Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 33 of 91
Found at i:11502838 original size:19 final size:19
Alignment explanation
Indices: 11502814--11502869 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
11502804 AAAACCAAGC
11502814 TTTTTTTCTTCCTTTCTCT
1 TTTTTTTCTTCCTTTCTCT
11502833 TTTTTTT-TCTCCTTTCTTTCT
1 TTTTTTTCT-TCCTTTC--TCT
*
11502854 TTCTTTTC-TCCTTTCT
1 TTTTTTTCTTCCTTTCT
11502870 TTCTTTCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 2 0.06
19 14 0.44
20 7 0.22
21 9 0.28
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTTTCTTCCTTTCTCT
Found at i:11502839 original size:20 final size:19
Alignment explanation
Indices: 11502813--11502890 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 19
11502803 CAAAACCAAG
11502813 CTTTTTTTCTTCCTTTCTCTT
1 CTTTTTTTC-TCCTTTCT-TT
11502834 -TTTTTTTCTCCTTTCTTT
1 CTTTTTTTCTCCTTTCTTT
11502852 CTTTCTTTTCTCCTTTCTTT
1 CTTT-TTTTCTCCTTTCTTT
*
11502872 CTTTCCTTTCTCCTTTCTT
1 CTTT-TTTTCTCCTTTCTT
11502891 CCCACTGATC
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
18 2 0.04
19 11 0.20
20 41 0.76
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
CTTTTTTTCTCCTTTCTTT
Found at i:11502841 original size:12 final size:15
Alignment explanation
Indices: 11502818--11502890 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 15
11502808 CCAAGCTTTT
*
11502818 TTTCTTCCTTTCT-C
1 TTTCTTTCTTTCTCC
11502832 TTT-TTT-TTTCTCC
1 TTTCTTTCTTTCTCC
11502845 TTTCTTTCTTTCT--
1 TTTCTTTCTTTCTCC
*
11502858 TTTC--TCCTT-T-C
1 TTTCTTTCTTTCTCC
11502869 TTTCTTTCCTTTCTCC
1 TTTCTTT-CTTTCTCC
11502885 TTTCTT
1 TTTCTT
11502891 CCCACTGATC
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
10 1 0.02
11 8 0.17
12 5 0.11
13 11 0.23
14 9 0.19
15 6 0.13
16 7 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTTTCTTTCTCC
Found at i:11504203 original size:19 final size:19
Alignment explanation
Indices: 11504163--11504204 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11504153 TGAATTTTAA
** *
11504163 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAAAT
11504182 AATAAAATAATATTAAAAT
1 AATAAAATAATATTAAAAT
11504201 AATA
1 AATA
11504205 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAATAATATTAAAAT
Found at i:11507956 original size:17 final size:17
Alignment explanation
Indices: 11507934--11507968 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11507924 CCACCTATGA
11507934 CTAGTGAAAATATGTTT
1 CTAGTGAAAATATGTTT
11507951 CTAGTGAAAATATGTTT
1 CTAGTGAAAATATGTTT
11507968 C
1 C
11507969 AAGATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (17 bp):
CTAGTGAAAATATGTTT
Found at i:11520920 original size:34 final size:33
Alignment explanation
Indices: 11520854--11520916 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
11520844 CAAGGAGAAA
* *
11520854 AGAAAGAAGAAAGGAAAGAGAATGAGCGAATAG
1 AGAAAGAAGAAAGGAAAGAGAAAGAGAGAATAG
*
11520887 AGAAAGAAAGAAAGGAAGGA-AAAGAGAGAA
1 AGAAAG-AAGAAAGGAAAGAGAAAGAGAGAA
11520917 ATAGCTGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.62, C:0.02, G:0.33, T:0.03
Consensus pattern (33 bp):
AGAAAGAAGAAAGGAAAGAGAAAGAGAGAATAG
Found at i:11522515 original size:28 final size:29
Alignment explanation
Indices: 11522474--11522533 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
11522464 GTCTATGGGC
*
11522474 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
11522502 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
11522532 AA
1 AA
11522534 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:11529270 original size:21 final size:19
Alignment explanation
Indices: 11529233--11529271 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11529223 TAATCAATTT
*
11529233 CTAAAATCACTAAACCATC
1 CTAAAATAACTAAACCATC
11529252 CTAAACATAACTAGAACCAT
1 CTAAA-ATAACTA-AACCAT
11529272 AATTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.21
Consensus pattern (19 bp):
CTAAAATAACTAAACCATC
Found at i:11533114 original size:14 final size:15
Alignment explanation
Indices: 11533095--11533133 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11533085 AAGATTTTCA
*
11533095 TTTTCTTTTCATT-G
1 TTTTCTTTTCATTCC
*
11533109 TTTTCTTTTCTTTCC
1 TTTTCTTTTCATTCC
11533124 TTTTCTTTTC
1 TTTTCTTTTC
11533134 TTACTCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTCATTCC
Found at i:11533117 original size:5 final size:5
Alignment explanation
Indices: 11533089--11533135 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
11533079 AAAATCAAGA
* * *
11533089 TTTTC ATTTTC TTTTC -ATTG TTTTC TTTTC TTTCC TTTTC TTTTC TT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
11533136 ACTCTTTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
4 2 0.06
5 27 0.79
6 5 0.15
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:11533143 original size:15 final size:15
Alignment explanation
Indices: 11533109--11533152 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11533099 CTTTTCATTG
*
11533109 TTTTCTTTTCTTTCC
1 TTTTCTTTTCTTACC
11533124 TTTTCTTTTCTTACTC
1 TTTTCTTTTCTTAC-C
* *
11533140 TTTCCTTCTCTTA
1 TTTTCTTTTCTTA
11533153 ACTTCTTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTCTTTTCTTACC
Found at i:11533930 original size:34 final size:34
Alignment explanation
Indices: 11533892--11534080 Score: 103
Period size: 34 Copynumber: 5.3 Consensus size: 34
11533882 GTGGTGTGGA
*
11533892 AGTGCACACGACAGTGATAGTGGTGTGCTGTGTG
1 AGTGCACACGACAGTGATAATGGTGTGCTGTGTG
* ** * *
11533926 AGTGCACGC-ATTGATGATATATGCCTTGTGCGGTGTGGG
1 AGTGCACACGACAG-TGATA-ATG--GTGTGC--TGTGTG
* * * *
11533965 AGCGCACATGACGGTGATAATGGTGTGTTGTGTG
1 AGTGCACACGACAGTGATAATGGTGTGCTGTGTG
* * *
11533999 AGTGCACAC-ACTAATGATATATGCCATGTGCAGTGTAGG
1 AGTGCACACGAC-AGTGATA-ATG--GTGTGCTGTGT--G
* * * *
11534038 ACTGCACATGACAGTGATAGTGGGGTGCTGTGTG
1 AGTGCACACGACAGTGATAATGGTGTGCTGTGTG
11534072 AGTGCACAC
1 AGTGCACAC
11534081 AGTGATGATA
Statistics
Matches: 111, Mismatches: 30, Indels: 28
0.66 0.18 0.17
Matches are distributed among these distances:
33 4 0.04
34 38 0.34
35 5 0.05
36 12 0.11
37 13 0.12
38 5 0.05
39 30 0.27
40 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (34 bp):
AGTGCACACGACAGTGATAATGGTGTGCTGTGTG
Found at i:11534003 original size:73 final size:73
Alignment explanation
Indices: 11533879--11534119 Score: 304
Period size: 73 Copynumber: 3.3 Consensus size: 73
11533869 TGACCGTGCG
* * * * * *
11533879 TGTGTGGTGTGGAAGTGCACACGACAGTGATAGTGGTGTGCTGTGTGAGTGCACGCATTGATGAT
1 TGTGCGGTGTGGGAGCGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
11533944 ATATGCCT
66 ATATGCCT
* * * *
11533952 TGTGCGGTGTGGGAGCGCACATGACGGTGATAATGGTGTGTTGTGTGAGTGCACACACTAATGAT
1 TGTGCGGTGTGGGAGCGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
*
11534017 ATATGCCA
66 ATATGCCT
* * * *
11534025 TGTGCAGTGTAGGA-CTGCACATGACAGTGATAGTGGGGTGCTGTGTGAGTGCACACAGTGATGA
1 TGTGCGGTGTGGGAGC-GCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGA
11534089 TATATTGCCT
65 TATA-TGCCT
* *
11534099 TGTGCGATGTGGGAGTGCACA
1 TGTGCGGTGTGGGAGCGCACA
11534120 GGATGATTCT
Statistics
Matches: 141, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
72 1 0.01
73 120 0.85
74 20 0.14
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (73 bp):
TGTGCGGTGTGGGAGCGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
ATATGCCT
Found at i:11541429 original size:39 final size:39
Alignment explanation
Indices: 11541378--11541471 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
11541368 GGTGCGCGTA
*
11541378 GTGTGCGGTGTGGGAGAGCACACGCCGATGATATATGCC
1 GTGTGCGGTGTGGGAGAGCACACGACGATGATATATGCC
* * *
11541417 GTGTGCGGTGTGGGAGAGCACATGATGATGATATATGCT
1 GTGTGCGGTGTGGGAGAGCACACGACGATGATATATGCC
* *
11541456 ATGTACGGTGTGGGAG
1 GTGTGCGGTGTGGGAG
11541472 TGAACATGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.24
Consensus pattern (39 bp):
GTGTGCGGTGTGGGAGAGCACACGACGATGATATATGCC
Found at i:11543898 original size:9 final size:9
Alignment explanation
Indices: 11543884--11543912 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11543874 TAATTGGTTT
11543884 AAAAAAATC
1 AAAAAAATC
11543893 AAAAAAAT-
1 AAAAAAATC
11543901 AAAAAAATC
1 AAAAAAATC
11543910 AAA
1 AAA
11543913 GCCCCAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:11545889 original size:28 final size:28
Alignment explanation
Indices: 11545849--11546022 Score: 145
Period size: 28 Copynumber: 6.0 Consensus size: 28
11545839 CTCCCACGTG
*
11545849 TAGATTAAGACAAATATGTTTCCTTGTC
1 TAGATTAAGACAAATATGTTTTCTTGTC
*
11545877 TAGATTAAAACAAAAAATAT-TTTATCTTGTC
1 TAGATTAAGAC---AAATATGTTT-TCTTGTC
* * *
11545908 TAAATTGAGACCAATATGTTTTCTTGTC
1 TAGATTAAGACAAATATGTTTTCTTGTC
*
11545936 TACATTAAGACAAAAAATAT-TTTTCTTGTC
1 TAGATTAAGAC---AAATATGTTTTCTTGTC
* * * *
11545966 TTAAATTAAGATAAACATATTTTCTTGTC
1 -TAGATTAAGACAAATATGTTTTCTTGTC
* *
11545995 TAAATTAAGATCAAACATGTTTTCTTGT
1 TAGATTAAGA-CAAATATGTTTTCTTGT
11546023 ATGTTTTCTT
Statistics
Matches: 121, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
28 46 0.38
29 28 0.23
30 13 0.11
31 34 0.28
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (28 bp):
TAGATTAAGACAAATATGTTTTCTTGTC
Found at i:11545906 original size:31 final size:30
Alignment explanation
Indices: 11545860--11546009 Score: 148
Period size: 31 Copynumber: 5.0 Consensus size: 30
11545850 AGATTAAGAC
* * *
11545860 AAATATGTTTCCTTGTCTAGATTAAAACAAA
1 AAATAT-TTTTCTTGTCTAAATTAAGACAAA
*
11545891 AAATATTTTATCTTGTCTAAATTGAGAC---
1 AAATATTTT-TCTTGTCTAAATTAAGACAAA
* *
11545919 CAATATGTTTTCTTGTCTACATTAAGACAAA
1 AAATAT-TTTTCTTGTCTAAATTAAGACAAA
*
11545950 AAATATTTTTCTTGTCTTAAATTAAGA-TAA
1 AAATATTTTTCTTGTC-TAAATTAAGACAAA
*
11545980 ACATA-TTTTCTTGTCTAAATTAAGATCAAA
1 AAATATTTTTCTTGTCTAAATTAAGA-CAAA
11546010 CATGTTTTCT
Statistics
Matches: 99, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
28 31 0.31
29 13 0.13
30 21 0.21
31 34 0.34
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.41
Consensus pattern (30 bp):
AAATATTTTTCTTGTCTAAATTAAGACAAA
Found at i:11545953 original size:59 final size:59
Alignment explanation
Indices: 11545852--11546009 Score: 210
Period size: 59 Copynumber: 2.7 Consensus size: 59
11545842 CCACGTGTAG
* * *
11545852 ATTAAGACAAATATGTTTCCTTGTCTAGATTAAAACAAAAAATATTTTATCTTGTC-TAA
1 ATTAAGACAAATATGTTTTCTTGTCTAAATTAAGACAAAAAATATTTT-TCTTGTCTTAA
* * *
11545911 ATTGAGACCAATATGTTTTCTTGTCTACATTAAGACAAAAAATATTTTTCTTGTCTTAA
1 ATTAAGACAAATATGTTTTCTTGTCTAAATTAAGACAAAAAATATTTTTCTTGTCTTAA
* * *
11545970 ATTAAGATAAACATATTTTCTTGTCTAAATTAAGATCAAA
1 ATTAAGACAAATATGTTTTCTTGTCTAAATTAAGA-CAAA
11546010 CATGTTTTCT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
58 7 0.08
59 75 0.87
60 4 0.05
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (59 bp):
ATTAAGACAAATATGTTTTCTTGTCTAAATTAAGACAAAAAATATTTTTCTTGTCTTAA
Found at i:11546010 original size:29 final size:28
Alignment explanation
Indices: 11545852--11546022 Score: 153
Period size: 29 Copynumber: 5.9 Consensus size: 28
11545842 CCACGTGTAG
* * * *
11545852 ATTAAGACAAATATGTTTCCTTGTCTAG
1 ATTAAGACAAAAATATTTTCTTGTCTAA
*
11545880 ATTAAAACAAAAAATATTTTATCTTGTCTAA
1 ATTAAGAC-AAAAATA-TTT-TCTTGTCTAA
* * * * *
11545911 ATTGAGACCAATATGTTTTCTTGTCTAC
1 ATTAAGACAAAAATATTTTCTTGTCTAA
11545939 ATTAAGACAAAAAATATTTTTCTTGTCTTAA
1 ATTAAGAC-AAAAATA-TTTTCTTGTC-TAA
* *
11545970 ATTAAGATAAACATATTTTCTTGTCTAA
1 ATTAAGACAAAAATATTTTCTTGTCTAA
* *
11545998 ATTAAGATCAAACATGTTTTCTTGT
1 ATTAAGA-CAAAAATATTTTCTTGT
11546023 ATGTTTTCTT
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
28 33 0.28
29 37 0.32
30 23 0.20
31 23 0.20
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (28 bp):
ATTAAGACAAAAATATTTTCTTGTCTAA
Found at i:11547656 original size:19 final size:19
Alignment explanation
Indices: 11547632--11547669 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11547622 CCATTTGACT
11547632 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11547651 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11547670 GCTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:11549362 original size:22 final size:21
Alignment explanation
Indices: 11549320--11549370 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
11549310 ATATTATTGG
**
11549320 TAATTAAATTATTAATTTTAT
1 TAATTAAATTATTAAAATTAT
11549341 ATAATTAAA-TATATAAAATTAT
1 -TAATTAAATTAT-TAAAATTAT
11549363 TAAATTAA
1 T-AATTAA
11549371 TTAATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATTATTAAAATTAT
Found at i:11551177 original size:34 final size:34
Alignment explanation
Indices: 11551068--11551160 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
11551058 GTTCTCAAAT
* * *
11551068 TTCAGTGTGGTACTCTTATCCCCACAGT-GGACTTA
1 TTCA-TGTGGTATTCTTACCCCCACAATAGG-CTTA
*
11551103 TTCATGTGGTATTCTTACCCTCACAATAGGCTTA
1 TTCATGTGGTATTCTTACCCCCACAATAGGCTTA
*
11551137 TTCATGTGGTATTTTTACCCCCAC
1 TTCATGTGGTATTCTTACCCCCAC
11551161 GATGGGTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
34 45 0.88
35 6 0.12
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (34 bp):
TTCATGTGGTATTCTTACCCCCACAATAGGCTTA
Found at i:11557772 original size:118 final size:118
Alignment explanation
Indices: 11557564--11557797 Score: 459
Period size: 118 Copynumber: 2.0 Consensus size: 118
11557554 GGTATGATGA
11557564 CAGACCAAATGCACAAGAAGATATATAACTATAACCATTAGAGCAGCTAATATGTACTACCCATA
1 CAGACCAAATGCACAAGAAGATATATAACTATAACCATTAGAGCAGCTAATATGTACTACCCATA
11557629 TGATCCCTGCCTCAACACAATTTTTATACACCAACAATTTGGTTGAAAGAAAT
66 TGATCCCTGCCTCAACACAATTTTTATACACCAACAATTTGGTTGAAAGAAAT
11557682 CAGACCAAATGCACAAGAAGATATATAACTATAACCATTAGAGCAGCTAATATGTACTACCCATA
1 CAGACCAAATGCACAAGAAGATATATAACTATAACCATTAGAGCAGCTAATATGTACTACCCATA
*
11557747 TGATCCCTGCCTCAACACAATTTTTATACACCAACAATTTGGTTGTAAGAA
66 TGATCCCTGCCTCAACACAATTTTTATACACCAACAATTTGGTTGAAAGAA
11557798 TTTCTTTCTC
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 115 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (118 bp):
CAGACCAAATGCACAAGAAGATATATAACTATAACCATTAGAGCAGCTAATATGTACTACCCATA
TGATCCCTGCCTCAACACAATTTTTATACACCAACAATTTGGTTGAAAGAAAT
Found at i:11566453 original size:143 final size:143
Alignment explanation
Indices: 11566187--11566468 Score: 381
Period size: 143 Copynumber: 2.0 Consensus size: 143
11566177 ACTCAAATTC
* *
11566187 ATTACAACTTGCTTAAATGACCCTATAGTTCTTGAAAAAGTAAGAGGTACCCTTTTAAACAGAAA
1 ATTACAACTTGCTTAAATGACCCTATAGTTCTTGAAAAAGCAAGAGCTACCCTTTTAAACAGAAA
* * * * * *
11566252 ATATGTTGTATCCTAGCATTAAATATAATACAGATTGTCCCAATTCATTCATAATTCAGTTCCTT
66 ATATGTTGTATCCAAGCATTAAATAAAATACAGACTCTCCCAATTCACTCACAATTCAGTTCCTT
11566317 CAACAACTAGAAA
131 CAACAACTAGAAA
* * * *
11566330 ATTATAACTTGCTTAATTGACACCTCTAGTTGC-T-AAAAACGCAAGAGCTACCTTTTTAAACAG
1 ATTACAACTTGCTTAAATGAC-CCTATAGTT-CTTGAAAAA-GCAAGAGCTACCCTTTTAAACAG
* * *
11566393 AAAATATGTTGTAT-CAAGCATTAAATAAAATGCAGACTCTCCCAATTCACTCACAGTTCAGTTG
63 AAAATATGTTGTATCCAAGCATTAAATAAAATACAGACTCTCCCAATTCACTCACAATTCAGTTC
11566457 CTTCAACAACTA
128 CTTCAACAACTA
11566469 CCAAACTATG
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
143 77 0.64
