Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 261 of 356
Found at i:85661720 original size:15 final size:15
Alignment explanation
Indices: 85661688--85661721 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
85661678 GTTCAACGAA
*
85661688 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
85661703 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
85661718 GAGG
1 GAGG
85661722 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:85666607 original size:13 final size:13
Alignment explanation
Indices: 85666589--85666630 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
85666579 TTGTAGATTC
85666589 AAAAAAAATCGAA
1 AAAAAAAATCGAA
85666602 AAAAAAAATCG--
1 AAAAAAAATCGAA
85666613 AAAAAAAATCGAA
1 AAAAAAAATCGAA
85666626 AAAAA
1 AAAAA
85666631 TATTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.41
13 16 0.59
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAAAATCGAA
Found at i:85666631 original size:10 final size:11
Alignment explanation
Indices: 85666589--85666630 Score: 66
Period size: 11 Copynumber: 3.6 Consensus size: 11
85666579 TTGTAGATTC
85666589 AAAAAAAATCG
1 AAAAAAAATCG
85666600 AAAAAAAAAATCG
1 --AAAAAAAATCG
85666613 AAAAAAAATCG
1 AAAAAAAATCG
85666624 AAAAAAA
1 AAAAAAA
85666631 TATTTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 18 0.62
13 11 0.38
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:85672156 original size:20 final size:20
Alignment explanation
Indices: 85672109--85672156 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
85672099 AGTAAGCTCG
85672109 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
85672129 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
85672149 GTTGAGCT
1 GTTGAGCT
85672157 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:85676378 original size:20 final size:20
Alignment explanation
Indices: 85676331--85676378 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
85676321 AGTAAGCTCT
85676331 GTTGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
****
85676351 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
85676371 GTTGAGCT
1 GTTGAGCT
85676379 GGACGGTGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:85683858 original size:10 final size:10
Alignment explanation
Indices: 85683845--85683879 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
85683835 AAGCTCGGTT
85683845 GAGCTCAAAC
1 GAGCTCAAAC
*
85683855 GAGCTGAAAC
1 GAGCTCAAAC
*
85683865 GAGCTCAAAT
1 GAGCTCAAAC
85683875 GAGCT
1 GAGCT
85683880 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:85683888 original size:20 final size:20
Alignment explanation
Indices: 85683842--85683889 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
85683832 AGTAAGCTCG
85683842 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
85683862 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
85683882 GTTGAGCT
1 GTTGAGCT
85683890 GGACGAAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:85685070 original size:25 final size:26
Alignment explanation
Indices: 85685033--85685085 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
85685023 TCAAACATGC
85685033 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCACTAGGGGT
*
85685059 ATTTTGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACC-ACTAGGGGT
85685085 A
1 A
85685086 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCACTAGGGGT
Found at i:85686601 original size:26 final size:26
Alignment explanation
Indices: 85686570--85686677 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
85686560 TGAAATGCCC
*
85686570 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85686596 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
85686622 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
85686648 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85686674 ATCA
1 ATCA
85686678 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85689791 original size:19 final size:19
Alignment explanation
Indices: 85689767--85689806 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
85689757 AGCTCCCATG
85689767 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
85689786 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
85689805 TA
1 TA
85689807 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:85691070 original size:14 final size:14
Alignment explanation
Indices: 85691048--85691096 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
85691038 ACCTAAACCG
* *
85691048 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
85691062 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
85691076 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
85691090 ACCATTT
1 ACCATTT
85691097 CATTCGTACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.18, C:0.31, G:0.06, T:0.45
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:85691457 original size:10 final size:10
Alignment explanation
Indices: 85691442--85691479 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
85691432 ATACAAGTTT
85691442 AAAAAAATCA
1 AAAAAAATCA
85691452 AAAAAAATCA
1 AAAAAAATCA
85691462 AAAAAAATCGA
1 AAAAAAATC-A
85691473 AAAAAAA
1 AAAAAAA
85691480 ATTGATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:85696717 original size:19 final size:19
Alignment explanation
Indices: 85696693--85696732 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
85696683 AGCTCCCATG
85696693 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
85696712 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
85696731 TA
1 TA
85696733 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:85697191 original size:20 final size:20
Alignment explanation
Indices: 85697145--85697191 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
85697135 AGCTCGTTTC
*
85697145 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
85697165 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
85697185 CAGCTCA
1 CAGCTCA
85697192 ATCTTAACCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:85698754 original size:10 final size:10
Alignment explanation
Indices: 85698739--85698776 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
85698729 AGAAGTGAGC
85698739 AAAAAAAGAA
1 AAAAAAAGAA
*
85698749 AAAAAAAG-T
1 AAAAAAAGAA
85698758 AAAAAAAGAA
1 AAAAAAAGAA
85698768 CAAAAAAAG
1 -AAAAAAAG
85698777 TGAAAAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.33
10 8 0.33
11 8 0.33
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:85698761 original size:19 final size:20
Alignment explanation
Indices: 85698739--85698782 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
85698729 AGAAGTGAGC
85698739 AAAAAAAGAA-AAAAAAAGT
1 AAAAAAAGAACAAAAAAAGT
85698758 AAAAAAAGAACAAAAAAAGT
1 AAAAAAAGAACAAAAAAAGT
*
85698778 GAAAA
1 AAAAA
85698783 GTCTTGTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (20 bp):
AAAAAAAGAACAAAAAAAGT
Found at i:85698762 original size:20 final size:21
Alignment explanation
Indices: 85698739--85698782 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
85698729 AGAAGTGAGC
85698739 AAAAAAAGAA-AAAAAAAGT-
1 AAAAAAAGAACAAAAAAAGTG
85698758 AAAAAAAGAACAAAAAAAGTG
1 AAAAAAAGAACAAAAAAAGTG
85698779 AAAA
1 AAAA
85698783 GTCTTGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAAGAACAAAAAAAGTG
Found at i:85703895 original size:15 final size:15
Alignment explanation
Indices: 85703875--85703928 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
85703865 ACTCTCCTCA
*
85703875 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
85703890 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
85703905 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
85703919 TTCTTTTCTC
1 TTCTTTTCTC
85703929 GATCAATAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:85705965 original size:10 final size:10
Alignment explanation
Indices: 85705950--85705990 Score: 73
