Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 68 of 253
Found at i:19700190 original size:4 final size:4
Alignment explanation
Indices: 19700183--19700213 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
19700173 ATATATTCTA
19700183 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
19700214 AATAAAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:19704759 original size:80 final size:80
Alignment explanation
Indices: 19704626--19704803 Score: 231
Period size: 80 Copynumber: 2.2 Consensus size: 80
19704616 TGGATGATAA
19704626 CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGTTCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGTTCTGGGCTAAGTCCCGAAGGCATTTG
*
19704691 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
** *
19704706 CCGGGCTAAGTCCCGAAGGCATTTGTGCGT-GTTACTA-TATCCT-GGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTACGC-TAGTGACTAGT-T-CTGGGCTAAGTCCCGAAGGCAT
19704768 TTGAGCGAGTAGCTATAT
63 TTGAGCGAGTAGCTATAT
* *
19704786 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19704804 TACTTGGCTT
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
79 17 0.19
80 68 0.77
81 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGTTCTGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTAGCTATAT
Found at i:19704784 original size:40 final size:40
Alignment explanation
Indices: 19704629--19704803 Score: 207
Period size: 40 Copynumber: 4.4 Consensus size: 40
19704619 ATGATAACCG
* *
19704629 GGCTAAGTCCCGAAGGCATTT-ACGCTAGTGACTAGT-T-CT
1 GGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTA-TATCCT
* *
19704668 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 -GGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCT
* *
19704709 GGCTAAGTCCCGAAGGCATTTGTGCGTGTTACTATATCCT
1 GGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCT
19704749 GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCT
* *
19704788 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
19704804 TACTTGGCTT
Statistics
Matches: 121, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
39 17 0.14
40 103 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCT
Found at i:19712732 original size:40 final size:40
Alignment explanation
Indices: 19712676--19712893 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
19712666 TGGATGATAA
** * *
19712676 CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
19712716 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19712756 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19712796 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19712836 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19712876 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19712894 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19714635 original size:46 final size:46
Alignment explanation
Indices: 19714585--19714796 Score: 293
Period size: 46 Copynumber: 4.6 Consensus size: 46
19714575 TGCCATAATG
* * *
19714585 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTA
* ** * *
19714631 TCTTTCAACCATGATCTTATTC-TTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* *
19714676 TCTTTCAACCATTGTCTTACACATTTCATATCATGTTGCCATGATA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
*
19714722 TCGTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
*
19714768 TCTTTCAACCATGGTCTTACACCTTTCAT
1 TCTTTCAACCATGGTCTTACACATTTCAT
19714797 TTCAGAGAGC
Statistics
Matches: 148, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
44 4 0.03
45 35 0.24
46 109 0.74
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
Found at i:19714710 original size:91 final size:92
Alignment explanation
Indices: 19714585--19714796 Score: 293
Period size: 91 Copynumber: 2.3 Consensus size: 92
19714575 TGCCATAATG
* * * * *
19714585 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGATCTT
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGATATCGTTCAACCATGATCTT
** *
19714649 ATTC-TTTCATGTCACGTTGCCATGGTA
65 ACACATTTCATATCACGTTGCCATGGTA
* *
19714676 TCTTTCAACCATTGTCTTACACATTTCATATCATGTTGCCATGATATCGTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGATATCGTTCAACCATGATCTTA
*
19714741 CACATTTCATATCATGTTGCCATGGTA
66 CACATTTCATATCACGTTGCCATGGTA
*
19714768 TCTTTCAACCATGGTCTTACACCTTTCAT
1 TCTTTCAACCATGGTCTTACACATTTCAT
19714797 TTCAGAGAGC
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
90 4 0.04
91 54 0.51
92 48 0.45
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGATATCGTTCAACCATGATCTTA
CACATTTCATATCACGTTGCCATGGTA
Found at i:19718227 original size:29 final size:28
Alignment explanation
Indices: 19718168--19718247 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
19718158 TATACATACT
*
19718168 TATGGCCTACTAGGCCCAATCTCATCCA
1 TATGGCCTACTAGGCCCAATCACATCCA
* *
19718196 TATGGCCTATTAGGCCCAAATCACATCTA
1 TATGGCCTACTAGGCCC-AATCACATCCA
**
19718225 TATGGCCCGCTAGGCCCAATCAC
1 TATGGCCTACTAGGCCCAATCAC
19718248 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (28 bp):
TATGGCCTACTAGGCCCAATCACATCCA
Found at i:19741505 original size:21 final size:22
Alignment explanation
Indices: 19741481--19741521 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19741471 AAAGCTAGAA
*
19741481 TGGAGGCTTTT-AGTTGGAATT
1 TGGAGGATTTTCAGTTGGAATT
*
19741502 TGGAGGATTTTCATTTGGAA
1 TGGAGGATTTTCAGTTGGAA
19741522 GATATTGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.41
Consensus pattern (22 bp):
TGGAGGATTTTCAGTTGGAATT
Found at i:19741965 original size:24 final size:24
Alignment explanation
Indices: 19741933--19741985 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
19741923 TTAACTTTTT
19741933 CTGAGGTTAAGGATGAATATTTGG
1 CTGAGGTTAAGGATGAATATTTGG
*
19741957 CTGAGGTTAAGGATGAATCTTTGG
1 CTGAGGTTAAGGATGAATATTTGG
19741981 CTGAG
1 CTGAG
19741986 TTGGTTGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.08, G:0.34, T:0.32
Consensus pattern (24 bp):
CTGAGGTTAAGGATGAATATTTGG
Found at i:19744417 original size:13 final size:13
Alignment explanation
Indices: 19744399--19744426 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19744389 TTGAACTTCC
19744399 TCACACGGGCGTG
1 TCACACGGGCGTG
19744412 TCACACGGGCGTG
1 TCACACGGGCGTG
19744425 TC
1 TC
19744427 TCTTTGGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:19749632 original size:20 final size:20
Alignment explanation
Indices: 19749607--19749653 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
19749597 TCAGTCCTAG
*
19749607 AAATAGTGGGGTCAAGTCAT
1 AAATAGTGGAGTCAAGTCAT
*
19749627 AAATAGTGGAGTCATGTCAT
1 AAATAGTGGAGTCAAGTCAT
*
19749647 GAATAGT
1 AAATAGT
19749654 AATAATGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.28
Consensus pattern (20 bp):
AAATAGTGGAGTCAAGTCAT
Found at i:19755626 original size:50 final size:50
Alignment explanation
Indices: 19755546--19755743 Score: 227
Period size: 50 Copynumber: 4.0 Consensus size: 50
19755536 GACCTTGTAT
* * *
19755546 ATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTGGATTTTGA
1 ATATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATTTTGA
* * * * *
19755596 ATATTCGGCCATGA-AGGTATGCAAAAATGTGATATTATATTTGAATTTGT
1 ATATTCGGCCAT-ATAGGTATGCACATATGTGATGTTATATTTGATTTTGA
* * * * * * * *
19755646 ATATTCGGCTATATAAGTAAGTACATATTTGATGTTAAATTTGATCTTGC
1 ATATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATTTTGA
*
19755696 ATATTCGGCCATATAGGTATGCACATATGTGATCTTATATTTGATTTT
1 ATATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATTTT
19755744 CTATAATCGA
Statistics
Matches: 118, Mismatches: 28, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
49 1 0.01
50 116 0.98
51 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (50 bp):
ATATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATTTTGA
Found at i:19755718 original size:100 final size:100
Alignment explanation
Indices: 19755545--19755748 Score: 266
Period size: 100 Copynumber: 2.0 Consensus size: 100
19755535 TGACCTTGTA
* * * *
19755545 TATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTGGATTTTGAATATTCGGCCATGA
1 TATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCCATGA
*
19755610 AGGTATGCAAAAATGTGATATTATATTTGAATTTG
66 AGGTATGCAAAAATGTGATATTATATTTGAATTTC
* * * * *
19755645 TATATTCGGCTATATAAGTAAGTACATATTTGATGTTAAATTTGATCTTGCATATTCGGCCAT-A
1 TATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCCATGA
* * * *
19755709 TAGGTATGCACATATGTGATCTTATATTTGATTTTC
66 -AGGTATGCAAAAATGTGATATTATATTTGAATTTC
19755745 TATA
1 TATA
19755749 ATCGACCAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 88 0.99
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.41
Consensus pattern (100 bp):
TATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCCATGA
AGGTATGCAAAAATGTGATATTATATTTGAATTTC
Found at i:19759468 original size:68 final size:69
Alignment explanation
Indices: 19759300--19759468 Score: 207
Period size: 69 Copynumber: 2.5 Consensus size: 69
