Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 100 of 433
Found at i:30546836 original size:32 final size:31
Alignment explanation
Indices: 30546790--30546860 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
30546780 TTTATATTAA
30546790 ATAAATTATATTTTTAGTCACTTAATTATAC
1 ATAAATTATATTTTTAGTCACTTAATTATAC
* * *
30546821 ATAAATTTTTATTTTTGGTCATTTAATTATA-
1 ATAAA-TTATATTTTTAGTCACTTAATTATAC
30546852 A-AAATTATA
1 ATAAATTATA
30546861 ATTTAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 3 0.09
31 6 0.17
32 22 0.63
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (31 bp):
ATAAATTATATTTTTAGTCACTTAATTATAC
Found at i:30549540 original size:18 final size:19
Alignment explanation
Indices: 30549491--30549543 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
30549481 GAACAATTTC
* *
30549491 TCAAGAATTTCAATATGCT
1 TCAAGAATTTTAATATCCT
* * *
30549510 TCTAGCATCTTAA-ATCCT
1 TCAAGAATTTTAATATCCT
30549528 TCAAGAATTTTAATAT
1 TCAAGAATTTTAATAT
30549544 AAACTTTACT
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (19 bp):
TCAAGAATTTTAATATCCT
Found at i:30550626 original size:3 final size:3
Alignment explanation
Indices: 30550620--30550701 Score: 114
Period size: 3 Copynumber: 27.7 Consensus size: 3
30550610 AAATCTAAGA
* **
30550620 TAT TAT TAT TAT TAT TAAT TAT TAG TAT GGT T-T TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30550664 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30550702 ATAAGTTAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
2 4 0.06
3 64 0.90
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:30551045 original size:8 final size:8
Alignment explanation
Indices: 30551032--30551058 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30551022 TAATTAAGTA
30551032 AATAAAAG
1 AATAAAAG
30551040 AATAAAAG
1 AATAAAAG
30551048 AATAAAAG
1 AATAAAAG
30551056 AAT
1 AAT
30551059 GAAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (8 bp):
AATAAAAG
Found at i:30554950 original size:16 final size:17
Alignment explanation
Indices: 30554928--30554967 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 17
30554918 AATTAAAATT
30554928 TCAAGAATATTTAATAA
1 TCAAGAATATTTAATAA
30554945 -CAAG-A-ATTTAATAA
1 TCAAGAATATTTAATAA
30554959 TCAA-AATAT
1 TCAAGAATAT
30554968 CTAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.45
15 5 0.25
16 6 0.30
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (17 bp):
TCAAGAATATTTAATAA
Found at i:30556514 original size:21 final size:20
Alignment explanation
Indices: 30556470--30556515 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
30556460 TTTCGCATGC
30556470 TTATAATTTTAAAAATAGCTT
1 TTATAATTTTAAAAATAGC-T
30556491 TTATAATTTTCAAAAAATAG-T
1 TTATAATTTT--AAAAATAGCT
30556512 TTAT
1 TTAT
30556516 GATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.65
23 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
TTATAATTTTAAAAATAGCT
Found at i:30561271 original size:26 final size:27
Alignment explanation
Indices: 30561242--30561295 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
30561232 TCAAACATGC
30561242 ATTTAGGTCAATTTAAC-CCT-AGGGGT
1 ATTTAGGT-AATTTAACTCCTAAGGGGT
* *
30561268 ATTTTGGTAATTTATCTCCTAAGGGGT
1 ATTTAGGTAATTTAACTCCTAAGGGGT
30561295 A
1 A
30561296 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 10 0.42
27 7 0.29
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (27 bp):
ATTTAGGTAATTTAACTCCTAAGGGGT
Found at i:30562419 original size:37 final size:37
Alignment explanation
Indices: 30562357--30562575 Score: 357
Period size: 37 Copynumber: 5.9 Consensus size: 37
30562347 GCTCAGACGA
* * *
30562357 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
30562394 AATCTCCACACGTAGTCATCAGGTCTAACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
30562431 ACTCTCCACACATAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
30562468 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
30562505 AATCTCCACACGTAGTCATCGGGTCTCACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
30562542 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30562576 ATATATTTCC
Statistics
Matches: 170, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 170 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:30562790 original size:47 final size:47
Alignment explanation
Indices: 30562738--30563017 Score: 443
Period size: 47 Copynumber: 6.0 Consensus size: 47
30562728 TTTCACACTA
* * * *
30562738 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
30562785 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
30562832 GCCATTCGGCCTTATCACATATATGCATGTTCACGTTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
30562879 GCCATTCGGCCTTATCACATATATGCATGTTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
30562926 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
30562973 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
30563018 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:30562802 original size:25 final size:25
Alignment explanation
Indices: 30562774--30562849 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
30562764 ATGTTCATAT
30562774 TCACCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
* * *
30562799 TCA-CACATAT-G-CATGC-TCACGT-
1 TCACCACAT-TGGCCATTCGGC-CTTA
*
30562821 TCATCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
30562846 TCAC
1 TCAC
30562850 ATATATGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 5 0.14
23 12 0.32
24 12 0.32
25 8 0.22
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGGCCTTA
Found at i:30566936 original size:26 final size:26
Alignment explanation
Indices: 30566897--30567004 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
30566887 TGAAATGCCC
* *
30566897 ATCATGGAACATTTACCTAAACAATT
1 ATCATGGAACATTTACCTAACCCATT
*
30566923 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30566949 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
30566975 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30567001 ATCA
1 ATCA
30567005 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30575038 original size:26 final size:26
Alignment explanation
Indices: 30575007--30575114 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
30574997 TGAAATGGCC
30575007 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
30575033 ATCATGGAATATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
30575059 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
30575085 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
30575111 ATCA
1 ATCA
30575115 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 3 0.04
26 72 0.94
27 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:30578284 original size:25 final size:25
Alignment explanation
Indices: 30578245--30578326 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
30578235 ATGTAAATTA
* * *
30578245 GAAGCTCTTCCGAGCCATATAACGG
1 GAAGCTCATACGAGCTATATAACGG
**
30578270 GAAGCTCATGTGAGCTA-AGTAACGG
1 GAAGCTCATACGAGCTATA-TAACGG
* *
30578295 GAAGCTCATACGAGCTGTATATCGG
1 GAAGCTCATACGAGCTATATAACGG
30578320 GAAGCTC
1 GAAGCTC
30578327 TTTCGAGCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (25 bp):
GAAGCTCATACGAGCTATATAACGG
Found at i:30578341 original size:25 final size:25
Alignment explanation
Indices: 30578245--30578373 Score: 80
Period size: 25 Copynumber: 5.2 Consensus size: 25
30578235 ATGTAAATTA
* * *
30578245 GAAGCTCTTCCGAGCCATATAACGG
1 GAAGCTCTTACGAGCCAAATATCGG
* ** * * *
30578270 GAAGCTCATGTGAGCTAAGTAACGG
1 GAAGCTCTTACGAGCCAAATATCGG
* ***
30578295 GAAGCTCATACGAGCTGTATATCGG
1 GAAGCTCTTACGAGCCAAATATCGG
* **
30578320 GAAGCTCTTTCGAGCCAAATATCAA
1 GAAGCTCTTACGAGCCAAATATCGG
* *
30578345 GAAGCT-TATAAGAGCCAAGTATCGG
1 GAAGCTCT-TACGAGCCAAATATCGG
30578370 GAAG
1 GAAG
30578374 TTCAAGTGAG
Statistics
Matches: 79, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
24 1 0.01
25 78 0.99
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (25 bp):
GAAGCTCTTACGAGCCAAATATCGG
Found at i:30583598 original size:25 final size:25
Alignment explanation
Indices: 30583535--30583687 Score: 242
Period size: 25 Copynumber: 6.2 Consensus size: 25
30583525 CATGAAATCC
30583535 ATCATGGAACATTTACCT--CCATT
1 ATCATGGAACATTTACCTAACCATT
30583558 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
30583584 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
*
30583609 ATCATGGAATATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
30583634 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
30583660 ATCAT-GAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
30583684 ATCA
1 ATCA
30583688 ATTTGTATCA
Statistics
Matches: 123, Mismatches: 2, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
23 18 0.15
24 9 0.07
25 63 0.51
26 33 0.27
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:30583615 original size:51 final size:51
Alignment explanation
Indices: 30583535--30583687 Score: 253
Period size: 51 Copynumber: 3.1 Consensus size: 51
30583525 CATGAAATCC
30583535 ATCATGGAACATTTACCT---CCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAA-CCATT
*
30583584 ATCAT-GAACATTTACCTAACCCATTATCATGGAATATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCATT
30583634 ATCATGGAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCATT
30583684 ATCA
1 ATCA
30583688 ATTTGTATCA
Statistics
Matches: 98, Mismatches: 2, Indels: 7
0.92 0.02 0.07
Matches are distributed among these distances:
48 12 0.12
49 5 0.05
50 32 0.33
51 49 0.50
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (51 bp):
ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCATT
Found at i:30583645 original size:76 final size:73
Alignment explanation
Indices: 30583535--30583687 Score: 270
Period size: 76 Copynumber: 2.1 Consensus size: 73
30583525 CATGAAATCC
30583535 ATCATGGAACATTTACCTCCATTATCATGGAACATTTACCTAACCCATTATCATGAACATTTACC
1 ATCATGGAACATTTACCTCCATTATCATGGAACATTTACCTAACCCATTATCATGAACATTTACC
30583600 TAACCCATT
66 TAA-CCATT
*
30583609 ATCATGGAATATTTACCTAACCATTATCATGGAACATTTACCTAACCCATTATCATGAACATTTA
1 ATCATGGAACATTTACCT--CCATTATCATGGAACATTTACCTAACCCATTATCATGAACATTTA
30583674 CCTAACCATT
64 CCTAACCATT
30583684 ATCA
1 ATCA
30583688 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
74 17 0.22
75 9 0.12
76 50 0.66
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (73 bp):
ATCATGGAACATTTACCTCCATTATCATGGAACATTTACCTAACCCATTATCATGAACATTTACC
TAACCATT
Found at i:30588568 original size:12 final size:12
Alignment explanation
Indices: 30588551--30588581 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30588541 AGTACTACCT
30588551 CGGCCTCGACCA
1 CGGCCTCGACCA
