus size: 79
71494773 GGACTAAGAT
* *
71494783 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGATTAA-ATTCCGAAGGCATTTGTGCGAGCTACT
* *
71494847 AATCCCGGGCTAAGC
65 AATACCAGGCTAAGC
* * * *
71494862 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGATTAAATTCCGAAGGCATTTGTGCGAGCTACTA
*
71494926 ATAACCAGGCTATGTC
66 AT-ACCAGGCTAAG-C
** *
71494942 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GATTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGATTAAATTCCGAAGG
71494988 TACGTGATTC
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 80 0.75
80 24 0.23
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGATTAAATTCCGAAGGCATTTGTGCGAGCTACTA
ATACCAGGCTAAGC
Found at i:71500382 original size:29 final size:29
Alignment explanation
Indices: 71500302--71500432 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
71500292 ATAGTGAATC
71500302 CGCACACTTAGTGCTATATATTTTC-GCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71500330 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
71500360 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
71500389 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71500418 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71500433 GTACAATTTT
Statistics
Matches: 100, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
28 19 0.19
29 59 0.59
30 22 0.22
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:71500453 original size:58 final size:60
Alignment explanation
Indices: 71500302--71500462 Score: 181
Period size: 58 Copynumber: 2.7 Consensus size: 60
71500292 ATAGTGAATC
* *
71500302 CGCACACTTAGTGCTATATATTTT---CGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAAC-CTCACACACTTAGTGCTATATAATTTTCAGCT
* * * * *
71500360 CGCACACTTAGTGCTATATATTTT-CAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATAAATTTTAAACCTCACACACTTAGTGCTATATAATTTTCAGCT
*
71500418 CGCACACTTAGTGCTGTACAATTTTTAAACC-CACACACTTAGTGC
1 CGCACACTTAGTGCTATA-AA-TTTTAAACCTCACACACTTAGTGC
71500463 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
58 50 0.55
59 22 0.24
60 17 0.19
61 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (60 bp):
CGCACACTTAGTGCTATAAATTTTAAACCTCACACACTTAGTGCTATATAATTTTCAGCT
Found at i:71501751 original size:19 final size:18
Alignment explanation
Indices: 71501727--71501762 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
71501717 CCCCCTTTTT
*
71501727 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
71501746 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
71501763 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:71503168 original size:18 final size:17
Alignment explanation
Indices: 71503147--71503180 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
71503137 TTTTACTCTC
*
71503147 TTTATTTATTTTATTTTT
1 TTTATCTATTTT-TTTTT
71503165 TTTATCTATTTTTTTT
1 TTTATCTATTTTTTTT
71503181 ATTATTCGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATCTATTTTTTTTT
Found at i:71503176 original size:13 final size:12
Alignment explanation
Indices: 71503157--71503186 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
71503147 TTTATTTATT
71503157 TTATTTTTTTTA
1 TTATTTTTTTTA
71503169 TCTATTTTTTTTA
1 T-TATTTTTTTTA
71503182 TTATT
1 TTATT
71503187 CGTATGTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (12 bp):
TTATTTTTTTTA
Found at i:71503304 original size:26 final size:24
Alignment explanation
Indices: 71503251--71503306 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
71503241 CCATTTCTTT
* *
71503251 TTATTTCTTTTCTTGTTCTATTTC
1 TTATTTCTTTTCTTATTCTAATTC
71503275 TTATTT-TTCTTCTTATTCTAGATTC
1 TTATTTCTT-TTCTTATTCTA-ATTC
71503300 ATTATTT
1 -TTATTT
71503307 AGCTATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 16 0.59
25 3 0.11
26 6 0.22
ACGTcount: A:0.14, C:0.14, G:0.04, T:0.68
Consensus pattern (24 bp):
TTATTTCTTTTCTTATTCTAATTC
Found at i:71504967 original size:13 final size:12
Alignment explanation
Indices: 71504925--71504966 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
71504915 GTTTATTTTT
71504925 TTATTTTTATTG
1 TTATTTTTATTG
71504937 TTATTTTTA--G
1 TTATTTTTATTG
*
71504947 TTGTTTTTATTG
1 TTATTTTTATTG
71504959 TTATTTTT
1 TTATTTTT
71504967 TTGACTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (12 bp):
TTATTTTTATTG
Found at i:71510444 original size:39 final size:40
Alignment explanation
Indices: 71510256--71510512 Score: 312
Period size: 40 Copynumber: 6.5 Consensus size: 40
71510246 TGGATGATAA
*
71510256 CCGGGCTAAGTCCCGAAGGCATTT-TGC-ACTGGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA---GTTACTA-TAT
