Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 88 of 318
Found at i:29780782 original size:4 final size:4
Alignment explanation
Indices: 29780773--29780799 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
29780763 AAACACAAAA
29780773 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
29780800 AACCTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:29780880 original size:22 final size:22
Alignment explanation
Indices: 29780840--29780881 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
29780830 TGGCCACCCA
*
29780840 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
29780862 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
29780882 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:29780986 original size:23 final size:22
Alignment explanation
Indices: 29780959--29781004 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29780949 TTGGTTTTTA
29780959 TGGAGAAGGATTGTTCTTTGTTT
1 TGGAGAAGG-TTGTTCTTTGTTT
* * *
29780982 TGGAGGAGGTTTTTTTTTGTTT
1 TGGAGAAGGTTGTTCTTTGTTT
29781004 T
1 T
29781005 TTTGGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.54
Consensus pattern (22 bp):
TGGAGAAGGTTGTTCTTTGTTT
Found at i:29781223 original size:3 final size:3
Alignment explanation
Indices: 29781209--29781294 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
29781199 GAGCTTTGTT
* *
29781209 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
29781253 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
29781295 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:29781247 original size:27 final size:27
Alignment explanation
Indices: 29781208--29781294 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
29781198 AGAGCTTTGT
29781208 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
29781235 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
29781260 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
29781286 -TTATATTAT
1 TTTATATTAT
29781295 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:29781269 original size:21 final size:18
Alignment explanation
Indices: 29781209--29781298 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
29781199 GAGCTTTGTT
*
29781209 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
29781229 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
29781247 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
29781268 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
29781286 TTA-TATTATATAT
1 TTATTATT-TATAT
29781299 GCCCTCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:29781536 original size:18 final size:19
Alignment explanation
Indices: 29781500--29781556 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
29781490 ACTATTACTA
*
29781500 TTATATAGTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
29781520 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
29781537 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
29781555 TT
1 TT
29781557 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:29783663 original size:34 final size:34
Alignment explanation
Indices: 29783620--29783689 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
29783610 TTCATGCATC
29783620 AACATTACATTTCATCGCATGCAATAAATTTCCT
1 AACATTACATTTCATCGCATGCAATAAATTTCCT
29783654 AACATTACATTTCATCGCATGCAATAAATTTCCT
1 AACATTACATTTCATCGCATGCAATAAATTTCCT
29783688 AA
1 AA
29783690 AATCCAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (34 bp):
AACATTACATTTCATCGCATGCAATAAATTTCCT
Found at i:29783722 original size:96 final size:96
Alignment explanation
Indices: 29783558--29783751 Score: 352
Period size: 96 Copynumber: 2.0 Consensus size: 96
29783548 TTCATGCATC
29783558 AACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATACGCATTCATGCATCAAC
1 AACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATACGCATTCATGCATCAAC
*
29783623 ATTACATTTCATCGCATGCAATAAATTTCCT
66 ATTACATTTCATCGCATACAATAAATTTCCT
29783654 AACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATACGCATTCATGCATCAAC
1 AACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATACGCATTCATGCATCAAC
* * *
29783719 ATTACGTTTCATTGCATACAGTAAATTTCCT
66 ATTACATTTCATCGCATACAATAAATTTCCT
29783750 AA
1 AA
29783752 AATCTAAAAG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (96 bp):
AACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATACGCATTCATGCATCAAC
ATTACATTTCATCGCATACAATAAATTTCCT
Found at i:29785070 original size:8 final size:8
Alignment explanation
Indices: 29785052--29785140 Score: 54
Period size: 8 Copynumber: 10.4 Consensus size: 8
29785042 CAGTGGAGGC
29785052 AAAAACAAA
1 AAAAAC-AA
29785061 AAAAACAAA
1 AAAAAC-AA
29785070 AAAAGAGCAA
1 AAAA-A-CAA
*
29785080 AAAAGCAA
1 AAAAACAA
*
29785088 AAAAGCAA
1 AAAAACAA
*
29785096 AAAAAGTAA
1 AAAAA-CAA
*
29785105 AAAAACGA
1 AAAAACAA
*
29785113 GAAAACAA
1 AAAAACAA
29785121 AAGCAAA-AA
1 AA--AAACAA
*
29785130 AAAAATAA
1 AAAAACAA
29785138 AAA
1 AAA
29785141 TAAAAGAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
7 3 0.05
8 28 0.42
9 24 0.36
10 10 0.15
11 1 0.02
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.02
Consensus pattern (8 bp):
AAAAACAA
Found at i:29785080 original size:11 final size:9
Alignment explanation
Indices: 29785052--29785145 Score: 50
Period size: 9 Copynumber: 10.1 Consensus size: 9
29785042 CAGTGGAGGC
29785052 AAAAACAAA
1 AAAAACAAA
29785061 AAAAACAAA
1 AAAAACAAA
29785070 AAAAGAGC-AA
1 AAAA-A-CAAA
*
29785080 AAAAGC-AA
1 AAAAACAAA
*
29785088 AAAAGCAAA
1 AAAAACAAA
**
29785097 AAAAGTAAA
1 AAAAACAAA
*
29785106 AAAACGAGAAA
1 AAAA--ACAAA
29785117 ACAAAAGCAAA
1 A-AAAA-CAAA
*
29785128 AAAAA-AAT
1 AAAAACAAA
*
29785136 AAAAATAAA
1 AAAAACAAA
29785145 A
1 A
29785146 GAATAAAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
8 16 0.23
9 30 0.43
10 12 0.17
11 9 0.13
12 3 0.04
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAACAAA
Found at i:29785139 original size:22 final size:22
Alignment explanation
Indices: 29785114--29785176 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
29785104 AAAAAACGAG
*
29785114 AAAACAAAAGCAAAAAAAAAATA
1 AAAAAAAAAG-AAAAAAAAAATA
* * *
29785137 AAAATAAAAGAATAAAAGAATA
1 AAAAAAAAAGAAAAAAAAAATA
*
29785159 AAAAAATAAGAAAAAAAA
1 AAAAAAAAAGAAAAAAAA
29785177 CCTCTACCGG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAAAATA
Found at i:29785145 original size:14 final size:14
Alignment explanation
Indices: 29785128--29785176 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
29785118 CAAAAGCAAA
29785128 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
*
29785142 AAAAGAATAAAAGAAT
1 AAAAAAAT-AAA-AAT
29785158 AAAAAAATAAGAAA-
1 AAAAAAATAA-AAAT
29785172 AAAAA
1 AAAAA
29785177 CCTCTACCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 12 0.40
15 7 0.23
16 11 0.37
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:29785166 original size:16 final size:16
Alignment explanation
Indices: 29785114--29785167 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
29785104 AAAAAACGAG
* *
29785114 AAAACAAAAGCAAAAAA
1 AAAATAAAAG-AATAAA
29785131 AAAAT-AAA-AATAAA
1 AAAATAAAAGAATAAA
*
29785145 AGAATAAAAGAATAAA
1 AAAATAAAAGAATAAA
29785161 AAAATAA
1 AAAATAA
29785168 GAAAAAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 9 0.29
15 3 0.10
16 15 0.48
17 4 0.13
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAATAAAAGAATAAA
Found at i:29785598 original size:9 final size:9
Alignment explanation
Indices: 29785584--29785621 Score: 55
Period size: 8 Copynumber: 4.6 Consensus size: 9
29785574 CACTTCACTT
29785584 GAAAAAAAC
1 GAAAAAAAC
29785593 GAAAAAAAC
1 GAAAAAAAC
29785602 -AAAAAAAC
1 GAAAAAAAC
29785610 -AAAAAAA-
1 GAAAAAAAC
29785617 GAAAA
1 GAAAA
29785622 GAAAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 19 0.68
9 9 0.32
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (9 bp):
GAAAAAAAC
Found at i:29785599 original size:8 final size:7
Alignment explanation
Indices: 29785586--29785648 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
29785576 CTTCACTTGA
29785586 AAAAAACG
1 AAAAAA-G
29785594 AAAAAA-
1 AAAAAAG
29785600 ACAAAAA-
1 A-AAAAAG
*
29785607 AACAAAAA
1 AA-AAAAG
29785615 AAGAAAAG
1 AA-AAAAG
29785623 AAAAAAAG
1 -AAAAAAG
29785631 AAAAAAG
1 AAAAAAG
29785638 -AAAAAG
1 AAAAAAG
29785644 AAAAA
1 AAAAA
29785649 GGAGAGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 8 0.17
7 21 0.44
8 17 0.35
9 2 0.04
ACGTcount: A:0.86, C:0.05, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:29785607 original size:17 final size:16
Alignment explanation
Indices: 29785585--29785648 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
29785575 ACTTCACTTG
29785585 AAAAAAACGAAAAAAAC
1 AAAAAAAC-AAAAAAAC
*
29785602 AAAAAAACAAAAAAAG
1 AAAAAAACAAAAAAAC
*
29785618 AAAAGAAA-AAAAGAAAA
1 AAAA-AAACAAAA-AAAC
*
29785635 AAGAAAAAGAAAAA
1 AA-AAAAACAAAAA
29785649 GGAGAGGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 15 0.37
17 20 0.49
18 6 0.15
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAAAAC
Found at i:29785621 original size:13 final size:12
Alignment explanation
Indices: 29785585--29785648 Score: 76
Period size: 13 Copynumber: 5.2 Consensus size: 12
29785575 ACTTCACTTG
*
29785585 AAAAAAACGAAA
1 AAAAAAAAGAAA
29785597 AAAACAAAA-AAA
1 AAAA-AAAAGAAA
*
29785609 CAAAAAAAGAAA
1 AAAAAAAAGAAA
29785621 AGAAAAAAAGAAA
1 A-AAAAAAAGAAA
29785634 AAAGAAAAAGAAA
1 AAA-AAAAAGAAA
29785647 AA
1 AA
29785649 GGAGAGGCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.09
12 15 0.33
13 26 0.58
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:29785626 original size:21 final size:21
Alignment explanation
Indices: 29785596--29785648 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
29785586 AAAAAACGAA
*
29785596 AAAAACAAAAAAACAAAAAAAG
1 AAAAAGAAAAAAA-AAAAAAAG
*
29785618 -AAAAGAAAAAAAGAAAAAAG
1 AAAAAGAAAAAAAAAAAAAAG
29785638 AAAAAGAAAAA
1 AAAAAGAAAAA
29785649 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAAAAAAG
Found at i:29786173 original size:108 final size:108
Alignment explanation
Indices: 29785984--29786179 Score: 313
Period size: 108 Copynumber: 1.8 Consensus size: 108
29785974 TTTGTATTCT
29785984 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
29786049 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* ** * *
29786092 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTATAGCTTTGCTCTCAACAAAATTT-CATTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAAC-AAATTTCCATCT
* *
29786156 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
29786180 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 74 0.93
109 6 0.08
