Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 106 of 230
Found at i:30364916 original size:19 final size:17
Alignment explanation
Indices: 30364892--30364948 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
30364882 CTTTTTTTCA
30364892 AACAAAAAAATAACAGAAT
1 AACAAAAAAATAA-A-AAT
30364911 AAC-AAAAAATAAAAAT
1 AACAAAAAAATAAAAAT
*
30364927 AA-AATAAAATAATAAA-
1 AACAAAAAAATAA-AAAT
30364943 AACAAA
1 AACAAA
30364949 TCCTAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 15 0.45
17 6 0.18
18 9 0.27
19 3 0.09
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (17 bp):
AACAAAAAAATAAAAAT
Found at i:30367819 original size:47 final size:47
Alignment explanation
Indices: 30367741--30368144 Score: 639
Period size: 47 Copynumber: 8.6 Consensus size: 47
30367731 CCCTTCGGGA
* * * * * *
30367741 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30367787 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30367835 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30367882 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30367929 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30367976 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30368023 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30368072 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30368119 CTTACCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
30368145 CACAATTATC
Statistics
Matches: 333, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 283 0.85
48 2 0.01
49 46 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30371212 original size:45 final size:45
Alignment explanation
Indices: 30371163--30371272 Score: 168
Period size: 45 Copynumber: 2.4 Consensus size: 45
30371153 AAAAATGAGC
*
30371163 AAGACCATGACTGAAAGACATTATGGCATCATGATTCTATCAAGT
1 AAGACCATGACTGAAAGACATTATGGCATCACGATTCTATCAAGT
* * *
30371208 AAGACCATGACTGAAAAACATTATGGCATTACGATTCTATCGAGT
1 AAGACCATGACTGAAAGACATTATGGCATCACGATTCTATCAAGT
30371253 AAGACCAT-AGCTGAAAGACA
1 AAGACCATGA-CTGAAAGACA
30371273 CTATAGTATC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (45 bp):
AAGACCATGACTGAAAGACATTATGGCATCACGATTCTATCAAGT
Found at i:30380277 original size:46 final size:45
Alignment explanation
Indices: 30380220--30380346 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 45
30380210 ATCATGAAAC
*
30380220 AAATGAATAAGACTATGGTTGAAAGACACTATGGCAACACA-ACGAA
1 AAATGAATAAGACTATGGTTAAAAGACACTATGGCAACA-AGACG-A
* * **
30380266 AAATGAGTAAGACCATGGTTAAAAGACACTATGGCATTAAGACGA
1 AAATGAATAAGACTATGGTTAAAAGACACTATGGCAACAAGACGA
* * *
30380311 GAATAAATAAGACTATGGTTAAAAGACACCATGGCA
1 AAATGAATAAGACTATGGTTAAAAGACACTATGGCA
30380347 CACTTCGATC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 33 0.47
46 37 0.53
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (45 bp):
AAATGAATAAGACTATGGTTAAAAGACACTATGGCAACAAGACGA
Found at i:30386895 original size:36 final size:35
Alignment explanation
Indices: 30386848--30386915 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
30386838 CACCTGTTAA
*
30386848 AATGTTCAATGTGGTACTTCAAATTTAATTTTTCAT
1 AATGTCCAATGTGG-ACTTCAAATTTAATTTTTCAT
* *
30386884 AATGTCCAATGTGGACTTGAACTTTAATTTTT
1 AATGTCCAATGTGGACTTCAAATTTAATTTTT
30386916 GTATATCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 16 0.55
36 13 0.45
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (35 bp):
AATGTCCAATGTGGACTTCAAATTTAATTTTTCAT
Found at i:30388025 original size:20 final size:20
Alignment explanation
Indices: 30387997--30388045 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
30387987 ATATATCCTG
*
30387997 ATTTTATTTGATTTCAATCA
1 ATTTGATTTGATTTCAATCA
*
30388017 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTTCAATCA
*
30388037 AATTGATTT
1 ATTTGATTT
30388046 AATTGCTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTGATTTGATTTCAATCA
Found at i:30388524 original size:22 final size:23
Alignment explanation
Indices: 30388491--30388534 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
30388481 CAATTTATAT
30388491 TTTATTTTATATATAAATATTTG
1 TTTATTTTATATATAAATATTTG
* *
30388514 TTTA-TTTATATTTATATATTT
1 TTTATTTTATATATAAATATTT
30388535 ATTCGCTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTTG
Found at i:30388526 original size:14 final size:14
Alignment explanation
Indices: 30388483--30388536 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
30388473 AAATTATTCA
30388483 ATTTATAT-TTTAT
1 ATTTATATATTTAT
**
30388496 -TTTATATATAAAT
1 ATTTATATATTTAT
* *
30388509 ATTTGTTTATTTAT
1 ATTTATATATTTAT
30388523 ATTTATATATTTAT
1 ATTTATATATTTAT
30388537 TCGCTAACGT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 21 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTTATATATTTAT
Found at i:30402377 original size:33 final size:33
Alignment explanation
Indices: 30402340--30402406 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
30402330 CATACAAGAC
30402340 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
1 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
30402373 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
1 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
30402406 T
1 T
30402407 GAAAGAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (33 bp):
TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
Found at i:30402411 original size:19 final size:19
Alignment explanation
Indices: 30402387--30402455 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
30402377 GTATTTCTTA
30402387 TGAAAGAAAAATTTGTGGT
1 TGAAAGAAAAATTTGTGGT
* ***
30402406 TGAAAG-AATATTTCAAGT
1 TGAAAGAAAAATTTGTGGT
** *
30402424 CTTCAAGAAAATTTTGTGGT
1 -TGAAAGAAAAATTTGTGGT
30402444 TGAAAGAAAAAT
1 TGAAAGAAAAAT
30402456 GGGGTTACAG
Statistics
Matches: 34, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 8 0.24
19 19 0.56
20 7 0.21
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.32
Consensus pattern (19 bp):
TGAAAGAAAAATTTGTGGT
Found at i:30410221 original size:4 final size:4
Alignment explanation
Indices: 30410212--30410245 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
30410202 AAGTTTTATT
30410212 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
30410246 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:30410253 original size:22 final size:22
Alignment explanation
Indices: 30410195--30410254 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
30410185 AAGTGGCCCA
*
30410195 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
30410219 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
30410240 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
30410255 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:30413999 original size:4 final size:4
Alignment explanation
Indices: 30413990--30414023 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
30413980 AAGTTTTATT
30413990 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
30414024 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:30414031 original size:22 final size:22
Alignment explanation
Indices: 30413973--30414032 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
30413963 AAGTGGCCCA
*
30413973 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
30413997 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
30414018 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
30414033 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:30416975 original size:34 final size:34
Alignment explanation
Indices: 30416936--30417004 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
30416926 TAGATAATTT
30416936 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
1 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
30416970 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
1 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
30417004 T
1 T
30417005 TTTACCTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (34 bp):
TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
Found at i:30428129 original size:21 final size:21
Alignment explanation
Indices: 30428101--30428156 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
30428091 AACAACGGTG
*
30428101 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGATACTGTA
* *
30428122 GCGGTGAGATTGGATACTGTA
1 GCAGTGAGATTAGATACTGTA
30428143 GCAGTGAGATTAGA
1 GCAGTGAGATTAGA
30428157 AACAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCAGTGAGATTAGATACTGTA
Found at i:30445775 original size:27 final size:27
Alignment explanation
Indices: 30445733--30445809 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
30445723 CATTTAAGAT
* **
30445733 CAAGCCATGGTCATCAACAACCT-TTG
1 CAAGCCATGGTGATCAACAACCTGTAC
* *
30445759 CAGATCCATGGTGATCAACAATCTGTAC
1 CA-AGCCATGGTGATCAACAACCTGTAC
30445787 CAAGCCATGGTGATCAACAACCT
1 CAAGCCATGGTGATCAACAACCT
30445810 ATGTCAAACC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.05
27 37 0.88
28 3 0.07
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (27 bp):
CAAGCCATGGTGATCAACAACCTGTAC
Found at i:30445821 original size:27 final size:27
Alignment explanation
Indices: 30445732--30445821 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
30445722 CCATTTAAGA
* *
30445732 TCAAGCCATGGTCATCAACAACCTTTG
1 TCAAGCCATGGTGATCAACAACCTATG
* * * *
30445759 -CAGATCCATGGTGATCAACAATCTGTA
1 TCA-AGCCATGGTGATCAACAACCTATG
*
30445786 CCAAGCCATGGTGATCAACAACCTATG
1 TCAAGCCATGGTGATCAACAACCTATG
*
30445813 TCAAACCAT
1 TCAAGCCAT
30445822 ATTACCAACT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 2 0.04
27 46 0.92
28 2 0.04
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (27 bp):
TCAAGCCATGGTGATCAACAACCTATG
Found at i:30445858 original size:171 final size:171
Alignment explanation
Indices: 30445649--30445991 Score: 632
Period size: 171 Copynumber: 2.0 Consensus size: 171
30445639 CCTGTGGCTT
*
30445649 ATATTACCAACTATGATTTCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
1 ATATTACCAACTATGATTCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
30445714 AAGAGACCCCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
66 AAGAGACCCCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
*
30445779 ATCTGTACCAAGCCATGGTGATCAACAACCTATGTCAAACC
131 ATCTGTACCAAGCCATGGTGATCAACAACCAATGTCAAACC
30445820 ATATTACCAACTATGATTCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
1 ATATTACCAACTATGATTCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
* * *
30445885 AAGAGACCTCGTTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACA
66 AAGAGACCCCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
*