* * * *
71510297 CCGGGCTAAGTCCCAAAGGAATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
71510337 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
71510377 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71510417 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
71510456 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
71510495 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71510513 TACTTGGCTT
Statistics
Matches: 195, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
38 15 0.08
39 52 0.27
40 102 0.52
41 22 0.11
42 3 0.02
43 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71514103 original size:37 final size:37
Alignment explanation
Indices: 71514044--71514156 Score: 199
Period size: 37 Copynumber: 3.1 Consensus size: 37
71514034 CTTTAGCTCA
* *
71514044 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
71514081 GACATACTCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
71514118 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
71514155 GA
1 GA
71514157 ATATATTTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:71514272 original size:48 final size:48
Alignment explanation
Indices: 71514201--71514968 Score: 1311
Period size: 48 Copynumber: 16.0 Consensus size: 48
71514191 TGTTACAACC
* * * * *
71514201 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
71514249 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
71514297 TTCACATTCGCCATTCGACTTTACCACATGTACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
71514345 TTCACATTCGCCATTCGGCTTTACCACATGTACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
71514393 TTCACATTAGCCATTCAGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
71514441 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
71514489 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
71514537 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
71514585 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
71514633 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
71514681 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
71514729 TTCACATTAGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** *
71514777 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
71514825 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
71514873 TTCACATTAGCCATTCGGCTTTACGACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
71514921 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
71514969 ATATTTATCT
Statistics
Matches: 681, Mismatches: 39, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 681 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:71522755 original size:40 final size:40
Alignment explanation
Indices: 71522652--71522883 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
71522642 TGGATGATAA
* * **
71522652 CCGGGCTAAGTCCCGAAAGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
*
71522693 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
71522733 CCGGGCTAAGTCTCGAATGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
71522773 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
71522813 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
71522853 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
71522884 AGCTATATCC
Statistics
Matches: 173, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.05
40 138 0.80
41 23 0.13
42 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:71528630 original size:46 final size:44
Alignment explanation
Indices: 71528570--71528746 Score: 158
Period size: 46 Copynumber: 3.9 Consensus size: 44
71528560 ATATTTGGGC
*
71528570 ATCCGAACTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *** * *
71528614 ATGTCTGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* * *
71528663 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* * *
71528708 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
71528747 GCGTGTTACA
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 68 0.64
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:71528726 original size:93 final size:93
Alignment explanation
Indices: 71528567--71528738 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
71528557 AGGATATTTG
* * *** *
71528567 GGCATCCGAACTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAG
71528632 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
71528660 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAG
71528725 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
71528739 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:71531664 original size:15 final size:15
