Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 53 of 182
Found at i:17891145 original size:23 final size:23
Alignment explanation
Indices: 17891116--17891218 Score: 110
Period size: 23 Copynumber: 4.6 Consensus size: 23
17891106 AATTGATTTT
17891116 ATTTAAATTTAAATTT-ATCTTAA
1 ATTTAAATTTAAATTTAAT-TTAA
17891139 ATTTAAATTT-AA-TT-ATTTAA
1 ATTTAAATTTAAATTTAATTTAA
*
17891159 ATTT-ACTTTAAATTTAAATTTAA
1 ATTTAAATTTAAATTT-AATTTAA
*
17891182 ATTT-ACTTTAAATTTAAATTTAA
1 ATTTAAATTTAAATTT-AATTTAA
*
17891205 ATTTAAATTAAAAT
1 ATTTAAATTTAAAT
17891219 ACTAAACATT
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.06
20 10 0.14
21 6 0.08
22 2 0.03
23 43 0.60
24 7 0.10
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:17891215 original size:17 final size:17
Alignment explanation
Indices: 17891118--17891218 Score: 109
Period size: 17 Copynumber: 6.1 Consensus size: 17
17891108 TTGATTTTAT
**
17891118 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTAAA
17891135 TTAAATTTAAATTT-AA
1 TTAAATTTAAATTTAAA
**
17891151 TT--ATTTAAATTTACT
1 TTAAATTTAAATTTAAA
17891166 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
* *
17891183 TTTACTTTAAATTTAAA
1 TTAAATTTAAATTTAAA
*
17891200 TTTAAATTTAAATTAAAA
1 -TTAAATTTAAATTTAAA
17891218 T
1 T
17891219 ACTAAACATT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
14 10 0.14
15 2 0.03
16 2 0.03
17 41 0.59
18 14 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:17893146 original size:161 final size:161
Alignment explanation
Indices: 17892866--17893175 Score: 453
Period size: 161 Copynumber: 1.9 Consensus size: 161
17892856 AGTTTTCAAT
* * * *
17892866 TTAGTCCTTTGACTGTTTGACTGGACCAGAGGCTGCCACGTGTCCCTTTTTTGCTTATTTCTACA
1 TTAGTCCTTTGACTGTTTGACTGGACCAGAGGCTGCCACGTGTCACTTTCTGGCTTATTTATACA
*
17892931 TTTAGTCCTTGACATTTTTAATCTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAA
66 TTTAGTCCTTGACATTTTTAATCTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAA
*
17892996 AATTGGCCCAATGATTTTTTAATGTTTATAAA
131 AATTGGCCCAA-AATTTTTTAATGTTTATAAA
*
17893028 TTAGTCCTTTGACTGTTTGACTGGACCAG-GAGCTGCCACGTGTCAC-TTCTGGCTTATTTATGC
1 TTAGTCCTTTGACTGTTTGACTGGACCAGAG-GCTGCCACGTGTCACTTTCTGGCTTATTTATAC
* ** * * * *
17893091 ATTTAGTCCTTGACTTTTTTTGTTTATTTTAATTTAGTCCTTAAATTAACTTTTATTTAATTACA
65 ATTTAGTCCTTGACATTTTTAATCTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACA
*
17893156 AAATTGGTCCAAAATTTTTT
130 AAATTGGCCCAAAATTTTTT
17893176 CAAGATTTTC
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
160 7 0.05
161 82 0.62
162 43 0.33
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.45
Consensus pattern (161 bp):
TTAGTCCTTTGACTGTTTGACTGGACCAGAGGCTGCCACGTGTCACTTTCTGGCTTATTTATACA
TTTAGTCCTTGACATTTTTAATCTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAA
AATTGGCCCAAAATTTTTTAATGTTTATAAA
Found at i:17893312 original size:30 final size:30
Alignment explanation
Indices: 17893274--17893408 Score: 148
Period size: 30 Copynumber: 4.5 Consensus size: 30
17893264 CTAAATTGTT
*
17893274 CAAAAATTACATTTTGACCCTAAAACTTTC
1 CAAAAATTACATTTTGACCCCAAAACTTTC
* * *
17893304 CCAAAATTATATTTTGACCCCGAAACTTTC
1 CAAAAATTACATTTTGACCCCAAAACTTTC
* * *
17893334 TAAAAATTACATTTTAACCTCAAAACTTTTC
1 CAAAAATTACATTTTGACCCCAAAAC-TTTC
* *
17893365 C-AAAATCATATTTTGACCCCAAAA-TTTC
1 CAAAAATTACATTTTGACCCCAAAACTTTC
*
17893393 AAAAAAATTACATTTT
1 -CAAAAATTACATTTT
17893409 TACCTCGGTT
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
28 4 0.05
30 76 0.90
31 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (30 bp):
CAAAAATTACATTTTGACCCCAAAACTTTC
Found at i:17893368 original size:60 final size:61
Alignment explanation
Indices: 17893275--17893414 Score: 196
Period size: 60 Copynumber: 2.3 Consensus size: 61
17893265 TAAATTGTTC
* * * *
17893275 AAAAATTACATTTTGACC-CTAAAACTTTCCCAAAATTATATTTTGACCCCGAAACTTTC-T
1 AAAAATTACATTTTAACCTCTAAAACTTTCCCAAAATCATATTTTGACCCC-AAAATTTCAA
*
17893335 AAAAATTACATTTTAACCTC-AAAACTTTTCCAAAATCATATTTTGACCCCAAAATTTCAA
1 AAAAATTACATTTTAACCTCTAAAACTTTCCCAAAATCATATTTTGACCCCAAAATTTCAA
*
17893395 AAAAATTACATTTTTACCTC
1 AAAAATTACATTTTAACCTC
17893415 GGTTTCACCT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
59 7 0.10
60 64 0.89
61 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (61 bp):
AAAAATTACATTTTAACCTCTAAAACTTTCCCAAAATCATATTTTGACCCCAAAATTTCAA
Found at i:17893488 original size:28 final size:29
Alignment explanation
Indices: 17893425--17893557 Score: 143
Period size: 28 Copynumber: 4.7 Consensus size: 29
17893415 GGTTTCACCT
17893425 AAAATTACCATTTTTACCCCCGAACTTTTC
1 AAAATTACCATTTTTACCCCCGAA-TTTTC
*
17893455 AAAATT-CCATTTTTAACCCC-AATTTTAC
1 AAAATTACCATTTTTACCCCCGAATTTT-C
* *
17893483 TAAATTACCA-TTTTACCCCCGAACTTTC
1 AAAATTACCATTTTTACCCCCGAATTTTC
* * *
17893511 CAAATT-CCATTTTTAGCCCCG-ATTTCAC
1 AAAATTACCATTTTTACCCCCGAATTT-TC
17893539 AAAATTACCA-TTTTACCCC
1 AAAATTACCATTTTTACCCC
17893558 TAAAACCCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
27 10 0.11
28 47 0.54
29 24 0.28
30 6 0.07
ACGTcount: A:0.31, C:0.30, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTTACCCCCGAATTTTC
Found at i:17893544 original size:56 final size:56
Alignment explanation
Indices: 17893396--17893557 Score: 209
Period size: 56 Copynumber: 2.8 Consensus size: 56
17893386 AAATTTCAAA
* * *
17893396 AAAATTACATTTTTACCTCGGTTTCACCTAAAATTACCATTTTTACCCCCGAACTTTTC
1 AAAATTCCATTTTTACCCCGATTTCA-C-AAAATTACCA-TTTTACCCCCGAACTTTTC
* * *
17893455 AAAATTCCATTTTTAACCCCAATTTTACTAAATTACCATTTTACCCCCGAAC-TTTC
1 AAAATTCCATTTTT-ACCCCGATTTCACAAAATTACCATTTTACCCCCGAACTTTTC
*
17893511 CAAATTCCATTTTTAGCCCCGATTTCACAAAATTACCATTTTACCCC
1 AAAATTCCATTTTTA-CCCCGATTTCACAAAATTACCATTTTACCCC
17893558 TAAAACCCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
55 1 0.01
56 45 0.49
57 14 0.15
58 9 0.10
59 14 0.15
60 8 0.09
ACGTcount: A:0.30, C:0.29, G:0.04, T:0.37
Consensus pattern (56 bp):
AAAATTCCATTTTTACCCCGATTTCACAAAATTACCATTTTACCCCCGAACTTTTC
Found at i:17893594 original size:27 final size:27
Alignment explanation
Indices: 17893426--17893595 Score: 98
Period size: 28 Copynumber: 6.1 Consensus size: 27
17893416 GTTTCACCTA
* *
17893426 AAATTACCATTTTTACCCCCGAACTTTTCA
1 AAATTACCA-TTTTACCCCCGAA--TATCC
* * *
17893456 AAATT-CCATTTTTAACCCC-AATTTTACT
1 AAATTACCA-TTTTACCCCCGAA-TAT-CC
*
17893484 AAATTACCATTTTACCCCCGAACTTTCC
1 AAATTACCATTTTACCCCCGAA-TATCC
* *
17893512 AAATT-CCATTTTTAGCCCCG-ATTTCAC
1 AAATTACCA-TTTTACCCCCGAATATC-C
* * *
17893539 AAAATTACCATTTTA-CCCCTAAAACCC
1 -AAATTACCATTTTACCCCCGAATATCC
**
17893566 AAATTACCATTTTACCCCCGGGTATCC
1 AAATTACCATTTTACCCCCGAATATCC
17893593 AAA
1 AAA
17893596 AAGTCTTGTT
Statistics
Matches: 116, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
26 18 0.16
27 24 0.21
28 45 0.39
29 24 0.21
30 5 0.04
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.34
Consensus pattern (27 bp):
AAATTACCATTTTACCCCCGAATATCC
Found at i:17897384 original size:24 final size:24
Alignment explanation
Indices: 17897348--17897393 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
17897338 ATCAGAGGAT
**
17897348 AGAAATATTAGAGCAAATGCAAAA
1 AGAAATACAAGAGCAAATGCAAAA
* *
17897372 AGAAATACAAGAGTAGATGCAA
1 AGAAATACAAGAGCAAATGCAA
