Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 133 of 255
Found at i:42710835 original size:4 final size:4
Alignment explanation
Indices: 42710828--42710865 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
42710818 ATGATAAAAC
42710828 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
42710866 TGAAATTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:42714862 original size:6 final size:6
Alignment explanation
Indices: 42714853--42714896 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
42714843 AATAAAAATA
42714853 AAAACC AAAACC AAAACC AAAACC AAAACC -AAACC AAAACC AAA
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAA
42714897 TTGTAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:42714868 original size:18 final size:18
Alignment explanation
Indices: 42714847--42714896 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
42714837 CAATAAAATA
*
42714847 AAAATAAAAACCAAAACC
1 AAAACAAAAACCAAAACC
*
42714865 AAAACCAAAACCAAAACC
1 AAAACAAAAACCAAAACC
*
42714883 -AAACCAAAACCAAA
1 AAAACAAAAACCAAA
42714897 TTGTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.70, C:0.28, G:0.00, T:0.02
Consensus pattern (18 bp):
AAAACAAAAACCAAAACC
Found at i:42720662 original size:59 final size:59
Alignment explanation
Indices: 42720570--42720683 Score: 219
Period size: 59 Copynumber: 1.9 Consensus size: 59
42720560 AGATGCCAGC
42720570 TTCAATTATTTTACACAGAGATCTGCGTATCATTTTAAGATTGTAGAGAGCCCTTTATG
1 TTCAATTATTTTACACAGAGATCTGCGTATCATTTTAAGATTGTAGAGAGCCCTTTATG
*
42720629 TTCAATTATTTTACACAGAGATCTGCGTATCATTTTAAGATTTTAGAGAGCCCTT
1 TTCAATTATTTTACACAGAGATCTGCGTATCATTTTAAGATTGTAGAGAGCCCTT
42720684 CATGAGGCGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (59 bp):
TTCAATTATTTTACACAGAGATCTGCGTATCATTTTAAGATTGTAGAGAGCCCTTTATG
Found at i:42721765 original size:22 final size:21
Alignment explanation
Indices: 42721740--42721788 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
42721730 TGTAGGGCTC
42721740 ACACGCCCGTGTGATCCAAGGG
1 ACACGCCCGTGTGA-CCAAGGG
* *
42721762 ACACACCCGTGTGACCATGGG
1 ACACGCCCGTGTGACCAAGGG
42721783 ACACGC
1 ACACGC
42721789 TTGTGCTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.24, C:0.35, G:0.29, T:0.12
Consensus pattern (21 bp):
ACACGCCCGTGTGACCAAGGG
Found at i:42726026 original size:19 final size:19
Alignment explanation
Indices: 42725988--42726026 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42725978 TTAATCCTTT
*
42725988 TTATTTTATATTATTATTA
1 TTATTTTATAATATTATTA
42726007 TTATTTTA-AATATTAGTTA
1 TTATTTTATAATATTA-TTA
42726026 T
1 T
42726027 ATAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATTTTATAATATTATTA
Found at i:42726100 original size:16 final size:16
Alignment explanation
Indices: 42726075--42726110 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
42726065 CATTTTTAAA
* *
42726075 ATTTTTTTATTTATAT
1 ATTTTGTTATATATAT
42726091 ATTTTGTTATATATAT
1 ATTTTGTTATATATAT
42726107 ATTT
1 ATTT
42726111 ATTTTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTTGTTATATATAT
Found at i:42726125 original size:20 final size:20
Alignment explanation
Indices: 42726077--42726126 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
42726067 TTTTTAAAAT
*
42726077 TTTTTTATTTATATATTTTG
1 TTTTTTATATATATATTTTG
* * *
42726097 TTATATATATATTTATTTTG
1 TTTTTTATATATATATTTTG
42726117 TTTTTTATAT
1 TTTTTTATAT
42726127 GTTATATATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTTTTATATATATATTTTG
Found at i:42729746 original size:48 final size:48
Alignment explanation
Indices: 42729690--42729782 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
42729680 TCTTGCAACT
42729690 GTACTTTCAACTCTTTCAATTCAGTAGGAGCCATTCTGTAAGGTGATA
1 GTACTTTCAACTCTTTCAATTCAGTAGGAGCCATTCTGTAAGGTGATA
42729738 GTACTTTCAACTCTTTCAATTCAGTAGGAGCCATTCTGTAAGGTG
1 GTACTTTCAACTCTTTCAATTCAGTAGGAGCCATTCTGTAAGGTG
42729783 CTATGGATAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (48 bp):
GTACTTTCAACTCTTTCAATTCAGTAGGAGCCATTCTGTAAGGTGATA
Found at i:42737129 original size:29 final size:29
Alignment explanation
Indices: 42737066--42737133 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
42737056 TAATCAACCG
42737066 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
42737095 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
42737124 CGCACACTTA
1 CGCACACTTA
42737134 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:42737246 original size:174 final size:174
Alignment explanation
Indices: 42736955--42737282 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
42736945 AACTCAAGGT
* *
42736955 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
42737020 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
42737085 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
42737129 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
42737194 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
42737259 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
42737283 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:42737274 original size:29 final size:30
Alignment explanation
Indices: 42737235--42737313 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
42737225 CTTAATAATC
42737235 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
42737265 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
*
42737294 AACCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42737314 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:42740206 original size:20 final size:21
Alignment explanation
Indices: 42740181--42740220 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42740171 CACTTGAGGC
*
42740181 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
42740201 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
42740221 CCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:42741505 original size:49 final size:47
Alignment explanation
Indices: 42741448--42741761 Score: 216
Period size: 46 Copynumber: 6.7 Consensus size: 47
42741438 GTCGATACCG
* *
42741448 TGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGGCCGATG-CA
* * * * *
42741497 TGTCCCAGACAGGTCTTCCACTGGCTCTCATCTATCGGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCAG-GCCGATG-CA
* * * * *
42741546 TGTCCCAGACAGGTCTTACACTGA--CACACA-A-CAAGCTGACGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGGCCGATG-CA
* * *
42741590 TGTCCCAGATAGGTCTTACACT-AGCT-TGTATATCTCAAGGCCGATGCA
1 TGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATC-AGGCCGATGCA
* * * * * *
42741638 TGTCCCAGACATGTCTTACACT-AGCTCTCATCTA-AATGCGGATGTA
1 TGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCAGGCCGATGCA
* * *
42741684 TGTCCCAGACATGTCTTACAATGGCTCTCATA-AT-ATGGCCGATGCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCA-GGCCGATGCA
* * * *
42741730 TGTCCCAAACATGTCTTACACTGGCTCACATA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATA
42741762 CCACCTAATG
Statistics
Matches: 210, Mismatches: 43, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.00
44 28 0.13
45 3 0.01
46 75 0.36
47 3 0.01
48 31 0.15
49 69 0.33
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGGCCGATGCA
Found at i:42751481 original size:42 final size:42
Alignment explanation
Indices: 42751421--42751500 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
42751411 CACGTTTGAA
*
42751421 TGAAATGCATCATTATATTAATTGAAAACATAATTGACTGAC
1 TGAAATGCATCATGATATTAATTGAAAACATAATTGACTGAC
42751463 TGAAATGCATCATGATATTAATTGAAAACATAATTGAC
1 TGAAATGCATCATGATATTAATTGAAAACATAATTGAC
42751501 CGAGGGACAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (42 bp):
TGAAATGCATCATGATATTAATTGAAAACATAATTGACTGAC
Found at i:42754337 original size:15 final size:15
Alignment explanation
Indices: 42754319--42754353 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
42754309 TAATTTATTC
42754319 TTTATTTTTT-GGTG
1 TTTATTTTTTAGGTG
42754333 ATTTATTTTTTAGGTG
1 -TTTATTTTTTAGGTG
42754349 TTTAT
1 TTTAT
42754354 GAGCATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (15 bp):
TTTATTTTTTAGGTG
Found at i:42756314 original size:40 final size:39
Alignment explanation
Indices: 42756259--42756436 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 39
42756249 CGGATGATAA
* *
42756259 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-TT
*
42756299 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT-T
* *
42756339 CCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTA-TT
* * * * *
42756379 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT-T
* *
42756419 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42756437 TACCTGGCTT
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 14 0.12
40 103 0.88
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATT
Found at i:42756392 original size:80 final size:80
Alignment explanation
Indices: 42756259--42756436 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
42756249 CGGATGATAA
* ** *
42756259 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCG
*
42756324 TGCGAGTTACTATAT
66 AGCGAGTTACTATAT
* * *
42756339 CCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTACATCCGGGCTATGTCCCGAAGGCATTC
1 CCGGGTTAAGTCCCGAAGGCATTTGCGCT-AGTGACTACATCCGGGCTAAGTCCCGAAGGCATTC
*
42756403 GAGCGAGTTGCTATAT
65 GAGCGAGTTACTATAT
*
42756419 CC-GGTTAAATCCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
42756437 TACCTGGCTT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 16 0.18
80 71 0.82
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCG
AGCGAGTTACTATAT
Found at i:42764281 original size:40 final size:40
Alignment explanation
Indices: 42764226--42764443 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
42764216 CGGATGATAA
* * *
42764226 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