Alignment explanation
Indices: 71531625--71531704 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
71531615 CGTATCTTGG
*
71531625 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
71531640 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
71531655 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
71531670 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
71531685 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
71531699 TTTCTT
1 TTTCTT
71531705 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:71531694 original size:30 final size:30
Alignment explanation
Indices: 71531617--71531703 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
71531607 CATAGTATCG
* *
71531617 TATCTTGG-TTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
71531646 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
71531676 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
71531704 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 1 0.02
29 14 0.28
30 31 0.62
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:71534237 original size:46 final size:46
Alignment explanation
Indices: 71534078--71534251 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
71534068 ATTTGGGCAT
*
71534078 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
71534123 TCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
71534168 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
71534216 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71534252 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
44 2 0.02
45 28 0.26
46 46 0.43
47 27 0.25
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:71548481 original size:93 final size:93
Alignment explanation
Indices: 71548369--71548540 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
71548359 CGCCCATAAG
* *
71548369 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71548434 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
*
71548462 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71548527 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
71548541 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:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:71548537 original size:46 final size:46
Alignment explanation
Indices: 71548362--71548537 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
71548352 TGTAACCCGC
* * * *
71548362 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
71548408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
71548454 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
71548501 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71548538 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 33 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:71548556 original size:46 final size:46
Alignment explanation
Indices: 71548370--71548556 Score: 147
Period size: 46 Copynumber: 4.0 Consensus size: 46
71548360 GCCCATAAGC
* ** * *
71548370 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
*
71548416 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * * *
71548463 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
71548509 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
71548555 GA
1 GA
71548557 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 61 0.54
47 31 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:71558986 original size:40 final size:40
Alignment explanation
Indices: 71558890--71559068 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
71558880 CGAATGGTAT
* * * *
71558890 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
71558931 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
71558971 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
71559011 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
71559051 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
71559069 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
40 93 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:71559031 original size:80 final size:81
Alignment explanation
Indices: 71558890--71559068 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
71558880 CGAATGGTAT
* *
71558890 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
71558955 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
71558971 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
71559034 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
71559051 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