Period size: 10 Copynumber: 4.0 Consensus size: 10
85705940 TAATCACTTC
85705950 TCTTTTTTTT
1 TCTTTTTTTT
85705960 TCTTTTTTTT
1 TCTTTTTTTT
85705970 TCTTTTTTTTT
1 TC-TTTTTTTT
85705981 TCTTTTTTTT
1 TCTTTTTTTT
85705991 AATTCCGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 20 0.67
11 10 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:85705968 original size:11 final size:11
Alignment explanation
Indices: 85705947--85705990 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
85705937 TTTTAATCAC
85705947 TTCTCTTTTTTT
1 TTCT-TTTTTTT
85705959 TTC-TTTTTTT
1 TTCTTTTTTTT
85705969 TTCTTTTTTTT
1 TTCTTTTTTTT
85705980 TTCTTTTTTTT
1 TTCTTTTTTTT
85705991 AATTCCGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.32
11 18 0.58
12 3 0.10
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:85705978 original size:21 final size:22
Alignment explanation
Indices: 85705947--85705990 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
85705937 TTTTAATCAC
85705947 TTCTCTTTTTTTTTCTTTTTTT
1 TTCTCTTTTTTTTTCTTTTTTT
85705969 TTCT-TTTTTTTTTCTTTTTTT
1 TTCTCTTTTTTTTTCTTTTTTT
85705990 T
1 T
85705991 AATTCCGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (22 bp):
TTCTCTTTTTTTTTCTTTTTTT
Found at i:85706007 original size:1 final size:1
Alignment explanation
Indices: 85705952--85705990 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
85705942 ATCACTTCTC
* * *
85705952 TTTTTTTTTCTTTTTTTTTCTTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
85705991 AATTCCGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:85706017 original size:17 final size:17
Alignment explanation
Indices: 85705983--85706017 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
85705973 TTTTTTTTTC
*
85705983 TTTTTTTTAATTCCGAA
1 TTTTTTTTAATACCGAA
*
85706000 TTTTTTTTAATACTGAA
1 TTTTTTTTAATACCGAA
85706017 T
1 T
85706018 ACACAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTTTTAATACCGAA
Found at i:85708421 original size:20 final size:20
Alignment explanation
Indices: 85708375--85708421 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
85708365 AGCTCGTTTC
*
85708375 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
85708395 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
85708415 CAGCTCA
1 CAGCTCA
85708422 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:85712821 original size:21 final size:21
Alignment explanation
Indices: 85712795--85712848 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
85712785 TTGGTATTTG
* *
85712795 GGAATTGGTTCGAAATAGTAT
1 GGAATTGGTACAAAATAGTAT
*
85712816 GGAATTGGTACAAAATGGTAT
1 GGAATTGGTACAAAATAGTAT
*
85712837 GGTATTTGGTAC
1 GG-AATTGGTAC
85712849 GAATTGGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.31, C:0.06, G:0.30, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACAAAATAGTAT
Found at i:85712848 original size:22 final size:22
Alignment explanation
Indices: 85712797--85712862 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
85712787 GGTATTTGGG
* * *
85712797 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACAAAATGGTATGGT
85712818 AATTGGTACAAAATGGTATGGT
1 AATTGGTACAAAATGGTATGGT
* * *
85712840 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACAAAATGGT-ATGGT
85712863 TCAAAGAGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 18 0.49
22 14 0.38
23 5 0.14
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (22 bp):
AATTGGTACAAAATGGTATGGT
Found at i:85717178 original size:11 final size:12
Alignment explanation
Indices: 85717162--85717195 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
85717152 CCAACTCAAA
85717162 ATTTTTTTT-TG
1 ATTTTTTTTCTG
85717173 ATTTTTTTTCTG
1 ATTTTTTTTCTG
85717185 ACTTTTTTTTC
1 A-TTTTTTTTC
85717196 GTTACGAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 3 0.14
13 9 0.43
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (12 bp):
ATTTTTTTTCTG
Found at i:85717180 original size:12 final size:13
Alignment explanation
Indices: 85717163--85717195 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
85717153 CAACTCAAAA
85717163 TTTTTTTT-TGA-
1 TTTTTTTTCTGAC
85717174 TTTTTTTTCTGAC
1 TTTTTTTTCTGAC
85717187 TTTTTTTTC
1 TTTTTTTTC
85717196 GTTACGAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 3 0.15
13 9 0.45
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTTTTTCTGAC
Found at i:85717549 original size:22 final size:22
Alignment explanation
Indices: 85717498--85717563 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
85717488 GGTATTTGGG
* *
85717498 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
85717519 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
85717541 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
85717564 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:85721581 original size:15 final size:14
Alignment explanation
Indices: 85721563--85721625 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 14
85721553 GAATCACTCG
85721563 TTTCTTTTATTTCAA
1 TTTCTTTT-TTTCAA
85721578 TTTCTTTCTCTTT-AA
1 TTTCTTT-T-TTTCAA
85721593 TTTC--TTTTTCAA
1 TTTCTTTTTTTCAA
85721605 TTTC--TTTTTCAA
1 TTTCTTTTTTTCAA
*
85721617 CTTCTTTTT
1 TTTCTTTTT
85721626 CTCTCTCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
11 3 0.07
12 18 0.43
13 1 0.02
14 3 0.07
15 13 0.31
16 4 0.10
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTCTTTTTTTCAA
Found at i:85721608 original size:12 final size:12
Alignment explanation
Indices: 85721572--85721626 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
85721562 GTTTCTTTTA
85721572 TTTCAATTTCTTT
1 TTTCAATTTC-TT
*
85721585 CTCTTTAATTTCTT
1 -T-TTCAATTTCTT
85721599 TTTCAATTTCTT
1 TTTCAATTTCTT
*
85721611 TTTCAACTTCTT
1 TTTCAATTTCTT
85721623 TTTC
1 TTTC
85721627 TCTCTCAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 25 0.68
13 1 0.03
14 3 0.08
15 8 0.22
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTCAATTTCTT
Found at i:85721703 original size:12 final size:12
Alignment explanation
Indices: 85721688--85721718 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
85721678 TTCTTTTTGC
85721688 TTTTCAAAGGCT
1 TTTTCAAAGGCT
*
85721700 TTTTTAAAGGCT
1 TTTTCAAAGGCT
85721712 TTTTCAA
1 TTTTCAA
85721719 GTTCTCTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:85721798 original size:15 final size:15
Alignment explanation
Indices: 85721767--85721811 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
85721757 TCTTGCCTCT
*
85721767 ATTTTCTTTTTATTTC
1 ATTTTCTTTTT-CTTC
85721783 ATTTTCTTTTTCTTC
1 ATTTTCTTTTTCTTC
*
85721798 ATTTGCTTTTTCTT
1 ATTTTCTTTTTCTT
85721812 TTCTTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTCTTTTTCTTC
Found at i:85721823 original size:21 final size:20
Alignment explanation
Indices: 85721784--85721833 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
85721774 TTTTATTTCA
85721784 TTTTCTTTTTCTTCATTTGCT
1 TTTTCTTTTTCTTCATTTG-T
*
85721805 TTTTCTTTTCTTTTC-TTTGT
1 TTTTCTTTT-TCTTCATTTGT
85721825 TTTCTCTTT
1 TTT-TCTTT
85721834 ACAAGAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTTCTTCATTTGT
Found at i:85724404 original size:30 final size:30
Alignment explanation
Indices: 85724370--85724466 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
85724360 TAAACTAAAA
85724370 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
85724400 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
*
85724430 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGGTTTAGCTCGTGAGCT-AAAGT
85724460 TGAGCTA
1 TGAGCTA
85724467 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
30 48 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:85726432 original size:20 final size:20
Alignment explanation
Indices: 85726409--85726455 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
85726399 AGGTTAAGAT
*
85726409 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