30588563 CGGCCTCGACCA
1 CGGCCTCGACCA
30588575 CGGCCTC
1 CGGCCTC
30588582 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:30590084 original size:136 final size:137
Alignment explanation
Indices: 30589850--30590124 Score: 498
Period size: 136 Copynumber: 2.0 Consensus size: 137
30589840 AGCCTATTCA
* * *
30589850 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGCGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATT
*
30589915 CAGATAACAGTATGACCCATAGGCCTATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
30589980 CCATTTG
131 CCATTTG
30589987 GGTAACAGCGGTACTAGGCCAGAGCCCTTTTCAGATTACAAT-AACTAGGCCTTAGCCCCTTATT
1 GGTAACAGCGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATT
*
30590051 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
30590116 CCATTTG
131 CCATTTG
30590123 GG
1 GG
30590125 GAGACTACTC
Statistics
Matches: 133, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
136 93 0.70
137 40 0.30
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGCGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATT
CAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
CCATTTG
Found at i:30591935 original size:26 final size:26
Alignment explanation
Indices: 30591904--30592044 Score: 255
Period size: 26 Copynumber: 5.4 Consensus size: 26
30591894 TGAAATGCCC
*
30591904 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
30591930 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30591956 ATTATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30591982 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30592008 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30592034 ATCATGGAACA
1 ATCATGGAACA
30592045 ATTATCAATT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 110 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30596037 original size:22 final size:22
Alignment explanation
Indices: 30596011--30596058 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
30596001 ATATAATAGT
*
30596011 AAAATAACAGCAAAACAGTGAA
1 AAAATAACAGCAAAACAATGAA
* *
30596033 AAAATAACAGTAAAACAATGGA
1 AAAATAACAGCAAAACAATGAA
30596055 AAAA
1 AAAA
30596059 CAATAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAATAACAGCAAAACAATGAA
Found at i:30596066 original size:22 final size:22
Alignment explanation
Indices: 30596011--30596066 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
30596001 ATATAATAGT
* * *
30596011 AAAATAACAGCAAAACAGTGAA
1 AAAACAACAGTAAAACAATGAA
* *
30596033 AAAATAACAGTAAAACAATGGA
1 AAAACAACAGTAAAACAATGAA
*
30596055 AAAACAATAGTA
1 AAAACAACAGTA
30596067 TTAAAATCCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.64, C:0.11, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAACAACAGTAAAACAATGAA
Found at i:30602304 original size:11 final size:11
Alignment explanation
Indices: 30602290--30602353 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
30602280 TTTTTTTTAA
30602290 TATTATTTTCT
1 TATTATTTTCT
30602301 TATTATTTTCT
1 TATTATTTTCT
**
30602312 CCTTATTTTAC-
1 TATTATTTT-CT
30602323 TATTATTTTAC-
1 TATTATTTT-CT
* *
30602334 TATTATGTTGT
1 TATTATTTTCT
*
30602345 TACTATTTT
1 TATTATTTT
30602354 GTTGTTATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 42 0.98
12 1 0.02
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.66
Consensus pattern (11 bp):
TATTATTTTCT
Found at i:30602309 original size:22 final size:22
Alignment explanation
Indices: 30602284--30602353 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
30602274 TCTTTTTTTT
*
30602284 TTTTAATATTATTTTCTTATTA
1 TTTTACTATTATTTTCTTATTA
*
30602306 TTTT-CTCCTTATTTTAC-TATTA
1 TTTTACT-ATTATTTT-CTTATTA
* * *
30602328 TTTTACTATTATGTTGTTACTA
1 TTTTACTATTATTTTCTTATTA
30602350 TTTT
1 TTTT
30602354 GTTGTTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
21 1 0.03
22 34 0.89
23 3 0.08
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.66
Consensus pattern (22 bp):
TTTTACTATTATTTTCTTATTA
Found at i:30602349 original size:14 final size:14
Alignment explanation
Indices: 30602319--30602365 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
30602309 TCTCCTTATT
30602319 TTACTATTA--TT-
1 TTACTATTATGTTG
30602330 TTACTATTATGTTG
1 TTACTATTATGTTG
*
30602344 TTACTATTTTGTTG
1 TTACTATTATGTTG
*
30602358 TTATTATT
1 TTACTATT
30602366 TGAATATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 9 0.29
13 2 0.06
14 20 0.65
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.64
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:30602366 original size:14 final size:14
Alignment explanation
Indices: 30602330--30602366 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
30602320 TACTATTATT
*
30602330 TTACTATTATGTTG
1 TTACTATTTTGTTG
30602344 TTACTATTTTGTTG
1 TTACTATTTTGTTG
*
30602358 TTATTATTT
1 TTACTATTT
30602367 GAATATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.11, T:0.65
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:30603130 original size:19 final size:18
Alignment explanation
Indices: 30603089--30603132 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
30603079 AATTTTAAAA
*
30603089 ATTT-AAAAAATATAATT
1 ATTTAAAAAAATAAAATT
30603106 ATTTTAAAAAAATTAAAATT
1 A-TTTAAAAAAA-TAAAATT
30603126 ATTTAAA
1 ATTTAAA
30603133 CAAGTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 3 0.13
19 12 0.52
20 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTAAAAAAATAAAATT
Found at i:30603747 original size:107 final size:107
Alignment explanation
Indices: 30603608--30603819 Score: 381
Period size: 107 Copynumber: 2.0 Consensus size: 107
30603598 AAGAAGTATA
*
30603608 ATAGAAGTAGAGATCTATTCTAATAACTATTAGAATTTAAAGTATATTAAAACTTTATCTTGA-T
1 ATAGAAGTAGAGATCTATTCTAATAACTATTAGAATTTAAAGTACATTAAAACTTTATCTTGACT
*
30603672 CATGATGGACATCCACTTAATAAGATATTCATAATACTCCCTC
66 -ATGATGGACATCCACTTAATAAGATATTCATAACACTCCCTC
*
30603715 ATAGAAGTAGAGATCTATTCTAGTAACTATTAGAATTTAAAGTACATTAAAACTTTATCTTGACT
1 ATAGAAGTAGAGATCTATTCTAATAACTATTAGAATTTAAAGTACATTAAAACTTTATCTTGACT
30603780 ATGATGGACATCCACTTAATAAGATATTCATAACACTCCC
66 ATGATGGACATCCACTTAATAAGATATTCATAACACTCCC
30603820 CCTTGGATGT
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
107 100 0.99
108 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (107 bp):
ATAGAAGTAGAGATCTATTCTAATAACTATTAGAATTTAAAGTACATTAAAACTTTATCTTGACT
ATGATGGACATCCACTTAATAAGATATTCATAACACTCCCTC
Found at i:30607703 original size:43 final size:43
Alignment explanation
Indices: 30607560--30607703 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
30607550 TCTTGGGCTC
* * * **
30607560 AAGAACATGACCTTTAGCGGCGATTTTCCCACAAACGCCATTA
1 AAGAACATGACCTTTAACGACGCTTTTCCCACAAACGCCGCTA
* *
30607603 AAGAACATGACCTTT-A-GTAGCGCTTTT-CAAAAAACG-CGCTA
1 AAGAACATGACCTTTAACG-A-CGCTTTTCCCACAAACGCCGCTA
* *
30607644 AAGAGCATAACCTTTAACGACGCTTTTCCCACAAACGCCGCTA
1 AAGAACATGACCTTTAACGACGCTTTTCCCACAAACGCCGCTA
30607687 AAGAACATGACCTTTAA
1 AAGAACATGACCTTTAA
30607704 TAAGAAAAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
41 24 0.29
42 16 0.20
43 42 0.51
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (43 bp):
AAGAACATGACCTTTAACGACGCTTTTCCCACAAACGCCGCTA
Found at i:30608004 original size:29 final size:31
Alignment explanation
Indices: 30607942--30608020 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 31
30607932 TCTTAAATAT
30607942 TAAAATAAA-AATAAAAATATAGAATCAAAAC
1 TAAAATAAATAAT-AAAATATAGAATCAAAAC
* *
30607973 TAAAATAAATAATAAAAT-TAG-ATTAAATC
1 TAAAATAAATAATAAAATATAGAATCAAAAC
*
30608002 TAAAA-ATATAAATAAAATA
1 TAAAATAAAT-AATAAAATA
30608021 CAGCAAGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.07
29 19 0.45
30 3 0.07
31 14 0.33
32 3 0.07
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (31 bp):
TAAAATAAATAATAAAATATAGAATCAAAAC
Found at i:30613064 original size:7 final size:7
Alignment explanation
Indices: 30613052--30613099 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
30613042 ACTTATTACT
30613052 CTAAACC
1 CTAAACC
30613059 CTAAACCC
1 CTAAA-CC
*
30613067 CTAACCC
1 CTAAACC
*
30613074 CTAACCC
1 CTAAACC
**
30613081 CTATCCC
1 CTAAACC
30613088 CTAAACC
1 CTAAACC
30613095 CTAAA
1 CTAAA
30613100 TTATAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.35, C:0.48, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:30613075 original size:15 final size:15
Alignment explanation
Indices: 30613052--30613095 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
30613042 ACTTATTACT
*
30613052 CTAAACCCTAAACCC
1 CTAACCCCTAAACCC
30613067 CTAACCCCT-AACCC
1 CTAACCCCTAAACCC
*
30613081 CTATCCCCTAAACCC
1 CTAACCCCTAAACCC
30613096 TAAATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:30613080 original size:21 final size:21
Alignment explanation
Indices: 30613053--30613099 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30613043 CTTATTACTC
30613053 TAAACCCTAAACCCCTAACCCC
1 TAAACCCT-AACCCCTAACCCC
* * *
30613075 TAACCCCTATCCCCTAAACCC
1 TAAACCCTAACCCCTAACCCC
30613096 TAAA
1 TAAA
30613100 TTATAAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAACCCCTAACCCC
Found at i:30613537 original size:37 final size:38
Alignment explanation
Indices: 30613487--30613587 Score: 141
Period size: 37 Copynumber: 2.6 Consensus size: 38
30613477 TTTTTCGGCA
*
30613487 TTTTTCAAAAAGCGCCGCTAATGGTCGACCTAT-AGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAAGCG
** *
30613524 TTTTTTTAAAAGCGCCGCTAATGCTCGATCTATAGCAGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA--AGCG
30613564 TTTTTCAAAAAGCGCCGCTAATGC
1 TTTTTCAAAAAGCGCCGCTAATGC
30613588 CACTAAACCT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 29 0.53
40 26 0.47
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (38 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAAGCG
Found at i:30613697 original size:40 final size:39
Alignment explanation
Indices: 30613625--30613749 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 39
30613615 TTTGTGGAAG
* *
30613625 TTTTCAAAAAGTGCCGCTAATAG-TCGAGCTATAGCGGCATT
1 TTTTC-AAAAGCGCCGCTAAT-GCTCGATCTATAGCGGC-TT
* *
30613666 TTTTGAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGT
1 TTTTCAAAAGCGCCGCTAATGCTCGATCTATAGCGGCTT
* * *
30613705 TTTTCAAGAAGCGCCACTAATGCTCGATCTTTAGCAGCGTT
1 TTTTCAA-AAGCGCCGCTAATGCTCGATCTATAGCGGC-TT
30613746 TTTT
1 TTTT
30613750 ATCCAAACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 8 0.11
40 55 0.76
41 9 0.12
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (39 bp):
TTTTCAAAAGCGCCGCTAATGCTCGATCTATAGCGGCTT
Found at i:30615290 original size:45 final size:47
Alignment explanation
Indices: 30615214--30615307 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 47