71559069 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:71559081 original size:80 final size:80
Alignment explanation
Indices: 71558924--71559108 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
71558914 GTGCTAAGTG
* * * *
71558924 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
71558989 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * *
71559004 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
71559068 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
71559084 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
71559109 TACGTGATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 8 0.09
80 79 0.91
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTT
Found at i:71559089 original size:40 final size:40
Alignment explanation
Indices: 71559011--71559094 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
71559001 GTTACTAAAT
* * *
71559011 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
71559051 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
71559091 CCGG
1 CCGG
71559095 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:71561329 original size:18 final size:19
Alignment explanation
Indices: 71561306--71561342 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
71561296 TATTATGATT
*
71561306 ATATATCTATCTTT-TACA
1 ATATATCTACCTTTGTACA
71561324 ATATATCTACCTTTGTACA
1 ATATATCTACCTTTGTACA
71561343 TTGAGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATATCTACCTTTGTACA
Found at i:71565001 original size:46 final size:46
Alignment explanation
Indices: 71564951--71565126 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
71564941 TGGTTGAGCA
71564951 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71564997 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71565042 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
71565090 CCCGAGCTCATTGAGTTGGGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71565127 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71565107 original size:93 final size:93
Alignment explanation
Indices: 71564948--71565119 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
71564938 GGATGGTTGA
* * *
71564948 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
71565013 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71565041 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
*
71565106 TGGGTCCGAGTTCG
66 TGAGTCCGAGTTCG
71565120 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71572573 original size:46 final size:46
Alignment explanation
Indices: 71572523--71572698 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
71572513 TGGTTGAGCA
71572523 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71572569 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71572614 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71572662 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71572699 CGGGTTACAT
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71572679 original size:93 final size:93
Alignment explanation
Indices: 71572520--71572691 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
71572510 GGATGGTTGA
* *
71572520 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71572585 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71572613 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71572678 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
71572692 CTTATGGCGG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71591300 original size:68 final size:65
Alignment explanation
Indices: 71591228--71591441 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 65
71591218 GAGTGCACAT
*
71591228 CATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCACATGGGTGATACTATGTGTA
1 CATGTGTACAAGAGAGCTAC-AGAGA-TAT-ATGTAGCTAGGTCACATGGGTGATACTATGTGTA
71591293 CAC
63 CAC
* * * * * * *
71591296 CATGTATACAAGAGAGCTACAG-GATATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGG
1 CATGTGTACAAGAGAGCTACAGAGATATATGTAGCTAGGTCACATGGGT-GATACTA--TG-TGT
71591359 ACAC
62 ACAC
* * * *
71591363 CATGTAG-ACAAGAGAGCTAC-GAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTC
1 CATGT-GTACAAGAGAGCTACAGAGATATATGTAGCTAGGTCACATGGGTGATACT-ATGTGTAC
71591424 AC
64 AC
71591426 CATGTGTACAAGAGAG
1 CATGTGTACAAGAGAG
71591442 TTGAACTCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 23
0.74 0.11 0.14
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 22 0.18
65 7 0.06
66 20 0.17
67 32 0.27
68 19 0.16
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (65 bp):
CATGTGTACAAGAGAGCTACAGAGATATATGTAGCTAGGTCACATGGGTGATACTATGTGTACAC