42764266 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
42764306 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * *
42764346 TTGGGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
42764386 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
42764426 TC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42764444 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.90
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42775599 original size:168 final size:168
Alignment explanation
Indices: 42775321--42775661 Score: 603
Period size: 168 Copynumber: 2.0 Consensus size: 168
42775311 TTAAAATTAA
42775321 ATTGTTTGAGCTGTTTAAGTAATGAATTAAGGCCGTTAACACCTCGTGTTCGACTTCGGTGATGG
1 ATTGTTTGAGCTGTTTAAGTAATGAATTAAGGCCGTTAACACCTCGTGTTCGACTTCGGTGATGG
* *
42775386 TCTCGGGTACAGGGCATTACATTTGGTGATATCAGAGCAGGTTTAGTCGGTTCTC-GAACTAATG
66 TCTCGGGTACAAGGCATTACATTTGGTGATATCAGAGCAGGTTTAGTCGCTTCTCAG-ACTAATG
* *
42775450 TGTTTTATGTACGAGTTTTGCTATACATGCCATATATAT
130 CGTTGTATGTACGAGTTTTGCTATACATGCCATATATAT
42775489 ATTGTTTGAGCTGTTTAAGTAATGAATTAAGGCCGTTAACACCTCGTGTTCGACTTCGGTGATGG
1 ATTGTTTGAGCTGTTTAAGTAATGAATTAAGGCCGTTAACACCTCGTGTTCGACTTCGGTGATGG
* * *
42775554 TCTCGGGTACAAGGCTTTACATTTGGTGATATCAGAGTAGGTTTAGTTGCTTCTCAGACTAATGC
66 TCTCGGGTACAAGGCATTACATTTGGTGATATCAGAGCAGGTTTAGTCGCTTCTCAGACTAATGC
42775619 GTTGTATGTACGAGTTTTGCTATACATGCCATATATAT
131 GTTGTATGTACGAGTTTTGCTATACATGCCATATATAT
42775657 ATTGT
1 ATTGT
42775662 GATAGTGTCA
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
168 164 0.99
169 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (168 bp):
ATTGTTTGAGCTGTTTAAGTAATGAATTAAGGCCGTTAACACCTCGTGTTCGACTTCGGTGATGG
TCTCGGGTACAAGGCATTACATTTGGTGATATCAGAGCAGGTTTAGTCGCTTCTCAGACTAATGC
GTTGTATGTACGAGTTTTGCTATACATGCCATATATAT
Found at i:42777625 original size:21 final size:21
Alignment explanation
Indices: 42777595--42777646 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
42777585 GCACCAGCAG
*
42777595 AGTTGAAAGAATTAAAGTCGC
1 AGTTGCAAGAATTAAAGTCGC
42777616 AGTTGCAAGAATTAAAGTCGC
1 AGTTGCAAGAATTAAAGTCGC
42777637 AGTTGCAAGA
1 AGTTGCAAGA
42777647 GTTGACTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (21 bp):
AGTTGCAAGAATTAAAGTCGC
Found at i:42781203 original size:29 final size:30
Alignment explanation
Indices: 42781157--42781215 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
42781147 TTCCTGAGCC
*
42781157 TAGGGGTAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGGAAAAGTGTAATTATGCAAAAGTT
* *
42781187 TAGGGGGAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGGGAAAAGTGTAATTATGCAAAAGTT
42781216 CATATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (30 bp):
TAGGGGGAAAAGTGTAATTATGCAAAAGTT
Found at i:42792010 original size:20 final size:20
Alignment explanation
Indices: 42791987--42792024 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42791977 CCAAAAGTTT
42791987 AAATATTAATTTTAATTTAA
1 AAATATTAATTTTAATTTAA
*
42792007 AAATTTTAATTTTAATTT
1 AAATATTAATTTTAATTT
42792025 GTTTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATTAATTTTAATTTAA
Found at i:42795119 original size:20 final size:21
Alignment explanation
Indices: 42795091--42795132 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
42795081 AAGACTATGA
42795091 ACCACTCCATTTACTTA-CAT
1 ACCACTCCATTTACTTAGCAT
*
42795111 ACCATTCCATTTACTTAGCAT
1 ACCACTCCATTTACTTAGCAT
42795132 A
1 A
42795133 AGCTTGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.36
Consensus pattern (21 bp):
ACCACTCCATTTACTTAGCAT
Found at i:42800814 original size:255 final size:255
Alignment explanation
Indices: 42800363--42800878 Score: 1023
Period size: 255 Copynumber: 2.0 Consensus size: 255
42800353 TAATTACCCA
42800363 TGAATTCATAAAATTTATTCCCGAATCTAGAGATGAACTTGACTATATACAACTCATCAAACTTT
1 TGAATTCATAAAATTTATTCCCGAATCTAGAGATGAACTTGACTATATACAACTCATCAAACTTT
*
42800428 TAAAGTCAATAATTCGTTCTGGCTAAAACAATTGAGTTGATCTCATCAATCGGATAATAACATTT
66 TAAAGTCAATAATCCGTTCTGGCTAAAACAATTGAGTTGATCTCATCAATCGGATAATAACATTT
42800493 TAGAATAATTCTTTCTTCTTGTTGTCAAGAGAATCCAAATACTTAGTCTATCGTAATTCCTTCAA
131 TAGAATAATTCTTTCTTCTTGTTGTCAAGAGAATCCAAATACTTAGTCTATCGTAATTCCTTCAA
42800558 AATACCAACCAAAGATCACCACAAACCACATTAACTCAAACTAAATATGACATCCCGTTT
196 AATACCAACCAAAGATCACCACAAACCACATTAACTCAAACTAAATATGACATCCCGTTT
42800618 TGAATTCATAAAATTTATTCCCGAATCTAGAGATGAACTTGACTATATACAACTCATCAAACTTT
1 TGAATTCATAAAATTTATTCCCGAATCTAGAGATGAACTTGACTATATACAACTCATCAAACTTT
42800683 TAAAGTCAATAATCCGTTCTGGCTAAAACAATTGAGTTGATCTCATCAATCGGATAATAACATTT
66 TAAAGTCAATAATCCGTTCTGGCTAAAACAATTGAGTTGATCTCATCAATCGGATAATAACATTT
42800748 TAGAATAATTCTTTCTTCTTGTTGTCAAGAGAATCCAAATACTTAGTCTATCGTAATTCCTTCAA
131 TAGAATAATTCTTTCTTCTTGTTGTCAAGAGAATCCAAATACTTAGTCTATCGTAATTCCTTCAA
42800813 AATACCAACCAAAGATCACCACAAACCACATTAACTCAAACTAAATATGACATCCCGTTT
196 AATACCAACCAAAGATCACCACAAACCACATTAACTCAAACTAAATATGACATCCCGTTT
42800873 TGAATT
1 TGAATT
42800879 TTTGACATAA
Statistics
Matches: 260, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 260 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (255 bp):
TGAATTCATAAAATTTATTCCCGAATCTAGAGATGAACTTGACTATATACAACTCATCAAACTTT
TAAAGTCAATAATCCGTTCTGGCTAAAACAATTGAGTTGATCTCATCAATCGGATAATAACATTT
TAGAATAATTCTTTCTTCTTGTTGTCAAGAGAATCCAAATACTTAGTCTATCGTAATTCCTTCAA
AATACCAACCAAAGATCACCACAAACCACATTAACTCAAACTAAATATGACATCCCGTTT
Found at i:42803639 original size:57 final size:59
Alignment explanation
Indices: 42803548--42803689 Score: 175
Period size: 57 Copynumber: 2.5 Consensus size: 59
42803538 TATCGTATTA
* * *
42803548 TAGGATTACCAGTCCAGGCTAAATCC-ATTATGTAACGTATGCTC-AGAAGAGCTCA-AT
1 TAGGATTACCAGTCCAGGCTAAATCCTAATATGTAACATATGCTCGAG-AGAGATCATAT
* *
42803605 TAGGATTACCAGTCCAGGCTAAATCCTAAT-TGTAACATATGCTCGAGAGGGATTATAT
1 TAGGATTACCAGTCCAGGCTAAATCCTAATATGTAACATATGCTCGAGAGAGATCATAT
* * *
42803663 CAGGATTACCCGTCTAGGCTAAATCCT
1 TAGGATTACCAGTCCAGGCTAAATCCT
42803690 TTCTATAATG
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 44 0.59
58 30 0.41
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (59 bp):
TAGGATTACCAGTCCAGGCTAAATCCTAATATGTAACATATGCTCGAGAGAGATCATAT
Found at i:42810270 original size:25 final size:25
Alignment explanation
Indices: 42810242--42810295 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
42810232 GTTGAAGATT
42810242 GGTACACTCTCAGGAGCTATAAATC
1 GGTACACTCTCAGGAGCTATAAATC
** *
42810267 GGTATGCTCTCATGAGCTATAAATC
1 GGTACACTCTCAGGAGCTATAAATC
42810292 GGTA
1 GGTA
42810296 TGCTTTCACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
GGTACACTCTCAGGAGCTATAAATC
Found at i:42810296 original size:25 final size:25
Alignment explanation
Indices: 42810248--42810308 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
42810238 GATTGGTACA
*
42810248 CTCTCAGGAGCTATAAATCGGTATG
1 CTCTCACGAGCTATAAATCGGTATG
*
42810273 CTCTCATGAGCTATAAATCGGTATG
1 CTCTCACGAGCTATAAATCGGTATG
*
42810298 CTTTCACGAGC
1 CTCTCACGAGC
42810309 CAGAAATTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
CTCTCACGAGCTATAAATCGGTATG
Found at i:42810315 original size:25 final size:25
Alignment explanation
Indices: 42810248--42810320 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
42810238 GATTGGTACA
* * *
42810248 CTCTCAGGAGCTATAAATCGGTATG
1 CTCTCACGAGCCAGAAATCGGTATG
* * *
42810273 CTCTCATGAGCTATAAATCGGTATG
1 CTCTCACGAGCCAGAAATCGGTATG
* *
42810298 CTTTCACGAGCCAGAAATTGGTA
1 CTCTCACGAGCCAGAAATCGGTA
42810321 ACCCTAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
CTCTCACGAGCCAGAAATCGGTATG
Found at i:42812501 original size:48 final size:48
Alignment explanation
Indices: 42812447--42812541 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
42812437 CTAAATGCTA
*
42812447 ATATCATGGCCCAAAGCCAAATCAATGA-AGCTCT-CACCCGAAGTGCCG
1 ATATCATGGCCCAAAGCCAAATCAAT-ATAACT-TGCACCCGAAGTGCCG
*
42812495 ATATCATGGCCCGAAGCCAAATCAATATAACTTGCACCCGAAGTGCC
1 ATATCATGGCCCAAAGCCAAATCAATATAACTTGCACCCGAAGTGCC
42812542 CCGAAGCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 41 0.95
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.18
Consensus pattern (48 bp):
ATATCATGGCCCAAAGCCAAATCAATATAACTTGCACCCGAAGTGCCG
Found at i:42813815 original size:40 final size:40
Alignment explanation
Indices: 42813755--42813898 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
42813745 TATTCGAATG
* *
42813755 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
42813795 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
*
42813835 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
42813875 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
42813899 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 87 0.96
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:42813888 original size:80 final size:79
Alignment explanation
Indices: 42813755--42813934 Score: 256
Period size: 80 Copynumber: 2.3 Consensus size: 79
42813745 TATTCGAATG
* * * *
42813755 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGC-
* *
42813820 TTTGTGCGAGTTGCT
65 CTTGTGCGAGTGGCT
*
42813835 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGCC
*
42813900 TTGTGCGAGTGGTT
66 TTGTGCGAGTGGCT
42813914 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
42813935 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
77 1 0.01
78 13 0.14
79 18 0.20
80 59 0.65
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGCC
TTGTGCGAGTGGCT
Found at i:42816222 original size:22 final size:22
Alignment explanation
Indices: 42816197--42816239 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
42816187 AAAGCCGAGG
42816197 AGCTCAGTA-AGGAGAAAAGGAA
1 AGCTCA-TATAGGAGAAAAGGAA
* *
42816219 AGCTGATATGGGAGAAAAGGA
1 AGCTCATATAGGAGAAAAGGA
42816240 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.47, C:0.07, G:0.35, T:0.12
Consensus pattern (22 bp):
AGCTCATATAGGAGAAAAGGAA