30615204 CTTGACCACA
* * * *
30615214 TATAAATAAATAATAATAAATATTGTGTAATTTATTTAAA-A-TTAG
1 TATAAATAAATAATAATAAATACTATATAATTTAATTAAATATTTAG
* * *
30615259 TATAAATAATTTATAATAAATGCTATATAATTTAATTAAATATTTAG
1 TATAAATAAATAATAATAAATACTATATAATTTAATTAAATATTTAG
30615306 TA
1 TA
30615308 GGCTAAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 33 0.82
46 1 0.03
47 6 0.15
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (47 bp):
TATAAATAAATAATAATAAATACTATATAATTTAATTAAATATTTAG
Found at i:30618043 original size:67 final size:67
Alignment explanation
Indices: 30617870--30618035 Score: 219
Period size: 67 Copynumber: 2.5 Consensus size: 67
30617860 AAGCCATGGG
* * * *
30617870 CTTACACCTTGATCCTTATGTTTAATGTCCTGGTAAACTCTGTTGGATGCCATAGTCGAGCTATG
1 CTTACACCTTAATCCCTATGTTTAATGTCCTGGTAGACTCTGTTGGATGCCATAGTCGAGCTATA
30617935 AT
66 AT
* * *
30617937 CTTACA-CTTGAATCCTCT-TGTTTAATGTCTTGGTTGACTCTGTTGGATGCCATAGTCGAGTTA
1 CTTACACCTT-AATCC-CTATGTTTAATGTCCTGGTAGACTCTGTTGGATGCCATAGTCGAGCTA
30618000 TAAT
64 TAAT
* *
30618004 CTTAAACCTTAATCCCTATGTTTAATATCCTG
1 CTTACACCTTAATCCCTATGTTTAATGTCCTG
30618036 ATGGACTCCA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
66 5 0.06
67 76 0.89
68 4 0.05
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (67 bp):
CTTACACCTTAATCCCTATGTTTAATGTCCTGGTAGACTCTGTTGGATGCCATAGTCGAGCTATA
AT
Found at i:30618057 original size:67 final size:67
Alignment explanation
Indices: 30617912--30618057 Score: 152
Period size: 67 Copynumber: 2.2 Consensus size: 67
30617902 GTAAACTCTG
* * * * * * *
30617912 TTGGATGCCATAGTCGAGCTATGATCTTACACTTGAATCCTCTTGTTTAATGTCTTGGTTGACTC
1 TTGGATACCATAGTCGAGCTATAATCTTAAACTTGAATCCTCTTGTTTAATATCCTGATGGACTC
**
30617977 TG
66 CA
* *
30617979 TTGGATGCCATAGTCGAGTTATAATCTTAAACCTT-AATCC-CTATGTTTAATATCCTGATGGAC
1 TTGGATACCATAGTCGAGCTATAATCTTAAA-CTTGAATCCTCT-TGTTTAATATCCTGATGGAC
30618042 TCCA
64 TCCA
*
30618046 TTGGTTACCATA
1 TTGGATACCATA
30618058 ACCTAACTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
66 2 0.03
67 61 0.92
68 3 0.05
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (67 bp):
TTGGATACCATAGTCGAGCTATAATCTTAAACTTGAATCCTCTTGTTTAATATCCTGATGGACTC
CA
Found at i:30618963 original size:2 final size:2
Alignment explanation
Indices: 30618950--30618985 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
30618940 CCTTTTTCAC
*
30618950 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30618986 CTCCTCTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30620794 original size:39 final size:38
Alignment explanation
Indices: 30620744--30620843 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 38
30620734 CGAATATAAC
* * *
30620744 AATTATAATTACCATAATTATAATAATGTTTGA-CCTAAA
1 AATTATAATTACAATAATTATAATAATATTCGATCCT--A
* *
30620783 AATTACAATTACAATAATTATAATAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCCTA
30620821 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
30620844 CAAGGATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
38 23 0.43
39 29 0.54
40 2 0.04
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCCTA
Found at i:30620901 original size:2 final size:2
Alignment explanation
Indices: 30620894--30620921 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30620884 AATCAAATTC
30620894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30620922 TAATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30623428 original size:14 final size:13
Alignment explanation
Indices: 30623399--30623428 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30623389 TACTATATAA
30623399 TTTTCTTTATAGT
1 TTTTCTTTATAGT
*
30623412 TTTTGTTTATAGT
1 TTTTCTTTATAGT
30623425 TTTT
1 TTTT
30623429 TTCTCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.73
Consensus pattern (13 bp):
TTTTCTTTATAGT
Found at i:30638222 original size:17 final size:17
Alignment explanation
Indices: 30638202--30638237 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30638192 TCTATAACAT
*
30638202 TTGCTATTTCAATAGCA
1 TTGCCATTTCAATAGCA
*
30638219 TTGCCATTTCAATATCA
1 TTGCCATTTCAATAGCA
30638236 TT
1 TT
30638238 TTCCATTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.44
Consensus pattern (17 bp):
TTGCCATTTCAATAGCA
Found at i:30640991 original size:31 final size:31
Alignment explanation
Indices: 30640956--30641032 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
30640946 CATAAAGGGA
* * *
30640956 CACACGCCCATGTAAGTGGGCCGTGTGGACT
1 CACACGCCCGTGTAAGTGGGCCATGTAGACT
*
30640987 CACACGCCCGTGTAGGTGGGCCATGTAGACT
1 CACACGCCCGTGTAAGTGGGCCATGTAGACT
*
30641018 CACACACCCGTGTAA
1 CACACGCCCGTGTAA
30641033 CTTGGGGCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (31 bp):
CACACGCCCGTGTAAGTGGGCCATGTAGACT
Found at i:30658593 original size:13 final size:13
Alignment explanation
Indices: 30658575--30658599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30658565 TAGAAGTAAT
30658575 AAGAAATATATAA
1 AAGAAATATATAA
30658588 AAGAAATATATA
1 AAGAAATATATA
30658600 CATACATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAGAAATATATAA
Found at i:30659114 original size:25 final size:25
Alignment explanation
Indices: 30659086--30659138 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
30659076 TAATACTATT
*
30659086 TAAAATATATGTACATGA-ATAATAA
1 TAAAAGATATGTACAT-ATATAATAA
* *
30659111 TAAAAGGTATGTATATATATAATAA
1 TAAAAGATATGTACATATATAATAA
30659136 TAA
1 TAA
30659139 TGGTATAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (25 bp):
TAAAAGATATGTACATATATAATAA
Found at i:30661502 original size:86 final size:86
Alignment explanation
Indices: 30661338--30661632 Score: 421
Period size: 86 Copynumber: 3.4 Consensus size: 86
30661328 TAGATTTGTA
* * * * * * *
30661338 AATTCAACCAGTTACCCTACTGTTTAGGGGATTAAGGTT-TGTCAATCTTTGATCTACTCCACTA
1 AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCT-TC-GTCTTCGATCTGCTCCACTA
*
30661402 CTGCTCAGGGAGATAAGATCTGC
64 CTGCTTAGGGAGATAAGATCTGC
30661425 AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
1 AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
30661490 GCTTAGGGAGATAAGATCTGC
66 GCTTAGGGAGATAAGATCTGC
*** *
30661511 AATTTGGTCTGTTTCCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
1 AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
30661576 GCTTAGGGAGATAAGATCTGC
66 GCTTAGGGAGATAAGATCTGC
*** *
30661597 AATTTGGTCTGTTTCCCTACTGCTTAGGGGTTTAAG
1 AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAG
30661633 ACCTGTAAAT
Statistics
Matches: 195, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
86 157 0.81
87 37 0.19
88 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (86 bp):
AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
GCTTAGGGAGATAAGATCTGC
Found at i:30661675 original size:129 final size:129
Alignment explanation
Indices: 30661525--30661761 Score: 402
Period size: 129 Copynumber: 1.8 Consensus size: 129
30661515 TGGTCTGTTT
*
30661525 CCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 CCCTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
*** * *
30661590 GATCTGCAATTTGGTCTGTTTCCCTACTGCTTAGGGGTTTAAGACCTGTAAATTCAACCAGTTA
66 GATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGACCTGTAAATTCAACCAGTTA
* *
30661654 CCCTACTGTTTAGGGGGTTAAGGTTTTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 CCCTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
30661719 GATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAG
66 GATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAG
30661762 GTTCTTCGTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 100 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (129 bp):
CCCTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
GATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGACCTGTAAATTCAACCAGTTA
Found at i:30661677 original size:215 final size:217
Alignment explanation
Indices: 30661425--30661891 Score: 769
Period size: 215 Copynumber: 2.2 Consensus size: 217
30661415 TAAGATCTGC
* *
30661425 AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
*** * *
30661490 GCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAGGGGTTTAAGGTTCTTCG
66 GCTTAGGGAGATAAGATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCTTCG
*
30661555 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGC
131 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTATTTCCCTACTGC
*
30661620 TTAGGGGTTTAAGA-CCTGT-A
196 TTAGGGGTTTAAGACCCTATGA
* * *
30661640 AATTCAACCAGTTACCCTACTGTTTAGGGGGTTAAGGTTTTTCGTCTTCGATCTGCTCCACTACT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
30661705 GCTTAGGGAGATAAGATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCTTCG
66 GCTTAGGGAGATAAGATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCTTCG
*
30661770 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTATTTCCCTATTGC
131 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTATTTCCCTACTGC
30661835 TTAGGGGTTTAAGACCCTATGA
196 TTAGGGGTTTAAGACCCTATGA
* *
30661857 ACA-TCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
1 A-ATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
30661892 AGCTTGGTGG
Statistics
Matches: 232, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
215 197 0.85
216 4 0.02
217 30 0.13
218 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (217 bp):
AATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACT
GCTTAGGGAGATAAGATCTGCAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCTTCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTATTTCCCTACTGC
TTAGGGGTTTAAGACCCTATGA
Found at i:30661705 original size:44 final size:44
Alignment explanation
Indices: 30661656--30661798 Score: 132
Period size: 44 Copynumber: 3.3 Consensus size: 44
30661646 ACCAGTTACC
* *
30661656 CTACTGTTTAGGGGGTTAAGGTTTTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCA
* * * * * * * **
30661700 CTACTGCTTAGGGAGATAA-GATCTGCAAT-TT-AACCTATTACC-
1 CTACTGCTTAGGGGGTTAAGGTTCTTC-GTCTTCGATCTGCT-CCA
*
30661742 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCA
30661786 CTACTGCTTAGGG
1 CTACTGCTTAGGG
30661799 AGATAAGATC
Statistics
Matches: 72, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
42 21 0.29
43 17 0.24
44 34 0.47
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
CTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCA
Found at i:30661761 original size:86 final size:86
Alignment explanation
Indices: 30661651--30661847 Score: 322
Period size: 86 Copynumber: 2.3 Consensus size: 86
30661641 ATTCAACCAG
* * *
30661651 TTACCCTACTGTTTAGGGGGTTAAGGTTTTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
30661716 TAAGATCTGCAATTTAACCTA
66 TAAGATCTGCAATTTAACCTA