17897394 GCTCAGCTAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.57, C:0.09, G:0.20, T:0.15
Consensus pattern (24 bp):
AGAAATACAAGAGCAAATGCAAAA
Found at i:17905376 original size:39 final size:37
Alignment explanation
Indices: 17905326--17905682 Score: 150
Period size: 38 Copynumber: 9.4 Consensus size: 37
17905316 TCTTCATCTC
*
17905326 TGAAATTGAAGTAGGAGCAAAGATCATTTCCAATCCACT
1 TGAAATTGAAGTAGGAGCAAAGATC-TTTCC-ATCCTCT
17905365 TGAAATTGAAGTAGAGTGAGACAACA-AGTCTTT--AT-CTC-
1 TGAAATTGAAGT--AG-GAG-CAA-AGA-TCTTTCCATCCTCT
17905403 TGAAATTGAAGTAGGAGC-AAGATCTTTTCCTATCCTCT
1 TGAAATTGAAGTAGGAGCAAAGATC-TTTCC-ATCCTCT
*
17905441 TGAAATTGAAGTAGAGTTGGACAACA-AGTCTTT--AT-CTC-
1 TGAAATTGAAGTAG-G--AG-CAA-AGA-TCTTTCCATCCTCT
* *
17905479 TGAAATTGAAGTAAGAGC-AAGATCTTTTCCTATCCACT
1 TGAAATTGAAGTAGGAGCAAAGATC-TTTCC-ATCCTCT
17905517 TGAAATTGAAGTAGAGTTAGACAACA-AGTCTTT--AT-CTC-
1 TGAAATTGAAGTAG-G--AG-CAA-AGA-TCTTTCCATCCTCT
** *
17905555 TGAAATTGAAGTAAAAGC-AAGATCTTTTCCTATCCACT
1 TGAAATTGAAGTAGGAGCAAAGATC-TTTCC-ATCCTCT
*
17905593 TGAAATTGAAGTAGAGTTGGACAACA-AGTCTTT--AT-CTC-
1 TGAAATTGAAGTAG-G--AG-CAA-AGA-TCTTTCCATCCTCT
*
17905631 TGAAATTGAAGTAAGAGC-AAGATCTTTTCCTATCCTCT
1 TGAAATTGAAGTAGGAGCAAAGATC-TTTCC-ATCCTCT
*
17905669 TAAAATTGAAGTAG
1 TGAAATTGAAGTAG
17905683 AGTTGGACGA
Statistics
Matches: 245, Mismatches: 18, Indels: 111
0.66 0.05 0.30
Matches are distributed among these distances:
32 12 0.05
33 20 0.08
34 4 0.02
35 7 0.03
36 10 0.04
37 12 0.05
38 103 0.42
39 23 0.09
40 8 0.03
41 6 0.02
42 6 0.02
43 22 0.09
44 12 0.05
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (37 bp):
TGAAATTGAAGTAGGAGCAAAGATCTTTCCATCCTCT
Found at i:17905425 original size:76 final size:76
Alignment explanation
Indices: 17905268--17905935 Score: 946
Period size: 76 Copynumber: 8.8 Consensus size: 76
17905258 TCAGACCAAA
* * * * *
17905268 CAAGATCATTTCCAATCCGCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
*
17905332 TGAAGTAGGAG
66 TGAAGTAAGAG
* * *
17905343 CAAAGATCATTTCCAATCCACTTGAAATTGAAGTAGAG-TGAGACAACAAGTCTTTATCTCTGAA
1 C-AAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTG-GACAACAAGTCTTTATCTCTGAA
*
17905407 ATTGAAGTAGGAG
64 ATTGAAGTAAGAG
17905420 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
17905485 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
17905496 CAAGATCTTTTCCTATCCACTTGAAATTGAAGTAGAGTTAGACAACAAGTCTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
*
17905561 TGAAGTAAAAG
66 TGAAGTAAGAG
*
17905572 CAAGATCTTTTCCTATCCACTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
17905637 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
17905648 CAAGATCTTTTCCTATCCTCTTAAAATTGAAGTAGAGTTGGACGACAAGTTTTTATCTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
*
17905713 TGAAGTAAGAA
66 TGAAGTAAGAG
* * * * * *
17905724 CAGGATCTTTTCCTATCCGT-TTGAAATTGAAGTAGAGATGGATAGCACGTCTTTATCTCTAAAA
1 CAAGATCTTTTCCTATCC-TCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAA
17905788 TTGAAGTAAGAG
65 TTGAAGTAAGAG
* * * * ** * * *
17905800 CAAGATCTTTTCCTATCCTTTTGAAATTGAAGTAAAGCTGGATATTACGTCTTTATCTCTAAAAC
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
17905865 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * *
17905876 CAAGATCTCTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCT
17905936 CTAAAGAAGC
Statistics
Matches: 548, Mismatches: 40, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
75 2 0.00
76 508 0.93
77 38 0.07
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:17905749 original size:38 final size:37
Alignment explanation
Indices: 17905707--17905834 Score: 102
Period size: 38 Copynumber: 3.4 Consensus size: 37
17905697 TTTTTATCTC
17905707 TGAAATTGAAGTAAGAACAGGATCTTTTCCTATCCGTT
1 TGAAATTGAAGTAAGAACAGGATCTTTTCCTATCC-TT
* * * *
17905745 TGAAATTGAAGTAGAGATGGATAGCA-CGTCTT--TAT-CTC
1 TGAAATTGAAGTA-AGA---ACAGGATC-TTTTCCTATCCTT
* * *
17905783 TAAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTTT
1 TGAAATTGAAGTAAGAACAGGATCTTTTCCTATCC-TT
17905821 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
17905835 AGCTGGATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
34 5 0.07
35 1 0.01
36 3 0.04
37 4 0.06
38 40 0.59
39 4 0.06
40 3 0.04
41 1 0.01
42 7 0.10
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (37 bp):
TGAAATTGAAGTAAGAACAGGATCTTTTCCTATCCTT
Found at i:17906247 original size:6 final size:6
Alignment explanation
Indices: 17906236--17906315 Score: 94
Period size: 6 Copynumber: 13.3 Consensus size: 6
17906226 AATTCATTTT
*
17906236 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTTAA TTTTTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
*
17906284 CTTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
17906316 ACTAAACATT
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
4 2 0.03
5 6 0.09
6 49 0.77
7 2 0.03
8 5 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:17906280 original size:37 final size:37
Alignment explanation
Indices: 17906223--17906312 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
17906213 TAATTTGGAG
* *
17906223 TTAAATTCATTTTATTTAAATTTAAATTT-ATCTTAAAT
1 TTAAATTTAATTTATTTAAATTT-AATTTAAT-TTAAAT
*
17906261 TTAAATTTAATTT-TTTAAATTTACTTTAAATTTAAAT
1 TTAAATTTAATTTATTTAAATTTAATTT-AATTTAAAT
17906298 TTAAATTTAAATTTA
1 TTAAATTT-AATTTA
17906313 AATACTAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
36 4 0.09
37 23 0.51
38 18 0.40
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (37 bp):
TTAAATTTAATTTATTTAAATTTAATTTAATTTAAAT
Found at i:17906281 original size:31 final size:31
Alignment explanation
Indices: 17906243--17906301 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
17906233 TTTATTTAAA
17906243 TTTAAATTTA-TCTTAAATTTAAATTTAATTT
1 TTTAAATTTACT-TTAAATTTAAATTTAATTT
17906274 TTTAAATTTACTTTAAATTTAAATTTAA
1 TTTAAATTTACTTTAAATTTAAATTTAA
17906302 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTAAATTTACTTTAAATTTAAATTTAATTT
Found at i:17907509 original size:5 final size:5
Alignment explanation
Indices: 17907501--17907540 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
17907491 ATAAAAATAT
* *
17907501 AAAAG AAAAC AAAAG AAAAG AAAAG AAAAAG GAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAA
17907541 AGGAAAGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:17907536 original size:11 final size:11
Alignment explanation
Indices: 17907512--17907548 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
17907502 AAAGAAAACA
*
17907512 AAAG-AAAAGA
1 AAAGAAAAAGG
17907522 AAAGAAAAAGG
1 AAAGAAAAAGG
17907533 AAAGAAAAAGG
1 AAAGAAAAAGG
17907544 AAAGA
1 AAAGA
17907549 GACCGCTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGG
Found at i:17908254 original size:162 final size:162
Alignment explanation
Indices: 17907981--17908283 Score: 462
Period size: 162 Copynumber: 1.9 Consensus size: 162
17907971 AGTTTTCAAT
* * * *
17907981 TTAGTCCTTTGACTGTTTGACTGGACCAGAGGCTACCACGTGTCCCTTTTTTGCTTATTTCTACA
1 TTAGTCCTTTGACTGTTTGACTGGACCAGAGGCTACCACGTGTCACTTTCTGGCTTATTTATACA
*
17908046 TTTAGTCATTGACATTTTTAATCTGTTTTAATTTAATCCCTAAATTAACTTTTATTTAATTACAA
66 TTTAGTCATTGACATTTTTAATCTATTTTAATTTAATCCCTAAATTAACTTTTATTTAATTACAA
17908111 AATTGGCCCAATGATTTTTCAATGTTTATAAA