30445950 ATCTGTACTAAGCCATGGTGATCAACAACCAATGTCAAACC
131 ATCTGTACCAAGCCATGGTGATCAACAACCAATGTCAAACC
30445991 A
1 A
30445992 CAGTGATCAA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 166 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (171 bp):
ATATTACCAACTATGATTCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
AAGAGACCCCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
ATCTGTACCAAGCCATGGTGATCAACAACCAATGTCAAACC
Found at i:30445946 original size:27 final size:27
Alignment explanation
Indices: 30445904--30446040 Score: 125
Period size: 27 Copynumber: 5.1 Consensus size: 27
30445894 CGTTTAAGAT
* * *
30445904 CAAGCCATGGTCATCAACAACCTTTGC
1 CAAGCCATGGTGATCAACAACCTGTAC
* * *
30445931 CGATCCATGGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTGTAC
*
30445958 TAAGCCATGGTGATCAACAACCAATGT--
1 CAAGCCATGGTGATCAACAACC--TGTAC
* ** *
30445985 CAAACCACAGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTGTAC
* *
30446012 CAAGCTATGGTGATCAACAACCTGGAC
1 CAAGCCATGGTGATCAACAACCTGTAC
30446039 CA
1 CA
30446041 CGGCATTATG
Statistics
Matches: 85, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
25 3 0.04
27 79 0.93
29 3 0.04
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (27 bp):
CAAGCCATGGTGATCAACAACCTGTAC
Found at i:30450800 original size:43 final size:43
Alignment explanation
Indices: 30450743--30450993 Score: 299
Period size: 43 Copynumber: 5.9 Consensus size: 43
30450733 TTTTAGAAAT
30450743 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
* * ***
30450786 AAATGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
* * ***
30450829 AAACACCGCTAAATACCAAGACCTTTAGCAATGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
*
30450872 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
* * * * ** *
30450915 AAACGCCGCTAAAGACTATGACCATTAGCGGCGTTTTTTCCTC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
* *
30450958 AAACGCCGCTATAGA--ATAGACCTTTAGCGACGCTTT
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTT
30450994 TTAGAAAAAC
Statistics
Matches: 173, Mismatches: 34, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
41 1 0.01
42 15 0.09
43 157 0.91
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
Found at i:30453459 original size:9 final size:9
Alignment explanation
Indices: 30453445--30453470 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30453435 CAGCAATGGT
30453445 TGTAACCTC
1 TGTAACCTC
30453454 TGTAACCTC
1 TGTAACCTC
30453463 TGTAACCT
1 TGTAACCT
30453471 GTTTGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.35
Consensus pattern (9 bp):
TGTAACCTC
Found at i:30454483 original size:14 final size:14
Alignment explanation
Indices: 30454443--30454476 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30454433 AACCCTAGAT
*
30454443 CCCTAACTCCTAAC
1 CCCTAACTCTTAAC
30454457 CCCTAACTCTTAAC
1 CCCTAACTCTTAAC
30454471 CCCTAA
1 CCCTAA
30454477 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.47, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACTCTTAAC
Found at i:30454492 original size:21 final size:20
Alignment explanation
Indices: 30454468--30454508 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
30454458 CCTAACTCTT
*
30454468 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
30454489 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
30454509 TAAATCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:30455895 original size:41 final size:41
Alignment explanation
Indices: 30455574--30455887 Score: 396
Period size: 41 Copynumber: 7.7 Consensus size: 41
30455564 AATATTTTTT
* * * *
30455574 GCGGCGCTTTTTCAAAAACGCCACTAAAGACCCAAGCATTA
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGACCCGAGCATTA
*
30455615 GCGGCGCTTCTTAAAAAACGCCGCTAAATACCCGAGCATTA
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGACCCGAGCATTA
* * * *
30455656 GCGGCGCTTCTTCAAAAGCGCCGCTAAAGTCCTGAGCATTA
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGACCCGAGCATTA
* * *
30455697 GCGGCGCTTCTTGAAAAATGCCGCTAAAAACCCGAGCATTA
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGACCCGAGCATTA
*
30455738 GCGGCGCTTCTTGAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGACCCGAGCATTA
* * * * *
30455779 GCGGCGCTTATTCAAAAATGCCGCTAAAGCCCCGAGAATTA
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGACCCGAGCATTA
* * * *
30455820 GCGGTGCTT-TTCAAAAAACACCGCTAAAGCCCCGAGAATTA
1 GCGGCGCTTCTT-AAAAAACGCCGCTAAAGACCCGAGCATTA
* *
30455861 GTGGCGCTTTTTAAAAAACGCCGCTAA
1 GCGGCGCTTCTTAAAAAACGCCGCTAA
30455888 CGCCCCGAAA
Statistics
Matches: 241, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
40 2 0.01
41 237 0.98
42 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTCTTAAAAAACGCCGCTAAAGACCCGAGCATTA
Found at i:30456052 original size:40 final size:40
Alignment explanation
Indices: 30455946--30456060 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
30455936 GCGCTTTCTG
* * *
30455946 AAAAATGCCGCTAATGCTC-ATTTTTAGCGGCATTTTTCA
1 AAAAACGCCGCTAATGCTCAATTTTTAGCGGCGTTTATCA
* * * *
30455985 AAAAACGCCGCTAATACT-AGATCTTTAGTGGCGTTTATGA
1 AAAAACGCCGCTAATGCTCA-ATTTTTAGCGGCGTTTATCA
* *
30456025 AGAAGCGCCGCTAATGCTCAATTTTTAGCGGCGTTT
1 AAAAACGCCGCTAATGCTCAATTTTTAGCGGCGTTT
30456061 TTTATCCAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
39 16 0.26
40 44 0.72
41 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (40 bp):
AAAAACGCCGCTAATGCTCAATTTTTAGCGGCGTTTATCA
Found at i:30461877 original size:16 final size:16
Alignment explanation
Indices: 30461856--30461886 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30461846 CTCACTACTA
30461856 TGTCTTTTATATTTTC
1 TGTCTTTTATATTTTC
30461872 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
30461887 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:30466191 original size:42 final size:43
Alignment explanation
Indices: 30466091--30466193 Score: 100
Period size: 43 Copynumber: 2.4 Consensus size: 43
30466081 ACAATGCAAC
* * * * *
30466091 GTCCCAAACGTGGTCTTACATGTAATCAAATATTGATGCTGTT
1 GTCCCAAACATGGTCTTACACGAAATCAAATATCGATGCTGAT
** * * **
30466134 GTCTTAGACAGGGTCTTACACGAAATCGTATA-CGATGCTGAT
1 GTCCCAAACATGGTCTTACACGAAATCAAATATCGATGCTGAT
30466176 GTCCCAAACATGGTCTTA
1 GTCCCAAACATGGTCTTA
30466194 AATGTAAATC
Statistics
Matches: 45, Mismatches: 15, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
42 22 0.49
43 23 0.51
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (43 bp):
GTCCCAAACATGGTCTTACACGAAATCAAATATCGATGCTGAT
Found at i:30467379 original size:13 final size:13
Alignment explanation
Indices: 30467361--30467385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30467351 CCAAATGATA
30467361 AAATTTTCACACG
1 AAATTTTCACACG
30467374 AAATTTTCACAC
1 AAATTTTCACAC
30467386 ATATAAACCA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:30470102 original size:16 final size:16
Alignment explanation
Indices: 30470070--30470100 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30470060 CAAAATCAGT
30470070 GAAAAGAAAATACAAA
1 GAAAAGAAAATACAAA
30470086 GAAAAGAAAAT-CAAA
1 GAAAAGAAAATACAAA
30470101 AGCAAAAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.74, C:0.06, G:0.13, T:0.06
Consensus pattern (16 bp):
GAAAAGAAAATACAAA
Found at i:30478297 original size:199 final size:198
Alignment explanation
Indices: 30477957--30478354 Score: 654
Period size: 199 Copynumber: 2.0 Consensus size: 198
30477947 ATCGTTGGTG
* * * *
30477957 GTAAGTTGGGTTTCTGTTCGTTCTTGGTTTTCAATTTGCTTGTAAATCCGTTAAATTGATGTTGA
1 GTAAGTTGGGTTTCTGTTCATTCTTGGTTGTCAATTTGCTTGTAAATCCATTAAAATGATGTTGA
*
30478022 GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGAACTAGGTGAGT
66 GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGAACCAGGTGAGT
* *
30478087 ACCAGAAACGCAAAGAAAAAGGGA-TTAGGTGAAAAGCTAAAATTGCTTGTTGTTTGGACAGCAG
131 ACCAGAAACGCAAA-AAAAAAGGATTTA-GTGAAAAGCTAAAATTGCTTGCTGTTTGGACAGCAG
*
30478151 TAGTA
194 CAGTA
*
30478156 GTAAGTTGGGTTTCTGTTCATTCTTGGTTGTCAATTTTCTTGTAAATCCATTAAAATGATGTTGA
1 GTAAGTTGGGTTTCTGTTCATTCTTGGTTGTCAATTTGCTTGTAAATCCATTAAAATGATGTTGA
* * *
30478221 GTATCTTGATTATAGGCTTTGGAGTGCTCGGGGACTGTTTTAGCATCAAAGAGAACCAGGTGTGT
66 GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGAACCAGGTGAGT
*
30478286 ACCAGAAACGCAAAAAAAAAGGATTTAGTGAAAAGCTGAAATTGCTTGCTGTTTGGACAGCAGCA
131 ACCAGAAACGCAAAAAAAAAGGATTTAGTGAAAAGCTAAAATTGCTTGCTGTTTGGACAGCAGCA
30478351 GTA
196 GTA
30478354 G
1 G
30478355 GCTAATTGTG
Statistics
Matches: 185, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
198 47 0.25
199 138 0.75
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (198 bp):
GTAAGTTGGGTTTCTGTTCATTCTTGGTTGTCAATTTGCTTGTAAATCCATTAAAATGATGTTGA
GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGAACCAGGTGAGT
ACCAGAAACGCAAAAAAAAAGGATTTAGTGAAAAGCTAAAATTGCTTGCTGTTTGGACAGCAGCA
GTA
Found at i:30478643 original size:45 final size:41
Alignment explanation
Indices: 30478605--30478682 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
30478595 ATTTAAATTA
*
30478605 TTAATGAGTCTAATTACTACTTAATGCCTTATTATATTTTT
1 TTAATGAATCTAATTACTACTTAATGCCTTATTATATTTTT
* *
30478646 TTAATTAATCTAATTACTACTTGATGCCTTATTATAT
1 TTAATGAATCTAATTACTACTTAATGCCTTATTATAT
30478683 ATCTAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (41 bp):
TTAATGAATCTAATTACTACTTAATGCCTTATTATATTTTT
Found at i:30478728 original size:36 final size:35
Alignment explanation
Indices: 30478697--30478765 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
30478687 AATGTAATTT
30478697 TTAATTAAATTGAATGGAAGTTTATGGATGTATAAG
1 TTAATTAAATTGAATGGAAG-TTATGGATGTATAAG
* * *
30478733 TTAATTCAATTGAATGTAAGTTATGGAAGTATA
1 TTAATTAAATTGAATGGAAGTTATGGATGTATA
30478766 TGTATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 12 0.40
36 18 0.60
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.39
Consensus pattern (35 bp):
TTAATTAAATTGAATGGAAGTTATGGATGTATAAG
Found at i:30479013 original size:75 final size:76
Alignment explanation
Indices: 30478927--30479080 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 76
30478917 ACTAGCTCCG
* * * **
30478927 GGTGCAATAATTTTTCGACTCGTTCGACTAGTGCTGGGCACACTATTGATCTTGTCG-GTTATTC
1 GGTGCAATAATTTGTCGACTCGTTCGACTAGTGCTGGGCACACCATTGATCATGTCGAGTTAAAC
*
30478991 GGCTAGCGCTA
66 GACTAGCGCTA
* * *
30479002 GGTGTAATAATTTGTCGACTCGTTTGACTAGTGTTGGGCACACCATTGATCATGTCGAGTTAAAC
1 GGTGCAATAATTTGTCGACTCGTTCGACTAGTGCTGGGCACACCATTGATCATGTCGAGTTAAAC
30479067 GACTAGCGCTA
66 GACTAGCGCTA
30479078 GGT
1 GGT
30479081 ACAAAAACCT
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 51 0.74
76 18 0.26
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (76 bp):