144 43 0.36
145 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (143 bp):
ATTACAACTTGCTTAAATGACCCTATAGTTCTTGAAAAAGCAAGAGCTACCCTTTTAAACAGAAA
ATATGTTGTATCCAAGCATTAAATAAAATACAGACTCTCCCAATTCACTCACAATTCAGTTCCTT
CAACAACTAGAAA
Found at i:11575548 original size:16 final size:16
Alignment explanation
Indices: 11575524--11575554 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11575514 AAATTCAAAT
11575524 AAAAACCAACCAAGAC
1 AAAAACCAACCAAGAC
*
11575540 AAAAGCCAACCAAGA
1 AAAAACCAACCAAGA
11575555 TAACAAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.29, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAACCAACCAAGAC
Found at i:11577986 original size:28 final size:28
Alignment explanation
Indices: 11577919--11578139 Score: 208
Period size: 29 Copynumber: 7.4 Consensus size: 28
11577909 TTTAAACATA
11577919 TTTGTCTTAATTTAGACAAGAAAATATG
1 TTTGTCTTAATTTAGACAAGAAAATATG
* * *
11577947 TTATGTTTTAATTTAGACAAGAAATTACG
1 TT-TGTCTTAATTTAGACAAGAAAATATG
*
11577976 TTTGTCTTAATTTAGACAAGAAAGTATG
1 TTTGTCTTAATTTAGACAAGAAAATATG
*
11578004 TTTGATCTTAATTTAGATAAGAAAATATG
1 TTTG-TCTTAATTTAGACAAGAAAATATG
* * *
11578033 TTAGTCTTAATTTAAGATAAGAAAAATATTC
1 TTTGTCTTAATTT-AGACAAG-AAAATA-TG
* *
11578064 TTTGTCTTAATTTAAAACAAGACAAGAAAACATA
1 TTTGTCTTAATTT------AGACAAGAAAATATG
* * *
11578098 TTTATCTCAATTTAGACAAGATAAAATATT
1 TTTGTCTTAATTTAGACAAG--AAAATATG
11578128 TTTGTCTTAATT
1 TTTGTCTTAATT
11578140 AAAAATAAGA
Statistics
Matches: 161, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
28 45 0.28
29 57 0.35
30 22 0.14
31 13 0.08
34 12 0.07
35 5 0.03
36 7 0.04
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAATATG
Found at i:11578015 original size:57 final size:57
Alignment explanation
Indices: 11577919--11578077 Score: 196
Period size: 57 Copynumber: 2.8 Consensus size: 57
11577909 TTTAAACATA
* *
11577919 TTTGTCTTAATTTAGACAAGAAAATATGTTATGTTTTAATTTAGACAAGAAATTACG
1 TTTGTCTTAATTTAGACAAGAAAATATGTTATGTCTTAATTTAGACAAGAAAATACG
* * *
11577976 TTTGTCTTAATTTAGACAAGAAAGTATGTT-TGATCTTAATTTAGATAAGAAAATATG
1 TTTGTCTTAATTTAGACAAGAAAATATGTTATG-TCTTAATTTAGACAAGAAAATACG
* * *
11578033 TTAGTCTTAATTTAAGATAAGAAAAATAT-TCTTTGTCTTAATTTA
1 TTTGTCTTAATTT-AGACAAG-AAAATATGT-TATGTCTTAATTTA
11578078 AAACAAGACA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
56 2 0.02
57 61 0.69
58 7 0.08
59 17 0.19
60 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (57 bp):
TTTGTCTTAATTTAGACAAGAAAATATGTTATGTCTTAATTTAGACAAGAAAATACG
Found at i:11585230 original size:19 final size:20
Alignment explanation
Indices: 11585196--11585233 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11585186 TCTTCTCTTC
11585196 CATGCTCCTAACACCATTTT
1 CATGCTCCTAACACCATTTT
*
11585216 CATGCTCC-CACACCATTT
1 CATGCTCCTAACACCATTT
11585234 CACCTTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.39, G:0.05, T:0.32
Consensus pattern (20 bp):
CATGCTCCTAACACCATTTT
Found at i:11585349 original size:20 final size:20
Alignment explanation
Indices: 11585324--11585398 Score: 105
Period size: 20 Copynumber: 3.6 Consensus size: 20
11585314 GATCAGTTGA
11585324 AAGAAAGGAGAAAGAAAAGG
1 AAGAAAGGAGAAAGAAAAGG
* *
11585344 AAGAAAGGAGAAAGGAAAGA
1 AAGAAAGGAGAAAGAAAAGG
*
11585364 AAGAAAGGAGAAAGAAAAAG
1 AAGAAAGGAGAAAGAAAAGG
11585384 AGAGAAAGGAAGAAA
1 A-AGAAAGG-AGAAA
11585399 AAGCTTGGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 36 0.75
21 7 0.15
22 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AAGAAAGGAGAAAGAAAAGG
Found at i:11586718 original size:37 final size:38
Alignment explanation
Indices: 11586586--11586840 Score: 355
Period size: 38 Copynumber: 6.9 Consensus size: 38
11586576 GTGCGTGTGG
11586586 TGATATTGAAATGTGCGTGTAAGGAGTGCAC---ATGA
1 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
11586621 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
1 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
* *
11586659 TGATATTGAAATGTGCGTGTAGGGACTGCACATGATGA
1 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
* * *
11586697 TGATATTG-AATGTGCGCGTAGGGAGTACACATGATGA
1 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
* *
11586734 CGATATTGAAATGTGCGTGTAAGGAATGCACATGATGA
1 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
*
11586772 T-ATATTGAAATGTGCGTGTAGGGAGTGCAC---ATGA
1 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
***
11586806 TGATATTGCCTTGTGCGTGTAAGGAGTGCACATGA
1 TGATATTGAAATGTGCGTGTAAGGAGTGCACATGA
11586841 GCTGAGTAAG
Statistics
Matches: 195, Mismatches: 17, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
34 5 0.03
35 56 0.29
37 60 0.31
38 74 0.38
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.29
Consensus pattern (38 bp):
TGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGA
Found at i:11586745 original size:75 final size:76
Alignment explanation
Indices: 11586587--11586840 Score: 353
Period size: 75 Copynumber: 3.4 Consensus size: 76
11586577 TGCGTGTGGT
* *
11586587 GATATTGAAATGTGCGTGTAAGGAGTGCAC---ATGATGATATTGAAATGTGCGTGTAAGGAGTG
1 GATATTGAAATGTGCGTGTAAGGAATGCACATGATGATGATATTGAAATGTGCGTGTAGGGAGTG
*
11586649 CACATGATGAT
66 CACATGATGAC
* * * *
11586660 GATATTGAAATGTGCGTGTAGGGACTGCACATGATGATGATATTG-AATGTGCGCGTAGGGAGTA
1 GATATTGAAATGTGCGTGTAAGGAATGCACATGATGATGATATTGAAATGTGCGTGTAGGGAGTG
11586724 CACATGATGAC
66 CACATGATGAC
11586735 GATATTGAAATGTGCGTGTAAGGAATGCACATGATGAT-ATATTGAAATGTGCGTGTAGGGAGTG
1 GATATTGAAATGTGCGTGTAAGGAATGCACATGATGATGATATTGAAATGTGCGTGTAGGGAGTG
11586799 CACATGAT---
66 CACATGATGAC
*** *
11586807 GATATTGCCTTGTGCGTGTAAGGAGTGCACATGA
1 GATATTGAAATGTGCGTGTAAGGAATGCACATGA
11586841 GCTGAGTAAG
Statistics
Matches: 163, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
72 30 0.18
73 28 0.17
74 6 0.04
75 87 0.53
76 12 0.07
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.28
Consensus pattern (76 bp):
GATATTGAAATGTGCGTGTAAGGAATGCACATGATGATGATATTGAAATGTGCGTGTAGGGAGTG
CACATGATGAC
Found at i:11586876 original size:2 final size:2
Alignment explanation
Indices: 11586869--11586922 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
11586859 AGTGTACATG
11586869 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11586911 TA TA TA TA TA TA
1 TA TA TA TA TA TA
11586923 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11595259 original size:21 final size:21
Alignment explanation
Indices: 11595234--11595302 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
11595224 TGCACTCCCA
11595234 CATCACACATAGCTGGGTCAT
1 CATCACACATAGCTGGGTCAT
* **
11595255 CATCAGCTCAT-G-TGCACTCCCA-
1 CATCA-CACATAGCTG-GGT--CAT
11595277 CATCACACATAGCTGGGTCAT
1 CATCACACATAGCTGGGTCAT
11595298 CATCA
1 CATCA
11595303 GCTCATGTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 4 0.11
21 16 0.46
22 11 0.31
23 4 0.11
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (21 bp):
CATCACACATAGCTGGGTCAT
Found at i:11595265 original size:43 final size:43
Alignment explanation
Indices: 11595217--11595339 Score: 221
Period size: 43 Copynumber: 2.9 Consensus size: 43
11595207 GCCACACTTC
11595217 GCTCATGTGCACTCCCACATCACACATAGCTGGGTCATCATCA
1 GCTCATGTGCACTCCCACATCACACATAGCTGGGTCATCATCA
11595260 GCTCATGTGCACTCCCACATCACACATAGCTGGGTCATCATCA
1 GCTCATGTGCACTCCCACATCACACATAGCTGGGTCATCATCA
* *
11595303 GCTCATGTGCACTCCCACA-CGCACATAGTTGGGTCAT
1 GCTCATGTGCACTCCCACATCACACATAGCTGGGTCAT
11595340 TATTATCACA
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
42 16 0.21
43 62 0.79
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (43 bp):
GCTCATGTGCACTCCCACATCACACATAGCTGGGTCATCATCA
Found at i:11601206 original size:19 final size:19
Alignment explanation
Indices: 11601179--11601216 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11601169 CCATTTGACT
11601179 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
11601198 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
11601217 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:11604651 original size:27 final size:27
Alignment explanation
Indices: 11604607--11604667 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
11604597 AAACAAGATG
* *
11604607 GCATACACATAAACAAGCTGCCCATGA
1 GCATAAACATAAACAAGCTACCCATGA
* *
11604634 GCCTAAACATAAACAAGCTATCCATGA
1 GCATAAACATAAACAAGCTACCCATGA
11604661 GCATAAA
1 GCATAAA
11604668 GTAACAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.13, T:0.16
Consensus pattern (27 bp):
GCATAAACATAAACAAGCTACCCATGA
Found at i:11610350 original size:10 final size:10
Alignment explanation
Indices: 11610335--11610362 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
11610325 TCATTCAATT
11610335 ACACACATAC
1 ACACACATAC
11610345 ACACACATAC
1 ACACACATAC
11610355 ACACACAT
1 ACACACAT
11610363 TCATATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.11
Consensus pattern (10 bp):
ACACACATAC
Found at i:11612977 original size:17 final size:17
Alignment explanation
Indices: 11612947--11612979 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11612937 TTCTTGATAA
11612947 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
11612964 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
11612980 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:11613224 original size:59 final size:58
Alignment explanation
Indices: 11613131--11613295 Score: 215
Period size: 59 Copynumber: 2.8 Consensus size: 58
11613121 TCTTGTCTGT
* * *
11613131 AATTAAGACAAAAAAATATTTTATCTTGTCTAAATTAAGAAAAATATGTTTTCTTGACTA
1 AATTAAGAC-AAAAAATATTTT-TCATGTCTAAATTAAGACAAACATGTTTTCTTGACTA
* * *
11613191 AATTAAGACAAAAAATATTTTTCATGTCTTAAATTAAGGCAAACATATTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTTTCATGTC-TAAATTAAGACAAACATGTTTTCTTGACTA
* * *
11613250 AATTAAGACCAAACAT-GTTTTCATGTCTAAATTAAGACAAACATGT
1 AATTAAGACAAAAAATATTTTTCATGTCTAAATTAAGACAAACATGT
11613296 CAAAGCTGCC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 17 0.18
58 16 0.17
59 51 0.55
60 9 0.10
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (58 bp):
AATTAAGACAAAAAATATTTTTCATGTCTAAATTAAGACAAACATGTTTTCTTGACTA
Found at i:11613247 original size:29 final size:28
Alignment explanation
Indices: 11613121--11613293 Score: 166
Period size: 29 Copynumber: 5.9 Consensus size: 28
11613111 TTAAGACAAC
* *
11613121 TCTTGTCTGTAATTAAGACAAAAAAATATTTT
1 TCTTGTCT-AAATTAAGAC--AAACATA-TTT
* * *
11613153 ATCTTGTCTAAATTAAGAAAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
* *
11613182 TCTTGACTAAATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACATA-TTT
* *
11613212 TCATGTCTTAAATTAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
*
11613241 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATATTT
*
11613270 TCATGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
11613294 GTCAAAGCTG
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
28 32 0.27
29 43 0.36
30 19 0.16
31 10 0.08
32 8 0.07
33 8 0.07
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:11616661 original size:21 final size:19
Alignment explanation
Indices: 11616637--11616686 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
11616627 GAAGGTTTTT
11616637 ACTCTTTTTAAGCTCTCTCAA
1 ACTCTTTTTAA-CT-TCTCAA
**
11616658 ACTCTTTGGAACTTCTCAA
1 ACTCTTTTTAACTTCTCAA
11616677 ATCTCTTTTT
1 A-CTCTTTTT
11616687 GACCATTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.22, C:0.26, G:0.06, T:0.46
Consensus pattern (19 bp):
ACTCTTTTTAACTTCTCAA
Found at i:11621286 original size:60 final size:60
Alignment explanation
Indices: 11621211--11621332 Score: 176
Period size: 60 Copynumber: 2.0 Consensus size: 60
11621201 AGACATCATC
*
11621211 ACCTACTCGTGGGAACTGCCCACGCCA-CCATATATAAATCGGGGCTTCAAGT-CTCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCCA-ATATAAATCGGGGCTTCAAGTAC-CCCTTT
* * *
11621271 ACCTACTCGTGGGAACTACCTACGCCACCCAATATGAATCGGGGCTTCAGGTACCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCCAATATAAATCGGGGCTTCAAGTACCCCTTT
11621331 AC
1 AC
11621333 AATCAAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
60 52 0.93
61 4 0.07
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.24
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTACCCACGCCACCCAATATAAATCGGGGCTTCAAGTACCCCTTT
Found at i:11632898 original size:2 final size:2
Alignment explanation
Indices: 11632851--11632881 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11632841 AATAGTGCAT
11632851 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11632882 TTGTTAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11635962 original size:28 final size:28
Alignment explanation
Indices: 11635924--11636118 Score: 221
Period size: 28 Copynumber: 6.8 Consensus size: 28
11635914 TTTAACATGT
*
11635924 TTTGTCGTAATTTAGACAAGAAAAAATG
1 TTTGTCTTAATTTAGACAAGAAAAAATG
*
11635952 TTTGTCTTAATTTAGAAAAGAAAACATAT-
1 TTTGTCTTAATTTAGACAAGAAAA-A-ATG
*
11635981 TTTGTCTTAATTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAAAATG
11636009 TTTGTCTTAATTTAAGACAAGAAAAATATG
1 TTTGTCTTAATTT-AGACAAGAAAAA-ATG
* * *
11636039 TTTTGTCTTAATCTAGATAAGAAAACATG
1 -TTTGTCTTAATTTAGACAAGAAAAAATG
* * *
11636068 TTTGCCTTAATTTAGACAAGATAACATG
1 TTTGTCTTAATTTAGACAAGAAAAAATG
* *
11636096 TTTTCTCTTAATTAAAGACAAGA
1 -TTTGTCTTAATT-TAGACAAGA
11636119 GTTGTCTTAA
Statistics
Matches: 144, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
27 2 0.01
28 59 0.41
29 48 0.33
30 23 0.16
31 12 0.08
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAAAATG
Found at i:11636010 original size:57 final size:57
Alignment explanation
Indices: 11635917--11636118 Score: 262
Period size: 57 Copynumber: 3.5 Consensus size: 57
11635907 TGGCAGCTTT
* * * *
11635917 AACATGTTTTGTCGTAATTTAGACAAGAAAAAATGTTTGTCTTAATTTAGAAAAGAA
1 AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAA
11635974 AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAAGACAAGAA
1 AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTT-AGACAAGAA
* * * *
11636032 AA-ATATGTTTTGTCTTAATCTAGATAAGAAAACATGTTTGCCTTAATTTAGACAAGAT
1 AACATA--TTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAA
* * *
11636090 AACATGTTTTCTCTTAATTAAAGACAAGA
1 AACATATTTTGTCTTAATT-TAGACAAGA
11636119 GTTGTCTTAA
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
57 59 0.46
58 27 0.21
59 41 0.32
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (57 bp):
AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAA
Found at i:11637609 original size:17 final size:17
Alignment explanation
Indices: 11637576--11637610 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11637566 GCATTTTTTA
11637576 TTTTAAATTAATAATTT
1 TTTTAAATTAATAATTT
11637593 TTTTAGAATTAAT-ATTT
1 TTTTA-AATTAATAATTT
11637610 T
1 T
11637611 ATTTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTAAATTAATAATTT
Found at i:11643625 original size:3 final size:3
Alignment explanation
Indices: 11643612--11643641 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11643602 GTGGACACTA
*
11643612 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11643642 GTTCTTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:11646981 original size:46 final size:44
