Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 58 of 213
Found at i:15785983 original size:24 final size:24
Alignment explanation
Indices: 15785955--15786008 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 24
15785945 TAAAATTACA
15785955 AAATCATATCTTCTAAGATTGCAT
1 AAATCATATCTTCTAAGATTGCAT
15785979 AAATCATA---TCTAAGATTGCAT
1 AAATCATATCTTCTAAGATTGCAT
15786000 --ATCATATCT
1 AAATCATATCT
15786009 AAGATTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 6 0.22
21 13 0.48
24 8 0.30
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (24 bp):
AAATCATATCTTCTAAGATTGCAT
Found at i:15786005 original size:19 final size:19
Alignment explanation
Indices: 15785966--15786021 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
15785956 AATCATATCT
15785966 TCTAAGATTGCATAAATCATA
1 TCTAAGATTGCAT--ATCATA
15785987 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15786006 TCTAAGATTACATATC
1 TCTAAGATTGCATATC
15786022 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 21 0.62
21 13 0.38
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15786793 original size:40 final size:40
Alignment explanation
Indices: 15786736--15786821 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
15786726 AATTATTGAA
**
15786736 TGTTTGCACATTTGTGCCCCTATTTGTACTTCGGTACCCT
1 TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
15786776 TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
1 TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
15786816 TGTTTG
1 TGTTTG
15786822 TATTTTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.42
Consensus pattern (40 bp):
TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
Found at i:15786823 original size:20 final size:20
Alignment explanation
Indices: 15786758--15786823 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
15786748 TGTGCCCCTA
15786758 TTTGTACTTCGGTACCCTTG
1 TTTGTACTTCGGTACCCTTG
* * * * *
15786778 TTTGCACATAC-GTGCCCCTA
1 TTTGTAC-TTCGGTACCCTTG
15786798 TTTGTACTTCGGTACCCTTG
1 TTTGTACTTCGGTACCCTTG
15786818 TTTGTA
1 TTTGTA
15786824 TTTTAATACC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.14, C:0.26, G:0.18, T:0.42
Consensus pattern (20 bp):
TTTGTACTTCGGTACCCTTG
Found at i:15789765 original size:41 final size:41
Alignment explanation
Indices: 15789707--15789814 Score: 137
Period size: 41 Copynumber: 2.6 Consensus size: 41
15789697 GATGTGTGAA
* * * *
15789707 ATCAGG-CTTTGAGCCTAGTAGGTTTTGCGCCGGTGTAATGT
1 ATCAGGTC-TTGAACCTAGTAGGCTTCGCGCCAGTGTAATGT
* *
15789748 ATCAGGTCTTGAACCTAGCAGGCTTCGTGCCAGTGTAATGT
1 ATCAGGTCTTGAACCTAGTAGGCTTCGCGCCAGTGTAATGT
*
15789789 ATCAAGTCTTGAACCTAGTAGGCTTC
1 ATCAGGTCTTGAACCTAGTAGGCTTC
15789815 ATGCTGGTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
ATCAGGTCTTGAACCTAGTAGGCTTCGCGCCAGTGTAATGT
Found at i:15789825 original size:41 final size:41
Alignment explanation
Indices: 15789735--15789874 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
15789725 TAGGTTTTGC
* *
15789735 GCCGGTGTAATGTATCAGGTCTTGAACCTAGCAGGCTTCGT
1 GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
* *
15789776 GCCAGTGTAATGTATCAAGTCTTGAACCTAGTAGGCTTCAT
1 GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
* * * * *
15789817 GCTGGTGTAATATATCAAGCCTTGAGCCTAGCAAGCTTCAT
1 GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
**
15789858 GCCGGTGTGTTGTATCA
1 GCCGGTGTAATGTATCA
15789875 TGTAACTTGT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
Found at i:15793303 original size:5 final size:5
Alignment explanation
Indices: 15793274--15793351 Score: 68
Period size: 5 Copynumber: 14.8 Consensus size: 5
15793264 TGGGGGTAAT
* * * *
15793274 ATATG ATCTG TTATG ATATGAG ATATG ATATG ATACG ATATG -TAATCCA
1 ATATG ATATG ATATG ATAT--G ATATG ATATG ATATG ATATG AT-AT--G
15793323 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
15793352 AAGATATACT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 1 0.02
5 50 0.85
7 7 0.12
8 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (5 bp):
ATATG
Found at i:15793307 original size:27 final size:26
Alignment explanation
Indices: 15793274--15793358 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
15793264 TGGGGGTAAT
*
15793274 ATATGATCTGTTATGATATGAGATATG
1 ATATGATCTGATATGATATGA-ATATG
*
15793301 ATATGATAC-GATATG-TAATCCAATATG
1 ATATGAT-CTGATATGAT-AT-GAATATG
* *
15793328 ATATGATATGATATGATATGATATAAG
1 ATATGATCTGATATGATATGA-ATATG
15793355 ATAT
1 ATAT
15793359 ACTTCGATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
26 2 0.04
27 42 0.89
28 3 0.06
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.38
Consensus pattern (26 bp):
ATATGATCTGATATGATATGAATATG
Found at i:15795340 original size:25 final size:25
Alignment explanation
Indices: 15795307--15795362 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15795297 CTCTCTCGAT
**
15795307 CCATATAATAGGAACCTCATGTGAG
1 CCATATAATAGGAACCTCATAAGAG
* * *
15795332 CCATGTAATGGGAAGCTCATAAGAG
1 CCATATAATAGGAACCTCATAAGAG
15795357 CCATAT
1 CCATAT
15795363 TCAGAAAACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (25 bp):
CCATATAATAGGAACCTCATAAGAG
Found at i:15795594 original size:24 final size:24
Alignment explanation
Indices: 15795567--15795619 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
15795557 CCCAACCAAT
* *
15795567 CGGGATGCTCCGA-AGAGCTATTAA
1 CGGGAAGCT-CGAGAGAGCTAATAA
*
15795591 CGGGAAGCTCGAGAGGGCTAATAA
1 CGGGAAGCTCGAGAGAGCTAATAA
15795615 CGGGA
1 CGGGA
15795620 CTCACTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.30, C:0.19, G:0.36, T:0.15
Consensus pattern (24 bp):
CGGGAAGCTCGAGAGAGCTAATAA
Found at i:15795965 original size:21 final size:21
Alignment explanation
Indices: 15795941--15795981 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15795931 AATTTAACTA
*
15795941 AATTTAATACAATTCATATTC
1 AATTCAATACAATTCATATTC
* *
15795962 AATTCAGTCCAATTCATATT
1 AATTCAATACAATTCATATT
15795982 TTAGGCAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTCAATACAATTCATATTC
Found at i:15799528 original size:17 final size:18
Alignment explanation
Indices: 15799495--15799529 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15799485 AGCATAGTAG
15799495 GGTTCGCATATACAACAT
1 GGTTCGCATATACAACAT
15799513 GGTTCGCATA-ACAACAT
1 GGTTCGCATATACAACAT
15799530 AGCAGGGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (18 bp):
GGTTCGCATATACAACAT
Found at i:15799560 original size:18 final size:18
Alignment explanation
Indices: 15799537--15799817 Score: 123
Period size: 18 Copynumber: 15.9 Consensus size: 18
15799527 CATAGCAGGG
*
15799537 TTCACACATAAGGTAGGC
1 TTCACACATTAGGTAGGC
* *
15799555 TTCACACTTTTGGTTAGGC
1 TTCACACATTAGG-TAGGC
*
15799574 -TCACACATTAGGTAGGG
1 TTCACACATTAGGTAGGC
*
15799591 TTCGCACATTA-GTAGAG-
1 TTCACACATTAGGTAG-GC
* * *
15799608 TTCACACTTTAGGTTGGA
1 TTCACACATTAGGTAGGC
* *
15799626 TTCGCACATTAGGTAGGG
1 TTCACACATTAGGTAGGC
* *
15799644 TTCGCACATTA-GTAGGG
1 TTCACACATTAGGTAGGC
** * * *
15799661 TTTGCACTTTAGGAAGGG
1 TTCACACATTAGGTAGGC
* *
15799679 TTCGCACATTAGGTAGGG
1 TTCACACATTAGGTAGGC
** *
15799697 TTTGCACATTA-GTAGGG
1 TTCACACATTAGGTAGGC
** * * *
15799714 TTTGCACTTTAGGAAGGG
1 TTCACACATTAGGTAGGC
15799732 TTCACACATTA-GTAAGG-
1 TTCACACATTAGGT-AGGC
** * * *
15799749 TTTGCACTTTAGGAAGGG
1 TTCACACATTAGGTAGGC
* * *
15799767 TTCACACAATA-ATAGGG
1 TTCACACATTAGGTAGGC
*
15799784 TTCACACTTTAGGTAGGGC
1 TTCACACATTAGGTA-GGC
*
15799803 -TCGCACATT-GGTAGG
1 TTCACACATTAGGTAGG
15799818 GTTTGCATGT
Statistics
Matches: 208, Mismatches: 43, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
16 2 0.01
17 78 0.38
18 121 0.58
19 7 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (18 bp):
TTCACACATTAGGTAGGC
Found at i:15799614 original size:53 final size:52
Alignment explanation
Indices: 15799533--15799817 Score: 213
Period size: 53 Copynumber: 5.4 Consensus size: 52
15799523 ACAACATAGC
* * * * *
15799533 AGGGTTCACACATAAGGTAGGCTTCACACTTTTGGTTAGGCTCACACATTAGGT
1 AGGGTTCGCACATTA-GTAGG-TTCACACTTTAGGTTAGGTTCGCACATTAGGT
15799587 AGGGTTCGCACATTAGTAGAGTTCACACTTTAGGTT-GGATTCGCACATTAGGT
1 AGGGTTCGCACATTAGTAG-GTTCACACTTTAGGTTAGG-TTCGCACATTAGGT
** *
15799640 AGGGTTCGCACATTAGTAGGGTTTGCACTTTAGG-AAGGGTTCGCACATTAGGT
1 AGGGTTCGCACATTAGTA-GGTTCACACTTTAGGTTA-GGTTCGCACATTAGGT
* ** * *
15799693 AGGGTTTGCACATTAGTAGGGTTTGCACTTTAGG-AAGGGTTCACACATTA-GT
1 AGGGTTCGCACATTAGTA-GGTTCACACTTTAGGTTA-GGTTCGCACATTAGGT
* * * * ** * * *
15799745 AAGGTTTGCACTTTAGGAAGGGTTCACACAATA--ATAGGGTTCACACTTTAGGT
1 AGGGTTCGCACATTA-GTA-GGTTCACACTTTAGGTTA-GGTTCGCACATTAGGT
* *
15799798 AGGGCTCGCACATTGGTAGG
1 AGGGTTCGCACATTAGTAGG
15799818 GTTTGCATGT
Statistics
Matches: 198, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
51 2 0.01
52 33 0.17
53 146 0.74
54 17 0.09
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (52 bp):
AGGGTTCGCACATTAGTAGGTTCACACTTTAGGTTAGGTTCGCACATTAGGT
Found at i:15799620 original size:35 final size:35
Alignment explanation
Indices: 15799581--15799857 Score: 279