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:29786730 original size:45 final size:45
Alignment explanation
Indices: 29786681--29787013 Score: 126
Period size: 46 Copynumber: 7.4 Consensus size: 45
29786671 GTTGAATATT
* *
29786681 GCAGATCTGCCTTCCTGTATTTGGCAGTGAAGCAGATCGAAGATG
1 GCAGATCTACCTCCCTGTATTTGGCAGTGAAGCAGATCGAAGATG
* * * * * * * **
29786726 GCAGATTTTACCTCCCTGTGA-CT-ACAGTGGAGTACATTGAAGCCG
1 GCAGA-TCTACCTCCCTGT-ATTTGGCAGTGAAGCAGATCGAAGATG
** * * * * *
29786771 ATA-ACTCTATCTCCCTGTATTTAGCAGTGGAA-TAGATTGAAGATT
1 GCAGA-TCTACCTCCCTGTATTTGGCAGT-GAAGCAGATCGAAGATG
* ** *
29786816 GCAGATCTTGCCTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATG
1 GCAGATC-TACCTCCCTGTATTTGGCAGTGAAGCAGATCGAAGATG
* *** * * * * * **
29786862 GCAGATTTTACCTCCCTG-A--CCACATTGGAGTACATTGAAGCCG
1 GCAGA-TCTACCTCCCTGTATTTGGCAGTGAAGCAGATCGAAGATG
** * * * *
29786905 ATA-ACTCTATCTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATT
1 GCAGA-TCTACCTCCCTGTATTTGGCAGT-GAAGCAGATCGAAGATG
* * *
29786950 GCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATG
1 GCAGATC-TACCTCCCTGTATTTGGCAGTGAAGCAGATCGAAGATG
*
29786996 GCAGATTTTACCTCCCTG
1 GCAGA-TCTACCTCCCTG
29787014 ACTACAGTGG
Statistics
Matches: 196, Mismatches: 75, Indels: 33
0.64 0.25 0.11
Matches are distributed among these distances:
42 11 0.06
43 16 0.08
44 13 0.07
45 59 0.30
46 94 0.48
47 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (45 bp):
GCAGATCTACCTCCCTGTATTTGGCAGTGAAGCAGATCGAAGATG
Found at i:29786941 original size:134 final size:134
Alignment explanation
Indices: 29786672--29787082 Score: 743
Period size: 134 Copynumber: 3.1 Consensus size: 134
29786662 GCAGAGCAGG
* *
29786672 TTGAATATTGCAGATC-TGCCTTCCTGTATTTGGCAGTGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
29786736 CCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTAGCAGTGG
66 CCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
29786801 AATAGA
129 AATAGA
*
29786807 TTGAAGATTGCAGATCTTGCCTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* *
29786872 CCTCCCTGACCACATTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
29786937 TAGA
131 TAGA
29786941 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
29787006 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
29787071 TAGA
131 TAGA
29787075 TTGAAGAT
1 TTGAAGAT
29787083 CAAAGATGGC
Statistics
Matches: 266, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
134 199 0.75
135 15 0.06
136 52 0.20
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:29787100 original size:95 final size:96
Alignment explanation
Indices: 29786984--29787179 Score: 340
Period size: 97 Copynumber: 2.0 Consensus size: 96
29786974 GCAGCGAAGC
* *
29786984 AGATCGAAGATGGCAGATTTTACCTCC-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAAATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
29787048 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
29787079 AGATCAAAGATGGCAAATTTTACCTCCATGTGACTATAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAAATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
29787144 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
29787176 AGAT
1 AGAT
29787180 TGCAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 25 0.26
97 70 0.74
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (96 bp):
AGATCAAAGATGGCAAATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:29787137 original size:231 final size:229
Alignment explanation
Indices: 29786850--29787313 Score: 820
Period size: 231 Copynumber: 2.0 Consensus size: 229
29786840 GCAGCGAAGC
* * *
29786850 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACATTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
29786915 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCC
29786980 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
*
29787045 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTAA
* * *
29787079 AGATCAAAGATGGCAAATTTTACCTCCATGTGACTATAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAAATTTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
29787144 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
* *
29787209 CCAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
129 CCAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
29787274 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAA
194 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAA
29787310 AGAT
1 AGAT
29787314 TGCAGATCTT
Statistics
Matches: 223, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
229 25 0.11
231 198 0.89
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (229 bp):
AGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCC
AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTAA
Found at i:29787207 original size:46 final size:46
Alignment explanation
Indices: 29787146--29787459 Score: 148
Period size: 46 Copynumber: 7.0 Consensus size: 46
29787136 ATAACTCTAT
*
29787146 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* ** * * * * * *
29787192 CTTCCTGTATTTGGCAG-CCAAGCAGGTCGAAGATGGCGGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
29787238 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
29787280 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
29787326 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
29787372 CTCCCTG-A-CT-ACAGTGGAGTATATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
29787414 CTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTTACAGATCTTA
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGA-TTGCAGATCTTA
29787460 ACCCCCTAAG
Statistics
Matches: 181, Mismatches: 70, Indels: 33
0.64 0.25 0.12
Matches are distributed among these distances:
41 5 0.03
42 20 0.11
43 20 0.11
44 7 0.04
45 37 0.20
46 82 0.45
47 6 0.03
48 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:29787262 original size:134 final size:134
Alignment explanation
Indices: 29787079--29787458 Score: 634
Period size: 134 Copynumber: 2.8 Consensus size: 134
29787069 AATAGATTGA
* * *
29787079 AGATCAAAGATGGCAAATTTTACCTCCATGTGACTATAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
29787144 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
29787209 CCAAGC
129 CCAAGC
* * *
29787215 AGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
29787280 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCC
29787345 AAGC
131 AAGC
*
29787349 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTATATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
29787414 CTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTTACAGATCTT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGA-TTGCAGATCTT
29787459 AACCCCCTAA
Statistics
Matches: 228, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
134 195 0.86
135 10 0.04
136 23 0.10
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCC
AAGC
Found at i:29787390 original size:365 final size:365
Alignment explanation
Indices: 29786714--29787447 Score: 1333
Period size: 365 Copynumber: 2.0 Consensus size: 365
29786704 GCAGTGAAGC
* * *
29786714 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAAATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
29786779 ATCTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTTCTGTATTTGGCAG
66 ATCTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
* *
29786844 CGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACATTGGAGTACATTGAAGCCGATAA
131 CCAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
*
29786909 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTG
196 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTG
*
29786974 GCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCG
261 GCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCG
*
29787039 ATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
326 ATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGA
*
29787079 AGATCAAAGATGGCAAATTTTACCTCCATGTGACTATAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAAATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
29787144 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
* * *
29787209 CCAAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
131 CCAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
29787274 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTG
196 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTG
*
29787339 GCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTATATTGAAGCCG
261 GCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCG
29787404 ATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGA
326 ATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGA
29787444 AGAT
1 AGAT
29787448 TTACAGATCT
Statistics
Matches: 354, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
365 354 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (365 bp):
AGATCAAAGATGGCAAATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
CCAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTG
GCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCG
ATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGA
Found at i:29787505 original size:44 final size:44
Alignment explanation
Indices: 29787457--29787658 Score: 151
Period size: 44 Copynumber: 4.6 Consensus size: 44
29787447 TTTACAGATC
* *
29787457 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCT
1 TTAACCCCCTAAGCAGTAGGGTAACAGATCAAAGATGATGAGCT
* * * * ** *
29787501 TTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGA-TCAAAGATGATGAGCT
* * * * * * *
29787544 TTAAACCCCTAAGCAGTAGGGTAACTG-GCTGAAGAT-TTACAGAT
1 TTAACCCCCTAAGCAGTAGGGTAACAGATC-AAAGATGAT-GAGCT
* * * * *
29787588 CTTAACCCCCTAAGCAGTAGGGAAATAGATAAAAAATGATGGGCT
1 -TTAACCCCCTAAGCAGTAGGGTAACAGATCAAAGATGATGAGCT
29787633 TTAACCCCCTAAGCAGTAGGGTAACA
1 TTAACCCCCTAAGCAGTAGGGTAACA
29787659 AGCCGAATTT
Statistics
Matches: 118, Mismatches: 32, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
42 1 0.01
43 32 0.27
44 55 0.47
45 29 0.25
46 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (44 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGATCAAAGATGATGAGCT
Found at i:29787565 original size:43 final size:43
Alignment explanation
Indices: 29787501--29787780 Score: 235
Period size: 43 Copynumber: 6.4 Consensus size: 43
29787491 ATGATGGGCT
*
29787501 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGCC
* ** *
29787544 TTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTAC-AGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTG-A-ATTTACAAG-CC
* * * * *** *
29787589 TTAACCCCCTAAGCAGTAGGG-AA-ATAGATAAAAAATGATGGGCT