Found at i:71593983 original size:27 final size:27
Alignment explanation
Indices: 71593953--71594137 Score: 217
Period size: 27 Copynumber: 6.9 Consensus size: 27
71593943 CCTTAATCAA
* * * *
71593953 TAAAATGATTATTTTTCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
71593980 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * * * *
71594007 TAAAATCACTATTTTTCCTTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
71594034 TAAAATGACTGTTTTACCCTTATAAGA
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
71594061 TAAAATGACTGTTTTGCCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
71594088 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
71594115 TAAATTGACTATTTTGGCCTTAT
1 TAAAATGACTGTTTTGCCCTTAT
71594138 ATTTTGGCCT
Statistics
Matches: 134, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:71594130 original size:54 final size:54
Alignment explanation
Indices: 71593953--71594286 Score: 260
Period size: 54 Copynumber: 5.9 Consensus size: 54
71593943 CCTTAATCAA
* * * *
71593953 TAAAATGATTATTTTTCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCTTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGG
* * * * *
71594007 TAAAATCACTATTTTTCCTTTATGGGGTAAAATGACTGTTTTACCCTTATAAGA
1 TAAAATGACTATTTTGCCTTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGG
* *
71594061 TAAAATGACTGTTTTGCCTTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTATTTTGCCTTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGG
* * * *
71594115 TAAATTGACTATTTTGGCCTTATATTTTGGCCTTATGGGGTAAAATGATTATTTTACCCTTATGA
1 TAAAATGACTATTTT-GCC--------T----TTATGGGGTAAAATGACTGTTTTGCCCTTATGA
71594180 GG
53 GG
* * * ** * * *
71594182 TAAAATGACTGTTTTGCCCTAATATGGTAAGATGATTGTTTTGCCCTT-TTATGG
1 TAAAATGACTATTTTGCCTTTATGGGGTAAAATGACTGTTTTGCCCTTATGA-GG
* * * *
71594236 TAAGATGACTGTTTTGCCCTTTTAT--GGTAAGATGACTGTTTTACCCTTATG
1 TAAAATGACTATTTTG-CC-TTTATGGGGTAAAATGACTGTTTTGCCCTTATG
71594287 TGATGTATGT
Statistics
Matches: 227, Mismatches: 36, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
53 2 0.01
54 168 0.74
55 6 0.03
56 3 0.01
63 1 0.00
66 3 0.01
67 44 0.19
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (54 bp):
TAAAATGACTATTTTGCCTTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGG
Found at i:71594142 original size:13 final size:13
Alignment explanation
Indices: 71594124--71594150 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71594114 GTAAATTGAC
71594124 TATTTTGGCCTTA
1 TATTTTGGCCTTA
71594137 TATTTTGGCCTTA
1 TATTTTGGCCTTA
71594150 T
1 T
71594151 GGGGTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTTTGGCCTTA
Found at i:71594176 original size:40 final size:40
Alignment explanation
Indices: 71594099--71594177 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
71594089 AAAATGACTG
* **
71594099 TTTTGCCCTTATGAGGTAAATTGACTATTTTGGCCTTATA
1 TTTTGCCCTTATGAGGTAAAATGACTATTTTACCCTTATA
* * *
71594139 TTTTGGCCTTATGGGGTAAAATGATTATTTTACCCTTAT
1 TTTTGCCCTTATGAGGTAAAATGACTATTTTACCCTTAT
71594178 GAGGTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (40 bp):
TTTTGCCCTTATGAGGTAAAATGACTATTTTACCCTTATA
Found at i:71594180 original size:67 final size:67
Alignment explanation
Indices: 71594072--71594206 Score: 182
Period size: 67 Copynumber: 2.0 Consensus size: 67
71594062 AAAATGACTG
* * * * *
71594072 TTTTGCCTTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGGTAAATTGACTATTTTGGCCTTA
1 TTTTGCCTTTATGAGGTAAAATGACTATTTTACCCTTATGAGGTAAAATGACTATTTTGCCCTAA
71594137 TA
66 TA
* * *
71594139 TTTTGGCC-TTATGGGGTAAAATGATTATTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTA
1 TTTT-GCCTTTATGAGGTAAAATGACTATTTTACCCTTATGAGGTAAAATGACTATTTTGCCCTA
71594203 ATA
65 ATA
71594206 T
1 T
71594207 GGTAAGATGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
67 56 0.95
68 3 0.05
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (67 bp):
TTTTGCCTTTATGAGGTAAAATGACTATTTTACCCTTATGAGGTAAAATGACTATTTTGCCCTAA
TA
Found at i:71594196 original size:27 final size:28
Alignment explanation
Indices: 71594139--71594286 Score: 153
Period size: 27 Copynumber: 5.5 Consensus size: 28
71594129 TGGCCTTATA
* * * * *
71594139 TTTTGGCCTTATG-GGGTAAAATGATTA
1 TTTTGCCCTTATGATGGTAAGATGACTG
* *
71594166 TTTTACCCTTATGA-GGTAAAATGACTG
1 TTTTGCCCTTATGATGGTAAGATGACTG
* *
71594193 TTTTGCCCTAAT-ATGGTAAGATGATTG
1 TTTTGCCCTTATGATGGTAAGATGACTG
*
71594220 TTTTGCCCTT-TTATGGTAAGATGACTG
1 TTTTGCCCTTATGATGGTAAGATGACTG
*
71594247 TTTTGCCCTT-TTATGGTAAGATGACTG
1 TTTTGCCCTTATGATGGTAAGATGACTG
*
71594274 TTTTACCCTTATG
1 TTTTGCCCTTATG