Alignment explanation
Indices: 11646928--11647043 Score: 125
Period size: 43 Copynumber: 2.7 Consensus size: 44
11646918 CCCGCCACAC
11646928 TCAGCTCATGTGCACTCCCTACACGCACAATGCAATAT-CATCATCA
1 TCAGCTCATGTGCACTCCCTACACGCACAAT--AAT-TGCATCATCA
* * **
11646974 TCAGCTCATGTGCTCTCCC-ACACCGCAC-ATAGTTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACA-CGCACAATAATTGCATCATCA
11647017 TCAGCTCATGTGCACT-CCTACAC-CACA
1 TCAGCTCATGTGCACTCCCTACACGCACA
11647044 CATAGCTGGG
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
41 3 0.05
42 4 0.07
43 26 0.43
45 5 0.08
46 23 0.38
ACGTcount: A:0.26, C:0.36, G:0.14, T:0.24
Consensus pattern (44 bp):
TCAGCTCATGTGCACTCCCTACACGCACAATAATTGCATCATCA
Found at i:11647029 original size:43 final size:43
Alignment explanation
Indices: 11646968--11647060 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 43
11646958 TGCAATATCA
* * *
11646968 TCATCATCAGCTCATGTGCTCTCCCACACCGCACATAGTTGGG
1 TCATCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGG
*
11647011 TCATCATCAGCTCATGTGCACTCCTACACCACACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGG
*
11647054 TCCTCAT
1 TCATCAT
11647061 TATCACACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (43 bp):
TCATCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGG
Found at i:11647863 original size:20 final size:20
Alignment explanation
Indices: 11647838--11647879 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11647828 ATGAGAAGAA
* *
11647838 GAAGAAGCTACTGGAGAAAT
1 GAAGAAGCTACTAGAAAAAT
11647858 GAAGAAGCTACTAGAAAAAT
1 GAAGAAGCTACTAGAAAAAT
11647878 GA
1 GA
11647880 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.26, T:0.14
Consensus pattern (20 bp):
GAAGAAGCTACTAGAAAAAT
Found at i:11657121 original size:29 final size:28
Alignment explanation
Indices: 11657063--11657311 Score: 248
Period size: 28 Copynumber: 8.6 Consensus size: 28
11657053 TGGCAACTTT
11657063 AACATGTTTTGTCTTAATTTAGACAAGAA
1 AACATG-TTTGTCTTAATTTAGACAAGAA
* * *
11657092 AACATGTTTGTCTAAATTTGGACAAGGA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
11657120 AACAACT-TTTGTCTTAATTTAGATAAGAA
1 AAC-A-TGTTTGTCTTAATTTAGACAAGAA
* * *
11657149 AACATGTTTGTCTTAATTTAAATAATAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* * *
11657177 AGCATGCTTTCTTTTAATTTAGACAAGAA
1 AACATG-TTTGTCTTAATTTAGACAAGAA
*
11657206 AACATGTTTGTCTTAATTTAAGACTAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* * * *
11657236 AATATGTTTTGTCTTGATCTAAACAAGAA
1 AACATG-TTTGTCTTAATTTAGACAAGAA
* * *
11657265 AACATGTTTGTCTCAATTTAGATAAGAT
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
11657293 AACATGTTTTGTTTTAATT
1 AACATG-TTTGTCTTAATT
11657312 AAAGAGAAGA
Statistics
Matches: 179, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.01
28 81 0.45
29 73 0.41
30 13 0.07
31 11 0.06
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:11657157 original size:57 final size:57
Alignment explanation
Indices: 11657069--11657311 Score: 251
Period size: 57 Copynumber: 4.2 Consensus size: 57
11657059 CTTTAACATG
* *
11657069 TTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTAAATTTGGACAAGGAAACA-AC
1 TTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAA-GAAACATAC
* * * * *
11657126 TTTTGTCTTAATTTAGATAAGAAAACATGTTTGTCTTAATTTAAATAATAAAGCATGC
1 TTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAAA-CATAC
* * *
11657184 TTTCT-T-TTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAAGACTAGAAAAATATG
1 TTT-TGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTT-AGACAAGAAACATA-C
* * * * * *
11657242 TTTTGTCTTGATCTAAACAAGAAAACATGTTTGTCTCAATTTAGATAAGATAACAT-G
1 TTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGA-AACATAC
*
11657299 TTTTGTTTTAATT
1 TTTTGTCTTAATT
11657312 AAAGAGAAGA
Statistics
Matches: 153, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
56 3 0.02
57 93 0.61
58 21 0.14
59 36 0.24
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (57 bp):
TTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAAACATAC
Found at i:11659748 original size:189 final size:189
Alignment explanation
Indices: 11659450--11659792 Score: 447
Period size: 189 Copynumber: 1.8 Consensus size: 189
11659440 AATATATCTA
* * * * *
11659450 TGCATGATGGGACGCCGCAGCAGAAAAGTGGGAAAGCAATAGTAGGTCAACGTTTAAAAAATAAT
1 TGCATGATGGAACGCCACAGCAGAAAAATGGGAAAGCAATAGCAGGTCAACATTTAAAAAATAAT
*** * ** * **
11659515 TTATCTGTGGTTGAAGGGATGCCGCGGCAGAATGCTGGGCATGCAAGTGTAAGTCAGCCTTTAAA
66 TTATCTGTGCAAGAAAGGATGCCGCAACAGAAAGCTGGGCATGCAAGTACAAGTCAGCCTTTAAA
*
11659580 AAGTGATTTTATAGAGCAATTAGCGCAGATAAAGGCTATGAGGGAGCTGAGTTTAACTG
131 AAATGATTTTATAGAGCAATTAGCGCAGATAAAGGCTATGAGGGAGCTGAGTTTAACTG
* * *
11659639 TGCATGATGGAATGCCACAGCAGAAAAATGGGAAAGCAGGT-GCAGGTCAGA-ATTTAAAAAATG
1 TGCATGATGGAACGCCACAGCAGAAAAATGGGAAAGCA-ATAGCAGGTCA-ACATTTAAAAAATA
* * * *
11659702 ATTTATTTGTGCAAGAAAGGATGCCGCAATAGAAAGCTGGGCATGCAAGTACAGGTCAGCGTTTA
64 ATTTATCTGTGCAAGAAAGGATGCCGCAACAGAAAGCTGGGCATGCAAGTACAAGTCAGCCTTTA
*
11659767 AAAAATGATTTTATAGAGCCATTAGC
129 AAAAATGATTTTATAGAGCAATTAGC
11659793 ATAGGCAACG
Statistics
Matches: 129, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
189 127 0.98
190 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (189 bp):
TGCATGATGGAACGCCACAGCAGAAAAATGGGAAAGCAATAGCAGGTCAACATTTAAAAAATAAT
TTATCTGTGCAAGAAAGGATGCCGCAACAGAAAGCTGGGCATGCAAGTACAAGTCAGCCTTTAAA
AAATGATTTTATAGAGCAATTAGCGCAGATAAAGGCTATGAGGGAGCTGAGTTTAACTG
Found at i:11659918 original size:17 final size:17
Alignment explanation
Indices: 11659896--11659930 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11659886 TGGAGAGTAC
*
11659896 AATCCAATAATAGGAGA
1 AATCCAATAACAGGAGA
11659913 AATCCAATAACAGGAGA
1 AATCCAATAACAGGAGA
11659930 A
1 A
11659931 GGTGAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.17, T:0.14
Consensus pattern (17 bp):
AATCCAATAACAGGAGA
Found at i:11667354 original size:17 final size:18
Alignment explanation
Indices: 11667321--11667355 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11667311 CTAATTGTAG
11667321 AGTTCTAATCATTATTAGA
1 AGTTCTAAT-ATTATTAGA
11667340 AGTTCTAAT-TTATTAG
1 AGTTCTAATATTATTAG
11667356 TAAATTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
AGTTCTAATATTATTAGA
Found at i:11669471 original size:35 final size:35
Alignment explanation
Indices: 11669423--11669699 Score: 263
Period size: 35 Copynumber: 7.9 Consensus size: 35
11669413 TCCTTAAAAA
*** *
11669423 GCCCAATTAACTTAATTGTTTAATTTAATCGATTAG
1 GCCCAA-TAACTTAATTAAATAATTTAATCAATTAG
* * *
11669459 GCCCAATAACTTAATTAAACAATTTAATTAATTAA
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* * *
11669494 GCCCAACAATTTAATTAAACAATTTTAATCAATTAG
1 GCCCAATAACTTAATTAAATAA-TTTAATCAATTAG
* * *
11669530 GCTCAATGACTTAATTAAACAAATTTAATCAATTAG
1 GCCCAATAACTTAATTAAA-TAATTTAATCAATTAG
* * *** *
11669566 GCCTAGTAACTTAATTGTTTAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* *
11669601 GCCCAATGACTTAATTAAATAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* * *
11669636 GCCCAATAATTTAATTAAACAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* *
11669671 G--C-ACAACTTAATTAAACAATTTTAATCAA
1 GCCCAATAACTTAATTAAATAA-TTTAATCAA
11669700 GTGCTTGAGA
Statistics
Matches: 201, Mismatches: 37, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
32 15 0.07
33 9 0.04
35 118 0.59
36 57 0.28
37 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (35 bp):
GCCCAATAACTTAATTAAATAATTTAATCAATTAG
Found at i:11669497 original size:71 final size:70
Alignment explanation
Indices: 11669421--11669692 Score: 289
Period size: 71 Copynumber: 3.9 Consensus size: 70
11669411 AGTCCTTAAA
* *
11669421 AAGCCCAATTAACTTAATTGTTTAATTTAATCGATTAGGCCCAATAACTTAATTAAACAATTTAA
1 AAGCCCAA-TAACTTAATTGTTTAATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAA
11669486 TTAATT
65 TTAATT
* * **** *
11669492 AAGCCCAACAATTTAATTAAACAATTTTAATCAATTAGGCTCAATGACTTAATTAAACAAATTTA
1 AAGCCCAATAACTTAATTGTTTAA-TTTAATCAATTAGGCCCAATGACTTAATTAAAC-AATTTA
*
11669557 ATCAATT
64 ATTAATT
* * * * *
11669564 AGGCCTAGTAACTTAATTGTTTAATTTAATTAATTAGGCCCAATGACTTAATTAAATAATTTAAT
1 AAGCCCAATAACTTAATTGTTTAATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAAT
11669629 TAATT
66 TAATT
* * **** * *
11669634 AGGCCCAATAATTTAATTAAACAATTTAATTAATTAGGCAC-A--ACTTAATTAAACAATTT
1 AAGCCCAATAACTTAATTGTTTAATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTT
11669693 TAATCAAGTG
Statistics
Matches: 167, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
67 16 0.10
69 1 0.01
70 55 0.33
71 68 0.41
72 27 0.16
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (70 bp):
AAGCCCAATAACTTAATTGTTTAATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAAT
TAATT
Found at i:11669593 original size:142 final size:138
Alignment explanation
Indices: 11669430--11669699 Score: 423
Period size: 142 Copynumber: 1.9 Consensus size: 138
11669420 AAAGCCCAAT
*
11669430 TAACTTAATTGTTTAATTTAATCGATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAG
1 TAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAG
*
11669495 CCCAACAATTTAATTAAACAATTTTAATCAATTAGGCTCAATGACTTAATTAAACAAATTTAATC
66 CCCAACAATTTAATTAAACAA-TTTAATCAATTAGGCAC-A--ACTTAATTAAACAAATTTAATC
11669560 AATTAGGCCTAG
127 AATTAGGCCTAG
* * * *
11669572 TAACTTAATTGTTTAATTTAATTAATTAGGCCCAATGACTTAATTAAATAATTTAATTAATTAGG
1 TAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAG
* * *
11669637 CCCAATAATTTAATTAAACAATTTAATTAATTAGGCACAACTTAATTAAACAATTTTAATCAA
66 CCCAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAAATTTAATCAA
11669700 GTGCTTGAGA
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
138 23 0.19
140 1 0.01
141 15 0.13
142 80 0.67
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (138 bp):
TAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAG
CCCAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAAATTTAATCAATT
AGGCCTAG
Found at i:11675237 original size:22 final size:22
Alignment explanation
Indices: 11675204--11675261 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
11675194 TTAATCACCG
*
11675204 TGTGACTAGTTTTTAGTCATTA
1 TGTGACTAGTTTTTAGGCATTA
* *
11675226 TGTGA-TTGGTTTTAGGCATTA
1 TGTGACTAGTTTTTAGGCATTA
11675247 TGTGACTAGTTTTTA
1 TGTGACTAGTTTTTA
11675262 TACATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.21, C:0.07, G:0.22, T:0.50
Consensus pattern (22 bp):
TGTGACTAGTTTTTAGGCATTA
Found at i:11675329 original size:23 final size:24
Alignment explanation
Indices: 11675302--11675400 Score: 107
Period size: 23 Copynumber: 4.2 Consensus size: 24
11675292 CTAAGTCATA
11675302 CAATGCCTTA-CGAACTAGTCACG
1 CAATGCCTTATCGAACTAGTCACG
* * *
11675325 AAATGCCTTA-CTAACAAGTCACG
1 CAATGCCTTATCGAACTAGTCACG
*
11675348 CAATGCC-TATC-AACTAGTCATG
1 CAATGCCTTATCGAACTAGTCACG
11675370 CAATGCCTTATCAGAAACTAGTCACG
1 CAATGCCTTATC-G-AACTAGTCACG
*
11675396 TAATG
1 CAATG
11675401 TGTCAAGCCC
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
22 18 0.29
23 31 0.49
26 14 0.22
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (24 bp):
CAATGCCTTATCGAACTAGTCACG
Found at i:11678371 original size:26 final size:26
Alignment explanation
Indices: 11678296--11678494 Score: 169
Period size: 26 Copynumber: 8.2 Consensus size: 26
11678286 GTCGTGACAT
11678296 AATGCCTTATCAAAAACTAGTCACGC
1 AATGCCTTATCAAAAACTAGTCACGC
**
11678322 AATGCC----C-AAAGTTAGTCA-GC
1 AATGCCTTATCAAAAACTAGTCACGC
*
11678342 AATGCCTTATCAGAAACTAGTCACGC
1 AATGCCTTATCAAAAACTAGTCACGC
*
11678368 AATGCCTTATAAAAAACTAGTCACGC
1 AATGCCTTATCAAAAACTAGTCACGC
**
11678394 AATGCC----CAAAGTC-AGTCACGC
1 AATGCCTTATCAAAAACTAGTCACGC
* * *
11678415 TATGCC-TAT---TAACTAGTCACGT
1 AATGCCTTATCAAAAACTAGTCACGC
11678437 AATGCCTTATCAAAAACTAGTCACGC
1 AATGCCTTATCAAAAACTAGTCACGC
* * *
11678463 AATGTCTTAT-AAAAAATCAGTCACGT
1 AATGCCTTATCAAAAACT-AGTCACGC
11678489 AATGCC
1 AATGCC
11678495 CAAAGTCAAT
Statistics
Matches: 136, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
20 8 0.06
21 23 0.17
22 17 0.12
23 3 0.02
24 1 0.01
25 14 0.10
26 70 0.51
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (26 bp):
AATGCCTTATCAAAAACTAGTCACGC
Found at i:11678441 original size:22 final size:20
Alignment explanation
Indices: 11678381--11678443 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
11678371 GCCTTATAAA
* *
11678381 AAACTAGTCACGCAATGCCC
1 AAACTAGTCACGTAATGCCT
*
11678401 AAAGTCAGTCACGCT-ATGCCT
1 AAACT-AGTCACG-TAATGCCT
11678422 ATTAACTAGTCACGTAATGCCT
1 A--AACTAGTCACGTAATGCCT
11678444 TATCAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.12
21 14 0.41
22 13 0.38
23 3 0.09
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (20 bp):
AAACTAGTCACGTAATGCCT
Found at i:11678454 original size:95 final size:95
Alignment explanation
Indices: 11678316--11678534 Score: 282
Period size: 95 Copynumber: 2.3 Consensus size: 95
11678306 CAAAAACTAG
* ** * *
11678316 TCACGCAATGCC-CAAAGTTAGTCA-GCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATA
1 TCACGCAATGCCTAAAAACTAGTCACGTAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATA
*
11678379 AAAAA-CTAGTCACGCAATGCCCAAAGTCAG
66 AAAAATC-AGTCACGCAATGCCCAAAGTCAA
* ** *
11678409 TCACGCTATGCCTATTAACTAGTCACGTAATGCCTTATCAAAAACTAGTCACGCAATGTCTTATA
1 TCACGCAATGCCTAAAAACTAGTCACGTAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATA
*
11678474 AAAAATCAGTCACGTAATGCCCAAAGTCAA
66 AAAAATCAGTCACGCAATGCCCAAAGTCAA
* * *
11678504 TTACGCAATGCTTAAAAACTAGTCACATAAT
1 TCACGCAATGCCTAAAAACTAGTCACGTAAT
11678535 TCCCCAAAAT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
93 11 0.10
94 7 0.07
95 87 0.82
96 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (95 bp):
TCACGCAATGCCTAAAAACTAGTCACGTAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATA
AAAAATCAGTCACGCAATGCCCAAAGTCAA
Found at i:11678458 original size:69 final size:70
Alignment explanation
Indices: 11678295--11678466 Score: 258
Period size: 72 Copynumber: 2.4 Consensus size: 70
11678285 GGTCGTGACA
*
11678295 TAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGTTAGTCAGCAATGCCTTATCAGAAACT
1 TAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCAGCAATGCCTTAT-A-AAACT
11678360 AGTCACG
64 AGTCACG
* * * *
11678367 CAATGCCTTATAAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCTATGCC-TAT-TAACTA
1 TAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCA-GCAATGCCTTATAAAACTA
11678430 GTCACG
65 GTCACG
11678436 TAATGCCTTATCAAAAACTAGTCACGCAATG
1 TAATGCCTTATCAAAAACTAGTCACGCAATG
11678467 TCTTATAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
69 40 0.43
72 45 0.49
73 7 0.08
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (70 bp):
TAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCAGCAATGCCTTATAAAACTAG
TCACG
Found at i:11678745 original size:60 final size:61
Alignment explanation
Indices: 11678632--11678745 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 61
11678622 AACAAATATG
* * *
11678632 AATGCTCAAAATGTTCGAAAGTTTTTCTTCATATATCAAAAATCACTCTAAAATATTTTAA
1 AATGCTCAAAACGCTCGAAAGTTTTTCTTCATATATCAAAAATCACTCCAAAATATTTTAA