GGTGCAATAATTTGTCGACTCGTTCGACTAGTGCTGGGCACACCATTGATCATGTCGAGTTAAAC
GACTAGCGCTA
Found at i:30482667 original size:20 final size:20
Alignment explanation
Indices: 30482618--30482661 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
30482608 TATCAATCCA
30482618 GTATCAATACT-TTTCTTAAG
1 GTATCAATA-TATTTCTTAAG
30482638 GTATCAATATATTTCTTAAG
1 GTATCAATATATTTCTTAAG
30482658 GTAT
1 GTAT
30482662 AGATATTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
GTATCAATATATTTCTTAAG
Found at i:30483013 original size:216 final size:216
Alignment explanation
Indices: 30482633--30483060 Score: 707
Period size: 216 Copynumber: 2.0 Consensus size: 216
30482623 AATACTTTTC
* *
30482633 TTAAGGTATCAATATATTTCTTAAGGTATAGATATTCCTGCTTCAACGGTTACTGAAATCAACAT
1 TTAAGGTATCAATATATTTCCTAAGGTATAGATATTCCTGCTTCAACGGTCACTGAAATCAACAT
** * *
30482698 TATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCGTTGCTGTAGGTGAATTTAA
66 TATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCGTTGCTACAGGTAAAGTTAA
*
30482763 TGACCTAGTATTTCATCCCAACAGCTACATTCACTTCTACAACAACCACAACGGTTGAAAATCAA
131 TGACCTAGTATTTCATCCCAACAGCTACATTCACTTCTACAACAACCACAACGGTTGAAAATAAA
30482828 TTAGAGGGTATAAATACCATT
196 TTAGAGGGTATAAATACCATT
* *
30482849 TTAAGGTATCAATATATTTCCTAAGGTGTAGATATTCCTGCTTCAACGGTCACTGAAATCATCAT
1 TTAAGGTATCAATATATTTCCTAAGGTATAGATATTCCTGCTTCAACGGTCACTGAAATCAACAT
* *
30482914 TATTTACAAAAAATATCGTTACCTTTTTAGTTGGTATCGATACTCGTTGCTACAGGTAAAGTTAA
66 TATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCGTTGCTACAGGTAAAGTTAA
* *
30482979 TGATCTAGTATTTCATCCCGAA-GGCT-CAATTCACTTCTACAACAACCACAACGGTTGAAAATA
131 TGACCTAGTATTTCATCCC-AACAGCTAC-ATTCACTTCTACAACAACCACAACGGTTGAAAATA
30483042 AATTAGAGGGTATAAATAC
194 AATTAGAGGGTATAAATAC
30483061 TATCTTCCAA
Statistics
Matches: 197, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
215 1 0.01
216 194 0.98
217 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (216 bp):
TTAAGGTATCAATATATTTCCTAAGGTATAGATATTCCTGCTTCAACGGTCACTGAAATCAACAT
TATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCGTTGCTACAGGTAAAGTTAA
TGACCTAGTATTTCATCCCAACAGCTACATTCACTTCTACAACAACCACAACGGTTGAAAATAAA
TTAGAGGGTATAAATACCATT
Found at i:30503740 original size:24 final size:24
Alignment explanation
Indices: 30503712--30503785 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
30503702 TTATAAATTA
30503712 AATTATAATTATTTTTAAATGTTT
1 AATTATAATTATTTTTAAATGTTT
* ** *
30503736 AATTATCACAACTTTT--A---TT
1 AATTATAATTATTTTTAAATGTTT
30503755 AAGTTATAATTATTTTTAAATGTTT
1 AA-TTATAATTATTTTTAAATGTTT
30503780 AATTAT
1 AATTAT
30503786 TACAACTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
19 4 0.11
20 10 0.28
22 2 0.06
24 16 0.44
25 4 0.11
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
AATTATAATTATTTTTAAATGTTT
Found at i:30503762 original size:44 final size:44
Alignment explanation
Indices: 30503708--30503798 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
30503698 ATAATTATAA
30503708 ATTAAATTATAATTATTTTTAAATGTTTAATTATCACAACTTTT
1 ATTAAATTATAATTATTTTTAAATGTTTAATTATCACAACTTTT
* *
30503752 ATTAAGTTATAATTATTTTTAAATGTTTAATTATTACAACTTTT
1 ATTAAATTATAATTATTTTTAAATGTTTAATTATCACAACTTTT
30503796 ATT
1 ATT
30503799 TTAATTCAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTTAAATGTTTAATTATCACAACTTTT
Found at i:30503795 original size:24 final size:24
Alignment explanation
Indices: 30503724--30503796 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
30503714 TTATAATTAT
*
30503724 TTTTAAATGTTTAATTATCACAAC
1 TTTTAAATGTTTAATTATTACAAC
30503748 TTTTATTAA-GTTATAATTA-T-----
1 TTTTA--AATGTT-TAATTATTACAAC
30503768 TTTTAAATGTTTAATTATTACAAC
1 TTTTAAATGTTTAATTATTACAAC
30503792 TTTTA
1 TTTTA
30503797 TTTTAATTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 20
0.64 0.02 0.34
Matches are distributed among these distances:
18 8 0.21
19 4 0.11
20 5 0.13
24 10 0.26
25 3 0.08
26 8 0.21
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTAAATGTTTAATTATTACAAC
Found at i:30506301 original size:17 final size:17
Alignment explanation
Indices: 30506279--30506312 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30506269 TGGTTACTTA
30506279 GCTTGAGAATACCTCTT
1 GCTTGAGAATACCTCTT
30506296 GCTTGAGAATACCTCTT
1 GCTTGAGAATACCTCTT
30506313 TCTTCACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (17 bp):
GCTTGAGAATACCTCTT
Found at i:30512754 original size:24 final size:24
Alignment explanation
Indices: 30512682--30512755 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
30512672 TCATGAATTG
* *
30512682 GAAATCGATAAGCTTATACGAGTT
1 GAAATCGATAAGCTCATACGAGCT
* * *
30512706 GACAATC-AGTAAACTC-TCCCAAGCT
1 GA-AATCGA-TAAGCTCAT-ACGAGCT
30512731 GAAATCGATAAGCTCATACGAGCT
1 GAAATCGATAAGCTCATACGAGCT
30512755 G
1 G
30512756 TGGTGTGTCC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
24 20 0.54
25 17 0.46
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (24 bp):
GAAATCGATAAGCTCATACGAGCT
Found at i:30522722 original size:27 final size:28
Alignment explanation
Indices: 30522692--30522744 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
30522682 TATTCAGTGA
30522692 CAGTA-CAATGAGGGCCTTAGCCCAATT
1 CAGTAGCAATGAGGGCCTTAGCCCAATT
* *
30522719 CAGTAGCAGTGTGGGCCTTAGCCCAA
1 CAGTAGCAATGAGGGCCTTAGCCCAA
30522745 CACAGTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
CAGTAGCAATGAGGGCCTTAGCCCAATT
Found at i:30522735 original size:28 final size:28
Alignment explanation
Indices: 30522703--30522779 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
30522693 AGTACAATGA
*
30522703 GGGCCTTAGCCCAATTCAGTAGCAGTGT
1 GGGCCTTAGCCCAATACAGTAGCAGTGT
* *
30522731 GGGCCTTAGCCCAACACAGTATCAGTGT
1 GGGCCTTAGCCCAATACAGTAGCAGTGT
* *
30522759 GGACCTTAGCGCAATACAGTA
1 GGGCCTTAGCCCAATACAGTA
30522780 ACATTACAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGTAGCAGTGT
Found at i:30523180 original size:27 final size:27
Alignment explanation
Indices: 30523150--30523793 Score: 543
Period size: 27 Copynumber: 24.0 Consensus size: 27
30523140 GGGTATAAAA
*
30523150 ATCATTTTACCCTAT-GAGGGTATTTTG
1 ATCATTTTACCCT-TCGAGGGTATTTCG
* * *
30523177 ATCATTTTACCTTTCGAGGTTATTT-T
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
30523203 AGTCATTTTACCCTTC-AGGGTATTTCA
1 A-TCATTTTACCCTTCGAGGGTATTTCG
* *
30523230 ATTATTTTAACCTTCGAGGGTATTTC-
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
30523256 ATCATTTTACCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
30523283 ATCATTTTACCCTTCAAGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
30523310 GTCATATTACCCTTCGA-GGTATTTC-
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
30523335 AGTCATTTTACCCTAT-GGGGGTAATTCG
1 A-TCATTTTACCCT-TCGAGGGTATTTCG
* * *
30523363 ATCATTCCT-CCCTAT-GGGGGCATTTC-
1 ATCATT-TTACCCT-TCGAGGGTATTTCG
30523389 ATTCATTTCT-CCCTTCGAGGGTATTTCG
1 A-TCATTT-TACCCTTCGAGGGTATTTCG
* * * * *
30523417 GTTATTTCACCCTTTGGGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
30523444 ATCATTTTACTCTTCGAGGG-ATTTC-
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
30523469 AGTCATTTTACCCTTCGAGGGTATTTAG
1 A-TCATTTTACCCTTCGAGGGTATTTCG
* * * * *
30523497 GTGATCTTACCCTTTGGGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
30523524 ATCATTTTATCCTTCG-GGAGTATTTCA
1 ATCATTTTACCCTTCGAGG-GTATTTCG
*
30523551 ATCATTTTACCCTTCG-GAGGTAATTCG
1 ATCATTTTACCCTTCGAG-GGTATTTCG
* * *
30523578 GTCATTTTACCCTTTGTA-AGTGA-TTCG
1 ATCATTTTACCCTTCG-AGGGT-ATTTCG
* * * * *
30523605 GTCATTTTAACCTTTTGA-GGTAATCCG
1 ATCATTTT-ACCCTTCGAGGGTATTTCG
* *
30523632 ATCATTTTACCCTTCGGGGGTAATTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
30523659 ATCATTTTACCCTTCAAGGGTATTTCA
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
30523686 ATCATTTTACCCTTCGGGGGTAATTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
30523713 ATCATTTTACCCATCGAGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* * *
30523740 GTTATTTTACCCTTC-AGGAGTAATTCG
1 ATCATTTTACCCTTCGAGG-GTATTTCG
* * * *
30523767 GTCATTTTACCCTACGGGGGTAATTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
30523794 GTCAATTTCC
Statistics
Matches: 506, Mismatches: 83, Indels: 56
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.00
26 102 0.20
27 390 0.77
28 13 0.03
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
ATCATTTTACCCTTCGAGGGTATTTCG
Found at i:30524415 original size:12 final size:12
Alignment explanation
Indices: 30524397--30524426 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30524387 CGGATAAGAG
30524397 AAGGGAAGAGAA
1 AAGGGAAGAGAA
*
30524409 GAGGGAAGAGAA
1 AAGGGAAGAGAA
30524421 AAGGGA
1 AAGGGA
30524427 TTCGACAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (12 bp):
AAGGGAAGAGAA
Found at i:30526818 original size:359 final size:358
Alignment explanation
Indices: 30526155--30526851 Score: 1277
Period size: 359 Copynumber: 1.9 Consensus size: 358
30526145 ATTTAGGCCC
30526155 TAACATTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGCC
1 TAACATTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGCC
* *
30526220 ATTTGGCAAGGTCCAAAATCAGTATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAA
66 ATTCGGCAAGGTCCAAAATCAATATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAA
*
30526285 CACTAATACACACAAAAGGTTAGACCCACACCTTATTTACATGAATCTAATGCACTAACATCATC
131 CACTAATACACACAAAAGGTTAAACCCACACCTTATTTACATGAATCTAATGCACTAACATCATC
*
30526350 GCAACTTCTACAACTTAAATCTAGACAGCTCTAGACCAGATCTGTACACAACATGAATGAAACTC
196 GCAACTTCTACAACTTAAATCTAGACAACTCTAGACCAGATCTGTACACAACATGAATGAAACTC
30526415 GATTAAAACTAGCCTTTAAAAACACCTATAAGGTTCAAACAGAACAAGGATTAACAATGTCAAAT
261 GATTAAAACTAGCCTTTAAAAACACCTATAAGGTTCAAACAGAACAAGGATTAACAATGTCAAAT
30526480 CAAATTCAATTTTACCAATCTTGGTATACCTCT
326 CAAATTCAATTTTACCAATCTTGGTATACCTCT
30526513 TAACTATTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGC
1 TAAC-ATTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGC
*
30526578 CATTCGGCAAGGTCCAAAATCAATATGCAAAATTAATCACATGCATAAAATATACCATTTCTTAA
65 CATTCGGCAAGGTCCAAAATCAATATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAA
* * *
30526643 ACACTAATACACACAAAAGGTTAAATCCACACCTTATTTACATGAATCTGATGCACTAACGTCAT
130 ACACTAATACACACAAAAGGTTAAACCCACACCTTATTTACATGAATCTAATGCACTAACATCAT
*
30526708 TGCAACTTCTACAACTTAAATCTAGACAACTCTAGACCAGATCTGTACACAACATGAATGAAACT
195 CGCAACTTCTACAACTTAAATCTAGACAACTCTAGACCAGATCTGTACACAACATGAATGAAACT
* * *
30526773 CGATTAAAACTAGCCTTTAGAAACCCCTATAAGGTTCGAACAGAACAAGGATTAACAATGTCAAA
260 CGATTAAAACTAGCCTTTAAAAACACCTATAAGGTTCAAACAGAACAAGGATTAACAATGTCAAA
30526838 TCAAATTCAATTTT
325 TCAAATTCAATTTT
30526852 TGATCACTTA
Statistics