71594287 TGATGTATGT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 102 0.97
28 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.43
Consensus pattern (28 bp):
TTTTGCCCTTATGATGGTAAGATGACTG
Found at i:71594238 original size:121 final size:121
Alignment explanation
Indices: 71594026--71594256 Score: 315
Period size: 121 Copynumber: 1.9 Consensus size: 121
71594016 TATTTTTCCT
* * *
71594026 TTATGGGGTAAAATGACTGTTTTACCCTTATAAGATAAAATGACTGTTTTGCCTTTATGAGGTAA
1 TTATGGGGTAAAATGACTATTTTACCCTTATAAGATAAAATGACTGTTTTGCCCTAATGAGGTAA
*
71594091 AATGACTGTTTTGCCCTTATGAGGTAA-ATTGACTATTTTGGCCTTATATTTTGGCC
66 AATGACTGTTTTGCCCTTATGAGGTAAGA-TGACTATTTTGCCCTTATATTTTGGCC
* * *
71594147 TTATGGGGTAAAATGATTATTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTAAT-ATGGTA
1 TTATGGGGTAAAATGACTATTTTACCCTTATAAGATAAAATGACTGTTTTGCCCTAATGA-GGTA
* * * *
71594211 AGATGATTGTTTTGCCCTT-TTATGGTAAGATGACTGTTTTGCCCTT
65 AAATGACTGTTTTGCCCTTATGA-GGTAAGATGACTATTTTGCCCTT
71594257 TTATGGTAAG
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
120 3 0.03
121 92 0.96
122 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (121 bp):
TTATGGGGTAAAATGACTATTTTACCCTTATAAGATAAAATGACTGTTTTGCCCTAATGAGGTAA
AATGACTGTTTTGCCCTTATGAGGTAAGATGACTATTTTGCCCTTATATTTTGGCC
Found at i:71594284 original size:148 final size:147
Alignment explanation
Indices: 71593991--71594285 Score: 362
Period size: 148 Copynumber: 2.0 Consensus size: 147
71593981 AAAATGACTG
* * * * *
71593991 TTTTGCCCTTATGTGGTAAAATCACTATTTTTCCTTTATGGGGTAAAATGACTGTTTTACCCTTA
1 TTTTGCCCTTATGGGGTAAAATCACTATTTTACCCTTATGAGGTAAAATGACTGTTTTACCCTAA
71594056 TAAGATAAAATGACTGTTTTGCCTTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGGTAAATT
66 TAAGATAAAATGACTGTTTTGCCTTTAT-AGGTAAAATGACTGTTTTGCCCTTATGAGGTAAATT
**
71594121 GACTATTTTGGCCTTATA
130 GACTATTTTACCCTTATA
* * * *
71594139 TTTTGGCCTTATGGGGTAAAATGATTATTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTAA
1 TTTTGCCCTTATGGGGTAAAATCACTATTTTACCCTTATGAGGTAAAATGACTGTTTTACCCTAA
* * * * * *
71594204 TATGGTAAGATGATTGTTTTGCCCTTT-TATGGTAAGATGACTGTTTTGCCCTT-TTATGGTAAG
66 TAAGATAAAATGACTGTTTTG-CCTTTATA-GGTAAAATGACTGTTTTGCCCTTATGA-GGTAA-
*
71594267 A-TGACTGTTTTACCCTTAT
127 ATTGACTATTTTACCCTTAT
71594286 GTGATGTATG
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
147 3 0.02
148 116 0.93
149 6 0.05
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (147 bp):
TTTTGCCCTTATGGGGTAAAATCACTATTTTACCCTTATGAGGTAAAATGACTGTTTTACCCTAA
TAAGATAAAATGACTGTTTTGCCTTTATAGGTAAAATGACTGTTTTGCCCTTATGAGGTAAATTG
ACTATTTTACCCTTATA
Found at i:71594608 original size:18 final size:18
Alignment explanation
Indices: 71594585--71594656 Score: 101
Period size: 18 Copynumber: 4.1 Consensus size: 18
71594575 GGACTTGCAT
*
71594585 ACTGTTTACTGTTACTAC
1 ACTGTTTACTGTTACTGC
*
71594603 ACTGTTTATTGTTACTGC
1 ACTGTTTACTGTTACTGC
*
71594621 ACTG-TTACTATTACTGC
1 ACTGTTTACTGTTACTGC
*
71594638 ACTATTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
71594656 A
1 A
71594657 TTGGGCCAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.30
18 33 0.70
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.44
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:71594635 original size:35 final size:36
Alignment explanation
Indices: 71594585--71594656 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
71594575 GGACTTGCAT
* * *
71594585 ACTGTTTACTGTTACTACACTGTTTATTGTTACTGC
1 ACTGTTTACTATTACTACACTATTTACTGTTACTGC
*
71594621 ACTG-TTACTATTACTGCACTATTTACTGTTACTGC
1 ACTGTTTACTATTACTACACTATTTACTGTTACTGC
71594656 A
1 A
71594657 TTGGGCCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.44
Consensus pattern (36 bp):
ACTGTTTACTATTACTACACTATTTACTGTTACTGC
Found at i:71597079 original size:30 final size:30
Alignment explanation
Indices: 71597043--71597143 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
71597033 GACAAGATTG
* * *
71597043 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
71597073 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
71597101 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
71597130 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71597144 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:71597155 original size:29 final size:28
Alignment explanation
Indices: 71597072--71597147 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
71597062 AAAATTGTAC
* *
71597072 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
71597100 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
71597129 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