* * *
11678693 AATGCTCAAAACGCTC-ACAAG-TTTTCTTCGTGTATCAAATA-CTACTCCAAAAT
1 AATGCTCAAAACGCTCGA-AAGTTTTTCTTCATATATCAAAAATC-ACTCCAAAAT
11678746 GCTCAAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
59 1 0.02
60 27 0.60
61 17 0.38
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (61 bp):
AATGCTCAAAACGCTCGAAAGTTTTTCTTCATATATCAAAAATCACTCCAAAATATTTTAA
Found at i:11680407 original size:12 final size:12
Alignment explanation
Indices: 11680384--11680431 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
11680374 CTGCCGCCGG
*
11680384 CGCTGCCGCTGC
1 CGCTGCCACTGC
11680396 CGCTGCCACTGC
1 CGCTGCCACTGC
* *
11680408 CTCTGCTACTGC
1 CGCTGCCACTGC
* *
11680420 CACTGCTACTGC
1 CGCTGCCACTGC
11680432 TACTACAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.08, C:0.46, G:0.23, T:0.23
Consensus pattern (12 bp):
CGCTGCCACTGC
Found at i:11680407 original size:18 final size:18
Alignment explanation
Indices: 11680386--11680425 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11680376 GCCGCCGGCG
*
11680386 CTGCCGCTGCCGCTGCCA
1 CTGCCGCTGCCACTGCCA
* *
11680404 CTGCCTCTGCTACTGCCA
1 CTGCCGCTGCCACTGCCA
11680422 CTGC
1 CTGC
11680426 TACTGCTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.47, G:0.23, T:0.23
Consensus pattern (18 bp):
CTGCCGCTGCCACTGCCA
Found at i:11680431 original size:18 final size:18
Alignment explanation
Indices: 11680398--11680435 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
11680388 GCCGCTGCCG
11680398 CTGCCACTGCCTCTGCTA
1 CTGCCACTGCCTCTGCTA
11680416 CTGCCACTG-CTACTGCTA
1 CTGCCACTGCCT-CTGCTA
11680434 CT
1 CT
11680436 ACAGCTGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.13, C:0.42, G:0.16, T:0.29
Consensus pattern (18 bp):
CTGCCACTGCCTCTGCTA
Found at i:11683757 original size:2 final size:2
Alignment explanation
Indices: 11683740--11683776 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
11683730 CAAAACCTGG
11683740 TC TC TC T- TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11683777 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:11683801 original size:4 final size:4
Alignment explanation
Indices: 11683794--11683831 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
11683784 TATATATATA
11683794 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
11683832 CATATTCGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:11686575 original size:40 final size:41
Alignment explanation
Indices: 11686504--11686580 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
11686494 TAATACTGTT
* **
11686504 GGTGATAGAATTACAAGTTTTCATTTGAGTTCTTTCACTTG
1 GGTGATAGAATTACAAGTTTGCATTCAAGTTCTTTCACTTG
11686545 GGTGATAGAA-TACAAGTTTGC-TTCCAAGTTCTTTCA
1 GGTGATAGAATTACAAGTTTGCATT-CAAGTTCTTTCA
11686581 ATTGTTTCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 2 0.06
40 20 0.62
41 10 0.31
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (41 bp):
GGTGATAGAATTACAAGTTTGCATTCAAGTTCTTTCACTTG
Found at i:11687669 original size:33 final size:33
Alignment explanation
Indices: 11687584--11687669 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
11687574 AAAGAAATTC
* * * *
11687584 AAATAAAATATATAATATAGAAAATTATATTAAG
1 AAATAAAA-ATAAAATATATAAAATTATAATAAA
* *
11687618 AAATGAAGATAAAATATATAAAATTATAATAAA
1 AAATAAAAATAAAATATATAAAATTATAATAAA
11687651 AAATAAAAATAAAATATAT
1 AAATAAAAATAAAATATAT
11687670 GACATTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 38 0.86
34 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (33 bp):
AAATAAAAATAAAATATATAAAATTATAATAAA
Found at i:11690602 original size:18 final size:19
Alignment explanation
Indices: 11690579--11690614 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11690569 TTGGATTTGT
11690579 TTTA-TTTGTTTAGGTGGG
1 TTTATTTTGTTTAGGTGGG
*
11690597 TTTATTTTGTTTATGTGG
1 TTTATTTTGTTTAGGTGG
11690615 CCTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.00, G:0.28, T:0.61
Consensus pattern (19 bp):
TTTATTTTGTTTAGGTGGG
Found at i:11691609 original size:26 final size:25
Alignment explanation
Indices: 11691560--11691610 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
11691550 TTTTGTTTTT
* * *
11691560 CTTTTTTTTTTTATTTAATATTTGA
1 CTTTTTTTTTTAAATTAACATTTGA
11691585 CTTTTTTTTTTAAATTAACACTTTGA
1 CTTTTTTTTTTAAATTAACA-TTTGA
11691611 AAAGTCGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (25 bp):
CTTTTTTTTTTAAATTAACATTTGA
Found at i:11694859 original size:64 final size:64
Alignment explanation
Indices: 11694781--11694910 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
11694771 CCAAGTTTGA
11694781 AAAACCAAACTACAATCCCAAAGACTGTTTCCCACATTCAATCTCACAAGTTTACAGCTCAAAG
1 AAAACCAAACTACAATCCCAAAGACTGTTTCCCACATTCAATCTCACAAGTTTACAGCTCAAAG
* * * *
11694845 AAAACCAAATTACAATCCCAAAGACTGTTTTCCATATTCAATCTCATAAGTTTACAGCTCAAAG
1 AAAACCAAACTACAATCCCAAAGACTGTTTCCCACATTCAATCTCACAAGTTTACAGCTCAAAG
11694909 AA
1 AA
11694911 TGTCTAACTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.25
Consensus pattern (64 bp):
AAAACCAAACTACAATCCCAAAGACTGTTTCCCACATTCAATCTCACAAGTTTACAGCTCAAAG
Found at i:11697785 original size:27 final size:27
Alignment explanation
Indices: 11697726--11697785 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
11697716 TTTTGTTTTA
* * * *
11697726 AAAAGAAGATTAAAATAAAATTTAACG
1 AAAAGAAAATTAAAAGAAAACTTAAAG
* *
11697753 AGAAGAAAATTTAAAGAAAACTTAAAG
1 AAAAGAAAATTAAAAGAAAACTTAAAG
11697780 AAAAGA
1 AAAAGA
11697786 GTTCAGAATT
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:0.65, C:0.03, G:0.13, T:0.18
Consensus pattern (27 bp):
AAAAGAAAATTAAAAGAAAACTTAAAG
Found at i:11699943 original size:35 final size:35
Alignment explanation
Indices: 11699891--11700021 Score: 124
Period size: 35 Copynumber: 3.8 Consensus size: 35
11699881 AATTCCCAAG
* **
11699891 CTTTTACAATGGCTTTTCACAGGCTCCGCCACAAC
1 CTTTAACAATGGCTTTTCACAGGCTCAACCACAAC
* * * *
11699926 CTTTAACAATGGTTTTTCACGGGATCAACCAAAAC
1 CTTTAACAATGGCTTTTCACAGGCTCAACCACAAC
* * *
11699961 C--CAA-AATGGCTTTTCAAAGGCTCAATCACAAC
1 CTTTAACAATGGCTTTTCACAGGCTCAACCACAAC
* * *
11699993 CTTTAACAATGGTTTTTCATAGGATCAAC
1 CTTTAACAATGGCTTTTCACAGGCTCAAC
11700022 AAAAACCCAA
Statistics
Matches: 74, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
32 23 0.31
33 2 0.03
34 2 0.03
35 47 0.64
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (35 bp):
CTTTAACAATGGCTTTTCACAGGCTCAACCACAAC
Found at i:11700006 original size:67 final size:67
Alignment explanation
Indices: 11699898--11700033 Score: 209
Period size: 67 Copynumber: 2.0 Consensus size: 67
11699888 AAGCTTTTAC
* ** * *
11699898 AATGGCTTTTCACAGGCTCCGCCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAGGATCAACAAAAACCC
11699963 AA
66 AA
* *
11699965 AATGGCTTTTCAAAGGCTCAATCACAACCTTTAACAATGGTTTTTCATAGGATCAACAAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAGGATCAACAAAAACCC
11700030 AA
66 AA
11700032 AA
1 AA
11700034 CTAATTTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (67 bp):
AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAGGATCAACAAAAACCC
AA
Found at i:11700480 original size:213 final size:213
Alignment explanation
Indices: 11700113--11700537 Score: 823
Period size: 213 Copynumber: 2.0 Consensus size: 213
11700103 AGAGTGTCTC
11700113 TCACACTCTAAGTAAATAGGAAATAGAGAAAAGATGAAGTACAATTGATCACCTAGCTGATCTAA
1 TCACACTCTAAGTAAATAGGAAATAGAGAAAAGATGAAGTACAATTGATCACCTAGCTGATCTAA
*
11700178 GATGTACGAAGTTAAGCTCAAACAATTTTTTAAAGGATGGGAGTGAAAAACAAGTGTAAAGAGAA
66 GATGTACAAAGTTAAGCTCAAACAATTTTTTAAAGGATGGGAGTGAAAAACAAGTGTAAAGAGAA
11700243 GGTTTTTGGTCTTTTAAGCTCAAAATCACTTTGGATAAGTTCTCTATCTTGTTTTTGACTGTCGG
131 GGTTTTTGGTCTTTTAAGCTCAAAATCACTTTGGATAAGTTCTCTATCTTGTTTTTGACTGTCGG
11700308 AGAGGCTTTCAATACTTT
196 AGAGGCTTTCAATACTTT
11700326 TCACACTCTAAGTAAATAGGAAATAGAGAAAAGATGAAGTACAATTGATCACCTAGCTGATCTAA
1 TCACACTCTAAGTAAATAGGAAATAGAGAAAAGATGAAGTACAATTGATCACCTAGCTGATCTAA
* *
11700391 GATGTACAAAGTTAAGCTCAAACACTTTTTTAAAGGATGGGAGTGAAATACAAGTGTAAAGAGAA
66 GATGTACAAAGTTAAGCTCAAACAATTTTTTAAAGGATGGGAGTGAAAAACAAGTGTAAAGAGAA
11700456 GGTTTTTGGTCTTTTAAGCTCAAAATCACTTTGGATAAGTTCTCTATCTTGTTTTTGACTGTCGG
131 GGTTTTTGGTCTTTTAAGCTCAAAATCACTTTGGATAAGTTCTCTATCTTGTTTTTGACTGTCGG
11700521 AGAGGCTTTCAATACTT
196 AGAGGCTTTCAATACTT
11700538 GTAAAATCAC
Statistics
Matches: 209, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 209 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (213 bp):
TCACACTCTAAGTAAATAGGAAATAGAGAAAAGATGAAGTACAATTGATCACCTAGCTGATCTAA
GATGTACAAAGTTAAGCTCAAACAATTTTTTAAAGGATGGGAGTGAAAAACAAGTGTAAAGAGAA
GGTTTTTGGTCTTTTAAGCTCAAAATCACTTTGGATAAGTTCTCTATCTTGTTTTTGACTGTCGG
AGAGGCTTTCAATACTTT
Found at i:11700742 original size:74 final size:73
Alignment explanation
Indices: 11700651--11700833 Score: 199
Period size: 73 Copynumber: 2.5 Consensus size: 73
11700641 ACTAACCATG
* *
11700651 CTTCTTAGTCAATTAAGTCTTCTCTGTCTTGTAATCAAATTCTCTAG-CAGTGAGCTTTTAGCTG
1 CTTCTTAGTCGACTAAGTCTTCTCTGTCTTGTAATCAAATT-T-TAGACAGTGAGCTTTTAGCTG
*
11700715 GCTAACAAGA
64 GCCAACAAGA
* * * * * * *
11700725 CTTCTTATTCGACTAAGTCTTCTCTATCTCGTAGTCAAATTTTTGACCGTGAGCTTTTAGTTGGC
1 CTTCTTAGTCGACTAAGTCTTCTCTGTCTTGTAATCAAATTTTAGACAGTGAGCTTTTAGCTGGC
* *
11700790 CAACCATA
66 CAACAAGA
* *
11700798 CTTCTTAGTCGATTAAG-CATTCTCTGTCTTGCAATC
1 CTTCTTAGTCGACTAAGTC-TTCTCTGTCTTGTAATC
11700834 TGCTTTACTT
Statistics
Matches: 89, Mismatches: 18, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
72 3 0.03
73 51 0.57
74 35 0.39
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (73 bp):
CTTCTTAGTCGACTAAGTCTTCTCTGTCTTGTAATCAAATTTTAGACAGTGAGCTTTTAGCTGGC
CAACAAGA
Found at i:11700821 original size:73 final size:73
Alignment explanation
Indices: 11700611--11700822 Score: 230
Period size: 74 Copynumber: 2.9 Consensus size: 73
11700601 GTGCTTAAAT
* * * * *
11700611 TCAAATTTTTTGACAGTGTGCTCTTAGTTGACTAACCATGCTTCTTAGTCAATTAAGTCTTCTCT
1 TCAAA-TTTTTGACAGTGAGCTTTTAGTTGGCTAACCATACTTCTTAGTCGATTAAGTCTTCTCT
* *
11700676 GTCTTGTAA
65 ATCTCGTAA
* * * * * *
11700685 TCAAATTCTCT-AGCAGTGAGCTTTTAGCTGGCTAACAAGACTTCTTATTCGACTAAGTCTTCTC
1 TCAAATT-TTTGA-CAGTGAGCTTTTAGTTGGCTAACCATACTTCTTAGTCGATTAAGTCTTCTC
*
11700749 TATCTCGTAG
64 TATCTCGTAA
* *
11700759 TCAAATTTTTGACCGTGAGCTTTTAGTTGGCCAACCATACTTCTTAGTCGATTAAG-CATTCTCT
1 TCAAATTTTTGACAGTGAGCTTTTAGTTGGCTAACCATACTTCTTAGTCGATTAAGTC-TTCTCT
11700823 GTCTTGCAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
72 1 0.01
73 48 0.43
74 63 0.56
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (73 bp):
TCAAATTTTTGACAGTGAGCTTTTAGTTGGCTAACCATACTTCTTAGTCGATTAAGTCTTCTCTA
TCTCGTAA
Found at i:11703235 original size:42 final size:42
Alignment explanation
Indices: 11703176--11703284 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
11703166 GCCTATGCGT
*
11703176 ACTCCCACTCGCACATAG-TCGGGTCAGCAATGACTTATGTGC
1 ACTCCCACTCGCACATAGCT-GGGTCAGCAAAGACTTATGTGC
* *
11703218 ACTCCCATTCGCACATAGCTGGGTCAGCAAAGGCTTATGTGC
1 ACTCCCACTCGCACATAGCTGGGTCAGCAAAGACTTATGTGC
* * *
11703260 ACTCCTACTCACACATAGCAGGGTC
1 ACTCCCACTCGCACATAGCTGGGTC
11703285 CACATCAACA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 58 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (42 bp):
ACTCCCACTCGCACATAGCTGGGTCAGCAAAGACTTATGTGC
Found at i:11724720 original size:10 final size:11
Alignment explanation
Indices: 11724693--11724727 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
11724683 TATGGCCGGC
*
11724693 CAAAGCAAGAA
1 CAAAGGAAGAA
11724704 CAAAGGAAGAA
1 CAAAGGAAGAA
11724715 -AAAGGAAGAA
1 CAAAGGAAGAA
11724725 CAA
1 CAA
11724728 GAACCCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:11732675 original size:43 final size:43
Alignment explanation
Indices: 11732618--11732732 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
11732608 GTAATGATAT
* *
11732618 TGACTCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGA
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAACCGATGA
** * *
11732661 TGACCTGGTTATGTGCGAGTAGGGAGTGCGCATAAACCGGTGA
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAACCGATGA
11732704 TGACCCAGCTATGTGCGAGTAGGGAGTGC
1 TGACCCAGCTATGTGCGAGTAGGGAGTGC
11732733 ACATGAGCTG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (43 bp):
TGACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAACCGATGA
Found at i:11732767 original size:23 final size:23
Alignment explanation
Indices: 11732741--11732799 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
11732731 GCACATGAGC
*
11732741 TGATAATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
11732764 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
11732787 TGATGATGATGGG
1 TGATGATGATGGG
11732800 TATATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.03, G:0.42, T:0.31
Consensus pattern (23 bp):
TGATGATGATGGGATGGTGTGCA
Found at i:11740099 original size:20 final size:20
Alignment explanation
Indices: 11740074--11740119 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11740064 TCGAGTCTCA
* *
11740074 CGAGCAAGCTCGCCAAGTCC
1 CGAGCAAGCTCACCAAGCCC
11740094 CGAGCAAGCTCACCAAGCCC
1 CGAGCAAGCTCACCAAGCCC
11740114 CGAGCA
1 CGAGCA
11740120 TGTCTCTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.41, G:0.24, T:0.07
Consensus pattern (20 bp):
CGAGCAAGCTCACCAAGCCC
Found at i:11753136 original size:55 final size:55
Alignment explanation
Indices: 11753059--11753267 Score: 301
Period size: 55 Copynumber: 3.8 Consensus size: 55
11753049 AACCACCAGC
** *
11753059 TCATCAGCTCATGTGCATTCCCACATTGCACATAGCTAGAATCATCATCCACCGG
1 TCATCAGCTCATGTGCATTCCCACACCGCACATAGCTAGAATCATCATCCACTGG
* * * *
11753114 TCATCAGTTCATGTGCATTCCCACACCGCACATAGCTAGAATCATCGTTCATTGG
1 TCATCAGCTCATGTGCATTCCCACACCGCACATAGCTAGAATCATCATCCACTGG
* * * *
11753169 TCATCAGCTCATGTGCAGTCCCACACCGCACATAGTTGGAATCATCACCCACTGG
1 TCATCAGCTCATGTGCATTCCCACACCGCACATAGCTAGAATCATCATCCACTGG
* *
11753224 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCA
1 TCATCAGCTCATGTGCATTCCCACACCGCACATAGCTAGAATCA
11753268 CCCGTCATCA
Statistics
Matches: 137, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 137 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.24
Consensus pattern (55 bp):
TCATCAGCTCATGTGCATTCCCACACCGCACATAGCTAGAATCATCATCCACTGG
Found at i:11754172 original size:26 final size:26
Alignment explanation
Indices: 11754112--11754173 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
11754102 ACCATATACC
*
11754112 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
11754138 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
11754164 CATCATCATC
1 CATCATCATC
11754174 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:11754466 original size:42 final size:42
Alignment explanation
Indices: 11754408--11754530 Score: 219
Period size: 42 Copynumber: 2.9 Consensus size: 42
11754398 ATGGGGGCAA
* *
11754408 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
*
11754450 CAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
11754492 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
11754531 TCAAATCAAC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