Period size: 35 Copynumber: 7.9 Consensus size: 35
15799571 GGCTCACACA
* *
15799581 TTAGGTAGGGTTCGCACATTAGTAGAGTTCACACT
1 TTAGGTAGGGTTCGCACATTAGTAGGGTTCGCACT
* * *
15799616 TTAGGTTGGATTCGCACATTAGGTAGGGTTCGCACA
1 TTAGGTAGGGTTCGCACATTA-GTAGGGTTCGCACT
* * * *
15799652 TTA-GTAGGGTTTGCACTTTAGGAAGGGTTCGCACA
1 TTAGGTAGGGTTCGCACATTA-GTAGGGTTCGCACT
* *
15799687 TTAGGTAGGGTTTGCACATTAGTAGGGTTTGCACT
1 TTAGGTAGGGTTCGCACATTAGTAGGGTTCGCACT
* * * *
15799722 TTAGGAAGGGTTCACACATTAGTAAGGTTTGCACT
1 TTAGGTAGGGTTCGCACATTAGTAGGGTTCGCACT
* * * * *
15799757 TTAGGAAGGGTTCACACAATAATAGGGTTCACACT
1 TTAGGTAGGGTTCGCACATTAGTAGGGTTCGCACT
* * *
15799792 TTAGGTAGGGCTCGCACATTGGTAGGGTTTGCA-T
1 TTAGGTAGGGTTCGCACATTAGTAGGGTTCGCACT
* * *
15799826 GTAAGGTAGGGTTTGCACATTAGTAGAGTTCG
1 -TTAGGTAGGGTTCGCACATTAGTAGGGTTCG
15799858 TACATCACAT
Statistics
Matches: 202, Mismatches: 37, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
34 1 0.00
35 171 0.85
36 30 0.15
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (35 bp):
TTAGGTAGGGTTCGCACATTAGTAGGGTTCGCACT
Found at i:15799681 original size:88 final size:88
Alignment explanation
Indices: 15799581--15799848 Score: 315
Period size: 88 Copynumber: 3.0 Consensus size: 88
15799571 GGCTCACACA
* * * *
15799581 TTAGGTAGGGTTCGCACATTAGTAGAGTTCACACTTTAGGTTGGATTCGCACATTAGGTAGGGTT
1 TTAGGAAGGGTTCGCACATTAGTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGTT
15799646 CGCACATTAGTAGGGTTTGCACT
66 CGCACATTAGTAGGGTTTGCACT
** * * * *
15799669 TTAGGAAGGGTTCGCACATTAGGTAGGGTTTGCACATTA-GTAGGGTTTGCACTTTAGGAAGGGT
1 TTAGGAAGGGTTCGCACATTA-GTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGT
* *
15799733 TCACACATTAGTAAGGTTTGCACT
65 TCGCACATTAGTAGGGTTTGCACT
* * * *
15799757 TTAGGAAGGGTTCACACAATAATAGGGTTCACACTTTAGGTAGGGCTCGCACATT-GGTAGGGTT
1 TTAGGAAGGGTTCGCACATTAGTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGTT
* ** * *
15799821 TGCATGTAAGGTAGGGTTTGCACA
66 CGCACATTA-GTAGGGTTTGCACT
15799845 TTAG
1 TTAG
15799849 TAGAGTTCGT
Statistics
Matches: 148, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
87 25 0.17
88 110 0.74
89 13 0.09
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (88 bp):
TTAGGAAGGGTTCGCACATTAGTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGTT
CGCACATTAGTAGGGTTTGCACT
Found at i:15799896 original size:33 final size:33
Alignment explanation
Indices: 15799859--15799963 Score: 140
Period size: 33 Copynumber: 3.2 Consensus size: 33
15799849 TAGAGTTCGT
* *
15799859 ACATCACATAGAAGTCACATAGCATAGGTTCAC
1 ACATCACATAGAAGTCACACAACATAGGTTCAC
*
15799892 ACATCACATAGTAGTCACACAACATAGGTTCGA-
1 ACATCACATAGAAGTCACACAACATAGGTTC-AC
* * *
15799925 AAATTACATAGCAGTCACACAACATAGGTTCAC
1 ACATCACATAGAAGTCACACAACATAGGTTCAC
15799958 ACATCA
1 ACATCA
15799964 TAATAGGGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.02
33 60 0.97
34 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (33 bp):
ACATCACATAGAAGTCACACAACATAGGTTCAC
Found at i:15799901 original size:17 final size:16
Alignment explanation
Indices: 15799874--15799965 Score: 61
Period size: 17 Copynumber: 5.6 Consensus size: 16
15799864 ACATAGAAGT
15799874 CACATAGCATAGGTTCA
1 CACATA-CATAGGTTCA
15799891 CACATCACATA-GTAGTCA
1 CACAT-ACATAGGT--TCA
15799909 CACA-ACATAGGTTCGA
1 CACATACATAGGTTC-A
*
15799925 -AAATTACATAGCAG-TCA
1 CACA-TACATAG--GTTCA
15799942 CACA-ACATAGGTTCA
1 CACATACATAGGTTCA
15799957 CACAT-CATA
1 CACATACATA
15799966 ATAGGGTTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
14 1 0.02
15 15 0.25
16 14 0.23
17 18 0.30
18 12 0.20
19 1 0.02
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (16 bp):
CACATACATAGGTTCA
Found at i:15799995 original size:22 final size:22
Alignment explanation
Indices: 15799970--15800029 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
15799960 ATCATAATAG
15799970 GGTTCACATGAAATTATAACAA
1 GGTTCACATGAAATTATAACAA
* * * *
15799992 GGTTTACATGATATTTTAGCAA
1 GGTTCACATGAAATTATAACAA
* *
15800014 GGTTCGCATGACATTA
1 GGTTCACATGAAATTA
15800030 CCTAGGCTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (22 bp):
GGTTCACATGAAATTATAACAA
Found at i:15801939 original size:28 final size:29
Alignment explanation
Indices: 15801907--15801969 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
15801897 ACTTTGTGTA
15801907 TTTCTCAACCTCCT-TT-ATTCATCTTATG
1 TTTCTCAA-CTCCTATTGATTCATCTTATG
*
15801935 TTTCTCAACTCCTCATTGTTTCATCTTATG
1 TTTCTCAACTCCT-ATTGATTCATCTTATG
15801965 TTTCT
1 TTTCT
15801970 AGAGATTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.16
28 8 0.26
29 2 0.06
30 16 0.52
ACGTcount: A:0.16, C:0.27, G:0.05, T:0.52
Consensus pattern (29 bp):
TTTCTCAACTCCTATTGATTCATCTTATG
Found at i:15804925 original size:68 final size:65
Alignment explanation
Indices: 15804853--15805057 Score: 180
Period size: 63 Copynumber: 3.2 Consensus size: 65
15804843 AATTAATAGC
15804853 ATAAATTATATAAATATATGATGATGTTCGAATGTATAATACAAATTTTTTGAGTTGAACTTAAT
1 ATAAATTATAT-AATATATGATG--GTTCGAATGTATAATACAAATTTTTTGAGTTGAACTTAAT
15804918 GTT
63 GTT
* * * * * *
15804921 ATAAATTGTATAA-ATATG-TGGTTCGAATATATGATGC-AATGTCTTTGAATTGAA-TGTAATG
1 ATAAATTATATAATATATGATGGTTCGAATGTATAATACAAAT-TTTTTGAGTTGAACT-TAATG
15804982 TT
64 TT
* *
15804984 ATGAAA-TATAT-ATA-A-GA-GGTTCGAATGTA-AGATACAAGTTTCTTTGAGCTGAACTTAAT
1 AT-AAATTATATAATATATGATGGTTCGAATGTATA-ATACAAATTT-TTTGAGTTGAACTTAAT
15805043 GTT
63 GTT
15805046 A-ATAATTATATA
1 ATA-AATTATATA
15805058 TAATTATACA
Statistics
Matches: 111, Mismatches: 14, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
60 1 0.01
61 18 0.16
62 30 0.27
63 40 0.36
64 3 0.03
65 2 0.02
66 5 0.05
67 2 0.02
68 10 0.09
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (65 bp):
ATAAATTATATAATATATGATGGTTCGAATGTATAATACAAATTTTTTGAGTTGAACTTAATGTT
Found at i:15805043 original size:62 final size:60
Alignment explanation
Indices: 15804861--15805060 Score: 176
Period size: 62 Copynumber: 3.2 Consensus size: 60
15804851 GCATAAATTA
*
15804861 TATAAATATATGAT--GATGTTCGAATGTATA-ATACAAATTT-TTTGAGTTGAACTTAATGT
1 TATAAATATAT-ATAAGAGGTTCGAATGTA-AGATAC-AATTTCTTTGAGTTGAACTTAATGT
* * * * * * * *
15804920 TATAAATTGTATAAATATGTGGTTCGAATATATGATGCAATGTCTTTGAATTGAA-TGTAATGT
1 TATAAA---TATATATAAGAGGTTCGAATGTAAGATACAATTTCTTTGAGTTGAACT-TAATGT
*
15804983 TATGAAATATATATAAGAGGTTCGAATGTAAGATACAAGTTTCTTTGAGCTGAACTTAATGT
1 TAT-AAATATATATAAGAGGTTCGAATGTAAGATACAA-TTTCTTTGAGTTGAACTTAATGT
*
15805045 TAATAATTATATATAA
1 T-ATAAATATATATAA
15805061 TTATACATAT
Statistics
Matches: 111, Mismatches: 18, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
59 6 0.05
61 27 0.24
62 39 0.35
63 36 0.32
64 3 0.03
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (60 bp):
TATAAATATATATAAGAGGTTCGAATGTAAGATACAATTTCTTTGAGTTGAACTTAATGT
Found at i:15805333 original size:41 final size:41
Alignment explanation
Indices: 15805271--15805366 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
15805261 AGCTCTGTGC
*
15805271 CTAGTA-GCTTAATACCAGTGAAATATTTCAGACTTTACT-T
1 CTAGTAGGCTTAATGCCAGTGAAATATTTCAGACTTTA-TGT
*
15805311 CTAGTAGGCTTAATGCCGGTGAAATATTTCAGACTTTATGT
1 CTAGTAGGCTTAATGCCAGTGAAATATTTCAGACTTTATGT
* *
15805352 CTAGCAGGTTTAATG
1 CTAGTAGGCTTAATG
15805367 TTGGTGTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 7 0.14
41 43 0.86
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (41 bp):
CTAGTAGGCTTAATGCCAGTGAAATATTTCAGACTTTATGT
Found at i:15807549 original size:8 final size:9
Alignment explanation
Indices: 15807530--15807563 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
15807520 ATTTGTTTTT
15807530 AAAATTTAA
1 AAAATTTAA
15807539 AAAATTTAAAA
1 AAAATTT--AA
15807550 AAAATTTAA
1 AAAATTTAA
15807559 AAAAT
1 AAAAT
15807564 AGGGGTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATTTAA
Found at i:15807553 original size:11 final size:11
Alignment explanation
Indices: 15807537--15807562 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15807527 TTTAAAATTT
15807537 AAAAAATTTAA
1 AAAAAATTTAA
15807548 AAAAAATTTAA
1 AAAAAATTTAA
15807559 AAAA
1 AAAA
15807563 TAGGGGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:15808496 original size:22 final size:21
Alignment explanation
Indices: 15808445--15808497 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
15808435 TTCCCTTCCC
* * *
15808445 TTTCCTTTTTGTTTTATTATT
1 TTTCATTTTTATTTTATTACT
*
15808466 TTTTATTTTTATTATTATTACT
1 TTTCATTTTTATT-TTATTACT
*
15808488 TTTCGTTTTT
1 TTTCATTTTT
15808498 TTTAGTACTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTCATTTTTATTTTATTACT
Found at i:15809100 original size:22 final size:22
Alignment explanation
Indices: 15809060--15809102 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15809050 AAACATTTTC
**
15809060 TCTCTCAAAATTCTCTTTAAAA
1 TCTCTCAAAATAATCTTTAAAA
*
15809082 TCTCTCAAAATAATTTTTAAA
1 TCTCTCAAAATAATCTTTAAA
15809103 GTTGGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCTCAAAATAATCTTTAAAA
Found at i:15811663 original size:19 final size:17
Alignment explanation