85726429 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
85726449 TGAGCTG
1 TGAGCTG
85726456 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:85728181 original size:48 final size:48
Alignment explanation
Indices: 85728126--85728231 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
85728116 TTGTCTTTTC
*
85728126 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
85728174 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
85728222 TTTCTTTTTC
1 TTTCTTTTTC
85728232 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:85729270 original size:11 final size:10
Alignment explanation
Indices: 85729256--85729294 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
85729246 ACTTTTCACT
85729256 TTTTTTTGTTC
1 TTTTTTT-TTC
*
85729267 TTTTCTTTTAC
1 TTTT-TTTTTC
85729278 TTTTTTTTTC
1 TTTTTTTTTC
85729288 TTTTTTT
1 TTTTTTT
85729295 GCTCACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.48
11 10 0.40
12 3 0.12
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:85729293 original size:23 final size:24
Alignment explanation
Indices: 85729247--85729308 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
85729237 ACTCGCAATA
85729247 CTTTTCACTTTTTTTTGTTCTTTT
1 CTTTTCACTTTTTTTTGTTCTTTT
85729271 CTTTT-AC-TTTTTTT-TTCTTTT
1 CTTTTCACTTTTTTTTGTTCTTTT
85729292 -TTTGCTCACTTTTTTTT
1 CTTT--TCACTTTTTTTT
85729309 TTTGAATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 3 0.09
21 7 0.21
22 8 0.24
23 4 0.12
24 12 0.35
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (24 bp):
CTTTTCACTTTTTTTTGTTCTTTT
Found at i:85729309 original size:23 final size:22
Alignment explanation
Indices: 85729247--85729309 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
85729237 ACTCGCAATA
85729247 CTTTTCACTTTTTTTTGTTCTTTT
1 CTTTTCAC-TTTTTTT-TTCTTTT
85729271 CTTTT-ACTTTTTTTTTCTTTT
1 CTTTTCACTTTTTTTTTCTTTT
85729292 -TTTGCTCACTTTTTTTTT
1 CTTT--TCACTTTTTTTTT
85729310 TTGAATTTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.08
21 7 0.19
22 8 0.22
23 13 0.36
24 5 0.14
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (22 bp):
CTTTTCACTTTTTTTTTCTTTT
Found at i:85732298 original size:11 final size:12
Alignment explanation
Indices: 85732282--85732312 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
85732272 TTGGAGTAAC
85732282 AAAAAAATC-AA
1 AAAAAAATCGAA
85732293 AAAAAAATCGAA
1 AAAAAAATCGAA
85732305 AAAAAAAT
1 AAAAAAAT
85732313 TTGATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.10
Consensus pattern (12 bp):
AAAAAAATCGAA
Found at i:85733591 original size:48 final size:47
Alignment explanation
Indices: 85733512--85733617 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
85733502 GAGTGTCATG
*
85733512 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
85733560 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
85733608 GAAAAAGAAA
1 GAAAAAGAAA
85733618 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:85735323 original size:20 final size:20
Alignment explanation
Indices: 85735277--85735323 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
85735267 AGCTCGTTTC
*
85735277 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
85735297 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
85735317 CAGCTCA
1 CAGCTCA
85735324 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:85736900 original size:14 final size:15
Alignment explanation
Indices: 85736883--85736927 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
85736873 AAGAAGATGA
85736883 GAAAAGAAAA-AGAT
1 GAAAAGAAAAGAGAT
85736897 GAAAAGCAAAAGGAGAT
1 GAAAAG-AAAA-GAGAT
*
85736914 TAAAAGAAAAGAGA
1 GAAAAGAAAAGAGA
85736928 AGCAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 8 0.30
16 4 0.15
17 9 0.33
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAGAAAAGAGAT
Found at i:85737059 original size:18 final size:18
Alignment explanation
Indices: 85737036--85737072 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85737026 GGAAAAGAAC
* *
85737036 AAAAAGAGATTGACAAAG
1 AAAAAGAAATTGAAAAAG
85737054 AAAAAGAAATTGAAAAAG
1 AAAAAGAAATTGAAAAAG
85737072 A
1 A
85737073 CATTGTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.19, T:0.11
Consensus pattern (18 bp):
AAAAAGAAATTGAAAAAG
Found at i:85737279 original size:30 final size:30
Alignment explanation
Indices: 85737245--85737342 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 30
85737235 AGCTCACTCC
85737245 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * * * *
85737275 TAGCTCAGT-TTCAGCTTAGGAGTTTAATCT
1 TAGCTCA-TATTCAGCTCACGAGCTAAACCT
* * *
85737305 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
85737335 TAGCTCAT
1 TAGCTCAT
85737343 TTTAGTTTAA
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
30 50 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:85743474 original size:15 final size:14
Alignment explanation
Indices: 85743454--85743501 Score: 69
Period size: 15 Copynumber: 3.3 Consensus size: 14
85743444 CTCATTTTCA
85743454 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
85743469 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
85743483 TCTTATTTCTTTTTT
1 TCTT-TTTCTTTTTT
85743498 TCTT
1 TCTT
85743502 CTCTCAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:85743478 original size:21 final size:21
Alignment explanation
Indices: 85743454--85743505 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
85743444 CTCATTTTCA
*
85743454 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTTATTTCTTTT
85743475 TCTTTTTCTCTTATTTCTTTT
1 TCTTTTTCTCTTATTTCTTTT
*
85743496 T-TTCTTCTCT
1 TCTTTTTCTCT
85743506 CAATTTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (21 bp):
TCTTTTTCTCTTATTTCTTTT
Found at i:85743511 original size:21 final size:21
Alignment explanation
Indices: 85743466--85743512 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
85743456 TTTTTCTTTT
* *
85743466 ATTTCTTTTTCTTTTTCTCTT
1 ATTTCTTTTTCTTCTTCTCTA
85743487 ATTTCTTTTT-TTCTTCTCTCA
1 ATTTCTTTTTCTTCTTCTCT-A
85743508 ATTTC
1 ATTTC
85743513 ATTCAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTCTTTTTCTTCTTCTCTA
Found at i:85755605 original size:30 final size:30
Alignment explanation
Indices: 85755571--85755667 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
85755561 TAAACTAAAA
85755571 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
85755601 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
85755631 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
85755660 ATGAGCTA
1 -TGAGCTA
85755668 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:85770783 original size:14 final size:14
Alignment explanation
Indices: 85770744--85770776 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85770734 ACAAAATTAA
*
85770744 AAAAAAAT-GAATT
1 AAAAAAATCGATTT
85770757 AAAAAAATCGATTT
1 AAAAAAATCGATTT
85770771 AAAAAA
1 AAAAAA
85770777 TTTGATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (14 bp):
AAAAAAATCGATTT
Found at i:85782175 original size:11 final size:11
Alignment explanation
Indices: 85782159--85782186 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
85782149 GAGTTGGATC
85782159 GTATTCATGAT
1 GTATTCATGAT
85782170 GTATTCATGAT
1 GTATTCATGAT
85782181 GTATTC
1 GTATTC
85782187 CACATCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (11 bp):
GTATTCATGAT
Found at i:85787831 original size:34 final size:34
Alignment explanation
Indices: 85787793--85787860 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
85787783 TACTTACAAG
*
85787793 ACCAACACGGGAGACTCGATATTCCACAAACTTA
1 ACCAACACGGAAGACTCGATATTCCACAAACTTA
* *
85787827 ACCAACATGGAAGACTCGGTATTCCACAAACTTA
1 ACCAACACGGAAGACTCGATATTCCACAAACTTA
85787861 CTTTTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (34 bp):
ACCAACACGGAAGACTCGATATTCCACAAACTTA
Found at i:85791697 original size:29 final size:29
Alignment explanation