Matches: 326, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
358 4 0.01
359 322 0.99
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (358 bp):
TAACATTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGCC
ATTCGGCAAGGTCCAAAATCAATATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAA
CACTAATACACACAAAAGGTTAAACCCACACCTTATTTACATGAATCTAATGCACTAACATCATC
GCAACTTCTACAACTTAAATCTAGACAACTCTAGACCAGATCTGTACACAACATGAATGAAACTC
GATTAAAACTAGCCTTTAAAAACACCTATAAGGTTCAAACAGAACAAGGATTAACAATGTCAAAT
CAAATTCAATTTTACCAATCTTGGTATACCTCT
Found at i:30527605 original size:523 final size:522
Alignment explanation
Indices: 30526608--30528111 Score: 2011
Period size: 523 Copynumber: 2.9 Consensus size: 522
30526598 CAATATGCAA
* *
30526608 AATTAATCACATGCATAAAATATACCATTTCTTAAACACTAATACACACAAAAGGTTAAATCCAC
1 AATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACA-AAAAGGTTAAACCCAC
* *** * *
30526673 ACCTTATTTACATGAATCTGATGCACTAACGTC-ATTGCAACTTCTACAACTTAAATCTAGACAA
65 ACCTAATTTATGCGAATCTGATGCACTAACG-CAATTGCAACTTCTACAACTTAGATCTAGACAG
* *
30526737 CTCTAGACCAGATCTGTACACAACATGAATGAAACTCGATTAAAACTAGCCTTTAGAAACCCCTA
129 CTCTAGACCGGATCTGTACACAACATGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTA
* * * **
30526802 TAAGGTTCGAACAGAACAAGGATTAACAATGTCAAATCAAATTCAATTTTTGATCACTTACTTAC
194 TAAGGTTTGACCAGAACAAGGATTAACAGTGTCAAATCGGATTCAATTTTTGATCACTTACTTA-
* * * ** *
30526867 TCTATTGTGATATATAACGAAGACATGAATGAGTTTTGATGTCACTACTGATCCATGACATTCGG
258 TC---T-CGATATATAACAAAGACA-GAATGAGTTTAGATGTCACTGTTGATCCATGACGTTCGG
30526932 ATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATGCCACCAGTA
318 ATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATGCCACCAGTA
* * * *
30526997 ACATTCAACCAAAGTAGAAAATAAAGGAAGAAGGAAACGAGATAAGATCTGATTGAAAGAAAAAC
383 ACATTTAACCAAAGCAAAAAATAAAGGAAGAAGGAAACGAGATAAGATCTGATCGAAAGAAAAAC
* *
30527062 TACTTACTCCACATGAACGACAGATACGAAGAACCAATCAAAAATCCAAGCAGTA-CATATGAAT
448 TACTTACTCCACATGAACGACAGATACGAAGAACCAATCAAAAATCCAAGCAATATC-GATGAAT
30527126 TC-AGCTAGAAT
512 TCGAG-TAGAAT
* *
30527137 AATTAATCACATGTATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTCAAACCCACA
1 AATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTTAAACCCACA
* *
30527202 CCTAATTTATGCGAATCCGATACACTAACGCAATTGCAACTTCTACAACTTAGATCTAGACAGCT
66 CCTAATTTATGCGAATCTGATGCACTAACGCAATTGCAACTTCTACAACTTAGATCTAGACAGCT
* *
30527267 CTAGACCGGATTTGTACACAACATGAATGAAACTCGATTAAAACCAGCCATTAGAAA-CCCTATA
131 CTAGACCGGATCTGTACACAACATGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTATA
* * *
30527331 AGGTTTGACCAGAACAAGGATTAATAGTGTCAAATCGGATTCAATATTTGGTCACTTACTCTATC
196 AGGTTTGACCAGAACAAGGATTAACAGTGTCAAATCGGATTCAATTTTTGATCACTTACT-TATC
* * * *
30527396 TCGATTTATAACAAAGACACAAATGAATTTAGATGTCACTGTTGATCCATGACGTTCGGATTAAG
260 TCGATATATAACAAAGACA-GAATGAGTTTAGATGTCACTGTTGATCCATGACGTTCGGATTAGG
* * * *
30527461 TCCTCCAATCAAAATAACAATCAAAAGCTAGTAAAGAATATTTGACTATGCCACCAGTAACATTT
324 TCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATGCCACCAGTAACATTT
** * * * * *
30527526 GTCCAAAGCAAAAAATCAAGGGAGAAGGAACCGAGATCAGATCTGATCGAAAGAAAAATTACTTA
389 AACCAAAGCAAAAAATAAAGGAAGAAGGAAACGAGATAAGATCTGATCGAAAGAAAAACTACTTA
* * * *
30527591 CTCTAC-TAGAACGACAGATTCGAAGAACCAATGAAAAATCTAAGCAATATCGATGAATTCGAGT
454 CTCCACAT-GAACGACAGATACGAAGAACCAATCAAAAATCCAAGCAATATCGATGAATTCGAGT
30527655 AGAAT
518 AGAAT
* * * *
30527660 AATTAATCACATGCATAAAATATACCTTTTTTTAAACACTAATACACACAAATGTTAGACCCACA
1 AATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTTAAACCCACA
** *
30527725 CCTAATTTATGTC-AATCTGATGCACTAACATAATCGCAACTTCTACAACTTAGATCTAGACAGC
66 CCTAATTTATG-CGAATCTGATGCACTAACGCAATTGCAACTTCTACAACTTAGATCTAGACAGC
* * *
30527789 TCTAGATCGGATCTGTACACAAAATGAATGAAACTCAATTAAAACCAGCCTTTAGAAACCCCTAT
130 TCTAGACCGGATCTGTACACAACATGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTAT
* * *
30527854 AAGG-TTCAGCCAGAACAAGGACTAACAGTGTCAAATCGGATTCAATTTTTAATCACTTACTATA
195 AAGGTTTGA-CCAGAACAAGGATTAACAGTGTCAAATCGGATTCAATTTTTGATCACTTACT-TA
* * *
30527918 TTTCGATATAGAACAAAGACTAGAATGAGTCTCA-ATGTCACTGTTGATCCATGACGTTCGGATT
258 TCTCGATATATAACAAAGAC-AGAATGAGT-TTAGATGTCACTGTTGATCCATGACGTTCGGATT
* * *
30527982 AGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAA-AATTCAGCTATGCCACCAATAAC
321 AGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGA-CTATGCCACCAGTAAC
* * * * * * **
30528046 ATTTAGA-CAAATCAGAAAATACAGGAAGAAGGAAACAAGATAAAATTTTGATTAAAAGAAAAAC
385 ATTTA-ACCAAAGCAAAAAATAAAGGAAGAAGGAAACGAGATAAGA-TCTGATCGAAAGAAAAAC
30528110 TA
448 TA
30528112 TTTATTCAAC
Statistics
Matches: 854, Mismatches: 108, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
522 1 0.00
523 400 0.47
524 201 0.24
525 19 0.02
527 62 0.07
528 125 0.15
529 46 0.05
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.26
Consensus pattern (522 bp):
AATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTTAAACCCACA
CCTAATTTATGCGAATCTGATGCACTAACGCAATTGCAACTTCTACAACTTAGATCTAGACAGCT
CTAGACCGGATCTGTACACAACATGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTATA
AGGTTTGACCAGAACAAGGATTAACAGTGTCAAATCGGATTCAATTTTTGATCACTTACTTATCT
CGATATATAACAAAGACAGAATGAGTTTAGATGTCACTGTTGATCCATGACGTTCGGATTAGGTC
CTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATGCCACCAGTAACATTTAA
CCAAAGCAAAAAATAAAGGAAGAAGGAAACGAGATAAGATCTGATCGAAAGAAAAACTACTTACT
CCACATGAACGACAGATACGAAGAACCAATCAAAAATCCAAGCAATATCGATGAATTCGAGTAGA
AT
Found at i:30534605 original size:24 final size:22
Alignment explanation
Indices: 30534541--30534617 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
30534531 GGATTTGGAC
*
30534541 TTGCTTGT-TTGTTATTTTTTT
1 TTGCTTTTCTTGTTATTTTTTT
30534562 TT-CTTTTCTT-TTATTATTTTCTT
1 TTGCTTTTCTTGTTA-T-TTTT-TT
*
30534585 TTGCTTTTCTTGTGTATTTTTGT
1 TTGCTTTTCTTGT-TATTTTTTT
*
30534608 TTGTTTTTCT
1 TTGCTTTTCT
30534618 GTGAAGCCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 7 0.15
21 5 0.11
22 4 0.09
23 14 0.30
24 12 0.26
25 2 0.04
26 2 0.04
ACGTcount: A:0.05, C:0.09, G:0.10, T:0.75
Consensus pattern (22 bp):
TTGCTTTTCTTGTTATTTTTTT
Found at i:30538374 original size:41 final size:41
Alignment explanation
Indices: 30538317--30538441 Score: 198
Period size: 41 Copynumber: 3.0 Consensus size: 41
30538307 AGTGACAATT
* *
30538317 TACTTGCGATACAATTTAAACCATCACAACTATTCTTAAAA
1 TACTTGTGATACAATTTAAACCATCACAACTATTGTTAAAA
30538358 TACTTGTGATACAATTTAAACCATCACAACTATTGTTAAAA
1 TACTTGTGATACAATTTAAACCATCACAACTATTGTTAAAA
* *
30538399 -AGCCTGTGATACAATTTAAACCATCATAACTATTGTTAAAA
1 TA-CTTGTGATACAATTTAAACCATCACAACTATTGTTAAAA
30538440 TA
1 TA
30538442 GTAACCAAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
40 1 0.01
41 76 0.97
42 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (41 bp):
TACTTGTGATACAATTTAAACCATCACAACTATTGTTAAAA
Found at i:30552232 original size:22 final size:22
Alignment explanation
Indices: 30552167--30552246 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
30552157 TACTATTTTC
*
30552167 TCTTTTAAACAGTAATTTATCTGA
1 TCTTTTAAACA-T-ATTTATTTGA
**
30552191 TCTTTTCTACATA---ATTTGA
1 TCTTTTAAACATATTTATTTGA
30552210 TCTTTTAAACATATTTATTTGA
1 TCTTTTAAACATATTTATTTGA
**
30552232 TCTTTTCTACATATT
1 TCTTTTAAACATATT
30552247 AAGTCACTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
19 16 0.35
22 20 0.43
23 1 0.02
24 9 0.20
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.53
Consensus pattern (22 bp):
TCTTTTAAACATATTTATTTGA
Found at i:30556499 original size:23 final size:23
Alignment explanation
Indices: 30556473--30556518 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30556463 ACTACTCGTA
30556473 TCCATTCTTCAACTCTTAAATAG
1 TCCATTCTTCAACTCTTAAATAG
*
30556496 TCCATTCTTGAACTCTTAAATAG
1 TCCATTCTTCAACTCTTAAATAG
30556519 AATGATAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (23 bp):
TCCATTCTTCAACTCTTAAATAG
Found at i:30559181 original size:224 final size:224
Alignment explanation
Indices: 30558794--30559247 Score: 770
Period size: 224 Copynumber: 2.0 Consensus size: 224
30558784 TAGGTTAGTG
**
30558794 AGAATTTTCTAACGGTAGTGACTAAATTACTTTTTTTTTATTTGAGGGATCAAAATGAAAGGGCT
1 AGAATTTTCTAACGGTAGTGACTAAATTACTTTTTTTTTATTTGAGGGATCAAAATGAAAGCACT
*
30558859 TAAAAAGTTGGGTAATCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAATAT
66 TAAAAAGTTGGGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAATAT
*
30558924 AGGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCATCTTA-TT-TA-TGGAGAGGGACTAT
131 AGGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCATCTTATTTATAGTGGAGAGAGACTAT
*
30558986 GTATAGTTTTAAACATTGTCTTCTCAAAA
196 ATATAGTTTTAAACATTGTCTTCTCAAAA
*
30559015 AGAATTTTCTAACGGTAGTGACTAAATTACAAGTTTTTTTTTATTTGAGGGATTAAAATGAAAGC
1 AGAATTTTCTAACGGTAGTGACTAAATTAC---TTTTTTTTTATTTGAGGGATCAAAATGAAAGC
30559080 ACTTAAAAAGTTGGGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAA
63 ACTTAAAAAGTTGGGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAA
* *
30559145 TATAGGAGGACATGGGTTCGAGTGTATTGAATCTCATTATCCTCTTATTTATAGGTTGGAGAGAG
128 TATAGGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCATCTTATTTATA-G-TGGAGAGAG
30559210 ACTATATATAGTTTTAAACATTGTCTTCTCAAAA
191 ACTATATATAGTTTTAAACATTGTCTTCTCAAAA
30559244 AGAA
1 AGAA
30559248 CATATATGAA
Statistics
Matches: 217, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
221 30 0.14
224 138 0.64
225 2 0.01
226 2 0.01
229 45 0.21
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (224 bp):
AGAATTTTCTAACGGTAGTGACTAAATTACTTTTTTTTTATTTGAGGGATCAAAATGAAAGCACT
TAAAAAGTTGGGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAATAT
AGGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCATCTTATTTATAGTGGAGAGAGACTAT
ATATAGTTTTAAACATTGTCTTCTCAAAA
Found at i:30559709 original size:13 final size:13
Alignment explanation
Indices: 30559691--30559726 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30559681 CTACAGTATG
30559691 ATAAAAATTTCGT
1 ATAAAAATTTCGT
30559704 ATAAAAATTTCGT
1 ATAAAAATTTCGT
30559717 -TAAGAAATTT
1 ATAA-AAATTT
30559727 TACCGTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (13 bp):
ATAAAAATTTCGT
Found at i:30560496 original size:16 final size:17
Alignment explanation
Indices: 30560475--30560508 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30560465 GTTCCATGTT
30560475 GAATTAAATTG-AATGA
1 GAATTAAATTGAAATGA
*
30560491 GAATTATATTGAAATGA
1 GAATTAAATTGAAATGA
30560508 G
1 G
30560509 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
GAATTAAATTGAAATGA
Found at i:30560853 original size:25 final size:24
Alignment explanation
Indices: 30560819--30560908 Score: 126
Period size: 25 Copynumber: 3.6 Consensus size: 24
30560809 GACACACCAT