71597148 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:71600994 original size:27 final size:27
Alignment explanation
Indices: 71600964--71601275 Score: 419
Period size: 27 Copynumber: 11.6 Consensus size: 27
71600954 CCTTAATTGA
* * *
71600964 TAAAATGACTATTTTTCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
71600991 TAAAATGATTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
71601018 TAAAATGACTATTTTACCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
71601045 TAAAATGACTGTTTTGCCCTTGTGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
71601072 TAAAATAACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
71601099 GAAAATGACTGGTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
71601126 TAAAATGATTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
71601153 TAAAATGATTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
71601180 TAAAATGATTATTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
71601207 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
71601234 TAAAATGACTGTTTTGCCCTT-TTATGG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
*
71601261 TAAGATGACTGTTTT
1 TAAAATGACTGTTTT
71601276 ACGCCTATGT
Statistics
Matches: 255, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 254 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:71601626 original size:18 final size:18
Alignment explanation
Indices: 71601603--71601658 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
71601593 GGACTTGCAT
71601603 ACTGTTTACTGTTACTAC
1 ACTGTTTACTGTTACTAC
*
71601621 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTAC
71601639 ACTG-TTACTGTTACTAC
1 ACTGTTTACTGTTACTAC
71601656 ACT
1 ACT
71601659 ACAATGGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 15 0.42
18 21 0.58
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (18 bp):
ACTGTTTACTGTTACTAC
Found at i:71609468 original size:42 final size:42
Alignment explanation
Indices: 71609404--71609487 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
71609394 CTAAAACATA
* * *
71609404 TGTAGCACCCCTCACCCGTATTCAA-TGTCAGAATAGGGTTAC
1 TGTAACACCCCTCACACGTATTCAACT-CCAGAATAGGGTTAC
*
71609446 TGTAACACCCCTCACACGTATTCAACTCCGGAATAGGGTTAC
1 TGTAACACCCCTCACACGTATTCAACTCCAGAATAGGGTTAC
71609488 GGTGCATTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTAACACCCCTCACACGTATTCAACTCCAGAATAGGGTTAC
Found at i:71627268 original size:15 final size:15
Alignment explanation
Indices: 71627250--71627280 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71627240 TCCAGGACAA
71627250 AGAAATCCAAGATAC
1 AGAAATCCAAGATAC
*
71627265 AGAAATCTAAGATAC
1 AGAAATCCAAGATAC
71627280 A
1 A
71627281 ATATCATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (15 bp):
AGAAATCCAAGATAC
Found at i:71640225 original size:40 final size:39
Alignment explanation
Indices: 71640062--71640201 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
71640052 GGACTAAGAT
*
71640062 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
*
71640101 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
* * *
71640140 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAG-C
71640180 CCGAAGGCATTCGTGCGAGTTA
1 CCGAAGGCATTCGTGCGAGTTA
71640202 CTATAACCGG
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 73 0.77
40 22 0.23
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
Found at i:71648055 original size:27 final size:27
Alignment explanation
Indices: 71648036--71648391 Score: 442
Period size: 27 Copynumber: 13.2 Consensus size: 27
71648026 ATTACCAAAA
* *
71648036 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
71648063 TACCCTCGATTTATAGAATTGCTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
71648090 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
71648117 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
71648144 TACCCTCAATTTTCAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * * *
71648171 TACCCTAGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
71648198 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
71648225 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
71648252 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
71648279 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
71648306 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
71648333 TACCCTCGATTTGCAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
71648360 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
71648387 TACCC
1 TACCC
71648392 CTAGGGTGTT
Statistics