Found at i:42821049 original size:40 final size:40
Alignment explanation
Indices: 42820989--42821132 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
42820979 TATTCGAATG
* * *
42820989 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGTTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
42821029 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
42821069 ATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
42821109 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
42821133 CTTGTACGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 84 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:42821122 original size:80 final size:78
Alignment explanation
Indices: 42820989--42821168 Score: 227
Period size: 80 Copynumber: 2.3 Consensus size: 78
42820979 TATTCGAATG
* * * * *
42820989 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGTTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGC-
* * *
42821054 TTTGTGCGAGTTGCT
64 CTTGTACGAGTGGCT
*
42821069 ATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCC-GGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGCC
*
42821134 TTGTACGAGTGGTT
65 TTGTACGAGTGGCT
42821148 ATATCCGGCTAA-ATCCCGAAG
1 ATATCCGGCTAAGA-CCCGAAG
42821169 ATACTTGGGT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
77 1 0.01
78 13 0.15
79 17 0.19
80 57 0.65
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (78 bp):
ATATCCGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGCCT
TGTACGAGTGGCT
Found at i:42828634 original size:68 final size:68
Alignment explanation
Indices: 42828525--42828660 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
42828515 TCACAAACAA
42828525 GTCTCACCTTATCATCAACCTCTCGAACCAACTCTGGACTCAAGTTCCTCTTCTCCTCCATATCA
1 GTCTCACCTTATCATCAACCTCTCGAACCAACTCTGGACTCAAGTTCCTCTTCTCCTCCATATCA
42828590 GAC
66 GAC
42828593 GTCTCACCTTATCATCAACCTCTCGAACCAACTCTGGACTCAAGTTCCTCTTCTCCTCCATATCA
1 GTCTCACCTTATCATCAACCTCTCGAACCAACTCTGGACTCAAGTTCCTCTTCTCCTCCATATCA
42828658 GAC
66 GAC
42828661 CAATACAGAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.24, C:0.38, G:0.09, T:0.29
Consensus pattern (68 bp):
GTCTCACCTTATCATCAACCTCTCGAACCAACTCTGGACTCAAGTTCCTCTTCTCCTCCATATCA
GAC
Found at i:42831804 original size:122 final size:122
Alignment explanation
Indices: 42831587--42831830 Score: 479
Period size: 122 Copynumber: 2.0 Consensus size: 122
42831577 CTAATCGCAA
42831587 ACAACAAGCTATCACCTCGAGCAGTCGCTAACTCGATGCTCCATCGAACCACAAGCCAGACAAGC
1 ACAACAAGCTATCACCTCGAGCAGTCGCTAACTCGATGCTCCATCGAACCACAAGCCAGACAAGC
*
42831652 ACCCTTCAACTTCCAACCCTCCCCTAGATGTCGATGATTACAATGTTCACACAAATT
66 ACCCTTCAACCTCCAACCCTCCCCTAGATGTCGATGATTACAATGTTCACACAAATT
42831709 ACAACAAGCTATCACCTCGAGCAGTCGCTAACTCGATGCTCCATCGAACCACAAGCCAGACAAGC
1 ACAACAAGCTATCACCTCGAGCAGTCGCTAACTCGATGCTCCATCGAACCACAAGCCAGACAAGC
42831774 ACCCTTCAACCTCCAACCCTCCCCTAGATGTCGATGATTACAATGTTCACACAAATT
66 ACCCTTCAACCTCCAACCCTCCCCTAGATGTCGATGATTACAATGTTCACACAAATT
42831831 CCACACAGCA
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 121 1.00
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.20
Consensus pattern (122 bp):
ACAACAAGCTATCACCTCGAGCAGTCGCTAACTCGATGCTCCATCGAACCACAAGCCAGACAAGC
ACCCTTCAACCTCCAACCCTCCCCTAGATGTCGATGATTACAATGTTCACACAAATT
Found at i:42843726 original size:27 final size:26
Alignment explanation
Indices: 42843693--42843870 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
42843683 TAAATTGTAC
42843693 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
42843720 TGTACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
42843746 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
42843774 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
*
42843802 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
42843829 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
42843856 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42843871 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:42843811 original size:82 final size:81
Alignment explanation
Indices: 42843694--42843849 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42843684 AAATTGTACA
* * *
42843694 GCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
42843758 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42843775 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
42843840 TGCGAGTTGA
65 TGCGAATTGA
42843850 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42843861 original size:82 final size:81
Alignment explanation
Indices: 42843690--42843870 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
42843680 GATTAAATTG
* * *
42843690 TACAGCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
42843755 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
42843771 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
42843835 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42843853 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42843871 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42843881 original size:27 final size:27
Alignment explanation
Indices: 42843775--42843881 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 27
42843765 TGACCATGCG
* * *
42843775 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * *
42843803 GCACTAAGTGTGCGATTTGATTATGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
42843830 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
42843857 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
42843882 CATTCGTGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
27 54 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:42849778 original size:88 final size:88
Alignment explanation
Indices: 42849629--42849830 Score: 332
Period size: 88 Copynumber: 2.3 Consensus size: 88
42849619 AGCTGAAGAT
* * * *
42849629 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCTAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGAACGAAGACATAGCTAATTTGGCT
*
42849694 TTCACGTGTTTACGTTAAAGCAG
66 TTCACGTGTTTACGTTAAAGCAA
*
42849717 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGAACGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGAACGAAGACATAGCTAATTTGGCT
* *
42849782 TTCACGTGTTTATGTTGAAGCAA
66 TTCACGTGTTTACGTTAAAGCAA
42849805 ATCCAAGATGATTTGGCATCTCTGTA
1 ATCCAAGATGATTTGGCATCTCTGTA
42849831 GCGGTGGAGA
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 106 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGAACGAAGACATAGCTAATTTGGCT
TTCACGTGTTTACGTTAAAGCAA
Found at i:42849871 original size:44 final size:44
Alignment explanation
Indices: 42849814--42850691 Score: 1103
Period size: 44 Copynumber: 20.4 Consensus size: 44
42849804 AATCCAAGAT
* * * *
42849814 GATTTGGCATCTCTGTAGCGGTGGAGAGTAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
42849858 GATTTGGCGTCTCTGTAGCGGCGGGGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
42849902 GATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * *
42849946 AATTTGGCGTCTCTGTAGTGACAGAGAACAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
42849990 GATTTGGCATCTCTATAGCGGCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
42850034 GATTTGACGTCTCTGTAGCGGCAGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
42850078 GATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
42850122 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
42850165 -A--------CTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
42850200 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * *
42850240 GATTTGGCATCTTTGTAGCGACAGAGAGTAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
42850284 GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
42850328 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
42850372 GATTTGGCTTCTCTGTAGTGGCGAAAAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** **
42850412 GATTTGGCATCTCTGTAATGGCGGAGAGCAGATTAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
42850456 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
42850500 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAAATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
42850544 TATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** *
42850588 GATTTGGCGTCTCTGTAACGATGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
42850632 GATTTGGCATCTCTGTAG-GGCTGAGAGCAGATCGAAAATAAC-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
42850674 GAATTTGGCGTCTCTGTA
1 G-ATTTGGCGTCTCTGTA
42850692 TTAGATGGGG
Statistics
Matches: 726, Mismatches: 89, Indels: 39
0.85 0.10 0.05
Matches are distributed among these distances:
34 31 0.04
36 1 0.00
40 69 0.10
42 2 0.00
43 34 0.05
44 589 0.81
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:42850177 original size:34 final size:34
Alignment explanation
Indices: 42850132--42850199 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
42850122 GATTTGGCGT
* *
42850132 CTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 CTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
42850166 CTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
1 CTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
42850200 GATTTGGCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.21, G:0.29, T:0.15
Consensus pattern (34 bp):
CTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
Found at i:42850376 original size:172 final size:172
Alignment explanation
Indices: 42849814--42850691 Score: 1033
Period size: 172 Copynumber: 5.1 Consensus size: 172
42849804 AATCCAAGAT
* ** * * *
42849814 GATTTGGCATCTCTGTAGCGGTGGAGAGTAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
* * ** * *
42849879 CGGGGAGCAAATCGAAGATAACAGATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAACGACGGAGAGCAGATCGAAGATAA
* * * * * *
42849944 CAAATTTGGCGTCTCTGTAGTGACAGAGAACAGATCGAAGATAGCA