30560819 AGCTCGCATGAGCTTCCCGTTACTC
1 AGCTCGCATGAGCTTCCCGTTA-TC
30560844 AGCTCGCATGAGCTTCCCGTTATTC
1 AGCTCGCATGAGCTTCCCGTTA-TC
*
30560869 AGCTCGCATGAGCTTCCCATTATAC
1 AGCTCGCATGAGCTTCCCGTTAT-C
* *
30560894 AGCTCGGAGGAGCTT
1 AGCTCGCATGAGCTT
30560909 ACTATTTACA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 1 0.02
25 59 0.98
ACGTcount: A:0.19, C:0.31, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCTCGCATGAGCTTCCCGTTATC
Found at i:30560923 original size:24 final size:25
Alignment explanation
Indices: 30560819--30560923 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
30560809 GACACACCAT
* * *
30560819 AGCTCGCATGAGCTTCCCGTTACT-C
1 AGCTCGCAGGAGCTTACCATTA-TAC
* * * *
30560844 AGCTCGCATGAGCTTCCCGTTATTC
1 AGCTCGCAGGAGCTTACCATTATAC
* *
30560869 AGCTCGCATGAGCTTCCCATTATAC
1 AGCTCGCAGGAGCTTACCATTATAC
* *
30560894 AGCTCGGAGGAGCTTACTATT-TAC
1 AGCTCGCAGGAGCTTACCATTATAC
30560918 AGCTCG
1 AGCTCG
30560924 TATGAGTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.14
25 63 0.86
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTCGCAGGAGCTTACCATTATAC
Found at i:30581177 original size:64 final size:64
Alignment explanation
Indices: 30581076--30581203 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
30581066 CATTAACCAC
30581076 AGGTAAATGCACTACCCATCCAAAAGGGCCCTAAGAGTGAGTAAAAGGAAAGAAATAAAATCTA
1 AGGTAAATGCACTACCCATCCAAAAGGGCCCTAAGAGTGAGTAAAAGGAAAGAAATAAAATCTA
*
30581140 AGGTAAATGCACTACCCATCCAAAAGGGCCTTAAGAGTGAGTAAAAGGAAAGAAATAAAATCTA
1 AGGTAAATGCACTACCCATCCAAAAGGGCCCTAAGAGTGAGTAAAAGGAAAGAAATAAAATCTA
30581204 TCTAAAAATC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (64 bp):
AGGTAAATGCACTACCCATCCAAAAGGGCCCTAAGAGTGAGTAAAAGGAAAGAAATAAAATCTA
Found at i:30586118 original size:3 final size:3
Alignment explanation
Indices: 30586110--30586139 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30586100 TCAGAAACAC
30586110 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30586140 CAGTACTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30589971 original size:29 final size:29
Alignment explanation
Indices: 30589934--30590002 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
30589924 CAATATATTA
* *
30589934 GATATCACTTGGTTCAAACCAACAGTTC-
1 GATACCACTTGGTTCAAACCAACAGCTCT
*
30589962 GAATACCACTTGGTTCGAACCAACAGCTCT
1 G-ATACCACTTGGTTCAAACCAACAGCTCT
30589992 GATACCACTTG
1 GATACCACTTG
30590003 TTACGAGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.03
29 34 0.94
30 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (29 bp):
GATACCACTTGGTTCAAACCAACAGCTCT
Found at i:30592777 original size:20 final size:20
Alignment explanation
Indices: 30592752--30592791 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30592742 CTTAGATGAG
*
30592752 TTGTAAGATATTTTGTTATT
1 TTGTAAGATATTTTATTATT
*
30592772 TTGTAAGGTATTTTATTATT
1 TTGTAAGATATTTTATTATT
30592792 AACTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
TTGTAAGATATTTTATTATT
Found at i:30604052 original size:13 final size:13
Alignment explanation
Indices: 30604034--30604064 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30604024 CACATGACTA
30604034 ATTTCATATAGCC
1 ATTTCATATAGCC
*
30604047 ATTTCATATATCC
1 ATTTCATATAGCC
30604060 ATTTC
1 ATTTC
30604065 CATTTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCATATAGCC
Found at i:30609440 original size:25 final size:25
Alignment explanation
Indices: 30609404--30609488 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
30609394 TAACAGGTAT
30609404 CTCCAAAGAGCCAT-TAATCGGGAAG
1 CTCCAAAGAGCCATAT-ATCGGGAAG
*
30609429 CTCCAAATAGCCATATATCGGGAAG
1 CTCCAAAGAGCCATATATCGGGAAG
* * *
30609454 -TTCAAGCGAGCCATAT-T-GAGAAG
1 CTCCAA-AGAGCCATATATCGGGAAG
30609477 CTCACAAAGAGC
1 CTC-CAAAGAGC
30609489 TTTTAATTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 5 0.10
24 10 0.20
25 33 0.67
26 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (25 bp):
CTCCAAAGAGCCATATATCGGGAAG
Found at i:30609634 original size:25 final size:25
Alignment explanation
Indices: 30609590--30609662 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
30609580 TGATGCTTCG
30609590 AAGAACTAT-TAACGGGAAGCTCGC
1 AAGAACTATATAACGGGAAGCTCGC
** *
30609614 AAGAACTATATAACGAAAAGCTCGT
1 AAGAACTATATAACGGGAAGCTCGC
*
30609639 AAGAACCATATAACGGGAAGCTCG
1 AAGAACTATATAACGGGAAGCTCG
30609663 AGAGGGCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 9 0.21
25 33 0.79
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (25 bp):
AAGAACTATATAACGGGAAGCTCGC
Found at i:30611384 original size:23 final size:22
Alignment explanation
Indices: 30611347--30611422 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 22
30611337 TCAAGTCAAG
*
30611347 TTGTCTTCCACAATTTTAGGGAT
1 TTGT-TTCCACAATTTTAGGAAT
* * *
30611370 TTGTTTGGCTA-AATTGTAGGTAT
1 TTGTTT--CCACAATTTTAGGAAT
30611393 TTGTCTTCCACAATTTTAGGAAT
1 TTGT-TTCCACAATTTTAGGAAT
30611416 TTGTTTC
1 TTGTTTC
30611423 TCTTTTATCC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
22 7 0.16
23 32 0.74
24 4 0.09
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.47
Consensus pattern (22 bp):
TTGTTTCCACAATTTTAGGAAT
Found at i:30613844 original size:69 final size:67
Alignment explanation
Indices: 30613723--30613885 Score: 163
Period size: 69 Copynumber: 2.4 Consensus size: 67
30613713 GGTTTAAGGT
* * * * *
30613723 GTAAGACCATAGCTGGGCTATGGCAACTAGTAGAGTATGCCAGGATAGTAAACG-CGTGA-ATCA
1 GTAAGACCATAGCTCGACTATGGCAACTAATAGAGTACGCCAGGATAGTAAACGTAG-GATAT-A
30613786 CGAGGC
64 C--GGC
* *
30613792 GTAAGACCATAGCTCGACTATGGCAA-TCAATAGAGTCCGCCAGGA-CGTTAAACGTAGGATATA
1 GTAAGACCATAGCTCGACTATGGCAACT-AATAGAGTACGCCAGGATAG-TAAACGTAGGATATA
* *
30613855 CTGT
64 CGGC
30613859 GTAAGACCATAGCTCGACTATGGCAAC
1 GTAAGACCATAGCTCGACTATGGCAAC
30613886 ATAGAAGGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
67 27 0.34
68 2 0.03
69 48 0.60
70 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (67 bp):
GTAAGACCATAGCTCGACTATGGCAACTAATAGAGTACGCCAGGATAGTAAACGTAGGATATACG
GC
Found at i:30613919 original size:67 final size:68
Alignment explanation
Indices: 30613719--30613919 Score: 178
Period size: 67 Copynumber: 2.9 Consensus size: 68
30613709 AAGAGGTTTA
* * * * *
30613719 AGGTGTAAGACCATAGCTGGGCTATGGCAAC-TAGTAGAGTATGCCAGGATAGTAAACGCGTGA-
1 AGGTGTAAGACCATAGCTCGACTATGGCAACATAG-AG-GTCTGCCAGGATAATAAACGCGGGAT
30613782 ATCAC
64 ATCAC
* * *** **
30613787 GAGGCGTAAGACCATAGCTCGACTATGGCAATCAATAGA-GTCCGCCAGGACGTTAAACGTAGGA
1 -AGGTGTAAGACCATAGCTCGACTATGGCAA-C-ATAGAGGTCTGCCAGGATAATAAACGCGGGA
30613851 TAT-AC
63 TATCAC
* * *
30613856 -TGTGTAAGACCATAGCTCGACTATGGCAACATAGAAGGTCTGCCAAGATAATAAACACGGGATA
1 AGGTGTAAGACCATAGCTCGACTATGGCAACATAG-AGGTCTGCCAGGATAATAAACGCGGGATA
30613920 GTTTGCCAGG
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
65 4 0.04
66 2 0.02
67 46 0.44
69 46 0.44
70 3 0.03
71 1 0.01
72 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.20
Consensus pattern (68 bp):
AGGTGTAAGACCATAGCTCGACTATGGCAACATAGAGGTCTGCCAGGATAATAAACGCGGGATAT
CAC
Found at i:30613926 original size:27 final size:27
Alignment explanation
Indices: 30613896--30613948 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
30613886 ATAGAAGGTC
30613896 TGCCAAGATAA-TAAACAC-GGGATAGTT
1 TGCCAAGA-AACTAAACACAGGG-TAGTT
*
30613923 TGCCAGGAAACTAAACACAGGGTAGT
1 TGCCAAGAAACTAAACACAGGGTAGT
30613949 CTGCTGTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.09
27 18 0.78
28 3 0.13
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (27 bp):
TGCCAAGAAACTAAACACAGGGTAGTT
Found at i:30619136 original size:19 final size:20
Alignment explanation
Indices: 30619093--30619134 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
30619083 AGATTTGCTC
30619093 AAACAGAAAGCAAGATGCAA
1 AAACAGAAAGCAAGATGCAA
*
30619113 AAACAGAAAAGGAAGA-GCAA
1 AAACAG-AAAGCAAGATGCAA
30619133 AA
1 AA
30619135 CAAATGACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.64, C:0.12, G:0.21, T:0.02
Consensus pattern (20 bp):
AAACAGAAAGCAAGATGCAA
Found at i:30626941 original size:15 final size:16
Alignment explanation
Indices: 30626908--30626952 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
30626898 GCTATTATGA
30626908 AATAGAGTTGTAATAG
1 AATAGAGTTGTAATAG
*
30626924 AATAGAGTT-TAATGG
1 AATAGAGTTGTAATAG
*
30626939 AATAAAGTTGTAAT
1 AATAGAGTTGTAAT
30626953 CAGTAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (16 bp):
AATAGAGTTGTAATAG
Found at i:30640045 original size:19 final size:21
Alignment explanation
Indices: 30640021--30640059 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
30640011 TATCTCTTGA
30640021 ATTTTA-TTTATT-TTATAAT
1 ATTTTATTTTATTATTATAAT
30640040 ATTTTATTTTATTATTATAA
1 ATTTTATTTTATTATTATAA
30640060 AAACCCTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTATTTTATTATTATAAT
Found at i:30644213 original size:15 final size:15
Alignment explanation
Indices: 30644195--30644235 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
30644185 CGAGGACTAA
30644195 CAGGTGTAGGATTGG
1 CAGGTGTAGGATTGG
30644210 CAGGTGTAGGATTGG
1 CAGGTGTAGGATTGG
30644225 CAGGTGTAGGA
1 CAGGTGTAGGA
30644236 ATAGGGTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.22, C:0.07, G:0.46, T:0.24
Consensus pattern (15 bp):
CAGGTGTAGGATTGG
Found at i:30647477 original size:22 final size:22
Alignment explanation
Indices: 30647452--30647494 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30647442 AAAATGTCAT
* *
30647452 TGATTTGTATATAAACTACCAC
1 TGATTTGCAAATAAACTACCAC
*
30647474 TGATTTGCAAATAAATTACCA
1 TGATTTGCAAATAAACTACCA
30647495 TTCATAACAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (22 bp):
TGATTTGCAAATAAACTACCAC
Found at i:30658677 original size:46 final size:46
Alignment explanation
Indices: 30658610--30658700 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
30658600 AGGTCCTTAT
30658610 TCAAGTATTATTGTTGGATACGACAACAATAATGCATTAAGACTAG
1 TCAAGTATTATTGTTGGATACGACAACAATAATGCATTAAGACTAG
30658656 TCAAGTATTATTGTTGGATACGACAACAATAATGCATTAAGACTA
1 TCAAGTATTATTGTTGGATACGACAACAATAATGCATTAAGACTA
30658701 ACATGTAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (46 bp):
TCAAGTATTATTGTTGGATACGACAACAATAATGCATTAAGACTAG
Found at i:30668201 original size:31 final size:31
Alignment explanation
Indices: 30668166--30668224 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
30668156 TATCAATAAA
30668166 CTTTTCTTAAACTCTCTATTTCAAACCAAGG
1 CTTTTCTTAAACTCTCTATTTCAAACCAAGG
30668197 CTTTTCTTAAACTCTCTATTTCAAACCA
1 CTTTTCTTAAACTCTCTATTTCAAACCA
30668225 TTCCTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (31 bp):
CTTTTCTTAAACTCTCTATTTCAAACCAAGG