19759290 TTTAAGGTTT
* * *
19759300 GTAGGTTTAATATCACAGCCCCCAAATAGTTAGTAAGAGTTAAAAGCTTCTAGCTGTCATTTAAA
1 GTAGGTTTAATAACACAGCCTCCAAATAGTTAGTAAGAGTTAAAAGCTTCTAGCTGTCATCTAAA
*
19759365 ACTT
66 ACTC
* * ** * * *
19759369 GCAGGTTTAATACCACAATCTCCAAACAGTTAGTGAGAGTTAAAAGC-TCTTAGTTGTCA-CTAA
1 GTAGGTTTAATAACACAGCCTCCAAATAGTTAGTAAGAGTTAAAAGCTTC-TAGCTGTCATCTAA
19759432 AACTC
65 AACTC
*
19759437 GTAGGTTTAATAACGCAGCCTCCAAATAGTTA
1 GTAGGTTTAATAACACAGCCTCCAAATAGTTA
19759469 ACAAAATTCA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
68 35 0.42
69 48 0.58
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (69 bp):
GTAGGTTTAATAACACAGCCTCCAAATAGTTAGTAAGAGTTAAAAGCTTCTAGCTGTCATCTAAA
ACTC
Found at i:19759658 original size:71 final size:69
Alignment explanation
Indices: 19759499--19759658 Score: 196
Period size: 71 Copynumber: 2.3 Consensus size: 69
19759489 ATTGTAATTC
* * * *
19759499 TAAGGCTCACAGGTTTAATACAGCAGCCCAAAATAGTTAGCGAGGGTTAAAAGCTCTCAACTGTC
1 TAAGGCTCACAGATTTAATACAGCAACCCAAAATAGTTAGCGAGAGTTAAAAGCTCTCAACTATC
19759564 ATTT
66 ATTT
* * **
19759568 TAAGGCTCACAAATCTAATACCA-CAACCTTTAAATAGTTAGCGAGAGTTAAAAAGCTCTCAACT
1 TAAGGCTCACAGATTTAATA-CAGCAACC-CAAAATAGTTAGCGAGAGTT-AAAAGCTCTCAACT
*
19759632 ATCCTTT
63 ATCATTT
*
19759639 TAAGGCTCACAGTTTTAATA
1 TAAGGCTCACAGATTTAATA
19759659 TCGTAGCCCC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 21 0.28
70 19 0.25
71 36 0.47
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (69 bp):
TAAGGCTCACAGATTTAATACAGCAACCCAAAATAGTTAGCGAGAGTTAAAAGCTCTCAACTATC
ATTT
Found at i:19764096 original size:10 final size:10
Alignment explanation
Indices: 19764081--19764111 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19764071 TTCGCATATC
19764081 CGACAATGTA
1 CGACAATGTA
19764091 CGACAATGTA
1 CGACAATGTA
*
19764101 CGACAACGTA
1 CGACAATGTA
19764111 C
1 C
19764112 ACCTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (10 bp):
CGACAATGTA
Found at i:19766910 original size:42 final size:42
Alignment explanation
Indices: 19766780--19766954 Score: 104
Period size: 42 Copynumber: 4.2 Consensus size: 42
19766770 ACACATAGAA
* * * ** * * *
19766780 TCATACCAATTCCATATCCCAAATGTGGTTTTACATGTAATC
1 TCATAACAATGCCATATCCCAGACATGGTCTTACACGAAATC
*** * * * *
19766822 TCATATTGATGCCAATAGCCCAG-CTATGGTCTTACATG-ATTA
1 TCATAACAATGCC-ATATCCCAGAC-ATGGTCTTACACGAAATC
* * * *
19766864 TCATATCAATGCCGTGTCCTAGACATGGTCTTACACGAAATC
1 TCATAACAATGCCATATCCCAGACATGGTCTTACACGAAATC
* * *
19766906 TCATAACGATGCCATATCCCGGATATGGTCTTACACGTAAA-C
1 TCATAACAATGCCATATCCCAGACATGGTCTTACACG-AAATC
19766948 TCATAAC
1 TCATAAC
19766955 CCTAATGTCA
Statistics
Matches: 101, Mismatches: 27, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
41 17 0.17
42 63 0.62
43 21 0.21
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
TCATAACAATGCCATATCCCAGACATGGTCTTACACGAAATC
Found at i:19774234 original size:42 final size:42
Alignment explanation
Indices: 19774081--19774247 Score: 149
Period size: 42 Copynumber: 4.0 Consensus size: 42
19774071 AGTCATACCA
* * * * * *
19774081 ATGCCATATCCCAAATGTGGTTTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
* * * * * *
19774123 ATGCCAATAGCCTAGATATGGTCTTACATG-ATTCTCATATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAACG
* * * *
19774165 ATGCCGTGTCCTAGACATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
*
19774207 ATGCCATATCCCGGATATGGTCTTACACGTAAA-CTCATAAC
1 ATGCCATATCCCAGATATGGTCTTACACG-AAATCTCATAAC
19774248 CCTAATGTCA
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
41 19 0.19
42 61 0.60
43 22 0.22
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
Found at i:19782636 original size:92 final size:91
Alignment explanation
Indices: 19782469--19782636 Score: 205
Period size: 92 Copynumber: 1.8 Consensus size: 91
19782459 TTGTGTGAGG
* * * * *
19782469 TAGTCTAAGACATCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACCGTGTTTCGG
1 TAGTCTAAGACATCTGGGACATGCATCGGCCACAATAT-AGAGCCAGCGTAAGACCATGTCTCGG
19782534 ACATGACATCGGTATTGAGACAAGTGC
65 ACATGACATCGGTATTGAGACAAGTGC
* * *
19782561 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACAATAT-GAGTCAGCGTAAGACCATGTCT-G
1 TAGTCTAAGACA--TCTGGGACATGCATCGGCCACAATATAGAGCCAGCGTAAGACCATGTCTCG
*
19782624 GAACATGGCATCG
64 G-ACATGACATCG
19782637 ACACAGATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
91 2 0.03
92 39 0.61
94 23 0.36
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (91 bp):
TAGTCTAAGACATCTGGGACATGCATCGGCCACAATATAGAGCCAGCGTAAGACCATGTCTCGGA
CATGACATCGGTATTGAGACAAGTGC
Found at i:19790060 original size:16 final size:16
Alignment explanation
Indices: 19790039--19790070 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19790029 TCTGTAACGC
19790039 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
*
19790055 CCCAAAAATCTTGAAA
1 CCCAAAAATCTCGAAA
19790071 TCCCGATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:19792814 original size:56 final size:56
Alignment explanation
Indices: 19792749--19792862 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
19792739 ATTCATAATC
*
19792749 TAAAGCAATTTCATACAAATTGCATCTAGAAACCAAGTTTTTCAATTTATTCAATT
1 TAAAGCAATTTCATACAAATTGCATCTAGAAACCAAGTTTTGCAATTTATTCAATT
*
19792805 TAAAGCAATTTCATACAAATTGCTTCTAGAAACCAAGTTTTGCAATTTATTCAATT
1 TAAAGCAATTTCATACAAATTGCATCTAGAAACCAAGTTTTGCAATTTATTCAATT
19792861 TA
1 TA
19792863 GTCCCTAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (56 bp):
TAAAGCAATTTCATACAAATTGCATCTAGAAACCAAGTTTTGCAATTTATTCAATT
Found at i:19802374 original size:28 final size:29
Alignment explanation
Indices: 19802272--19802386 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
19802262 GTGAGCATGA
* * *
19802272 ATATGAATGTGA-CTGGGCCTAACGGGCG
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
19802300 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
19802329 ATAT-ACAGGTGATTTGGGCCTAATGGCCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
19802358 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
19802386 A
1 A
19802387 AATACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:19802384 original size:57 final size:58
Alignment explanation
Indices: 19802285--19802395 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
19802275 TGAATGTGAC
* * * *
19802285 TGGGCCTAACGGGCGATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGCCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATT
* * *
19802343 TGGGCCTAATGGCCCATATGAATATGA-TTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACGGCCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGT
19802396 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGGCCTAACGGCCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:19806684 original size:9 final size:9
Alignment explanation
Indices: 19806672--19806696 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19806662 TATGGGCCGG
19806672 AATGGGCTA
1 AATGGGCTA
19806681 AATGGGCTA
1 AATGGGCTA
19806690 AATGGGC
1 AATGGGC
19806697 CCGATGGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (9 bp):
AATGGGCTA
Found at i:19806834 original size:29 final size:29
Alignment explanation
Indices: 19806802--19806894 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
19806792 CTAACGGGCG
19806802 ATATAAATGTGATTTGGGCTTAATGGACC
1 ATATAAATGTGATTTGGGCTTAATGGACC
*** * *
19806831 ATATACGGGTGATTTGGGCCTAATGGCCC
1 ATATAAATGTGATTTGGGCTTAATGGACC
* * * *
19806860 ATATGAATATGA-TTGAGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCTTAATGGACC
*
19806888 AGATAAA
1 ATATAAA
19806895 AGTATGTGAA
Statistics
Matches: 49, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
28 18 0.37
29 31 0.63
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCTTAATGGACC
Found at i:19810019 original size:46 final size:46
Alignment explanation
Indices: 19809950--19810080 Score: 181
Period size: 46 Copynumber: 2.8 Consensus size: 46
19809940 GATATTTGGG
* * **
19809950 CATCCGAGCTCGTTTAGTTGAGTCTGAGTTCACTTATGGATGTGAA
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
** *
19809996 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
* *
19810042 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19810081 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
Found at i:19818037 original size:43 final size:43
Alignment explanation
Indices: 19817989--19818137 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
19817979 ATCTCATATT
* * *
19817989 GATGCCAATGTCCCATACATGGTTTTATACGAAATCATATAAC
1 GATGCCAATGTCCCAAACATGGTCTTACACGAAATCATATAAC
19818032 GATGCCAATGTCCCAAACATGGTCTTACACGAAATCATATAAC
1 GATGCCAATGTCCCAAACATGGTCTTACACGAAATCATATAAC
19818075 ---G---ATG--CC--ACATGGTCTTACACGAAATCATATAAC
1 GATGCCAATGTCCCAAACATGGTCTTACACGAAATCATATAAC
* *
19818108 AATGCCAATGTCCCAGACATGGTCTTACAC
1 GATGCCAATGTCCCAAACATGGTCTTACAC
19818138 ATAATCACAA
Statistics
Matches: 93, Mismatches: 3, Indels: 20