127 CAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * *
42849990 GATTTGGCATCTCTATAGCGGCAGAGAGTAGATCGAAGATAGCAGATTTGACGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
* * * * * * *
42850055 CAGAAAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAG
66 CGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAACGACGGAGAGCAGATCGAAGATAA
* *
42850120 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-
127 CAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
42850165 -A--------CTCTATAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
* * * * *
42850221 CGGAGAGCAGATCGAAGATGATTTGGCATCTTTGTAGCGACAGAGAGTAGATCGAAGATAACGGA
66 CGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAACGACGGAGAGCAGATCGAAGATAACAGA
* *
42850286 TTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
131 TTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
42850328 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCTTCTCTGTAGTGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
* * * * **
42850393 CGAAAAGCAGATCGAAGATGATTTGGCATCTCTGTAATGGCGGAGAGCAGATTAAAGATAACAGA
66 CGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAACGACGGAGAGCAGATCGAAGATAACAGA
*
42850458 TTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
131 TTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
42850500 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAAATCGAAGATAGCATATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
* * *
42850565 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGATGGAGAGCAAATCGAAGATAA
66 CGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAACGACGGAGAGCAGATCGAAGATAA
* *
42850630 CAGATTTGGCATCTCTGTAG-GGCTGAGAGCAGATCGAAAATAAC-
127 CAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
42850674 GAATTTGGCGTCTCTGTA
1 G-ATTTGGCGTCTCTGTA
42850692 TTAGATGGGG
Statistics
Matches: 615, Mismatches: 72, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
162 77 0.13
164 1 0.00
166 69 0.11
172 219 0.36
174 2 0.00
175 37 0.06
176 210 0.34
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (172 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAACGACGGAGAGCAGATCGAAGATAACAGA
TTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
Found at i:42850999 original size:8 final size:8
Alignment explanation
Indices: 42850986--42851025 Score: 62
Period size: 8 Copynumber: 4.8 Consensus size: 8
42850976 AACCCAAAAT
42850986 AAAAAAGA
1 AAAAAAGA
42850994 AAAAAAGA
1 AAAAAAGA
42851002 AAAAAATGA
1 AAAAAA-GA
42851011 AGAAAAAGA
1 A-AAAAAGA
42851020 AAAAAA
1 AAAAAA
42851026 CCTAACCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 19 0.63
9 6 0.20
10 5 0.17
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (8 bp):
AAAAAAGA
Found at i:42851005 original size:9 final size:9
Alignment explanation
Indices: 42850986--42851025 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
42850976 AACCCAAAAT
42850986 AAAAAAG-A
1 AAAAAAGAA
42850994 AAAAAAGAA
1 AAAAAAGAA
*
42851003 AAAAATGAA
1 AAAAAAGAA
*
42851012 GAAAAAGAA
1 AAAAAAGAA
42851021 AAAAA
1 AAAAA
42851026 CCTAACCTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:42851013 original size:20 final size:18
Alignment explanation
Indices: 42850986--42851025 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
42850976 AACCCAAAAT
42850986 AAAAAA-GAA-AAAAAGA
1 AAAAAATGAAGAAAAAGA
42851002 AAAAAATGAAGAAAAAGA
1 AAAAAATGAAGAAAAAGA
42851020 AAAAAA
1 AAAAAA
42851026 CCTAACCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 13 0.59
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (18 bp):
AAAAAATGAAGAAAAAGA
Found at i:42851230 original size:19 final size:19
Alignment explanation
Indices: 42851206--42851243 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42851196 TTGAGATTGC
*
42851206 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
42851225 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
42851244 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:42851350 original size:19 final size:19
Alignment explanation
Indices: 42851326--42851363 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42851316 GAAATGAATA
*
42851326 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
42851345 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
42851364 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:42851710 original size:11 final size:11
Alignment explanation
Indices: 42851696--42851720 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42851686 AATAAATAAA
42851696 AAATAATACAT
1 AAATAATACAT
42851707 AAATAATACAT
1 AAATAATACAT
42851718 AAA
1 AAA
42851721 GTATATAAAG
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAATACAT
Found at i:42852279 original size:19 final size:20
Alignment explanation
Indices: 42852246--42852285 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
42852236 GTATATATAT
42852246 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
42852265 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
42852285 A
1 A
42852286 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:42852557 original size:9 final size:8
Alignment explanation
Indices: 42852529--42852571 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
42852519 AGGTTAGGTG
*
42852529 TTTTTCTT
1 TTTTTATT
42852537 TTTCTTCATT
1 TTT-TT-ATT
42852547 TTTTTATT
1 TTTTTATT
42852555 TTTTTA-T
1 TTTTTATT
42852562 TTTTTATT
1 TTTTTATT
42852570 TT
1 TT
42852572 GGGTTGTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 7 0.23
8 15 0.48
9 4 0.13
10 5 0.16
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:42853076 original size:20 final size:20
Alignment explanation
Indices: 42853051--42853090 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
42853041 CATTGCTAAA
42853051 CTTAGTCTTCCACTTTCTAC
1 CTTAGTCTTCCACTTTCTAC
42853071 CTTAGTCTTCCACTTTCTAC
1 CTTAGTCTTCCACTTTCTAC
42853091 ACTCTTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.05, T:0.45
Consensus pattern (20 bp):
CTTAGTCTTCCACTTTCTAC
Found at i:42854392 original size:28 final size:28
Alignment explanation
Indices: 42854359--42854412 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
42854349 TCATATTCCA
42854359 TTTCTCATCCCATAATCATTTCTCATAT
1 TTTCTCATCCCATAATCATTTCTCATAT
* *
42854387 TTTCTCATCTCATATTCATTTCTCAT
1 TTTCTCATCCCATAATCATTTCTCAT
42854413 CTTTGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (28 bp):
TTTCTCATCCCATAATCATTTCTCATAT
Found at i:42854849 original size:16 final size:16
Alignment explanation
Indices: 42854799--42854851 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
42854789 CAATTTGATA
*
42854799 ATAATC-ACATTTTTC
1 ATAATCAACATATTTC
*
42854814 TTAATACAA-ATATATTC
1 ATAAT-CAACATAT-TTC
42854831 ATAATCAACATATTTC
1 ATAATCAACATATTTC
42854847 ATAAT
1 ATAAT
42854852 ATACAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 4 0.13
16 15 0.48
17 12 0.39
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATCAACATATTTC
Found at i:42855309 original size:86 final size:86
Alignment explanation
Indices: 42855164--42855336 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
42855154 TTTAATTTAG
42855164 TCCCTAAACCGAGACTAATTTTAAGCTTCACAATTAGCTTCATATTTTTATACTAATTTCACTCT
1 TCCCTAAACCGAGACTAATTTTAAGCTTCACAATTAGCTTCATATTTTTATACTAATTTCACTCT
42855229 AGACCACATTTAGCTTTCTCT
66 AGACCACATTTAGCTTTCTCT
42855250 TCCCTAAACCGAGACTAATTTTAAGCTTCACAATTAGCTTCATATTTTTATACTAATTTCACTCT
1 TCCCTAAACCGAGACTAATTTTAAGCTTCACAATTAGCTTCATATTTTTATACTAATTTCACTCT
42855315 AGACCACATTTAGCTTTCTCT
66 AGACCACATTTAGCTTTCTCT
42855336 T
1 T
42855337 TTCCAATTCA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (86 bp):
TCCCTAAACCGAGACTAATTTTAAGCTTCACAATTAGCTTCATATTTTTATACTAATTTCACTCT
AGACCACATTTAGCTTTCTCT
Found at i:42858696 original size:27 final size:27
Alignment explanation
Indices: 42858649--42858806 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 27
42858639 CGAGGCTGCA
* *
42858649 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
* *
42858676 AAATATTGTGGCAGAGCCACCAGA-AT
1 AGATATTGTGGCAGAGCCACCAGATAC
* * *
42858702 AGATATATGTGCCAAAGCCACCAGAT-T
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* *
42858729 AGATAATCGTGGCATAGCCACCAGA-AC
1 AGAT-ATTGTGGCAGAGCCACCAGATAC
42858756 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
*
42858783 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
42858807 GACGCTTCCT
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.07
27 96 0.88
28 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:42858741 original size:54 final size:54
Alignment explanation
Indices: 42858649--42858806 Score: 194
Period size: 54 Copynumber: 2.9 Consensus size: 54
42858639 CGAGGCTGCA
* * * * * * *
42858649 AGATAT-TGTGACGAAGTCACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAAT
1 AGATATATGTGCCAAAGCCACCAGAT-CAGATAATCGTGGCATAGCCACCAGAAC
*
42858702 AGATATATGTGCCAAAGCCACCAGATTAGATAATCGTGGCATAGCCACCAGAAC
1 AGATATATGTGCCAAAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAAC
* * *
42858756 AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 AGATATATGTGCCAAAGCCACCAGATCAGATAATCGTGGCATAGCCACCAG
42858807 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 9 0.10
54 82 0.90
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (54 bp):
AGATATATGTGCCAAAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAAC
Found at i:42880365 original size:40 final size:40
Alignment explanation
Indices: 42880306--42880653 Score: 633
Period size: 40 Copynumber: 8.7 Consensus size: 40
42880296 GAGCATTGGA
42880306 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42880346 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42880386 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42880426 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42880466 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42880506 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42880546 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42880586 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