30661737 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
***
30661802 TAAGATCTGCAATTTGGTCTA
66 TAAGATCTGCAATTTAACCTA
* *
30661823 TTTCCCTATTGCTTAGGGGTTTAAG
1 TTACCCTACTGCTTAGGGGTTTAAG
30661848 ACCCTATGAA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 103 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (86 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGCAATTTAACCTA
Found at i:30662131 original size:44 final size:44
Alignment explanation
Indices: 30662001--30662131 Score: 119
Period size: 44 Copynumber: 3.0 Consensus size: 44
30661991 TTTCAGCCTA
* * * *
30662001 TTACCCTACTACTTAGGGGGTTAAGGTCTGTAAAT-TTGGCT-TG
1 TTACCCTACTGCTTAGGGGG-TAAGATCTGTAAATCTTCGATCTG
* *
30662044 TTACCCTACTGCTTAGGGGGTCAAAGCTCAT-T--ATCTCCGATCTG
1 TTACCCTACTGCTTAGGGGGT--AAGATC-TGTAAATCTTCGATCTG
* *
30662088 TTTCCCTACTGCTTAGGGGGTAAGATCTGTAAATCTTCAATCTG
1 TTACCCTACTGCTTAGGGGGTAAGATCTGTAAATCTTCGATCTG
30662132 CTTCACTGCA
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.01
42 9 0.13
43 22 0.31
44 38 0.54
45 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGGTAAGATCTGTAAATCTTCGATCTG
Found at i:30674117 original size:13 final size:13
Alignment explanation
Indices: 30674099--30674123 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30674089 TAGAAGTAAT
30674099 AAGAAATATATAA
1 AAGAAATATATAA
30674112 AAGAAATATATA
1 AAGAAATATATA
30674124 CATACATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAGAAATATATAA
Found at i:30674632 original size:25 final size:25
Alignment explanation
Indices: 30674604--30674656 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
30674594 TAATACTATT
*
30674604 TAAAATATATGTACATGA-ATAATAA
1 TAAAAGATATGTACAT-ATATAATAA
* *
30674629 TAAAAGGTATGTATATATATAATAA
1 TAAAAGATATGTACATATATAATAA
30674654 TAA
1 TAA
30674657 TGGTATAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (25 bp):
TAAAAGATATGTACATATATAATAA
Found at i:30675463 original size:22 final size:23
Alignment explanation
Indices: 30675427--30675469 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
30675417 TTCGAAAAGA
30675427 GAAAAAAAGGTAAAA-AATAAAT
1 GAAAAAAAGGTAAAATAATAAAT
30675449 GAAAAAAAGCG-AAAATAATAA
1 GAAAAAAAG-GTAAAATAATAA
30675470 CACGATCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (23 bp):
GAAAAAAAGGTAAAATAATAAAT
Found at i:30679444 original size:18 final size:19
Alignment explanation
Indices: 30679407--30679445 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
30679397 TCTCAATTCC
*
30679407 CTTTTAATTTCTCACTCAA
1 CTTTTAATTCCTCACTCAA
*
30679426 CTTTT-ATTCCTCTCTCAA
1 CTTTTAATTCCTCACTCAA
30679444 CT
1 CT
30679446 CTCTCTCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.49
Consensus pattern (19 bp):
CTTTTAATTCCTCACTCAA
Found at i:30680564 original size:21 final size:21
Alignment explanation
Indices: 30680525--30680564 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30680515 AAAATAACAA
* *
30680525 TAAAATAGTAGCAATATATAG
1 TAAAATAGTAGAAAAATATAG
*
30680546 TAAAATGGTAGAAAAATAT
1 TAAAATAGTAGAAAAATAT
30680565 GGAGAAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.15, T:0.28
Consensus pattern (21 bp):
TAAAATAGTAGAAAAATATAG
Found at i:30685734 original size:5 final size:5
Alignment explanation
Indices: 30685724--30685771 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
30685714 CTTTTTTCCA
30685724 CATCC CATCC CATCC CATCC CATCC CATCC CATCC CATCC CATCC CAT
1 CATCC CATCC CATCC CATCC CATCC CATCC CATCC CATCC CATCC CAT
30685772 ACCTTCACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.21, C:0.58, G:0.00, T:0.21
Consensus pattern (5 bp):
CATCC
Found at i:30690664 original size:26 final size:26
Alignment explanation
Indices: 30690626--30690684 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
30690616 CATTCCAACC
*
30690626 CACAGCTCGTGTGAGCAGACCCATTT
1 CACAGCTCATGTGAGCAGACCCATTT
* **
30690652 CACAGCTCATGTGAGCATACTTATTT
1 CACAGCTCATGTGAGCAGACCCATTT
30690678 CACAGCT
1 CACAGCT
30690685 TGAATGAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGACCCATTT
Found at i:30693833 original size:40 final size:40
Alignment explanation
Indices: 30693788--30693974 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
30693778 ATAACCACAA
* *
30693788 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
30693828 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
30693868 GTACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
30693908 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
30693948 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
30693975 GTATCATTCA
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 9 0.07
40 123 0.92
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:30693891 original size:80 final size:79
Alignment explanation
Indices: 30693768--30693978 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 79
30693758 TCTTCGGAAT
* *
30693768 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
30693832 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
30693847 TTAGCCCGGATATAACAACTCGTACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
30693912 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
30693927 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
30693979 CATTCAATTG
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
79 17 0.14
80 100 0.85
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:30694732 original size:2 final size:2
Alignment explanation
Indices: 30694725--30694752 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30694715 ATGTGCAAAC
30694725 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30694753 GCTAGAGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30700201 original size:33 final size:30
Alignment explanation
Indices: 30700162--30700227 Score: 105
Period size: 33 Copynumber: 2.1 Consensus size: 30
30700152 CAGCCGTTGT
30700162 ATTAGTTCGAATGTATGTGGTTGAACAGCAATC
1 ATTAGTTCGAATGTAT-TGGTTGAAC--CAATC
30700195 ATTAGTTCGAATGTATTGGTTGAACCAATC
1 ATTAGTTCGAATGTATTGGTTGAACCAATC
30700225 ATT
1 ATT
30700228 CATCACGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 8 0.24
32 9 0.27
33 16 0.48
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (30 bp):
ATTAGTTCGAATGTATTGGTTGAACCAATC
Found at i:30701964 original size:79 final size:80
Alignment explanation
Indices: 30701871--30702078 Score: 307
Period size: 79 Copynumber: 2.6 Consensus size: 80
30701861 TCTTCGGAAT
* * *
30701871 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGTATA-GCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGTATATGCAACTCACAC
30701934 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
30701949 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGG-ATATGCAACTCACAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGTATATGCAACTCACAC
30702013 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * *
30702028 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGGTAT
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGTAT
30702079 CATTCAATGC
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
78 16 0.14
79 100 0.86
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGTATATGCAACTCACAC
AAATGCCTTCGGGTC
Found at i:30701979 original size:40 final size:40
Alignment explanation
Indices: 30701875--30702075 Score: 266
Period size: 39 Copynumber: 5.1 Consensus size: 40
30701865 CGGAATTTAG
* ** *
30701875 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
30701915 CCGG-TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
30701954 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
30701994 CCGGATAT-GCAACTCACACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * *
30702033 CCGGATATAATC-ACTAGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
30702072 CCGG
1 CCGG
30702076 TATCATTCAA
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 79 0.55
40 63 0.44
41 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:30706821 original size:13 final size:13
Alignment explanation
Indices: 30706803--30706830 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30706793 ATCGCCATTC
30706803 AACCACATGTCAT
1 AACCACATGTCAT
30706816 AACCACATGTCAT
1 AACCACATGTCAT
30706829 AA
1 AA
30706831 GTGTTGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (13 bp):
AACCACATGTCAT
Found at i:30707213 original size:19 final size:19
Alignment explanation
Indices: 30707189--30707226 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30707179 TCACCATGCC
30707189 TGTAACCTCCCTAACCCAG
1 TGTAACCTCCCTAACCCAG
30707208 TGTAACCTCCCTAACCCAG
1 TGTAACCTCCCTAACCCAG
30707227 CATAGACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.11, T:0.21
Consensus pattern (19 bp):
TGTAACCTCCCTAACCCAG
Found at i:30709796 original size:21 final size:22
Alignment explanation
Indices: 30709770--30709811 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30709760 CTATTAACAT
30709770 AGGGGC-ACACGCTCGTGTGAG
1 AGGGGCAACACGCTCGTGTGAG
*
30709791 AGGGGCAACATGCTCGTGTGA
1 AGGGGCAACACGCTCGTGTGA
30709812 CATTTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.21, G:0.40, T:0.17
Consensus pattern (22 bp):
AGGGGCAACACGCTCGTGTGAG
Found at i:30715953 original size:21 final size:20
Alignment explanation
Indices: 30715915--30715954 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30715905 CACTTGAAAT
* *
30715915 AGGGCACACGGCCGTGTGGA
1 AGGGCACACGCCCATGTGGA
30715935 AGGGCAACACGCCCATGTGG
1 AGGGC-ACACGCCCATGTGG
30715955 CCCTGTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.40, T:0.10
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGA
Found at i:30717283 original size:49 final size:47
Alignment explanation
Indices: 30717140--30717499 Score: 188
Period size: 46 Copynumber: 7.7 Consensus size: 47
30717130 GGGATAAGAT
* * * **
30717140 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCACAT-TA-AA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACT--CTCATATATCG
* * * *
30717188 GTCGATGCCATGTCCCAGGCAAGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC--G
* * * *
30717237 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCCTCTATCG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG
* ** * * * *
30717284 GTCGATGCTGTGTCCTAGACAGGTCTTACACTGACACACA-ATA--A
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG
* * ** * **
30717328 GCTGACGCCATGTCCCAGACAGGTCTTACACTAGGTTGT-ATATCCCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT-GACTCTCATATATC--G
* * ** * *
30717377 GTCGATG-CATCTCTTAGACATGTCTTACACT-AGCTCTCATCTCAAT--
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATAT--ATCG
* * *