0.80 0.03 0.17
Matches are distributed among these distances:
33 27 0.29
35 2 0.02
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
41 2 0.02
43 54 0.58
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
GATGCCAATGTCCCAAACATGGTCTTACACGAAATCATATAAC
Found at i:19818090 original size:33 final size:33
Alignment explanation
Indices: 19818048--19818114 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
19818038 AATGTCCCAA
*
19818048 ACATGGTCTTACACGAAATCATATAACGATGCC
1 ACATGGTCTTACACGAAATCATATAACAATGCC
19818081 ACATGGTCTTACACGAAATCATATAACAATGCC
1 ACATGGTCTTACACGAAATCATATAACAATGCC
19818114 A
1 A
19818115 ATGTCCCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (33 bp):
ACATGGTCTTACACGAAATCATATAACAATGCC
Found at i:19818144 original size:43 final size:43
Alignment explanation
Indices: 19818081--19818179 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 43
19818071 TAACGATGCC
*
19818081 ACATGGTCTTACACGAAATCA-TATAACA-ATGCCAATGTCCCAG
1 ACATGGTCTTACACGAAATCACAAT-ACATA-GCCAATGTCCCAG
* *
19818124 ACATGGTCTTACAC-ATAATCACAATACATAGCTAATGTCCTAG
1 ACATGGTCTTACACGA-AATCACAATACATAGCCAATGTCCCAG
*
19818167 ATATGGTCTTACA
1 ACATGGTCTTACA
19818180 TGTAATCTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.02
43 45 0.92
44 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (43 bp):
ACATGGTCTTACACGAAATCACAATACATAGCCAATGTCCCAG
Found at i:19820929 original size:28 final size:28
Alignment explanation
Indices: 19820889--19820958 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
19820879 GCAATCAAAT
* * * *
19820889 ATGGTACTCAGTGTATGAAATGTTGAGA
1 ATGGAACTTAGTGTACGAAATATTGAGA
* * *
19820917 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGAACTTAGTGTACGAAATATTGAGA
*
19820945 ATGAAACTTAGTGT
1 ATGGAACTTAGTGT
19820959 GAAAAATATC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (28 bp):
ATGGAACTTAGTGTACGAAATATTGAGA
Found at i:19820967 original size:28 final size:28
Alignment explanation
Indices: 19820906--19820967 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
19820896 TCAGTGTATG
* ** **
19820906 AAATGTTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGAAACTTAGTGTGAA
*
19820934 AGATATTGAGAATGAAACTTAGTGTGAA
1 AAATATTGAGAATGAAACTTAGTGTGAA
19820962 AAATAT
1 AAATAT
19820968 CGAATGATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGAAACTTAGTGTGAA
Found at i:19823389 original size:41 final size:41
Alignment explanation
Indices: 19823220--19823377 Score: 164
Period size: 41 Copynumber: 3.9 Consensus size: 41
19823210 GTCTAAATCT
*
19823220 GAGCTTGGTCTCGAAGGGCTTTTGAGCTAGTGCTAATAACC
1 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACC
* * * * *
19823261 GAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAACC
1 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACC
* * *
19823301 G-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--CC
1 GAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAACC
19823342 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
19823378 GAATCGGGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
39 5 0.05
40 33 0.34
41 54 0.56
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACC
Found at i:19831896 original size:11 final size:11
Alignment explanation
Indices: 19831880--19831904 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19831870 TTATATATAC
19831880 TAATAAAATAA
1 TAATAAAATAA
19831891 TAATAAAATAA
1 TAATAAAATAA
19831902 TAA
1 TAA
19831905 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:19845459 original size:40 final size:40
Alignment explanation
Indices: 19845414--19845495 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
19845404 TATGAAATTG
* *
19845414 CCTTAGATTATGAATTAGAAGGTATTGGAGAGCAATTTTC
1 CCTTAGATTAAGAATTAGAAAGTATTGGAGAGCAATTTTC
*
19845454 CCTTAGATTAAGAATTAGAAAGTCTTGGAGAGCAATTTTC
1 CCTTAGATTAAGAATTAGAAAGTATTGGAGAGCAATTTTC
19845494 CC
1 CC
19845496 AAATTCTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (40 bp):
CCTTAGATTAAGAATTAGAAAGTATTGGAGAGCAATTTTC
Found at i:19847224 original size:50 final size:50
Alignment explanation
Indices: 19847149--19847249 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
19847139 GTATAAATAC
19847149 TCTGTTTATTTTGTTCAATGGCATGTATAGTATTTTTGAGTATTTTGTTA
1 TCTGTTTATTTTGTTCAATGGCATGTATAGTATTTTTGAGTATTTTGTTA
19847199 TCTGTTTATTTTGTTCAATGGCATGTATAGTATTTTTGAGTATTTTGTTA
1 TCTGTTTATTTTGTTCAATGGCATGTATAGTATTTTTGAGTATTTTGTTA
19847249 T
1 T
19847250 ATGTGTCATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.20, C:0.06, G:0.18, T:0.56
Consensus pattern (50 bp):
TCTGTTTATTTTGTTCAATGGCATGTATAGTATTTTTGAGTATTTTGTTA
Found at i:19851283 original size:13 final size:13
Alignment explanation
Indices: 19851265--19851291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19851255 AGGATTATGA
19851265 TCTGAATATCGAC
1 TCTGAATATCGAC
19851278 TCTGAATATCGAC
1 TCTGAATATCGAC
19851291 T
1 T
19851292 ATCACCTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TCTGAATATCGAC
Found at i:19866835 original size:43 final size:43
Alignment explanation
Indices: 19866771--19866945 Score: 196
Period size: 43 Copynumber: 4.1 Consensus size: 43
19866761 TCACATAAAG
* * * *
19866771 CTCATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTTAT
1 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAAT
* *
19866812 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAT
1 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAAT
* * * *
19866855 CAT-ATAACGATGCCAATGTCCCAAACATGGTCTTATACGTAAT
1 C-TCATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAAT
* *
19866898 CACA-ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
1 CTCATAT-CAATGCCAATGTCCCAGACATGGTCTTACACGTAAT
19866941 CTCAT
1 CTCAT
19866946 GTCGGTAATC
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 6 0.05
42 7 0.06
43 97 0.87
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (43 bp):
CTCATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAAT
Found at i:19868265 original size:18 final size:19
Alignment explanation
Indices: 19868242--19868283 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
19868232 TCATTCACAT
19868242 ATTTTCTCTCTTC-TCTCC
1 ATTTTCTCTCTTCTTCTCC
*
19868260 ATTTTCTCTCTTCTTTTCC
1 ATTTTCTCTCTTCTTCTCC
19868279 ATTTT
1 ATTTT
19868284 AAATTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.07, C:0.31, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTCTCTCTTCTTCTCC
Found at i:19881443 original size:31 final size:31
Alignment explanation
Indices: 19881400--19881463 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
19881390 CCTTTACATA
* *
19881400 TTTCTTATTTCATAACCCTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
19881431 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
19881462 TT
1 TT
19881464 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:19881747 original size:24 final size:23
Alignment explanation
Indices: 19881676--19881740 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
19881666 AGGCCTACCT
*
19881676 CTTTTAAT-AACTGGGGCAAAAGCC
1 CTTTTCATAAACTGGGGC-AAAG-C
*
19881700 CTTTTGATAAACTGGGGCAAAGC
1 CTTTTCATAAACTGGGGCAAAGC
19881723 CTTTTCAGTAAACTGGGG
1 CTTTTCA-TAAACTGGGG
19881741 TATAGCCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 7 0.19
24 21 0.57
25 9 0.24
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (23 bp):
CTTTTCATAAACTGGGGCAAAGC
Found at i:19881818 original size:9 final size:9
Alignment explanation
Indices: 19881804--19881860 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
19881794 ACATCATGTG
19881804 CATATCATA
1 CATATCATA
*
19881813 CATATCATGTG
1 CATATCA--TA
*
19881824 CATATCACA
1 CATATCATA
19881833 CATATCATGA
1 CATATCAT-A
19881843 GCATATCATA
1 -CATATCATA
19881853 CATATCAT
1 CATATCAT
19881861 GTGCATATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 22 0.55
10 2 0.05
11 16 0.40
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (9 bp):
CATATCATA
Found at i:19881819 original size:20 final size:20
Alignment explanation
Indices: 19881796--19881882 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
19881786 TTATGAATAC
19881796 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
19881816 ATCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
*
19881836 ATCATGAGCATATCATACAT
1 ATCATGTGCATATCATACAT
19881856 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
19881876 ATCATGT
1 ATCATGT
19881883 ATACCAAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:19881827 original size:11 final size:11
Alignment explanation
Indices: 19881796--19881871 Score: 65
Period size: 11 Copynumber: 7.5 Consensus size: 11
19881786 TTATGAATAC
19881796 ATCATGTGCAT
1 ATCATGTGCAT
*
19881807 ATCA--TACAT
1 ATCATGTGCAT
19881816 ATCATGTGCAT
1 ATCATGTGCAT
**
19881827 ATCA--CACAT
1 ATCATGTGCAT
*
19881836 ATCATGAGCAT
1 ATCATGTGCAT
*
19881847 ATCA--TACAT