131 AATTGGCCCAATGATTTTTCAATGTTTATAAA
* * *
17908143 TTAGTCCTTTGACTGTTTGACTGGACCAGGGGCTGCCACGTGTCACTTTCTGGCTTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGGACCAGAGGCTACCACGTGTCACTTTCTGGCTTATTTATACA
* * ** * * *
17908208 TTTAGTCCTTGACTTTTTTTGTTTATTTTAATTTAGTCCTTAAATTAACTTTTATTTAATTACAA
66 TTTAGTCATTGACATTTTTAATCTATTTTAATTTAATCCCTAAATTAACTTTTATTTAATTACAA
*
17908273 AATTGGTCCAA
131 AATTGGCCCAA
17908284 AATTTTTTCA
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
162 125 1.00
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGGACCAGAGGCTACCACGTGTCACTTTCTGGCTTATTTATACA
TTTAGTCATTGACATTTTTAATCTATTTTAATTTAATCCCTAAATTAACTTTTATTTAATTACAA
AATTGGCCCAATGATTTTTCAATGTTTATAAA
Found at i:17908434 original size:30 final size:30
Alignment explanation
Indices: 17908400--17908498 Score: 135
Period size: 30 Copynumber: 3.3 Consensus size: 30
17908390 CAGAAATTGC
17908400 ATTTTGACCCCAAAACTTTCCCAAAATTAT
1 ATTTTGACCCCAAAACTTTCCCAAAATTAT
* ** *
17908430 ATTTTGACCCCGAAACTTTCTGAAAATTAC
1 ATTTTGACCCCAAAACTTTCCCAAAATTAT
* * *
17908460 ATTTTGACCCTAAAACTTTTCCAAAATCAT
1 ATTTTGACCCCAAAACTTTCCCAAAATTAT
17908490 ATTTTGACC
1 ATTTTGACC
17908499 TTAAAATTTC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (30 bp):
ATTTTGACCCCAAAACTTTCCCAAAATTAT
Found at i:17908516 original size:60 final size:60
Alignment explanation
Indices: 17908393--17908531 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
17908383 AATTGTCCAG
* * **
17908393 AAATTGCATTTTGACCCCAAAACTTTCCCAAAATTATATTTTGACCCCGAAACTTTCTGA
1 AAATTGCATTTTGACCCCAAAACTTTCCCAAAATCATATTTTGACCCCGAAAATTTCAAA
* * * **
17908453 AAATTACATTTTGACCCTAAAACTTTTCCAAAATCATATTTTGA-CCTTAAAATTTCAAAA
1 AAATTGCATTTTGACCCCAAAACTTTCCCAAAATCATATTTTGACCCCGAAAATTTC-AAA
*
17908513 AAATTGCATTTTTACCCCA
1 AAATTGCATTTTGACCCCA
17908532 GTTTCACCTA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 9 0.14
60 57 0.86
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (60 bp):
AAATTGCATTTTGACCCCAAAACTTTCCCAAAATCATATTTTGACCCCGAAAATTTCAAA
Found at i:17908617 original size:29 final size:29
Alignment explanation
Indices: 17908504--17908617 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 29
17908494 TGACCTTAAA
* * *
17908504 ATTTCAAAAAAATTGCATTTTTACCCCAG
1 ATTTCACAAAAATTCCATTTTTACCCCTG
* *
17908533 -TTTCACCTAAAATTACCA-TTTTACCCCCG
1 ATTTCA-CAAAAATT-CCATTTTTACCCCTG
* *
17908562 AACTTT--C-TAAATTCCATTTTTAGCCCTG
1 -A-TTTCACAAAAATTCCATTTTTACCCCTG
17908590 ATTTCACAAAAATTACCA-TTTTACCCCT
1 ATTTCACAAAAATT-CCATTTTTACCCCT
17908618 AAAAACCCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
26 3 0.05
27 4 0.06
28 20 0.30
29 31 0.47
30 5 0.08
32 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (29 bp):
ATTTCACAAAAATTCCATTTTTACCCCTG
Found at i:17911565 original size:17 final size:18
Alignment explanation
Indices: 17911538--17911571 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17911528 GCTTTAGGGA
17911538 ATATGCCAAAATATTCAC
1 ATATGCCAAAATATTCAC
*
17911556 ATAT-CCAAAATCTTCA
1 ATATGCCAAAATATTCA
17911572 GGTGCATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (18 bp):
ATATGCCAAAATATTCAC
Found at i:17913391 original size:2 final size:2
Alignment explanation
Indices: 17913318--17913379 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
17913308 ACATACATAC
17913318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17913360 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
17913380 GCTTTTTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17915974 original size:29 final size:28
Alignment explanation
Indices: 17915942--17916000 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
17915932 AAAATTGAAT
17915942 CAAATGAAAACTTCATGTATAAAATTACA
1 CAAAT-AAAACTTCATGTATAAAATTACA
* * * *
17915971 CAAATCAAAGTTTATGTATAACATTACA
1 CAAATAAAACTTCATGTATAAAATTACA
17915999 CA
1 CA
17916001 TTGAATCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (28 bp):
CAAATAAAACTTCATGTATAAAATTACA
Found at i:17919472 original size:24 final size:24
Alignment explanation
Indices: 17919445--17919506 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
17919435 CTAGTTTTTA
* *
17919445 TCTGCTTTTGTGGCACACTTTTCT
1 TCTGCTCTTGTGGCACACTTTTCC
* *
17919469 TCTGC-CTTGTGGTACGCTTTTCC
1 TCTGCTCTTGTGGCACACTTTTCC
17919492 TCTG-TCTTGTGGCAC
1 TCTGCTCTTGTGGCAC
17919507 GCTTCTGCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 27 0.84
24 5 0.16
ACGTcount: A:0.06, C:0.27, G:0.21, T:0.45
Consensus pattern (24 bp):
TCTGCTCTTGTGGCACACTTTTCC
Found at i:17919508 original size:23 final size:23
Alignment explanation
Indices: 17919452--17919510 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
17919442 TTATCTGCTT
* *
17919452 TTGTGGCACACTTTTCTTCTGCC
1 TTGTGGCACGCTTTTCCTCTGCC
* *
17919475 TTGTGGTACGCTTTTCCTCTGTC
1 TTGTGGCACGCTTTTCCTCTGCC
17919498 TTGTGGCACGCTT
1 TTGTGGCACGCTT
17919511 CTGCCTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.07, C:0.27, G:0.22, T:0.44
Consensus pattern (23 bp):
TTGTGGCACGCTTTTCCTCTGCC
Found at i:17919543 original size:41 final size:41
Alignment explanation
Indices: 17919467--17919544 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
17919457 GCACACTTTT
* * **
17919467 CTTCTGCCTTGTGGTACGCTTTTCCTCTGTCTTGTGGCACG
1 CTTCTGCCTTATGGCACGCTTTTCCTCTACCTTGTGGCACG
*
17919508 CTTCTGCCTTATGGCACG-TTTTCGTCTACCTTTGTGG
1 CTTCTGCCTTATGGCACGCTTTTCCTCTACC-TTGTGG
17919545 TAGATTTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 9 0.29
41 22 0.71
ACGTcount: A:0.06, C:0.28, G:0.23, T:0.42
Consensus pattern (41 bp):
CTTCTGCCTTATGGCACGCTTTTCCTCTACCTTGTGGCACG
Found at i:17919560 original size:17 final size:18
Alignment explanation
Indices: 17919538--17919571 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17919528 TTCGTCTACC
17919538 TTTGTGG-TAGATTTGTA
1 TTTGTGGATAGATTTGTA
*
17919555 TTTGTGGATAGTTTTGT
1 TTTGTGGATAGATTTGT
17919572 CACAACGCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (18 bp):
TTTGTGGATAGATTTGTA
Found at i:17924605 original size:35 final size:35
Alignment explanation
Indices: 17924554--17924637 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
17924544 TATATTTTAA
*
17924554 TCAATTATATTG--TTGATTTATAAATTTATT-TTT
1 TCAAATATATTGCATTGATTTATAAATTT-TTCTTT
17924587 TCAAATATATTGCATTGATTTATAAATTTTTCTTT
1 TCAAATATATTGCATTGATTTATAAATTTTTCTTT
* *
17924622 CCAAATATAATGCATT
1 TCAAATATATTGCATT
17924638 AGATATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
33 11 0.24
34 2 0.04
35 32 0.71
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (35 bp):
TCAAATATATTGCATTGATTTATAAATTTTTCTTT
Found at i:17931240 original size:21 final size:22
Alignment explanation
Indices: 17931193--17931252 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
17931183 AACTATGCAG
***
17931193 ATTTCTACCGATACTTTTACTA
1 ATTTCTACCGATACAAGTACTA
17931215 A-TTCTACCGATACAAGTA-TA
1 ATTTCTACCGATACAAGTACTA
* *
17931235 ATTTCTACTGGTACAAGT
1 ATTTCTACCGATACAAGT
17931253 CATGCAACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 3 0.09
21 28 0.88
22 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (22 bp):
ATTTCTACCGATACAAGTACTA
Found at i:17932119 original size:51 final size:51
Alignment explanation