1 TTAACCCCCTAAGCAGTAGGGTAACA-AGCT--GAATTTACAAGCC
* *
29787633 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGCC
* * **
29787676 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTG-A-ATTTACAAGCC
* * * *
29787721 TTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTAC-AGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAG-CC
*
29787764 TTAACCCCTTAAGCAGT
1 TTAACCCCCTAAGCAGT
29787781 TGGGAAATAG
Statistics
Matches: 189, Mismatches: 36, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
42 1 0.01
43 83 0.44
44 33 0.17
45 71 0.38
46 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGCC
Found at i:29787588 original size:132 final size:132
Alignment explanation
Indices: 29787440--29787747 Score: 544
Period size: 132 Copynumber: 2.3 Consensus size: 132
29787430 GTGGAATAGA
* *
29787440 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAA
1 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAA
* *
29787505 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACT
66 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACA
29787570 GG
131 GG
*
29787572 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATAAAAAATGATGGGCTTTAA
1 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAA
29787637 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACA
66 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACA
29787702 GG
131 GG
* * *
29787704 CTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAG
1 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
29787748 GTTGAATTTA
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 167 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (132 bp):
CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAA
CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACA
GG
Found at i:29787639 original size:88 final size:87
Alignment explanation
Indices: 29787544--29787847 Score: 295
Period size: 88 Copynumber: 3.4 Consensus size: 87
29787534 TTTACAAGCC
* *
29787544 TTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTAACCCCCTAAGCAGTAGG
29787609 GAAATAGATAAAAAATGATGGGCT
64 GAAATAGATAAAAAATGATGGGCT
* * * * * *
29787633 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
* * * * * * ****
29787698 AACAGGCTGAAGATTTA-CAAAT
66 AATA-GATAAAAAATGATGGGCT
* * * *
29787720 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCTTAAGCAGTTGGG
1 -TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
** * *
29787785 AAATAGATCGAAGATGATGGGCC
65 AAATAGATAAAAAATGATGGGCT
* * *
29787808 TTAAACCCCTAAGTAGTAGGGTAACAGGCTAGAAATTACA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA
29787848 AATTTATTTT
Statistics
Matches: 165, Mismatches: 46, Indels: 9
0.75 0.21 0.04
Matches are distributed among these distances:
87 64 0.39
88 74 0.45
89 27 0.16
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (87 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
AATAGATAAAAAATGATGGGCT
Found at i:29787759 original size:175 final size:175
Alignment explanation
Indices: 29787501--29787833 Score: 481
Period size: 175 Copynumber: 1.9 Consensus size: 175
29787491 ATGATGGGCT
* * *
29787501 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAACCAGTAGGGT
*
29787566 AACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATAAAAAATGATGGG
66 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATAAAAAATGATGGG
* *
29787631 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
131 CCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
* * * *
29787676 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGG
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAAACCTTAAACCCCTAACCAGTAGG
* * * ** *
29787741 GTAACAGGTTG-A-ATTTACAGATCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATG
64 GTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATAAAAAATGATG
*
29787804 GGCCTTAAACCCCTAAGTAGTAGGGTAACA
129 GGCCTTAAACCCCTAAGCAGTAGGGTAACA
29787834 GGCTAGAAAT
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
175 101 0.73
176 2 0.01
177 36 0.26
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (175 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAACCAGTAGGGT
AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATAAAAAATGATGGG
CCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
Found at i:29787810 original size:132 final size:132
Alignment explanation
Indices: 29787440--29787850 Score: 456
Period size: 132 Copynumber: 3.1 Consensus size: 132
29787430 GTGGAATAGA
* * * * * *
29787440 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAA
1 CTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGAAACAGATAAAAAATGAAGAGCTTTAA
* * *
29787505 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACT
66 CCCCCTAAGCAGTAGGGTAACAAGCCGAAATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
29787570 GG
131 GG
* * * * *
29787572 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATAAAAAATGATGGGCTTTAA
1 CTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGAAACAGATAAAAAATGAAGAGCTTTAA
* * *
29787637 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACA
66 CCCCCTAAGCAGTAGGGTAACAAGCCGAAATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
29787702 GG
131 GG
* * ** * * *
29787704 CTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGT-TGAATTTACAGATC-TTA
1 CTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGAAACAGATAAAAAATGA-AGAGCTTTA
* * * *** *
29787767 ACCCCTTAAGCAGTTGGG-AA-ATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTAGTAGGGT
65 ACCCCCTAAGCAGTAGGGTAACA-AG-CCGAA-ATGACAAGCCTTAAACCCCTAAGCAGTAGGGT
29787830 AACAGG
127 AACAGG
29787836 CTAGAA-A-TTACAAAT
1 CT-GAAGATTTACAAAT
29787851 TTATTTTTCC
Statistics
Matches: 247, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
129 1 0.00
130 4 0.02
131 35 0.14
132 204 0.83
133 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (132 bp):
CTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGAAACAGATAAAAAATGAAGAGCTTTAA
CCCCCTAAGCAGTAGGGTAACAAGCCGAAATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
GG
Found at i:29787969 original size:68 final size:68
Alignment explanation
Indices: 29787860--29788047 Score: 279
Period size: 68 Copynumber: 2.8 Consensus size: 68
29787850 TTTATTTTTC
** * *
29787860 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGA-GGATCTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA-ACAAACCTCT
29787924 TCTT
65 TCTT
* *
29787928 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAACAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAACAAACCTCTT
29787993 CTT
66 CTT
* * *
29787996 CCAGAAATGGCATTTGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTT
29788048 GAGTGGAAGA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
67 1 0.01
68 107 0.99
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (68 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAACAAACCTCTT
CTT
Found at i:29788268 original size:44 final size:44
Alignment explanation
Indices: 29788162--29788661 Score: 426
Period size: 44 Copynumber: 11.4 Consensus size: 44
29788152 GATTTCAGCA
* * * *
29788162 TGGCATCCCTGTACTTATAGGGAACAAGTTGAAGATTTTAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAG-ATT
*
29788205 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* *
29788249 TGGCATTCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * *
29788293 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATATCAGATT
* * * * * * *
29788337 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAATATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATATCAG-ATT
*
29788381 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* *
29788425 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * *
29788469 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATATCAGATT
* * * * * * * * *
29788513 TGACATTCTTGTGCTTACAGTGAACTAGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ATATCAG-ATT
* * *
29788557 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * * *
29788601 TGGGATCCCTGTGCTTATAAGGAAC-AGATCGAAGATAGCAAATT
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATATCAGATT
* *
29788645 TGACATTCCTGTGCTTA
1 TGGCATCCCTGTGCTTA
29788662 CAGTGAAGCA
Statistics
Matches: 370, Mismatches: 71, Indels: 31
0.78 0.15 0.07
Matches are distributed among these distances:
42 3 0.01
43 50 0.14
44 302 0.82
45 13 0.04
46 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
Found at i:29788661 original size:176 final size:176
Alignment explanation
Indices: 29788193--29788626 Score: 771
Period size: 176 Copynumber: 2.5 Consensus size: 176
29788183 GAACAAGTTG
* *
29788193 AAGATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATTCC
1 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
*
29788258 TGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
66 TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
29788323 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA
131 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA
*
29788369 AATATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
1 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
29788434 TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
66 TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
*
29788499 GAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAA-CTAGATCA
131 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCA
* * *
29788545 AAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGGATCCC
1 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
*
29788610 TGTGCTTATAAGGAACA
66 TGTGCTTATAGGGAACA
29788627 GATCGAAGAT
Statistics
Matches: 247, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
175 1 0.00
176 246 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (176 bp):
AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA
Found at i:29788665 original size:132 final size:131
Alignment explanation
Indices: 29788093--29788682 Score: 518
Period size: 132 Copynumber: 4.5 Consensus size: 131
29788083 GGAGTTGCAG
* * * *
29788093 AGGAGCAGACCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAAGATTTC
1 AGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-CAGATCAAAGATATC
* * ****
29788158 AGCA-TGGCATCCCTGTACTTATAGGGAACAAGTTGAAGATTTTAGCA--TGGCATCCCTGTGCT
65 AG-ATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG-ATTTGGCATCCCTGTGCT
29788220 TATA
128 TATA
* * * * * * * * * * * *
29788224 GGGAACA-AGTTGAAAACATCAGATTTGGCATTCCTGTGCTTATAGGGAACAAGTTGAAA-ACAT
1 AGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAC-AGATCAAAGATAT
* * * * * * *
29788287 CAGATTTGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATCTGACATTCCTGTGC
64 CAGA-TTGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAGATTTGGCATCCCTGTGC
*
29788351 TTA-C
127 TTATA
* * ** * * * * * * *
29788355 AGTGAAGCAGATCAAATATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-AC
1 AG-GAA-CAGATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAC-AGATCAAAGAT
*
29788417 ATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTG
62 ATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTG
29788482 CTTATA
126 CTTATA
* * * *
29788488 GGGAACGGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAACTAGATCAAAGATTTC
1 AGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAC-AGATCAAAGATATC
* *
29788553 AGCA-TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGGATCCCTGTGCTT
65 AG-ATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTT
29788617 ATA
129 ATA
* *
29788620 AGGAACAGATCGAAGATAGCAAATTTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATA
1 AGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-CAGATCAAAGATA
29788683 GCGGATATCG
Statistics
Matches: 374, Mismatches: 67, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
129 1 0.00
130 9 0.02
131 87 0.23
132 256 0.68
133 19 0.05
134 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (131 bp):
AGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAACAGATCAAAGATATCA
GATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTAT
A
Found at i:29788975 original size:4 final size:4
Alignment explanation
Indices: 29788966--29788992 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
29788956 AAACACAAAA
29788966 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
29788993 AACCTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:29789179 original size:23 final size:22
Alignment explanation
Indices: 29789153--29789198 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29789143 TTGGTTTTTA
29789153 TGGAGAAGGATTGTTCTTTGTTT
1 TGGAGAAGG-TTGTTCTTTGTTT
* * *
29789176 TGGAGGAGGTTTTTTTTTGTTT
1 TGGAGAAGGTTGTTCTTTGTTT
29789198 T
1 T
29789199 TTTGGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.54
Consensus pattern (22 bp):
TGGAGAAGGTTGTTCTTTGTTT
Found at i:29789418 original size:3 final size:3
Alignment explanation
Indices: 29789404--29789489 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
29789394 GAGCTTTGTT
* *
29789404 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
29789448 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
29789490 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:29789442 original size:27 final size:27
Alignment explanation
Indices: 29789403--29789489 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
29789393 AGAGCTTTGT
29789403 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
29789430 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
29789455 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
29789481 -TTATATTAT
1 TTTATATTAT
29789490 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:29789464 original size:21 final size:18
Alignment explanation
Indices: 29789404--29789493 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
29789394 GAGCTTTGTT
*
29789404 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
29789424 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
29789442 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
29789463 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
29789481 TTA-TATTATATAT
1 TTATTATT-TATAT
29789494 GCCCTCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:29789742 original size:17 final size:17
Alignment explanation
Indices: 29789720--29789752 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
29789710 TATTTTTATG
29789720 TATATATA-TA-TATTT
1 TATATATAGTATTATTT
29789735 TATATATAGTATTATTT
1 TATATATAGTATTATTT
29789752 T
1 T
29789753 TATTACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATATATAGTATTATTT
Found at i:29789755 original size:18 final size:19
Alignment explanation
Indices: 29789695--29789755 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
29789685 ACTATTACTA
*
29789695 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
29789715 TTATGTATA-TATATATATT
1 TTATATATAGTATATAT-TT
29789734 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
29789752 TTAT
1 TTAT
29789756 TACTTTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 12 0.33
19 15 0.42
20 9 0.25
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:29792396 original size:21 final size:20
Alignment explanation
Indices: 29792370--29792421 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
29792360 ATACATGCAG
29792370 TATTTATAAATTTCGTAATGA
1 TATTTATAAATTTCGT-ATGA
* * **
29792391 TATTTA-AATTTTTGTATTT
1 TATTTATAAATTTCGTATGA
29792410 TATTTATAAATT
1 TATTTATAAATT
29792422 ATACGGTAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 8 0.32
20 11 0.44
21 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
TATTTATAAATTTCGTATGA
Found at i:29797645 original size:19 final size:19
Alignment explanation
Indices: 29797621--29797661 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
29797611 CACTTCACTT
29797621 ATTATT-ATATTATAATTTA
1 ATTATTGATATTAT-ATTTA
*
29797640 ATTATTGTTATTATATTTA
1 ATTATTGATATTATATTTA
29797659 ATT
1 ATT
29797662 CAATCCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTATTGATATTATATTTA
Found at i:29798292 original size:19 final size:18
Alignment explanation
Indices: 29798249--29798292 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
29798239 AAAATATAAA
29798249 TTCAAAAAATTTTAAAAT
1 TTCAAAAAATTTTAAAAT
* *
29798267 TTCCAAAACATTTTGAAAGT
1 TT-CAAAAAATTTT-AAAAT
29798287 TTCAAA
1 TTCAAA
29798293 TTAAAAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 6 0.27
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (18 bp):
TTCAAAAAATTTTAAAAT
Found at i:29798859 original size:18 final size:18
Alignment explanation
Indices: 29798836--29798872 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29798826 AATATTGTGT
* *
29798836 TTTAGTTTTGTTTTTGCA
1 TTTAGTGTTGTTTATGCA
29798854 TTTAGTGTTGTTTATGCA
1 TTTAGTGTTGTTTATGCA
29798872 T
1 T
29798873 GTTTTGCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.05, G:0.19, T:0.62
Consensus pattern (18 bp):
TTTAGTGTTGTTTATGCA
Found at i:29800645 original size:90 final size:87
Alignment explanation
Indices: 29800454--29800669 Score: 310
Period size: 90 Copynumber: 2.5 Consensus size: 87
29800444 CTTAATGGTG
* * * *
29800454 CAAAAAGATCTCTCAAACTTTTTCAAAAAGAGCAATTAAGCTCCTATTTTTTTCACTCATTTGAA
1 CAAAAAGAGCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTATTTTTTTCACTCAATTGAA
29800519 TACTTGAACTTTCAAAATGCAT
66 TACTTGAACTTTCAAAATGCAT
* *
29800541 CAAAAA-AGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCGCTCAAT
1 CAAAAAGAGCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTA---TTTTTTT-CACTCAAT
**
29800605 TGGGTACTTGAACTTTCAAAATGCAT
62 TGAATACTTGAACTTTCAAAATGCAT
29800631 CAAAAAGA-CTCTCAAACTTTTTCAAAAAAAGCAATTAAG
1 CAAAAAGAGCTCTCAAACTTTTTCAAAAAAAGCAATTAAG
29800670 TCCTTGCTTT
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
86 35 0.30
87 6 0.05
89 7 0.06
90 66 0.57
91 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (87 bp):
CAAAAAGAGCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTATTTTTTTCACTCAATTGAA
TACTTGAACTTTCAAAATGCAT
Found at i:29800708 original size:9 final size:9
Alignment explanation
Indices: 29800696--29800875 Score: 75
Period size: 10 Copynumber: 19.4 Consensus size: 9
29800686 AAATTAGAAA
29800696 AAAAATTAT
1 AAAAATTAT
29800705 AAAAA--AT
1 AAAAATTAT
* *
29800712 TAAAATCAAT
1 AAAAAT-TAT
**
29800722 AAAAGCTAT
1 AAAAATTAT
*
29800731 AAATATTATT
1 AAAAATTA-T
**
29800741 AAATTTTAAT
1 AAAAATT-AT
*
29800751 AAAAAAT-T
1 AAAAATTAT
*
29800759 AAATATTA-
1 AAAAATTAT
29800767 AAAAATTATT
1 AAAAATTA-T
29800777 AAAAA-TAT
1 AAAAATTAT
*
29800785 AAAAATCAT
1 AAAAATTAT
*
29800794 AAAAATATAA
1 AAAAAT-TAT
*
29800804 AAAAATTGT
1 AAAAATTAT
*
29800813 AAAATTTTAT
1 AAAA-ATTAT
*
29800823 AAAAATTGTAA
1 AAAAA-T-TAT
29800834 AAAAATTAT
1 AAAAATTAT
29800843 -AAAATATAT
1 AAAAAT-TAT
* *
29800852 AGATATATAT
1 AAAAAT-TAT
29800862 AAAAAATTAT
1 -AAAAATTAT
29800872 AAAA
1 AAAA
29800876 TTTTATAAAG
Statistics
Matches: 126, Mismatches: 29, Indels: 32
0.67 0.16 0.17
Matches are distributed among these distances:
7 6 0.05
8 24 0.19
9 36 0.29
10 48 0.38
11 12 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29800777 original size:18 final size:18
Alignment explanation
Indices: 29800735--29800829 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 18
29800725 AGCTATAAAT
*
29800735 ATTATTAAATTTTAATAAA
1 ATTATTAAATATTAA-AAA
*
29800754 A-AATTAAATATTAAAAA
1 ATTATTAAATATTAAAAA
*
29800771 ATTATTAAA-AATATAAAA
1 ATTATTAAATATTA-AAAA
* * *
29800789 ATCATAAAAATATAAAAAA
1 ATTAT-TAAATATTAAAAA
* * *
29800808 ATTGTAAAATTTTATAAAA
1 ATTATTAAATATTA-AAAA
29800827 ATT
1 ATT
29800830 GTAAAAAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 7 0.12
18 32 0.54
19 18 0.31
20 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (18 bp):
ATTATTAAATATTAAAAA
Found at i:29800815 original size:19 final size:19
Alignment explanation
Indices: 29800759--29800836 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
29800749 ATAAAAAATT
* *
29800759 AAATATTAAAAAATTATTAA
1 AAATATAAAAAAATT-GTAA
**
29800779 AAATAT--AAAAATCATAA
1 AAATATAAAAAAATTGTAA
29800796 AAATATAAAAAAATTGTAA
1 AAATATAAAAAAATTGTAA
* * *
29800815 AATTTTATAAAAATTGTAA
1 AAATATAAAAAAATTGTAA
29800834 AAA
1 AAA
29800837 AATTATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
17 9 0.19
18 6 0.12
19 27 0.56
20 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATATAAAAAAATTGTAA
Found at i:29800825 original size:29 final size:29
Alignment explanation
Indices: 29800792--29800884 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
29800782 TATAAAAATC
*
29800792 ATAAAAATATAAAAAAATTGTAAAATTTT
1 ATAAAAATATAAAAAAATTATAAAATTTT
* *
29800821 ATAAAAATTGTAAAAAAATTATAAAA-TAT
1 ATAAAAA-TATAAAAAAATTATAAAATTTT
* *
29800850 ATAGATATATATAAAAAATTATAAAATTTT
1 ATAAAAATATA-AAAAAATTATAAAATTTT
29800880 ATAAA
1 ATAAA
29800885 GTTGTAAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.06
29 28 0.53
30 22 0.42
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (29 bp):
ATAAAAATATAAAAAAATTATAAAATTTT
Found at i:29800846 original size:19 final size:19
Alignment explanation
Indices: 29800805--29800934 Score: 59
Period size: 19 Copynumber: 6.7 Consensus size: 19
29800795 AAAATATAAA
**
29800805 AAAATTGT-AAAATTTTAT
1 AAAATTGTAAAAAAATTAT
29800823 AAAAATTGTAAAAAAATTAT