1 ATCATGTGCAT
19881856 ATCATGTGCAT
1 ATCATGTGCAT
19881867 ATCAT
1 ATCAT
19881872 ATCAATCATG
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
9 22 0.44
11 28 0.56
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:19885381 original size:40 final size:40
Alignment explanation
Indices: 19885322--19885579 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
19885312 AAGCCAAGTA
* * * *
19885322 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * * *
19885361 CCTTCAGGACATAGCACGGATATAGTAACTCGCACCAACG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19885401 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
19885441 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19885481 CCTTCGGGACTTAACCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
19885521 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGTAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
19885561 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19885580 TTATCATCCG
Statistics
Matches: 195, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.06
40 183 0.94
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19886214 original size:21 final size:20
Alignment explanation
Indices: 19886176--19886214 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19886166 GCAACACCAA
**
19886176 TCCATCTATTCATTCATGCG
1 TCCATCTATTCAAGCATGCG
19886196 TCCATCTTATTCAAGCATG
1 TCCATC-TATTCAAGCATG
19886215 TATATCTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.38
Consensus pattern (20 bp):
TCCATCTATTCAAGCATGCG
Found at i:19893494 original size:40 final size:40
Alignment explanation
Indices: 19893424--19893681 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
19893414 AAGCCAAGTA
* * * *
19893424 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
19893463 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19893503 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19893543 CCTTCAGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19893583 CCTACGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19893623 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
19893663 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19893682 TTATCATCCG
Statistics
Matches: 198, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.06
40 186 0.94
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19901009 original size:31 final size:31
Alignment explanation
Indices: 19900971--19901034 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
19900961 CCTTTACATA
*
19900971 TTTCATATTTCATAACCCTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
19901002 TTTCATATTTCATATTACTGTGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
19901033 TT
1 TT
19901035 ATTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:19901281 original size:24 final size:24
Alignment explanation
Indices: 19901243--19901324 Score: 96
Period size: 24 Copynumber: 3.4 Consensus size: 24
19901233 CTAGAGGCCT
*
19901243 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGC-AA
19901268 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
19901292 AG-CCTTTTCGATAAACTAGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
19901316 AGCCCTTTT
1 AGCCCTTTT
19901325 TGCACTTCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 6 0.12
24 26 0.51
25 19 0.37
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:19901391 original size:20 final size:20
Alignment explanation
Indices: 19901368--19901414 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
19901358 TTATGGATAC
19901368 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
19901387 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
19901408 ATCATGT
1 ATCATGT
19901415 ATACCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:19907306 original size:47 final size:47
Alignment explanation
Indices: 19907237--19907329 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
19907227 AATGAGTTAG
*
19907237 GTGGAGAGTAATTTGAACAAGAAGTTCAACAAGGATAACACATTACT
1 GTGGAGAGTAATTTCAACAAGAAGTTCAACAAGGATAACACATTACT
*
19907284 GTGGAGAGTAATTTCAACAAGAAGTTCAACAAGGATAACCCATTAC
1 GTGGAGAGTAATTTCAACAAGAAGTTCAACAAGGATAACACATTAC
19907330 AAGTTAACTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (47 bp):
GTGGAGAGTAATTTCAACAAGAAGTTCAACAAGGATAACACATTACT
Found at i:19909834 original size:49 final size:49
Alignment explanation
Indices: 19909767--19909866 Score: 141
Period size: 49 Copynumber: 2.0 Consensus size: 49
19909757 TTATTTTATT
* *
19909767 TTAGAATAAGGTTCTTCAACCTTATTACACTTCATCTATTTG-ATATTGA
1 TTAGAATAAGGTTCTTCAACCTTACTACACTCCATCTATTTGAATA-TGA
*
19909816 TTAGAATAAGGTGT-TTCAACCTTACTACACTCCTTCTATTTGAATATGA
1 TTAGAATAAGGT-TCTTCAACCTTACTACACTCCATCTATTTGAATATGA
19909865 TT
1 TT
19909867 TTACAAGCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
49 42 0.91
50 4 0.09
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (49 bp):
TTAGAATAAGGTTCTTCAACCTTACTACACTCCATCTATTTGAATATGA
Found at i:19910782 original size:42 final size:42
Alignment explanation
Indices: 19910719--19910802 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
19910709 AAAATCGTAA
* * *
19910719 TGCTGATGATAGTTATAGAAGGATAGAGGAAAGAAATCCTCG
1 TGCTGATGATAGTAATAGAAGGACACAGGAAAGAAATCCTCG
* *
19910761 TGCTGATGAT-GATAATGGAAGGACACAGGAACGAAATCCTCG
1 TGCTGATGATAG-TAATAGAAGGACACAGGAAAGAAATCCTCG
19910803 CGGTAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (42 bp):
TGCTGATGATAGTAATAGAAGGACACAGGAAAGAAATCCTCG
Found at i:19912420 original size:40 final size:41
Alignment explanation
Indices: 19912336--19912429 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
19912326 GTCGGTATCT
* * *
19912336 CACACTTAGTG-CACTCTATAACTGAAGCTATGCCAACTCG
1 CACACTTAGTGCCACTCTATAACTGAAGCTATACCAAATCA
* * **
19912376 CACACTTAGTGCCA-TTTATAGCTGAAGCTATATTAAATCA
1 CACACTTAGTGCCACTCTATAACTGAAGCTATACCAAATCA
19912416 CACACTTAGTGCCA
1 CACACTTAGTGCCA
19912430 ATCATAGTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (41 bp):
CACACTTAGTGCCACTCTATAACTGAAGCTATACCAAATCA
Found at i:19919825 original size:24 final size:24
Alignment explanation
Indices: 19919764--19919827 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
19919754 ATTTGAAAGT
*
19919764 TCGCACACATAGTGCTCTTACTTAT
1 TCGCACACATAGTGCTCTTA-TTAC
*
19919789 TCGCACACTTAGTGCTACATT-TT-C
1 TCGCACACATAGTGCT-C-TTATTAC
19919813 TCGCACACATAGTGC
1 TCGCACACATAGTGC
19919828 CATAGTGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 14 0.41
25 17 0.50
26 1 0.03
27 2 0.06
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (24 bp):
TCGCACACATAGTGCTCTTATTAC
Found at i:19919844 original size:32 final size:32
Alignment explanation
Indices: 19919798--19919862 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
19919788 TTCGCACACT
19919798 TAGTGCTACATTTTCTCGCACACATAGTGCCA
1 TAGTGCTACATTTTCTCGCACACATAGTGCCA
*
19919830 TAGTGCTACGTTTTCTCGCACACATAGTGCCA
1 TAGTGCTACATTTTCTCGCACACATAGTGCCA
19919862 T
1 T
19919863 GTAATCTCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (32 bp):
TAGTGCTACATTTTCTCGCACACATAGTGCCA
Found at i:19919870 original size:24 final size:24
Alignment explanation
Indices: 19919843--19919907 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
19919833 TGCTACGTTT
*
19919843 TCTCGCACACATAGTGCCATGTAA
1 TCTCGCACACATAGTGCCATATAA
* *
19919867 TCTCGCACACATAGTGCCGTATAG
1 TCTCGCACACATAGTGCCATATAA
* *
19919891 CCTTGCACACATAGTGC
1 TCTCGCACACATAGTGC
19919908 TGTATTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (24 bp):
TCTCGCACACATAGTGCCATATAA
Found at i:19921204 original size:20 final size:21
Alignment explanation
Indices: 19921179--19921217 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
19921169 TAATTTCTTC
*
19921179 TTTTATTCCTATT-TTTATTT
1 TTTTATTCATATTGTTTATTT
19921199 TTTTATTCATATTGTTTAT
1 TTTTATTCATATTGTTTAT
19921218 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTCATATTGTTTATTT
Found at i:19926861 original size:15 final size:17
Alignment explanation
Indices: 19926843--19926874 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
19926833 TAGCATAATT
19926843 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
19926858 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
19926875 CAAGTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:19947285 original size:47 final size:47
Alignment explanation
Indices: 19947231--19947729 Score: 863
Period size: 47 Copynumber: 10.6 Consensus size: 47
19947221 TATTTGAATA
*
19947231 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
19947278 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
19947325 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
19947374 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
19947421 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
19947468 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