Indices: 15811623--15811664 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
15811613 GGTAAAGTAA
*
15811623 ATAAGAAAGTAAATATT
1 ATAATAAAGTAAATATT
15811640 A-AATAAAGTAAAATATAT
1 ATAATAAAGT-AAATAT-T
15811658 ATAATAA
1 ATAATAA
15811665 TAATCAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 2 0.10
19 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
ATAATAAAGTAAATATT
Found at i:15813961 original size:5 final size:5
Alignment explanation
Indices: 15813951--15813987 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
15813941 TTTAGTTAGT
*
15813951 TTTTA TTTTA TTTTA TTTTA TTTTA -GTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
15813988 ATTATTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:15816612 original size:9 final size:9
Alignment explanation
Indices: 15816597--15816634 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
15816587 GATGAATATA
15816597 ATAAAAAAT
1 ATAAAAAAT
*
15816606 TTAAAAAAT
1 ATAAAAAAT
15816615 ATATAAAAAT
1 ATA-AAAAAT
15816625 A-AAAAAAT
1 ATAAAAAAT
15816633 AT
1 AT
15816635 TATTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.28
9 11 0.44
10 7 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:15816627 original size:26 final size:26
Alignment explanation
Indices: 15816596--15816734 Score: 81
Period size: 26 Copynumber: 5.2 Consensus size: 26
15816586 AGATGAATAT
15816596 AATAAAAAATTTAAAAAATATATAAA
1 AATAAAAAATTTAAAAAATATATAAA
**
15816622 AATAAAAAAATATT-ATTAATA-ATAAA
1 AAT-AAAAAAT-TTAAAAAATATATAAA
**
15816648 TAATTTAAAATTT--AAAATATATAAA
1 -AATAAAAAATTTAAAAAATATATAAA
**
15816673 AATAAATATTTTTTAAAAAATATACTAATA
1 AATAAA-A-AATTTAAAAAATATA-TAA-A
** **
15816703 AATTTAAAATTTATATTAATAT-TAAA
1 AATAAAAAATTTA-AAAAATATATAAA
15816729 AATAAA
1 AATAAA
15816735 TATCCCTCAC
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
24 8 0.10
25 8 0.10
26 21 0.25
27 18 0.21
28 14 0.17
29 10 0.12
30 5 0.06
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (26 bp):
AATAAAAAATTTAAAAAATATATAAA
Found at i:15816628 original size:16 final size:16
Alignment explanation
Indices: 15816609--15816678 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
15816599 AAAAAATTTA
15816609 AAAAATATATAAAAAT
1 AAAAATATATAAAAAT
* **
15816625 AAAAAAATATTATTAAT
1 AAAAATATA-TAAAAAT
* *
15816642 AATAAATAATTTAAAATT
1 AA-AAAT-ATATAAAAAT
*
15816660 TAAAATATATAAAAAT
1 AAAAATATATAAAAAT
15816676 AAA
1 AAA
15816679 TATTTTTTAA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
16 18 0.46
17 11 0.28
18 8 0.21
19 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATATATAAAAAT
Found at i:15816629 original size:17 final size:17
Alignment explanation
Indices: 15816607--15816678 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 17
15816597 ATAAAAAATT
15816607 TAAAAAATATATAAAAA
1 TAAAAAATATATAAAAA
*
15816624 TAAAAAAATATTATTAATAA
1 T-AAAAAATA-TA-TAAAAA
*
15816644 TAAATAAT-T-T-AAAA
1 TAAAAAATATATAAAAA
**
15816658 TTTAAAATATATAAAAA
1 TAAAAAATATATAAAAA
15816675 TAAA
1 TAAA
15816679 TATTTTTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
14 8 0.20
15 2 0.05
16 1 0.02
17 8 0.20
18 8 0.20
19 8 0.20
20 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAAATATATAAAAA
Found at i:15817817 original size:38 final size:40
Alignment explanation
Indices: 15817770--15817844 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 40
15817760 TCCTCAAAAT
15817770 TATTATTTGGAAATTTTTA-AAAAAATTT-AAATTTTTTA
1 TATTATTTGGAAATTTTTATAAAAAATTTGAAATTTTTTA
* * * *
15817808 TATTCTTTGGAATTTTTTATAAATATTTTGAAATTTT
1 TATTATTTGGAAATTTTTATAAAAAATTTGAAATTTT
15817845 GAAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 17 0.55
39 7 0.23
40 7 0.23
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (40 bp):
TATTATTTGGAAATTTTTATAAAAAATTTGAAATTTTTTA
Found at i:15817844 original size:20 final size:19
Alignment explanation
Indices: 15817773--15817865 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 19
15817763 TCAAAATTAT
*
15817773 TATTTGGAAATTTTTAAAA
1 TATTTTGAAATTTTTAAAA
* * * *
15817792 AAATTT-AAATTTTTTATA
1 TATTTTGAAATTTTTAAAA
*
15817810 T-TCTTTGGAATTTTTTATAAA
1 TAT-TTT-GAAATTTTTA-AAA
*
15817831 TATTTTGAAATTTTGAAAA
1 TATTTTGAAATTTTTAAAA
*
15817850 TTATTTTGATATTTTT
1 -TATTTTGAAATTTTT
15817866 TTGTTGAGAT
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
18 13 0.24
19 6 0.11
20 28 0.52
21 6 0.11
22 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (19 bp):
TATTTTGAAATTTTTAAAA
Found at i:15818924 original size:18 final size:19
Alignment explanation
Indices: 15818860--15818927 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
15818850 CTCTCTCAAC
*
15818860 AAAAATTATAAAAAAATTCT
1 AAAAATT-TATAAAAATTCT
*
15818880 AAATAATTT-TTAAAATT-T
1 AAA-AATTTATAAAAATTCT
15818898 AAAATATTTATAAAAATTCT
1 AAAA-ATTTATAAAAATTCT
15818918 -AAAATTTATA
1 AAAAATTTATA
15818928 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
17 1 0.02
18 15 0.37
19 16 0.39
20 5 0.12
21 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTTATAAAAATTCT
Found at i:15827428 original size:20 final size:20
Alignment explanation
Indices: 15827377--15827428 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
15827367 AAATCATTGC
15827377 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
15827397 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
15827415 AATATATGTAAAAA
1 AATATATGTAAAAA
15827429 CAACTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:15827474 original size:32 final size:32
Alignment explanation
Indices: 15827438--15827516 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
15827428 ACAACTTTTT
** ** *
15827438 CAGAAAATATTTTCAGGGAATCTGTCAAACAG
1 CAGAAAATATTTTCACAGAATCAATCAAACAC
*
15827470 CAGAAAATATTTTACACAGATTCAATCAAACAC
1 CAGAAAATATTTT-CACAGAATCAATCAAACAC
15827503 CAGAAAATATTTTC
1 CAGAAAATATTTTC
15827517 CAGTAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
32 14 0.35
33 26 0.65
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (32 bp):
CAGAAAATATTTTCACAGAATCAATCAAACAC
Found at i:15827572 original size:34 final size:35
Alignment explanation
Indices: 15827506--15827572 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
15827496 CAAACACCAG
* **
15827506 AAAATATTTTCCAGTAAATCATTTTTTAAAAAAGT
1 AAAATATTTTCCAGAAAATCATTTTACAAAAAAGT
*
15827541 AAAATATTTTCCA-AAAATCATTTTACGAAAAA
1 AAAATATTTTCCAGAAAATCATTTTACAAAAAA
15827573 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAGAAAATCATTTTACAAAAAAGT
Found at i:15827572 original size:35 final size:35
Alignment explanation
Indices: 15827506--15827572 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
15827496 CAAACACCAG
* **
15827506 AAAATATTTTCCAGTAAATCATTTTTTAAAAAAGT
1 AAAATATTTTCCAGAAAATCATTTTCGAAAAAAGT
15827541 AAAATATTTTCCA-AAAATCATTTTACGAAAAA
1 AAAATATTTTCCAGAAAATCATTTT-CGAAAAA
15827573 TATTTTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAGAAAATCATTTTCGAAAAAAGT
Found at i:15829235 original size:10 final size:10
Alignment explanation
Indices: 15829220--15829244 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15829210 GCCCAAAACC
15829220 GTCCAGCCTT
1 GTCCAGCCTT
15829230 GTCCAGCCTT
1 GTCCAGCCTT
15829240 GTCCA
1 GTCCA
15829245 AAATCAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.40, G:0.20, T:0.28
Consensus pattern (10 bp):
GTCCAGCCTT
Found at i:15831930 original size:29 final size:29
Alignment explanation
Indices: 15831898--15831973 Score: 152
Period size: 29 Copynumber: 2.6 Consensus size: 29
15831888 CTCAAATTAT
15831898 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTGAAATGTTAC
15831927 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTGAAATGTTAC
15831956 ATTTTAGTCACTTATGTT
1 ATTTTAGTCACTTATGTT
15831974 ATCATTTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTGAAATGTTAC
Found at i:15833288 original size:9 final size:9
Alignment explanation
Indices: 15833276--15833309 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
15833266 TTTTTTAATT
15833276 TATTAATAA
1 TATTAATAA
15833285 TATTAATAA
1 TATTAATAA
* *
15833294 TATTATTAT
1 TATTAATAA
15833303 TATTAAT
1 TATTAAT
15833310 GTTACTGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTAATAA
Found at i:15834718 original size:12 final size:12
Alignment explanation
Indices: 15834701--15834756 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
15834691 ATAACTAAAT
*
15834701 ATAATAGTATCA
1 ATAATAATATCA
*
15834713 ATAATAATATGA
1 ATAATAATATCA
*
15834725 GTAATAATAAT-A
1 ATAATAAT-ATCA
*
15834737 ATAATAATAACA
1 ATAATAATATCA
15834749 ATAATAAT
1 ATAATAAT
15834757 GAAAATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 1 0.03
12 34 0.92
13 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (12 bp):
ATAATAATATCA
Found at i:15834720 original size:3 final size:3
Alignment explanation
Indices: 15834712--15834756 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
15834702 TAATAGTATC
* *
15834712 AAT AAT AAT -AT GAGT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15834757 GAAAATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 33 0.92