42880626 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
42880654 ATGTGTTTGC
Statistics
Matches: 301, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 301 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:42889031 original size:40 final size:40
Alignment explanation
Indices: 42888972--42889319 Score: 633
Period size: 40 Copynumber: 8.7 Consensus size: 40
42888962 GAGCATTGGA
42888972 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42889012 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42889052 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42889092 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42889132 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42889172 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42889212 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42889252 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
42889292 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
42889320 ATGTGTTTGC
Statistics
Matches: 301, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 301 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:42901191 original size:27 final size:28
Alignment explanation
Indices: 42901107--42901204 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
42901097 CATGAGATTG
* * * *
42901107 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
42901136 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
42901164 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42901191 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
42901205 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:42901215 original size:27 final size:27
Alignment explanation
Indices: 42901135--42901217 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
42901125 TAAATTGTAC
* *
42901135 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
42901163 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
42901190 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
42901217 A
1 A
42901218 TTTTTGAATC
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:42901218 original size:29 final size:27
Alignment explanation
Indices: 42901107--42901218 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
42901097 CATGAGATTG
** * *
42901107 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
42901136 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
42901164 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
42901191 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
42901219 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:42909505 original size:27 final size:28
Alignment explanation
Indices: 42909421--42909518 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
42909411 CATGAGATTG
* * * *
42909421 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
42909450 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
42909478 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42909505 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
42909519 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:42909529 original size:27 final size:27
Alignment explanation
Indices: 42909449--42909531 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
42909439 TAAATTGTAC
* *
42909449 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
42909477 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
42909504 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
42909531 A
1 A
42909532 TTTTTGAATC
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:42909532 original size:29 final size:27
Alignment explanation
Indices: 42909421--42909532 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
42909411 CATGAGATTG
** * *
42909421 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
42909450 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
42909478 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
42909505 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
42909533 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:42916816 original size:3 final size:3
Alignment explanation
Indices: 42916808--42916832 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
42916798 TTAACTTTTA
42916808 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
42916833 AATGTGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:42917131 original size:9 final size:9
Alignment explanation
Indices: 42917119--42917159 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
42917109 CATGTGACAA
42917119 AAAAATTAT
1 AAAAATTAT
42917128 AAAAA--AT
1 AAAAATTAT
42917135 AAAAAGTTAT
1 AAAAA-TTAT
*
42917145 AAAAGTTAT
1 AAAAATTAT
42917154 AAAAAT
1 AAAAAT
42917160 CATTAAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 7 0.26
9 14 0.52
10 6 0.22
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:42917550 original size:20 final size:21
Alignment explanation
Indices: 42917519--42917586 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
42917509 TTTATAAAAT
42917519 TTTAT-ATA-TTTTTTCTATA
1 TTTATAATATTTTTTTCTATA
*** *
42917538 TTTATAAT-TTTTTTAGGATT
1 TTTATAATATTTTTTTCTATA
42917558 TTTATAATATTTTTTTCTA-A
1 TTTATAATATTTTTTTCTATA
*
42917578 TTTTTAATA
1 TTTATAATA
42917587 AAAATTAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
19 5 0.14
20 25 0.68
21 7 0.19
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (21 bp):
TTTATAATATTTTTTTCTATA
Found at i:42917616 original size:28 final size:28
Alignment explanation
Indices: 42917571--42917638 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
42917561 ATAATATTTT
*
42917571 TTTCTAAT-TTTTAATAAAAATTAAAT-A
1 TTTCTTATATTTTAAT-AAAATTAAATAA
* *
42917598 TTTCTTATATTTTATTAAAATTTAATAA
1 TTTCTTATATTTTAATAAAATTAAATAA
42917626 TTT-TTATAATTTT
1 TTTCTTAT-ATTTT
42917639 TATTGGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTCTTATATTTTAATAAAATTAAATAA
Found at i:42924331 original size:29 final size:31
Alignment explanation
Indices: 42924299--42924359 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
42924289 TATTTTTTTG
*
42924299 TTTTT-AATAAATGGCTCAATAT-TTT-TAC
1 TTTTTGAATAAATGGCCCAATATGTTTGTAC
**
42924327 TTTTTGCGTAAATGGCCCAATATGTTTGTAC
1 TTTTTGAATAAATGGCCCAATATGTTTGTAC
42924358 TT
1 TT
42924360 CTTCTTCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 14 0.52
30 3 0.11
31 5 0.19
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
TTTTTGAATAAATGGCCCAATATGTTTGTAC
Found at i:42924987 original size:9 final size:9
Alignment explanation
Indices: 42924975--42925000 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
42924965 TCTTCTTTTC
42924975 TTTTTCTTA
1 TTTTTCTTA
42924984 TTTTTCTTA
1 TTTTTCTTA
42924993 TTTTTCTT
1 TTTTTCTT
42925001 TTATTGCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTTA
Found at i:42940397 original size:79 final size:81
Alignment explanation
Indices: 42940286--42940466 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
42940276 GCTACTCGTT
* * *
42940286 CAAATGCCTTCGGGTCATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
42940350 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
42940366 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
42940429 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
42940446 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
42940467 TGGACATCAT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 55 0.62
80 29 0.33
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:42940403 original size:39 final size:40
Alignment explanation
Indices: 42940286--42940466 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
42940276 GCTACTCGTT
* *
42940286 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
42940326 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
42940366 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
42940405 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
42940446 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
42940467 TGGACATCAT
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 74 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:42948540 original size:40 final size:40
Alignment explanation
Indices: 42948503--42948726 Score: 258
Period size: 40 Copynumber: 5.7 Consensus size: 40
42948493 GCTACTCGTT
* *
42948503 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42948543 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42948582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42948622 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*** ** * * * *
42948661 CAAATGCCTTCGACTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
42948702 CAAAT-CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42948727 CATCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 67 0.42
40 84 0.52
41 9 0.06
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42948577 original size:39 final size:39
Alignment explanation
Indices: 42948503--42948672 Score: 243
Period size: 39 Copynumber: 4.3 Consensus size: 39
42948493 GCTACTCGTT
* *
42948503 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATT-TAGTAACTCGCA
42948543 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
42948582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
42948622 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
42948661 CAAATGCCTTCG
1 CAAATGCCTTCG
42948673 ACTCTTAGTC
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 69 0.57
40 51 0.43
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42948606 original size:79 final size:79
Alignment explanation