Found at i:30675274 original size:20 final size:20
Alignment explanation
Indices: 30675170--30675288 Score: 157
Period size: 20 Copynumber: 6.0 Consensus size: 20
30675160 AAGTGTAACA
* **
30675170 GAGGCACCGAAGTGCGAATA
1 GAGGCACCGAAGTGCAAACG
30675190 GAGGCACCGAAGTGCAAACG
1 GAGGCACCGAAGTGCAAACG
30675210 GAGGCACCGAAGTGCAAACG
1 GAGGCACCGAAGTGCAAACG
30675230 GAGGCACCGAAGTGCAAACG
1 GAGGCACCGAAGTGCAAACG
* * *
30675250 GAGGCACTGAAGAGCAAATG
1 GAGGCACCGAAGTGCAAACG
* * *
30675270 AAGGCACTGAAGTGAAAAC
1 GAGGCACCGAAGTGCAAAC
30675289 TCTTACAAGT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 89 1.00
ACGTcount: A:0.38, C:0.21, G:0.34, T:0.08
Consensus pattern (20 bp):
GAGGCACCGAAGTGCAAACG
Found at i:30675316 original size:21 final size:21
Alignment explanation
Indices: 30675292--30675356 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
30675282 TGAAAACTCT
*
30675292 TACAAGTGCACGTTCAAACCC
1 TACAAGCGCACGTTCAAACCC
*
30675313 TACAAGCACACGTTCAAACCC
1 TACAAGCGCACGTTCAAACCC
*
30675334 TATAAGCGCACGTTCAAACCC
1 TACAAGCGCACGTTCAAACCC
30675355 TA
1 TA
30675357 TTGGCATGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.35, C:0.34, G:0.12, T:0.18
Consensus pattern (21 bp):
TACAAGCGCACGTTCAAACCC
Found at i:30677683 original size:18 final size:18
Alignment explanation
Indices: 30677662--30677697 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30677652 TTCTTTTAAG
*
30677662 TTAGAAAATTTCCAGGGC
1 TTAGAAAATTTCAAGGGC
30677680 TTAGAAAATTTCAAGGGC
1 TTAGAAAATTTCAAGGGC
30677698 GAAATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (18 bp):
TTAGAAAATTTCAAGGGC
Found at i:30686286 original size:86 final size:86
Alignment explanation
Indices: 30686141--30686306 Score: 314
Period size: 86 Copynumber: 1.9 Consensus size: 86
30686131 ATTCGTTGTG
30686141 TATTTTGGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTATTTTAC
1 TATTTTGGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTATTTTAC
30686206 CTATGCTAAATATGTGATAAA
66 CTATGCTAAATATGTGATAAA
* *
30686227 TATTTTTGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGTAAGTGTTATTTTAC
1 TATTTTGGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTATTTTAC
30686292 CTATGCTAAATATGT
66 CTATGCTAAATATGT
30686307 TTGTGAATTC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (86 bp):
TATTTTGGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTATTTTAC
CTATGCTAAATATGTGATAAA
Found at i:30689209 original size:20 final size:20
Alignment explanation
Indices: 30689186--30689248 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
30689176 TGGGCCTTCA
*
30689186 TGGCATTCTATTAGCCTTTG
1 TGGCATTATATTAGCCTTTG
* * * *
30689206 TGGCATTTTGTTAGTCGTTG
1 TGGCATTATATTAGCCTTTG
30689226 TGGCATTATATT-GCCTTTG
1 TGGCATTATATTAGCCTTTG
30689245 TGGC
1 TGGC
30689249 GTACTTTGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 9 0.26
20 26 0.74
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.46
Consensus pattern (20 bp):
TGGCATTATATTAGCCTTTG
Found at i:30700841 original size:59 final size:58
Alignment explanation
Indices: 30700748--30700874 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 58
30700738 TCGTAACTGT
* * * *
30700748 CCCTTTTCATATTCAATGGCCGAAACCATCCCTTTTCATTAATCGATGTTCGTCACCAA
1 CCCTTTTCATAATCAATAGCCGAAACCATCCCTTTTCA-TAATCGATGGTCATCACCAA
* * * * * *
30700807 CCCTTTTCATAATCGATAGCTGAAGCTATCCCTTTTCATATTCGATGGTCATCACCAT
1 CCCTTTTCATAATCAATAGCCGAAACCATCCCTTTTCATAATCGATGGTCATCACCAA
30700865 CCCTTTTCAT
1 CCCTTTTCAT
30700875 TAGTCAATGA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
58 26 0.45
59 32 0.55
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.36
Consensus pattern (58 bp):
CCCTTTTCATAATCAATAGCCGAAACCATCCCTTTTCATAATCGATGGTCATCACCAA
Found at i:30700866 original size:29 final size:29
Alignment explanation
Indices: 30700747--30700874 Score: 100
Period size: 29 Copynumber: 4.4 Consensus size: 29
30700737 GTCGTAACTG
* * *
30700747 TCCCTTTTCATATTCAATGGCCGA-AACCA
1 TCCCTTTTCATAATCGATGGTC-ATAACCA
* * *
30700776 TCCCTTTTCATTAATCGATGTTCGTCACCA
1 TCCCTTTTCA-TAATCGATGGTCATAACCA
* * *
30700806 ACCCTTTTCATAATCGATAG-C-TGAAGCTA
1 TCCCTTTTCATAATCGATGGTCAT-AA-CCA
* *
30700835 TCCCTTTTCATATTCGATGGTCATCACCA
1 TCCCTTTTCATAATCGATGGTCATAACCA
30700864 TCCCTTTTCAT
1 TCCCTTTTCAT
30700875 TAGTCAATGA
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.03
29 50 0.65
30 23 0.30
31 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.37
Consensus pattern (29 bp):
TCCCTTTTCATAATCGATGGTCATAACCA
Found at i:30714381 original size:13 final size:13
Alignment explanation
Indices: 30714363--30714390 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30714353 AACATCACAT
30714363 GTTTTATGTAAAA
1 GTTTTATGTAAAA
30714376 GTTTTATGTAAAA
1 GTTTTATGTAAAA
30714389 GT
1 GT
30714391 GAGTTGAACT
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:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (13 bp):
GTTTTATGTAAAA
Found at i:30714702 original size:29 final size:30
Alignment explanation
Indices: 30714660--30714718 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
30714650 TTTAATTTAA
* *
30714660 TGTGTAATGTTATAAATG-AACTTTGATTT
1 TGTGCAATGTTATAAATGAAAATTTGATTT
* *
30714689 TGTGCAATTTTATACATGAAAATTTGATTT
1 TGTGCAATGTTATAAATGAAAATTTGATTT
30714719 GATTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGCAATGTTATAAATGAAAATTTGATTT
Found at i:30729594 original size:19 final size:20
Alignment explanation
Indices: 30729552--30729594 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
30729542 TCATGCTTTC
*
30729552 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
*
30729572 -ATTCACATTTTTAAATT-A
1 TATTCACATTTTCAAATTCA
30729590 TATTC
1 TATTC
30729595 CACAATCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:30738780 original size:16 final size:16
Alignment explanation
Indices: 30738727--30738782 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
30738717 TACATAATAG
*
30738727 TCCATTCCAA-TGATA
1 TCCATTTCAATTGATA
* * *
30738742 TCCTTTTCATTTGAAA
1 TCCATTTCAATTGATA
30738758 T-CATTTCAATTGATA
1 TCCATTTCAATTGATA
30738773 TCCATTTCAA
1 TCCATTTCAA
30738783 CCTTTTCATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.43
Consensus pattern (16 bp):
TCCATTTCAATTGATA
Found at i:30741489 original size:27 final size:28
Alignment explanation
Indices: 30741459--30741514 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
30741449 ACTCAACTCT
30741459 TGTTCAAACAACCCATTTAGACAA-ACC
1 TGTTCAAACAACCCATTTAGACAAGACC
* * *
30741486 TGTTTAAACAATCTATTTAGACAAGACC
1 TGTTCAAACAACCCATTTAGACAAGACC
30741514 T
1 T
30741515 TTGAGACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (28 bp):
TGTTCAAACAACCCATTTAGACAAGACC
Found at i:30743097 original size:16 final size:17
Alignment explanation
Indices: 30743076--30743112 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
30743066 AAGGGGATTA
30743076 AAATAAATTT-TTAATT
1 AAATAAATTTATTAATT
30743092 AAATAAATTTGATTAATT
1 AAATAAATTT-ATTAATT
30743110 AAA
1 AAA
30743113 ATTTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATAAATTTATTAATT
Found at i:30749543 original size:13 final size:13
Alignment explanation
Indices: 30749512--30749545 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
30749502 TTTGAATTTC
30749512 AATTT-ATTTAAT
1 AATTTAATTTAAT
30749524 AATTTTAATTTAAT
1 AA-TTTAATTTAAT
30749538 AATTTAAT
1 AATTTAAT
30749546 CCAAGGACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:30751241 original size:23 final size:24
Alignment explanation
Indices: 30751214--30751263 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
30751204 GTATAAGTAC
30751214 ATAATT-AGTTATATATAACGCAT
1 ATAATTAAGTTATATATAACGCAT
* *
30751237 ATAATTGAATTTATATATAATGCAT
1 ATAATT-AAGTTATATATAACGCAT
30751262 AT
1 AT
30751264 TTTCTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
25 17 0.74
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (24 bp):
ATAATTAAGTTATATATAACGCAT
Found at i:30751295 original size:17 final size:17
Alignment explanation
Indices: 30751275--30751334 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
30751265 TTCTTTCTAT
30751275 ATTATTATATTA-TTAA
1 ATTATTATATTATTTAA
30751291 TATTATT-TATATATTTAA
1 -ATTATTATAT-TATTTAA
*
30751309 ATTTTTATA-TATTTAA
1 ATTATTATATTATTTAA
30751325 ATTA-TATATT
1 ATTATTATATT
30751335 TAAATGATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.11
16 14 0.38
17 13 0.35
18 6 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATTATATTATTTAA
Found at i:30751305 original size:8 final size:8
Alignment explanation
Indices: 30751279--30751336 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
30751269 TTCTATATTA
30751279 TTATATTAT
1 TTATA-TAT
*
30751288 TAATATTAT
1 TTATA-TAT
30751297 TTATATAT
1 TTATATAT
* *
30751305 TTAAATTT
1 TTATATAT
30751313 TTATATAT
1 TTATATAT
30751321 TTA-A-A-
1 TTATATAT
30751326 TTATATAT
1 TTATATAT
30751334 TTA
1 TTA
30751337 AATGATAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
5 3 0.08
6 2 0.05
7 2 0.05
8 21 0.52
9 12 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATATAT
Found at i:30751317 original size:16 final size:15
Alignment explanation
Indices: 30751296--30751339 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
30751286 ATTAATATTA
30751296 TTTATATATTTAAATT
1 TTTATATATTTAAA-T
30751312 TTTATATATTTAAA-
1 TTTATATATTTAAAT
30751326 -TTATATATTTAAAT
1 TTTATATATTTAAAT
30751340 GATAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.48
16 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATATTTAAAT
Found at i:30751331 original size:13 final size:13
Alignment explanation
Indices: 30751297--30751339 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
30751287 TTAATATTAT
30751297 TTATATATTTAAA
1 TTATATATTTAAA
30751310 TTTTTATATATTTAAA
1 ---TTATATATTTAAA
30751326 TTATATATTTAAA
1 TTATATATTTAAA
30751339 T
1 T
30751340 GATAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.52
16 13 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATATATTTAAA
Found at i:30751525 original size:21 final size:21
Alignment explanation
Indices: 30751485--30751523 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30751475 AAATCATGGA
30751485 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
30751506 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
30751524 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:30759421 original size:305 final size:304
Alignment explanation
Indices: 30758746--30759671 Score: 1415
Period size: 307 Copynumber: 3.0 Consensus size: 304
30758736 AATTACAAAA
* * *