1 -AAAATTGTAAAAAAATTAT
* * * * *
29800843 AAAATATATAGATATATATAA
1 AAAAT-TGTAAAAAAAT-TAT
* **
29800864 AAAATTAT-AAAATTTTAT
1 AAAATTGTAAAAAAATTAT
* *
29800882 AAAGTTGTAAGAAAATTAT
1 AAAATTGTAAAAAAATTAT
**
29800901 ACAAAAAGTAAAAAAA-TAT
1 A-AAATTGTAAAAAAATTAT
*
29800920 AAATTTTGTAAAAAA
1 AAA-ATTGTAAAAAA
29800935 GAAAAAGAAA
Statistics
Matches: 82, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
18 10 0.12
19 37 0.45
20 28 0.34
21 7 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AAAATTGTAAAAAAATTAT
Found at i:29800896 original size:29 final size:27
Alignment explanation
Indices: 29800803--29800901 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 27
29800793 TAAAAATATA
*
29800803 AAAAAATTGTAAAATTTTATAAAAATTGT
1 AAAAAATTATAAAATTTTAT--AAATTGT
* *
29800832 AAAAAAATTATAAAA-TATATAGATATATAT
1 -AAAAAATTATAAAATTTTATA-A-AT-TGT
29800862 AAAAAATTATAAAATTTTATAAAGTTGT
1 AAAAAATTATAAAATTTTATAAA-TTGT
29800890 AAGAAAATTATA
1 AA-AAAATTATA
29800902 CAAAAAGTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
27 1 0.02
28 6 0.10
29 31 0.53
30 20 0.34
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (27 bp):
AAAAAATTATAAAATTTTATAAATTGT
Found at i:29800920 original size:58 final size:59
Alignment explanation
Indices: 29800777--29800922 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 59
29800767 AAAAATTATT
* *
29800777 AAAAA-TATAAAA-ATCATAAAAATATA-AAAAAATTGTAAAATTTTATAAAAATTGTAA
1 AAAAATTATAAAATAT-ATAAAAAAATATAAAAAATTATAAAATTTTATAAAAATTGTAA
* * * *
29800834 AAAAATTATAAAATATATAGATATATATAAAAAATTATAAAATTTTAT-AAAGTTGTAA
1 AAAAATTATAAAATATATAAAAAAATATAAAAAATTATAAAATTTTATAAAAATTGTAA
*
29800892 GAAAATTATACAAA-A-AGTAAAAAAATATAAA
1 AAAAATTATA-AAATATA-TAAAAAAATATAAA
29800923 TTTTGTAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
57 6 0.08
58 46 0.61
59 24 0.32
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (59 bp):
AAAAATTATAAAATATATAAAAAAATATAAAAAATTATAAAATTTTATAAAAATTGTAA
Found at i:29801159 original size:18 final size:18
Alignment explanation
Indices: 29801136--29801192 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
29801126 ATAAAAAAAA
29801136 TTATAATTTTTAATAAAT
1 TTATAATTTTTAATAAAT
*
29801154 TTATAAATTTTT-AT-ATT
1 TTAT-AATTTTTAATAAAT
**
29801171 TTATTAAAATTTAATAAAT
1 TTA-TAATTTTTAATAAAT
29801190 TTA
1 TTA
29801193 CTAAAAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 10 0.32
18 9 0.29
19 12 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATAATTTTTAATAAAT
Found at i:29801433 original size:10 final size:10
Alignment explanation
Indices: 29801418--29801443 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
29801408 TGAGTGCAAA
29801418 AAAAAAAAAG
1 AAAAAAAAAG
29801428 AAAAAAAAAG
1 AAAAAAAAAG
29801438 AAAAAA
1 AAAAAA
29801444 GAGAGGGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:29802512 original size:264 final size:264
Alignment explanation
Indices: 29802035--29802563 Score: 941
Period size: 264 Copynumber: 2.0 Consensus size: 264
29802025 ATTTTGATTA
29802035 TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
1 TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
* * *
29802100 ACCGCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGTGTTGCATTGGTTTGGGGAGATTTGAAA
66 ACCCCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGCGTTGCATTGGTTTGGGGAGACTTGAAA
* *
29802165 GAGAGATTCAATAAGATCGATGGGGCGAGGATTTTTTACTTGCTTAGAGAGATTGCCACGGCAAG
131 GAGAGATTCAATAAAATCGATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCCACGGCAAG
*
29802230 TCAGGGTGATTCTTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
196 TCAGGGTGATTATTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
29802295 CTCT
261 CTCT
*
29802299 TCAGATTAGTCGTCAATGGGATCGTTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
1 TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
* * * *
29802364 TCCCCGATTTGTCCGCCGGTGTTGTGTTTGCTTCTAGCGTTGCATTGGTTTGGGGAGACTTGAAG
66 ACCCCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGCGTTGCATTGGTTTGGGGAGACTTGAAA
*
29802429 GAGAGATTCAATAAAATCGATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCTACGGCAAG
131 GAGAGATTCAATAAAATCGATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCCACGGCAAG
*
29802494 TCAGGGTGATTATTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATGAGCATAGTG
196 TCAGGGTGATTATTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
29802559 CTCT
261 CTCT
29802563 T
1 T
29802564 GTGCCCTATA
Statistics
Matches: 252, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
264 252 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (264 bp):
TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
ACCCCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGCGTTGCATTGGTTTGGGGAGACTTGAAA
GAGAGATTCAATAAAATCGATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCCACGGCAAG
TCAGGGTGATTATTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
CTCT
Found at i:29804229 original size:12 final size:12
Alignment explanation
Indices: 29804212--29804238 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29804202 TACACTCGAA
29804212 TTCAACATTATC
1 TTCAACATTATC
29804224 TTCAACATTATC
1 TTCAACATTATC
29804236 TTC
1 TTC
29804239 TTTTAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (12 bp):
TTCAACATTATC
Found at i:29804879 original size:28 final size:27
Alignment explanation
Indices: 29804848--29804921 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
29804838 AAGATTCAAG
* *
29804848 GTTTAAAATTTAAGATTTAGGGCTTGGA
1 GTTTAAATTTTAA-ATTTAGGGCTTAGA
* *
29804876 GTTTAATATTTTAATTTTAGGGTTTAGA
1 GTTTAA-ATTTTAAATTTAGGGCTTAGA
29804904 GTTTAAATTTTAATATTT
1 GTTTAAATTTTAA-ATTT
29804922 TGAGTTTTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 7 0.18
28 26 0.67
29 6 0.15
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (27 bp):
GTTTAAATTTTAAATTTAGGGCTTAGA
Found at i:29804928 original size:28 final size:28
Alignment explanation
Indices: 29804874--29804928 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
29804864 TTAGGGCTTG
*
29804874 GAGTTTAATATTTTAATTTTAGGGTTTA
1 GAGTTTAATATTTTAATTTTAGAGTTTA
*
29804902 GAGTTTAA-ATTTTAATATTTTGAGTTT
1 GAGTTTAATATTTTAAT-TTTAGAGTTT
29804929 TAGGTTAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (28 bp):
GAGTTTAATATTTTAATTTTAGAGTTTA
Found at i:29805635 original size:25 final size:26
Alignment explanation
Indices: 29805606--29805656 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
29805596 CTTATTTCAT
*
29805606 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
29805631 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
29805657 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:29805649 original size:26 final size:24
Alignment explanation
Indices: 29805618--29805666 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
29805608 AATAAAAAAT
*
29805618 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
29805644 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
29805667 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:29805686 original size:21 final size:21
Alignment explanation
Indices: 29805629--29805692 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
29805619 TTAAAAATAT
*
29805629 AATAAAT-CAAAT-ATATTTAA
1 AATAAATAAAAATAATA-TTAA
* *
29805649 AA-ACATAAAAACAAATATTAA
1 AATAAATAAAAA-TAATATTAA
*
29805670 AATAAATAAAAATAATACTAA
1 AATAAATAAAAATAATATTAA
29805691 AA
1 AA
29805693 CAATTCTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 15 0.44
22 11 0.32
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAATAAAAATAATATTAA
Found at i:29806606 original size:17 final size:18
Alignment explanation
Indices: 29806584--29806617 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
29806574 TATAATTATG
29806584 ATTAATATA-ATAAATTT
1 ATTAATATATATAAATTT
29806601 ATTAATATATATAAATT
1 ATTAATATATATAAATT
29806618 GTAATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATATATATAAATTT
Found at i:29806975 original size:4 final size:4
Alignment explanation
Indices: 29806966--29806993 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
29806956 GTGCACTCCT
29806966 CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG
29806994 TATCAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.25, T:0.00
Consensus pattern (4 bp):
CACG
Found at i:29811074 original size:16 final size:16
Alignment explanation
Indices: 29811053--29811109 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
29811043 TTTGGTTCGC
*
29811053 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
29811069 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
29811085 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
29811101 TGTAATGGA
1 TGTAATGGA
29811110 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:29811376 original size:18 final size:17
Alignment explanation
Indices: 29811355--29811389 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29811345 TTATTATTAA
*
29811355 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29811373 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29811390 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29815826 original size:14 final size:15
Alignment explanation
Indices: 29815807--29815849 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
29815797 TCATTAATTG
29815807 ATATATTTTTATA-A
1 ATATATTTTTATATA
29815821 ATATATTTTTTAATATA
1 ATATA-TTTTT-ATATA
*
29815838 AAATATTTTTAT
1 ATATATTTTTAT
29815850 TCACTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 8 0.32
17 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATTTTTATATA
Found at i:29816424 original size:29 final size:30
Alignment explanation
Indices: 29816374--29816439 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
29816364 TTTTATAAAA
* * *
29816374 TAATTAAGTTTTTAAACGAAAATT-ACACT
1 TAATTAAATTTTTAAACAAAAATTAACAAT
**
29816403 TAATTAAATTTTTAATTAAAAATTAACAAT
1 TAATTAAATTTTTAAACAAAAATTAACAAT
29816433 TAATTAA
1 TAATTAA
29816440 GGCCTTGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (30 bp):
TAATTAAATTTTTAAACAAAAATTAACAAT
Found at i:29816787 original size:20 final size:20
Alignment explanation
Indices: 29816749--29816787 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29816739 AATATATTTT
* *
29816749 TTATAATTTTCTAAAAATTG
1 TTATAATATTATAAAAATTG
*
29816769 TTATAATATTATAATAATT
1 TTATAATATTATAAAAATT
29816788 TCTAATCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TTATAATATTATAAAAATTG
Found at i:29817131 original size:19 final size:18
Alignment explanation
Indices: 29817094--29817128 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29817084 TCGAAACCGG