Found at i:11763673 original size:19 final size:19
Alignment explanation
Indices: 11763649--11763687 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11763639 ATTATTTTAA
11763649 TATTATTTTA-TCCAACAAT
1 TATTATTTTATTCCAA-AAT
11763668 TATTATTTTATTCCAAAAT
1 TATTATTTTATTCCAAAAT
11763687 T
1 T
11763688 TCCTCTAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATTTTATTCCAAAAT
Found at i:11769846 original size:28 final size:28
Alignment explanation
Indices: 11769815--11769869 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
11769805 AGAAACTTAG
* *
11769815 AAAATATGAGCAAAAAG-AATAAAAATA
1 AAAAAATGAACAAAAAGAAATAAAAATA
*
11769842 AAAAAATGAACAAATAGAAATAAAAATA
1 AAAAAATGAACAAAAAGAAATAAAAATA
11769870 CTAATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.15
Consensus pattern (28 bp):
AAAAAATGAACAAAAAGAAATAAAAATA
Found at i:11771056 original size:31 final size:31
Alignment explanation
Indices: 11771019--11771085 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
11771009 GTCACATTTG
*
11771019 GATGATGTGGCAATGCCACGTGGCATCTAG-T
1 GATGATGTGGCAATGCCACATGGCA-CTAGAT
*
11771050 GATGATGTGGCAATGCTACATGGCACTAGAT
1 GATGATGTGGCAATGCCACATGGCACTAGAT
11771081 GATGA
1 GATGA
11771086 CGTGTCAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (31 bp):
GATGATGTGGCAATGCCACATGGCACTAGAT
Found at i:11771216 original size:31 final size:31
Alignment explanation
Indices: 11771173--11771256 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
11771163 TCTGCCATAT
*
11771173 TATA-GGAGCTAAATTGAACAAAAAT-ATATAG
1 TATAGGGA-CTAAATTGAACAAAAATGAGAT-G
*
11771204 TATAGGGACTAAATTGAACAAAATTGAGATG
1 TATAGGGACTAAATTGAACAAAAATGAGATG
11771235 T-TGAGGGACTAAATTGAA-AAAA
1 TAT-AGGGACTAAATTGAACAAAA
11771257 TATTTGAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
30 5 0.10
31 37 0.77
32 6 0.12
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (31 bp):
TATAGGGACTAAATTGAACAAAAATGAGATG
Found at i:11773037 original size:19 final size:19
Alignment explanation
Indices: 11773013--11773050 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11773003 CCATTTAACT
* *
11773013 TATTGGATTATGATTTGAG
1 TATTGGAGTATAATTTGAG
11773032 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
11773051 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:11773411 original size:9 final size:9
Alignment explanation
Indices: 11773399--11773426 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11773389 TTAAGGAATT
11773399 AATAAAATA
1 AATAAAATA
11773408 AATAAAATA
1 AATAAAATA
11773417 AATAAAATA
1 AATAAAATA
11773426 A
1 A
11773427 TATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAAATA
Found at i:11774438 original size:13 final size:13
Alignment explanation
Indices: 11774420--11774444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11774410 GGAGAAATTG
11774420 TGATTTTATAAAA
1 TGATTTTATAAAA
11774433 TGATTTTATAAA
1 TGATTTTATAAA
11774445 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11775865 original size:14 final size:15
Alignment explanation
Indices: 11775846--11775887 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
11775836 GATCAAAGAA
11775846 TTTGGTTTTAAAG-C
1 TTTGGTTTTAAAGTC
*
11775860 TTTGGTTTTTAAAGTT
1 TTTGG-TTTTAAAGTC
11775876 TTTGGTTTTAAA
1 TTTGGTTTTAAA
11775888 ATTGTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 5 0.20
15 15 0.60
16 5 0.20
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.57
Consensus pattern (15 bp):
TTTGGTTTTAAAGTC
Found at i:11775869 original size:15 final size:16
Alignment explanation
Indices: 11775846--11775884 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
11775836 GATCAAAGAA
11775846 TTTGG-TTTTAAAG-C
1 TTTGGTTTTTAAAGTC
*
11775860 TTTGGTTTTTAAAGTT
1 TTTGGTTTTTAAAGTC
11775876 TTTGGTTTT
1 TTTGGTTTT
11775885 AAAATTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 8 0.36
16 9 0.41
ACGTcount: A:0.15, C:0.03, G:0.21, T:0.62
Consensus pattern (16 bp):
TTTGGTTTTTAAAGTC
Found at i:11779335 original size:13 final size:13
Alignment explanation
Indices: 11779317--11779341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11779307 GGAGAAATTG
11779317 TGATTTTATAAAA
1 TGATTTTATAAAA
11779330 TGATTTTATAAA
1 TGATTTTATAAA
11779342 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11782240 original size:24 final size:23
Alignment explanation
Indices: 11782191--11782236 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11782181 TTGAGGAAAA
* *
11782191 TTTCTAAAATCATTTTAAGTAAG
1 TTTCCAAAATCATTTTAAGGAAG
11782214 TTTCCAAAATCAATTTT-AGGAAG
1 TTTCCAAAATC-ATTTTAAGGAAG
11782237 GTTTTCGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (23 bp):
TTTCCAAAATCATTTTAAGGAAG
Found at i:11785584 original size:13 final size:13
Alignment explanation
Indices: 11785566--11785590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11785556 TTTCAGAAAA
11785566 TTTATAAAATCAT
1 TTTATAAAATCAT
11785579 TTTATAAAATCA
1 TTTATAAAATCA
11785591 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11788572 original size:27 final size:28
Alignment explanation
Indices: 11788513--11788566 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
11788503 TTTACTAAAA
*
11788513 TAAATAAATAAAT-AAATAAAGATTAATG
1 TAAA-AAATAAATAAAATAAAGAATAATG
11788541 TAAAAAATAAATAAAATAAA-AATAAT
1 TAAAAAATAAATAAAATAAAGAATAAT
11788567 TGAAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (28 bp):
TAAAAAATAAATAAAATAAAGAATAATG
Found at i:11792199 original size:60 final size:60
Alignment explanation
Indices: 11792106--11792248 Score: 205
Period size: 60 Copynumber: 2.4 Consensus size: 60
11792096 TAGGAGACCA
* * * *
11792106 AAACAGAAAGTTTTTCGTTGTAGCGAGATTCAATCTCGCTGCAGAGAAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGTTGCAGCGAAATTCAATCTCGCTGCAGAGAAATTGCAACCCAG
* * * * *
11792166 AAACAGAATGTTTCTCGCTGCAGCGAAATTCAATCTTGTTGCAGCGAAATTGCAACCCAG
1 AAACAGAAAGTTTCTCGTTGCAGCGAAATTCAATCTCGCTGCAGAGAAATTGCAACCCAG
11792226 AAACAGAAAGTTTCTCGTTGCAG
1 AAACAGAAAGTTTCTCGTTGCAG
11792249 TAAGAATGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGTTGCAGCGAAATTCAATCTCGCTGCAGAGAAATTGCAACCCAG
Found at i:11792269 original size:60 final size:60
Alignment explanation
Indices: 11792106--11792272 Score: 162
Period size: 60 Copynumber: 2.8 Consensus size: 60
11792096 TAGGAGACCA
* * * * * * *
11792106 AAACAGAAAGTTTTTCGTTGTAGCGAGATTCAATC-TCGCTGCAGAGAAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCAAAATT-AATCTTCGCTGCAGCGAAATTGCAACCCAG
* * *
11792166 AAACAGAATGTTTCTCGCTGCAGCGAAATTCAATCTT-GTTGCAGCGAAATTGCAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCAAAATT-AATCTTCGCTGCAGCGAAATTGCAACCCAG
* *
11792226 AAACAGAAAGTTTCTCGTTGCAGTAAGAATGT-AT-TTCGCTGCAGCGA
1 AAACAGAAAGTTTCTCGCTGCAGCAA-AAT-TAATCTTCGCTGCAGCGA
11792273 GAAGCTACAG
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.02
60 83 0.92
61 4 0.04
62 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCAAAATTAATCTTCGCTGCAGCGAAATTGCAACCCAG
Found at i:11792358 original size:90 final size:90
Alignment explanation
Indices: 11792205--11792405 Score: 359
Period size: 90 Copynumber: 2.2 Consensus size: 90
11792195 TCAATCTTGT
*
11792205 TGCAGCGAAATTGCAACC-CAGAAACAGAAAGTTTCTCGTTGCAGTAAGAATGTATTTCGCTGCA
1 TGCAGCGAAATTGCAACCTC-GAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCA
11792269 GCGAGAAGCTACAGTGTCATTCTCAC
65 GCGAGAAGCTACAGTGTCATTCTCAC
11792295 TGCAGCGAAATTGCAACCTCGAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCAG
1 TGCAGCGAAATTGCAACCTCGAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCAG
11792360 CGAGAAGCTACAGTGTCATTCTCAC
66 CGAGAAGCTACAGTGTCATTCTCAC
* *
11792385 TGCAGCGAAAATGCATCCTCG
1 TGCAGCGAAATTGCAACCTCG
11792406 CTGCAGCGAG
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
90 106 0.99
91 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (90 bp):
TGCAGCGAAATTGCAACCTCGAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCAG
CGAGAAGCTACAGTGTCATTCTCAC
Found at i:11792778 original size:43 final size:43
Alignment explanation
Indices: 11792730--11792848 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
11792720 TCACCAGCTC
** * *
11792730 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
11792773 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
11792816 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
11792849 ATATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:11795469 original size:171 final size:170
Alignment explanation
Indices: 11795169--11796428 Score: 948
Period size: 171 Copynumber: 7.3 Consensus size: 170
11795159 AGGTCTCACA
* * * * *
11795169 GATGGCTTTCGCTTCATA-TTTC-CTGATGTAAACAACAAATTTTGATCTTTTTTAACCAAAAAT
1 GATGGCTTTCGCTTCA-AGTTTCTC-AATGCAAACATCAAATTATGATCTGTTTTAA-CAAAAAT
* * * * * *
11795232 GAAAAAAAATTAAAATTAAAATCATTTATAAGATTAGAAAACAATTTAAAGTGAGTAACTAGGCT
63 GAAAACAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCT
* *
11795297 TTCAAAGGCATGAGTAACTATAAATGGACTTTTCTTGTTAGTG
128 TTCAAAGGCATGAGTAACTATAAATGGACTTTTCTTGTCAATG
* *
11795340 GATGGCTTTCGCTTCAAGTCTCTCAATGCAAACATGAAATTATGATCTGTTTTAACAAATAATGA
1 GATGGCTTTCGCTTCAAGTTTCTCAATGCAAACATCAAATTATGATCTGTTTTAACAAA-AATGA
* * * * *
11795405 AAACGAATTCAATTTAAAATCATTTACATAG-TTATAAAACCACTTAAAGGGAG-AAATAAGGCT
65 AAACAAATTCAATTTAAAATCATTTATA-AGATTATAAAACCATTTAAAGCGAGTAACT-AGGCT
* * * * *
11795468 TTCGAAGGCTTGAG-AGACTACAAATGGACATTTCTTGTGAATG
128 TTCAAAGGCATGAGTA-ACTATAAATGGACTTTTCTTGTCAATG
* * * * *
11795511 GATGGCTTTTGCTTCACGTTTCAT-GATGTAAACCTCCAACTATGATCCCCCTCTAACTATGATC
1 GATGGCTTTCGCTTCAAGTTTC-TCAATGCAAACAT-C-A--A--A--------T---TATGATC
* * * ** *
11795575 TGTTTTAATAGGAAATGAAAACAATTTTGATTGAAAATCATTTATAAGATTATAAAACCATTTAA
48 TGTTTTAACA-AAAATGAAAACAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAA
* ** * * * *
11795640 AACGAGTAACTAGATTTTCAAAGGTATAAGTGACTATAAATGGACCTTTCTTGTCAATG
112 AGCGAGTAACTAGGCTTTCAAAGGCATGAGTAACTATAAATGGACTTTTCTTGTCAATG
* * * * * * * *
11795699 GATGCCTTTCGCTTTATGTTTC-CTGATGTAAACAACAAATTGTGATCTATTTTAACCAAAAATG
1 GATGGCTTTCGCTTCAAGTTTCTC-AATGCAAACATCAAATTATGATCTGTTTTAA-CAAAAATG
* * *
11795763 AAAA-AAATTCAATTGAAAATCATTTATAAGATTATAAAACAATTTAAAGCGAGTAACTAGGTTT
64 AAAACAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTT
* * * **
11795827 TC-GATGCGATGAGTAAATATAAAAAGACTTTTCTTGTCAATG
129 TCAAAGGC-ATGAGTAACTATAAATGGACTTTTCTTGTCAATG
* * * * ** *
11795869 GATGGCTTTCACTTCAAGTTTCTCGATACAAACATGAAATTATGAGATGTTTTAACCAATAATGA
1 GATGGCTTTCGCTTCAAGTTTCTCAATGCAAACATCAAATTATGATCTGTTTTAA-CAAAAATGA
* * * *
11795934 AAACAAATTCAATTTAAAATCATTTATTAAG-TTATAAAATCACTTCAAA-CAAGTAACAAGGCT
65 AAACAAATTCAATTTAAAATCATTTA-TAAGATTATAAAACCA-TTTAAAGCGAGTAACTAGGCT
* ** * * *
11795997 TTCGAAA-GCTTGAGTGGCTATAAATGGACTTTTCTTATGAATT
128 TTC-AAAGGCATGAGTAACTATAAATGGACTTTTCTTGTCAATG
* * * * * * * * **
11796040 GATGGCTTTCGCTTCACGTTTCAT-AACGTAAAAATCCAACTATTATCTATTTTAACAAGAAACA
1 GATGGCTTTCGCTTCAAGTTTC-TCAATGCAAACATCAAATTATGATCTGTTTTAACAA-AAATG
** * ** * * * *
11796104 AAAATGATTTTGATTTAAAATCATTTATAAGACTATAAAACTATTTAAAGTGAGTAACTAAGCTT
64 AAAACAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTT
* * * **
11796169 TCGAAGGCATGAGTGACTATAAATAGACCCTTCTTGTCAATG
129 TCAAAGGCATGAGTAACTATAAATGGACTTTTCTTGTCAATG
* * * * * * * * *
11796211 GATGCCTTTCGCTTTATGTTTCCCTATGCAAGCATCAAATTATGATTTGGTTTAACTAGAAATGA
1 GATGGCTTTCGCTTCAAGTTTCTCAATGCAAACATCAAATTATGATCTGTTTTAAC-AAAAATGA
* * *
11796276 AAACAAAATCAAATTTAAAATCATTTATAAGATTATAAAACTATTTAAAACGAGTAACTAGGCTT
65 AAACAAATTC-AATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTT
* * * * * *
11796341 TCAAA-TCAATAACTGATTATAAATGGACTTTTCTTATCAATG
129 TCAAAGGC-ATGAGTAACTATAAATGGACTTTTCTTGTCAATG
* * * * * *
11796383 GGTGGCTTTTGCTTCACGTTTC-CTGATACAAACATCCAATTATGAT
1 GATGGCTTTCGCTTCAAGTTTCTC-AATGCAAACATCAAATTATGAT
11796429 TTGTAGAATA
Statistics
Matches: 849, Mismatches: 192, Indels: 95
0.75 0.17 0.08
Matches are distributed among these distances:
169 2 0.00
170 160 0.19
171 412 0.49
172 133 0.16
173 2 0.00
174 1 0.00
175 1 0.00
177 1 0.00
182 1 0.00
184 1 0.00
185 1 0.00
186 1 0.00
187 3 0.00
188 126 0.15
189 4 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (170 bp):
GATGGCTTTCGCTTCAAGTTTCTCAATGCAAACATCAAATTATGATCTGTTTTAACAAAAATGAA
AACAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTC
AAAGGCATGAGTAACTATAAATGGACTTTTCTTGTCAATG
Found at i:11796546 original size:128 final size:129
Alignment explanation
Indices: 11796312--11796555 Score: 341
Period size: 128 Copynumber: 1.9 Consensus size: 129
11796302 ATAAGATTAT
* * * *
11796312 AAAACTATTTAAAACGAGTAACTAGGCTTTCAAATCAATAACTGATTATAAATGGACTTTTCTTA
1 AAAACTATTTAAAACGAGTAACTAAGATTTCAAATCAATAACTGACTATAAATGAACTTTTCTTA
* * * * *
11796377 TCAATGGGTGGCTTTTGCTTCACGTTTCCTGATACAAACATCCAATTATGATTTGTAGAATAAA
66 TCAATCGATGGCTTTTGCTTCACGTTTCCTAATACAAACATCAAACTATGATTTGTAGAATAAA
* *
11796441 AAAAC-ATTTAAAACGAGTAAC-AAGATTTCTAAATGC-ATGAGTGACTATAAATGAACTTTTCT
1 AAAACTATTTAAAACGAGTAACTAAGATTTC-AAAT-CAATAACTGACTATAAATGAACTTTTCT
*
11796503 TATCAATCGATGGCTTTTGCTTCACGTTTCTTAATACAAACATCAAACTATGA
64 TATCAATCGATGGCTTTTGCTTCACGTTTCCTAATACAAACATCAAACTATGA
11796556 ACTGTTTTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
127 6 0.06
128 89 0.88
129 6 0.06
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (129 bp):
AAAACTATTTAAAACGAGTAACTAAGATTTCAAATCAATAACTGACTATAAATGAACTTTTCTTA
TCAATCGATGGCTTTTGCTTCACGTTTCCTAATACAAACATCAAACTATGATTTGTAGAATAAA
Found at i:11797273 original size:24 final size:24
Alignment explanation
Indices: 11797246--11797292 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
11797236 AAAGAAAAAT
11797246 TCAATTTAAAATCATTTACAAGAC
1 TCAATTTAAAATCATTTACAAGAC
11797270 TCAATTTAAAATCATTTACAAGA
1 TCAATTTAAAATCATTTACAAGA
11797293 TTACAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (24 bp):
TCAATTTAAAATCATTTACAAGAC
Found at i:11798148 original size:171 final size:168
Alignment explanation
Indices: 11796475--11798602 Score: 1186
Period size: 171 Copynumber: 12.5 Consensus size: 168
11796465 ATTTCTAAAT
* * ** * ** *
11796475 GCATGAGTGACTATAAATGAACTTTTCTTATCAATCGATGGCTTTTGCTTCACGTTTCTTAATAC
1 GCATGAGTGACTATAAATGGACTTTTCTTA-CAA-CAATGGCTTTCACTTCATGTTTCTCGATGC
* * * * ** *
11796540 AAACATCAAACTATGAACTGTTTTAACTAGAAATGGAAAA-AATTTTGATTTAAAATCATTTATA
64 AAACATCAAATTATGATCTGTTTTAACCAAAAAT-GAAAACAA-TTCAATCTAAAATCATTTATA
* * * ** * * **
11796604 A-AGTTATAAATCCACTTAGAGCAAGTAACAAAGCTTTCAAAG
127 AGA-TTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * * * * ** * * *
11796646 ACATAAGTGATTAAAAATGAACTTTTCCTGT-CAATGTATAGCTTTCGCTTCATGTTTC-CCACT
1 GCATGAGTGACTATAAATGGACTTTT-CT-TACAA-CAATGGCTTTCACTTCATGTTTCTCGA-T
* ** * ** * * *
11796709 GGAAATTTCAATTTACAATCTGTTTTAAGCTAAAATGAAAACAATTCAATCTAAAATCTTTTATA
62 GCAAACATCAAATTATGATCTGTTTTAACCAAAAATGAAAACAATTCAATCTAAAATCATTTATA
* * *
11796774 AGATTA-AAAACTATTTCAAGTGAGTAATTAGGCATTTT-AAG
127 AGATTATAAAACCATTTAAAGTGAGTAACTAGGC-TTTTGAAG
* * * * * * *
11796815 GCATGAGTGACAATAAATGGACTTTTCTCAACAATAGATGGCTTTCACTTTACGTTTCCCAATGC