4 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15836423 original size:44 final size:44
Alignment explanation
Indices: 15836374--15836503 Score: 104
Period size: 43 Copynumber: 3.0 Consensus size: 44
15836364 TTCGATCTGT
15836374 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAC
** * * * * *** * * *
15836418 TCCACTGTTG-TTCAGAGTGACAAG-CCTGGGGTCTTT-GATCTGC
1 TCCACTACTGCTT-AGGGAGATAAGATCTGTAAT-TTTCAACCTAC
*
15836461 TCCAATACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
15836504 ATTCACTGCT
Statistics
Matches: 56, Mismatches: 25, Indels: 10
0.62 0.27 0.11
Matches are distributed among these distances:
43 28 0.50
44 28 0.50
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAC
Found at i:15836452 original size:87 final size:87
Alignment explanation
Indices: 15836361--15836521 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 87
15836351 TAGGATTAGA
* * * *
15836361 GTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGT
1 GTCTTCGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAATCCACTGC
15836426 TGTTCAGAGTGACAAGCCTGGG
66 TGTTCAGAGTGACAAGCCTGGG
* *
15836448 GTCTTTGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAATTCACTGC
1 GTCTTCGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAATCCACTGC
15836513 TGTTCAGAG
66 TGTTCAGAG
15836522 AGCTAGGACT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (87 bp):
GTCTTCGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAATCCACTGC
TGTTCAGAGTGACAAGCCTGGG
Found at i:15836784 original size:89 final size:88
Alignment explanation
Indices: 15836543--15836844 Score: 523
Period size: 89 Copynumber: 3.4 Consensus size: 88
15836533 GGAAATGCAA
* *
15836543 TCTTCCACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCCACCTATTCCACTGCT
1 TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGACTTACATTCTTCCACCTATTCCACTGCT
* *
15836608 GGTGAGGGAACTAGGGCTTACAA
66 GGTCAGGGAACTAGGGCTTACAG
*
15836631 TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACATTCTTCCACCTATTCCAACTGC
1 TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGACTTACATTCTTCCACCTATTCC-ACTGC
*
15836696 TGGTCAGGGAACTAGGACTTACAG
65 TGGTCAGGGAACTAGGGCTTACAG
*
15836720 TCTTCCACCTATTCCAACTGCTGGTCAGGGAACTAGGATTTACATTCTTCCACCTATTCCACTGC
1 TCTTCCACCTATTCC-ACTGCTGGTCAGGGAACTAGGACTTACATTCTTCCACCTATTCCACTGC
15836785 TGGTCAGGGAACTAGGGCTTACAG
65 TGGTCAGGGAACTAGGGCTTACAG
15836809 TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGG
1 TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGG
15836845 GCTTGTGATT
Statistics
Matches: 203, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
88 77 0.38
89 84 0.41
90 42 0.21
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (88 bp):
TCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGACTTACATTCTTCCACCTATTCCACTGCT
GGTCAGGGAACTAGGGCTTACAG
Found at i:15836845 original size:44 final size:44
Alignment explanation
Indices: 15836540--15836848 Score: 510
Period size: 44 Copynumber: 7.0 Consensus size: 44
15836530 CTAGGAAATG
* *
15836540 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
*
15836584 CAATCTTCCACCTATTCCACTGCTGGTGAGGGAACTAGGGCTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
15836628 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
* *
15836672 CATTCTTCCACCTATTCCAACTGCTGGTCAGGGAACTAGGACTTA
1 CAATCTTCCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTA
* **
15836717 CAGTCTTCCACCTATTCCAACTGCTGGTCAGGGAACTAGGATTTA
1 CAATCTTCCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTA
*
15836762 CATTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
*
15836806 CAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
1 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
15836849 GTGATTTCAC
Statistics
Matches: 252, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
44 167 0.66
45 85 0.34
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (44 bp):
CAATCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTA
Found at i:15838215 original size:19 final size:18
Alignment explanation
Indices: 15838160--15838219 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
15838150 TTTCATTTTG
15838160 ATTTTTTTGATTTTT-TT
1 ATTTTTTTGATTTTTATT
* *
15838177 ACTCTCTTTT-ATTATTATT
1 A-T-TTTTTTGATTTTTATT
15838196 ATTTATTTTGATTTTTATT
1 ATTT-TTTTGATTTTTATT
15838215 ATTTT
1 ATTTT
15838220 GCTTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.06
18 12 0.35
19 20 0.59
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.73
Consensus pattern (18 bp):
ATTTTTTTGATTTTTATT
Found at i:15847999 original size:15 final size:15
Alignment explanation
Indices: 15847979--15848017 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
15847969 CATAACTGTT
15847979 ATAAAATATAATTTA
1 ATAAAATATAATTTA
15847994 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
15848011 ATAAAAT
1 ATAAAAT
15848018 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:15848024 original size:17 final size:17
Alignment explanation
Indices: 15847984--15848017 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15847974 CTGTTATAAA
15847984 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15848001 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15848018 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15848105 original size:26 final size:28
Alignment explanation
Indices: 15848075--15848138 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
15848065 TAATACTATA
*
15848075 AAATATAATTTAA-AATAAT-TATTATT
1 AAATATAATTTAATAATAATATATAATT
15848101 AAATATAATTTAATAATAATATATAATT
1 AAATATAATTTAATAATAATATATAATT
* *
15848129 TAATAAAATT
1 AAATATAATT
15848139 CTTATTCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATATAATT
Found at i:15848171 original size:110 final size:113
Alignment explanation
Indices: 15847977--15848225 Score: 357
Period size: 110 Copynumber: 2.2 Consensus size: 113
15847967 AACATAACTG
*
15847977 TTATAAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAATATTATTATATGA
1 TTATTAAATATAATTTAATAATAATATATAATTTAATAAAA-T-TTAAT--ATATTATTATATGA
15848041 ATTTACTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTA
62 ATTTAC--ATAAAATCATAATATATAATACTATAAAATATAATTT-AAATAATTA
* *
15848096 TTATTAAATATAATTTAATAATAATATATAATTTAATAAAA-TT-CT-TATTCTTATATGAATTT
1 TTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATTATTATATGAATTT
15848158 AC-TAAAATCATAATATATAATACTATAAAATATAATTTAAATAATTA
66 ACATAAAATCATAATATATAATACTATAAAATATAATTTAAATAATTA
*
15848205 TTTTTAAATATAATTT-ATAAT
1 TTATTAAATATAATTTAATAAT
15848226 CTACTTTATT
Statistics
Matches: 125, Mismatches: 4, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
108 5 0.04
109 24 0.19
110 36 0.29
113 18 0.14
116 1 0.01
117 2 0.02
119 20 0.16
120 19 0.15
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (113 bp):
TTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATTATTATATGAATTT
ACATAAAATCATAATATATAATACTATAAAATATAATTTAAATAATTA
Found at i:15849669 original size:49 final size:49
Alignment explanation
Indices: 15849597--15849700 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
15849587 AAAAAAAAAC
* * ** * *
15849597 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTATATA
*
15849646 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTATATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTATATA
15849695 AAATTA
1 AAATTA
15849701 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTATATA
Found at i:15851592 original size:2 final size:2
Alignment explanation
Indices: 15851585--15851619 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15851575 ATTTGTACAG
15851585 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15851620 TATCCGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15853903 original size:62 final size:63
Alignment explanation
Indices: 15853781--15853913 Score: 146
Period size: 62 Copynumber: 2.1 Consensus size: 63
15853771 TACTTAAAAG
* * * *
15853781 GGATTTTCCATGATCCTCTCATATTACAAAATTAAAGTCAATCTATAATTTTAGACTTTT-AA
1 GGATTTTCCAAGATACTCTAATATTACAAAATTAAAGTCAATCTATAATTGTAGACTTTTAAA
* * **
15853843 GGATTTTCCAAGATACTTTAATATTACAAAATTAAAAG-GAATCTATAAATTGT-GTTTTTTAAA
1 GGATTTTCCAAGATACTCTAATATTACAAAATT-AAAGTCAATCTAT-AATTGTAGACTTTTAAA
*
15853906 AGATTTTC
1 GGATTTTC
15853914 TCATACCCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
62 41 0.69
63 18 0.31
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41
Consensus pattern (63 bp):
GGATTTTCCAAGATACTCTAATATTACAAAATTAAAGTCAATCTATAATTGTAGACTTTTAAA
Found at i:15857838 original size:26 final size:26
Alignment explanation
Indices: 15857809--15857862 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
15857799 AAATAAGTAT
* * *
15857809 TAATAATTTTATTTAATATTTATTTA
1 TAATAATTATAATTAATATTTAATTA
* *
15857835 TAATAGTTATAATTATTATTTAATTA
1 TAATAATTATAATTAATATTTAATTA
15857861 TA
1 TA
15857863 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TAATAATTATAATTAATATTTAATTA
Found at i:15865242 original size:4 final size:4