30758746 GAATAAAAAGGAAAGCCCTTTTCACCAGCAGTAACATGCATAGCAAAGAAATAAAATGATTTTAG
1 GAATAAAAAGGAAGGCCCTTTTCACCAGCAGTAACATGCAGAGCGAAGAAATAAAATGATTTTAG
* * *
30758811 ATCCAAATTTGAGTAAAACCAAGTTCTTAGCAAAAATTATGCAAAACCCACATCAGATTTACAAT
66 ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAAT
* *
30758876 TAATCATGTAGAGTCTCCAAGTACCAA-CAGATAAAACTAATAACATAGAGATATAATTTAAAGA
131 TAAT-A-ATAGAGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAATTTAAAGA
* * *
30758940 AAACAAAAGCTACTAATCAATTAGCTCTGAACCAAAATTTACCCAAGACCAGCAAAAGAAAAAAA
194 AAACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGCAAAA-AAAAAGA
* *
30759005 TTGCAAGGTAGTTTAACACAAAATCAACAGTAAGAAAGAATAATCTG
258 TTGCAAGGTAATTCAACACAAAATCAACAGTAAGAAAGAATAATCTG
* * *
30759052 GAATAAAAAAGGAAGGCCCTTTTCACTAGCAATAACATGCAGAGCGAAAAAATAAAATGATTTTA
1 GAAT-AAAAAGGAAGGCCCTTTTCACCAGCAGTAACATGCAGAGCGAAGAAATAAAATGATTTTA
* * *
30759117 GATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATACAAAACCTACATTAGATATACAA
65 GATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAA
* * * *
30759182 TTAATAATATAGTCTCAAAGTACCAAGTAGATAAAACTAATAACATAGAAATATAGTTTAAAGAA
130 TTAATAATAGAGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAATTTAAAGAA
*
30759247 TACAAAAGCTACTAACCAATTAGCT-TGAACCAAAACTTACCCAAGACCAGCAAAAAAGAAAGAT
195 AACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGCAAAAAA-AAAGAT
* * *
30759311 TGTAAGGTAATTCAACACAAAAATCAACAATAAGAAAGAATAATTTG
259 TGCAAGGTAATTCAACAC-AAAATCAACAGTAAGAAAGAATAATCTG
* * *
30759358 GAATAAAAAGGAAGGCCCTTTTCACCAGCAGTAATATGCAGAACGAAGAAATAAAACGATTTTAG
1 GAATAAAAAGGAAGGCCCTTTTCACCAGCAGTAACATGCAGAGCGAAGAAATAAAATGATTTTAG
*
30759423 ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGAAATACAAT
66 ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAAT
* *
30759488 TAATAATGTAGAGTCTCCAAGTACTAAGCAGATAAAACTAATAACATAGAAATATAATTTAAATA
131 TAATAA--TAGAGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAATTTAAAGA
* *
30759553 AAACACAAGCTACTAACCAATTAGCTCTAAACCAAAACTTACCCAAGACCAGCAAAAAAAAAAAA
194 AAACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGC---AAAAAAAAA
*
30759618 GATTGCAAGGTAATTCAACACAAAATCAGCAGTAAGAAAGAATAATCTG
256 GATTGCAAGGTAATTCAACACAAAATCAACAGTAAGAAAGAATAATCTG
30759667 GAATA
1 GAATA
30759672 CCCACAAAGA
Statistics
Matches: 560, Mismatches: 50, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
304 2 0.00
305 188 0.34
306 93 0.17
307 193 0.34
308 25 0.04
309 30 0.05
310 23 0.04
311 6 0.01
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (304 bp):
GAATAAAAAGGAAGGCCCTTTTCACCAGCAGTAACATGCAGAGCGAAGAAATAAAATGATTTTAG
ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAAT
TAATAATAGAGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAATTTAAAGAAA
ACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGCAAAAAAAAAGATTG
CAAGGTAATTCAACACAAAATCAACAGTAAGAAAGAATAATCTG
Found at i:30768970 original size:16 final size:15
Alignment explanation
Indices: 30768945--30768974 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30768935 TACTTTATAG
30768945 TTTTCTTTTGTAAAC
1 TTTTCTTTTGTAAAC
30768960 TTTTCCTTTTGTAAA
1 TTTT-CTTTTGTAAA
30768975 AAAGAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (15 bp):
TTTTCTTTTGTAAAC
Found at i:30769747 original size:16 final size:15
Alignment explanation
Indices: 30769726--30769755 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30769716 TAGACTCTTT
30769726 TTTACAAAAGGAAAAG
1 TTTACAAAA-GAAAAG
30769742 TTTACAAAAGAAAA
1 TTTACAAAAGAAAA
30769756 CTATAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (15 bp):
TTTACAAAAGAAAAG
Found at i:30771585 original size:16 final size:15
Alignment explanation
Indices: 30771560--30771589 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30771550 TACTTTATAG
30771560 TTTTCTTTTGTAAAC
1 TTTTCTTTTGTAAAC
30771575 TTTTCCTTTTGTAAA
1 TTTT-CTTTTGTAAA
30771590 AAAAAGTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (15 bp):
TTTTCTTTTGTAAAC
Found at i:30772100 original size:16 final size:15
Alignment explanation
Indices: 30772079--30772108 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30772069 TAGACTCTTT
30772079 TTTACAAAAGGAAAAG
1 TTTACAAAA-GAAAAG
30772095 TTTACAAAAGAAAA
1 TTTACAAAAGAAAA
30772109 CTATAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (15 bp):
TTTACAAAAGAAAAG
Found at i:30774040 original size:27 final size:27
Alignment explanation
Indices: 30774008--30774063 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
30773998 GCTTGAATTA
*
30774008 ATGGTTGCTTCCATCACTGCTTGTGTC
1 ATGGTTGCTTCCATCACTGCTTGCGTC
*
30774035 ATGGTTGCTTCCATCATTGCTTGCGTC
1 ATGGTTGCTTCCATCACTGCTTGCGTC
30774062 AT
1 AT
30774064 CATTGCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.41
Consensus pattern (27 bp):
ATGGTTGCTTCCATCACTGCTTGCGTC
Found at i:30774069 original size:27 final size:27
Alignment explanation
Indices: 30774012--30774071 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
30774002 GAATTAATGG
* **
30774012 TTGCTTCCATCACTGCTTGTGTCATGG
1 TTGCTTCCATCACTGCTTGCGTCATCA
*
30774039 TTGCTTCCATCATTGCTTGCGTCATCA
1 TTGCTTCCATCACTGCTTGCGTCATCA
30774066 TTGCTT
1 TTGCTT
30774072 TGATGATAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.43
Consensus pattern (27 bp):
TTGCTTCCATCACTGCTTGCGTCATCA
Found at i:30780322 original size:15 final size:16
Alignment explanation
Indices: 30780297--30780330 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
30780287 TGAAAAAAAT
30780297 ATATAATTTATATAAA
1 ATATAATTTATATAAA
*
30780313 ATAT-ATTTATATATA
1 ATATAATTTATATAAA
30780328 ATA
1 ATA
30780331 CATTCATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATTTATATAAA
Found at i:30780487 original size:19 final size:20
Alignment explanation
Indices: 30780458--30780505 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
30780448 ATGATTACAT
*
30780458 ATATATATATAGAAATTATA
1 ATATATATATAGAAAGTATA
*
30780478 A-ATATGTATAGAAAGTATA
1 ATATATATATAGAAAGTATA
30780497 ATATATATA
1 ATATATATA
30780506 CGTACATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
ATATATATATAGAAAGTATA
Found at i:30780534 original size:16 final size:17
Alignment explanation
Indices: 30780496--30780538 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
30780486 TAGAAAGTAT
30780496 AATATATATACGTACATA
1 AATATATA-ACGTACATA
* *
30780514 TATATATAAGGTA-ATA
1 AATATATAACGTACATA
30780530 AATATATAA
1 AATATATAA
30780539 AACATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
AATATATAACGTACATA
Found at i:30780536 original size:103 final size:106
Alignment explanation
Indices: 30780351--30780565 Score: 337
Period size: 103 Copynumber: 2.0 Consensus size: 106
30780341 AATAAAGAAA
30780351 ATATACATATAGAAATTATAAAATATGGATAGAAAGTATATATATATATATACGTACATATATAT
1 ATATACATATAGAAATTATAAAATATGGATAGAAAG-ATATATATATATATACGTACATATATAT
* * * * *
30780416 ATAAGTTAATAAATATATAGATCATAAAGATAATGATTACAT
65 ATAAGGTAATAAATATATAAAACATAAAAATAATAATTACAT
* *
30780458 ATATATATATAGAAATTAT-AAATATGTATAGAAAG-TATA-ATATATATACGTACATATATATA
1 ATATACATATAGAAATTATAAAATATGGATAGAAAGATATATATATATATACGTACATATATATA
30780520 TAAGGTAATAAATATATAAAACATAAAAATAATAATTACAT
66 TAAGGTAATAAATATATAAAACATAAAAATAATAATTACAT
30780561 ATATA
1 ATATA
30780566 AACTTAAAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
103 64 0.63
104 4 0.04
106 15 0.15
107 18 0.18
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.34
Consensus pattern (106 bp):
ATATACATATAGAAATTATAAAATATGGATAGAAAGATATATATATATATACGTACATATATATA
TAAGGTAATAAATATATAAAACATAAAAATAATAATTACAT
Found at i:30781148 original size:19 final size:19
Alignment explanation
Indices: 30781124--30781215 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
30781114 AATCATATAT
30781124 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
30781143 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
30781162 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
30781181 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
30781200 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
30781216 CCTGAAGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30781171 original size:38 final size:38
Alignment explanation
Indices: 30781124--30781215 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
30781114 AATCATATAT
30781124 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
30781162 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
30781200 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
30781216 CCTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:30781546 original size:45 final size:43
Alignment explanation
Indices: 30781495--30781601 Score: 108
Period size: 43 Copynumber: 2.4 Consensus size: 43
30781485 AAGAATTGGT
30781495 GCTTCAATCTACTCCACTGCAAT-ATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGC--TGATCAAGGAGATAGGA-TTACAA
* * * * * **
30781540 TCTTCAACCTATTCCACTGCTGATCAGGGAGATATGATTACTG
1 GCTTCAATCTACTCCACTGCTGATCAAGGAGATAGGATTACAA
*
30781583 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
30781602 TAACCACAGG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 20 0.40
44 13 0.26
45 17 0.34
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
GCTTCAATCTACTCCACTGCTGATCAAGGAGATAGGATTACAA
Found at i:30781657 original size:44 final size:44
Alignment explanation
Indices: 30781609--30781953 Score: 153
Period size: 44 Copynumber: 7.8 Consensus size: 44
30781599 CTGTAACCAC
* * *
30781609 AGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACTACTGCTT
* * ** * **
30781653 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG-TCT
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACTACTGCT-T
* * * ** * * *
30781697 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAATCAT
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACTACT--GCTT
* * *
30781741 AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACTACTGCTT
* * * ** * * ** *
30781785 CGGGAGATAAGATCTGAAATCTTCAATTTATTCCACTGTTGTTT
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACTACTGCTT
* * * ** * **
30781829 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCAC--T-ACTGCTT
* * * *
30781873 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACTACTGCTT
* * * ** *
30781917 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACT
1 AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACT
30781954 GTTGCCCAGG
Statistics
Matches: 204, Mismatches: 85, Indels: 24
0.65 0.27 0.08
Matches are distributed among these distances:
42 3 0.01
43 33 0.16
44 135 0.66
45 32 0.16
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AGGGAGGTAAAATCTGCTATCTTCAATCTACTCCACTACTGCTT