1 GCATGAGTGACTATAAATGGACTTTTCT-TACAACA-ATGGCTTTCACTTCATGTTTCTCGATGC
* * * * * * *** *
11796880 AAACATCAAATTATGATATGTTTTAACCAAAAATGGAAATAGTTTAATCTAATATTGCTTATCAG
64 AAACATCAAATTATGATCTGTTTTAACCAAAAATGAAAACAATTCAATCTAAAATCATTTATAAG
** * *
11796945 ATTATAAAACCATTTAAAGCAAGTAACTA-GATTTTCAAAG
129 ATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTT-GAAG
* * * ** ** *
11796985 GCGTGAGTGACTATAAATAGACTTTTCTTATCAATAGATGATTTTTGCTTCATGTTTCTC-ATTC
1 GCATGAGTGACTATAAATGGACTTTTCTTA-CAACA-ATGGCTTTCACTTCATGTTTCTCGATGC
* * * *
11797049 AAAAAAATCAAATTATCATCTGCTTTAACCAAAAATGAATAAAAAATTCAAT-TACAAATCATTT
64 --AAACATCAAATTATGATCTGTTTTAACCAAAAATG-A-AAACAATTCAATCTA-AAATCATTT
* * * * * *
11797113 ATAAGATTATGAAACCATTTAAAATGAGTAACTAGACATTCGAAA
124 ATAAGATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * * * ** ** * *
11797158 GCATGAATGACTATAAATAGA--TTTCATTTACATTTCTCATTCCAAAAATCAAATT-ATG-ATC
1 GCATGAGTGACTATAAATGGACTTTTC--TTACA--AC-AATGGC---TTTC-ACTTCATGTTTC
** * ** ** ** ** * * * * * * *
11797219 TACTTTGACAAAAAAAAAAAGAAAAAT-TCAATTTAA--AATCATTTACAA-GACTCAATTTAAA
57 T-CGATG-C-AAACATCAAATTATGATCT-GTTTTAACCAA-AAATGAAAACAATTCAATCTAAA
* * * * * * *
11797280 ATCATTTACAAGATTACAAAACCA-TTAAA-TCAAGTAAGTAGACTTTCGAGG
117 ATCATTTATAAGATTATAAAACCATTTAAAGT-GAGTAACTAGGCTTTTGAAG
* * * * * * ** * * * *
11797331 GGATAAGTGACTATGAATGTACTTTTTTTGTCAATTGATGGCTTTCGCTTCATGTTTCACTATGT
1 GCATGAGTGACTATAAATGGACTTTTCTT-ACAA-CAATGGCTTTCACTTCATGTTTCTCGATGC
* * *
11797396 AAACATC-AATTATGATCTGTTTTAA-CAAGAAATAAAAACAATTCAATGTAAAATCATCTATAA
64 AAACATCAAATTATGATCTGTTTTAACCAA-AAATGAAAACAATTCAATCTAAAATCATTTATAA
* *
11797459 CATTATAAAACCATTTAAAGTGAGTAGCTAGGCTTTTGAAG
128 GATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * ** *** *
11797500 GCATGAGTGACTTTAAATGGACTTTTCTTTTCAATCAATGGCTTTTGCTTTGCGTTTCTAGATGC
1 GCATGAGTGACTATAAATGGACTTTTC-TTACAA-CAATGGCTTTCACTTCATGTTTCTCGATGC
* ** * * * * *
11797565 AAACATCAATTTGCGATCTGTTTTAACTAAAAATAAAAAAAAATT-AATTTAAAATCATTTTTAA
64 AAACATCAAATTATGATCTGTTTTAACCAAAAAT-GAAAACAATTCAATCTAAAATCATTTATAA
* *
11797629 GATTATAAAACCATTTCAAGTGAGTAACTAGACTTTTGAAG
128 GATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * *
11797670 GCATGAGTGA-TAATAAATGAACTTTTCTCGACAACACATGGTTTTCACTTCATGTTTCTCGATG
1 GCATGAGTGACT-ATAAATGGACTTTTCT-TACAACA-ATGGCTTTCACTTCATGTTTCTCGATG
* * * * **
11797734 TAAACATCAAATTAAGATCT-ATTTAACAAAAAATGAAAGTAATTCAA-CATAAAATCATTTATA
63 CAAACATCAAATTATGATCTGTTTTAACCAAAAATGAAAACAATTCAATC-TAAAATCATTTATA
* * * **
11797797 AGATTATAAAACCATTTAGAGCGAGTAGCTAGGCTTTCAAAG
127 AGATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * * * * *
11797839 GCATGA---A-TTTAAATGG-CTTTTTCTTTTCAATCAATGGCTTTCACTTCGTGTTGCCCAATG
1 GCATGAGTGACTATAAATGGAC-TTTTC-TTACAA-CAATGGCTTTCACTTCATGTTTCTCGATG
* * ** * * * * *
11797899 CAAACATC-AATATACGACCCATTTTAACTAAAAATGAAAAAAAAATT-AGTGTGAAATCATTTA
63 CAAACATCAAAT-TATGATCTGTTTTAACCAAAAATG--AAAACAATTCAATCTAAAATCATTTA
*
11797962 TAAGATTATAAAACCATTTCAAGTGAGTAACTAGGCTTTTGAAG
125 TAAGATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * * * *
11798006 GCATGAGTGACAATAAACGGACTTTTCGTGACAACGAATGACTTTCACTTTATGTTT-TCCGATG
1 GCATGAGTGACTATAAATGGACTTTTC-TTACAAC-AATGGCTTTCACTTCATGTTTCT-CGATG
* * * *
11798070 CAAACATCAAATTATGATTTGTTTTAGCCAAAAATGAAAACAATGCAATCTAAAATCATTAATAA
63 CAAACATCAAATTATGATCTGTTTTAACCAAAAATGAAAACAATTCAATCTAAAATCATTTATAA
*
11798135 GATTATGAAAACCATTTAAAATGAGTAACTAGGCTTTTGAAG
128 GATTAT-AAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * ** * * * *
11798177 GCATGAGTGGCTATAAATGGACTTTTCTTATCAATAGATGGCTTTTGCTCCACGTTTCTCAATCC
1 GCATGAGTGACTATAAATGGACTTTTCTTA-CAACA-ATGGCTTTCACTTCATGTTTCTCGATGC
* * * *
11798242 AAAAATCAAATTATCATCTGTTTTAACCAAAAATGAAAACGAATTCAATTTCAAATCATTTATAA
64 AAACATCAAATTATGATCTGTTTTAACCAAAAATGAAAAC-AATTCAATCTAAAATCATTTATAA
* * * *
11798307 GATTATGAAACCATTTTAAGCGAGTAACTAGACTTTTGAAG
128 GATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * * * ** * * * *
11798348 GAATGAGTGTCTGTTAATGGACTTTTCTTATCAATGGATAGCTTTCGCTTCACGTTTC-CTAATG
1 GCATGAGTGACTATAAATGGACTTTTCTTA-CAA-CAATGGCTTTCACTTCATGTTTCTC-GATG
* * * ** * * *
11798412 CAAACATCAAATTATGATATGTTTTATCTAGAAATAAAAAAAAAATT-AATTTAGAATCATTTAT
63 CAAACATCAAATTATGATCTGTTTTAACCA-AAA-ATGAAAACAATTCAATCTAAAATCATTTAT
* * * * *
11798476 AA-AGTTATAAATCCACTTAAAGTGAGTAACAAGGCCTTCGAAG
126 AAGA-TTATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
* * * * *** **
11798519 GAATGAGTGATTGTAAATGGACTTGTC--A-ATGGATGGCTTTTGCTTCATGTTTC-CGAATGCA
1 GCATGAGTGACTATAAATGGACTTTTCTTACAACAATGGCTTTCACTTCATGTTTCTCG-ATGCA
* *
11798580 AACATCAATTTACGATCTGTTTT
65 AACATCAAATTATGATCTGTTTT
11798603 TGTGAGACCT
Statistics
Matches: 1498, Mismatches: 376, Indels: 171
0.73 0.18 0.08
Matches are distributed among these distances:
164 4 0.00
165 48 0.03
166 74 0.05
167 69 0.05
168 52 0.03
169 280 0.19
170 268 0.18
171 468 0.31
172 48 0.03
173 110 0.07
174 35 0.02
175 7 0.00
176 6 0.00
177 8 0.01
178 20 0.01
179 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (168 bp):
GCATGAGTGACTATAAATGGACTTTTCTTACAACAATGGCTTTCACTTCATGTTTCTCGATGCAA
ACATCAAATTATGATCTGTTTTAACCAAAAATGAAAACAATTCAATCTAAAATCATTTATAAGAT
TATAAAACCATTTAAAGTGAGTAACTAGGCTTTTGAAG
Found at i:11799825 original size:19 final size:19
Alignment explanation
Indices: 11799788--11799825 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11799778 TGTGTTGTGC
*
11799788 ATGATGATTGATATTGTGT
1 ATGATGATTGATATCGTGT
11799807 ATGATGATTG-TAATCGTGT
1 ATGATGATTGAT-ATCGTGT
11799826 GTGGGCACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (19 bp):
ATGATGATTGATATCGTGT
Found at i:11799926 original size:19 final size:19
Alignment explanation
Indices: 11799902--11800000 Score: 67
Period size: 19 Copynumber: 5.1 Consensus size: 19
11799892 TGCCCGTGTG
11799902 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
11799921 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
11799940 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
** *
11799959 CACGATG-GCGCCGGCTATGTG
1 CACGATGTG-G--GGGGATGTA
11799980 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
11799999 CA
1 CA
11800001 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
18 4 0.07
19 35 0.62
20 3 0.05
21 13 0.23
22 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.41, T:0.20
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:11799949 original size:38 final size:40
Alignment explanation
Indices: 11799898--11800000 Score: 156
Period size: 38 Copynumber: 2.6 Consensus size: 40
11799888 ATAGTGCCCG
*
11799898 TGTGCACGATGTGGGGGGATGTACACGATGGC-ACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGACGGATA
* * *
11799936 TGTGCACGATGTGGGGGGATGCACACGATGGCGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGACGGATA
11799976 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
11800001 TGAGCCGGGT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 31 0.53
39 3 0.05
40 24 0.41
ACGTcount: A:0.19, C:0.17, G:0.42, T:0.21
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCGACGGATA
Found at i:11802294 original size:170 final size:173
Alignment explanation
Indices: 11801959--11802333 Score: 424
Period size: 170 Copynumber: 2.2 Consensus size: 173
11801949 ATGAGTGATT
** * * * * * * * *
11801959 TTTG-TTATCAATGGATGATTTTCACTTGACGTTTCTTGATT-CAAACATCAAATTATGATCTGT
1 TTTGCTTATCAATGGATGGCTTTCGCTTCACATTTC-TCATTCCAAAAATCAAATTATCATATGC
* * * * *
11802022 TTTAATCAAAAATAAAAAAAAAAATTCATTTTAAAATCTTTTATAAAGTTATAACATCACTTGAA
65 TTTAAACAAAAATAAAAAAAAAAATTCAATTTAAAATCATTTATAAAGTTATAACACCACTTAAA
* * *
11802087 GTAAGTAACAAGGCTTTCGAATACATGAGTGACTATAAATGGAC
130 GCAAGTAACAAGACTTTCGAATACATGAGTAACTATAAATGGAC
* *
11802131 TTTGCTTGTCAATGGATGGCTTTCGTTTCACATTTCTCATTCCAAAAATCAAATTATCATATGCT
1 TTTGCTTATCAATGGATGGCTTTCGCTTCACATTTCTCATTCCAAAAATCAAATTATCATATGCT
* *
11802196 TTAAACAAAAAT-GAAAAAAAAA-T-AATTTAAAATCATTTAT-AAGATTATGAA-ACCATTTAA
66 TTAAACAAAAATAAAAAAAAAAATTCAATTTAAAATCATTTATAAAG-TTAT-AACACCACTTAA
* * *
11802256 AGCGAGTAACTAGACTTTTGAA-AGCATGAGTAACTATAAATGGAC
129 AGCAAGTAACAAGACTTTCGAATA-CATGAGTAACTATAAATGGAC
*
11802301 TTTTCTTATCAATGGATGGCTTTCGCTTCACAT
1 TTTGCTTATCAATGGATGGCTTTCGCTTCACAT
11802334 CTCTTGATGC
Statistics
Matches: 170, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
169 4 0.02
170 92 0.54
171 3 0.02
172 17 0.10
173 54 0.32
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (173 bp):
TTTGCTTATCAATGGATGGCTTTCGCTTCACATTTCTCATTCCAAAAATCAAATTATCATATGCT
TTAAACAAAAATAAAAAAAAAAATTCAATTTAAAATCATTTATAAAGTTATAACACCACTTAAAG
CAAGTAACAAGACTTTCGAATACATGAGTAACTATAAATGGAC
Found at i:11802432 original size:139 final size:139
Alignment explanation
Indices: 11802220--11802470 Score: 339
Period size: 139 Copynumber: 1.8 Consensus size: 139
11802210 AAAAAAAATA
* * * * *
11802220 ATTTAAAATCATTTATAAGATTATGAAACCATTTAAAGCGAGTAACTAGACTTTTGAAAGCATGA
1 ATTTAAAATCATTTATAAGATTATGAAACAACTTAAAGCAAGTAACAAGACTTTCGAAAGCATGA
* *
11802285 GTAACTATAAATGGACTTTTCTTATCAATGGATGGC-TTTCGCTTCACATCTCTTGATGCAAACA
66 ATAACTATAAATGGACTTTTCTTATCAATAGATGGCATTT-GCTTCACATCTCTTGATGCAAACA
11802349 TCCAATTTTG
130 TCCAATTTTG
* *
11802359 ATTTAGAATCATTTATAA-AGTTAT-AAATCAACTTAAAGCAAGTAACAA-AGCTTTCGAAGGCA
1 ATTTAAAATCATTTATAAGA-TTATGAAA-CAACTTAAAGCAAGTAACAAGA-CTTTCGAAAGCA
* *
11802421 TGAATGACTATAAATGGACTTTTCTTGTCAATAGATGGCATTTGCTTCAC
63 TGAATAACTATAAATGGACTTTTCTTATCAATAGATGGCATTTGCTTCAC
11802471 GTTTCCCAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 5 0.05
139 89 0.92
140 3 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (139 bp):
ATTTAAAATCATTTATAAGATTATGAAACAACTTAAAGCAAGTAACAAGACTTTCGAAAGCATGA
ATAACTATAAATGGACTTTTCTTATCAATAGATGGCATTTGCTTCACATCTCTTGATGCAAACAT
CCAATTTTG
Found at i:11802625 original size:309 final size:309
Alignment explanation
Indices: 11802051--11802632 Score: 746
Period size: 309 Copynumber: 1.9 Consensus size: 309
11802041 AAAAATTCAT
* * * * * *
11802051 TTTAAAATCTTTTATAAAGTTATAACATCACTTGAAGTAAGTAACAAGGCTTTCGAATACATGAG
1 TTTAAAATCATTTATAAAGTTATAACATCACTTAAAGCAAGTAACAAAGCTTTCGAAGACATGAA
* * * *
11802116 TGACTATAAATGGACTTTGCTTGTCAATGGATGGCTTTCGTTTCACATTTCTCATTCCAAAAATC
66 TGACTATAAATGGACTTTGCTTGTCAATAGATGGCTTTCGCTTCACATTTCCCAATCCAAAAATC
* *
11802181 AAATTATCATATGCTTTAAACAAAAATGAAAAAAAAATAATTTAAAATCATTTATAAGATTATGA
131 AAATTATCATATGCTTTAAACAAAAATGAAAAAAAAATAATCTAAAATCATTTATAAGATTATAA
* * *
11802246 AACCATTTAAAGCGAGTAACTAGACTTTTGAAAGCATGAGTAACTATAAATGGACTTTTCTTATC
196 AACCATTTAAAGCGAGTAACTAGACTTTTCAAAGCATGAGTAACTATAAATGGACTCTTCTGATC
*
11802311 AATGGATGGCTTTCGCTTCACATCTCTTGATGCAAACATCCAATTTTGA
261 AATGGATAGCTTTCGCTTCACATCTCTTGATGCAAACATCCAATTTTGA
* *
11802360 TTTAGAATCATTTATAAAGTTATAA-ATCAACTTAAAGCAAGTAACAAAGCTTTCGAAGGCATGA
1 TTTAAAATCATTTATAAAGTTATAACATC-ACTTAAAGCAAGTAACAAAGCTTTCGAAGACATGA
* * * *
11802424 ATGACTATAAATGGACTTTTCTTGTCAATAGATGGCATTT-GCTTCACGTTTCCCAATGCAAACA
65 ATGACTATAAATGGACTTTGCTTGTCAATAGATGGC-TTTCGCTTCACATTTCCCAATCCAAAAA
* * * * * * *
11802488 TCAATTTA-CAATATGTTTTAACCCAAAATG-AAAATAATTCAATCTAAAATTATTTATAAGATT
129 TCAAATTATC-ATATGCTTTAAACAAAAATGAAAAAAAAAT-AATCTAAAATCATTTATAAGATT
* * * * *
11802551 ATAAAACCTTTTCAAGTGAGTAACTAGGC-TTTCAAAGGCATGAGTGA-TAATAAATGGACTCTT
192 ATAAAACCATTTAAAGCGAGTAACTAGACTTTTCAAA-GCATGAGTAACT-ATAAATGGACTCTT
11802614 CTCGA-CAATGGATAGCTTT
255 CT-GATCAATGGATAGCTTT
11802633 TACTTCACGT
Statistics
Matches: 232, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
308 18 0.08
309 210 0.91
310 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (309 bp):
TTTAAAATCATTTATAAAGTTATAACATCACTTAAAGCAAGTAACAAAGCTTTCGAAGACATGAA
TGACTATAAATGGACTTTGCTTGTCAATAGATGGCTTTCGCTTCACATTTCCCAATCCAAAAATC
AAATTATCATATGCTTTAAACAAAAATGAAAAAAAAATAATCTAAAATCATTTATAAGATTATAA
AACCATTTAAAGCGAGTAACTAGACTTTTCAAAGCATGAGTAACTATAAATGGACTCTTCTGATC
AATGGATAGCTTTCGCTTCACATCTCTTGATGCAAACATCCAATTTTGA
Found at i:11802655 original size:170 final size:169
Alignment explanation
Indices: 11802359--11805908 Score: 3062
Period size: 170 Copynumber: 20.9 Consensus size: 169
11802349 TCCAATTTTG
* * * * * * * *
11802359 ATTTAGAATCATTTATAA-AGTTATAAATCAACTTAAAGCAAGTAACAAAGCTTTCGAAGGCATG
1 ATTTAAAATCATTTATAAGA-TTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATG
* * * *
11802423 AATGACTATAAATGGACTTTTCTTGTCAATAGATGGCATTT-GCTTCACGTTTCCCAATGCAAAC
65 AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGC-TTTCACTTCACGTTTCTCAATGCAAAC
* ** * *
11802487 ATCAATTTACAATATGTTTTAACCCAAAATGAAAATAATTCA
129 ATCAAATTATGATCTGTTTTAACCAAAAATGAAAA-AATTCA
* * * * *
11802529 ATCTAAAATTATTTATAAGATTATAAAACCTTTTCAAGTGAGTAACTAGGCTTTCAAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * * *
11802594 GTGA-TAATAAATGGACTCTTCTCGACAATGGATAGCTTTTACTTCACGTTTATCGATGCAAACA
66 GTGACT-ATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAACA
* * **
11802658 T-AAATTATGATATGTTTTAACCAAACAATGGAAATAGCTCA
130 TCAAATTATGATCTGTTTTAACCAAA-AAT-GAAAAAATTCA
** * * * **
11802699 ATCCAAAATCACTTCTAAGATTATAAAACTATTTAAAGCGAGTAACTAAACTTTCAAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * *
11802764 GTGACTATAAATGGACTTTTGTTGTCAGTGGATGGCTTTCACTTCACATTTCAC-ATTCTAAAAA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGC-AAACA
* * **
11802828 TCAAATTATCATCTGCTTTAAGTAAAAATGAAAAAAAAATTCA
130 TCAAATTATGATCTGTTTTAACCAAAAATG---AAAAAATTCA
* ** * **
11802871 ATTTAAAATCA-TTATAAGATTATGAAACCATTTAAAGTAAGTAAGTAGATTTTCAAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * *
11802935 GTGATTGTAAATGGACTTTTCCTATCAATGGATGGCTTTCGCTTCATGTTTC-CTAATGCAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTC-AATGCAAACA
* * *
11802999 TCAAATTATAATCTATTGTAACCAAAAATGAAAACAATTCA
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAA-AATTCA
* * * * * * *
11803040 ATGTAAGATCATTTATAAGATTATAAAACCATTTAAAGC-ATGTAGCAAGGCTTTCAACGGTATA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGA-GTAACTAGGCTTTCAAAGGCATG
* * *
11803104 AGTGAATATAAATGGACTTTTCTTGTCAATGGATGGCTTTCATTTCACGTTTCCCAATGCAAACA
65 AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAACA
* * * *
11803169 TCAATTTACGATCTGTTTTAAACTAAAATGAAAAGAATTCA
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAA-AATTCA
* * * * ** * *
11803210 ATTTAAAATCATCTGTAAGAATATAAAACCACTCCAAGCGAGTAAGTAGGCTTT-GAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * ** *
11803274 GTGACAATAAATGCACTTTTCTTGACAACGCATGGCTTTTGCTTCATC-TTTC-CTAACGCAAAC
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCA-CGTTTCTC-AATGCAAAC
* *
11803337 ATCAAATTATAATCTGTTTT-ACTCAAAAATGAAAAAATTTA
129 ATCAAATTATGATCTGTTTTAAC-CAAAAATGAAAAAATTCA
** * * * *
11803378 ATTTAAAATCATTTATAA-ATTTATAAAGTCACTTAAAGCGAGTAACAAGGCTTTTGAATATG--
1 ATTTAAAATCATTTATAAGA-TTATAAAACCATTTAAAGCGAGTAACTAGGC-TTTCAA-AGGCA
** * * * * *
11803440 TGAACGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTTACTTCAAGTTTCTCATTCCAAA
63 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAA
* * ** *
11803505 AATCAAATTATCATCTGCCTTAACCAAAAATTTAAAAAAATT-A
128 CATCAAATTATGATCTGTTTTAACCAAAAA--TGAAAAAATTCA
* * *