19947515 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
19947562 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
19947609 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
19947656 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
19947703 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
19947730 CCCCGAAGGG
Statistics
Matches: 431, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 386 0.90
49 45 0.10
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:19964996 original size:6 final size:7
Alignment explanation
Indices: 19964977--19965002 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19964967 CCAATCTCAC
19964977 AGAAAAA
1 AGAAAAA
19964984 AGAAAAA
1 AGAAAAA
19964991 AGAAAAA
1 AGAAAAA
19964998 AGAAA
1 AGAAA
19965003 TCCATTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:19971071 original size:38 final size:38
Alignment explanation
Indices: 19971020--19971097 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
19971010 AATATCAATT
19971020 AAATTTATACTTGAAATCACATGTCAATAGATTATACA
1 AAATTTATACTTGAAATCACATGTCAATAGATTATACA
*
19971058 AAATTTATACTTGAAATCACATGTTAATAGATTATACA
1 AAATTTATACTTGAAATCACATGTCAATAGATTATACA
19971096 AA
1 AA
19971098 CAAATATCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (38 bp):
AAATTTATACTTGAAATCACATGTCAATAGATTATACA
Found at i:19971521 original size:2 final size:2
Alignment explanation
Indices: 19971514--19971538 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19971504 TTAACCAATA
19971514 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
19971539 AACATGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:19974727 original size:28 final size:28
Alignment explanation
Indices: 19974687--19974818 Score: 133
Period size: 28 Copynumber: 4.8 Consensus size: 28
19974677 CCCCTATTTT
* * *
19974687 TTTTTCAGATTTTACAGTTTTACACTTG
1 TTTTTCAAATTTTACAGTTTTACTCTTA
* * *
19974715 TTTTTCAGATTTTACAGTTTTGCTCTTG
1 TTTTTCAAATTTTACAGTTTTACTCTTA
* * **
19974743 TTTCTCAAATTTTATAGTTTTTTTC-TA
1 TTTTTCAAATTTTACAGTTTTACTCTTA
*
19974770 TTTCTCAAATTTTACAGTTTTAC-CTCTA
1 TTTTTCAAATTTTACAGTTTTACTCT-TA
*
19974798 TTTTTAAAATTTTACAGTTTT
1 TTTTTCAAATTTTACAGTTTT
19974819 GACCCATATT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 21 0.24
28 67 0.75
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.57
Consensus pattern (28 bp):
TTTTTCAAATTTTACAGTTTTACTCTTA
Found at i:19975435 original size:84 final size:86
Alignment explanation
Indices: 19975317--19975474 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 86
19975307 CAAACAAGTG
* *
19975317 GTGGCTTATCCACCAAACCCAGTGGTAGTTTGTTTAATCTATG-AA-TATATTGTGCACTCACAA
1 GTGGCTTATCCACAAAACCCAGTGGTAGTTTGTTTAAT-T-TGCAACCATATTGTGCACTCACAA
*
19975380 TAAGTGGCAGTAACTGTAAATAT
64 CAAGTGGCAGTAACTGTAAATAT
* *
19975403 GTGGCTTGTCCA-AAAACCCAGT-GTAGTTTGTTTAATTTGCAACCATGTTGTGCACTCACAACA
1 GTGGCTTATCCACAAAACCCAGTGGTAGTTTGTTTAATTTGCAACCATATTGTGCACTCACAACA
19975466 AGTGGCAGT
66 AGTGGCAGT
19975475 TTAACTACAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
82 2 0.03
83 3 0.05
84 40 0.62
85 9 0.14
86 11 0.17
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (86 bp):
GTGGCTTATCCACAAAACCCAGTGGTAGTTTGTTTAATTTGCAACCATATTGTGCACTCACAACA
AGTGGCAGTAACTGTAAATAT
Found at i:19976698 original size:116 final size:116
Alignment explanation
Indices: 19976494--19976728 Score: 452
Period size: 116 Copynumber: 2.0 Consensus size: 116
19976484 TACGCATTTC
**
19976494 TGAATGGACATGAGTTGGTGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
1 TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
19976559 GCATGAGTTTTGTTAAAAATGCCCGTTTGGACGTAGTAAACAATTAGGATA
66 GCATGAGTTTTGTTAAAAATGCCCGTTTGGACGTAGTAAACAATTAGGATA
19976610 TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
1 TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
19976675 GCATGAGTTTTGTTAAAAATGCCCGTTTGGACGTAGTAAACAATTAGGATA
66 GCATGAGTTTTGTTAAAAATGCCCGTTTGGACGTAGTAAACAATTAGGATA
19976726 TGA
1 TGA
19976729 TTGACATACC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (116 bp):
TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
GCATGAGTTTTGTTAAAAATGCCCGTTTGGACGTAGTAAACAATTAGGATA
Found at i:19976794 original size:20 final size:20
Alignment explanation
Indices: 19976769--19976806 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19976759 TTGTATGGGG
*
19976769 TTGCACTTCGGTTCCTCTTT
1 TTGCACTTCGGTGCCTCTTT
*
19976789 TTGCACTTTGGTGCCTCT
1 TTGCACTTCGGTGCCTCT
19976807 GATTGCACAT
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:0.05, C:0.29, G:0.18, T:0.47
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTTT
Found at i:19976812 original size:20 final size:20
Alignment explanation
Indices: 19976769--19976827 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
19976759 TTGTATGGGG
* * **
19976769 TTGCACTTCGGTTCCTCTTT
1 TTGCACTTTGGTGCCTCTGA
19976789 TTGCACTTTGGTGCCTCTGA
1 TTGCACTTTGGTGCCTCTGA
*
19976809 TTGCACATTT-TTGCCTCTG
1 TTGCAC-TTTGGTGCCTCTG
19976828 TCTGTACTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.08, C:0.27, G:0.19, T:0.46
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGA
Found at i:19979871 original size:27 final size:28
Alignment explanation
Indices: 19979829--19979894 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
19979819 TTTTTTAAAA
*
19979829 TTTATAGTTTTGCCCCAATTTCTCATAT
1 TTTATAGTTTTGCCCCAATTTCTCAAAT
* *
19979857 TTTATAGTTTT-CCCCTATTTTTCAAAT
1 TTTATAGTTTTGCCCCAATTTCTCAAAT
19979884 TTTATAGTTTT
1 TTTATAGTTTT
19979895 TTCTCTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 24 0.69
28 11 0.31
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.56
Consensus pattern (28 bp):
TTTATAGTTTTGCCCCAATTTCTCAAAT
Found at i:19979897 original size:29 final size:28
Alignment explanation
Indices: 19979811--19979923 Score: 102
Period size: 29 Copynumber: 4.0 Consensus size: 28
19979801 CAGTCGTGTG
* *
19979811 TCCCCTATTTTTTTAAAATTTATAGTTTT
1 TCCCCTA-TTTTTCAAATTTTATAGTTTT
* * * *
19979840 GCCCCAATTTCTCATATTTTATAG-TTT
1 TCCCCTATTTTTCAAATTTTATAGTTTT
19979867 TCCCCTATTTTTCAAATTTTATAGTTTTT
1 TCCCCTATTTTTCAAATTTTATAG-TTTT
* * * * *
19979896 TCTCTTACTTTACAAATTTTACAGTTTT
1 TCCCCTATTTTTCAAATTTTATAGTTTT
19979924 GACTTAAAAT
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 23 0.34
28 17 0.25
29 27 0.40
ACGTcount: A:0.23, C:0.18, G:0.04, T:0.55
Consensus pattern (28 bp):
TCCCCTATTTTTCAAATTTTATAGTTTT
Found at i:19980794 original size:22 final size:20
Alignment explanation
Indices: 19980755--19980794 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
19980745 AAATCGTATG
*
19980755 TTTTGTTTGTTTTTTTGTTC
1 TTTTGTTTGTTTTCTTGTTC
19980775 TTTTGTTACTGTTTTCTTGT
1 TTTTGTT--TGTTTTCTTGT
19980795 GACTGAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.03, C:0.07, G:0.15, T:0.75
Consensus pattern (20 bp):
TTTTGTTTGTTTTCTTGTTC
Found at i:19984412 original size:27 final size:27
Alignment explanation
Indices: 19984382--19984452 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
19984372 TAAGTTGTAG
*
19984382 AATTTCTAAAATACCCTTAGTTTATAA
1 AATTACTAAAATACCCTTAGTTTATAA
* * * *
19984409 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTAGTTTATAA
*
19984436 AATTACTGAAATACCCT
1 AATTACTAAAATACCCT
19984453 CGACTTGTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (27 bp):
AATTACTAAAATACCCTTAGTTTATAA
Found at i:19984460 original size:27 final size:27
Alignment explanation
Indices: 19984406--19984533 Score: 89
Period size: 27 Copynumber: 4.7 Consensus size: 27
19984396 CCTTAGTTTA
* **
19984406 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAGTACCCTC-GACTTG
*
19984433 TAAAATTACTGAAA-TACCCTCGACTTG
1 TAAAATTAC-CAAAGTACCCTCGACTTG
* *
19984460 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAGTACCCTCGACTTG
* *** * * *
19984487 TAGAATTACCATTTTACCATCGATTTA
1 TAAAATTACCAAAGTACCCTCGACTTG
* *
19984514 TAAAATTACAAAAATACCCT
1 TAAAATTACCAAAGTACCCT
19984534 TGTAAGGTAG
Statistics
Matches: 81, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.04
27 74 0.91
28 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAGTACCCTCGACTTG
Found at i:19984547 original size:27 final size:27
Alignment explanation
Indices: 19984517--19984570 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19984507 CGATTTATAA
19984517 AATTACAAAAATACCCTTGTAAGGTAG
1 AATTACAAAAATACCCTTGTAAGGTAG
** *
19984544 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACAAAAATACCCTTGTAAGGTAG
19984571 GACTACCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACAAAAATACCCTTGTAAGGTAG
Found at i:19984586 original size:27 final size:27
Alignment explanation
Indices: 19984525--19984579 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
19984515 AAAATTACAA
*
19984525 AAATACCCTTGTAAGGTAGAATTACCG
1 AAATACCCTTGTAAGGTAGAACTACCG
* *
19984552 AAATACCCTTGTAGGGTAGGACTACCG
1 AAATACCCTTGTAAGGTAGAACTACCG