30717423 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATGATGT-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCAT-ATATCG
*
30717469 GCCGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
30717500 AGCTCACATA
Statistics
Matches: 234, Mismatches: 61, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
44 27 0.12
45 7 0.03
46 69 0.29
47 48 0.21
48 41 0.18
49 42 0.18
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG
Found at i:30727788 original size:46 final size:45
Alignment explanation
Indices: 30727735--30727907 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
30727725 TTGGGCATCC
30727735 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCA
* * *
30727781 GAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAA-T--G--TCA
* * * *
30727828 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCA
* *
30727874 GAGCTCGTTGAGTTGAGTCCGAGTTCACATATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30727908 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 1 0.01
46 59 0.56
47 26 0.25
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCA
Found at i:30727887 original size:93 final size:93
Alignment explanation
Indices: 30727728--30727898 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30727718 AGGATATTTG
* *
30727728 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCAGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAACTCGTTGAG
30727793 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* * * *
30727821 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAACTCGTTGAG
30727886 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
30727899 CACATATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:30729458 original size:39 final size:39
Alignment explanation
Indices: 30729415--30729540 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
30729405 GGACTTTAGC
* * ** *
30729415 CCGGACATAGTTCCAGCATGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
30729454 CCGGATGTAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
30729493 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
30729532 TCGGATATA
1 CCGGATATA
30729541 CATCACTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:30732653 original size:29 final size:29
Alignment explanation
Indices: 30732615--30732706 Score: 166
Period size: 29 Copynumber: 3.1 Consensus size: 29
30732605 TATTTTTTTA
30732615 TTTTAATTGTGATATCTAGTACATGATTT
1 TTTTAATTGTGATATCTAGTACATGATTT
30732644 TTTTAATTGTGATATCTAGTACATGATTTTT
1 TTTTAATTGTGATATCTAGTACATGA--TTT
30732675 TTTTAATTGTGATATCTAGTACATGATTT
1 TTTTAATTGTGATATCTAGTACATGATTT
30732704 TTT
1 TTT
30732707 CTTACATATT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
29 32 0.52
31 29 0.48
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (29 bp):
TTTTAATTGTGATATCTAGTACATGATTT
Found at i:30732679 original size:31 final size:31
Alignment explanation
Indices: 30732609--30732706 Score: 173
Period size: 31 Copynumber: 3.2 Consensus size: 31
30732599 TTACAATATT
30732609 TTTTTATTTTAATTGTGATATCTAGTACATGA
1 TTTTT-TTTTAATTGTGATATCTAGTACATGA
30732641 --TTTTTTTAATTGTGATATCTAGTACATGA
1 TTTTTTTTTAATTGTGATATCTAGTACATGA
30732670 TTTTTTTTTAATTGTGATATCTAGTACATGA
1 TTTTTTTTTAATTGTGATATCTAGTACATGA
30732701 TTTTTT
1 TTTTTT
30732707 CTTACATATT
Statistics
Matches: 64, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
29 26 0.41
30 3 0.05
31 35 0.55
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (31 bp):
TTTTTTTTTAATTGTGATATCTAGTACATGA
Found at i:30747802 original size:206 final size:206
Alignment explanation
Indices: 30747423--30747979 Score: 970
Period size: 206 Copynumber: 2.7 Consensus size: 206
30747413 GCAGATCTGG
30747423 CTGAAGCAAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAAGCAAATCGAAGACATAGC
1 CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGG-AGCAAATCGAAGACATAGC
* * *
30747488 TGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATTTCTGTATCGTCA
64 TGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCA
* * *
30747553 GAGAACAAATAGAAGTTTGGCGCCTCCATGTTCGACGGAGGGCAGACACATAGCAGATCTAACCT
129 GAGAACAAATCGAAGTTTGGCGCCTCCATATTCGACAGAGGGCAGACACATAGCAGATCTAACCT
30747618 TCAGATGATTAGA
194 TCAGATGATTAGA
30747631 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
30747696 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGA
* * *
30747761 GAACAAATCGAAGTTTGGTGTCTCCATATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTT
131 GAACAAATCGAAGTTTGGCGCCTCCATATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTC
30747826 AGATGATTAGA
196 AGATGATTAGA
* *
30747837 CTGAAGCAGATCCAAGATGGTTTGGTATGCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
30747902 ATTTGGTTTTCGTGTACTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGA
30747967 GAACAAATCGAAG
131 GAACAAATCGAAG
30747980 AAGCAGATTT
Statistics
Matches: 335, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
206 291 0.87
207 37 0.11
208 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGA
GAACAAATCGAAGTTTGGCGCCTCCATATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:30747990 original size:43 final size:44
Alignment explanation
Indices: 30747942--30748024 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
30747932 AATCTAAGAT
*
30747942 GATTTGGCATCTCTATATT-GTCAGAGAACAAATCGAAGAAGCA
1 GATTTGGCATCTCTATATTCGGCAGAGAACAAATCGAAGAAGCA
* * *
30747985 GATTTGGCATCTCTATGTTCGGCAGAGAGCAGATCGAAGA
1 GATTTGGCATCTCTATATTCGGCAGAGAACAAATCGAAGA
30748025 TATTAACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 18 0.51
44 17 0.49
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (44 bp):
GATTTGGCATCTCTATATTCGGCAGAGAACAAATCGAAGAAGCA
Found at i:30749499 original size:21 final size:21
Alignment explanation
Indices: 30749458--30749509 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
30749448 TTATTATCCA
*
30749458 ATATATTA-TTATTTTGATAT
1 ATATATTATTTATTTTCATAT
30749478 ATATATTATTTA-TTTCACTAT
1 ATATATTATTTATTTTCA-TAT
*
30749499 ATTTATCTATT
1 ATATAT-TATT
30749510 ATGTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
21 11 0.41
22 4 0.15
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATTATTTATTTTCATAT
Found at i:30749585 original size:15 final size:14
Alignment explanation
Indices: 30749550--30749598 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
30749540 CATATATTTC
*
30749550 ATATATAT-TATTT
1 ATATATATCTTTTT
*
30749563 ATATTATATGTTTTT
1 ATA-TATATCTTTTT
30749578 AGTATATATCTTTTT
1 A-TATATATCTTTTT
30749593 ATATAT
1 ATATAT
30749599 TATTAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 3 0.10
14 10 0.32
15 16 0.52
16 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (14 bp):
ATATATATCTTTTT
Found at i:30757209 original size:44 final size:45
Alignment explanation
Indices: 30757151--30757272 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 45
30757141 AATGTGATAT
* *
30757151 TCGGGCCTCGGCCTAGCAAGCTTTAA-GCTGGTGA-ATAATATTA
1 TCGGGCCTCGGCCTAGCAAGCTATAATGCCGGTGAGATAATATTA
* *
30757194 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT-A-A-TA
1 TCGGGCCTC-GGCCTAGCAAGCTATAATGCCGGTGAGATAATATTA
* * *
30757237 TCAGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 TCGGGCCTCG-GCCTAGCAAGCTATAATGCCGGTGA
30757273 ATGAGTTCAG
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
42 1 0.01
43 43 0.61
44 16 0.23
45 8 0.11
46 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (45 bp):
TCGGGCCTCGGCCTAGCAAGCTATAATGCCGGTGAGATAATATTA
Found at i:30757351 original size:40 final size:40
Alignment explanation
Indices: 30757206--30757354 Score: 111
Period size: 40 Copynumber: 3.6 Consensus size: 40
30757196 GGGCTTCGGG
* ** *
30757206 CCTAGCAGGCTATAATGCCGGTGA-GATAATATCAGGCTTCGAG
1 CCTAGCAGGCTA-AATGCCGGTGATG--AAT-TCAGACTTAAAA
* *
30757249 CCTAGCAGGCTATAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTA-AATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * * **
30757291 TCTAGCAGGCTTCGTACCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
30757331 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
30757355 TTGATAAAAT
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
40 32 0.38
41 7 0.08
42 19 0.22
43 25 0.29
44 1 0.01
45 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:30760686 original size:16 final size:16
Alignment explanation
Indices: 30760665--30760699 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30760655 GCAAATCCCG
*
30760665 AAATGCCGAAAAGCTA
1 AAATGCCGAAAAGCCA
30760681 AAATGCCGAAAAGCCA
1 AAATGCCGAAAAGCCA
30760697 AAA
1 AAA
30760700 GTAGTCTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.09
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:30760941 original size:29 final size:29
Alignment explanation
Indices: 30760899--30761023 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
30760889 GAAAGCATGA
*
30760899 ATATGAATGTGATTTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
30760928 ATATGAATGTGATTTTGGACTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
30760957 ATATGAATGTGAATTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** * *
30760986 ATATGAATAAGA-TTGGGCCTAGTGCGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
30761014 ATATGCATGT
1 ATATGAATGT
30761024 ATGTAGACTT
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 21 0.25
29 62 0.75
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:30765450 original size:29 final size:29
Alignment explanation
Indices: 30765408--30765532 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
30765398 GAAAGCATGA
30765408 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
30765437 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
30765466 ATACGAATATGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
30765495 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
30765523 ATATGCATGT
1 ATATGAATGT
30765533 ATGTAGACTT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 22 0.26
29 64 0.74
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:30768457 original size:51 final size:51
Alignment explanation
Indices: 30768380--30768527 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
30768370 AGGATACATG
* *
30768380 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAT
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
30768431 GTGGCCTTCACATAGTACTACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
30768482 GTGACCTTCACATAGTACCACACTTGTGTCCATAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
30768528 CTAAGGTTCA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 1 0.01
51 87 0.99
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:30768599 original size:24 final size:24
Alignment explanation