Indices: 17932053--17932245 Score: 273
Period size: 51 Copynumber: 3.8 Consensus size: 51
17932043 CCGTATAGGA
* * * *
17932053 ATTCATATACTCACGATGACACTGAGTCATCGAACCTTTAATTCGTCATGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAATGG
*
17932104 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAA-TCTGTAAAT-A
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTC-GT-AATGG
* * *
17932155 ATTCATTTACTCACGATGACACTTAATCATCGGACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAATGG
17932206 ATTCATTTACTCACGATGACACTTAGTCATCGGACTCTTT
1 ATTCATTTACTCACGATGACACTTAGTCATCGGAC-CTTT
17932246 CGTTTATAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
50 4 0.03
51 116 0.91
52 7 0.06
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (51 bp):
ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAATGG
Found at i:17932185 original size:102 final size:103
Alignment explanation
Indices: 17932052--17932245 Score: 318
Period size: 102 Copynumber: 1.9 Consensus size: 103
17932042 TCCGTATAGG
* * * *
17932052 AATTCATATACTCACGATGACACTGAGTCATCGAACCTTTAATTCGTCATGGATTCATTTACTCA
1 AATTCATATACTCACGATGACACTGAATCATCGAACCTTTAATCCGTAAAGGATTCATTTACTCA
17932117 CGATGACACTTAGTCATCGGAC-CTTTAATCTGTAAAT
66 CGATGACACTTAGTCATCGGACTCTTTAATCTGTAAAT
* * *
17932154 AATTCATTTACTCACGATGACACTTAATCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCA
1 AATTCATATACTCACGATGACACTGAATCATCGAACCTTTAATCCGTAAAGGATTCATTTACTCA
17932219 CGATGACACTTAGTCATCGGACTCTTT
66 CGATGACACTTAGTCATCGGACTCTTT
17932246 CGTTTATAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 80 0.95
103 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (103 bp):
AATTCATATACTCACGATGACACTGAATCATCGAACCTTTAATCCGTAAAGGATTCATTTACTCA
CGATGACACTTAGTCATCGGACTCTTTAATCTGTAAAT
Found at i:17939842 original size:72 final size:72
Alignment explanation
Indices: 17939720--17939870 Score: 293
Period size: 72 Copynumber: 2.1 Consensus size: 72
17939710 GTATAAGATT
*
17939720 ATTTAACTATATAAACAATATAATGATTTTGCCTTTTTAACTTAATGGGTAAACATTTATCAAAA
1 ATTTTACTATATAAACAATATAATGATTTTGCCTTTTTAACTTAATGGGTAAACATTTATCAAAA
17939785 TGACGTA
66 TGACGTA
17939792 ATTTTACTATATAAACAATATAATGATTTTGCCTTTTTAACTTAATGGGTAAACATTTATCAAAA
1 ATTTTACTATATAAACAATATAATGATTTTGCCTTTTTAACTTAATGGGTAAACATTTATCAAAA
17939857 TGACGTA
66 TGACGTA
17939864 ATTTTAC
1 ATTTTAC
17939871 CTTTTAATTT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 78 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (72 bp):
ATTTTACTATATAAACAATATAATGATTTTGCCTTTTTAACTTAATGGGTAAACATTTATCAAAA
TGACGTA
Found at i:17942268 original size:3 final size:3
Alignment explanation
Indices: 17942262--17942294 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
17942252 TCTCTTGTAT
17942262 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17942295 ACCCAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17942575 original size:14 final size:15
Alignment explanation
Indices: 17942556--17942612 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
17942546 TACAATATAA
17942556 GTAAAAAAA-ATTAT
1 GTAAAAAAATATTAT
*
17942570 GTAAAAAAATGTTAT
1 GTAAAAAAATATTAT
**
17942585 GTAACAAATGTATT-T
1 GTAA-AAAAATATTAT
17942600 GTTAAAAAAATAT
1 G-TAAAAAAATAT
17942613 AAAATTTAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 9 0.26
15 16 0.47
16 9 0.26
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (15 bp):
GTAAAAAAATATTAT
Found at i:17952255 original size:20 final size:20
Alignment explanation
Indices: 17952230--17952267 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17952220 AATGACAAAA
*
17952230 CAGTCACTCAACTTTCAATT
1 CAGTCACACAACTTTCAATT
17952250 CAGTCACACAACTTTCAA
1 CAGTCACACAACTTTCAA
17952268 AAAATAACAA
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:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (20 bp):
CAGTCACACAACTTTCAATT
Found at i:17953184 original size:29 final size:31
Alignment explanation
Indices: 17953124--17953185 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
17953114 TAGGATGGAG
* *
17953124 AAGTATAAACATATTGGGCCATTTATGCAAA
1 AAGTATAAACATATTAGGCCATTTATGAAAA
* *
17953155 AAGTA-AAA-ATATTAGGTCATTTATTAAAA
1 AAGTATAAACATATTAGGCCATTTATGAAAA
17953184 AA
1 AA
17953186 CGGAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 19 0.70
30 3 0.11
31 5 0.19
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (31 bp):
AAGTATAAACATATTAGGCCATTTATGAAAA
Found at i:17954490 original size:13 final size:13
Alignment explanation
Indices: 17954472--17954496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17954462 ATCTCAAAAT
17954472 TATATAAATTTTA
1 TATATAAATTTTA
17954485 TATATAAATTTT
1 TATATAAATTTT
17954497 GAATTAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATAAATTTTA
Found at i:17954543 original size:22 final size:22
Alignment explanation
Indices: 17954499--17954545 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17954489 TAAATTTTGA
* *
17954499 ATTAATGTAATTCTCATAAATC
1 ATTAATATAATTATCATAAATC
* *
17954521 ATTAATATAATTATTATATATC
1 ATTAATATAATTATCATAAATC
17954543 ATT
1 ATT
17954546 TTATGTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTAATATAATTATCATAAATC
Found at i:17963079 original size:63 final size:62
Alignment explanation
Indices: 17962939--17963110 Score: 271
Period size: 59 Copynumber: 2.8 Consensus size: 62
17962929 TCAATTCCAT
17962939 TTTTCTTATTTATTTATTTATTATTTTTATGAATATAAATAAATAAATAATAATATTAATTTTG
1 TTTT-TTATTTATTTATTTATTA-TTTTATGAATATAAATAAATAAATAATAATATTAATTTTG
*
17963003 --TTTTA-TTATTTATTTATTATTGTATGAATATAAATAAATATAA-AATAATATTAATTTTG
1 TTTTTTATTTATTTATTTATTATTTTATGAATATAAATAAATA-AATAATAATATTAATTTTG
17963062 TTTTATTATTTATTTATTTATTATTTTATGAATATAAATAAATAAATAA
1 TTTT-TTATTTATTTATTTATTATTTTATGAATATAAATAAATAAATAA
17963111 CAAACTCAAA
Statistics
Matches: 100, Mismatches: 2, Indels: 13
0.87 0.02 0.11
Matches are distributed among these distances:
59 36 0.36
60 16 0.16
61 5 0.05
62 7 0.07
63 36 0.36
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (62 bp):
TTTTTTATTTATTTATTTATTATTTTATGAATATAAATAAATAAATAATAATATTAATTTTG
Found at i:17965606 original size:31 final size:31
Alignment explanation
Indices: 17965571--17965641 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
17965561 TGCATATGCA
17965571 TTCATGCATTCATAAAATTCTGCATCGCATT
1 TTCATGCATTCATAAAATTCTGCATCGCATT
* * *
17965602 TTCATGCA-TCATAAAGTTTTGTATCGCATT
1 TTCATGCATTCATAAAATTCTGCATCGCATT
17965632 TTCATGCATT
1 TTCATGCATT
17965642 AAAAGTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 27 0.75
31 9 0.25
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (31 bp):
TTCATGCATTCATAAAATTCTGCATCGCATT
Found at i:17965628 original size:30 final size:30
Alignment explanation
Indices: 17965571--17965649 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
17965561 TGCATATGCA
* *
17965571 TTCATGCATTCATAAAATTCTGCATCGCATT
1 TTCATGCA-TCATAAAGTTTTGCATCGCATT
*
17965602 TTCATGCATCATAAAGTTTTGTATCGCATT
1 TTCATGCATCATAAAGTTTTGCATCGCATT
*
17965632 TTCATGCATTA-AAAGTTT
1 TTCATGCATCATAAAGTTT
17965650 GTGAAAGACG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 7 0.16
30 29 0.66
31 8 0.18
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (30 bp):
TTCATGCATCATAAAGTTTTGCATCGCATT