19984579 A
1 A
19984580 TTTACCCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAAGGTAGAACTACCG
Found at i:19985267 original size:27 final size:26
Alignment explanation
Indices: 19985223--19985274 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19985213 CTCGCTGCAA
*
19985223 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19985250 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19985275 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19985328 original size:31 final size:32
Alignment explanation
Indices: 19985290--19985351 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
19985280 CTCGCTGCAA
* *
19985290 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
19985321 TCTGGTGGCCTAGCCACAATATATGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
19985352 GTGACTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:19991741 original size:13 final size:13
Alignment explanation
Indices: 19991723--19991748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19991713 AGAGCTGGCT
19991723 TTAAATAGAGCAA
1 TTAAATAGAGCAA
19991736 TTAAATAGAGCAA
1 TTAAATAGAGCAA
19991749 ACTATGAGGA
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:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
TTAAATAGAGCAA
Found at i:19992017 original size:27 final size:27
Alignment explanation
Indices: 19991979--19992105 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 27
19991969 TAAGTTGTAG
* *
19991979 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTATAA
* * * *
19992006 AATTTCCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTATAA
** * * *
19992033 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTATAA
* * *
19992060 AATTACCAAAGTACCCTCGATTTACAA
1 AATTACCAAAATACCCTTGATTTATAA
**
19992087 AATTACTGAAATACCCTTG
1 AATTACCAAAATACCCTTG
19992106 TAAGGTAGAA
Statistics
Matches: 79, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTATAA
Found at i:19992061 original size:54 final size:54
Alignment explanation
Indices: 19991973--19992103 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
19991963 AGTGGATAAG
* * * ** * *
19991973 TTGTAGAATTACTAAAATACCCTTGGTTTATAAAATTTCCAAAATACCC-CTGGT
1 TTGTAAAATTACTGAAATACCCTCGACTTATAAAATTACCAAAATACCCTC-GAT
* *
19992027 TTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCGACTTATAAAATTACCAAAATACCCTCGAT
**
19992081 TTACAAAATTACTGAAATACCCT
1 TTGTAAAATTACTGAAATACCCT
19992104 TGTAAGGTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 64 0.98
55 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (54 bp):
TTGTAAAATTACTGAAATACCCTCGACTTATAAAATTACCAAAATACCCTCGAT
Found at i:19992845 original size:27 final size:26
Alignment explanation
Indices: 19992801--19992852 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19992791 CTCGCTACAA
*
19992801 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19992828 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19992853 CTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19992906 original size:31 final size:32
Alignment explanation
Indices: 19992868--19992929 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
19992858 CTCGCTGCAA
* *
19992868 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
19992899 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
19992930 GTGACTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:19995051 original size:57 final size:57
Alignment explanation
Indices: 19994963--19995079 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
19994953 GAGACTAACA
* *
19994963 ACATCTAACCCTAGGTTGAATAATTGAAATCTCTTTCTAATTAAAACCCCCAGTGTT
1 ACATCTAACCCTAGGTTGAATAATTGAAATCTCTTTATAATAAAAACCCCCAGTGTT
*
19995020 ACATCTAACCCTAGGTTGAATAATTTAAATCTCTTTATAATAAAAACCCCCAGTGTT
1 ACATCTAACCCTAGGTTGAATAATTGAAATCTCTTTATAATAAAAACCCCCAGTGTT
19995077 ACA
1 ACA
19995080 ACCCCGGCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.32
Consensus pattern (57 bp):
ACATCTAACCCTAGGTTGAATAATTGAAATCTCTTTATAATAAAAACCCCCAGTGTT
Found at i:19995627 original size:13 final size:13
Alignment explanation
Indices: 19995609--19995633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19995599 GCTCGACAGG
19995609 GACACGCCCGTGT
1 GACACGCCCGTGT
19995622 GACACGCCCGTG
1 GACACGCCCGTG
19995634 AGCGATTTCT
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:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:19999362 original size:9 final size:9
Alignment explanation
Indices: 19999334--19999401 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
19999324 TTTATACAAA
19999334 TAATTCGGT
1 TAATTCGGT
* *
19999343 TAATCCAGT
1 TAATTCGGT
19999352 TAATTCGGT
1 TAATTCGGT
* *
19999361 TAATTTGAT
1 TAATTCGGT
*
19999370 TAATTCGGG
1 TAATTCGGT
19999379 TAATTCAGG-
1 TAATTC-GGT
19999388 TAATTCGGT
1 TAATTCGGT
19999397 TAATT
1 TAATT
19999402 TTATACTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
8 2 0.04
9 44 0.92
10 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:19999374 original size:36 final size:36
Alignment explanation
Indices: 19999334--19999402 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
19999324 TTTATACAAA
* *
19999334 TAATTCGGTTAATCCAGTTAATTCGGTTAATTTGAT
1 TAATTCGGGTAATCCAGGTAATTCGGTTAATTTGAT
*
19999370 TAATTCGGGTAATTCAGGTAATTCGGTTAATTT
1 TAATTCGGGTAATCCAGGTAATTCGGTTAATTT
19999403 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (36 bp):
TAATTCGGGTAATCCAGGTAATTCGGTTAATTTGAT
Found at i:19999401 original size:18 final size:18
Alignment explanation
Indices: 19999334--19999401 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
19999324 TTTATACAAA
*
19999334 TAATTCGGTTAATCCAGT
1 TAATTCGGTTAATTCAGT
*
19999352 TAATTCGGTTAATT-TGAT
1 TAATTCGGTTAATTCAG-T
* *
19999370 TAATTCGGGTAATTCAGG
1 TAATTCGGTTAATTCAGT
19999388 TAATTCGGTTAATT
1 TAATTCGGTTAATT
19999402 TTATACTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.02
18 40 0.95
19 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (18 bp):
TAATTCGGTTAATTCAGT
Found at i:19999513 original size:28 final size:28
Alignment explanation
Indices: 19999476--19999552 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
19999466 GAATTAATCG
19999476 AAAAAATTCGGTTTGGTTAATTTTCTT-A
1 AAAAAATTCGGTTTGGTTAATTTT-TTGA
19999504 AAAAAATTCGGTTTGGTTAATTTTTTGA
1 AAAAAATTCGGTTTGGTTAATTTTTTGA
* *
19999532 AAAAATTTCGGTTCGGTTAAT
1 AAAAAATTCGGTTTGGTTAAT
19999553 CATTAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 2 0.04
28 44 0.96
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.44
Consensus pattern (28 bp):
AAAAAATTCGGTTTGGTTAATTTTTTGA
Found at i:20001205 original size:26 final size:25
Alignment explanation
Indices: 20001153--20001202 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
20001143 AAAATAGGAT
*
20001153 TTTTTAACTCAACTCGACTCAAAAA
1 TTTTTAACTCAACTCGACTAAAAAA
* *
20001178 TTTTTGACTCAATTCGACTAAAAAA
1 TTTTTAACTCAACTCGACTAAAAAA
20001203 ATTCAAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (25 bp):
TTTTTAACTCAACTCGACTAAAAAA
Found at i:20006264 original size:14 final size:14
Alignment explanation
Indices: 20006245--20006274 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20006235 CATTCCGAAG
20006245 TATATATATATACA
1 TATATATATATACA
20006259 TATATATATATACA
1 TATATATATATACA
20006273 TA
1 TA
20006275 AGTATGCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATATACA
Found at i:20006805 original size:27 final size:28
Alignment explanation
Indices: 20006721--20006818 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
20006711 CATGAGATTG
* * * *
20006721 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
20006750 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
20006778 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
20006805 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
20006819 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:20006829 original size:27 final size:27
Alignment explanation
Indices: 20006749--20006831 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
20006739 TAAATTGTAC
* *
20006749 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
20006777 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
20006804 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
20006831 A
1 A
20006832 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:20013309 original size:27 final size:27
Alignment explanation
Indices: 20013257--20013413 Score: 131
Period size: 27 Copynumber: 5.7 Consensus size: 27
20013247 AAATTGTACA
* *
20013257 GCACTAAGTTGTGCG-ATTCGATTATGTT
1 GCACTAAG-TGTGCGAATT-GAATATGTG
**
20013285 GCACTAAGTGTGCGAAAGGAATATGAT-
1 GCACTAAGTGTGCGAATTGAATATG-TG
** *
20013312 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGAATATGTG
*
20013339 GCACTAAGTGTGCGAATCT-AACTATGTA
1 GCACTAAGTGTGCGAAT-TGAA-TATGTG
* * * *
20013367 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGAATATGTG
*