Indices: 30768562--30768609 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
30768552 ACTTAGCCTA
30768562 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* *
30768586 ATGCCGTGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
30768610 CACAATGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:30771288 original size:50 final size:50
Alignment explanation
Indices: 30771213--30771402 Score: 178
Period size: 50 Copynumber: 3.9 Consensus size: 50
30771203 TGATGCTAGG
30771213 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTAGCCTC
* * *
30771263 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGACT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTAGCCTC
* * * * * ***
30771311 -TGATATG-TATC-AGTGTAAGACCATGTATGGGACATGGCACCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTAGCCTC
* * * *
30771358 GATATACGAGAG-TCATTGCAAGACCATGTCT-GAGACATGGCATTA
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGA-ACATGGCATTA
30771403 ACTTTGATGC
Statistics
Matches: 111, Mismatches: 22, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
45 27 0.24
46 5 0.05
47 6 0.05
48 4 0.04
49 6 0.05
50 63 0.57
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTAGCCTC
Found at i:30771395 original size:95 final size:97
Alignment explanation
Indices: 30771227--30771445 Score: 255
Period size: 95 Copynumber: 2.3 Consensus size: 97
30771217 TATGAGAGCT
* ** * *
30771227 AGTGTAAGACCATGTCTGGAACATGGCATTAGCCTCGAGATATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCACCAGCCTCGAGATACGAGAGCTAGTGCAAGACCATGT
* * * *
30771292 CTGGGACATGGCATCGAC-TTGAT-ATGTATC
66 CTGAGACATGGCATCAACTTTGATCATGAACC
* * * *
30771322 AGTGTAAGACCATGTATGGGACATGGCACCGGCCTCGATATACGAGAG-TCATTGCAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCACCAGCCTCGAGATACGAGAGCT-AGTGCAAGACCATG
* *
30771386 TCTGAGACATGGCATTAACTTTGATGCGTGAACC
65 TCTGAGACATGGCATCAACTTTGAT-CATGAACC
*
30771420 AGTGTAAGACGATGTCTGGGACATGG
1 AGTGTAAGACCATGTCTGGGACATGG
30771446 TGTCAGCACC
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
94 1 0.01
95 69 0.67
96 5 0.05
98 28 0.27
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACATGGCACCAGCCTCGAGATACGAGAGCTAGTGCAAGACCATGT
CTGAGACATGGCATCAACTTTGATCATGAACC
Found at i:30774250 original size:27 final size:27
Alignment explanation
Indices: 30774218--30774353 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
30774208 TCGTAAACCC
* *
30774218 ATCATGAAATAAAAGCCTTTATGGCGA
1 ATCATGAAAGAAAAGCCTTTGTGGCGA
* *
30774245 ACCATGAAAGAAAAACCTTTGTGGCGA
1 ATCATGAAAGAAAAGCCTTTGTGGCGA
* * * *
30774272 ATCATGAAAGAAAAACCCTTGTGCCAA
1 ATCATGAAAGAAAAGCCTTTGTGGCGA
* * **
30774299 ATCATGAAAGTAAAGCCTTTATGGTAA
1 ATCATGAAAGAAAAGCCTTTGTGGCGA
*
30774326 ATCATGAAAGAAAAGCCTCTGTGGCGA
1 ATCATGAAAGAAAAGCCTTTGTGGCGA
30774353 A
1 A
30774354 CCCTACGAGG
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (27 bp):
ATCATGAAAGAAAAGCCTTTGTGGCGA
Found at i:30777545 original size:44 final size:44
Alignment explanation
Indices: 30777479--30777628 Score: 157
Period size: 42 Copynumber: 3.5 Consensus size: 44
30777469 TGACATTGAT
* * *
30777479 CATGTAAGACCGTGTCTGGGACATAGGCCTCGATTTGAGATTTA
1 CATGTAAGACCATGTCTGGGACATAGGCATCGATCTGAGATTTA
*
30777523 CATGTAAGACCATGTCTAGGACATAGGCATCGTATCT--GATTT-
1 CATGTAAGACCATGTCTGGGACATAGGCATCG-ATCTGAGATTTA
* * * *
30777565 CGTGTAAGACCCTATCTGGGACAAAGGCATCGATACTGA-A-TTA
1 CATGTAAGACCATGTCTGGGACATAGGCATCGAT-CTGAGATTTA
* *
30777608 CATGTAAGACCAAGTCCGGGA
1 CATGTAAGACCATGTCTGGGA
30777629 TGTTGGCATT
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.02
42 31 0.36
43 22 0.25
44 29 0.33
45 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
CATGTAAGACCATGTCTGGGACATAGGCATCGATCTGAGATTTA
Found at i:30780246 original size:28 final size:29
Alignment explanation
Indices: 30780215--30780271 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
30780205 GAAAGTGATT
*
30780215 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
* * *
30780243 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
30780272 ATTGTGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTGAGGGATTAA
Found at i:30780280 original size:29 final size:28
Alignment explanation
Indices: 30780216--30780280 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
30780206 AAAGTGATTT
* * *
30780216 TTGACAAAAATGTCAATTAGGGATTAAT
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
30780244 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
30780273 TTGTGAAA
1 TTGAGAAA
30780281 TAAATGAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:30783950 original size:49 final size:47
Alignment explanation
Indices: 30783887--30784060 Score: 153
Period size: 49 Copynumber: 3.7 Consensus size: 47
30783877 TCACATCTAA
* *
30783887 GTCGATGCCGTGTCCCAAATAGGTCTTACACTGACTTCCATACGTCGAG
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTT-CATAC-TCGAG
* * * *
30783936 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC-ACA-CCTC-AA
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTTCATACTCGAG
* *
30783980 GCCGATGCCATGTCCCAGAA-AGGTCTTACACT-AGCTTGCATATCTTGAG
1 GTCGATGCCATGTCCCA-AACAGGTCTTACACTGA-CTT-CATA-CTCGAG
* *
30784029 G-CAGATGCCATGTCCCAGACAGGTTTTACACT
1 GTC-GATGCCATGTCCCAAACAGGTCTTACACT
30784061 AGCACACACA
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 30 0.29
45 3 0.03
46 3 0.03
47 2 0.02
48 4 0.04
49 59 0.58
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTTCATACTCGAG
Found at i:30784036 original size:93 final size:95
Alignment explanation
Indices: 30783862--30784069 Score: 248
Period size: 93 Copynumber: 2.2 Consensus size: 95
30783852 TCTCAACATA
* * * * * *
30783862 GTCTTACACTGGCTCTCACATCTAAGTCGATGCCGTGTCCCAAATAGGTCTTACACTGACTTCCA
1 GTCTTACACTAGCACACACCTC-AAGCCGATGCCATGTCCCAAATAGGTCTTACACTGACTTCCA
30783927 TACGTCGAGGTCGATGCCATGTCCCAGACAG
65 TACGTCGAGGTCGATGCCATGTCCCAGACAG
*
30783958 GTCTTACACT-G-ACACACCTCAAGCCGATGCCATGTCCCAGAA-AGGTCTTACACT-AGCTTGC
1 GTCTTACACTAGCACACACCTCAAGCCGATGCCATGTCCCA-AATAGGTCTTACACTGA-CTTCC
*
30784019 ATATC-TTGAGG-CAGATGCCATGTCCCAGACAG
64 ATA-CGTCGAGGTC-GATGCCATGTCCCAGACAG
*
30784051 GTTTTACACTAGCACACAC
1 GTCTTACACTAGCACACAC
30784070 ATCACCCAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
92 2 0.02
93 69 0.70
94 10 0.10
95 7 0.07
96 10 0.10
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (95 bp):
GTCTTACACTAGCACACACCTCAAGCCGATGCCATGTCCCAAATAGGTCTTACACTGACTTCCAT
ACGTCGAGGTCGATGCCATGTCCCAGACAG
Found at i:30788728 original size:40 final size:40
Alignment explanation
Indices: 30788678--30788860 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
30788668 GCTACTCGTT
* * *
30788678 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30788718 CAAAGGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30788758 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
30788798 CAAATGCCTTC-GGATTTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30788839 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30788861 AGACATCATT
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 110 0.87
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30791841 original size:40 final size:40
Alignment explanation
Indices: 30791754--30791965 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
30791744 CCTTCGGAAT
* * *
30791754 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
30791793 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
30791833 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
30791873 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
30791913 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
30791953 TTAGCCCGGATAT
1 TTAACCCGGATAT
30791966 CATTCCAATG
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.01
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:30791879 original size:80 final size:80
Alignment explanation
Indices: 30791754--30791965 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 80
30791744 CCTTCGGAAT
* * * ** * ***
30791754 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
30791818 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
30791833 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
30791898 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * *
30791913 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30791966 CATTCCAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 104 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:30799864 original size:79 final size:79
Alignment explanation
Indices: 30799739--30799948 Score: 235
Period size: 79 Copynumber: 2.7 Consensus size: 79
30799729 CCTTCGGAAT
* * * ** * ***
30799739 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTC-GGACTTAGCCCGGATATAACAACTCGCAC
30799803 -AATTGCCTTCGGGTC
65 GAA-TGCCTTCGGGTC
* ** * *
30799818 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGTCTTAGCCCGGATATAACAACTCGCACG
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGACTTAGCCCGGATATAACAACTCGCACG
30799883 AATGCCTTCGGGTC
66 AATGCCTTCGGGTC
* * *
30799897 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGACTTAGCCCGGATAT
30799949 CATTCCAATG
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
79 82 0.76
80 26 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGACTTAGCCCGGATATAACAACTCGCACG
AATGCCTTCGGGTC
Found at i:30799887 original size:39 final size:40
Alignment explanation
Indices: 30799743--30799948 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
30799733 CGGAATTTAA
* * * * **
30799743 CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
* * * *
30799783 CCGGTTATAGTGACTCGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
* ** * *
30799823 CCGGATTTGGTAACTTGCACAAATGCCTTC-GGTCTTAGC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
*
30799862 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * *
30799902 CCGGATATAATTACTAGCACAATTGCCTTC-GGACTTAGC
1 CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
30799941 CCGGATAT
1 CCGGATAT
30799949 CATTCCAATG
Statistics
Matches: 139, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 48 0.35
40 91 0.65
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:30802648 original size:40 final size:40
Alignment explanation
Indices: 30802561--30802772 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
30802551 CCTTCGGAAT
* * *
30802561 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
30802600 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
30802640 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
30802680 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
30802720 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