29817094 TCGGTTAACCGAAAAAAT
1 TCGGTTAACCGAAAAAAT
29817112 TCGGTTAACCGAAAAAA
1 TCGGTTAACCGAAAAAA
29817129 ATTAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (18 bp):
TCGGTTAACCGAAAAAAT
Found at i:29817241 original size:18 final size:18
Alignment explanation
Indices: 29817218--29817255 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
29817208 AATATATATT
29817218 AACCCAAATACCCAACCC
1 AACCCAAATACCCAACCC
*
29817236 AACCCAATTACCCAACCC
1 AACCCAAATACCCAACCC
29817254 AA
1 AA
29817256 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.47, G:0.00, T:0.08
Consensus pattern (18 bp):
AACCCAAATACCCAACCC
Found at i:29817248 original size:13 final size:13
Alignment explanation
Indices: 29817232--29817256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29817222 CAAATACCCA
29817232 ACCCAACCCAATT
1 ACCCAACCCAATT
29817245 ACCCAACCCAAT
1 ACCCAACCCAAT
29817257 CATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:29817300 original size:6 final size:6
Alignment explanation
Indices: 29817281--29817378 Score: 133
Period size: 6 Copynumber: 15.5 Consensus size: 6
29817271 ATAATTTACT
*
29817281 AAATAA AAACTAA AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA
1 AAATAA AAA-TAA AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA
*
29817332 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
29817379 ACATATAATT
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
6 67 0.81
7 6 0.07
8 10 0.12
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:29817327 original size:32 final size:31
Alignment explanation
Indices: 29817286--29817378 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 31
29817276 TTACTAAATA
*
29817286 AAAACTAAAAATAAAAATAAAAATCTAAAACT
1 AAAACTAAAAATAAAAATAAAAAT-AAAAACT
*
29817318 AAAAATAAAAATAAAAATAAAAATAAAAATCT
1 AAAACTAAAAATAAAAATAAAAATAAAAA-CT
29817350 AAAACTAAAAATAAAAATAAAAATAAAAA
1 AAAACTAAAAATAAAAATAAAAATAAAAA
29817379 ACATATAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 4 0.07
32 53 0.93
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.17
Consensus pattern (31 bp):
AAAACTAAAAATAAAAATAAAAATAAAAACT
Found at i:29817333 original size:38 final size:38
Alignment explanation
Indices: 29817281--29817378 Score: 187
Period size: 38 Copynumber: 2.6 Consensus size: 38
29817271 ATAATTTACT
29817281 AAATAAAAACTAAAAATAAAAATAAAAATCTAAAACTAA
1 AAATAAAAA-TAAAAATAAAAATAAAAATCTAAAACTAA
29817320 AAATAAAAATAAAAATAAAAATAAAAATCTAAAACTAA
1 AAATAAAAATAAAAATAAAAATAAAAATCTAAAACTAA
29817358 AAATAAAAATAAAAATAAAAA
1 AAATAAAAATAAAAATAAAAA
29817379 ACATATAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 50 0.85
39 9 0.15
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (38 bp):
AAATAAAAATAAAAATAAAAATAAAAATCTAAAACTAA
Found at i:29817412 original size:9 final size:9
Alignment explanation
Indices: 29817398--29817457 Score: 68
Period size: 9 Copynumber: 6.7 Consensus size: 9
29817388 TTTATACAAA
29817398 TAATTCGGT
1 TAATTCGGT
*
29817407 TAATTCAGT
1 TAATTCGGT
*
29817416 TAATTCGAT
1 TAATTCGGT
* *
29817425 TAATTTGGG
1 TAATTCGGT
29817434 TAATTCAGG-
1 TAATTC-GGT
29817443 TAATTCGGT
1 TAATTCGGT
29817452 TAATTC
1 TAATTC
29817458 AATTAATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 2 0.05
9 38 0.90
10 2 0.05
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:29817421 original size:18 final size:18
Alignment explanation
Indices: 29817398--29817465 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
29817388 TTTATACAAA
* *
29817398 TAATTCGGTTAATTCAGT
1 TAATTCAGTTAATTCGGT
* *
29817416 TAATTC-GATTAATTTGGG
1 TAATTCAG-TTAATTCGGT
*
29817434 TAATTCAGGTAATTCGGT
1 TAATTCAGTTAATTCGGT
*
29817452 TAATTCAATTAATT
1 TAATTCAGTTAATT
29817466 TTATACTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 38 0.95
19 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (18 bp):
TAATTCAGTTAATTCGGT
Found at i:29817437 original size:27 final size:27
Alignment explanation
Indices: 29817398--29817457 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
29817388 TTTATACAAA
* *
29817398 TAATTCGGTTAATTCAGTTAATTCGAT
1 TAATTCGGGTAATTCAGGTAATTCGAT
* *
29817425 TAATTTGGGTAATTCAGGTAATTCGGT
1 TAATTCGGGTAATTCAGGTAATTCGAT
29817452 TAATTC
1 TAATTC
29817458 AATTAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (27 bp):
TAATTCGGGTAATTCAGGTAATTCGAT
Found at i:29817464 original size:27 final size:27
Alignment explanation
Indices: 29817406--29817465 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
29817396 AATAATTCGG
* ***
29817406 TTAATTCAGTTAATTCGATTAATTTGG
1 TTAATTCAGGTAATTCGATTAATTCAA
* *
29817433 GTAATTCAGGTAATTCGGTTAATTCAA
1 TTAATTCAGGTAATTCGATTAATTCAA
29817460 TTAATT
1 TTAATT
29817466 TTATACTTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (27 bp):
TTAATTCAGGTAATTCGATTAATTCAA
Found at i:29817862 original size:20 final size:19
Alignment explanation
Indices: 29817837--29817892 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
29817827 TCAAAATAAC
29817837 AATTTTTTATATTTTAAAT
1 AATTTTTTATATTTTAAAT
* *
29817856 AA-ATTTTATAACTTTTTAAT
1 AATTTTTTAT-A-TTTTAAAT
29817876 AATTTTTGTATTATTTT
1 AATTTTT-TA-TATTTT
29817893 CTATAACCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 6 0.21
19 3 0.10
20 9 0.31
21 7 0.24
22 3 0.10
23 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTTATATTTTAAAT
Found at i:29827155 original size:106 final size:107
Alignment explanation
Indices: 29826954--29827260 Score: 415
Period size: 106 Copynumber: 2.9 Consensus size: 107
29826944 AAATATGGTT
* * * *
29826954 TCAAATTTGTCAATGCATTAATAAAATAAGGGGAAGGTTTTCTAAAATTTTATATAAATATAAGT
1 TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAATTTTATATAAATATAAGT
* *
29827019 ATCTTAAATACGATAATCTTGTGATAAAATAAAA-TTCAAATG
66 ATCTTAAATACGATAATCTTGTTACAAAATAAAACTT-AAATG
* *
29827061 TCAAATTAATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAA-TTTATACAAATATAAGT
1 TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAATTTTATATAAATATAAGT
*
29827125 ATCTTAAATACGATGATCTTGTTACAAAATAAAACTTAAATG
66 ATCTTAAATACGATAATCTTGTTACAAAATAAAACTTAAATG
* * * * * *
29827167 TAAAATTTATCGATATATAAATAAAATAAAGGG-AA-TTTTTTAAAAATTTTATATAAATATAAA
1 TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCT-AAAATTTTATATAAATATAAG
* *
29827230 TATTTTAAATATGATAATCTTGTTACAAAAT
65 TATCTTAAATACGATAATCTTGTTACAAAAT
29827261 GTCTGTGATG
Statistics
Matches: 177, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
104 5 0.03
105 6 0.03
106 122 0.69
107 44 0.25
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (107 bp):
TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAATTTTATATAAATATAAGT
ATCTTAAATACGATAATCTTGTTACAAAATAAAACTTAAATG
Found at i:29845762 original size:39 final size:39
Alignment explanation
Indices: 29845708--29845786 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
29845698 TAAAAAAAGT
29845708 ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
1 ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
*
29845747 ATGAAATTTCTGGTAGCAGTGATACAAAATAAGATCTTA
1 ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
29845786 A
1 A
29845787 ACTATAAGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (39 bp):
ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
Found at i:29851439 original size:14 final size:14
Alignment explanation
Indices: 29851422--29851450 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29851412 TATTTAAAAG
29851422 TATTAAATATTTAT
1 TATTAAATATTTAT
29851436 TATTAAATATTTAT
1 TATTAAATATTTAT
29851450 T
1 T
29851451 TATTTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTAAATATTTAT
Found at i:29851570 original size:57 final size:57
Alignment explanation
Indices: 29851509--29851698 Score: 145
Period size: 60 Copynumber: 3.1 Consensus size: 57
29851499 TTAAAAAATT
29851509 TAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGA
1 TAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGA
* * * * *
29851566 TAAATATTAATATTATTTATTTA-TAT-ATATATTATA-AGAT-TTAAACATTTATTATGAAAAT
1 TAAATA--AACA-TATTTCTTTAGT-TCCT-TATT-TACAAATATT-AAC-CTTA-TA-G-AAAT
*
29851627 TAAAAAA
55 T----GA
29851634 TTTAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGA
1 --TAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGA
29851693 TAAATA
1 TAAATA
29851699 TTAATAGTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 42
0.65 0.08 0.27
Matches are distributed among these distances:
57 12 0.12
59 8 0.08
60 20 0.20
61 5 0.05
62 2 0.02
63 6 0.06
64 6 0.06
65 2 0.02
66 5 0.05
67 20 0.20
68 8 0.08
70 6 0.06
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (57 bp):
TAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGA
Found at i:29851620 original size:127 final size:133
Alignment explanation
Indices: 29851436--29851704 Score: 487
Period size: 127 Copynumber: 2.1 Consensus size: 133
29851426 AAATATTTAT
29851436 TATTAAATATTTATTTATTTATAATACTATATTACTAAAGATTTAAAACATTTATTATGAAAATT
1 TATT-AATATTTATTTATTTATAATACTATATTACTAAAGATTTAAAACATTTATTATGAAAATT
29851501 AAAAAATTTAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGA
65 AAAAAATTTAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGA
29851566 TAAA
130 TAAA
29851570 TATTAATA-TTATTTATTTAT-ATA-TATATTA-T-AAGATTT-AAACATTTATTATGAAAATTA
1 TATTAATATTTATTTATTTATAATACTATATTACTAAAGATTTAAAACATTTATTATGAAAATTA
29851629 AAAAATTTAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGAT
66 AAAAATTTAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGAT
29851694 AAA
131 AAA
29851697 TATTAATA
1 TATTAATA
29851705 GTGTATCGTA
Statistics
Matches: 135, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
127 97 0.72
128 7 0.05
129 1 0.01
130 7 0.05
131 3 0.02
132 12 0.09
133 4 0.03
134 4 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (133 bp):
TATTAATATTTATTTATTTATAATACTATATTACTAAAGATTTAAAACATTTATTATGAAAATTA
AAAAATTTAAATAAACATATTTCTTTAGTTCCTTATTTACAAATATTAACCTTATAGAAATTGAT
AAA
Found at i:29854332 original size:46 final size:43
Alignment explanation
Indices: 29854282--29854385 Score: 115
Period size: 46 Copynumber: 2.4 Consensus size: 43
29854272 AATCCCATAT
* *
29854282 ATGGTCTTACA-TGTAATATATCATATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACCG-AAAATATCAT-T-CGATGCCAATGTCCCA-AC
* *
29854328 ATGGTCTTACACCGAAAATCTCATTCGATGCCAATGTCCCAAT
1 ATGGTCTTACACCGAAAATATCATTCGATGCCAATGTCCCAAC
29854371 ATGGT-TTACA-CGAAA
1 ATGGTCTTACACCGAAA
29854386 TCATACCTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
41 5 0.09
42 5 0.09
43 6 0.11
44 16 0.30
45 1 0.02
46 19 0.36
47 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACCGAAAATATCATTCGATGCCAATGTCCCAAC