Alignment explanation
Indices: 15865235--15865267 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
15865225 TGCGTGCGGG
15865235 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
15865268 ATATCTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:15874006 original size:173 final size:172
Alignment explanation
Indices: 15873660--15874008 Score: 418
Period size: 174 Copynumber: 2.0 Consensus size: 172
15873650 GCATTCTTAA
* **
15873660 ACATATATCCAGTCATCATAACACTGTACATAAGTTGTGCAAGATTTTCAGCAACCTAAAGGGAA
1 ACATATATCCAGTAATCATAACACCATACATAAGTTGTGCAAGATTTTCAGCAACCTAAAGGGAA
* *
15873725 ATCAAAGAAATCCAAATGATTGTCTAAACCAACAATAATAAATTTCAATAACACTAATAAATATA
66 ATCAAAGAAATCCAAATGATTGTCTAAACCAACAATAATAAAGTTCAATAACACTAATAAACATA
** *
15873790 ATCAAAATATCCACAAAGAACATATATTGTGCAATGCATGCTT
131 ATCAAAATATAAACAAAGAACATATATTGTACAAT-CATGCTT
* *
15873833 ACATATATCCAGTAATCATAACACCATACATTAGTTGTGCAAGATTTTCAGCAACCTAAAAGTGA
1 ACATATATCCAGTAATCATAACACCATACATAAGTTGTGCAAGATTTTCAGCAACCT-AAAGGGA
* * ** ** * *
15873898 AA-CTGAAGAGATCCCGATGATTGTCTAAACCAAC-ATGCTTATAGTTCAATAACACTGATAAAC
65 AATC-AAAGAAATCCAAATGATTGTCTAAACCAACAAT-AATAAAGTTCAATAACACTAATAAAC
* * * *
15873961 ATAGTCAAAATCA-AAACAGAGAACATGTCTTGTTACAAT-ATGCTT
128 ATAATCAAAAT-ATAAACAAAGAACATATATTG-TACAATCATGCTT
15874006 ACA
1 ACA
15874009 GTGGTGACTG
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
173 65 0.44
174 78 0.52
175 6 0.04
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.27
Consensus pattern (172 bp):
ACATATATCCAGTAATCATAACACCATACATAAGTTGTGCAAGATTTTCAGCAACCTAAAGGGAA
ATCAAAGAAATCCAAATGATTGTCTAAACCAACAATAATAAAGTTCAATAACACTAATAAACATA
ATCAAAATATAAACAAAGAACATATATTGTACAATCATGCTT
Found at i:15878609 original size:28 final size:28
Alignment explanation
Indices: 15878573--15878627 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
15878563 GAAAAAGTTA
15878573 AATTGTTTTAAAAAAT-AAAAATATAGG
1 AATTGTTTTAAAAAATAAAAAATATAGG
*
15878600 AATTAGTTTTAACAAATAAAAAATATAG
1 AATT-GTTTTAAAAAATAAAAAATATAG
15878628 AAAAAATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 11 0.44
29 10 0.40
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (28 bp):
AATTGTTTTAAAAAATAAAAAATATAGG
Found at i:15878690 original size:21 final size:21
Alignment explanation
Indices: 15878638--15878699 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
15878628 AAAAAATACA
* *
15878638 TTAAAAGAAATAGAAAAGAGAG
1 TTAAAAG-AATAAAAAAGAAAG
* *
15878660 -GAAAATAATAAAAAAGAAAG
1 TTAAAAGAATAAAAAAGAAAG
*
15878680 TTAAAAGAATATAAAAGAAA
1 TTAAAAGAATAAAAAAGAAA
15878700 AATATTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 12 0.38
21 20 0.62
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (21 bp):
TTAAAAGAATAAAAAAGAAAG
Found at i:15879488 original size:14 final size:13
Alignment explanation
Indices: 15879471--15879500 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
15879461 CAAACTAATC
15879471 CTCTCTCAATTTT
1 CTCTCTCAATTTT
15879484 C-CTCTCAATTTT
1 CTCTCTCAATTTT
15879496 CTCTC
1 CTCTC
15879501 AATTTCCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.13, C:0.37, G:0.00, T:0.50
Consensus pattern (13 bp):
CTCTCTCAATTTT
Found at i:15879499 original size:23 final size:22
Alignment explanation
Indices: 15879472--15879524 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
15879462 AAACTAATCC
*
15879472 TCTCTCAATTTTCCTCTC-AATTT
1 TCTCTCAA-TTTCCT-TCAAAATT
15879495 TCTCTCAATTTCCTTCAAAATT
1 TCTCTCAATTTCCTTCAAAATT
15879517 TCTCTCAA
1 TCTCTCAA
15879525 ATCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 18 0.64
23 8 0.29
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTCTCAATTTCCTTCAAAATT
Found at i:15879501 original size:11 final size:11
Alignment explanation
Indices: 15879472--15879524 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
15879462 AAACTAATCC
15879472 TCTCTCAATTT
1 TCTCTCAATTT
15879483 TCCTCTCAATTT
1 T-CTCTCAATTT
15879495 TCTCTCAATTT
1 TCTCTCAATTT
* *
15879506 CCT-TCAAAATT
1 TCTCTC-AATTT
15879517 TCTCTCAA
1 TCTCTCAA
15879525 ATCCATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 2 0.06
11 21 0.58
12 13 0.36
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:15879525 original size:12 final size:11
Alignment explanation
Indices: 15879472--15879526 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
15879462 AAACTAATCC
*
15879472 TCTCTCAATTT
1 TCTCTCAAATT
*
15879483 TCCTCTCAATTT
1 T-CTCTCAAATT
15879495 TCTCTC-AATT
1 TCTCTCAAATT
15879505 TC-CTTCAAAATT
1 TCTC-TC-AAATT
15879517 TCTCTCAAAT
1 TCTCTCAAAT
15879527 CCATATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 1 0.03
10 7 0.18
11 10 0.26
12 19 0.50
13 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:15879619 original size:14 final size:15
Alignment explanation
Indices: 15879592--15879632 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
15879582 ATTTTTAAAA
15879592 AAAATTATTTTTTTT
1 AAAATTATTTTTTTT
15879607 AAAATTATTTTTTTT
1 AAAATTATTTTTTTT
15879622 AAAATT-TTTTT
1 AAAATTATTTTT
15879633 ATATCGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AAAATTATTTTTTTT
Found at i:15881961 original size:64 final size:64
Alignment explanation
Indices: 15881893--15882021 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
15881883 TAAAATAGAA
*
15881893 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
15881957 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
15882021 A
1 A
15882022 ATTGAAAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (64 bp):
ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACACGAGCTTAATTAATTTGTACAAAT
Found at i:15885377 original size:124 final size:125
Alignment explanation
Indices: 15885032--15885378 Score: 554
Period size: 124 Copynumber: 2.8 Consensus size: 125
15885022 CCTAAACATG
* * *
15885032 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCAATTTTACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
*
15885097 TAGAAGTG-TTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
* *
15885156 CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
* * *
15885221 TAGAAGCGATTTTATACTATTTCCTCAAAAACGTC-AAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
* * * *
15885280 CTACTGTAGCAAAAGCGCATCCACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCACCCAGC
1 CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
*
15885345 TAGAAGCGATTTTATACTATTTGATCAGAAACGT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT
15885379 TAACTCGAAA
Statistics
Matches: 205, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
124 181 0.88
125 24 0.12
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTATTCCATGAC
Found at i:15898928 original size:12 final size:12
Alignment explanation
Indices: 15898911--15898935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15898901 AAAGTCCTCC
15898911 TTTTTGTTATTT
1 TTTTTGTTATTT
15898923 TTTTTGTTATTT
1 TTTTTGTTATTT
15898935 T
1 T
15898936 CTTCTTTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTGTTATTT
Found at i:15901768 original size:19 final size:20
Alignment explanation
Indices: 15901731--15901770 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
15901721 TCTCAACTCG
15901731 AATAAGTTTAATTATTTAAAA
1 AATAAGTTTAA-TATTTAAAA
15901752 AATAAGTTTAA-ATTTAAAA
1 AATAAGTTTAATATTTAAAA
15901771 TTGTTCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AATAAGTTTAATATTTAAAA
Found at i:15909631 original size:26 final size:27
Alignment explanation
Indices: 15909593--15909654 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
15909583 AAAGGTTGTT
15909593 AAATGACCGAAAA-ACCCTCGAAGGATA
1 AAATGACCGAAAATA-CCTCGAAGGATA
* *
15909620 AAATGACC-AAAATACCTCGAGGGGTA
1 AAATGACCGAAAATACCTCGAAGGATA
*
15909646 AAATTACCG
1 AAATGACCG
15909655 TTTTACCCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (27 bp):
AAATGACCGAAAATACCTCGAAGGATA
Found at i:15912834 original size:28 final size:27
Alignment explanation
Indices: 15912783--15912836 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
15912773 TTGATACTAA
*
15912783 TTCTGTAATGGGCTTAGGTCCACCTGG
1 TTCTGTAATGGGCTAAGGTCCACCTGG
15912810 TTCTGTTAATGGGCTAAGG-CTCACCTG
1 TTCTG-TAATGGGCTAAGGTC-CACCTG
15912837 ATATTATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (27 bp):
TTCTGTAATGGGCTAAGGTCCACCTGG
Found at i:15924785 original size:19 final size:20
Alignment explanation
Indices: 15924761--15924806 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
15924751 ATTCTTGTCG
15924761 AAAAATAATTAAA-TAT-TAT
1 AAAAATAATTAAATTATGT-T
15924780 AAAAATAATTAAATTATGTT
1 AAAAATAATTAAATTATGTT
15924800 AAAAATA
1 AAAAATA
15924807 TGAACATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.52
20 11 0.44
21 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATAATTAAATTATGTT
Found at i:15927802 original size:13 final size:13
Alignment explanation
Indices: 15927775--15927863 Score: 53
Period size: 13 Copynumber: 6.9 Consensus size: 13
15927765 CAAAAAAATG
15927775 AAAT-GAAAAAG-
1 AAATAGAAAAAGA
15927786 AAATAGAAAAAGA