Indices: 85791655--85791713 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
85791645 GCTTCAAGTA
85791655 ATACCTGTACCATCTCAAAAGGAATTTAC
1 ATACCTGTACCATCTCAAAAGGAATTTAC
*
85791684 ATACCTGTACCATCTCGAAAGGAATTTAC
1 ATACCTGTACCATCTCAAAAGGAATTTAC
85791713 A
1 A
85791714 CATAATCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (29 bp):
ATACCTGTACCATCTCAAAAGGAATTTAC
Found at i:85794880 original size:27 final size:27
Alignment explanation
Indices: 85794847--85795052 Score: 304
Period size: 27 Copynumber: 7.5 Consensus size: 27
85794837 AAATTGTGCG
*
85794847 GCACTAAGTGTGCGAATTGACTATGTA
1 GCACTAAGTGTGCGATTTGACTATGTA
85794874 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTA
*
85794902 GCACTAAGTGTGCGAATTGACTATGTA
1 GCACTAAGTGTGCGATTTGACTATGTA
85794929 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTA
* *
85794957 GTACTAAGTGTGCGAGTTGACTATGTA
1 GCACTAAGTGTGCGATTTGACTATGTA
*
85794984 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTA
* * *
85795012 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTA
*
85795039 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
85795053 GACTTAATAT
Statistics
Matches: 165, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
27 89 0.54
28 76 0.46
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTA
Found at i:85794911 original size:55 final size:55
Alignment explanation
Indices: 85794847--85795052 Score: 349
Period size: 55 Copynumber: 3.7 Consensus size: 55
85794837 AAATTGTGCG
85794847 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTA
85794902 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTA
* * *
85794957 GTACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTA
* * * *
85795012 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
85795053 GACTTAATAT
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 144 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTA
Found at i:85803103 original size:28 final size:27
Alignment explanation
Indices: 85803046--85803197 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
85803036 TAAATTGTGC
*
85803046 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
85803073 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
85803101 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
85803128 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
85803156 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
85803183 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85803198 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:85803110 original size:55 final size:55
Alignment explanation
Indices: 85803046--85803197 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
85803036 TAAATTGTGC
*
85803046 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
85803101 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
85803156 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
85803198 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:85816848 original size:13 final size:14
Alignment explanation
Indices: 85816806--85816850 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
85816796 TAAAAATGAT
85816806 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
85816821 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
85816834 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
85816847 TAAA
1 TAAA
85816851 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:85830485 original size:39 final size:39
Alignment explanation
Indices: 85830442--85830717 Score: 417
Period size: 39 Copynumber: 7.1 Consensus size: 39
85830432 AATTTTATTA
* * *
85830442 CCAGCACTAAGCTTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
85830481 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
* * *
85830520 CCAGCACGAAGCCTGTGGGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
*
85830559 CCAGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
*
85830598 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
* * * * *
85830637 CCAGCACGAAGCCTGCGGGTCTTTGGCCCGAATATATTT
1 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
* *
85830676 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTT
1 CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
85830715 CCA
1 CCA
85830718 TACACATTTC
Statistics
Matches: 218, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 218 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATACATTT
Found at i:85830648 original size:117 final size:117
Alignment explanation
Indices: 85830437--85830717 Score: 481
Period size: 117 Copynumber: 2.4 Consensus size: 117
85830427 CCTGAAATTT
* * * *
85830437 TATTACCAGCACTAAGCTTGTGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGTGGGTC
1 TATTTCCAGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
* *
85830502 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGTGGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGAATA
85830554 TATTTCCAGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
1 TATTTCCAGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
85830619 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGAATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGAATA
* * *
85830671 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTTCCA
1 TATTTCCAGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTTCCA
85830718 TACACATTTC
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 155 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (117 bp):
TATTTCCAGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGAATA
Found at i:85832458 original size:14 final size:14
Alignment explanation
Indices: 85832439--85832466 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
85832429 AACACGATAT
85832439 TTTCACATATAATA
1 TTTCACATATAATA
85832453 TTTCACATATAATA
1 TTTCACATATAATA
85832467 AACATAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTCACATATAATA
Found at i:85834207 original size:40 final size:40
Alignment explanation
Indices: 85834158--85834351 Score: 282
Period size: 40 Copynumber: 4.8 Consensus size: 40
85834148 ACCACAAGCT
* * *
85834158 CAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCA
1 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
*
85834198 CGAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCA
1 C-AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
* *
85834238 CAATTGCCTTCAGGTCTTAGCCCGGATATATCAACTTGCA
1 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
*
85834278 CAATTGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCA
1 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
* * *
85834318 CAAATGCCTTCGAGTTTTAGCCCGGATATATCAA
1 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAA
85834352 TTGCTCATGC
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
CAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
Found at i:85836144 original size:27 final size:27
Alignment explanation
Indices: 85836110--85836197 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
85836100 AGCATGGCTG
** *
85836110 CCAGAACAGATATTT-TGATAGAGTCA
1 CCAGAACAGATATTTCTGGCAGAGCCA
85836136 CCAGAAACAGATATTTCTGGCAGAGCCA
1 CCAG-AACAGATATTTCTGGCAGAGCCA
* *
85836164 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATTTCTGGCAGAGCCA
85836191 CCAGAAC
1 CCAGAAC
85836198 GCTTCCTCAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
26 4 0.07
27 38 0.70
28 12 0.22
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTCTGGCAGAGCCA
Found at i:85839936 original size:28 final size:27
Alignment explanation
Indices: 85839860--85839943 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
85839850 ATGGCTGCCA
* *
85839860 AAACAGATATTGTGACAGAGTCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
*
85839887 ATACAGATATTGTGGCAGAGCCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
*
85839914 AAATAGATATTTGTGGCAGAGCCACCAG
1 AAACAGATA-TTGTGGCAGAGCCACCAG
85839942 AA
1 AA