30802760 TTAGCCCGGATAT
1 TTAACCCGGATAT
30802773 CATTCCAATG
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.01
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:30802686 original size:80 final size:80
Alignment explanation
Indices: 30802561--30802772 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 80
30802551 CCTTCGGAAT
* * * ** * ***
30802561 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
30802625 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
30802640 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
30802705 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * *
30802720 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30802773 CATTCCAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 104 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:30810660 original size:40 final size:40
Alignment explanation
Indices: 30810573--30810784 Score: 203
Period size: 40 Copynumber: 5.3 Consensus size: 40
30810563 CCTTCGGAAT
* * *
30810573 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
30810612 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
30810652 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
30810692 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * * *
30810732 TTAGCCTGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
30810772 TTAGCCCGGATAT
1 TTAACCCGGATAT
30810785 CATTCCAATG
Statistics
Matches: 142, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
38 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:30810698 original size:80 final size:80
Alignment explanation
Indices: 30810573--30810784 Score: 239
Period size: 80 Copynumber: 2.7 Consensus size: 80
30810563 CCTTCGGAAT
* * * ** * ***
30810573 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
30810637 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
30810652 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
30810717 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * * *
30810732 TTAGCCTGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30810785 CATTCCAATG
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 103 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:30820137 original size:128 final size:130
Alignment explanation
Indices: 30819870--30820209 Score: 366
Period size: 130 Copynumber: 2.6 Consensus size: 130
30819860 TGTAAACCTA
* * * ** ** * * * *
30819870 AAGGAATATTCGATTGTTTTAGACAAACAAGAAATCACAACCCAGCACGATAAGGCATGATTCC-
1 AAGGGATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
* * * ** ** * *
30819934 CAAATTGTCAAACA-CAGAGTATTACCTTCGTTTTAAAGGATTTTTAGAAGACCTGAGTGAAATT
66 CGAATTGTCAAATATC-GCGTATCGCCTTC-TTTTAGGGGA-TTTTAAAAGACATGAGTGAAATT
30819998 TTG
128 TTG
* *
30820001 AAGGGATATTTGATTATTTTAAAC-AA-TCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
1 AAGGGATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
30820064 CGAATT-TCCAAATATCGCGTATCGCCTTCTTTTAGGGGATTTTAAAAGACATGAGTGAAATTTT
66 CGAATTGT-CAAATATCGCGTATCGCCTTCTTTTAGGGGATTTTAAAAGACATGAGTGAAATTTT
30820128 G
130 G
* * * * *
30820129 AAGTGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCGCGATTCCG
1 AAGGGATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
30820194 CGAATTGTCAAATATC
66 CGAATTGTCAAATATC
30820210 AAATCTCGTC
Statistics
Matches: 175, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
128 44 0.25
129 39 0.22
130 70 0.40
131 22 0.13
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (130 bp):
AAGGGATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
CGAATTGTCAAATATCGCGTATCGCCTTCTTTTAGGGGATTTTAAAAGACATGAGTGAAATTTTG
Found at i:30821836 original size:132 final size:132
Alignment explanation
Indices: 30821573--30822556 Score: 1460
Period size: 132 Copynumber: 7.5 Consensus size: 132
30821563 CTACAACATT
*** * * * * *
30821573 AGGAAGCCTAGATTTGTCGTCTTTGATCTGTTCCACTACAA-TCTCAGGGAAACAAGATCTACAA
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACT-TCAGGGAAACGAGATCTAAAA
* * * * *
30821637 TCTTCAGCCTACTCCACTACAACTTTAGAGAGCT-AGGTTGGTGGCTTAAATCAT-CCTCACTGC
65 T-TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGG-TGATGGCTCAAATC-TGCTTCACTGC
30821700 AATCTC
127 AATCTC
*
30821706 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGGGATCTAAAAT
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
* *
30821771 TTCAACCTACTCCACTACCACTTTAGGGAGCTAAGGTGATGGCTCAAATCTACTTCACTGCAATC
66 TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTGCTTCACTGCAATC
30821836 TC
131 TC
* * *
30821838 AGGAAGCCTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTTAGGGAAACCAGATCTAAAAT
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
* * *
30821903 TTCAACCTACTCCACTACAATTTTAGGGAGCTAGGGTGATGGCTCAAATCTGCTTCACTGCAAAC
66 TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTGCTTCACTGCAATC
30821968 TC
131 TC
** * *
30821970 AAAAAGCCTAGATTCATCGTCTTCGATCTGCTCTACTGCAACTTCAGGGAAACGAGATCT-AAAT
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
* *
30822034 TTCAACCTACTCTACTACAACTTTAGGGAGCTAGGGTGATGGCTCAAATCTGCTTCACTGCAATC
66 TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTGCTTCACTGCAATC
*
30822099 AC
131 TC
30822101 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
* *
30822166 TTCAACCTACTCCATTACAACTTTAGGGAGCTAGGGTGATGGCTCAAATCTGCTTCACTGCAATC
66 TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTGCTTCACTGCAATC
*
30822231 TT
131 TC
30822233 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
*
30822298 TTCAACCTACTCCACTACAACTTTAGGGAGCT-AGGTCGGTGGCTCAAATCTGCTTCACTGCAAT
66 TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGGT-GATGGCTCAAATCTGCTTCACTGCAAT
30822362 CTC
130 CTC
*
30822365 AGGAAGCCTAGATTCACCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
* * *
30822430 TTCAACCTACTCCACTACAACTTTAGGGAGCT-AGGTTGGTGGCTTACATCTGCTTCACTGCAA-
66 TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGG-TGATGGCTCAAATCTGCTTCACTGCAAT
30822493 CTTC
130 C-TC
* * * * * * *
30822497 AGGAAACCAAGATTCGCCATCTTCGATCTGCTTCACTGCAACTTCAAGGAAACAAGATCT
1 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCT
30822557 GTAGGATTCG
Statistics
Matches: 786, Mismatches: 58, Indels: 15
0.92 0.07 0.02
Matches are distributed among these distances:
131 128 0.16
132 599 0.76
133 58 0.07
134 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (132 bp):
AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
TTCAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTGCTTCACTGCAATC
TC
Found at i:30822258 original size:395 final size:395
Alignment explanation
Indices: 30821576--30822556 Score: 1529
Period size: 395 Copynumber: 2.5 Consensus size: 395
30821566 CAACATTAGG
** * * *
30821576 AAGCCTAGATTTGTCGTCTTTGATCTGTTCCACTACAA-TCTCAGGGAAACAAGATCTACAATCT
1 AAGCCTAGATTCATCGTCTTCGATCTGTTCCACTGCAACT-TCAGGGAAACGAGATCTA-AAT-T
* * *
30821640 TCAGCCTACTCCACTACAACTTTAGAGAGCTAGGTTGGTGGCTTAAATCAT-CCTCACTGCAATC
63 TCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATC-TGCTTCACTGCAATC
*
30821704 TCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGGGATCTAAA
127 TCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAA
*
30821769 ATTTCAACCTACTCCACTACCACTTTAGGGAGCTAAGGTGATGGCTCAAATCTACTTCACTGCAA
192 ATTTCAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTACTTCACTGCAA
*
30821834 TCTCAGGAAGCCTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTTAGGGAAACCAGATCTA
257 TCTCAGGAAGCCTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACCAGATCTA
*
30821899 AAATTTCAACCTACTCCACTACAATTTTAGGGAGCTAGGGT-GATGGCTCAAATCTGCTTCACTG
322 AAATTTCAACCTACTCCACTACAACTTTAGGGAGCTA-GGTCGATGGCTCAAATCTGCTTCACTG
30821963 CAAACTCAAA
386 CAAACTCAAA
* *
30821973 AAGCCTAGATTCATCGTCTTCGATCTGCTCTACTGCAACTTCAGGGAAACGAGATCTAAATTTCA
1 AAGCCTAGATTCATCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAATTTCA
* * * * *
30822038 ACCTACTCTACTACAACTTTAGGGAGCTAGGGTGATGGCTCAAATCTGCTTCACTGCAATCACAG
66 ACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAATCTCAG
30822103 GAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTT
131 GAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTT
* * * *
30822168 CAACCTACTCCATTACAACTTTAGGGAGCTAGGGTGATGGCTCAAATCTGCTTCACTGCAATCTT
196 CAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTACTTCACTGCAATCTC
* *
30822233 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
261 AGGAAGCCTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACCAGATCTAAAAT
* *
30822298 TTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTCGGTGGCTCAAATCTGCTTCACTGCAATC
326 TTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTCGATGGCTCAAATCTGCTTCACTGCAAAC
**
30822363 TCAGG
391 TCAAA
*
30822368 AAGCCTAGATTCACCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
1 AAGCCTAGATTCATCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCT-AAATTTC
*
30822433 AACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTACATCTGCTTCACTGCAA-CTTC
65 AACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAATC-TC
* * * * * * *
30822497 AGGAAACCAAGATTCGCCATCTTCGATCTGCTTCACTGCAACTTCAAGGAAACAAGATCT
129 AGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCT
30822557 GTAGGATTCG
Statistics
Matches: 534, Mismatches: 45, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
394 4 0.01
395 361 0.68
396 119 0.22
397 49 0.09
398 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (395 bp):
AAGCCTAGATTCATCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAATTTCA
ACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAATCTCAG
GAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTT
CAACCTACTCCACTACAACTTTAGGGAGCTAAGGTGATGGCTCAAATCTACTTCACTGCAATCTC
AGGAAGCCTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACCAGATCTAAAAT
TTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTCGATGGCTCAAATCTGCTTCACTGCAAAC
TCAAA
Found at i:30834393 original size:128 final size:131
Alignment explanation
Indices: 30834079--30834466 Score: 386
Period size: 130 Copynumber: 3.0 Consensus size: 131
30834069 AACATCAAAC
* **
30834079 ATCGCCTTCGTTTTGAAAGG-TTTTTAATAA-ACATGAATGTAAA-CCT-AAAGGAATATTCGAT
1 ATCGCCTTCG-TTT-AAAGGATTTTTAA-AAGACATGAGTG-AAATTTTGAAAGG-ATATTCGAT
* * * * * * * *
30834140 TGTTTTAGACAAACGAGAAATTACAACCCAGCACGA-TAAGGCATGATTCC-CGAATTGTCAAAC
61 TATTTTAAACAAACGCGAAATTGCAACCCAACAC-ATTAGGGCACGATTCCACGAATTGTCAAAT
*
30834203 ACCGA-GT
125 ATC-ACGT
** * * * *
30834210 ATTACCTTCATTTTAAAGGATTTTTAGAAGACCTGAGTGAAATTTTGAAAGGATATTTGATTATT
1 ATCGCCTTC-GTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAAGGATATTCGATTATT
*
30834275 TTAAAC-AA-TCGAAATTGCAACCCAACACATTAGGGCACGATTCCACGAATT-TCCAAATATCA