Indices: 42948503--42948672 Score: 261
Period size: 79 Copynumber: 2.2 Consensus size: 79
42948493 GCTACTCGTT
*
42948503 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGG
*
42948567 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * *
42948582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
*
42948647 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
42948661 CAAATGCCTTCG
1 CAAATGCCTTCG
42948673 ACTCTTAGTC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 81 0.98
80 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:42948686 original size:79 final size:79
Alignment explanation
Indices: 42948503--42948726 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 79
42948493 GCTACTCGTT
** * * * * *
42948503 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
1 CAAATGCCTTCGACACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
*
42948568 TTTAGTAACTCGCA
66 ATTAGTAACTCGCA
** * *
42948582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGACACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
*
42948647 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* ** * * *
42948661 CAAATGCCTTCGACTCTTAGTCCGGATATGGTCACTTAGCACAAAT-CCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGACACTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCG
42948725 GA
64 GA
42948727 CATCATTCAA
Statistics
Matches: 124, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 105 0.85
80 19 0.15
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGACACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:42951710 original size:26 final size:26
Alignment explanation
Indices: 42951667--42951741 Score: 132
Period size: 26 Copynumber: 2.9 Consensus size: 26
42951657 AAGCAACTCA
42951667 AACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGG
* *
42951693 AATATTTACCTAATCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGG
42951719 AACATTTACCTAACCCATTATCA
1 AACATTTACCTAACCCATTATCA
42951742 ATTTGTATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
AACATTTACCTAACCCATTATCATGG
Found at i:42955590 original size:27 final size:27
Alignment explanation
Indices: 42955560--42955737 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
42955550 ATATTGAGCC
* *
42955560 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
42955587 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
42955614 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
42955642 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
42955669 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
42955696 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
42955723 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42955738 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42955672 original size:55 final size:54
Alignment explanation
Indices: 42955560--42955737 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
42955550 ATATTGAGCC
* * * * *
42955560 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
42955614 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
42955669 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
42955723 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42955738 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:42972781 original size:245 final size:245
Alignment explanation
Indices: 42972345--42972836 Score: 930
Period size: 245 Copynumber: 2.0 Consensus size: 245
42972335 TTGCTCTGAA
* *
42972345 GTACAGTCAAGGTCATCCATTACTTGCTCAGTAGCCTCTAACCAATATTCTTCCATATTCAGGGC
1 GTACAATCAAGGTCATCCATTACTCGCTCAGTAGCCTCTAACCAATATTCTTCCATATTCAGGGC
42972410 TACACCCGAAACACCCTTGAAGATTTCCACTCCATTAGATCGGAGTCACTCCGAAATTGACCCCC
66 TACACCCGAAACACCCTTGAAGATTTCCACTCCATTAGATCGGAGTCACTCCGAAATTGACCCCC
42972475 AGCCTACAGATCCAGTACTTCTCCAGCAACCCTTTCAAGAACTCGTAGCATTGCTTGAGATAAAG
131 AGCCTACAGATCCAGTACTTCTCCAGCAACCCTTTCAAGAACTCGTAGCATTGCTTGAGATAAAG
* * *
42972540 CATCATCCCCAGCTGCTCGATCATGAGACCTTGACTCAGTTACTGGTGAG
196 CATCATCCCCAGCTGCTCGATCACGAGACCCTGACTCAGTTACTGGCGAG
42972590 GTACAATCAAGGTCATCCATTACTCGCTCAGTAGCCTCTAACCAATATTCTTCCATATTCAGGGC
1 GTACAATCAAGGTCATCCATTACTCGCTCAGTAGCCTCTAACCAATATTCTTCCATATTCAGGGC
*
42972655 TACACCCGAAACACCCTTGAATATTTCCACTCCATTAGATCGGAGTCACTCCGAAATTGACCCCC
66 TACACCCGAAACACCCTTGAAGATTTCCACTCCATTAGATCGGAGTCACTCCGAAATTGACCCCC
42972720 AGCCTACAGATCCAGTACTTCTCCAGCAACCCTTTCAAGAACTCGTAGCATTGCTTGAGATAAAG
131 AGCCTACAGATCCAGTACTTCTCCAGCAACCCTTTCAAGAACTCGTAGCATTGCTTGAGATAAAG
42972785 CATCATCCCCAGCTGCTCGATCACGAGACCCTGACTCAGTTACTGGCGAG
196 CATCATCCCCAGCTGCTCGATCACGAGACCCTGACTCAGTTACTGGCGAG
42972835 GT
1 GT
42972837 TGGTGCCTCC
Statistics
Matches: 241, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
245 241 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (245 bp):
GTACAATCAAGGTCATCCATTACTCGCTCAGTAGCCTCTAACCAATATTCTTCCATATTCAGGGC
TACACCCGAAACACCCTTGAAGATTTCCACTCCATTAGATCGGAGTCACTCCGAAATTGACCCCC
AGCCTACAGATCCAGTACTTCTCCAGCAACCCTTTCAAGAACTCGTAGCATTGCTTGAGATAAAG
CATCATCCCCAGCTGCTCGATCACGAGACCCTGACTCAGTTACTGGCGAG
Found at i:42983644 original size:40 final size:40
Alignment explanation
Indices: 42983599--42983830 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
42983589 ATAACCACAA
* * * *
42983599 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
42983639 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
42983679 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
42983719 GCACAAATGCCTTCAGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
42983759 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
42983799 GCATAAATGCCTTTGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
42983831 CATTCAAATG
Statistics
Matches: 179, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 174 0.97
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:42986745 original size:40 final size:40
Alignment explanation
Indices: 42986693--42987114 Score: 641
Period size: 40 Copynumber: 10.8 Consensus size: 40
42986683 ACAGCCGCAA
* * * *
42986693 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42986733 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42986773 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42986813 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42986853 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
42986893 CATAATTGCCTTC-GGTCTTAGCCCGGATATATC-ACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42986931 CAT-A-TGCC-TC-GG----A-TCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
42986962 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
42987002 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42987042 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42987082 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
42987115 TCCAATGTTC
Statistics
Matches: 350, Mismatches: 22, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
30 11 0.03
31 9 0.03
32 1 0.00
33 4 0.01
34 2 0.01
35 6 0.02
36 4 0.01
37 1 0.00
38 8 0.02
39 19 0.05
40 285 0.81
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:42987080 original size:189 final size:190
Alignment explanation
Indices: 42986756--42987114 Score: 630
Period size: 189 Copynumber: 1.9 Consensus size: 190
42986746 GGGTCTTAGC
*
42986756 CCGGATATATCATCCCGCATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTG
1 CCGGATATATCAACCCGCATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTG
*
42986821 CCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATAT
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATAT
* *
42986886 CAACTCGCATAATTGCCTTC-GGTCTTAGCCCGGATATATCACTCGCATATGCCTCGGAT
131 CAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATATCACTCGCATATGCCTCGGAT
* *
42986945 CCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
1 CCGGATATATCAACCCGCATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTG
* * *
42987010 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATGT
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATAT
42987075 CAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATAT
131 CAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATAT
42987115 TCCAATGTTC
Statistics
Matches: 160, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
189 143 0.89
190 17 0.11
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (190 bp):
CCGGATATATCAACCCGCATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTG
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATAT
CAACTCGCATAATTGCCTTCGGGTCATAACCCGGATATATCACTCGCATATGCCTCGGAT
Found at i:42995717 original size:40 final size:40
Alignment explanation
Indices: 42995665--42996134 Score: 775
Period size: 40 Copynumber: 11.8 Consensus size: 40
42995655 ACAGCCGCAA
* * * *
42995665 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42995705 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42995745 CATAATTGCCTTC-GGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42995784 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42995824 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42995864 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
42995904 CATAATTGCCTTC-GGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42995943 CATAA-TGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
42995982 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
42996022 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42996062 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42996102 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
42996135 TCCAATGTTC
Statistics
Matches: 403, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
38 7 0.02
39 94 0.23
40 302 0.75
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:42996009 original size:198 final size:199
Alignment explanation