85839944 TGCTTCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 31 0.61
28 20 0.39
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
AAACAGATATTGTGGCAGAGCCACCAG
Found at i:85843495 original size:14 final size:14
Alignment explanation
Indices: 85843476--85843506 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
85843466 CTCCGTCAAA
85843476 CGATTTCAAGCCCC
1 CGATTTCAAGCCCC
85843490 CGATTTCAAGCCCC
1 CGATTTCAAGCCCC
85843504 CGA
1 CGA
85843507 AACACCACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (14 bp):
CGATTTCAAGCCCC
Found at i:85846403 original size:23 final size:23
Alignment explanation
Indices: 85846377--85846421 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
85846367 CTTAATCACT
85846377 AAACAGACTTGCATCCTTGTCTG
1 AAACAGACTTGCATCCTTGTCTG
*
85846400 AAACAGTCTTGCATCCTTGTCT
1 AAACAGACTTGCATCCTTGTCT
85846422 AATTTTGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (23 bp):
AAACAGACTTGCATCCTTGTCTG
Found at i:85850142 original size:12 final size:12
Alignment explanation
Indices: 85850125--85850150 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85850115 CATTCCGAAG
85850125 TATATATATACA
1 TATATATATACA
85850137 TATATATATACA
1 TATATATATACA
85850149 TA
1 TA
85850151 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:85850681 original size:27 final size:28
Alignment explanation
Indices: 85850597--85850694 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
85850587 CATGAGATTG
* * * *
85850597 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
85850626 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
85850654 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
85850681 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
85850695 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:85850705 original size:27 final size:27
Alignment explanation
Indices: 85850625--85850707 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
85850615 TAAATTGTAC
* *
85850625 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
85850653 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
85850680 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
85850707 A
1 A
85850708 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:85858415 original size:12 final size:12
Alignment explanation
Indices: 85858398--85858423 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85858388 CATTCCGAAG
85858398 TATATATATACA
1 TATATATATACA
85858410 TATATATATACA
1 TATATATATACA
85858422 TA
1 TA
85858424 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:85858954 original size:27 final size:28
Alignment explanation
Indices: 85858870--85858967 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
85858860 CATGAGATTG
* * * *
85858870 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
85858899 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
85858927 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
85858954 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
85858968 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:85858978 original size:27 final size:27
Alignment explanation
Indices: 85858898--85858980 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
85858888 TAAATTGTAC
* *
85858898 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
85858926 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
85858953 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
85858980 A
1 A
85858981 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:85863744 original size:6 final size:6
Alignment explanation
Indices: 85863714--85863838 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
85863704 AAGAAACATT
* * * *
85863714 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
85863763 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
85863812 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
85863839 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 76 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:85863764 original size:37 final size:37
Alignment explanation
Indices: 85863723--85863816 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
85863713 TATCAGAACT
*
85863723 AGAATCAAAATGAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
* *
85863760 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
* *
85863797 AGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
85863817 GTAACAGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:85863799 original size:25 final size:25
Alignment explanation
Indices: 85863771--85863838 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
85863761 GAATCAGAAT
* * *
85863771 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
85863796 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
85863821 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
85863839 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:85864106 original size:22 final size:22
Alignment explanation
Indices: 85864073--85864134 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
85864063 CCACAATAAC
85864073 GGCAC-AAGCCATAATCAGGTT
1 GGCACAAAGCCATAATCAGGTT
*
85864094 GGCACAAAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
*
85864116 GGCGCAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
85864135 AATAATTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.20
22 26 0.74
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:85864680 original size:27 final size:27
Alignment explanation
Indices: 85864650--85864781 Score: 151
Period size: 27 Copynumber: 4.9 Consensus size: 27
85864640 GGCAAAATGG
* * *
85864650 TAATTTTACCTTACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
85864677 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
85864704 T-ATTCCTACCCTACAAGGGTATTTCGA
1 TAATT-CTACCCTACAAGGGTATTTCGA
* *
85864731 TAATTCTACCCTACAGGGGTATTT-TA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
85864757 GTAATTCTACCCTACAGGGGTATTT
1 -TAATTCTACCCTACAAGGGTATTT
85864782 TAATAATTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.04
27 84 0.92
28 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:85864782 original size:27 final size:27
Alignment explanation
Indices: 85864677--85864789 Score: 158
Period size: 27 Copynumber: 4.2 Consensus size: 27
85864667 GGTATCTCGA
*
85864677 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTTAG
* *
85864704 T-ATTCCTACCCTACAAGGGTA-TTTCG
1 TAATT-CTACCCTACAGGGGTATTTTAG
85864730 ATAATTCTACCCTACAGGGGTATTTTAG
1 -TAATTCTACCCTACAGGGGTATTTTAG
*
85864758 TAATTCTACCCTACAGGGGTATTTTAA
1 TAATTCTACCCTACAGGGGTATTTTAG
85864785 TAATT
1 TAATT
85864790 TTGTAAATCG
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
26 7 0.09
27 63 0.82
28 7 0.09
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTTAG
Found at i:85864789 original size:54 final size:54
Alignment explanation
Indices: 85864649--85864781 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 54
85864639 GGGCAAAATG
* * * *
85864649 GTAATTTTACCTTACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
85864703 GT-ATTCCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
1 GTAATT-CTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
*
85864757 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
85864782 TAATAATTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
53 3 0.04
54 66 0.92
55 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
Found at i:85878310 original size:27 final size:27
Alignment explanation
Indices: 85878280--85878458 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
85878270 ATATTGAGCC
* * *
85878280 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
85878307 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
85878334 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
85878362 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