1 AAATAGAAAAAGA
*
15927799 AAATA-ATTGAAACGA
1 AAATAGA---AAAAGA
* *
15927814 AAACAGAAAAGGA
1 AAATAGAAAAAGA
*
15927827 ACAAAAG-AAAAGA
1 A-AATAGAAAAAGA
*
15927840 AAA-AGAGAAAGA
1 AAATAGAAAAAGA
*
15927852 AAAGAGAAAAAG
1 AAATAGAAAAAG
15927864 CTAGGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
11 6 0.10
12 18 0.29
13 24 0.39
14 4 0.06
15 9 0.15
16 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.06
Consensus pattern (13 bp):
AAATAGAAAAAGA
Found at i:15927843 original size:11 final size:11
Alignment explanation
Indices: 15927768--15927861 Score: 64
Period size: 12 Copynumber: 7.9 Consensus size: 11
15927758 AATAAAACAA
*
15927768 AAAAATGAAATG
1 AAAAA-GAAAAG
15927780 AAAAAGAAATAG
1 AAAAAGAAA-AG
15927792 AAAAAGAAAA-
1 AAAAAGAAAAG
* ** *
15927802 TAATTGAAACG
1 AAAAAGAAAAG
15927813 AAAACAGAAAAGG
1 AAAA-AGAAAA-G
15927826 AACAAAAGAAAAG
1 -A-AAAAGAAAAG
15927839 AAAAAGAGAAAG
1 AAAAAGA-AAAG
15927851 AAAAGAGAAAA
1 AAAA-AGAAAA
15927862 AGCTAGGGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
10 6 0.09
11 13 0.20
12 31 0.48
13 5 0.08
14 7 0.11
15 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.06
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:15931415 original size:16 final size:16
Alignment explanation
Indices: 15931381--15931429 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 16
15931371 ATATTATATT
15931381 ATAATAATAAGTAATTGAA
1 ATAATAATAA--AA-TGAA
15931400 ATAATAATAAAATG-A
1 ATAATAATAAAATGAA
15931415 A-AA-AATAAAATGAA
1 ATAATAATAAAATGAA
15931429 A
1 A
15931430 ACGAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
15 2 0.07
16 2 0.07
17 2 0.07
19 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
ATAATAATAAAATGAA
Found at i:15931420 original size:19 final size:19
Alignment explanation
Indices: 15931398--15931435 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15931388 TAAGTAATTG
*
15931398 AAATAATAAT-AAAATGAAA
1 AAATAA-AATGAAAACGAAA
15931417 AAATAAAATGAAAACGAAA
1 AAATAAAATGAAAACGAAA
15931436 TAGAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (19 bp):
AAATAAAATGAAAACGAAA
Found at i:15931421 original size:13 final size:13
Alignment explanation
Indices: 15931405--15931430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15931395 TTGAAATAAT
15931405 AATAAAATGAAAA
1 AATAAAATGAAAA
15931418 AATAAAATGAAAA
1 AATAAAATGAAAA
15931431 CGAAATAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AATAAAATGAAAA
Found at i:15931496 original size:17 final size:18
Alignment explanation
Indices: 15931476--15931510 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
15931466 AAAAAGGAAC
15931476 GAAAGAAA-AGAAAAAGA
1 GAAAGAAAGAGAAAAAGA
15931493 GAAAGAAAGGAGAAAAAG
1 GAAAGAAA-GAGAAAAAG
15931511 CTAGGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAGAAAAAGA
Found at i:15931860 original size:20 final size:20
Alignment explanation
Indices: 15931835--15931872 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15931825 GGAAATTGAA
* *
15931835 TGAAAATATAGAATTAGTTG
1 TGAAAAAATAAAATTAGTTG
15931855 TGAAAAAATAAAATTAGT
1 TGAAAAAATAAAATTAGT
15931873 CTTGGTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAAAAATAAAATTAGTTG
Found at i:15932413 original size:41 final size:39
Alignment explanation
Indices: 15932368--15932501 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
15932358 ACTTTGATTT
15932368 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTAATTC
* * *
15932409 GATGACG-CACTGGGTGCCAATT-TACTTCGGTTTAGTT-
1 GATGA-GACACTGGGTGTCAATTATACTTCGGATTAATTC
* *
15932446 GATGAGACACTAGGTGTCAAATTATTACTTCGAATT-ATTC
1 GATGAGACACTGGGTGTC-AATTA-TACTTCGGATTAATTC
* * *
15932486 AATGAGGCATTGGGTG
1 GATGAGACACTGGGTG
15932502 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
36 1 0.01
37 14 0.19
38 17 0.23
39 2 0.03
40 23 0.31
41 17 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTATACTTCGGATTAATTC
Found at i:15936568 original size:14 final size:13
Alignment explanation
Indices: 15936544--15936574 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
15936534 ACCAAAATTT
15936544 GAAAGAAAAGAAA
1 GAAAGAAAAGAAA
15936557 GAAAGAAAAAGAAA
1 GAAAG-AAAAGAAA
15936571 GAAA
1 GAAA
15936575 AGGGAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:15939526 original size:21 final size:21
Alignment explanation
Indices: 15939502--15939544 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15939492 AGAACAAATC
15939502 TTGCATGTTATCCATATTCCA
1 TTGCATGTTATCCATATTCCA
15939523 TTGCATGTTATCCATATTCCA
1 TTGCATGTTATCCATATTCCA
15939544 T
1 T
15939545 GTGTTGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (21 bp):
TTGCATGTTATCCATATTCCA
Found at i:15945411 original size:6 final size:6
Alignment explanation
Indices: 15945411--15945456 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
15945401 GGGCTATGGC
15945411 TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGC
1 TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGCTT TGGC
15945457 AAAATCGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.17, G:0.35, T:0.48
Consensus pattern (6 bp):
TGGCTT
Found at i:15945999 original size:29 final size:29
Alignment explanation
Indices: 15945960--15946024 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
15945950 TTCGACCTTC
* *
15945960 CTTTTCAATTTTTTAATAAATGGCTCAATA
1 CTTTT-AATTTTTGAATAAATGGCGCAATA
*
15945990 CTTTTAATTTTTGAGTAAATGGCGCAATA
1 CTTTTAATTTTTGAATAAATGGCGCAATA
*
15946019 TTTTTA
1 CTTTTA
15946025 TACTTCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (29 bp):
CTTTTAATTTTTGAATAAATGGCGCAATA
Found at i:15946411 original size:3 final size:3
Alignment explanation
Indices: 15946403--15946442 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
15946393 TAGTTAACAA
15946403 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
15946443 GGAAATGGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15952809 original size:12 final size:11
Alignment explanation
Indices: 15952789--15952819 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
15952779 AGATATCATT
15952789 ATTTAAAATAA
1 ATTTAAAATAA
15952800 ATTATAAAATAA
1 ATT-TAAAATAA
15952812 ATTTAAAA
1 ATTTAAAA
15952820 AATAATGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTTAAAATAA
Found at i:15952887 original size:22 final size:22
Alignment explanation
Indices: 15952856--15952897 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15952846 CTTTATTCCT
* *
15952856 AATTTCTATATATTAATAAAGG
1 AATTTATATAGATTAATAAAGG
15952878 AATTTATATAGATTAATAAA
1 AATTTATATAGATTAATAAA
15952898 TTAGCATGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATTTATATAGATTAATAAAGG
Found at i:15954395 original size:23 final size:23
Alignment explanation
Indices: 15954360--15954404 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
15954350 CCCTCCGCCC
* * *
15954360 ATATTTTTTTTATTTTTTTTAAA
1 ATATTTATATTATATTTTTTAAA
15954383 ATATTTATATTATATTTTTTAA
1 ATATTTATATTATATTTTTTAA
15954405 TATTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
ATATTTATATTATATTTTTTAAA
Found at i:15955396 original size:17 final size:18
Alignment explanation
Indices: 15955362--15955397 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15955352 AATAATATTT
15955362 TTATTATCAATATAATAA
1 TTATTATCAATATAATAA
*
15955380 TTATTATCACT-TAATAA
1 TTATTATCAATATAATAA
15955397 T
1 T
15955398 AGTTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATTATCAATATAATAA
Found at i:15955404 original size:38 final size:37
Alignment explanation
Indices: 15955337--15955414 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 37
15955327 GTATTAGTAA
* *
15955337 AATAATTATTTTATTAATAATATTTTTATT-ATCAATAT
1 AATAATTATTTCATTAATAATA-TGTTATTAAT-AATAT
15955375 AATAATTATTATCACTTAATAATA-GTTATTAATAATAT
1 AATAATTATT-TCA-TTAATAATATGTTATTAATAATAT
15955413 AA
1 AA
15955415 AGTATTAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
38 22 0.63
39 4 0.11
40 9 0.26
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (37 bp):
AATAATTATTTCATTAATAATATGTTATTAATAATAT
Found at i:15966330 original size:11 final size:11
Alignment explanation
Indices: 15966308--15966359 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
15966298 AACTAATCCT
15966308 CTCTCAAATTTC
1 CTCTC-AATTTC
15966320 CTCTCAATTTC
1 CTCTCAATTTC
* *
15966331 TTCTAAATTTC
1 CTCTCAATTTC
*
15966342 CTCTCAATTTG
1 CTCTCAATTTC
15966353 CTCTCAA
1 CTCTCAA
15966360 ACTCCTTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
11 30 0.86
12 5 0.14
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:15966357 original size:33 final size:33
Alignment explanation
Indices: 15966307--15966381 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
15966297 AAACTAATCC
* * *
15966307 TCTCTCAAATTTCCTCTC-AATTTCTTCTAAATT
1 TCTCTC-AATTTCCTCTCAAACTCCTTCAAAATT
*
15966340 TCCTCTCAATTTGCTCTCAAACTCCTTCAAAATT
1 T-CTCTCAATTTCCTCTCAAACTCCTTCAAAATT
15966374 TCTCTCAA
1 TCTCTCAA
15966382 ATCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAACTCCTTCAAAATT
Found at i:15966365 original size:22 final size:22