Found at i:17970501 original size:50 final size:50
Alignment explanation
Indices: 17970371--17970513 Score: 171
Period size: 50 Copynumber: 2.9 Consensus size: 50
17970361 ATCTTATACC
* ** * * * *
17970371 CCTAAAGCTATAGAGGAACAGATTGAAGCCACGATGGCAAATCTCATATA
1 CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCGAATCCCATATA
17970421 CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCGAATCCCAT-TCA
1 CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCGAATCCCATAT-A
* * * *
17970471 CTTAAAGCTGTAGAGGGGCAGATTAAAGCCGCAAAGACGAATC
1 CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCGAATC
17970514 TTATACTCCT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 80 0.99
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGGCGAATCCCATATA
Found at i:17970580 original size:40 final size:40
Alignment explanation
Indices: 17970535--17970684 Score: 214
Period size: 40 Copynumber: 3.8 Consensus size: 40
17970525 AAGTTGAAAT
* *
17970535 GGGCAGATTAAAGACCATTCGATCTCTTACCCCGACCATG
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
* *
17970575 GGGCAGATTGAAGACCATCCAATCTTTTACCCCGACCA-G
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
17970614 AGGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
1 -GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
* * *
17970655 GGGCAGATTGAAG-CAATCCAATCTTTTACC
1 GGGCAGATTGAAGACCATCCGATCTCTTACC
17970685 TTAACTAGAG
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 15 0.15
40 83 0.84
41 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
Found at i:17970629 original size:80 final size:80
Alignment explanation
Indices: 17970535--17970765 Score: 297
Period size: 79 Copynumber: 2.9 Consensus size: 80
17970525 AAGTTGAAAT
*
17970535 GGGCAGATTAAAGACCATTCGATCTCTTACCCCGACCATGGGGCAGATTGAAGACCATCCAATCT
1 GGGCAGATTAAAGACCATTCGATCTCTTACCCCGACCATGGGGCAGATTGAAGACAATCCAATCT
*
17970600 TTTACCCCGACCAGA
66 TTTACCCCAACCAGA
* *
17970615 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAG-CAATCCAATCT
1 GGGCAGATTAAAGACCATTCGATCTCTTACCCCGACCATGGGGCAGATTGAAGACAATCCAATCT
** *
17970679 TTTACCTTAACTAGA
66 TTTACCCCAACCAGA
* * * * * * * *
17970694 GGGTAAATTAAATATCATTCGATCTCTTACCCCGATCAT-AGGCTAGATTGAA-ATAATCAAATC
1 GGGCAGATTAAAGACCATTCGATCTCTTACCCCGACCATGGGGC-AGATTGAAGACAATCCAATC
17970757 TTTTACCCC
65 TTTTACCCC
17970766 TAAAATTATA
Statistics
Matches: 130, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
78 3 0.02
79 76 0.58
80 51 0.39
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (80 bp):
GGGCAGATTAAAGACCATTCGATCTCTTACCCCGACCATGGGGCAGATTGAAGACAATCCAATCT
TTTACCCCAACCAGA
Found at i:17971339 original size:10 final size:10
Alignment explanation
Indices: 17971320--17971349 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
17971310 TATTTTTATG
*
17971320 AATATAAATT
1 AATATTAATT
17971330 AATATTAATT
1 AATATTAATT
17971340 AATATTAATT
1 AATATTAATT
17971350 TTATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AATATTAATT
Found at i:17971402 original size:59 final size:57
Alignment explanation
Indices: 17971293--17971458 Score: 230
Period size: 59 Copynumber: 2.9 Consensus size: 57
17971283 ATTTTTCTTA
* *
17971293 TTATTTTATTTATTTATTATTTTTATGAATATAAATTAAT--ATTAATTAATATTAATT
1 TTATTTTA-TTATTTATTA-TTTTATGAATATAAATAAATAAATTAAATAATATTAATT
*
17971350 TTATTTTATTATTTATTATTGTATGAATATAAATAAATAAATGTAAAATAATATTAATT
1 TTATTTTATTATTTATTATTTTATGAATATAAATAAATAAAT-T-AAATAATATTAATT
* *
17971409 TTGTTTTATTATTTATTATTTTATGAATATAGATAAATAAA-TAAATAATA
1 TTATTTTATTATTTATTATTTTATGAATATAAATAAATAAATTAAATAATA
17971459 AACCCAAATA
Statistics
Matches: 99, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
55 18 0.18
56 18 0.18
57 11 0.11
58 1 0.01
59 51 0.52
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (57 bp):
TTATTTTATTATTTATTATTTTATGAATATAAATAAATAAATTAAATAATATTAATT
Found at i:17971469 original size:13 final size:13
Alignment explanation
Indices: 17971451--17971479 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17971441 ATAAATAAAT
17971451 AAATAATAAACCC
1 AAATAATAAACCC
17971464 AAATAATAAACCC
1 AAATAATAAACCC
17971477 AAA
1 AAA
17971480 GTCAAAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAATAAACCC
Found at i:17978681 original size:20 final size:21
Alignment explanation
Indices: 17978653--17978703 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
17978643 TGAGTGGTTC
*
17978653 AAATTATTTTGACTTG-TTTA
1 AAATTATTTTAACTTGATTTA
*
17978673 AAATCATTTTAACTTGATTTTA
1 AAATTATTTTAACTTGA-TTTA
17978695 AAATTATTT
1 AAATTATTT
17978704 CAAACTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.54
22 12 0.46
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (21 bp):
AAATTATTTTAACTTGATTTA
Found at i:17980931 original size:22 final size:22
Alignment explanation
Indices: 17980906--17980962 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
17980896 TAAAACATAT
17980906 TATAAAATAAATCTATAC-TAAA
1 TATAAAATAAATCTA-ACGTAAA
*
17980928 TATAAAATATTACTCTAACGTAAA
1 TATAAAATA--AATCTAACGTAAA
17980952 TATTAAAATAA
1 TA-TAAAATAA
17980963 TGTTAATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 9 0.30
23 3 0.10
24 11 0.37
25 7 0.23
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (22 bp):
TATAAAATAAATCTAACGTAAA
Found at i:17981021 original size:23 final size:23
Alignment explanation
Indices: 17980993--17981046 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
17980983 AAATTTCAAT
17980993 AAATAAAA-AATTATTAAAT-TTTA
1 AAATAAAATAA-TA-TAAATATTTA
17981016 AAATAAAATAATATAAATATTTA
1 AAATAAAATAATATAAATATTTA
17981039 AAA-AAAAT
1 AAATAAAAT
17981047 TAAAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 10 0.34
23 17 0.59
24 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAAAATAATATAAATATTTA
Found at i:17981046 original size:22 final size:20
Alignment explanation
Indices: 17980997--17981046 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
17980987 TTCAATAAAT
*
17980997 AAAAAATTATTAAATTTTAA
1 AAAAAATAATTAAATTTTAA
17981017 AATAAAATAATATAAATATTTAA
1 AA-AAAATAAT-TAAAT-TTTAA
17981040 AAAAAAT
1 AAAAAAT
17981047 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.27
22 10 0.38
23 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAATAATTAAATTTTAA
Found at i:17981908 original size:30 final size:31
Alignment explanation
Indices: 17981873--17981931 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
17981863 GTTATTTATG
*
17981873 AAAATTGAATCAAATCAAAATTT-TATATTT
1 AAAATTGAATAAAATCAAAATTTATATATTT
*
17981903 AAAATTGAATAAAATCAAAGTTTATATAT
1 AAAATTGAATAAAATCAAAATTTATATAT
17981932 GATATTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (31 bp):
AAAATTGAATAAAATCAAAATTTATATATTT
Found at i:17982336 original size:22 final size:22
Alignment explanation
Indices: 17982310--17982354 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17982300 ATTAAACATA
17982310 TTTTCTTCAATGATTTTCATTT
1 TTTTCTTCAATGATTTTCATTT
17982332 TTTTCTTCAATGATTTTCATTT
1 TTTTCTTCAATGATTTTCATTT
17982354 T
1 T
17982355 CCAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.13, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTCTTCAATGATTTTCATTT
Found at i:17982489 original size:16 final size:16
Alignment explanation