85878389 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
85878416 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAGTCA-ACT
85878443 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
85878459 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:85878419 original size:82 final size:81
Alignment explanation
Indices: 85878301--85878456 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
85878291 TGCTATATAA
* *
85878301 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
85878366 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
85878383 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
85878447 CACTTAGTGC
65 CACTTAGTGC
85878457 TATACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:85879026 original size:13 final size:13
Alignment explanation
Indices: 85879008--85879032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85878998 TACTAAATTT
85879008 TCATGGATTCAAG
1 TCATGGATTCAAG
85879021 TCATGGATTCAA
1 TCATGGATTCAA
85879033 TATACCATCA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:85903820 original size:13 final size:13
Alignment explanation
Indices: 85903802--85903826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85903792 TGATGGTATA
85903802 TTGAATCCATGAC
1 TTGAATCCATGAC
85903815 TTGAATCCATGA
1 TTGAATCCATGA
85903827 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:85904408 original size:27 final size:27
Alignment explanation
Indices: 85904373--85904551 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
85904363 TTAAATTGTA
85904373 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
85904400 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
85904427 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
85904454 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
85904482 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
85904509 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
85904536 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
85904552 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:85904489 original size:82 final size:81
Alignment explanation
Indices: 85904375--85904530 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
85904365 AAATTGTATA
* *
85904375 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
85904439 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
85904456 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
85904521 TGCGAGTTGA
65 TGCGAATTGA
85904531 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85904542 original size:82 final size:81
Alignment explanation
Indices: 85904371--85904551 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
85904361 GATTAAATTG
* *
85904371 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
85904436 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
85904452 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
85904516 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
85904534 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
85904552 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:85915308 original size:18 final size:19
Alignment explanation
Indices: 85915274--85915312 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
85915264 ATTCGAAAAA
*
85915274 AATTCGACTTGACTCAAAT
1 AATTCGACTTAACTCAAAT
85915293 AATTCGA-TTAACTCAAAT
1 AATTCGACTTAACTCAAAT
85915311 AA
1 AA
85915313 CTCAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (19 bp):
AATTCGACTTAACTCAAAT
Found at i:85915732 original size:11 final size:11
Alignment explanation
Indices: 85915676--85915770 Score: 70
Period size: 11 Copynumber: 8.6 Consensus size: 11
85915666 TCCCACCTTT
*
85915676 TCAATTCACTC
1 TCAATTCATTC
* *
85915687 ACAATTCACTC
1 TCAATTCATTC
* *
85915698 ACAATTCACTC
1 TCAATTCATTC
*
85915709 TCAACTC-TCTC
1 TCAATTCAT-TC
85915720 TCAATTCATTC
1 TCAATTCATTC
*
85915731 TCAA-TCCTCTC
1 TCAATTCAT-TC
85915742 TCAATTCATTC
1 TCAATTCATTC
*
85915753 TCAA-TCCTCTC
1 TCAATTCAT-TC
85915764 TCAATTC
1 TCAATTC
85915771 TTTGTCATTT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
10 6 0.09
11 58 0.83
12 6 0.09
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (11 bp):
TCAATTCATTC
Found at i:85915732 original size:22 final size:22
Alignment explanation
Indices: 85915676--85915770 Score: 120
Period size: 22 Copynumber: 4.3 Consensus size: 22
85915666 TCCCACCTTT
* * *
85915676 TCAATTCACTCACAATTCACTC
1 TCAATTCACTCTCAATCCTCTC
*
85915698 ACAATTCACTCTCAA-CTCTCTC
1 TCAATTCACTCTCAATC-CTCTC
*
85915720 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAATCCTCTC
*
85915742 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAATCCTCTC
85915764 TCAATTC
1 TCAATTC
85915771 TTTGTCATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
22 64 0.98
23 1 0.02
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (22 bp):
TCAATTCACTCTCAATCCTCTC
Found at i:85915755 original size:33 final size:33
Alignment explanation
Indices: 85915676--85915757 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
85915666 TCCCACCTTT
* *
85915676 TCAATTCACTCACAATTCACTCACAATTCACTC
1 TCAATTCACTCTCAATTCACTCACAATCCACTC
* * * * *
85915709 TCAACTCTCTCTCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAATTCACTCACAATCCACTC
*
85915742 TCAATTCATTCTCAAT
1 TCAATTCACTCTCAAT
85915758 CCTCTCTCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.37
Consensus pattern (33 bp):
TCAATTCACTCTCAATTCACTCACAATCCACTC
Found at i:85915806 original size:24 final size:23
Alignment explanation
Indices: 85915779--85915834 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
85915769 TCTTTGTCAT
*
85915779 TTTTTTATTAAAATTGTATTAAGG
1 TTTTTTATTAAAATTGTATT-ACG
* **
85915803 TTTTTAATTAATTTTGTATTACG
1 TTTTTTATTAAAATTGTATTACG
85915826 TTTTTTATT
1 TTTTTTATT
85915835 CTATTTATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (23 bp):
TTTTTTATTAAAATTGTATTACG
Found at i:85919548 original size:43 final size:42
Alignment explanation
Indices: 85919480--85919616 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 42
85919470 CATACAATGA
* *
85919480 GTCTTACATGTAATCACATGT-TGATGCCATTGTCCTAGACAGG
1 GTCTTACACGAAATCACAT-TATGATGCCA-TGTCCTAGACAGG
* *
85919523 GTCTTACACG-AATCACAATTATGATGCCGATGTCCCAGACATG
1 GTCTTACACGAAATCAC-ATTATGATGCC-ATGTCCTAGACAGG
* *
85919566 GTCTTACTCGAAATCACA-TATCGATGCCAACGTCCTAGAC-GTG
1 GTCTTACACGAAATCACATTAT-GATGCC-ATGTCCTAGACAG-G
85919609 GTCTTACA
1 GTCTTACA
85919617 TGTGAACATA
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
42 10 0.13
43 62 0.78
44 7 0.09
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
GTCTTACACGAAATCACATTATGATGCCATGTCCTAGACAGG
Found at i:85920817 original size:26 final size:26
Alignment explanation
Indices: 85920787--85920838 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
85920777 TAATAAACAC
85920787 TGAAAATAATTTTTAAATATTTTTCT
1 TGAAAATAATTTTTAAATATTTTTCT
85920813 TGAAAATAATTTTTAAATATTTTTCT
1 TGAAAATAATTTTTAAATATTTTTCT
85920839 AACTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (26 bp):
TGAAAATAATTTTTAAATATTTTTCT
Found at i:85934124 original size:40 final size:40
Alignment explanation
Indices: 85934076--85934343 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
85934066 GCAAACACCT
* * *
85934076 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
85934116 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
85934156 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85934196 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
85934236 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85934276 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85934316 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
85934344 TCCAATGCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:85942958 original size:40 final size:40
Alignment explanation
Indices: 85942910--85943177 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