Indices: 42995665--42996134 Score: 800
Period size: 198 Copynumber: 2.4 Consensus size: 199
42995655 ACAGCCGCAA
* * *
42995665 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
* *
42995730 GGATATATCATCCCGCATAATTGCCTTCGGTCATAGCCCGGATATATCAACTCGCATAATTGCCT
66 GGATATATCAACCCGCATAATTGCCTTCGGTCATAACCCGGATATATCAACTCGCATAATTGCCT
*
42995795 TCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAA
131 TCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAA
42995860 CTCG
196 CTCG
*
42995864 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAATTGCCTTC-GGTCTTAGCCC
1 CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
*
42995928 GGATATATCAACTCGCATAA-TGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAATTGCC
66 GGATATATCAACCCGCATAATTGCCTTC-GGTCATAACCCGGATATATCAACTCGCATAATTGCC
*
42995992 TTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCA
130 TTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCA
42996057 ACTCG
195 ACTCG
* * * *
42996062 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAATTGCCTTCGGGTCATAACCC
1 CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
42996127 GGATATAT
66 GGATATAT
42996135 TCCAATGTTC
Statistics
Matches: 255, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
197 7 0.03
198 182 0.71
199 66 0.26
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (199 bp):
CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
GGATATATCAACCCGCATAATTGCCTTCGGTCATAACCCGGATATATCAACTCGCATAATTGCCT
TCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAA
CTCG
Found at i:43002361 original size:7 final size:7
Alignment explanation
Indices: 43002349--43002374 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43002339 CTCTAACTTC
43002349 AGTTTGT
1 AGTTTGT
43002356 AGTTTGT
1 AGTTTGT
43002363 AGTTTGT
1 AGTTTGT
43002370 AGTTT
1 AGTTT
43002375 TTAGGCTTAG
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:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
AGTTTGT
Found at i:43002652 original size:32 final size:32
Alignment explanation
Indices: 43002611--43002673 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
43002601 TGAGTGGAGG
43002611 TGTGATTAATTAATTCTTATATAGGGTTTTCA
1 TGTGATTAATTAATTCTTATATAGGGTTTTCA
43002643 TGTGATTAATTAATTCTTATATAGGGTTTTC
1 TGTGATTAATTAATTCTTATATAGGGTTTTC
43002674 TTAGCGGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.51
Consensus pattern (32 bp):
TGTGATTAATTAATTCTTATATAGGGTTTTCA
Found at i:43009420 original size:25 final size:23
Alignment explanation
Indices: 43009389--43009456 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
43009379 ATACAGTAAA
43009389 AATATATAATAAAATATAAATGGAAT
1 AATATATAATAAAATATAAAT---AT
* * *
43009415 AA-ATATCATATAATAAAAATAT
1 AATATATAATAAAATATAAATAT
*
43009437 AATATATAATAAAATTTAAA
1 AATATATAATAAAATATAAA
43009457 AAATGTATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
22 4 0.12
23 13 0.38
25 15 0.44
26 2 0.06
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (23 bp):
AATATATAATAAAATATAAATAT
Found at i:43009991 original size:13 final size:13
Alignment explanation
Indices: 43009975--43009999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43009965 AAAAAAAAAC
43009975 TTTAAACATTCAT
1 TTTAAACATTCAT
43009988 TTTAAACATTCA
1 TTTAAACATTCA
43010000 ACAGAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAACATTCAT
Found at i:43010831 original size:17 final size:18
Alignment explanation
Indices: 43010809--43010846 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
43010799 TTAAATGGAC
*
43010809 TGTTTAA-TTTTATTTTT
1 TGTTTAATTTTTAATTTT
43010826 TGTTTAATTTTTAATTTT
1 TGTTTAATTTTTAATTTT
43010844 TGT
1 TGT
43010847 AAGCCAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TGTTTAATTTTTAATTTT
Found at i:43012701 original size:27 final size:27
Alignment explanation
Indices: 43012653--43012811 Score: 164
Period size: 27 Copynumber: 5.9 Consensus size: 27
43012643 GCGAGGCTGC
* * *
43012653 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
*
43012680 CAGATATTGTGGCAAAGCCACCA-AAA
1 CAGATATTGTGGCAAAGCCACCAGATA
*
43012706 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
* *
43012733 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAAAGCCACCAGATA
*
43012760 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
* *
43012787 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAAAGCCACCAG
43012812 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.10
27 97 0.86
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:43012811 original size:54 final size:54
Alignment explanation
Indices: 43012671--43012814 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
43012661 GTGACGAAGT
* **
43012671 CACCAGATACAGAT-ATTGTGGCAAAGCCACCAAAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
43012725 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
43012779 CACCAGATTAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
43012815 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:43012979 original size:28 final size:26
Alignment explanation
Indices: 43012917--43012979 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
43012907 AAAGTAACCC
** * *
43012917 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
43012943 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
43012971 TAGGGGTAT
1 TAGGGGTAT
43012980 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:43019719 original size:27 final size:27
Alignment explanation
Indices: 43019671--43019829 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
43019661 GCGAGGCTGC
* * *
43019671 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
43019698 CAGATATTGTGGCAAAGCCACCAGA-A
1 CAGATATTGTGGCAAAGCCACCAGATA
*
43019724 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
* *
43019751 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAAAGCCACCAGATA
*
43019778 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
*
43019805 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAAAGCCACCAG
43019830 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 9, Indels: 14
0.83 0.06 0.10
Matches are distributed among these distances:
26 10 0.09
27 102 0.88
28 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:43019830 original size:54 final size:54
Alignment explanation
Indices: 43019689--43019832 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
43019679 GTGACGAAGT
* *
43019689 CACCAGATACAGAT-ATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
43019743 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
43019797 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
43019833 GCTTCCTCCA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 82 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:43021446 original size:26 final size:26
Alignment explanation
Indices: 43021416--43021521 Score: 194
Period size: 26 Copynumber: 4.1 Consensus size: 26
43021406 TGAAATTCCC
43021416 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
43021442 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
43021468 ATCATGAAACATTTACCTAACCCAAT
1 ATCATGGAACATTTACCTAACCCATT
43021494 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
43021520 AT
1 AT
43021522 TAATTTGTAC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:43022234 original size:13 final size:15
Alignment explanation
Indices: 43022204--43022235 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
43022194 TAAATTTGTG
43022204 AAATGTATGTGCTAT
1 AAATGTATGTGCTAT
43022219 AAATGTA-GTG-TAT
1 AAATGTATGTGCTAT
43022232 AAAT
1 AAAT
43022236 TTCGGCTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (15 bp):
AAATGTATGTGCTAT
Found at i:43023015 original size:10 final size:10
Alignment explanation
Indices: 43023000--43023027 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
43022990 TCATTTCTCA
43023000 TTCATGTCCT
1 TTCATGTCCT
43023010 TTCATGTCCT
1 TTCATGTCCT
43023020 TTCATGTC
1 TTCATGTC
43023028 AAGATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.29, G:0.11, T:0.50
Consensus pattern (10 bp):
TTCATGTCCT
Found at i:43023169 original size:13 final size:13
Alignment explanation
Indices: 43023151--43023181 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43023141 TTTCAGAAAG
*
43023151 CACACTCTCGAGC
1 CACACTCTCAAGC
43023164 CACACTCTCAAGC
1 CACACTCTCAAGC
43023177 CACAC
1 CACAC
43023182 ATGTGTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.48, G:0.10, T:0.13
Consensus pattern (13 bp):
CACACTCTCAAGC
Found at i:43032952 original size:68 final size:67
Alignment explanation
Indices: 43032880--43033029 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
43032870 CATCATGTGT
* * * *
43032880 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
43032942 ATGTAG
62 ATGTAG
** * *
43032948 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
43033013 AG
66 AG
43033015 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
43033030 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:43032985 original size:64 final size:64
Alignment explanation
Indices: 43032904--43033087 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
43032894 AGACATTATG
* *
43032904 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
43032968 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
43033033 AA
63 AA
* * * *
43033035 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
43033088 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:43044510 original size:15 final size:14
Alignment explanation
Indices: 43044486--43044520 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
43044476 TTGGTATGTG
43044486 ATGAATTTATTGAA
1 ATGAATTTATTGAA
43044500 ATGATATTTATTGAA
1 ATGA-ATTTATTGAA
*
43044515 TTGAAT
1 ATGAAT
43044521 ATGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (14 bp):