Indices: 17982470--17982507 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
17982460 CATTGGAATT
*
17982470 GAATTGGATTGTAATG
1 GAATAGGATTGTAATG
17982486 GAATAGGATTGTAATG
1 GAATAGGATTGTAATG
17982502 GAATAG
1 GAATAG
17982508 AGCTGCAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
GAATAGGATTGTAATG
Found at i:17983849 original size:24 final size:25
Alignment explanation
Indices: 17983820--17983871 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
17983810 TTGTTATTAA
17983820 ATATAATTTAATAAAAATA-ATAAT
1 ATATAATTTAATAAAAATATATAAT
* *
17983844 ATATAATTTAATAACAATATTTAAT
1 ATATAATTTAATAAAAATATATAAT
17983869 ATA
1 ATA
17983872 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAATTTAATAAAAATATATAAT
Found at i:17983862 original size:18 final size:18
Alignment explanation
Indices: 17983835--17983873 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17983825 ATTTAATAAA
* *
17983835 AATAATAATATATAATTT
1 AATAACAATATATAATAT
*
17983853 AATAACAATATTTAATAT
1 AATAACAATATATAATAT
17983871 AAT
1 AAT
17983874 TATTTTTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATAACAATATATAATAT
Found at i:17985877 original size:130 final size:130
Alignment explanation
Indices: 17985644--17985906 Score: 472
Period size: 130 Copynumber: 2.0 Consensus size: 130
17985634 AGCCTGCTTC
* * *
17985644 TATCAGTGAATCACTAGAAATTCTAGTTCTTGATGAGGTAAGAGTTTGAGTAGAATGTAGAGCGG
1 TATCAGTGAATCACTAGAAATTCTAGTCCTTGATGAGGTAAGAATTTGAGTAGAATGTAGAGCGA
17985709 CTTTCTAAAATTAGTTGGGTTCATGCAGCTATTTTTATCATAAGGGAAGTTATGATTTGAGCAAG
66 CTTTCTAAAATTAGTTGGGTTCATGCAGCTATTTTTATCATAAGGGAAGTTATGATTTGAGCAAG
*
17985774 TATCAGTGAATCACTAGAAATTCTAGTCCTTGATGAGGTAAGAATTTGAGTAGAATGTAGAGTGA
1 TATCAGTGAATCACTAGAAATTCTAGTCCTTGATGAGGTAAGAATTTGAGTAGAATGTAGAGCGA
* *
17985839 CTTTCTAAAGTTAGTTGGGTTCATGCAGCTATTTTTATCATAAGTGAAGTTATGATTTGAGCAAG
66 CTTTCTAAAATTAGTTGGGTTCATGCAGCTATTTTTATCATAAGGGAAGTTATGATTTGAGCAAG
17985904 TAT
1 TAT
17985907 GTACTCATAT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (130 bp):
TATCAGTGAATCACTAGAAATTCTAGTCCTTGATGAGGTAAGAATTTGAGTAGAATGTAGAGCGA
CTTTCTAAAATTAGTTGGGTTCATGCAGCTATTTTTATCATAAGGGAAGTTATGATTTGAGCAAG
Found at i:17988363 original size:3 final size:3
Alignment explanation
Indices: 17988355--17988418 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
17988345 GTGGAGTTTA
* * * * * *
17988355 TCT TCT TCT TCT TCA TCA TCA TCA TCA TCA TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
17988403 TCT TACT TCT T-T TCT T
1 TCT T-CT TCT TCT TCT T
17988419 TTCCTTTTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.58
Consensus pattern (3 bp):
TCT
Found at i:18002474 original size:21 final size:21
Alignment explanation
Indices: 18002458--18002499 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18002448 TGAGATTGGT
*
18002458 TATTGTACTGATGAGATTAAA
1 TATTGTACTAATGAGATTAAA
18002479 TATTGTACTAATGAGATTAAA
1 TATTGTACTAATGAGATTAAA
18002500 ATTAGTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
TATTGTACTAATGAGATTAAA
Found at i:18009424 original size:19 final size:19
Alignment explanation
Indices: 18009383--18009425 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
18009373 AGAAACTCAG
* ***
18009383 AAATGTTGAATGAATTTGG
1 AAATGTTAAATGAATTAAA
18009402 AAATGTTAAATGAATTAAA
1 AAATGTTAAATGAATTAAA
18009421 AAATG
1 AAATG
18009426 AAACAGGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (19 bp):
AAATGTTAAATGAATTAAA
Found at i:18009622 original size:18 final size:18
Alignment explanation
Indices: 18009584--18009622 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18009574 AATGAAGAAG
*
18009584 AAAGGAATAACGGAAAAA
1 AAAGGAATAACGAAAAAA
18009602 AAAGGAAATAA-GAAAAAA
1 AAAGG-AATAACGAAAAAA
18009620 AAA
1 AAA
18009623 TAGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAGGAATAACGAAAAAA
Found at i:18015053 original size:17 final size:17
Alignment explanation
Indices: 18015031--18015069 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18015021 CTCCACCTTG
*
18015031 ACAAGAATTCTCT-ACGA
1 ACAAGAACTCT-TAACGA
18015048 ACAAGAACTCTTAACGA
1 ACAAGAACTCTTAACGA
18015065 ACAAG
1 ACAAG
18015070 TTCTCCAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (17 bp):
ACAAGAACTCTTAACGA
Found at i:18021952 original size:19 final size:19
Alignment explanation
Indices: 18021928--18021970 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18021918 AAACATAAAT
18021928 TAAATATAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
18021947 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
18021966 TAAAT
1 TAAAT
18021971 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:18024316 original size:13 final size:13
Alignment explanation
Indices: 18024298--18024325 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18024288 TATTACTTTA
18024298 TTGCGAATATTTC
1 TTGCGAATATTTC
18024311 TTGCGAATATTTC
1 TTGCGAATATTTC
18024324 TT
1 TT
18024326 ACAATGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (13 bp):
TTGCGAATATTTC
Found at i:18025672 original size:21 final size:23
Alignment explanation
Indices: 18025648--18025693 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
18025638 AAAACTCGAA
18025648 AAATAATTCAA-AT-TTTGAATT
1 AAATAATTCAAGATATTTGAATT
* *
18025669 AAATAGTTCAAGTTATTTGAATT
1 AAATAATTCAAGATATTTGAATT
18025692 AA
1 AA
18025694 TCAAGTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 10 0.48
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (23 bp):
AAATAATTCAAGATATTTGAATT
Found at i:18025863 original size:21 final size:22
Alignment explanation
Indices: 18025832--18025872 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18025822 TTTATATTTT
18025832 TTAAAGTT-AAAAGTCAAAACCA
1 TTAAAGTTAAAAAGT-AAAACCA
18025854 TTAAA-TTAAAAAGTAAAAC
1 TTAAAGTTAAAAAGTAAAAC
18025873 TACTTGAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (22 bp):
TTAAAGTTAAAAAGTAAAACCA
Found at i:18026340 original size:18 final size:18
Alignment explanation
Indices: 18026319--18026373 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
18026309 ATAAAAGTTA
*
18026319 AAATTATTTTAAAAATAT
1 AAATTATATTAAAAATAT
*
18026337 AAATAATATT-AAAATATT
1 AAATTATATTAAAAATA-T
*
18026355 AAAATATATTAAAAATAT
1 AAATTATATTAAAAATAT
18026373 A
1 A
18026374 GAAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTATATTAAAAATAT
Found at i:18026367 original size:36 final size:36
Alignment explanation
Indices: 18026294--18026385 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
18026284 TTTTAATAAA
* * * *
18026294 TAAAAATA-ATAAAATATAAAA-GTTAAAATTATTT
1 TAAAAATATAGAAAATTTAAAATATTAAAATTATAT
18026328 TAAAAATATA-AATAATATTAAAATATTAAAA-TATAT
1 TAAAAATATAGAA-AAT-TTAAAATATTAAAATTATAT
18026364 TAAAAATATAGAAAATTTAAAA
1 TAAAAATATAGAAAATTTAAAA
18026386 ATTTATACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
34 10 0.20
35 10 0.20
36 22 0.44
37 8 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (36 bp):
TAAAAATATAGAAAATTTAAAATATTAAAATTATAT
Found at i:18026411 original size:19 final size:16
Alignment explanation
Indices: 18026327--18026422 Score: 68
Period size: 19 Copynumber: 5.4 Consensus size: 16
18026317 TAAAATTATT
18026327 TTAAAAATATAAATAATA
1 TTAAAAATATAAA-AA-A
18026345 TT-AAAATATTAAAATATA