Found at i:30781763 original size:132 final size:132
Alignment explanation
Indices: 30781538--30782434 Score: 1399
Period size: 132 Copynumber: 6.8 Consensus size: 132
30781528 TAGGACTTAC
* *
30781538 AATCTTCAACCTATTCCACTGCTGAT-CAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCAC
1 AATCTTCAATCTATTCCACTGTTG-TCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCAC
*
30781600 TGTAACCACAGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
63 TGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
30781665 TCTGA
128 TCTGA
* *
30781670 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
30781735 AATCATAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTCGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
30781800 GA
131 GA
* **
30781802 AATCTTCAATTTATTCCACTGTTGTTTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
30781867 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
30781932 GA
131 GA
* *
30781934 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAGTTACTGGCTTCACAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTT--CAATGTACTCCACT
* **
30781999 GTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAAAGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
30782064 CTGA
129 CTGA
* **
30782068 AATCTTCAATTTATTCCACTGTTGTTTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
30782133 AACCACAGGGAGGTAAAATCCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATAT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
30782198 AA
131 GA
* * *
30782200 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
30782265 AACCACA-GAACGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
66 AACCACAGGGA-GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
30782329 TGA
130 TGA
* * *
30782332 AATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAGAATTATTGGCTTTAATGTA-TCCCACTG
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACT-CCACTG
*
30782396 TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
65 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
30782435 TCACAGTCAA
Statistics
Matches: 702, Mismatches: 55, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
131 5 0.01
132 570 0.81
133 4 0.01
134 123 0.18
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:30782323 original size:398 final size:395
Alignment explanation
Indices: 30781538--30782434 Score: 1422
Period size: 398 Copynumber: 2.3 Consensus size: 395
30781528 TAGGACTTAC
* * *
30781538 AATCTTCAACCTATTCCACTGCTGATCAGGG-AGATATGATTACTGGCTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTGTTGACCAGGGAAG-TA-GATTACTGGCTTCAATGTACTCCACTG
* * **
30781602 TAACCACAGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
64 TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAAAGAGATAAGATC
30781667 TGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
129 TGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
* * * *
30781732 TATAATCATAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTCGGGAGATAAGA
194 TATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA
* * * ***
30781797 TCTGAAATCTTCAATTTATTCCACTGTTGTTTAGGGAAGTAGAATTACTGGCTTCAATGTACTCC
259 TATAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCC
* *
30781862 ACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
324 ACTATAACCACAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
30781927 GACCTGA
389 GACCTGA
*
30781934 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAGTTACTGGCTTCACAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAGA-TTACTGGCTT--CAATGTACTCCACT
30781999 GTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAAAGAGATAAGAT
63 GTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAAAGAGATAAGAT
* *
30782064 CTGAAATCTTCAATTTATTCCACTGTTGTTTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
128 CTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
* **
30782129 CTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAG
193 CTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
*
30782194 ATATAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTC
258 ATATAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTC
30782259 CACTATAACCACA-GAACGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
323 CACTATAACCACAGGAA-GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
*
30782323 AAGATCTGA
387 AAGACCTGA
* * * *
30782332 AATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAGAATTATTGGCTTTAATGTA-TCCCACTG
1 AATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAG-ATTACTGGCTTCAATGTACT-CCACTG
30782396 TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
64 TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
30782435 TCACAGTCAA
Statistics
Matches: 463, Mismatches: 31, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
395 3 0.01
396 90 0.19
397 4 0.01
398 365 0.79
399 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (395 bp):
AATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAGATTACTGGCTTCAATGTACTCCACTGTA
ACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAAAGAGATAAGATCTG
AAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
TAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATA
TAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
TATAACCACAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
CCTGA
Found at i:30786396 original size:24 final size:24
Alignment explanation
Indices: 30786368--30786413 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30786358 ATCATTTTTT
*
30786368 GCTGCTCATTCATTTACTTTTGAA
1 GCTGCTCATGCATTTACTTTTGAA
* *
30786392 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTACTTTTG
30786414 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTACTTTTGAA
Found at i:30788679 original size:20 final size:20
Alignment explanation
Indices: 30788654--30788691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30788644 AAATATACAT
*
30788654 ATAGAAATTATAAAATATGG
1 ATAGAAAGTATAAAATATGG
*
30788674 ATAGAAAGTATAATATAT
1 ATAGAAAGTATAAAATAT
30788692 ATACGTACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (20 bp):
ATAGAAAGTATAAAATATGG
Found at i:30788702 original size:48 final size:48
Alignment explanation
Indices: 30788649--30788806 Score: 151
Period size: 48 Copynumber: 3.2 Consensus size: 48
30788639 AAGAAAAATA
30788649 TACATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACG
1 TACATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACG
* * * * *
30788697 TACATATATATATAAGTTAATAAATATATAGATCATAAA-AATAATGATTACATA--
1 TAC--ATATAGA-AA-TT-ATAAA-ATATGGAT-AGAAAGTATAAT-A-TATATACG
* *
30788751 TATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACG
1 TACATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACG
30788799 TACATATA
1 TACATATA
30788807 TATATAAGGT
Statistics
Matches: 85, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
46 5 0.06
47 5 0.06
48 21 0.25
49 5 0.06
50 8 0.09
51 4 0.05
52 8 0.09
53 5 0.06
54 14 0.16
55 5 0.06
56 5 0.06
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (48 bp):
TACATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACG
Found at i:30788741 original size:54 final size:54
Alignment explanation
Indices: 30788683--30788844 Score: 180
Period size: 50 Copynumber: 3.1 Consensus size: 54
30788673 GATAGAAAGT
30788683 ATAATATATATACGTACATATATATATAAGTTAATAAATATATAGATCATAAAA
1 ATAATATATATACGTACATATATATATAAGTTAATAAATATATAGATCATAAAA
* * * *
30788737 ATAAT-GAT-TAC--ATATATATATAGAAATT-ATAAA-ATAT-G-T-ATAGAAA
1 ATAATATATATACGTACATATATATATAAGTTAATAAATATATAGATCATA-AAA
* *
30788783 GTATAATATATATACGTACATATATATATAAGGTAATAAATATATAAATCATAAAA
1 --ATAATATATATACGTACATATATATATAAGTTAATAAATATATAGATCATAAAA
30788839 ATAATA
1 ATAATA
30788845 ATTACATATA
Statistics
Matches: 86, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
45 3 0.03
46 4 0.05
47 1 0.01
48 9 0.10
49 7 0.08
50 17 0.20
52 16 0.19
53 7 0.08
54 15 0.17
56 4 0.05
57 3 0.03
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (54 bp):
ATAATATATATACGTACATATATATATAAGTTAATAAATATATAGATCATAAAA
Found at i:30788758 original size:102 final size:102
Alignment explanation
Indices: 30788646--30788856 Score: 377
Period size: 102 Copynumber: 2.1 Consensus size: 102
30788636 ATAAAGAAAA
*
30788646 ATATACATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACGTACATATATATATA
1 ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACGTACATATATATATA
* * *
30788711 AGTTAATAAATATATAGATCATAAAAATAATGATTAC
66 AGGTAATAAATATATAAATCATAAAAATAATAATTAC
*
30788748 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACATATATATATA
1 ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACGTACATATATATATA
30788813 AGGTAATAAATATATAAATCATAAAAATAATAATTAC
66 AGGTAATAAATATATAAATCATAAAAATAATAATTAC
30788850 ATATATA
1 ATATATA
30788857 AACTTAAAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (102 bp):
ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATACGTACATATATATATA
AGGTAATAAATATATAAATCATAAAAATAATAATTAC
Found at i:30788778 original size:20 final size:20
Alignment explanation
Indices: 30788750--30788796 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
30788740 ATGATTACAT
*
30788750 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
30788770 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
30788790 ATATATA
1 ATATATA
30788797 CGTACATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:30788825 original size:16 final size:17
Alignment explanation
Indices: 30788787--30788829 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
30788777 TAGAAAGTAT
30788787 AATATATATACGTACATA
1 AATATATA-ACGTACATA
* *
30788805 TATATATAAGGTA-ATA
1 AATATATAACGTACATA
30788821 AATATATAA
1 AATATATAA
30788830 ATCATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
AATATATAACGTACATA
Found at i:30789441 original size:19 final size:19
Alignment explanation
Indices: 30789417--30789470 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
30789407 AATCATATAT
30789417 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
30789436 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
30789455 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
30789471 CCTGAAGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30790279 original size:17 final size:17
Alignment explanation
Indices: 30790259--30790292 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30790249 AAATAAATTT
* *
30790259 AAAAATCAAATTTTCAA
1 AAAAATAAAAATTTCAA
30790276 AAAAATAAAAATTTCAA
1 AAAAATAAAAATTTCAA
30790293 GGTTAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATAAAAATTTCAA
Done.