65 TTAAACAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCCACGAATTGT-CAAATATCA
30834337 CGT
129 CGT
*
30834340 ATCGCCTTCGTTTAAGGGA-TTTTAAAAGACATGAGTGAAATTTTG-AAGTGATATTCGATTATT
1 ATCGCCTTCGTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAAG-GATATTCGATTATT
* * * *
30834403 TTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGTCAAATATCA
65 TTAAACAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCCACGAATTGTCAAATATCA
30834467 AATCTCGTCT
Statistics
Matches: 213, Mismatches: 31, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
127 3 0.01
128 42 0.20
129 40 0.19
130 82 0.38
131 41 0.19
132 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (131 bp):
ATCGCCTTCGTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAAGGATATTCGATTATTT
TAAACAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCCACGAATTGTCAAATATCACG
T
Found at i:30839717 original size:46 final size:46
Alignment explanation
Indices: 30839590--30839802 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 46
30839580 GTGCCAATGC
* * *
30839590 CATGTCCCAGACATGTTCTTACACT-GACTATCATCTCGTA-GCCTATG
1 CATGTCCCAGACATG-TCTTACACTAG-CTCTCATCTC-AAGGCCGATG
* * * **
30839637 CATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCAAGGATGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCCGATG
* * * *
30839683 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
* * * *
30839729 CCATGTCCTAGGCATGGTCTTACACTAGCTCTCATAAT-ATGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCCGATG
30839777 CATGTCCCAGACAT-TCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
30839803 CCACAAACAA
Statistics
Matches: 137, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
45 14 0.10
46 57 0.42
47 40 0.29
48 25 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:30839782 original size:47 final size:46
Alignment explanation
Indices: 30839679--30839802 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 46
30839669 TCTCAAGGAT
* **
30839679 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAATGCC
* * *
30839725 AATGCCATGTCCTAGGCATGGTCTTACACTAGCTCTCATAAT-ATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATAAT-GCC
30839773 GATGCATGTCCCAGACAT-TCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
30839803 CCACAAACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 12 0.18
46 3 0.05
47 26 0.39
48 25 0.38
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAATGCC
Found at i:30842787 original size:27 final size:27
Alignment explanation
Indices: 30842758--30842877 Score: 116
Period size: 27 Copynumber: 4.4 Consensus size: 27
30842748 AATTGTGAGT
* *
30842758 CTTTATAGTGAACCATGAAAGAAAAAT
1 CTTTATAGTGAATCATGAAAGAAAAAC
* *
30842785 CTTTATGGCGAATCATGAAAGAAAAAC
1 CTTTATAGTGAATCATGAAAGAAAAAC
* * * * *
30842812 CCTTGTGGTGAATCATGAAATAAAAGC
1 CTTTATAGTGAATCATGAAAGAAAAAC
* *
30842839 CTTTGT-GATGAATCATGAAAGAAAAGC
1 CTTTATAG-TGAATCATGAAAGAAAAAC
*
30842866 CTCTATAGTGAA
1 CTTTATAGTGAA
30842878 CCTTGCAAGG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.97
28 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (27 bp):
CTTTATAGTGAATCATGAAAGAAAAAC
Found at i:30842877 original size:54 final size:54
Alignment explanation
Indices: 30842760--30842879 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
30842750 TTGTGAGTCT
* *
30842760 TTATAGTGAACCATGAAAGAAAAATCTTTATGGCGAATCATGAAAGAAAAACCC
1 TTATAGTGAACCATGAAAGAAAAACCTTTATGACGAATCATGAAAGAAAAACCC
* * * * * * * *
30842814 TTGTGGTGAATCATGAAATAAAAGCCTTTGTGATGAATCATGAAAG-AAAAGCC
1 TTATAGTGAACCATGAAAGAAAAACCTTTATGACGAATCATGAAAGAAAAACCC
30842867 TCTATAGTGAACC
1 T-TATAGTGAACC
30842880 TTGCAAGGAT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
53 7 0.13
54 45 0.87
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (54 bp):
TTATAGTGAACCATGAAAGAAAAACCTTTATGACGAATCATGAAAGAAAAACCC
Found at i:30844779 original size:19 final size:19
Alignment explanation
Indices: 30844755--30844793 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30844745 GACATATAAC
*
30844755 TCTTGACATGGCATGAAAA
1 TCTTGACATGACATGAAAA
* *
30844774 TCTTGAGATGATATGAAAA
1 TCTTGACATGACATGAAAA
30844793 T
1 T
30844794 GACTAGAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
TCTTGACATGACATGAAAA
Found at i:30861992 original size:43 final size:43
Alignment explanation
Indices: 30861937--30862143 Score: 317
Period size: 43 Copynumber: 4.8 Consensus size: 43
30861927 GCTGGTATTA
*
30861937 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATAATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATGATGTG
*
30861980 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATGATGTG
* * *
30862023 TATTCGGGCCTTCGTACCTAGCAGACTTCGTGCC-AGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGA-TGATGTG
* *
30862066 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATGATGTG
* *
30862109 TATTCGGGCCTTCGTGCCTAGCAGGCATAATGCCG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCG
30862144 CTGAAATGAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
42 1 0.01
43 149 0.99
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATGATGTG
Found at i:30867969 original size:48 final size:47
Alignment explanation
Indices: 30867911--30868185 Score: 187
Period size: 48 Copynumber: 5.8 Consensus size: 47
30867901 CCACATTATG
*
30867911 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-AT-TAAGACT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTATGT--GA-T
*
30867959 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTATGTGAT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTATGTGAT
* ** *
30868004 -GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGT-AT
1 AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCAACTATGTGAT
* * *
30868048 AGAGGTCTCAATGTAAGACCATGTCTGGGACATGGTATCAGCACGGATATGTGAG
1 AGA-G-CT-AGTGTAAGACCATGTCTGGGACATGGCATCA--AC---TATGTGAT
* * *
30868103 AGA-C-AGTGTAAGACCATGTCTGGGACATGACATCAGCCTTGATTTTGAT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-AC-T-A-TGTGAT
* * *
30868152 AG-TC-AATGTAAGACCATGTCTAGGACATGGCATC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
30868186 GGCATCATAC
Statistics
Matches: 185, Mismatches: 23, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
43 1 0.01
44 13 0.07
45 19 0.10
46 17 0.09
47 17 0.09
48 46 0.25
49 35 0.19
50 29 0.16
52 1 0.01
54 3 0.02
55 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTATGTGAT
Found at i:30868063 original size:92 final size:91
Alignment explanation
Indices: 30867868--30868137 Score: 278
Period size: 92 Copynumber: 2.9 Consensus size: 91
30867858 TTATTTGTAT
* * * * *
30867868 GCTAATGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAATGTAAGACATGTCTGGGACATGCATCAGCCATA-TGTGAGAGACAGTGTAAGACCATGTC
*
30867933 TGGGACATGGCATCAACATTAAGACTAGA
65 TGGGACATGGCATCAACAGTAAGA--AGA
* * *
30867962 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-TATGTGATGTGTCAGTGTAAGACCATGTC
1 GCTAATGTAAGACATGTCTGGGACATGCATCAGCCATATGTGA-GAGACAGTGTAAGACCATGTC
**
30868025 TGGGACATGGCATCGGCACGTATAG-AG-
65 TGGGACATGGCATCAACA-GTA-AGAAGA
*
30868052 GTCTCAATGTAAGACCATGTCTGGGACATGGTATCAGCACGGATATGTGAGAGACAGTGTAAGAC
1 G-CT-AATGTAAGA-CATGTCTGGGACAT-GCATCAGC-C--ATATGTGAGAGACAGTGTAAGAC
*
30868117 CATGTCTGGGACATGACATCA
59 CATGTCTGGGACATGGCATCA
30868138 GCCTTGATTT
Statistics
Matches: 148, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
90 1 0.01
91 8 0.05
92 44 0.30
93 17 0.11
94 38 0.26
96 1 0.01
98 32 0.22
99 7 0.05
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (91 bp):
GCTAATGTAAGACATGTCTGGGACATGCATCAGCCATATGTGAGAGACAGTGTAAGACCATGTCT
GGGACATGGCATCAACAGTAAGAAGA
Found at i:30877597 original size:21 final size:18
Alignment explanation
Indices: 30877559--30877613 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
30877549 GAAAGAATAA
30877559 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
30877577 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
30877598 A-AAA-GAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
30877614 TGTTCATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 7 0.21
19 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.05
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:30883334 original size:21 final size:18
Alignment explanation
Indices: 30883296--30883350 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
30883286 GAAAGCATAA
30883296 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
30883314 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
30883335 A-AAA-GAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
30883351 TGTTCATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 7 0.21
19 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.05
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:30883985 original size:48 final size:48
Alignment explanation
Indices: 30883909--30884129 Score: 275
Period size: 48 Copynumber: 4.6 Consensus size: 48
30883899 TGCCTTATGC
* * * *
30883909 CGATGCCATGTCCCAAACATGGTTTTACACTGGTTCATATAACAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
* * * *
30883957 TGTTGCCATGTCCTAGACATGGTCTTACACTGGCTCACGTAACAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
*
30884005 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
* * * *
30884053 CGAAGCCGTGTCCCAGACATGGTCTTACAC-GGATCAGATAACAATG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
* * *
30884099 CTGATGCCATATCCCAGATAGGGTCTTACAC
1 C-GATGCCATGTCCCAGACATGGTCTTACAC
30884130 AGTTACACAT
Statistics
Matches: 149, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
46 1 0.01
47 37 0.25
48 111 0.74
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
Found at i:30891900 original size:18 final size:18
Alignment explanation
Indices: 30891848--30891917 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
30891838 GCAATAAGTG
* *
30891848 ACGTTTTGAAAGTTAATA
1 ACGTTTTGAAAATGAATA
*
30891866 ATGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
* * *
30891884 ACTTTTTGATAATGAATT
1 ACGTTTTGAAAATGAATA
30891902 ACGTTTTGAAAATGAA
1 ACGTTTTGAAAATGAA
30891918 CGACACGTCC
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
17 1 0.02
18 40 0.98
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.39
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:30893551 original size:12 final size:12
Alignment explanation
Indices: 30893528--30893563 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
30893518 TTGCTTGTGT
*
30893528 TCTGTTCGAACA
1 TCTGTTCAAACA
*
30893540 TGTGTTCAAACA
1 TCTGTTCAAACA
30893552 TCTGTTCAAACA
1 TCTGTTCAAACA
30893564 CTTGCCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (12 bp):
TCTGTTCAAACA
Done.