Matches: 289, Mismatches: 40, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 289 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:71648148 original size:81 final size:81
Alignment explanation
Indices: 71648036--71648391 Score: 489
Period size: 81 Copynumber: 4.4 Consensus size: 81
71648026 ATTACCAAAA
* * * * *
71648036 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTGCTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
*
71648101 TACAGAATTACCGTTT
66 TACAAAATTACCGTTT
* * * *
71648117 TACCCTCGATTTACAGAATTACTATTTTACCCTCAATTT-TCAGAATTACTATTTTACCCTAGAT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT-AGAATTACTATTTTACCCTCGAT
* *
71648181 TTATAAAATTATCGTTT
65 TTACAAAATTACCGTTT
* * * *
71648198 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
**
71648263 TACAAAATTACTATTT
66 TACAAAATTACCGTTT
* *
71648279 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
* *
71648344 TGCAGAATTACCGTTT
66 TACAAAATTACCGTTT
*
71648360 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTATAGAATTACCATTTTACCC
71648392 CTAGGGTGTT
Statistics
Matches: 239, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
80 1 0.00
81 238 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
TACAAAATTACCGTTT
Found at i:71659462 original size:27 final size:27
Alignment explanation
Indices: 71659432--71659604 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
71659422 CATACCTGAA
*
71659432 CCCTCATGTGATAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACAATTTTG
71659459 CCCTCATGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACAATTTTG
*
71659486 CCCTCACGTG-----AT-ACAATTTTG
1 CCCTCATGTGATAAAATGACAATTTTG
* * ** *
71659507 CCCTAACGTGATAAAATGATGATTTTT
1 CCCTCATGTGATAAAATGACAATTTTG
* ** *
71659534 CCCTTATGTGATAAAATGATGATTTTT
1 CCCTCATGTGATAAAATGACAATTTTG
*
71659561 CCCTAATGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACAATTTTG
* *
71659588 CCTTTATGTGATAAAAT
1 CCCTCATGTGATAAAAT
71659605 AACCGAAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
21 18 0.14
22 2 0.02
26 2 0.02
27 104 0.83
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACAATTTTG
Found at i:71659497 original size:54 final size:54
Alignment explanation
Indices: 71659432--71659604 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
71659422 CATACCTGAA
*
71659432 CCCTCATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTGCCCTAATGTGATAAAATGACAATTTTG
* * * ** *
71659486 CCCTCACGTG-----AT-ACAATTTTGCCCTAACGTGATAAAATGATGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTGCCCTAATGTGATAAAATGACAATTTTG
* * *
71659534 CCCTTATGTGATAAAATGATGATTTTTCCCTAATGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTGCCCTAATGTGATAAAATGACAATTTTG
* *
71659588 CCTTTATGTGATAAAAT
1 CCCTCATGTGATAAAAT
71659605 AACCGAAATA
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
48 38 0.40
49 2 0.02
53 2 0.02
54 54 0.56
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (54 bp):
CCCTCATGTGATAAAATGACGATTTTGCCCTAATGTGATAAAATGACAATTTTG
Found at i:71659503 original size:21 final size:21
Alignment explanation
Indices: 71659477--71659519 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
71659467 TGATAAAATG
*
71659477 ACAATTTTGCCCTCACGTGAT
1 ACAATTTTGCCCTAACGTGAT
71659498 ACAATTTTGCCCTAACGTGAT
1 ACAATTTTGCCCTAACGTGAT
71659519 A
1 A
71659520 AAATGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (21 bp):
ACAATTTTGCCCTAACGTGAT
Found at i:71659524 original size:48 final size:51
Alignment explanation
Indices: 71659452--71659589 Score: 147
Period size: 48 Copynumber: 2.7 Consensus size: 51
71659442 ATAAAATGAC
*
71659452 GATTTTGCCCTCATGTGATAAAATGACAATTTTGCCCTCACGTGAT-A-CA
1 GATTTTGCCCTAATGTGATAAAATGACAATTTTGCCCTCACGTGATAATCA
* ** * * * *
71659501 -ATTTTGCCCTAACGTGATAAAATGATGATTTTTCCCTTATGTGATAAAATGA
1 GATTTTGCCCTAATGTGATAAAATGACAATTTTGCCCTCACGTGAT--AATCA
*
71659553 TGATTTTTCCCTAATGTGATAAAATGACAATTTTGCC
1 -GATTTTGCCCTAATGTGATAAAATGACAATTTTGCC
71659590 TTTATGTGAT
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
48 38 0.54
51 1 0.01
52 1 0.01
54 30 0.43
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (51 bp):
GATTTTGCCCTAATGTGATAAAATGACAATTTTGCCCTCACGTGATAATCA
Found at i:71660026 original size:18 final size:19
Alignment explanation
Indices: 71659999--71660048 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
71659989 TATTTGCATT
*
71659999 CTGCACTGATTACT-GCTA
1 CTGCATTGATTACTGGCTA
* *
71660017 CTGCATTGATCA-TGGTTA
1 CTGCATTGATTACTGGCTA
71660035 CTGCATTGATTACT
1 CTGCATTGATTACT
71660049 ACCACTGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (19 bp):
CTGCATTGATTACTGGCTA
Done.