Found at i:29861671 original size:22 final size:22
Alignment explanation
Indices: 29861643--29861684 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
29861633 CTTCGCATAG
29861643 GTGTTTGTTTTAAGAAGTAAGA
1 GTGTTTGTTTTAAGAAGTAAGA
29861665 GTGTTTGTTTTAAGAAGTAA
1 GTGTTTGTTTTAAGAAGTAA
29861685 AAATAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (22 bp):
GTGTTTGTTTTAAGAAGTAAGA
Found at i:29865227 original size:30 final size:28
Alignment explanation
Indices: 29865171--29865227 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
29865161 TAATTTTTAA
*
29865171 TAAAAAATTAAATTAGAAAATTAAAATG
1 TAAAAAATTAAATTAGAAAATGAAAATG
* *
29865199 TAAAAAATATAGATATAGAATATGAAAAT
1 TAAAAAAT-TAAAT-TAGAAAATGAAAAT
29865228 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 4 0.17
30 12 0.50
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (28 bp):
TAAAAAATTAAATTAGAAAATGAAAATG
Found at i:29865286 original size:19 final size:20
Alignment explanation
Indices: 29865258--29865311 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
29865248 TAAGAAAAAT
*
29865258 GTAAAGAAATATAAAAT-TC
1 GTAAAAAAATATAAAATATC
*
29865277 GTAAAAAAATTATAAATTATC
1 GTAAAAAAA-TATAAAATATC
29865298 GTACCAAAAAATAT
1 GTA--AAAAAATAT
29865312 TTTAATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 8 0.28
20 7 0.24
21 5 0.17
22 3 0.10
23 6 0.21
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (20 bp):
GTAAAAAAATATAAAATATC
Found at i:29865506 original size:19 final size:19
Alignment explanation
Indices: 29865469--29865516 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
29865459 ATACATTTTA
* **
29865469 TAATTTTTTTATTCTAATT
1 TAATATTTTTATTAAAATT
29865488 TAATATTTTTATTAAAATT
1 TAATATTTTTATTAAAATT
*
29865507 TAAAATTTTT
1 TAATATTTTT
29865517 TTTTTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATATTTTTATTAAAATT
Found at i:29870194 original size:45 final size:45
Alignment explanation
Indices: 29870124--29870224 Score: 168
Period size: 45 Copynumber: 2.2 Consensus size: 45
29870114 GTAACGGTAG
29870124 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCTGTAA
* *
29870169 TAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCTGTAA
29870214 CAGTAACAGTA
1 CAGTAACAGTA
29870225 GTTGGCATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCTGTAA
Found at i:29892655 original size:21 final size:21
Alignment explanation
Indices: 29892629--29892671 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
29892619 TTCAATTCTC
29892629 CTGTTTAATTGGGAACAACTA
1 CTGTTTAATTGGGAACAACTA
29892650 CTGTTTAATTGGGAACAACTA
1 CTGTTTAATTGGGAACAACTA
29892671 C
1 C
29892672 GTTAACAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (21 bp):
CTGTTTAATTGGGAACAACTA
Found at i:29894802 original size:19 final size:19
Alignment explanation
Indices: 29894763--29894802 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
29894753 TATTGAATTC
*
29894763 AAATATAAAATATACATAT
1 AAATATAAAATATACAAAT
29894782 AAATATAAAATGA-ACAAAT
1 AAATATAAAAT-ATACAAAT
29894801 AA
1 AA
29894803 GAGCAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATATAAAATATACAAAT
Found at i:29898312 original size:22 final size:21
Alignment explanation
Indices: 29898287--29898347 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
29898277 AATAGTAGTG
29898287 AACATATATATATATATATAAA
1 AACATATA-ATATATATATAAA
*
29898309 AACATATAATACTAGAT-TAAA
1 AACATATAATA-TATATATAAA
*
29898330 AATATATACA-ATATATAT
1 AACATATA-ATATATATAT
29898348 TGAAAAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 4 0.12
21 16 0.48
22 13 0.39
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
AACATATAATATATATATAAA
Found at i:29898429 original size:47 final size:46
Alignment explanation
Indices: 29898377--29898478 Score: 111
Period size: 47 Copynumber: 2.2 Consensus size: 46
29898367 AAAAAAACTA
*
29898377 ATAATA-ACGATATATAAA-TATATACATA-TATGTATTAAAATATGTAC
1 ATAATATACGA-ATAAAAAGTATATACATAGTAT-TA--AAAATATGTAC
* *
29898424 GTAATAATAGGAATAAAAAGTATATACATAGTATTAAAAATATGTAC
1 ATAAT-ATACGAATAAAAAGTATATACATAGTATTAAAAATATGTAC
29898471 ATAATATA
1 ATAATATA
29898479 GTGTTCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
46 3 0.06
47 19 0.40
48 7 0.15
49 15 0.32
50 3 0.06
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (46 bp):
ATAATATACGAATAAAAAGTATATACATAGTATTAAAAATATGTAC
Found at i:29898454 original size:21 final size:20
Alignment explanation
Indices: 29898430--29898473 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
29898420 GTACGTAATA
29898430 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
29898451 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
29898471 ATA
1 ATA
29898474 ATATAGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:29898479 original size:25 final size:25
Alignment explanation
Indices: 29898392--29898604 Score: 135
Period size: 25 Copynumber: 8.7 Consensus size: 25
29898382 AACGATATAT
29898392 AAATATATACAT-ATAT-GTATT-A
1 AAATATATACATAATATAGTATTAA
* * * *
29898414 AAATATGTACGTAATAATAGGAATAA
1 AAATATATACATAAT-ATAGTATTAA
29898440 AAAGTATATAC-----ATAGTATTAA
1 AAA-TATATACATAATATAGTATTAA
* * *
29898461 AAATATGTACATAATATAGTGTTCA
1 AAATATATACATAATATAGTATTAA
*
29898486 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG-TATT-AA
* * **
29898513 AAATATATACATGAGATAACA-TAA
1 AAATATATACATAATATAGTATTAA
*
29898537 AAAGTATATGA-ATAGTAT-GATATTAA
1 AAA-TATAT-ACATAATATAG-TATTAA
*
29898563 AAATATATACATAATATA-TATAAA
1 AAATATATACATAATATAGTATTAA
* *
29898587 AAACATATACATTATATA
1 AAATATATACATAATATA
29898605 TATATTAGAA
Statistics
Matches: 145, Mismatches: 28, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
20 6 0.04
21 11 0.08
22 10 0.07
23 2 0.01
24 29 0.20
25 50 0.34
26 15 0.10
27 22 0.15
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (25 bp):
AAATATATACATAATATAGTATTAA
Found at i:29898501 original size:72 final size:69
Alignment explanation
Indices: 29898392--29898598 Score: 163
Period size: 77 Copynumber: 2.9 Consensus size: 69
29898382 AACGATATAT
** * *
29898392 AAATATATACATATATGTATTAAAATATGTACGTAATAATAG-GAATAAAAAGTATATACATAGT
1 AAATATATACATATATGTATTAAAATACATACATAAT-ATAGTGAATAAAAAATATATACATAGT
29898456 ATTAA
65 ATTAA
* * * *
29898461 AAATATGTACATAATATAGTGTTCAAAATACATACATAATATAGTTATTAAAAAATATATACATG
1 AAATATATACAT-ATAT-GTATT-AAAATACATACATAATATAGTGAATAAAAAATATATACAT-
*
29898526 AGATAACATAA
62 AG-T-A-TTAA
* *
29898537 AAAGTATATGA-ATAGTATGATATTAAAAATATATACATAATATA-T--ATAAAAAACATATACA
1 AAA-TATAT-ACATA-TATG-TATT-AAAATACATACATAATATAGTGAATAAAAAATATATACA
29898598 T
61 T
29898599 TATATATATA
Statistics
Matches: 111, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
69 11 0.10
70 4 0.04
71 8 0.07
72 29 0.26
73 2 0.02
74 16 0.14
75 1 0.01
76 9 0.08
77 30 0.27
78 1 0.01
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (69 bp):
AAATATATACATATATGTATTAAAATACATACATAATATAGTGAATAAAAAATATATACATAGTA
TTAA
Found at i:29898610 original size:50 final size:50
Alignment explanation
Indices: 29898446--29898616 Score: 127
Period size: 52 Copynumber: 3.4 Consensus size: 50
29898436 ATAAAAAGTA
* * * ** *
29898446 TATACATAGTATTAAAAATATGTACATAATATAGTGTTCAAAATACATACAT
1 TATATATA-TATTAAAAATATATACATAATATA-TATAAAAAATATATACAT
* * *
29898498 AATATAGT-TATTAAAAAATATATACATGAGATA-ACATAAAAAGTATATGA-A-
1 TATATA-TATATT-AAAAATATATACAT-A-ATATATATAAAAAATATAT-ACAT
* *
29898549 TAGTAT-GATATTAAAAATATATACATAATATATATAAAAAACATATACAT
1 TA-TATATATATTAAAAATATATACATAATATATATAAAAAATATATACAT
*
29898599 TATATATATATTAGAAAT
1 TATATATATATTAAAAAT
29898617 GATAATAATA
Statistics
Matches: 92, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
48 4 0.04
49 17 0.18
50 26 0.28
51 9 0.10
52 29 0.32
53 4 0.04
54 3 0.03
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (50 bp):
TATATATATATTAAAAATATATACATAATATATATAAAAAATATATACAT
Found at i:29898788 original size:3 final size:3
Alignment explanation
Indices: 29898717--29898772 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
29898707 ATACTAGTAC
* *
29898717 TAA TAA TAT TAA TAA TAA -ATA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
29898762 TAA TAA TAA TA
1 TAA TAA TAA TA
29898773 TATGCATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 45 0.96
4 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:29899031 original size:11 final size:11
Alignment explanation
Indices: 29899017--29899056 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
29899007 GAATAATATG
29899017 ATATAAAAAAT
1 ATATAAAAAAT
*
29899028 ATAT--ATAAT
1 ATATAAAAAAT
29899037 ATATAAAAAAT
1 ATATAAAAAAT
29899048 AT-TAAAAAA
1 ATATAAAAAA
29899057 ATAATATACG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:29899281 original size:22 final size:20
Alignment explanation
Indices: 29899229--29899282 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
29899219 AATGAAATGC
29899229 TAATAAAT-A-AAAATATAA
1 TAATAAATAATAAAATATAA
29899247 TAATAACAGTAATAAAATATAA
1 TAATAA-A-TAATAAAATATAA
29899269 TAGTATAAATAATA
1 TA--ATAAATAATA
29899283 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.20
19 1 0.03
20 1 0.03
21 1 0.03
22 16 0.53
23 1 0.03
24 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
TAATAAATAATAAAATATAA
Found at i:29899862 original size:10 final size:11
Alignment explanation
Indices: 29899846--29899883 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
29899836 AAAGGTAAAA
29899846 ATTTTCTTTTT
1 ATTTTCTTTTT
29899857 -TTTTCTTTTT
1 ATTTTCTTTTT
*
29899867 ATTTTTTTTATT
1 ATTTTCTTT-TT
29899879 ATTTT
1 ATTTT
29899884 TTCTAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 10 0.42
11 7 0.29
12 7 0.29
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (11 bp):
ATTTTCTTTTT
Found at i:29899880 original size:12 final size:13
Alignment explanation
Indices: 29899855--29899887 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
29899845 AATTTTCTTT
*
29899855 TTTTTTCTTTTTA
1 TTTTTTCTTATTA
29899868 TTTTTT-TTATTA
1 TTTTTTCTTATTA
29899880 TTTTTTCT
1 TTTTTTCT
29899888 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTCTTATTA
Found at i:29902489 original size:51 final size:50
Alignment explanation
Indices: 29902330--29902486 Score: 251
Period size: 51 Copynumber: 3.1 Consensus size: 50
29902320 ACTTCTGATC
* *
29902330 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
29902381 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
29902431 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
29902482 AGTGA
1 AGTGA
29902487 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
50 46 0.47
51 52 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:29905954 original size:26 final size:25