Alignment explanation
Indices: 15966307--15966383 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
15966297 AAACTAATCC
15966307 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
15966329 TCT-TCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
*
15966351 TGCTCTCAAA-CTCCT-TCAAAATT
1 T-CTCTCAAATTTCCTCTC--AATT
15966374 TCTCTCAAAT
1 TCTCTCAAAT
15966384 CCATATTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.08
22 32 0.67
23 10 0.21
24 2 0.04
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.43
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:15968477 original size:21 final size:21
Alignment explanation
Indices: 15968453--15968495 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15968443 AATTGGTCCA
15968453 AACAAC-AATAGTTCTAAACAT
1 AACAACTAATA-TTCTAAACAT
*
15968474 AACAACTGATATTCTAAACAT
1 AACAACTAATATTCTAAACAT
15968495 A
1 A
15968496 GTTGTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.26
Consensus pattern (21 bp):
AACAACTAATATTCTAAACAT
Found at i:15970634 original size:22 final size:22
Alignment explanation
Indices: 15970606--15970657 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
15970596 AGGCGCACAG
15970606 TTATAGGCCCATCCCATGCGTT
1 TTATAGGCCCATCCCATGCGTT
15970628 TTATAGGCCCATCCCATGCGTT
1 TTATAGGCCCATCCCATGCGTT
*
15970650 TTAGAGGC
1 TTATAGGC
15970658 TGTTTGGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (22 bp):
TTATAGGCCCATCCCATGCGTT
Found at i:15973712 original size:33 final size:35
Alignment explanation
Indices: 15973657--15973724 Score: 113
Period size: 33 Copynumber: 2.0 Consensus size: 35
15973647 CGTACAAACA
15973657 CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
1 CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
*
15973692 CAAA-CTCAAAAA-CAAACCCTAACTCTCATAGAG
1 CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
15973725 TTCTTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 20 0.62
34 8 0.25
35 4 0.12
ACGTcount: A:0.49, C:0.29, G:0.06, T:0.16
Consensus pattern (35 bp):
CAAACCTCAAAAATAAAACCCTAACTCTCATAGAG
Found at i:15975846 original size:18 final size:16
Alignment explanation
Indices: 15975825--15975863 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
15975815 TTCTAAATTA
15975825 TATAATATATAAAAATAT
1 TATAA-ATAT-AAAATAT
15975843 TAT-AATATAAAATAT
1 TATAAATATAAAATAT
15975858 TATAAA
1 TATAAA
15975864 CTTAAAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 6 0.30
17 1 0.05
18 3 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATATAAAATAT
Found at i:15975854 original size:15 final size:16
Alignment explanation
Indices: 15975831--15975862 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15975821 ATTATATAAT
15975831 ATATAAAAATATTATA
1 ATATAAAAATATTATA
15975847 ATAT-AAAATATTATA
1 ATATAAAAATATTATA
15975862 A
1 A
15975863 ACTTAAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATATTATA
Found at i:15987555 original size:23 final size:22
Alignment explanation
Indices: 15987528--15987575 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
15987518 TTGGTTCGCT
*
15987528 GTAATAGAATAAAATTGTAATCA
1 GTAATAGAATAAAACTGTAAT-A
* *
15987551 GTAATGGAATAGAACTGTAATA
1 GTAATAGAATAAAACTGTAATA
15987573 GTA
1 GTA
15987576 TTATCATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (22 bp):
GTAATAGAATAAAACTGTAATA
Found at i:15987748 original size:37 final size:37
Alignment explanation
Indices: 15987705--15987775 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
15987695 TTGTTATTAA
*
15987705 ATTTTAACAGGATTATTATAAAAAATAATTTAATCAT
1 ATTTTAACAGAATTATTATAAAAAATAATTTAATCAT
* * * *
15987742 ATTTTAATATAATTATTATTAAATATAATTTAAT
1 ATTTTAACAGAATTATTATAAAAAATAATTTAAT
15987776 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (37 bp):
ATTTTAACAGAATTATTATAAAAAATAATTTAATCAT
Found at i:15988516 original size:22 final size:22
Alignment explanation
Indices: 15988491--15988546 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
15988481 ATTTCCTCTC
* *
15988491 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCTAA
*
15988514 ATTTCTCTCAATTTCCTTCTAA
1 AATTCTCTCAATTTCCTTCTAA
15988536 AATTCTCTCAA
1 AATTCTCTCAA
15988547 ACTCATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCTAA
Found at i:15988528 original size:10 final size:10
Alignment explanation
Indices: 15988481--15988528 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
15988471 CCTCTCTAAT
15988481 ATTTCCTCTCA
1 ATTT-CTCTCA
*
15988492 ATTCCTCTCA
1 ATTTCTCTCA
*
15988502 ATTTCTTTCCAA
1 ATTTCTCT-C-A
15988514 ATTTCTCTCA
1 ATTTCTCTCA
15988524 ATTTC
1 ATTTC
15988529 CTTCTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 18 0.58
11 5 0.16
12 8 0.26
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:15988573 original size:51 final size:50
Alignment explanation
Indices: 15988513--15988631 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 50
15988503 TTTCTTTCCA
* * *
15988513 AATTTCTCTCAATTTCCTTCTAAAATTCTCTCAAA-CTCATATTTCATTTT
1 AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATC-CATATTTAATTTC
*
15988563 AATTTCCTCTCAATTTCCTTCTAAAATTATTTCAAATCCATATTTAATTTC
1 AATTT-CTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
*
15988614 AATTTTCTCTAAATTTCC
1 AA-TTTCTCTCAATTTCC
15988632 ATTTTTAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 5 0.08
51 52 0.85
52 4 0.07
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (50 bp):
AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
Found at i:15989786 original size:7 final size:7
Alignment explanation
Indices: 15989774--15989805 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
15989764 AGTCGATTGA
15989774 TATTTAG
1 TATTTAG
15989781 TATTTAG
1 TATTTAG
15989788 TATTTAG
1 TATTTAG
15989795 TATTTAG
1 TATTTAG
15989802 TATT
1 TATT
15989806 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:15990483 original size:18 final size:18
Alignment explanation
Indices: 15990457--15990491 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15990447 AAGTGCATTT
*
15990457 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
15990475 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
15990492 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:15990921 original size:25 final size:25
Alignment explanation
Indices: 15990887--15991004 Score: 122
Period size: 25 Copynumber: 4.9 Consensus size: 25
15990877 TGCCGTATTT
15990887 AAATATTATTTGATGTAATAAAATAG
1 AAAT-TTATTTGATGTAATAAAATAG
*
15990913 AAGTTTATTTGATGTAATAAAATAG
1 AAATTTATTTGATGTAATAAAATAG
** *
15990938 AAATTT-TTTCGA-GT--T-ATTTTG
1 AAATTTATTT-GATGTAATAAAATAG
* *
15990959 ATA-TTATTTGATGTAGTAAAATAG
1 AAATTTATTTGATGTAATAAAATAG
15990983 AAATTTATTTGATGTAATAAAA
1 AAATTTATTTGATGTAATAAAA
15991005 ACTCTAACCT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.05
21 10 0.14
22 1 0.01
23 1 0.01
24 10 0.14
25 45 0.61
26 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (25 bp):
AAATTTATTTGATGTAATAAAATAG
Found at i:15991030 original size:13 final size:13
Alignment explanation
Indices: 15991012--15991152 Score: 70
Period size: 13 Copynumber: 10.4 Consensus size: 13
15991002 AAAACTCTAA
*
15991012 CCTAATTAAATGC
1 CCTAATTAAATAC
15991025 CCTAATTAAATAC
1 CCTAATTAAATAC
* *
15991038 CCTAACCTTAACCTAA
1 CCTAA--TTAA-ATAC
** *
15991054 ATTAATTCAAA-AA
1 CCTAATT-AAATAC
15991067 CCTAATTAAATAC
1 CCTAATTAAATAC
*
15991080 CCTAATTAAAAAC
1 CCTAATTAAATAC
* * *
15991093 CCTAACCCTAACCTAA
1 CCTAA--TTAA-ATAC
** *
15991109 ATTAATTCAAA-AA
1 CCTAATT-AAATAC
15991122 CCTAATTAAATAC
1 CCTAATTAAATAC
*
15991135 CCTAATTAAAAAC
1 CCTAATTAAATAC
15991148 CCTAA
1 CCTAA
15991153 CCGTAACCCT
Statistics
Matches: 96, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
12 6 0.06
13 67 0.70
14 3 0.03
15 11 0.11
16 9 0.09
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (13 bp):
CCTAATTAAATAC
Found at i:15991076 original size:55 final size:55
Alignment explanation
Indices: 15991010--15991214 Score: 276
Period size: 55 Copynumber: 3.7 Consensus size: 55
15991000 TAAAAACTCT
* * *
15991010 AACCTAATTAAATGCCCTAATTAAATACCCTAACCTTAACCTAAATTAATTCAAA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
15991065 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
* **
15991120 AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAACCCTAACCA-TAA--CCTA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAA-CCTAA--ATTAATTCAAA
*
15991175 AA-TTAATTCAAA-ACCCTAATTAAAAACCCTAACCCTAACC
1 AACCTAATT-AAATACCCTAATTAAAAACCCTAACCCTAACC
15991215 CTAACCTAAA
Statistics
Matches: 138, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
53 2 0.01
54 30 0.22
55 97 0.70
56 5 0.04
57 3 0.02
58 1 0.01
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (55 bp):
AACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAA
Found at i:15991188 original size:41 final size:41
Alignment explanation
Indices: 15991137--15991303 Score: 156
Period size: 41 Copynumber: 3.9 Consensus size: 41
15991127 TTAAATACCC
* * *