1 TTAAAAATA-TAAAA-A-A
*
18026363 TTAAAAATATAGAAAAT
1 TTAAAAATATA-AAAAA
18026380 TTAAAAATTTATACAAAACCA
1 TTAAAAA--TATA-AAAA--A
18026401 TTAAAAATATAAAAAA
1 TTAAAAATATAAAAAA
*
18026417 GTAAAA
1 TTAAAA
18026423 TTTATTATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
16 6 0.09
17 14 0.21
18 18 0.27
19 21 0.32
21 7 0.11
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (16 bp):
TTAAAAATATAAAAAA
Found at i:18026415 original size:8 final size:8
Alignment explanation
Indices: 18026293--18026443 Score: 65
Period size: 8 Copynumber: 17.0 Consensus size: 8
18026283 ATTTTAATAA
18026293 ATAAAAAT
1 ATAAAAAT
18026301 A-ATAAAAT
1 ATA-AAAAT
*
18026309 ATAAAAGT
1 ATAAAAAT
18026317 -TAAAATTATT
1 ATAAAA--A-T
*
18026327 TTAAAAAT
1 ATAAAAAT
18026335 ATAAATAAT
1 ATAAA-AAT
*
18026344 ATTAAAAT
1 ATAAAAAT
18026352 ATTAAAATAT
1 A-TAAAA-AT
18026362 ATTAAAAAT
1 A-TAAAAAT
18026371 ATAGAAAAT
1 ATA-AAAAT
*
18026380 TTAAAAATTT
1 ATAAAAA--T
*
18026390 ATACAAAACC
1 ATA-AAAA-T
18026400 ATTAAAAAT
1 A-TAAAAAT
18026409 ATAAAAA-
1 ATAAAAAT
*
18026416 AGTAAAATTT
1 A-TAAAA-AT
18026426 ATTATAAAAT
1 A-TA-AAAAT
18026436 ATAAAAAT
1 ATAAAAAT
18026444 GAAAACTTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
7 7 0.06
8 42 0.38
9 26 0.23
10 23 0.21
11 14 0.12
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
ATAAAAAT
Found at i:18026744 original size:19 final size:18
Alignment explanation
Indices: 18026722--18026806 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
18026712 TTTTTAGTTT
18026722 TTTTTATAAATTTTAAATA
1 TTTTTATAAATTTTAAA-A
* * * *
18026741 TTTTTCT-ACTTTTTATA
1 TTTTTATAAATTTTAAAA
18026758 TTTTATAATAAATTTT--AA
1 TTTT-T-ATAAATTTTAAAA
18026776 TTTTTAT--ATTTTAAGAA
1 TTTTTATAAATTTTAA-AA
18026793 TTTTT-TAAATTTTA
1 TTTTTATAAATTTTA
18026807 GAAGTTTTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 17
0.68 0.09 0.23
Matches are distributed among these distances:
14 5 0.10
16 3 0.06
17 13 0.25
18 18 0.35
19 7 0.14
20 5 0.10
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTTTATAAATTTTAAAA
Found at i:18026797 original size:18 final size:18
Alignment explanation
Indices: 18026776--18026820 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
18026766 TAAATTTTAA
18026776 TTTTTATATTTTAAGAA-T
1 TTTTTATATTTT-AGAAGT
*
18026794 TTTTTAAATTTTAGAAGT
1 TTTTTATATTTTAGAAGT
*
18026812 TTTCTATAT
1 TTTTTATAT
18026821 GTTTTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTTATATTTTAGAAGT
Found at i:18027471 original size:22 final size:22
Alignment explanation
Indices: 18027427--18027480 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
18027417 AATATGTAAG
* * *
18027427 TTTAATATAAAAATTTAATATT
1 TTTAAAATAAAAATTAAAAATT
*
18027449 TTTAAAATTAAAATTAAAAATT
1 TTTAAAATAAAAATTAAAAATT
*
18027471 TATTATAATA
1 T-TTAAAATA
18027481 TAATAATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAAAATAAAAATTAAAAATT
Found at i:18027786 original size:16 final size:16
Alignment explanation
Indices: 18027765--18027824 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
18027755 ACCAAACCTT
* *
18027765 AAACCTCAAATAATTA
1 AAACCTAAAATAATCA
18027781 AAACCTAAAATAATCA
1 AAACCTAAAATAATCA
* * *
18027797 AAATCTGAAATGATTCA
1 AAACCTAAAAT-AATCA
*
18027814 AAATCTAAAAT
1 AAACCTAAAAT
18027825 TGATTTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
16 23 0.62
17 14 0.38
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (16 bp):
AAACCTAAAATAATCA
Found at i:18027816 original size:17 final size:18
Alignment explanation
Indices: 18027794--18027829 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18027784 CCTAAAATAA
*
18027794 TCAAAATCTGAAA-TGAT
1 TCAAAATCTAAAATTGAT
18027811 TCAAAATCTAAAATTGAT
1 TCAAAATCTAAAATTGAT
18027829 T
1 T
18027830 TGAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (18 bp):
TCAAAATCTAAAATTGAT
Found at i:18028600 original size:3 final size:3
Alignment explanation
Indices: 18028592--18028621 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18028582 ACACTTGTTC
18028592 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
18028622 TAACAATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:18046526 original size:82 final size:82
Alignment explanation
Indices: 18046388--18046546 Score: 248
Period size: 82 Copynumber: 1.9 Consensus size: 82
18046378 TATGCCTAAC
* *
18046388 ATGTGCATTCAAAGCTCTTCCAATGTTTTAATTTGCAGTCAGGGAGATAGAAATAAAAGAGTGCA
1 ATGTGCATTCAAAGCTC-TCCAATGTTTTAATTTGCAGACAGGGAGATAGAAATAAAAGAATGCA
18046453 GCCATTGTCAGACATCTG
65 GCCATTGTCAGACATCTG
* * *
18046471 ATGTGCATTCAAAGCTC-CTAATGTTTTTAATTTGCAGACTGGGAGATAGTAATAAAAGAATGCA
1 ATGTGCATTCAAAGCTCTCCAATG-TTTTAATTTGCAGACAGGGAGATAGAAATAAAAGAATGCA
18046535 GCCATTGTCAGA
65 GCCATTGTCAGA
18046547 TATCCAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 5 0.07
82 48 0.69
83 17 0.24
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (82 bp):
ATGTGCATTCAAAGCTCTCCAATGTTTTAATTTGCAGACAGGGAGATAGAAATAAAAGAATGCAG
CCATTGTCAGACATCTG
Found at i:18049540 original size:69 final size:69
Alignment explanation
Indices: 18049448--18049580 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 69
18049438 AAAAGTTAAT
* *
18049448 ATTGTTGCCTTCAGATACTAAAACGTACAA-ATTATCAAATATAGATACCAAATTGAAAATAAAA
1 ATTGTTGCCTTCAGATACCAAAACGTACAACATTATCAAACATAGATACCAAATT-AAAA-AAAA
18049512 CCTAAA
64 CCTAAA
* * * *
18049518 ATTGTTGTCTT-AGATACCAAAACGTATAACTTTATCAAACATAGGTACCAAATTAAAAAAAAC
1 ATTGTTGCCTTCAGATACCAAAACGTACAACATTATCAAACATAGATACCAAATTAAAAAAAAC
18049581 ACATAACTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
68 5 0.09
69 20 0.36
70 31 0.55
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (69 bp):
ATTGTTGCCTTCAGATACCAAAACGTACAACATTATCAAACATAGATACCAAATTAAAAAAAACC
TAAA
Found at i:18052508 original size:439 final size:439
Alignment explanation
Indices: 18051690--18052570 Score: 1762
Period size: 439 Copynumber: 2.0 Consensus size: 439
18051680 CCCACTTGAC
18051690 TCCATTAGGTAAATATACATGATGATGATGATGATGAGAAAATCATCTCATAATGATGGGATCAT
1 TCCATTAGGTAAATATACATGATGATGATGATGATGAGAAAATCATCTCATAATGATGGGATCAT
18051755 TATGGGTTTCGGTCTACCTTTCTTCATTCAACCCTATCCCCTTTTTTTTCGGAGAAATGGTGATT
66 TATGGGTTTCGGTCTACCTTTCTTCATTCAACCCTATCCCCTTTTTTTTCGGAGAAATGGTGATT
18051820 TTATTATTCAAAGAAGCAGAATTCTGCTACATTAAAACATCAGGAATGAACACTCCTAAAAATAA
131 TTATTATTCAAAGAAGCAGAATTCTGCTACATTAAAACATCAGGAATGAACACTCCTAAAAATAA
18051885 CAATACACTACTACTCTAGTATATTTTAAATTGTACATAATTGAAAATTAACTACATCAATTCTA
196 CAATACACTACTACTCTAGTATATTTTAAATTGTACATAATTGAAAATTAACTACATCAATTCTA
18051950 TCAAATGTTTTTATCACTAAGTCGAATTGCAACTAATTCCTTTAATGAGTTCAAGATTTCACTCT
261 TCAAATGTTTTTATCACTAAGTCGAATTGCAACTAATTCCTTTAATGAGTTCAAGATTTCACTCT
18052015 CATTCATTCACTGCAATTCTCTCTGCTAATCCATGATCTCTTTGTCAATCTTGCATAATCCAAGA
326 CATTCATTCACTGCAATTCTCTCTGCTAATCCATGATCTCTTTGTCAATCTTGCATAATCCAAGA
18052080 ATAGATTTCCATATGCCTTTTGAATATGAGCATTCAGAGAAAAGATGAT
391 ATAGATTTCCATATGCCTTTTGAATATGAGCATTCAGAGAAAAGATGAT
18052129 TCCATTAGGTAAATATACATGATGATGATGATGATGAGAAAATCATCTCATAATGATGGGATCAT
1 TCCATTAGGTAAATATACATGATGATGATGATGATGAGAAAATCATCTCATAATGATGGGATCAT
18052194 TATGGGTTTCGGTCTACCTTTCTTCATTCAACCCTATCCCCTTTTTTTTCGGAGAAATGGTGATT
66 TATGGGTTTCGGTCTACCTTTCTTCATTCAACCCTATCCCCTTTTTTTTCGGAGAAATGGTGATT