85942900 GCAAACACCT
* * *
85942910 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
85942950 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
85942990 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85943030 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
85943070 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85943110 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85943150 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
85943178 TCCAATGCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:85963155 original size:40 final size:40
Alignment explanation
Indices: 85963059--85963302 Score: 231
Period size: 40 Copynumber: 6.1 Consensus size: 40
85963049 CGGATGATAA
* * * ** *
85963059 CCGGACTAAGATCCAAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
* * * * *
85963099 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-CGATTATAA
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCG-CTATAT
* * ** *
85963139 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
* * * *
85963179 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCG-CTATAT
* *
85963219 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
* * *
85963259 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
85963299 CCGG
1 CCGG
85963303 TTAAATCCCG
Statistics
Matches: 163, Mismatches: 37, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.01
40 159 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
Found at i:85963188 original size:80 final size:80
Alignment explanation
Indices: 85963055--85963282 Score: 393
Period size: 80 Copynumber: 2.9 Consensus size: 80
85963045 TATTCGGATG
*
85963055 ATAACCGGACTAAGATCCAAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
85963120 TTTATGCTAGCGATT
66 TTTATGCTAGCGATT
85963135 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
85963200 TTTATGCTAGCGATT
66 TTTATGCTAGCGATT
* * * * * *
85963215 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
85963280 TTT
66 TTT
85963283 GTGCGAGTTG
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 141 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
TTTATGCTAGCGATT
Found at i:85965810 original size:41 final size:42
Alignment explanation
Indices: 85965739--85965845 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 42
85965729 ATGCTATCTC
* * *
85965739 ATATCGATGCCATTGTCCAAGACAGAGTCTTACACA-AATCAA
1 ATAT-GATGCCAATGTCCCAGACAGAGTCTTACACATAACCAA
* * *
85965781 ATATGATGCCAATGTCCCAGGCATG-GTCTTACTCATAACCAC
1 ATATGATGCCAATGTCCCAGACA-GAGTCTTACACATAACCAA
*
85965823 ATACCGATGCCAATGTCCCAGAC
1 ATA-TGATGCCAATGTCCCAGAC
85965846 GTCGTCTTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 25 0.46
42 12 0.22
43 17 0.31
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATATGATGCCAATGTCCCAGACAGAGTCTTACACATAACCAA
Found at i:85967706 original size:40 final size:41
Alignment explanation
Indices: 85967617--85967763 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
85967607 CGCTGACTCA
* *
85967617 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * *
85967658 AAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
85967698 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
85967739 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
85967764 TTTTAAACCC
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 33 0.35
41 60 0.65
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:85967764 original size:81 final size:81
Alignment explanation
Indices: 85967617--85967765 Score: 235
Period size: 81 Copynumber: 1.8 Consensus size: 81
85967607 CGCTGACTCA
* * * * *
85967617 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCCAAAGGCCCTTCGAAACTAGGTTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
85967682 GTTATGACACTGGCTC
66 GTTATGACACTGGCTC
* *
85967698 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
85967763 GTT
66 GTT
85967766 TTAAACCCCG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (81 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
GTTATGACACTGGCTC
Found at i:85972713 original size:39 final size:40
Alignment explanation
Indices: 85972562--85972731 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
85972552 GGACTAAGAT
* * *
85972562 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
85972602 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
85972642 CCGAAGGCATTGGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
85972682 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
85972721 CCGAAGGCATT
1 CCGAAGGCATT
85972732 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 33 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:85980479 original size:39 final size:40
Alignment explanation
Indices: 85980390--85980646 Score: 220
Period size: 40 Copynumber: 6.5 Consensus size: 40
85980380 TTGAATGCTG
* * * *
85980390 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAA-TATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGT-AACTAAA
* * *
85980430 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAG-AACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTAACTAAA
* *
85980469 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
***
85980509 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
* * *
85980549 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
* * * * ** * * *
85980588 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
*
85980628 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
85980647 TACGTGATTT
Statistics
Matches: 184, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.02
39 77 0.42
40 96 0.52
41 8 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAACTAAA
Found at i:85980519 original size:40 final size:40
Alignment explanation
Indices: 85980390--85980611 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
85980380 TTGAATGCTG
* * * * * *
85980390 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
85980430 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAG-AACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
85980469 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
85980509 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
85980549 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
85980588 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
85980612 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 65 0.41
40 86 0.54
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:85980526 original size:79 final size:78
Alignment explanation
Indices: 85980390--85980646 Score: 257
Period size: 79 Copynumber: 3.3 Consensus size: 78
85980380 TTGAATGCTG
* * * * * * *
85980390 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCATT
*
85980454 TGTGCGAGAACTAAA
64 TGTGCGAGAGCTAAA
* *
85980469 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTT
* *
85980534 GTGCGAGTTGTTAAA
65 GTGCGAG-AGCTAAA
* * * * * *
85980549 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTTG
** *
85980614 AACGAGGAGCTATA
66 TGCGA-GAGCTAAA
*
85980628 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
85980647 TACGTGATTT
Statistics
Matches: 148, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
78 15 0.10
79 101 0.68
80 32 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGAGCTAAA
Found at i:85998092 original size:38 final size:39
Alignment explanation
Indices: 85997961--85998091 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 39
85997951 GCTACTCGTT
* * *
85997961 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATT-TAGTAACTCGCA
85998001 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
*
85998041 CAAATGCCTTC-GGACTTAACCCGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
85998079 CAAATGCCTTCGG
1 CAAATGCCTTCGG
85998092 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
38 26 0.31
39 12 0.14