15991137 TAATTAAAAACCCTAACCGTAACCCTAACCATAACCTAAAT
1 TAATTCAAAACCCTAACCATAACCCTAACCCTAACCTAAAT
*
15991178 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAAT
1 TAATTCAAAACCC----T---AACCATAACCCTAACCCTAACCTAAAT
** *
15991226 TAATTC-AAACCCTAATTAAAAACCCTAACCCTAACCTAAAT
1 TAATTCAAAACCCTAA-CCATAACCCTAACCCTAACCTAAAT
** *
15991267 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACC
1 TAATTCAAAACCCTAA-CCATAACCCTAACCCTAACC
15991304 CTAACCCTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
40 2 0.02
41 39 0.35
42 30 0.27
43 1 0.01
45 1 0.01
47 6 0.05
48 31 0.28
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.23
Consensus pattern (41 bp):
TAATTCAAAACCCTAACCATAACCCTAACCCTAACCTAAAT
Found at i:15991206 original size:54 final size:50
Alignment explanation
Indices: 15991124--15991341 Score: 244
Period size: 54 Copynumber: 4.4 Consensus size: 50
15991114 TTCAAAAACC
*
15991124 TAATT-AAATACCCTAATTAAAAACCCTAACCGTAACCCTAACCATAACCTAAAT
1 TAATTCAAA-ACCCTAATTAAAAA--C-AACC-TAACCCTAACCCTAACCTAAAT
15991178 TAATTCAAAACCCTAATTAAAAAC--CCTAACCCTAACCCTAACCTAAAT
1 TAATTCAAAACCCTAATTAAAAACAACCTAACCCTAACCCTAACCTAAAT
15991226 TAATTC-AAACCCTAATT----A-AA---AACCCTAACCCTAACCTAAAT
1 TAATTCAAAACCCTAATTAAAAACAACCTAACCCTAACCCTAACCTAAAT
*
15991267 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAACTTAAAT
1 TAATTCAAAACCCTAATTAAAAA--C-AA-CCTAACCCTAACCCTAACCTAAAT
*
15991321 TAATTCAAAAACCTAATTAAA
1 TAATTCAAAACCCTAATTAAA
15991342 TACCTTAATT
Statistics
Matches: 145, Mismatches: 3, Indels: 32
0.81 0.02 0.18
Matches are distributed among these distances:
41 27 0.19
42 11 0.08
43 1 0.01
46 1 0.01
47 11 0.08
48 27 0.19
49 2 0.01
50 2 0.01
52 1 0.01
54 59 0.41
55 3 0.02
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.24
Consensus pattern (50 bp):
TAATTCAAAACCCTAATTAAAAACAACCTAACCCTAACCCTAACCTAAAT
Found at i:15991214 original size:42 final size:42
Alignment explanation
Indices: 15991157--15991303 Score: 224
Period size: 42 Copynumber: 3.4 Consensus size: 42
15991147 CCCTAACCGT
*
15991157 AACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAA
1 AACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATT--AAA
15991201 CCCTAACCCTAACCCTAACCTAAATTAATTC-AAACCCTAATTAAA
1 ----AACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAA
15991246 AACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAA
15991288 AACCCTAACCCTAACC
1 AACCCTAACCCTAACC
15991304 CTAACCCTAA
Statistics
Matches: 97, Mismatches: 1, Indels: 8
0.92 0.01 0.08
Matches are distributed among these distances:
41 27 0.28
42 30 0.31
45 3 0.03
47 11 0.11
48 26 0.27
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (42 bp):
AACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAA
Found at i:15991218 original size:110 final size:110
Alignment explanation
Indices: 15991010--15991387 Score: 351
Period size: 109 Copynumber: 3.5 Consensus size: 110
15991000 TAAAAACTCT
* * *
15991010 AACCTAATTAAATGCCCTAATTAAATACCCTAACCTTAACCTAAATTAATTCAAAAACCTAATTA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAACCTAAATTAA-TCAAAAACCTAATTA
15991075 AATACCCTAATTAAAAACCCTAACCCT-A-ACCTAAATTAATTCAAA
65 AATACCCTAATTAAAAACCCTAACCCTAACACCTAAATTAATTC-AA
** *
15991120 AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAACCCTAACCA-TAA-CCTAAA-TTAAT
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAA-CCTAA--ATTAATCAAAAACCTAAT
* *
15991182 TCAAA-ACCCTAATTAAAAACCCTAACCCTAAC-CC-----TAA-CCTA
63 T-AAATACCCTAATTAAAAACCCTAACCCTAACACCTAAATTAATTCAA
* * * *
15991223 AA-TTAATTCAA-ACCCTAATTAAAAACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTA
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAACCTAAATTAA-TCAAAAACCTAATTA
* **** *
15991286 AAAACCCTAA-CCCTAACCCTAACCCT-A-ACTTAAATTAATTCAAA
65 AATACCCTAATTAAAAACCCTAACCCTAACACCTAAATTAATTC-AA
* * * * *
15991330 AACCTAATTAAATACCTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACC
1 AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAACCTAAATTAATCAAAAACC
15991388 CTAAAAACCC
Statistics
Matches: 218, Mismatches: 29, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
98 1 0.00
99 3 0.01
100 7 0.03
101 43 0.20
102 19 0.09
103 3 0.01
104 1 0.00
105 6 0.03
106 1 0.00
107 3 0.01
108 14 0.06
109 62 0.28
110 46 0.21
111 5 0.02
112 3 0.01
113 1 0.00
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.26
Consensus pattern (110 bp):
AACCTAATTAAATACCCTAATTAAAAACCCTAACCGTAACCTAAATTAATCAAAAACCTAATTAA
ATACCCTAATTAAAAACCCTAACCCTAACACCTAAATTAATTCAA
Found at i:15991299 original size:6 final size:6
Alignment explanation
Indices: 15991288--15991314 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15991278 CCTAATTAAA
15991288 AACCCT AACCCT AACCCT AACCCT AAC
1 AACCCT AACCCT AACCCT AACCCT AAC
15991315 TTAAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:15991350 original size:13 final size:13
Alignment explanation
Indices: 15991320--15991357 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15991310 CTAACTTAAA
15991320 TTAATTCAAAAACC
1 TTAATT-AAAAACC
*
15991334 -TAATTAAATACC
1 TTAATTAAAAACC
15991346 TTAATTAAAAAC
1 TTAATTAAAAAC
15991358 TCTAACCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAATTAAAAACC
Found at i:15991382 original size:29 final size:29
Alignment explanation
Indices: 15991346--15991542 Score: 197
Period size: 29 Copynumber: 6.7 Consensus size: 29
15991336 ATTAAATACC
*
15991346 TTAATTAAAAACTCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
15991375 TTAATTAAAAACCCTAAAAACCCTAATCCTAAT
1 TTAATTAAAAACCCT---AACCCTAA-CCTAAT
15991408 TTAATTAAAAACCCTAA-CCTAAACC----
1 TTAATTAAAAACCCTAACCCT-AACCTAAT
* *
15991433 CTAATTAAATACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
* *
15991462 TTAATTAAAAACCCTAAAAACTCTAATCTTAAT
1 TTAATTAAAAACCCT---AACCCTAA-CCTAAT
* *
15991495 TTAATTAAAGACACTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
* *
15991524 TTAATTCAAAACCTTAACC
1 TTAATTAAAAACCCTAACC
15991543 TAAATTATTT
Statistics
Matches: 139, Mismatches: 15, Indels: 28
0.76 0.08 0.15
Matches are distributed among these distances:
25 19 0.14
26 3 0.02
29 52 0.37
30 11 0.08
32 15 0.11
33 39 0.28
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.29
Consensus pattern (29 bp):
TTAATTAAAAACCCTAACCCTAACCTAAT
Found at i:15991419 original size:87 final size:87
Alignment explanation
Indices: 15991306--15991564 Score: 287
Period size: 87 Copynumber: 3.0 Consensus size: 87
15991296 CCCTAACCCT
* * * *
15991306 AACCCTAA-CTTAAATTAATTCAAAAA-CCTAA-TTAAATACCTTAATTAAAAACTCTAACCCTA
1 AACCCTAATCTTAATTTAATT-AAAAACCCTAACCT-AA-ACCCTAATTAAAAACCCTAACCCTA
15991368 ACCTAATTTAATTAAAAACCCTAAA
63 ACCTAATTTAATTAAAAACCCTAAA
* *
15991393 AACCCTAATCCTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAAATACCCTAACCCTAACC
1 AACCCTAATCTTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAAAAACCCTAACCCTAACC
15991458 TAATTTAATTAAAAACCCTAAA
66 TAATTTAATTAAAAACCCTAAA
* * * * ** ** *
15991480 AACTCTAATCTTAATTTAATTAAAGACACTAACCCT-AA-CCTAATT-TAATTCAAAACCTTAAC
1 AACCCTAATCTTAATTTAATTAAAAACCCTAA-CCTAAACCCTAATTAAAAACCCTAACCCTAAC
* *
15991542 CTAAATTATTTAAAAACCCTAAA
65 CTAATTTAATTAAAAACCCTAAA
15991565 CTAAGTTAAC
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
85 31 0.21
86 7 0.05
87 90 0.60
88 20 0.13
89 1 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (87 bp):
AACCCTAATCTTAATTTAATTAAAAACCCTAACCTAAACCCTAATTAAAAACCCTAACCCTAACC
TAATTTAATTAAAAACCCTAAA
Found at i:15991425 original size:62 final size:58
Alignment explanation
Indices: 15991346--15991542 Score: 197
Period size: 62 Copynumber: 3.3 Consensus size: 58
15991336 ATTAAATACC
*
15991346 TTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT---AACCCTAA-CCTAAT
* *
15991408 TTAATTAAAAACCCTAA-CCTAAACC----CTAATTAAATACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCT-AACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
* * * *
15991462 TTAATTAAAAACCCTAAAAACTCTAATCTTAATTTAATTAAAGACACTAACCCTAACCTAAT
1 TTAATTAAAAACCCT---AACCCTAA-CCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
* *
15991524 TTAATTCAAAACCTTAACC
1 TTAATTAAAAACCCTAACC
15991543 TAAATTATTT
Statistics
Matches: 114, Mismatches: 11, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
54 21 0.18
55 8 0.07
57 4 0.04
58 16 0.14
59 3 0.03
61 3 0.03
62 59 0.52
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.29
Consensus pattern (58 bp):
TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
Found at i:15991465 original size:25 final size:23
Alignment explanation
Indices: 15991389--15991462 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 23
15991379 TTAAAAACCC
**
15991389 TAAAAACCCTAATCCTAATTTAAT
1 TAAAAACCCTAA-CCTAACCTAAT
15991413 TAAAAACCCTAACCTAAACCCTAAT
1 TAAAAACCCTAACCT-AA-CCTAAT
*
15991438 TAAATACCCTAACCCTAACCTAAT
1 TAAAAACCCTAA-CCTAACCTAAT
15991462 T
1 T
15991463 TAATTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.07
24 21 0.48
25 17 0.39
26 3 0.07
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAACCCTAACCTAACCTAAT
Done.