ATGAATTTATTGAA
Found at i:43051982 original size:29 final size:29
Alignment explanation
Indices: 43051950--43052009 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
43051940 AACAATAAAG
43051950 ATACACAACATTTCAAAAAATTTAATGTA
1 ATACACAACATTTCAAAAAATTTAATGTA
43051979 ATACACAACATTTCAAAAAATTTAATGTA
1 ATACACAACATTTCAAAAAATTTAATGTA
43052008 AT
1 AT
43052010 GATCACAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (29 bp):
ATACACAACATTTCAAAAAATTTAATGTA
Found at i:43053323 original size:42 final size:42
Alignment explanation
Indices: 43053272--43053363 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
43053262 TAAGACTATA
*
43053272 TGTAAGACCATATCTGGGAAATGAAATCTATATGAGACTTCG
1 TGTAAGACCATATCTGGGAAATGAAATCGATATGAGACTTCG
* * *
43053314 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTTG
1 TGTAAGACCATATCTGGGAAATGAAATCGATATGAGACTTCG
43053356 TGTAAGAC
1 TGTAAGAC
43053364 TGTAGCTGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGAAATGAAATCGATATGAGACTTCG
Found at i:43053373 original size:42 final size:42
Alignment explanation
Indices: 43053272--43053393 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
43053262 TAAGACTATA
* * * *
43053272 TGTAAGACCATATCTGGGAAATGAAATCTATATGAGACTTCG
1 TGTAAGACCATAGCTGGGATATGACATCGATATGAGACTTCG
* *
43053314 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTTG
1 TGTAAGACCATAGCTGGGATATGACATCGATATGAGACTTCG
** * * *
43053356 TGTAAGACTGTAGCTGGGCTATTGCCATCGATACGAGA
1 TGTAAGACCATAGCTGGGATA-TGACATCGATATGAGA
43053394 GCCCATGTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 55 0.80
43 14 0.20
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGATATGACATCGATATGAGACTTCG
Found at i:43053621 original size:15 final size:16
Alignment explanation
Indices: 43053595--43053624 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43053585 ATGAACCCTC
43053595 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
43053611 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
43053625 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:43054618 original size:20 final size:19
Alignment explanation
Indices: 43054566--43054619 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
43054556 CATGCCCTGC
*
43054566 CCACACGGGCGCGTCCCAAG
1 CCACAC-GGCGTGTCCCAAG
* *
43054586 CTATACGAGCGTGTCCCAAG
1 CCACACG-GCGTGTCCCAAG
43054606 CCACACGGCCGTGT
1 CCACACGG-CGTGT
43054620 GGCTCTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.20, C:0.39, G:0.28, T:0.13
Consensus pattern (19 bp):
CCACACGGCGTGTCCCAAG
Found at i:43056454 original size:95 final size:96
Alignment explanation
Indices: 43056248--43056568 Score: 297
Period size: 95 Copynumber: 3.4 Consensus size: 96
43056238 GTAGAATGCC
* *
43056248 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTTCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGCCGATGCCATGTCCCAGACA
* *
43056313 TATTCTTACACTGGCTATCATCATCGAGGCT
66 TAGTCTTACACTGACTATCATCATCGAGGCT
* * **
43056344 GACGCCAT-TCCCAGACATGGTCTTACACTAGCTCTCAAATAT-TCGTGCCGATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCTC--ATATCTCAAGCCGATGCCATGTCCCA
* * *
43056407 GACATGGTCTTACACTGAC-A-CATC-TTGTA-GTT
62 GACATAGTCTTACACTGACTATCATCATCG-AGGCT
* ** * *
43056439 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCCAGGCCAATG-CATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCT-CAAGCCGATGCCATGTCCCAGAC
* * * * *
43056501 AT-GTCTTACACT-AGCTCTCGTC-TCAATGCC
65 ATAGTCTTACACTGA-CTATCATCATCGAGGCT
*
43056531 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATA
43056569 ATAACCATTA
Statistics
Matches: 182, Mismatches: 29, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
89 1 0.01
90 13 0.07
91 16 0.09
92 18 0.10
93 14 0.08
94 28 0.15
95 38 0.21
96 13 0.07
97 4 0.02
98 33 0.18
99 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGCCGATGCCATGTCCCAGACA
TAGTCTTACACTGACTATCATCATCGAGGCT
Found at i:43056500 original size:46 final size:46
Alignment explanation
Indices: 43056440--43056565 Score: 173
Period size: 46 Copynumber: 2.7 Consensus size: 46
43056430 CTTGTAGTTG
*
43056440 ATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCCAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAGGCCA
* * *
43056486 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCA
*
43056532 ATGCCATGCCCCAGACATGGTCTTACACTGGCTC
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTC
43056566 ATAATAACCA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 43 0.61
47 14 0.20
48 14 0.20
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.26
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCA
Found at i:43056525 original size:145 final size:138
Alignment explanation
Indices: 43056242--43056561 Score: 339
Period size: 145 Copynumber: 2.3 Consensus size: 138
43056232 CATGGGGTAG
* * *
43056242 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCTCAAGTCGATGCCATGTCC
* * **
43056307 CAGACATATTCTTACACTGGCTATCATCATCGAGGCTGACGCCATTCCCAGACATGGTCTTACAC
66 CAGACATAGTCTTACACTGGCTATCATCATCCAGGCCAACGCCATTCCCAGACATGGTCTTACAC
43056372 TAGCTCTC
131 TAGCTCTC
* ** *
43056380 AAATATTCGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-TGTAGTTGATG-
1 --A-A----TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCTCAAGTCGATGC
* *
43056443 CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTC-TCCAGGCCAATG-CATGTCCCAGACAT-
59 CATGTCCCAGACATAGTCTTACACTGGCTAT-CATCATCCAGGCCAACGCCAT-TCCCAGACATG
43056503 GTCTTACACTAGCTCTCGTCTC
122 GTCTTACACTAG----C-TCTC
*
43056525 AATGCCGATGCCATGCCCCAGACATGGTCTTACACTG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
43056562 GCTCATAATA
Statistics
Matches: 154, Mismatches: 14, Indels: 26
0.79 0.07 0.13
Matches are distributed among these distances:
138 34 0.22
140 16 0.10
141 20 0.13
142 17 0.11
143 14 0.09
144 9 0.06
145 44 0.29
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (138 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCTCAAGTCGATGCCATGTCC
CAGACATAGTCTTACACTGGCTATCATCATCCAGGCCAACGCCATTCCCAGACATGGTCTTACAC
TAGCTCTC
Found at i:43057326 original size:5 final size:5
Alignment explanation
Indices: 43057287--43057319 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
43057277 AAGAAATTGT
43057287 TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
43057320 ATTATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:43059084 original size:12 final size:12
Alignment explanation
Indices: 43059067--43059091 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43059057 GCCGACTACT
43059067 GTTACTGTTACC
1 GTTACTGTTACC
43059079 GTTACTGTTACC
1 GTTACTGTTACC
43059091 G
1 G
43059092 ATTCGGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:43059139 original size:45 final size:45
Alignment explanation
Indices: 43059069--43059171 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
43059059 CGACTACTGT
* * *
43059069 TACTGTTACCGTTACTGTTACCGATTCGGA-ACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGTTACCGATTC-AACACTTTGTGTGTCGAA
* *
43059114 TACTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCGATTCAACACTTTGTGTGTCGAA
43059159 TACTGTTACTGTT
1 TACTGTTACTGTT
43059172 CCGGATTTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 51 0.98
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:43072816 original size:40 final size:40
Alignment explanation
Indices: 43072717--43072854 Score: 156
Period size: 40 Copynumber: 3.4 Consensus size: 40
43072707 AGCGGCGTTT
* * *
43072717 TTTTTGAGAAAGCACCGCTAATGCTCGGAGCTTTAGCAGCG
1 TTTTTGA-AAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
*
43072758 TTTTTGGAAAAGCG-CGCTAATGCTCGGGGC-TTAGCGGCA
1 TTTTT-GAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
**
43072797 TTTTCT-AAGAAGCGCCGCTAATGCTTAGGGCTTTAGCGGCG
1 TTTT-TGAA-AAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
*
43072838 TTTTTGGAAAGCGCCGC
1 TTTTTGAAAAGCGCCGC
43072855 AAAAATATTT
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 16 0.19
40 40 0.48
41 23 0.28
42 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (40 bp):
TTTTTGAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
Found at i:43073575 original size:15 final size:15
Alignment explanation
Indices: 43073557--43073586 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43073547 TTATGATTTA
43073557 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
43073572 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
43073587 TTTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (15 bp):
GGGTTTAGGAGATAG
Found at i:43075751 original size:31 final size:31
Alignment explanation
Indices: 43075716--43075777 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
43075706 TATGTGATAG
*
43075716 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
43075747 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
43075778 GCTTTTATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.47
Consensus pattern (31 bp):
AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
Found at i:43077725 original size:41 final size:41
Alignment explanation
Indices: 43077667--43077777 Score: 109
Period size: 40 Copynumber: 2.7 Consensus size: 41
43077657 AATAATTTTT
* * * *
43077667 TAAAGATTATGTT-TTTAGCGGCGTTTTTGCTAGAAGCGCGC
1 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTGATAAAAGCGCGC
* *
43077708 TAAAGGTTTGTTCTTTAGC-GTGTTTGTGATAAAAGCGTGC
1 TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCGCGC
* * *
43077748 TAAAGGTAGTGGTCTTTAGCGGCATTTGTG
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTG
43077778 GAGAAGCGCC
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
40 27 0.47
41 23 0.40
42 7 0.12
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.38
Consensus pattern (41 bp):
TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCGCGC
Done.