20013394 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
20013414 GTGAATAGCA
Statistics
Matches: 104, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
27 74 0.71
28 30 0.29
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGAATATGTG
Found at i:20013318 original size:55 final size:54
Alignment explanation
Indices: 20013256--20013408 Score: 166
Period size: 55 Copynumber: 2.8 Consensus size: 54
20013246 TAAATTGTAC
* *
20013256 AGCACTAAGTTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAGGAA-TATG-
1 AGCACTAAG-TGTGCGATT-GATTATGTGGCACTAAGTGTGCGAAACGAACTATGT
** * * *
20013310 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGATTATGTGGCACTAAGTGTGCGAAACGAACTATGT
* *
20013366 AGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA-TTGATTATGTGGCACTAAGTGTGCGA
20013409 GTTGAGTGAA
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
54 31 0.38
55 50 0.61
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGATTATGTGGCACTAAGTGTGCGAAACGAACTATGT
Found at i:20018443 original size:40 final size:40
Alignment explanation
Indices: 20018388--20018643 Score: 340
Period size: 40 Copynumber: 6.4 Consensus size: 40
20018378 GATGATAACG
* * *
20018388 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
20018428 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* * *
20018468 AGGCTAAGTCCCGAAGACATTTGTGTGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
20018508 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
20018548 GGGCTAAGTCTCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
20018588 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
20018628 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
20018644 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.08
40 180 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:20021065 original size:11 final size:11
Alignment explanation
Indices: 20021049--20021074 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20021039 GTGATGGGCA
20021049 AGACATGTCAT
1 AGACATGTCAT
20021060 AGACATGTCAT
1 AGACATGTCAT
20021071 AGAC
1 AGAC
20021075 GCCAAATTCG
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:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (11 bp):
AGACATGTCAT
Found at i:20024617 original size:13 final size:13
Alignment explanation
Indices: 20024601--20024633 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20024591 TTTGATTAAA
*
20024601 TTAGTTAATTAGT
1 TTAGATAATTAGT
20024614 TTAGATAATTAGT
1 TTAGATAATTAGT
20024627 TTA-ATAA
1 TTAGATAA
20024634 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:20026711 original size:32 final size:32
Alignment explanation
Indices: 20026666--20026749 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
20026656 ATTGAAATGT
*
20026666 GCTAGGCCCAACTGATACTGGTTCTGAT-ATGG
1 GCTAGGCCCAACTGATACTGATTCTG-TGATGG
* *
20026698 GCTAGGCCTAACTGATATTGATTCTGTGATGG
1 GCTAGGCCCAACTGATACTGATTCTGTGATGG
* *
20026730 GCTAGGCCCAATTGAGACTG
1 GCTAGGCCCAACTGATACTG
20026750 TGATGGGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (32 bp):
GCTAGGCCCAACTGATACTGATTCTGTGATGG
Found at i:20028689 original size:21 final size:23
Alignment explanation
Indices: 20028648--20028690 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
20028638 TCAAATTCCA
20028648 ACCATTTCATAACCAAAACATTC
1 ACCATTTCATAACCAAAACATTC
*
20028671 ACCATTT-AT-ACCAATACATT
1 ACCATTTCATAACCAAAACATT
20028691 ATCAACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 2 0.11
23 7 0.37
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (23 bp):
ACCATTTCATAACCAAAACATTC
Found at i:20031440 original size:46 final size:46
Alignment explanation
Indices: 20031390--20031536 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 46
20031380 GTACTATCTA
20031390 ATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGCTATCCG
1 ATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGCTATCCG
* * * * * * * * **
20031436 ATTGTATG-ATTAATACTTCATACATATTGAT-TCTT-AGGTTGTACTATCTA
1 ATTGTTTGCA--CATA---CAT--GTGTTGATGCCTTGATGATGTGCTATCCG
20031486 ATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGCTATCCG
1 ATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGCTATCCG
20031532 ATTGT
1 ATTGT
20031537 ATGATTGATA
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
44 6 0.08
45 4 0.06
46 25 0.35
47 3 0.04
49 3 0.04
50 20 0.28
51 4 0.06
52 6 0.08
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (46 bp):
ATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGCTATCCG
Found at i:20031487 original size:96 final size:96
Alignment explanation
Indices: 20031365--20031542 Score: 356
Period size: 96 Copynumber: 1.9 Consensus size: 96
20031355 ACGGCTCATG
20031365 ATTGATTCTTAGGTTGTACTATCTAATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGC
1 ATTGATTCTTAGGTTGTACTATCTAATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGC
20031430 TATCCGATTGTATGATTAATACTTCATACAT
66 TATCCGATTGTATGATTAATACTTCATACAT
20031461 ATTGATTCTTAGGTTGTACTATCTAATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGC
1 ATTGATTCTTAGGTTGTACTATCTAATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGC
20031526 TATCCGATTGTATGATT
66 TATCCGATTGTATGATT
20031543 GATATATGGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (96 bp):
ATTGATTCTTAGGTTGTACTATCTAATTGTTTGCACATACATGTGTTGATGCCTTGATGATGTGC
TATCCGATTGTATGATTAATACTTCATACAT
Found at i:20034224 original size:21 final size:21
Alignment explanation
Indices: 20034195--20034241 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
20034185 GTGAAGCAAC
*
20034195 GGAGCTAGTTTGCTAAAAATA
1 GGAGTTAGTTTGCTAAAAATA
20034216 GGAGTTAGTTTGCTAAAAATA
1 GGAGTTAGTTTGCTAAAAATA
20034237 GGAGT
1 GGAGT
20034242 GTCCATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (21 bp):
GGAGTTAGTTTGCTAAAAATA
Found at i:20038502 original size:30 final size:30
Alignment explanation
Indices: 20038466--20038525 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
20038456 ATCTACTGAG
*
20038466 GCGATAATGTGTAAGAGATTTGAAGATGGT
1 GCGATAATGTCTAAGAGATTTGAAGATGGT
20038496 GCGATAATGTCTAAGAGATTTGAAGATGGT
1 GCGATAATGTCTAAGAGATTTGAAGATGGT
20038526 TTGAATAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.32, T:0.30
Consensus pattern (30 bp):
GCGATAATGTCTAAGAGATTTGAAGATGGT
Found at i:20058939 original size:49 final size:49
Alignment explanation
Indices: 20058768--20058954 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 49
20058758 TAAGGTCATG
* *
20058768 TGTGTAGTACTAAGTGAAGG-TACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * **** *
20058816 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGAAAACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAA-T-TGGTCGCA
* * *
20058867 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* **
20058916 TGTGTAGTACTAAGTGGAGGCTACTATACGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
20058955 GCTTCGGCTA
Statistics
Matches: 109, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
48 19 0.17
49 49 0.45
50 7 0.06
51 34 0.31
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:20058939 original size:100 final size:99
Alignment explanation
Indices: 20058767--20058949 Score: 303
Period size: 100 Copynumber: 1.8 Consensus size: 99
20058757 GTAAGGTCAT
* * *
20058767 GTGTGTAGTACTAAGTGAAGGTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTG
1 GTGTGTAGTACTAAGTGAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTG
*
20058832 CAGGCTACTATGCGTACCCAAAAACTGTGAAAAC
66 CAGGCTACTATACGTACCCAAAAACTGTGAAAAC
*
20058866 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTG-AAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
20058931 GGAGGCTACTATACGTACC
65 GCAGGCTACTATACGTACC
20058950 AGATAGCTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 17 0.22
100 60 0.78
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (99 bp):
GTGTGTAGTACTAAGTGAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTG
CAGGCTACTATACGTACCCAAAAACTGTGAAAAC
Found at i:20061964 original size:15 final size:15
Alignment explanation
Indices: 20061921--20061989 Score: 86
Period size: 15 Copynumber: 4.7 Consensus size: 15
20061911 TATCGTATCT
*
20061921 TGGGTTTCTTTACTC
1 TGGGTTTCTTTATTC
20061936 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
* *
20061951 TGGGTTTCTCTATTT
1 TGGGTTTCTTTATTC
*
20061966 TGGATTTCTTTATTC
1 TGGGTTTCTTTATTC
*
20061981 -GGTTTTCTT
1 TGGGTTTCTT
20061990 GTTATCTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
14 8 0.17
15 39 0.83
ACGTcount: A:0.07, C:0.14, G:0.19, T:0.59
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:20063788 original size:14 final size:16
Alignment explanation
Indices: 20063769--20063806 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
20063759 AGAAAATGAA
*
20063769 GATATATGACA-A-GT
1 GATATATGAAATATGT
20063783 GATATATGAAATATGT
1 GATATATGAAATATGT
20063799 GATATATG
1 GATATATG