11803548 ATTTAAAATCATTTA-AA-ATTATGAAACCA-TTAAAGCGAGTAACTAGACTTTCAAAAGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * * * *** * *
11803610 GTGATTATAAATGAACATTTCTTATCAGTGGATAGCTTTCGCTTTGTGTTTCTCATTGTAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAACAT
* * *
11803675 CAAATTATGATCTGGTTTAAGCAGAAATGAAAACAATTCA
131 CAAATTATGATCTGTTTTAACCAAAAATGAAAA-AATTCA
* * * * * * *
11803715 ATGTATAATCATATATAAGATTATAAAATCATTTAAAGCGAATAGCTAGGCTTTCTAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * ** * * *
11803780 CTGACAATAAATGGACTTTTCTTCTCAATCAATGGCTTTCAGTTCACGTTTCCCAATACAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAACAT
* * *
11803845 CAATTTATGATCTGTTTTTACCTAAAATGAAAAAAAATT-A
131 CAAATTATGATCTGTTTTAACCAAAAATG--AAAAAATTCA
* * * * * *
11803885 ATTTAAAATCATTTTTAAGATTATAAAACCATTTCAAGTGAGTAACAAGGCTTCTGAATGTG--T
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTT-TCAAAG-GCAT
** * * * * *
11803948 GAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGTTTCATGTTTCTTATTCCAAAA
64 GAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAAC
*
11804013 ATCAAATTATCATCT-TCTTTAACCAAAAATGAAAAAAAATTCA
129 ATCAAATTATGATCTGT-TTTAACCAAAAATG--AAAAAATTCA
* * *
11804056 ATTTAAAATCATTTATAAAATTATGAAACCATTTAAAGCGAGTAACTAGGCTTTCAGAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * ** *
11804121 GTGACTATAAGTGGACTTTTCTTGTCAATAGATGGCTTTCGCTTCATATTTCTTAATGCAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAACAT
* * ** * *
11804186 CCAATTATGATCTATGCTAACC-AAAATTAAAAACACTACA
131 CAAATTATGATCTGTTTTAACCAAAAATGAAAAA-A-TTCA
* * * ** * * * *
11804226 ATCTAAAATCATTTACGAAG-TTATAAAACCACTTAAAATGAGTAACAAGGCTTTCGAAGGCTTA
1 ATTTAAAATCATTTA-TAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATG
* * * * *
11804290 AGTGATTATAAATGGACTTTTCTTGTGAATAGATGGCTTTCAGTTCACATTTCAT-AATGCAAAC
65 AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTC-TCAATGCAAAC
* * * * * * **
11804354 ATCCAACTATCATCTGTTTT-AGCAGTAAA-CAAAAATGATTTTG
129 ATCAAATTATGATCTGTTTTAACCA-AAAATGAAAAA--A-TTCA
** *
11804397 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTTGAAGGCATGG
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * *
11804462 GTGACTATAAATGCACTTTTATTGTCAATGGATGGCGTTT-ACTTCATGTTTCTTAATGCAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGC-TTTCACTTCACGTTTCTCAATGCAAACA
* * * **
11804526 TCCAATTATGATCTATCTTAA-CAAGAAATGAAAAACATTTTG
130 TCAAATTATGATCTGTTTTAACCAA-AAATGAAAAA-A-TTCA
* * * * * * *
11804568 ACTTACAATCACTTATAAGATTATAAAACCATTTAAAGCAAGCAACTAGGTTTTCGAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
** * ** *
11804633 GTGACTATATGTGGACTTTTCTTGTCAATGGATGACTTTCACTTCATC-TTTCTTGATGCAAATA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCA-CGTTTCTCAATGCAAACA
* * * *
11804697 TGAAATGATGATC-GATTTTAACTAAAAATAAAAAAATTCA
130 TCAAATTATGATCTG-TTTTAACCAAAAATGAAAAAATTCA
* * * ** * * **
11804737 ATTTCAAGTCATTTATAAGATTATAAAACAATTTAAAGAAAGCAATTAGGCTTTGGAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * *
11804802 GTGACTATAAGTGCACTTTTCTTTTCAATGGATGGCTTTCATTTCACATTTCTCAATGCAACACG
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAA-ACA
* * * * * **
11804867 TCCAATTATAATCTGTTTTAGCTAGAAATGAAAAACATTTTG
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAAA-A-TTCA
* * * * *
11804909 ACTTACAATCATTTTTAAGATTATAAAACCATTTAAAGTGAGTAACTAGGCTTTCGAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * ** * * **
11804974 GTAATTACAAGTGAACTTTTCTTGTCAATGGATGAG-TTTTGCGTCACATTTCTTGATGCAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATG-GCTTTCACTTCACGTTTCTCAATGCAAACA
*
11805038 TCAAATTATGATCAGTTTTAACCAAAAATGAAAAAAAATTCA
130 TCAAATTATGATCTGTTTTAACCAAAAATG--AAAAAATTCA
* * * * * *
11805080 ATTCAAACTCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAGAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
** * ** *
11805145 GTGACTATAAATGGACTTTTCTTACCAATGGATAGCTTTCACTTCACAATTC-CTGATGCAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTC-AATGCAAACA
* * * * * *
11805209 GCAAGTTATGATGTGTTTTGAGCAAAAATCAAAAGAATTCA
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAA-AATTCA
* * ** * * * *
11805250 AATTAAAATGATTTATAAGATTATAAAACCATTTAAAGTTAGTGACAAGGCTTCCGAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
** * * *
11805315 GTGACTATAAATAAACTTTTGTTGTCAATGGATGGCATTCACTTCACGTTTCT-AGATGCCAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCA-ATGCAAACA
* * ** * ** **
11805379 TCCAACTACCATATGCTTTTAACCAAAAATGAAAATTCTTTTG
130 TCAAATTATGATCTG-TTTTAACCAAAAATGAAAA--AATTCA
* * * * *
11805422 ATTTAAAATCATTTATAAGATTATAAAACCACTTAAAACAAGTACCCTA-GCTTTCGAAGGCACT
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTA-ACTAGGCTTTCAAAGGCA-T
* * ** * ** * * *
11805486 -TGTGACTATAAATGGACTTTTCTTGGCAATAAATGGATTTTGCTTCATC-TTTCCCAATTCACA
64 GAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCA-CGTTTCTCAATGCAAA
* * **
11805549 CATCCAA-TATGATCTATTTTAATGAAAAATGAAAAAATTCA
128 CATCAAATTATGATCTGTTTTAACCAAAAATGAAAAAATTCA
* * * * * *
11805590 ATTTGAAACCATTTATAAGATTATAAATCCATTTCAAGTGAGTAACTAGGCATTCAAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
*
11805655 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTT-TCAAATACAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTC-AATGCAAAC-
* * * *
11805719 AT-AAATTATGATGTATTTTAACCATAAATGAAAAAAATCA
129 ATCAAATTATGATCTGTTTTAACCAAAAATGAAAAAATTCA
* * * * * * *
11805759 ATCTAAAATGATGTATAAGATTATAAAACCATTTAAAGTGATTAACGAGGCTTCCAAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* ** * * *
11805824 GTGACTATAAATGCACTTTTCTTGTCAATGGATAAC-TTCACTTTATGTTTCTCGATGCAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAACAT
* *
11805888 CCAATTATGATATGTTTTAAC
131 CAAATTATGATCTGTTTTAAC
11805909 TAGGAATGAA
Statistics
Matches: 2708, Mismatches: 582, Indels: 182
0.78 0.17 0.05
Matches are distributed among these distances:
165 7 0.00
166 9 0.00
167 112 0.04
168 204 0.08
169 453 0.17
170 940 0.35
171 729 0.27
172 243 0.09
173 11 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (169 bp):
ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCTCAATGCAAACAT
CAAATTATGATCTGTTTTAACCAAAAATGAAAAAATTCA
Found at i:11803061 original size:341 final size:340
Alignment explanation
Indices: 11802359--11807529 Score: 4231
Period size: 341 Copynumber: 15.3 Consensus size: 340
11802349 TCCAATTTTG
* * * * * * * *
11802359 ATTTAGAATCATTTATAA-AGTTATAAATCAACTTAAAGCAAGTAACAAAGCTTTCGAAGGCATG
1 ATTTAAAATCATTTATAAGA-TTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATG
* * * *
11802423 AATGACTATAAATGGACTTTTCTTGTCAATAGATGGCATTT-GCTTCACGTTTCCCAATGCAAAC
65 AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGC-TTTCACTTCACGTTTCACAATGCAAAC
* ** * * * * *
11802487 ATCAATTTACAATATGTTTTAACCCAAAATG-AAAATAATTCAATCTAAAATTATTTATAAGATT
129 ATCAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATT
* * *
11802551 ATAAAACCTTTTCAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGA-TAATAAATGGACTCTTC
194 ATAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACT-ATAAATGGACTTTTC
* * * ** * * *
11802615 TCGACAATGGATAGCTTTTACTTCACGTTT-ATCGATGCAAACAT-AAATTATGATATGTTTTAA
258 TTGTCAATGGATGGCTTTCGCTTCACGTTTCCT-AATGCAAACATCAAATTATGATCTGTTTTAA
* **
11802678 CCAAACAATGGAAATAGCTCA
322 CCAAA-AAT-GAAAAAATTCA
** * * * **
11802699 ATCCAAAATCACTTCTAAGATTATAAAACTATTTAAAGCGAGTAACTAAACTTTCAAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * *
11802764 GTGACTATAAATGGACTTTTGTTGTCAGTGGATGGCTTTCACTTCACATTTCAC-ATTCTAAAAA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGC-AAACA
* * **
11802828 TCAAATTATCATCTGCTTTAAGTAAAAATGAAAAAAAAATTCAATTTAAAATCA-TTATAAGATT
130 TCAAATTATGATCTGTTTTAACCAAAAATG-AAAAAAAATTCAATTTAAAATCATTTATAAGATT
* * * ** * * *
11802892 ATGAAACCATTTAAAGTAAGTAAGTAGATTTTCAAAGGCATGAGTGATTGTAAATGGACTTTTCC
194 ATAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCT
* * * * *
11802957 TATCAATGGATGGCTTTCGCTTCATGTTTCCTAATGCAAACATCAAATTATAATCTATTGTAACC
259 TGTCAATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAATTATGATCTGTTTTAACC
11803022 AAAAATGAAAACAATTCA
324 AAAAATGAAAA-AATTCA
* * * * * * *
11803040 ATGTAAGATCATTTATAAGATTATAAAACCATTTAAAGC-ATGTAGCAAGGCTTTCAACGGTATA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGA-GTAACTAGGCTTTCAAAGGCATG
* * *
11803104 AGTGAATATAAATGGACTTTTCTTGTCAATGGATGGCTTTCATTTCACGTTTCCCAATGCAAACA
65 AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAAACA
* * * * * * * *
11803169 TCAATTTACGATCTGTTTTAAACTAAAATG-AAAAGAATTCAATTTAAAATCATCTGTAAGAATA
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTA
* ** * * * * *
11803233 TAAAACCACTCCAAGCGAGTAAGTAGGCTTT-GAAGGCATGAGTGACAATAAATGCACTTTTCTT
195 TAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * * *
11803297 GACAACGCATGGCTTTTGCTTCATC-TTTCCTAACGCAAACATCAAATTATAATCTGTTTT-ACT
260 GTCAATGGATGGCTTTCGCTTCA-CGTTTCCTAATGCAAACATCAAATTATGATCTGTTTTAAC-
*
11803360 CAAAAATGAAAAAATTTA
323 CAAAAATGAAAAAATTCA
** * * * *
11803378 ATTTAAAATCATTTATAA-ATTTATAAAGTCACTTAAAGCGAGTAACAAGGCTTTTGAATATG--
1 ATTTAAAATCATTTATAAGA-TTATAAAACCATTTAAAGCGAGTAACTAGGC-TTTCAA-AGGCA
** * * * * * *
11803440 TGAACGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTTACTTCAAGTTTCTCATTCCAAA
63 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAAA
* * ** **
11803505 AATCAAATTATCATCTGCCTTAACCAAAAATTTAAAAAAATT-AATTTAAAATCATTTA-AA-AT
128 CATCAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGAT
* * * * * * *
11803567 TATGAAACCA-TTAAAGCGAGTAACTAGACTTTCAAAAGCATGAGTGATTATAAATGAACATTTC
193 TATAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTC
* * * *** * * *
11803631 TTATCAGTGGATAGCTTTCGCTTTGTGTTT-CTCATTGTAAACATCAAATTATGATCTGGTTTAA
258 TTGTCAATGGATGGCTTTCGCTTCACGTTTCCT-AATGCAAACATCAAATTATGATCTGTTTTAA
* *
11803695 GCAGAAATGAAAACAATTCA
322 CCAAAAATGAAAA-AATTCA
* * * * * * *
11803715 ATGTATAATCATATATAAGATTATAAAATCATTTAAAGCGAATAGCTAGGCTTTCTAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * ** * * *
11803780 CTGACAATAAATGGACTTTTCTTCTCAATCAATGGCTTTCAGTTCACGTTTCCCAATACAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAAACAT
* * * *
11803845 CAATTTATGATCTGTTTTTACCTAAAATGAAAAAAAATT-AATTTAAAATCATTTTTAAGATTAT
131 CAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTAT
* * * *
11803909 AAAACCATTTCAAGTGAGTAACAAGGCTTCTGAATGTG--TGAGTGACTATAAATGGACTTTTCT
196 AAAACCATTTAAAGTGAGTAACTAGGCTT-TCAAAG-GCATGAGTGACTATAAATGGACTTTTCT
* * * * * * *
11803972 TGTCAATGGATGGCTTTCGTTTCATGTTTCTTATTCCAAAAATCAAATTATCATCT-TCTTTAAC
259 TGTCAATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAATTATGATCTGT-TTTAAC
11804036 CAAAAATGAAAAAAAATTCA
323 CAAAAATG--AAAAAATTCA
* * *
11804056 ATTTAAAATCATTTATAAAATTATGAAACCATTTAAAGCGAGTAACTAGGCTTTCAGAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * ** **
11804121 GTGACTATAAGTGGACTTTTCTTGTCAATAGATGGCTTTCGCTTCATATTTCTTAATGCAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAAACAT
* * ** * * * * * *
11804186 CCAATTATGATCTATGCTAACC-AAAATTAAAAACACTACAATCTAAAATCATTTACGAAG-TTA
131 CAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTA-TAAGATTA
* * * * * * *
11804249 TAAAACCACTTAAAATGAGTAACAAGGCTTTCGAAGGCTTAAGTGATTATAAATGGACTTTTCTT
195 TAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * * * * *
11804314 GTGAATAGATGGCTTTCAG-TTCACATTTCATAATGCAAACATCCAACTATCATCTGTTTT-AGC
260 GTCAATGGATGGCTTTC-GCTTCACGTTTCCTAATGCAAACATCAAATTATGATCTGTTTTAACC
* * **
11804377 AGTAAA-CAAAAATGATTTTG
324 A-AAAATGAAAAA--A-TTCA
** *
11804397 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTTGAAGGCATGG
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * **
11804462 GTGACTATAAATGCACTTTTATTGTCAATGGATGGCGTTT-ACTTCATGTTTCTTAATGCAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGC-TTTCACTTCACGTTTCACAATGCAAACA
* * * * * ** * * *
11804526 TCCAATTATGATCTATCTTAA-CAAGAAATGAAAAACATTTTGACTTACAATCACTTATAAGATT
130 TCAAATTATGATCTGTTTTAACCAA-AAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATT
** * * * **
11804590 ATAAAACCATTTAAAGCAAGCAACTAGGTTTTCGAAGGCATGAGTGACTATATGTGGACTTTTCT
194 ATAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCT
* * * * * * *
11804655 TGTCAATGGATGACTTTCACTTCATC-TTTCTTGATGCAAATATGAAATGATGATC-GATTTTAA
259 TGTCAATGGATGGCTTTCGCTTCA-CGTTTCCTAATGCAAACATCAAATTATGATCTG-TTTTAA
* *
11804718 CTAAAAATAAAAAAATTCA
322 CCAAAAATGAAAAAATTCA
* * * ** * * **
11804737 ATTTCAAGTCATTTATAAGATTATAAAACAATTTAAAGAAAGCAATTAGGCTTTGGAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * * * *
11804802 GTGACTATAAGTGCACTTTTCTTTTCAATGGATGGCTTTCATTTCACATTTCTCAATGCAACACG
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAA-ACA
* * * * * * * ** * * *
11804867 TCCAATTATAATCTGTTTTAGCTAGAAATGAAAAACATTTTGACTTACAATCATTTTTAAGATTA
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTA
* * * * * *
11804932 TAAAACCATTTAAAGTGAGTAACTAGGCTTTCGAAGGCATGAGTAATTACAAGTGAACTTTTCTT
195 TAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * * *
11804997 GTCAATGGATGAG-TTTTGCGTCACATTTCTTGATGCAAACATCAAATTATGATCAGTTTTAACC
260 GTCAATGGATG-GCTTTCGCTTCACGTTTCCTAATGCAAACATCAAATTATGATCTGTTTTAACC
11805061 AAAAATGAAAAAAAATTCA
324 AAAAATG--AAAAAATTCA
* * * * * *
11805080 ATTCAAACTCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAGAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
** * ** *
11805145 GTGACTATAAATGGACTTTTCTTACCAATGGATAGCTTTCACTTCACAATTC-CTGATGCAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCAC-AATGCAAACA
* * * * * * * * *
11805209 GCAAGTTATGATGTGTTTTGAGCAAAAAT-CAAAAGAATTCAAATTAAAATGATTTATAAGATTA
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTA
* * * * * ** *
11805273 TAAAACCATTTAAAGTTAGTGACAAGGCTTCCGAAGGCATGAGTGACTATAAATAAACTTTTGTT
195 TAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * * ** *
11805338 GTCAATGGATGGCATTCACTTCACGTTT-CTAGATGCCAACATCCAACTACCATATGCTTTTAAC
260 GTCAATGGATGGCTTTCGCTTCACGTTTCCTA-ATGCAAACATCAAATTATGATCTG-TTTTAAC
** **
11805402 CAAAAATGAAAATTCTTTTG
323 CAAAAATGAAAA--AATTCA
* * * * *
11805422 ATTTAAAATCATTTATAAGATTATAAAACCACTTAAAACAAGTACCCTA-GCTTTCGAAGGCACT
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTA-ACTAGGCTTTCAAAGGCA-T
* * ** * ** * * *
11805486 -TGTGACTATAAATGGACTTTTCTTGGCAATAAATGGATTTTGCTTCATC-TTTCCCAATTCACA
64 GAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCA-CGTTTCACAATGCAAA
* * ** * *
11805549 CATCCAA-TATGATCTATTTTAATGAAAAATG--AAAAAATTCAATTTGAAACCATTTATAAGAT
128 CATCAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGAT
* * *
11805611 TATAAATCCATTTCAAGTGAGTAACTAGGCATTCAAAGGCATGAGTGACTATAAATGGACTTTTC
193 TATAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTC
* * * * * *
11805676 TTGTCAATGGATGGCTTTCACTTCACGTTTTCAAATACAAACAAT-AAATTATGATGTATTTTAA
258 TTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAAC-ATCAAATTATGATCTGTTTTAA
* *
11805740 CCATAAATGAAAAAAATCA
322 CCAAAAATGAAAAAATTCA
* * * * * * *
11805759 ATCTAAAATGATGTATAAGATTATAAAACCATTTAAAGTGATTAACGAGGCTTCCAAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* ** * * * *
11805824 GTGACTATAAATGCACTTTTCTTGTCAATGGATAAC-TTCACTTTATGTTTCTCGATGCAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAAACAT
* * * ** **
11805888 CCAATTATGATATGTTTTAACTAGGAATG---AAAAA--C-ATTT---GGC---T-TAA-A--AT
131 CAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTAT
** * * * * *
11805937 -----CATTTAAAGCAAGCAACTAGGCTTTCAAAGGCATTAATGACTATAAGT-GA----ACTTG
196 AAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTG
* * * *
11805992 TCAATGGATGGCTTTTGCTTCA-TTTTTCTCAATTCAAACATCAAATTATGATCTGTTTTAACCA
261 TCAATGGATGGCTTTCGCTTCACGTTTCCT-AATGCAAACATCAAATTATGATCTGTTTTAACCA
* *
11806056 GAAATGAAAAACATTTA
325 AAAATGAAAAA-ATTCA
* * * * * *
11806073 ATCTAGATTCATTTATGAA-ATTATAAAACCATTTAAAGCAAGAAACTAGGCTTTCAAAGGCTTG
1 ATTTAAAATCATTTAT-AAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATG
* * * * ** *
11806137 AGTGACAATAAATGGA-TTCTTTTTGTCAATGGATGGCTTTCGCTTCACATTTTTCAATGAAAAA
65 AGTGACTATAAATGGACTT-TTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATG--CAA
* * * * *
11806201 AAATCAAATTATGATTTGTTTTAACCAAAAGTGAAAATATACATT---TTTAAAATCATTTACAA
127 ACATCAAATTATGATCTGTTTTAACCAAAAATGAAAA-A-AAATTCAATTTAAAATCATTTATAA
* * * * *
11806263 GATTAAAAAAATCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGAGTGAATATAAATGCACT
190 GATT-ATAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACT
* * * ** * *
11806328 TTTCATGTCAATGGATGGGTTTTGCTTCACGTTTTTTAATACAAACATCCAATTATGATCTGTTT
254 TTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAATTATGATCTGTTT
* ** * **
11806393 AAATAAAAAATGAATAAAGTTTTG
319 TAACCAAAAATGAA-AAA-ATTCA
* * * * * *
11806417 ATTTAAAATCATTTATAAGATTATAACACCATTTAAAGCAAGCAATTAGGCTTTCCAAGACATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* **
11806482 GT-AGCTATAAATGGACTTTTCTTATCAATGGATGGCTTTTGCTTCACGTTTCTA-AATGCAAAC
66 GTGA-CTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTC-ACAATGCAAAC
* * * ** **
11806545 ATCCAACTATGTTCTAGTTTTAACCAAAAATG-AAAAACTTTTGATTTAAAATCATTTATAAGAT
129 ATCAAATTATGATCT-GTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGAT
* *** * * * * * *
11806609 TATAAAACCATTGAAAACAAGTACCCTA-CCTTTCGAAGGCACT-CGTAACTATAAATGAACTTT
193 TATAAAACCATTTAAAGTGAGTA-ACTAGGCTTTCAAAGGCA-TGAGTGACTATAAATGGACTTT
* * * * ** * * * *
11806672 TCTTGTCAATGAATGGATTTTGTTTTGCGTTTCCTAAAGCAAATATCCAA-TATGATCTGCTTTA
256 TCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAATTATGATCTGTTTTA
11806736 ACCAAAAATGAAAAAATTCA
321 ACCAAAAATGAAAAAATTCA
* * * **
11806756 ATTTAAAATCATTTATAAGATTATAAATCCATTTCAAGTGAGTAACTAGGCTTTTGAAGGCATGA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * *
11806821 GTGACTATAAATGGACTTTTGTTGTCAATGGATCGCTTTCGCTTCACGTTTTC-CAATGCAAACA
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACG-TTTCACAATGCAAACA
* * * * * *
11806885 ACAAATTATGATGTGTTTTAGCCATAAATGAAAAAAAATTCAATCTAAAAT-TTTTATAAGATTA
130 TCAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTA
* * *
11806949 TAAAACCATTTAAAGTGAGTAACGAGGCTTTCAAAGGTATGAGTGACTATAAATGCACTTTTCTT
195 TAAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
*** * * * * * * *
11807014 GTCAATGGACAAC-TTCACTTTATGTTT-CTCGATGCAACCATTC-AATTATGATATGTTTTGAC
260 GTCAATGGATGGCTTTCGCTTCACGTTTCCT-AATGCAAACA-TCAAATTATGATCTGTTTTAAC
* ** **
11807076 TAGGAATGAAAAACATTTG
323 CAAAAATGAAAAA-ATTCA
* * * * * *
11807095 ACTTAAAATCATTTATAAGATTATAGAATCATTTAAAGCAAGCAACTAGGCTTTCAAAGGCATTA
1 ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
* * * * ** * * *
11807160 ATGACTATAAGT-GA----ACTTGTCAATTGATGGCTTTTGCTTCATGTTTCCCAATTCAAACAT
66 GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAAACAT
* * * * * * * *
11807220 CAAATTATGATATGTTTTAACTAGAAATG-AAAAAAATTTAATCTAGATTCATTTATAAAATTAT
131 CAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTAT
** * * * *
11807284 AAAACCATTTAAAGCAAGAAACTAGGCTTTCAAAGGCATGAGTGAGTATAAATGGATTTTTTTTG
196 AAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTG
* * * * *
11807349 TCAATGGATGGCTTTCGCTTCACGTTT-TTCAATGAAAAAATCAAATTATGATTTGTTTTAACTA
261 TCAATGGATGGCTTTCGCTTCACGTTTCCT-AATGCAAACATCAAATTATGATCTGTTTTAACCA
* *
11807413 AAAGTGAAAATATAT-A
325 AAAATGAAAAAAT-TCA
* * * * **
11807429 TTTTTTAAATCATTTACAAGATTATAAAACCATTTAAAGCGAGTAAGTAGGCTTTTGAAGGCATG
1 -ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATG
* *
11807494 AGTGA-TAATAAATAGG-CTTTTCATATCAATGGATGG
65 AGTGACT-ATAAAT-GGACTTTTCTTGTCAATGGATGG
11807530 GTTTTTGTAA
Statistics
Matches: 3858, Mismatches: 822, Indels: 302
0.77 0.16 0.06
Matches are distributed among these distances:
312 7 0.00
313 64 0.02
314 82 0.02
315 17 0.00
317 30 0.01
318 40 0.01
320 1 0.00
321 1 0.00
322 5 0.00
323 2 0.00
325 2 0.00
326 3 0.00
327 1 0.00
328 1 0.00
329 2 0.00
330 2 0.00
333 26 0.01
334 141 0.04
335 129 0.03
336 126 0.03
337 266 0.07
338 298 0.08
339 364 0.09
340 532 0.14
341 952 0.25
342 423 0.11
343 230 0.06
344 109 0.03
345 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (340 bp):
ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGA
GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACGTTTCACAATGCAAACAT
CAAATTATGATCTGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTAT
AAAACCATTTAAAGTGAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTG
TCAATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAATTATGATCTGTTTTAACCAA
AAATGAAAAAATTCA
Found at i:11806822 original size:339 final size:334
Alignment explanation
Indices: 11805931--11807529 Score: 1170
Period size: 339 Copynumber: 4.7 Consensus size: 334
11805921 ACATTTGGCT
* * * * * * * * *
11805931 TAAAATCATTTAAAGCAAGCAACTAGGCTTTCAAAGGCATTAATGACTATAAGTGAAC---T--T
1 TAAAACCATTGAAAACAAGTAACTAGCCTTTCAAAGGCATGAGTGAATATAAATGAACTTTTCAT
* * * * * *
11805991 GTCAATGGATGGCTTTTGCTTCA-TTTTTCTCAATTCAAACATCAAATTATGATCTGTTTTAACC
66 GTCAATGAATGGATTTTGCTTCACGTTTCCT-AATACAAACATCCAATTATGATCTG-TTTAACC
* * * *
11806055 AGAAATGAAAAACATTTAATCTAGATTCATTTATGAA-ATTATAAAACCATTTAAAGCAAGAAAC
129 AAAAATGAAAAACATTTAATTTAAAATCATTTAT-AAGATTAT-AAACCATTTAAAGCAAGAAAC
* * *
11806119 TAGGCTTTCAAAGGCTTGAGTGACAATAAATGGA-TTCTTTTTGTCAATGGATGGCTTTCGCTTC
192 TAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTT-TTCTTGTCAATGGATGGCTTTCGCTTC
* * * * *
11806183 ACATTTTTCAATGAAAAAAAATCAAATTATGATTTGTTTTAACCAAAAGTGAAAATATACATT-T
256 AC-GTTTTCAATG--CAAACATCAAATTATG-TTTGTTTTAACCAAAAATGAAAA-AT--TTTAT
*
11806247 TTAAAATCATTTACAAGATTAA
314 TTAAAATCATTTATAAGATT-A
* * * * * * *
11806269 AAAAATCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGAGTGAATATAAATGCACTTTTCAT
1 TAAAACCATTGAAAACAAGTAACTAGCCTTTCAAAGGCATGAGTGAATATAAATGAACTTTTCAT
* * ** **
11806334 GTCAATGGATGGGTTTTGCTTCACGTTTTTTAATACAAACATCCAATTATGATCTGTTTAAATAA
66 GTCAATGAATGGATTTTGCTTCACGTTTCCTAATACAAACATCCAATTATGATCTGTTT-AACCA
** * * *
11806399 AAAATGAATAAAGTTTTGATTTAAAATCATTTATAAGATTATAACACCATTTAAAGCAAGCAATT
130 AAAATGAA-AAACATTTAATTTAAAATCATTTATAAGATTATAA-ACCATTTAAAGCAAGAAACT
* * * *
11806464 AGGCTTTCCAAGACATGAGT-AGCTATAAATGGACTTTTCTTATCAATGGATGGCTTTTGCTTCA
193 AGGCTTTCAAAGGCATGAGTGA-CTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCA
* * *
11806528 CGTTTCTAAATGCAAACATCCAACTATGTTCTAGTTTTAACCAAAAATGAAAAACTTTTGATTTA
257 CGTTT-TCAATGCAAACATCAAATTATGTT-T-GTTTTAACCAAAAATGAAAAA-TTTT-ATTTA
11806593 AAATCATTTATAAGATTA
317 AAATCATTTATAAGATTA
* * *
11806611 TAAAACCATTGAAAACAAGTACCCTA-CCTTTCGAAGGCACT-CGT-AACTATAAATGAACTTTT
1 TAAAACCATTGAAAACAAGTA-ACTAGCCTTTCAAAGGCA-TGAGTGAA-TATAAATGAACTTTT
* * ** *
11806673 CTTGTCAATGAATGGATTTTGTTTTGCGTTTCCTAA-AGCAAATATCCAA-TATGATCTGCTTTA
63 CATGTCAATGAATGGATTTTGCTTCACGTTTCCTAATA-CAAACATCCAATTATGATCTG-TTTA
* * ** *
11806736 ACCAAAAATGAAAAA-ATTCAATTTAAAATCATTTATAAGATTATAAATCCATTTCAAGTGAGTA
126 ACCAAAAATGAAAAACATTTAATTTAAAATCATTTATAAGATTATAAA-CCATTTAAAGCAAGAA
** * *
11806800 ACTAGGCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTGTTGTCAATGGATCGCTTTCGCTT
190 ACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTT
* * * * ** *
11806865 CACGTTTTCCAATGCAAACAACAAATTATGATGTGTTTTAGCCATAAATGAAAAAAAATTCAATC
255 CACGTTTT-CAATGCAAACATCAAATTATG-TTTGTTTTAACCAAAAATG---AAAAATTTTATT
*
11806930 TAAAAT-TTTTATAAGATTA
315 TAAAATCATTTATAAGATTA
* *** * * * * * *
11806949 TAAAACCATTTAAAGTGAGTAACGAGGCTTTCAAAGGTATGAGTGACTATAAATGCACTTTTCTT
1 TAAAACCATTGAAAACAAGTAACTAGCCTTTCAAAGGCATGAGTGAATATAAATGAACTTTTCAT
* ** * ** * * * * * * * * *
11807014 GTCAATGGA-CAACTTCACTTTATGTTT-CTCGATGCAACCATTCAATTATGATATGTTTTGACT
66 GTCAATGAATGGATTTTGCTTCACGTTTCCT-AATACAAACATCCAATTATGATCTG-TTTAACC
** * * * *
11807077 AGGAATGAAAAACATTTGACTTAAAATCATTTATAAGATTATAGAATCATTTAAAGCAAGCAACT
129 AAAAATGAAAAACATTTAATTTAAAATCATTTATAAGATTATA-AACCATTTAAAGCAAGAAACT
* * * * * * *
11807142 AGGCTTTCAAAGGCATTAATGACTATAAGT-GA----ACTTGTCAATTGATGGCTTTTGCTTCAT
193 AGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCAC
* * * * * * * *
11807202 GTTTCCCAATTCAAACATCAAATTATGATATGTTTTAACTAGAAATGAAAAAAATTTAATCTAGA
258 GTTT-TCAATGCAAACATCAAATTATG-TTTGTTTTAACCAAAAATG--AAAAATTTTATTTAAA
* *
11807267 TTCATTTATAAAATTA
319 ATCATTTATAAGATTA
* * * * * * * **
11807283 TAAAACCATTTAAAGCAAGAAACTAGGCTTTCAAAGGCATGAGTGAGTATAAATGGATTTTTTTT
1 TAAAACCATTGAAAACAAGTAACTAGCCTTTCAAAGGCATGAGTGAATATAAATGAACTTTTCAT
* * * * * * *
11807348 GTCAATGGATGGCTTTCGCTTCACGTTT-TTCAATGA-AAAAATCAAATTATGATTTGTTTTAAC
66 GTCAATGAATGGATTTTGCTTCACGTTTCCT-AAT-ACAAACATCCAATTATGATCTG-TTTAAC
* * * * * * *
11807411 TAAAAGTGAAAATATATATT--TTTTAAATCATTTACAAGATTATAAAACCATTTAAAGCGAGTA
128 CAAAAATGAAAA-ACAT-TTAATTTAAAATCATTTATAAGATTAT-AAACCATTTAAAGCAAGAA
* ** * *
11807474 AGTAGGCTTTTGAAGGCATGAGTGA-TAATAAATAGG-CTTTTCATATCAATGGATGG
190 ACTAGGCTTTCAAAGGCATGAGTGACT-ATAAAT-GGACTTTTCTTGTCAATGGATGG
11807530 GTTTTTGTAA
Statistics
Matches: 1014, Mismatches: 195, Indels: 102
0.77 0.15 0.08
Matches are distributed among these distances:
333 17 0.02
334 138 0.14
335 105 0.10
336 6 0.01
337 25 0.02
338 157 0.15
339 195 0.19
340 21 0.02
341 33 0.03
342 102 0.10
343 108 0.11
344 105 0.10
345 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (334 bp):
TAAAACCATTGAAAACAAGTAACTAGCCTTTCAAAGGCATGAGTGAATATAAATGAACTTTTCAT
GTCAATGAATGGATTTTGCTTCACGTTTCCTAATACAAACATCCAATTATGATCTGTTTAACCAA
AAATGAAAAACATTTAATTTAAAATCATTTATAAGATTATAAACCATTTAAAGCAAGAAACTAGG
CTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTT
TTCAATGCAAACATCAAATTATGTTTGTTTTAACCAAAAATGAAAAATTTTATTTAAAATCATTT
ATAAGATTA
Found at i:11806970 original size:170 final size:171
Alignment explanation
Indices: 11805931--11807534 Score: 1410
Period size: 171 Copynumber: 9.5 Consensus size: 171
11805921 ACATTTGGCT
* * * * * *
11805931 TAAAATCATTTAAAGCAAGCAACTAGGCTTTCAAAGGCATTAATGACTATAAGT-GA----ACTT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* *
11805991 GTCAATGGATGGCTTTTGCTTCA-TTTTTCTCAATTCAAACATCAAATTATGATCTGTTTTAACC
66 GTCAATGGATGGCTTTTGCTTCACGTTTTC-CAATGCAAACATCAAATTATGATCTGTTTTAACC
* * * * *
11806055 AGAAATG-AAAAACATTTAATCTAGATTCATTTATGAA-ATTA
130 AAAAATGAAAAAAAATTTAATTTAAAATCATTTAT-AAGATTA
* * * *
11806096 TAAAACCATTTAAAGCAAGAAACTAGGCTTTCAAAGGCTTGAGTGACAATAAATGGA-TTCTTTT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTT-TTCT
* * * * * *
11806160 TGTCAATGGATGGCTTTCGCTTCACATTTTTCAATGAAAAAAAATCAAATTATGATTTGTTTTAA
65 TGTCAATGGATGGCTTTTGCTTCACGTTTTCCAATG--CAAACATCAAATTATGATCTGTTTTAA
* * *
11806225 CCAAAAGTGAAAATATACA-TT--TTTAAAATCATTTACAAGATTAA
128 CCAAAAATGAAAA-A-AAATTTAATTTAAAATCATTTATAAGATT-A
* * * * * *
11806269 AAAAATCATTTAAAGCGAGTAACTAGGCTTTCAAAGGCATGAGTGAATATAAATGCACTTTTCAT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* ** * * * **
11806334 GTCAATGGATGGGTTTTGCTTCACGTTTTTTAATACAAACATCCAATTATGATCTGTTTAAATAA
66 GTCAATGGATGGCTTTTGCTTCACGTTTTCCAATGCAAACATCAAATTATGATCTGTTTTAACCA
* ** *
11806399 AAAATGAATAAAGTTTTGATTTAAAATCATTTATAAGATTA
131 AAAATGAAAAAAAATTTAATTTAAAATCATTTATAAGATTA
* * * * *
11806440 TAACACCATTTAAAGCAAGCAATTAGGCTTTCCAAGACATGAGT-AGCTATAAATGGACTTTTCT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGA-CTATAAATGGACTTTTCT
* * * * *
11806504 TATCAATGGATGGCTTTTGCTTCACG-TTTCTAAATGCAAACATCCAACTATGTTCTAGTTTTAA
65 TGTCAATGGATGGCTTTTGCTTCACGTTTTC-CAATGCAAACATCAAATTATGATCT-GTTTTAA
** *
11806568 CCAAAAATG-AAAAACTTTTGATTTAAAATCATTTATAAGATTA
128 CCAAAAATGAAAAAAAATTTAATTTAAAATCATTTATAAGATTA
* * * * * * * *
11806611 TAAAACCATTGAAAACAAGTACCCTA-CCTTTCGAAGGCACT-CGTAACTATAAATGAACTTTTC
1 TAAAACCATTTAAAGCAAGTA-ACTAGGCTTTCAAAGGCA-TGAGTGACTATAAATGGACTTTTC
* * * ** * * * *
11806674 TTGTCAATGAATGGATTTTGTTTTGCG-TTTCCTAAAGCAAATATCCAA-TATGATCTGCTTTAA
64 TTGTCAATGGATGGCTTTTGCTTCACGTTTTCC-AATGCAAACATCAAATTATGATCTGTTTTAA
*
11806737 CCAAAAATG--AAAAAATTCAATTTAAAATCATTTATAAGATTA
128 CCAAAAATGAAAAAAAATTTAATTTAAAATCATTTATAAGATTA
* * ** ** *
11806779 TAAATCCATTTCAAGTGAGTAACTAGGCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTGTT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * *
11806844 GTCAATGGATCGCTTTCGCTTCACGTTTTCCAATGCAAACAACAAATTATGATGTGTTTTAGCCA
66 GTCAATGGATGGCTTTTGCTTCACGTTTTCCAATGCAAACATCAAATTATGATCTGTTTTAACCA
* * * *
11806909 TAAATGAAAAAAAATTCAATCTAAAAT-TTTTATAAGATTA
131 AAAATGAAAAAAAATTTAATTTAAAATCATTTATAAGATTA
** * * *
11806949 TAAAACCATTTAAAGTGAGTAACGAGGCTTTCAAAGGTATGAGTGACTATAAATGCACTTTTCTT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
*** ** * * * * * *
11807014 GTCAATGGACAAC-TTCACTTTATG-TTTCTCGATGCAACCATTC-AATTATGATATGTTTTGAC
66 GTCAATGGATGGCTTTTGCTTCACGTTTTC-CAATGCAAACA-TCAAATTATGATCTGTTTTAAC
* ** * * *
11807076 TAGGAATG-AAAAACATTTGACTTAAAATCATTTATAAGATTA
129 CAAAAATGAAAAAAAATTTAATTTAAAATCATTTATAAGATTA
* * * * * * *
11807118 TAGAATCATTTAAAGCAAGCAACTAGGCTTTCAAAGGCATTAATGACTATAAGT-GA----ACTT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * * *
11807178 GTCAATTGATGGCTTTTGCTTCATGTTTCCCAATTCAAACATCAAATTATGATATGTTTTAACTA
66 GTCAATGGATGGCTTTTGCTTCACGTTTTCCAATGCAAACATCAAATTATGATCTGTTTTAACCA
* * * * *
11807243 GAAATG-AAAAAAATTTAATCTAGATTCATTTATAAAATTA
131 AAAATGAAAAAAAATTTAATTTAAAATCATTTATAAGATTA
* * * *
11807283 TAAAACCATTTAAAGCAAGAAACTAGGCTTTCAAAGGCATGAGTGAGTATAAATGGATTTTTTTT
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * * *
11807348 GTCAATGGATGGCTTTCGCTTCACGTTTTTCAATGAAAAAATCAAATTATGATTTGTTTTAACTA
66 GTCAATGGATGGCTTTTGCTTCACGTTTTCCAATGCAAACATCAAATTATGATCTGTTTTAACCA
* * *
11807413 AAAGTGAAAATATATATTT--TTT-AAATCATTTACAAGATTA
131 AAAATGAAAA-A-AAATTTAATTTAAAATCATTTATAAGATTA
* * **
11807453 TAAAACCATTTAAAGCGAGTAAGTAGGCTTTTGAAGGCATGAGTGA-TAATAAATAGG-CTTTTC
1 TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACT-ATAAAT-GGACTTTTC
* * *
11807516 ATATCAATGGATGGGTTTT
64 TTGTCAATGGATGGCTTTT
11807535 TGTAATACCT
Statistics
Matches: 1167, Mismatches: 226, Indels: 87
0.79 0.15 0.06
Matches are distributed among these distances:
164 14 0.01
165 162 0.14
166 7 0.01
167 4 0.00
168 124 0.11
169 136 0.12
170 264 0.23
171 274 0.23
172 83 0.07
173 91 0.08
174 5 0.00
175 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (171 bp):
TAAAACCATTTAAAGCAAGTAACTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
GTCAATGGATGGCTTTTGCTTCACGTTTTCCAATGCAAACATCAAATTATGATCTGTTTTAACCA
AAAATGAAAAAAAATTTAATTTAAAATCATTTATAAGATTA
Done.