40 44 0.52
41 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
Found at i:85998128 original size:78 final size:79
Alignment explanation
Indices: 85997961--85998142 Score: 199
Period size: 78 Copynumber: 2.3 Consensus size: 79
85997951 GCTACTCGTT
* * * **
85997961 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAACGCCTTCGGGACTTAACCCGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
85998026 ATTTAGTAACTCGCA
65 ATATAGTAACTAGCA
* **
85998041 CAAATGCCTTC-GGACTTAACCCGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAACGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
85998104 ATATGGTCACTTAGCA
65 ATATAGTAAC-TAGCA
*
85998120 C-AACGCCTTCGGGACTTAGCCCG
1 CAAACGCCTTCGGGACTTAACCCG
85998143 GATATCATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 3 0.03
78 46 0.53
79 27 0.31
80 11 0.13
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAACGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCA
Found at i:86001891 original size:28 final size:29
Alignment explanation
Indices: 86001837--86001898 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
86001827 GAAAACGTAT
*
86001837 ATATGAATGTGATTTGGGCATAATGGGCC
1 ATATGAATGAGATTTGGGCATAATGGGCC
* *
86001866 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCATAATGGGCC
86001894 ATATG
1 ATATG
86001899 CATGTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCATAATGGGCC
Found at i:86003915 original size:46 final size:46
Alignment explanation
Indices: 86003820--86003988 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 46
86003810 AAATCGATGC
* * * *
86003820 CATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-CGTCTC-AAGCCGTTG
86003867 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAGGCCGTTG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCAA-GCCGTTG
* * * * *
86003913 CATGTCCCAGACAT-GTCTTACACTAGCCCT-CGTCTCAATCCCAATTC
1 CATGTCCCAGACATGGTCTTACACT-GGCTTACGTCTCAA-GCC-GTTG
*
86003960 CATGTCCCAGACATGGTCTTACATTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
86003989 CTCATAATGT
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 57 0.55
47 37 0.36
48 9 0.09
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCAAGCCGTTG
Found at i:86010139 original size:21 final size:22
Alignment explanation
Indices: 86010099--86010139 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
86010089 CACTTGACAT
*
86010099 AGGGGCAACATGCCCATGTGAA
1 AGGGGCAACACGCCCATGTGAA
*
86010121 AGGGGC-ACACGCCCGTGTG
1 AGGGGCAACACGCCCATGTG
86010140 GCCAATTCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.27, G:0.37, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGAA
Found at i:86011401 original size:46 final size:46
Alignment explanation
Indices: 86011313--86011434 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 46
86011303 ATCTCAAATT
*
86011313 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTTGTAG-CC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTTG-AGACC
* * *
86011361 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACTTCTTGAGATC
1 GATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTTGAGACC
*
86011407 GTTGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
86011435 AGCCCTTGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 3 0.04
46 47 0.70
47 13 0.19
48 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTTGAGACC
Found at i:86014778 original size:26 final size:26
Alignment explanation
Indices: 86014742--86014810 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
86014732 CATTCTGACC
*
86014742 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
86014768 CACAGCTCGTGTGAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
*
86014794 CATAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
86014811 ATGATATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:86018065 original size:25 final size:25
Alignment explanation
Indices: 86018037--86018084 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
86018027 TTATAATATG
* * * *
86018037 AAAATGACTATTTTGCCTCTAGGTA
1 AAAATAACCATTTTACCCCTAGGTA
86018062 AAAATAACCATTTTACCCCTAGG
1 AAAATAACCATTTTACCCCTAGG
86018085 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (25 bp):
AAAATAACCATTTTACCCCTAGGTA
Found at i:86018264 original size:26 final size:25
Alignment explanation
Indices: 86018217--86018287 Score: 106
Period size: 26 Copynumber: 2.8 Consensus size: 25
86018207 GAGGAAGTGC
*
86018217 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
**
86018242 AAAAGGGCTTTGGCCCCAGTTTATTA
1 AAAAGGGCTTT-GCCCCAGTTTACCA
86018268 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
86018288 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 20 0.48
26 22 0.52
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:86018310 original size:25 final size:24
Alignment explanation
Indices: 86018242--86018314 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
86018232 CAGTTTACCG
*
86018242 AAAAGGGCTTTGGCCCCAGTTTATTA
1 AAAAGGGC-TAGGCCCCAG-TTATTA
**
86018268 AAAAGGGCTTTGCCCCAGTTATT-
1 AAAAGGGCTAGGCCCCAGTTATTA
86018291 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCC-CCAGTTAT
86018315 ATGTTAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.12
24 12 0.29
25 17 0.40
26 8 0.19
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTAGGCCCCAGTTATTA
Found at i:86018545 original size:31 final size:31
Alignment explanation
Indices: 86018507--86018621 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
86018497 TTGTTACAGT
* *
86018507 AAAGGCTTCGACCCACTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
86018538 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
86018569 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
86018600 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
86018622 CTGAGCTTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:86020799 original size:43 final size:43
Alignment explanation
Indices: 86020727--86020874 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
86020717 CAATTCCATA
* **** * *
86020727 TCCCAGATATGGTCTTACATGTCATCATATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACAAAATCATATAACGATGCCAATG
* *
86020770 TCCTAGACATTGTCTTACACAAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACAAAATCATATAACGATGCCAATG
*** * * *
86020813 TCCCAGACATGGTCTTACATGTAATCACA-ATACAACGCCAATG
1 TCCCAGACATGGTCTTACACAAAATCATATA-ACGATGCCAATG
*
86020856 TCCCAGACATAGTCTTACA
1 TCCCAGACATGGTCTTACA
86020875 TGTAATCACC
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 85 0.99
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACAAAATCATATAACGATGCCAATG
Found at i:86022364 original size:27 final size:27
Alignment explanation
Indices: 86022329--86022384 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
86022319 AAATTAAAAC
*
86022329 AAAATAAAAATAAAAGT-AATGTTCTAA
1 AAAATAAAAATAAAA-TCAATGTCCTAA
86022356 AAAATAAAAATAAAATCAATGTCCTAA
1 AAAATAAAAATAAAATCAATGTCCTAA
86022383 AA
1 AA
86022385 TAAAGAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.23
Consensus pattern (27 bp):
AAAATAAAAATAAAATCAATGTCCTAA
Found at i:86023132 original size:6 final size:6
Alignment explanation
Indices: 86023078--86023171 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
86023068 AAGAAACATT
* * * * *
86023078 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
86023127 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
86023172 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:86023140 original size:31 final size:31
Alignment explanation
Indices: 86023099--86023171 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
86023089 AATCAAAATG
* * *
86023099 AGAATTAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
86023130 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
86023161 AAAATCAGAAT
1 AGAATCAGAAT
86023172 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Done.