20063807 TTATGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (16 bp):
GATATATGAAATATGT
Found at i:20064187 original size:49 final size:49
Alignment explanation
Indices: 20064115--20064302 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
20064105 TGAGGTTACG
* * *
20064115 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * * * *
20064164 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-TGGTCGCA
* * *
20064215 TGTGTAGTACTAAGTGCAGGCTGCTATGTGTACCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
*
20064264 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
20064303 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 76 0.66
50 2 0.02
51 38 0.33
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:20064285 original size:100 final size:100
Alignment explanation
Indices: 20064112--20064297 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
20064102 TTGTGAGGTT
** *
20064112 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGTATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAA
20064177 GTGCAGGCTACTATGCGTACCCGAAAACTGTGATC
66 GTGCAGGCTACTATGCGTACCCGAAAACTGTGATC
* * *
20064212 ACGTGTGTAGTACTAAGTGCAGGCTGCTATGTGTACCAAATTATTGGTCGCATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAA
20064277 GTGCAGGCTACTATGCGTACC
66 GTGCAGGCTACTATGCGTACC
20064298 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAA
GTGCAGGCTACTATGCGTACCCGAAAACTGTGATC
Found at i:20065846 original size:12 final size:12
Alignment explanation
Indices: 20065829--20065855 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20065819 GAGTAATTCC
20065829 TCAATCTTCAAT
1 TCAATCTTCAAT
20065841 TCAATCTTCAAT
1 TCAATCTTCAAT
20065853 TCA
1 TCA
20065856 GTTTCCTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (12 bp):
TCAATCTTCAAT
Found at i:20069551 original size:29 final size:28
Alignment explanation
Indices: 20069509--20069610 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
20069499 CATGATTGTA
*
20069509 AATGTGATTTGGGCCTAATGGGCCAGATG
1 AATGTGA-TTGGGCCTAATGGGCCACATG
* * *
20069538 AATGTGATTTGGGCCTAATCGGCTACATA
1 AATGTGA-TTGGGCCTAATGGGCCACATG
* *
20069567 AAT-TAGAATGGGCCTAATGGGCCATATG
1 AATGT-GATTGGGCCTAATGGGCCACATG
* *
20069595 AAAGAGATTGGGCCTA
1 AATGTGATTGGGCCTA
20069611 GTAGGCCATA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
28 29 0.49
29 30 0.51
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCACATG
Found at i:20069606 original size:28 final size:28
Alignment explanation
Indices: 20069517--20069621 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 28
20069507 TAAATGTGAT
* * *
20069517 TTGGGCCTAATGGGCCAGATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAAAGAGA
* * * *
20069545 TTTGGGCCTAATCGGCTACAT-AAATTAGA
1 -TTGGGCCTAATGGGCCATATGAAA-GAGA
*
20069574 ATGGGCCTAATGGGCCATATGAAAGAGA
1 TTGGGCCTAATGGGCCATATGAAAGAGA
* *
20069602 TTGGGCCTAGTAGGCCATAT
1 TTGGGCCTAATGGGCCATAT
20069622 ATATATAGGT
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
28 38 0.63
29 22 0.37
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAAAGAGA
Found at i:20073047 original size:29 final size:28
Alignment explanation
Indices: 20073005--20073117 Score: 102
Period size: 28 Copynumber: 4.0 Consensus size: 28
20072995 CATGACTATA
20073005 AATGTGACTTGGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* * * *
20073034 AATGTGATTTGGGCCTAATCGGCTACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
*
20073063 AAT-TAGAATGGGCCTAATGGGCCATATG
1 AATGT-GATTGGGCCTAATGGGCCATATG
*** * *
20073091 AAACAGATTGGGCCTAGTGGGCTATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
20073118 ATATAGGTAT
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 38 0.57
29 29 0.43
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:20081153 original size:49 final size:47
Alignment explanation
Indices: 20081053--20081187 Score: 121
Period size: 49 Copynumber: 2.8 Consensus size: 47
20081043 TTAAAGGTCC
* * *
20081053 GCACACATAGTGCTCT-TACTCATTCGCACACATAGTGCCGCGTTTCCTT
1 GCACACATAGTGCTATATAATC--TCGCACACATAGTGCCGAGTTT-CTT
20081102 GCACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-TT
1 GCACACATAGTGCTATATAATCTCGCACACATAGTGCC--G-AGTTTCTT
* *** * *
20081151 GCACACATGGTGCCGCATAACCTTGCACACATAGTGC
1 GCACACATAGTGCTATATAATCTCGCACACATAGTGC
20081188 TGAAATCTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
48 16 0.22
49 48 0.66
50 5 0.07
51 4 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GCACACATAGTGCTATATAATCTCGCACACATAGTGCCGAGTTTCTT
Found at i:20088670 original size:24 final size:24
Alignment explanation
Indices: 20088640--20088728 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
20088630 GCCGCGTTTC
*
20088640 CTTGCACACATAGTGCTATATAAT
1 CTTGCACACATAGTGCCATATAAT
* * *
20088664 CTCGCACACATAGTGCCATGTAGTT
1 CTTGCACACATAGTGCCATATA-AT
* ** *
20088689 TTTGCACACATAGTGCCGCATAAC
1 CTTGCACACATAGTGCCATATAAT
20088713 CTTGCACACATAGTGC
1 CTTGCACACATAGTGC
20088729 TGAAATCTCT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 34 0.65
25 18 0.35
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (24 bp):
CTTGCACACATAGTGCCATATAAT
Found at i:20088694 original size:49 final size:47
Alignment explanation
Indices: 20088594--20088728 Score: 139
Period size: 49 Copynumber: 2.8 Consensus size: 47
20088584 TTAAAGGTCC
* *
20088594 GCACACATAGTGCTGT-TACTCATTCGCACACATAGTGCCGCGTTTCCTT
1 GCACACATAGTGCTGTATAATC--TCGCACACATAGTGCCGAGTTT-CTT
*
20088643 GCACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-TT
1 GCACACATAGTGCTGTATAATCTCGCACACATAGTGCC--G-AGTTTCTT
* * * *
20088692 GCACACATAGTGCCGCATAACCTTGCACACATAGTGC
1 GCACACATAGTGCTGTATAATCTCGCACACATAGTGC
20088729 TGAAATCTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
48 16 0.22
49 49 0.66
50 5 0.07
51 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
GCACACATAGTGCTGTATAATCTCGCACACATAGTGCCGAGTTTCTT
Found at i:20093039 original size:13 final size:13
Alignment explanation
Indices: 20093021--20093045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20093011 GATATAATTT
20093021 CACACAAAATAAA
1 CACACAAAATAAA
20093034 CACACAAAATAA
1 CACACAAAATAA
20093046 TTTTAAAATT
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:20095677 original size:28 final size:28
Alignment explanation
Indices: 20095612--20095707 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
20095602 GAGATTGGCG
* * * *
20095612 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
20095641 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20095669 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20095697 CTGAGTGTGCG
1 CTAAGTGTGCG
20095708 GACTTAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 46 0.75
29 15 0.25
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:20107460 original size:37 final size:37
Alignment explanation
Indices: 20107401--20107509 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
20107391 AGCTCAGATG
* *
20107401 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
20107438 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
20107475 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
20107510 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:20107713 original size:50 final size:48
Alignment explanation
Indices: 20107655--20107798 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 48
20107645 GCACATCGCC
20107655 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA-CATATCTCATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATAGCATATCTC--A
* *
20107705 TATATATTTCACATTGACCATTCGGCTTTACCACATATATGCATATCTCA
1 TACATATTTCACATAG-CCATTCGGCTTTACCACATATA-GCATATCTCA
*
20107755 TACATATTTCACATTAGCCATTCCGCTTTACCACATATATGCAT
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATA-GCAT
20107799 GTTCATATTC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
49 2 0.02
50 73 0.86
51 2 0.02
52 8 0.09
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATAGCCATTCGGCTTTACCACATATAGCATATCTCA
Found at i:20107784 original size:100 final size:96
Alignment explanation
Indices: 20107655--20107845 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 96
20107645 GCACATCGCC
* *
20107655 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA-CATATCTCATATATATATTTCACAT
1 TACATATTTCACACTAGCCATTCCGCTTTACCACATATAGCATAT-TCATAT-T-CA--TCACAT
*
20107719 TGACCATTCGGCTTTACCACATATATGCATATCTCA
61 TGACCATTCGGCCTTACCACATATATGCATATCTCA
* * *
20107755 TACATATTTCACATTAGCCATTCCGCTTTACCACATATATGCATGTTCATATTCATCACATTGGC
1 TACATATTTCACACTAGCCATTCCGCTTTACCACATATA-GCATATTCATATTCATCACATTGAC
*
20107820 CATTCGGCCTTATCACATATATGCAT
65 CATTCGGCCTTACCACATATATGCAT
20107846 GTTCACATTC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
97 33 0.40
99 1 0.01
100 38 0.46
101 6 0.07
102 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCCGCTTTACCACATATAGCATATTCATATTCATCACATTGACC
ATTCGGCCTTACCACATATATGCATATCTCA
Done.