Alignment explanation
Indices: 29905914--29906023 Score: 132
Period size: 26 Copynumber: 4.2 Consensus size: 25
29905904 TGATACAAAT
*
29905914 TGATAATAGGTTAGGTAAATATTCAA
1 TGATAATGGGTTAGGTAAATATTC-A
*
29905940 TGATAATAGGG-TAGGTAAATGTTCCA
1 TGATAAT-GGGTTAGGTAAATATT-CA
*
29905966 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAAT-ATTCA
*
29905992 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAAT-ATTCA
29906018 TGATAA
1 TGATAA
29906024 GAATTTCATG
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.04
26 69 0.90
27 5 0.06
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATATTCA
Found at i:29905978 original size:52 final size:52
Alignment explanation
Indices: 29905914--29906023 Score: 161
Period size: 52 Copynumber: 2.1 Consensus size: 52
29905904 TGATACAAAT
29905914 TGATAATAGGTTAGGTAAAT-ATTCAATGATAATAGGG-TAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGATTC-ATGATAAT-GGGTTAGGTAAATGTTCCA
* * *
29905966 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGATTCATGATAATGGGTTAGGTAAATGTTCCA
29906018 TGATAA
1 TGATAA
29906024 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
51 3 0.06
52 47 0.89
53 3 0.06
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGATTCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:29907675 original size:27 final size:27
Alignment explanation
Indices: 29907634--29907773 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
29907624 GAGGAAGCGT
* *
29907634 TCTGGTGGCTATGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCACAAATATCTGA
29907661 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
29907688 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
29907715 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
29907743 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
29907769 TCTGG
1 TCTGG
29907774 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.05
27 80 0.81
28 14 0.14
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:29907719 original size:54 final size:55
Alignment explanation
Indices: 29907634--29907773 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
29907624 GAGGAAGCGT
* * ** *
29907634 TCTGGTGGCTATGCCACAAATATCTAATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
29907688 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
29907743 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
29907774 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 58 0.76
55 18 0.24
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
Found at i:29912331 original size:51 final size:50
Alignment explanation
Indices: 29912172--29912328 Score: 251
Period size: 51 Copynumber: 3.1 Consensus size: 50
29912162 ACTTCTGATC
* *
29912172 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
29912223 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
29912273 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
29912324 AGTGA
1 AGTGA
29912329 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
50 46 0.47
51 52 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:29915837 original size:17 final size:17
Alignment explanation
Indices: 29915812--29915850 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
29915802 TATTCAAATG
*
29915812 TATAAATTTTTTTATAA
1 TATAAATTTTATTATAA
* *
29915829 TATACATTTTATTATAT
1 TATAAATTTTATTATAA
29915846 TATAA
1 TATAA
29915851 TTAATAATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAAATTTTATTATAA
Found at i:29916424 original size:18 final size:18
Alignment explanation
Indices: 29916384--29916426 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
29916374 GTTCAAGGTA
29916384 TAATTAATCTAAAATTTT
1 TAATTAATCTAAAATTTT
* *
29916402 CAATTAAT-TAAATTTATT
1 TAATTAATCTAAAATT-TT
29916420 TAATTAA
1 TAATTAA
29916427 AAATCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTAATCTAAAATTTT
Found at i:29916971 original size:6 final size:7
Alignment explanation
Indices: 29916953--29916980 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
29916943 AAAGGGTCAT
29916953 ATTTTTA
1 ATTTTTA
29916960 ATTTTTA
1 ATTTTTA
29916967 ATTTTTA
1 ATTTTTA
29916974 ATTTTTA
1 ATTTTTA
29916981 CAGTTTCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:29921345 original size:3 final size:3
Alignment explanation
Indices: 29921339--29921497 Score: 105
Period size: 3 Copynumber: 53.7 Consensus size: 3
29921329 AAAAAGAAAT
* * *
29921339 ATA ATA ATA ATA GTA ATA ATA TTA A-A TTA ATTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * * *
29921383 ATA AGTA A-A CAAA CACA AAA AGA A-A AT- ATA ATT ATA ATA GTA ATA
1 ATA A-TA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
29921428 ATA ATA AAA ATA ATA GCA ATA ATA ATA GTG ATA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
29921475 ATA ATA ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
29921498 GTTAAATTAA
Statistics
Matches: 122, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
2 10 0.08
3 102 0.84
4 10 0.08
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:29923254 original size:44 final size:45
Alignment explanation
Indices: 29923150--29923273 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 45
29923140 AGTTTTAATT
* * * * * * *
29923150 TGTTCCATTGCAACGTCAGGGAAATAAGATTCGCTGTCTTCAGTC
1 TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCTGGCATCAATC
* *
29923195 TGCTCCACTGCAACTTCAGGGAGATAAGACT-GGTGGCATCAATC
1 TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCTGGCATCAATC
* * *
29923239 TGTTCCACTGCAACTTCAAGAAGATAAGATTCGCT
1 TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCT
29923274 ATAATTTGTA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 36 0.56
45 28 0.44
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (45 bp):
TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCTGGCATCAATC
Found at i:29923565 original size:144 final size:144
Alignment explanation
Indices: 29922993--29923699 Score: 891
Period size: 143 Copynumber: 4.9 Consensus size: 144
29922983 GATTTGTAAC
* * * * * * * * * * *
29922993 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCCTCTATCTTCAGTTTGCTCT
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * *
29923058 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATATGCTCCATTGCAACTTCAAGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
*
29923123 AGATTCGTC-AT-AT
131 AGA-TCCTCTATAAT
* * * * *
29923136 TTGTAGTTTTAATTTGTTCCATTGCAACGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * *
29923201 -ACTGCAACTTCAGGGAGATAAGACTGGTGGCATCAATCTGTTCCACTGCAACTTCAAGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
* *
29923265 AGATTCGCTATAAT
131 AGATCCTCTATAAT
* *
29923279 TTGTAGCTTTAATCTGTTCCACTATAACGTCAGCAAAATAAGATTCGCTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * ** * * ** * *
29923344 -GCAGCAACTTCAGATAGATAAGGCTGGTGGCTTTAATCTGCTCTACTGTGACTTTAGGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
*
29923408 AGATCCTCCATAAT
131 AGATCCTCTATAAT
* * * * * *
29923422 TTGTAGTTTTAATCTGTTCTACTACGACGTCAGGGAAATAAGATTCGTTGTCTTCAGTCTACTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
*
29923487 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCGAGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
*
29923552 ATATCCTCTATAAT
131 AGATCCTCTATAAT
* *
29923566 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCTAAATAAGATTCGCTGTCTTCAGTTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * ** * *
29923631 TACTGCAACTTCAGGGAGATAAGGTTGATGGCTTCAATCTATTCCACTGCAACTTTAGGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
29923696 AGAT
131 AGAT
29923700 TCGCCATTTT
Statistics
Matches: 480, Mismatches: 81, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
141 2 0.00
142 63 0.13
143 232 0.48
144 183 0.38
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (144 bp):
TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
AGATCCTCTATAAT
Found at i:29923569 original size:287 final size:285
Alignment explanation
Indices: 29922993--29923699 Score: 948
Period size: 287 Copynumber: 2.5 Consensus size: 285
29922983 GATTTGTAAC
* * * * ** * * * * * *
29922993 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCCTCTATCTTCAGTTTGCTCT
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCAAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * *
29923058 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATATGCTCCATTGCAACTTCAAGAAGATA
66 TACAGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATA
* * * *
29923123 AGATTCGTCATATTTGTAGTTTTAATTTGTTCCATTGCAACGTCAGGGAAATAAGATTCGCTGTC
131 AGA-TCCTCATATTTGTAGTTTTAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCGCTGTC
* *
29923188 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCATCAATCTGTTCCACTGCAAC
195 TTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCATCAATCTGCTCCACTGCAAC
*
29923253 TTCAAGAAGATAAGATTCGCTATAAT
260 TTCAAGAAGATAAGATCCGCTATAAT
*
29923279 TTGTAGCTTTAATCTGTTCCACTATAACGTCAGCAAAATAAGATTCGCTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCAAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* ** * **
29923344 -GCAGCAACTTCAGATAGATAAGGCTGGTGGCTTTAATCTGCTCTACTGTGACTTTAGGAAGATA
66 TACAGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATA
* * *
29923408 AGATCCTCCATAATTTGTAGTTTTAATCTGTTCTACTACGACGTCAGGGAAATAAGATTCGTTGT
131 AGATCCT-CAT-ATTTGTAGTTTTAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCGCTGT
* *
29923473 CTTCAGTCTACTCCTACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCA
194 CTTCAGTCTACTCC-ACTGCAACTTCAGGGAGATAAGACTGGTGGCATCAATCTGCTCCACTGCA
* * *
29923538 ACTTCGAGAAGATAATATCCTCTATAAT
258 ACTTCAAGAAGATAAGATCCGCTATAAT
* *
29923566 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCTAAATAAGATTCGCTGTCTTCAGTTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCAAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * **
29923631 TACTGCAACTTCAGGGAGATAAGGTTGATGGCTTCAATCTATTCCACTGCAACTTTAGGAAGATA
66 TACAGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATA
29923696 AGAT
131 AGAT
29923700 TCGCCATTTT
Statistics
Matches: 363, Mismatches: 54, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
284 3 0.01
285 59 0.16
286 112 0.31
287 133 0.37
288 56 0.15
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (285 bp):
TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCAAAATAAGATTCGCTGTCTTCAGTCTGCTCC
TACAGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATA
AGATCCTCATATTTGTAGTTTTAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCGCTGTCT
TCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCATCAATCTGCTCCACTGCAACT
TCAAGAAGATAAGATCCGCTATAAT
Done.