18052259 TTATTATTCAAAGAAGCAGAATTCTGCTACATTAAAACATCAGGAATGAACACTCCTAAAAATAA
131 TTATTATTCAAAGAAGCAGAATTCTGCTACATTAAAACATCAGGAATGAACACTCCTAAAAATAA
18052324 CAATACACTACTACTCTAGTATATTTTAAATTGTACATAATTGAAAATTAACTACATCAATTCTA
196 CAATACACTACTACTCTAGTATATTTTAAATTGTACATAATTGAAAATTAACTACATCAATTCTA
18052389 TCAAATGTTTTTATCACTAAGTCGAATTGCAACTAATTCCTTTAATGAGTTCAAGATTTCACTCT
261 TCAAATGTTTTTATCACTAAGTCGAATTGCAACTAATTCCTTTAATGAGTTCAAGATTTCACTCT
18052454 CATTCATTCACTGCAATTCTCTCTGCTAATCCATGATCTCTTTGTCAATCTTGCATAATCCAAGA
326 CATTCATTCACTGCAATTCTCTCTGCTAATCCATGATCTCTTTGTCAATCTTGCATAATCCAAGA
18052519 ATAGATTTCCATATGCCTTTTGAATATGAGCATTCAGAGAAAAGATGAT
391 ATAGATTTCCATATGCCTTTTGAATATGAGCATTCAGAGAAAAGATGAT
18052568 TCC
1 TCC
18052571 TGGTCTCTAA
Statistics
Matches: 442, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
439 442 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (439 bp):
TCCATTAGGTAAATATACATGATGATGATGATGATGAGAAAATCATCTCATAATGATGGGATCAT
TATGGGTTTCGGTCTACCTTTCTTCATTCAACCCTATCCCCTTTTTTTTCGGAGAAATGGTGATT
TTATTATTCAAAGAAGCAGAATTCTGCTACATTAAAACATCAGGAATGAACACTCCTAAAAATAA
CAATACACTACTACTCTAGTATATTTTAAATTGTACATAATTGAAAATTAACTACATCAATTCTA
TCAAATGTTTTTATCACTAAGTCGAATTGCAACTAATTCCTTTAATGAGTTCAAGATTTCACTCT
CATTCATTCACTGCAATTCTCTCTGCTAATCCATGATCTCTTTGTCAATCTTGCATAATCCAAGA
ATAGATTTCCATATGCCTTTTGAATATGAGCATTCAGAGAAAAGATGAT
Found at i:18064020 original size:5 final size:5
Alignment explanation
Indices: 18064010--18064036 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18064000 TTACAGTATC
18064010 ACTCA ACTCA ACTCA ACTCA ACTCA AC
1 ACTCA ACTCA ACTCA ACTCA ACTCA AC
18064037 AGTCCAGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (5 bp):
ACTCA
Found at i:18071813 original size:13 final size:14
Alignment explanation
Indices: 18071789--18071829 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
18071779 AAATCAAAAT
18071789 TTAAAAACTAATAAA
1 TTAAAAA-TAATAAA
*
18071804 TT-ACAATAATAAA
1 TTAAAAATAATAAA
18071817 TTAAAAATAATAA
1 TTAAAAATAATAA
18071830 GAAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 9 0.39
14 12 0.52
15 2 0.09
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (14 bp):
TTAAAAATAATAAA
Found at i:18074122 original size:136 final size:142
Alignment explanation
Indices: 18073872--18074138 Score: 350
Period size: 136 Copynumber: 1.9 Consensus size: 142
18073862 AAAATTTTGA
* * *
18073872 GGGAAAGTAAATAGGGGGAGTAAAATTTTGAATGAAAAATATGCAAAAAAAATTGGGGAGGGAGG
1 GGGAAAGTAAATAGGGGGAGCAAAATTTTGAAGGAAAAATAT-CAAAAAAAATT-GGGAGCGA-G
* * *
18073937 AATGGGTTTGGGATAGATGGGGGTGGGGTGGGGTGGGAGTAAAAATTTTGGGGGAAAA-TAAAAA
63 AATAGGTTTGGGATAGATGGGGGTGGGATGGGGTGGGAGTAAAAATTTTGGGGAAAAAGTAAAAA
18074001 AATTTCAGGGTGTTG
128 AATTTCAGGGTGTTG
* * *
18074016 GGGAAAGTAAAT-GGGGGAGCAAATTTTTGGAGGAAAAATAT-TAAAAAAATT-GGAGCGA-AAT
1 GGGAAAGTAAATAGGGGGAGCAAAATTTTGAAGGAAAAATATCAAAAAAAATTGGGAGCGAGAAT
* *
18074077 AGGTTTTGG-TAGATGGGGGTGGGATGGGAGT-GGAGTAAAAGTTTTGGGGAAAAAGTAAAAAA
66 AGGTTTGGGATAGATGGGGGTGGGATGGG-GTGGGAGTAAAAATTTTGGGGAAAAAGTAAAAAA
18074139 GTTTGGGGGT
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
136 39 0.35
137 19 0.17
139 6 0.05
141 9 0.08
143 25 0.23
144 12 0.11
ACGTcount: A:0.38, C:0.01, G:0.37, T:0.23
Consensus pattern (142 bp):
GGGAAAGTAAATAGGGGGAGCAAAATTTTGAAGGAAAAATATCAAAAAAAATTGGGAGCGAGAAT
AGGTTTGGGATAGATGGGGGTGGGATGGGGTGGGAGTAAAAATTTTGGGGAAAAAGTAAAAAAAT
TTCAGGGTGTTG
Found at i:18077374 original size:8 final size:8
Alignment explanation
Indices: 18077361--18077388 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
18077351 ATTTGTTCTT
18077361 AAAAAAAG
1 AAAAAAAG
18077369 AAAAAAAG
1 AAAAAAAG
18077377 AAAAAAAG
1 AAAAAAAG
18077385 AAAA
1 AAAA
18077389 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:18077728 original size:9 final size:9
Alignment explanation
Indices: 18077714--18077740 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18077704 ATCTTAAACA
18077714 CTTTGAGTG
1 CTTTGAGTG
18077723 CTTTGAGTG
1 CTTTGAGTG
18077732 CTTTGAGTG
1 CTTTGAGTG
18077741 AAACCTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.33, T:0.44
Consensus pattern (9 bp):
CTTTGAGTG
Found at i:18079596 original size:26 final size:26
Alignment explanation
Indices: 18079567--18079616 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18079557 TGTTCCAAAG
18079567 GTTTAGCTCATACGAGCCCAGACAGA
1 GTTTAGCTCATACGAGCCCAGACAGA
* *
18079593 GTTTAGCTCTTATGAGCCCAGACA
1 GTTTAGCTCATACGAGCCCAGACA
18079617 AGGTACGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (26 bp):
GTTTAGCTCATACGAGCCCAGACAGA
Found at i:18079635 original size:26 final size:27
Alignment explanation
Indices: 18079570--18079635 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
18079560 TCCAAAGGTT
* *
18079570 TAGCTCATA-CGAGCCCAGACAGAGTT
1 TAGCTCTTATCGAGCCCAGACAGAGTG
18079596 TAGCTCTTAT-GAGCCCAGACA-AG-G
1 TAGCTCTTATCGAGCCCAGACAGAGTG
*
18079620 TACGCTTTTATCGAGC
1 TA-GCTCTTATCGAGC
18079636 TAGAATTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 2 0.06
25 9 0.26
26 23 0.68
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (27 bp):
TAGCTCTTATCGAGCCCAGACAGAGTG
Found at i:18081983 original size:44 final size:42
Alignment explanation
Indices: 18081935--18082060 Score: 128
Period size: 47 Copynumber: 2.8 Consensus size: 42
18081925 CCAAAACAAC
18081935 AGCAAAAATAACAACAAAACAACAACAAAAATAGCAACAAAAAT
1 AGCAAAAATAACAACAAAACAACAACAAAAATA--AACAAAAAT
* * *
18081979 AGCAATAAAAATAACAGCAAAATAGCAACAAAAA-AAACAAAAAT
1 AGC---AAAAATAACAACAAAACAACAACAAAAATAAACAAAAAT
*
18082023 AGCAACAAAAATAGCAACAAAAACAACAACAAAAATAA
1 AG---CAAAAATAACAAC-AAAACAACAACAAAAATAA
18082061 CAGTAAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
44 24 0.36
45 14 0.21
46 3 0.04
47 26 0.39
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.07
Consensus pattern (42 bp):
AGCAAAAATAACAACAAAACAACAACAAAAATAAACAAAAAT
Found at i:18082023 original size:21 final size:21
Alignment explanation
Indices: 18081970--18082062 Score: 96
Period size: 21 Copynumber: 4.2 Consensus size: 21
18081960 CAAAAATAGC
* *
18081970 AACAAAAATAGCAATAAAAAT
1 AACAAAAATAGCAACAAAAAA
18081991 AACAGCAAAATAGCAACAAAAAA
1 AACA--AAAATAGCAACAAAAAA
18082014 AACAAAAATAGCAACAAAAATA
1 AACAAAAATAGCAACAAAAA-A
* * *
18082036 GCAACAAAAACAACAACAAAAAT
1 --AACAAAAATAGCAACAAAAAA
18082059 AACA
1 AACA
18082063 GTAAAAAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
21 24 0.39
22 1 0.02
23 19 0.31
24 18 0.29
ACGTcount: A:0.71, C:0.16, G:0.05, T:0.08
Consensus pattern (21 bp):
AACAAAAATAGCAACAAAAAA
Found at i:18082028 original size:56 final size:58
Alignment explanation
Indices: 18081922--18082062 Score: 205
Period size: 56 Copynumber: 2.4 Consensus size: 58
18081912 AACATTCAAA
*
18081922 CAACCAAAACAACAGCAAAAATAACAACAAAACAACAACAAAAATAGCAACAAAAATAG
1 CAACAAAAACAACAGC-AAAATAACAACAAAACAACAACAAAAATAGCAACAAAAATAG
* * *
18081981 CAATAAAAATAACAGCAAAATAGCAACAAAA-AA-AACAAAAATAGCAACAAAAATAG
1 CAACAAAAACAACAGCAAAATAACAACAAAACAACAACAAAAATAGCAACAAAAATAG
*
18082037 CAACAAAAACAACAACAAAAATAACA
1 CAACAAAAACAACAGC-AAAATAACA
18082063 GTAAAAAAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
56 36 0.49
57 10 0.14
58 14 0.19
59 13 0.18
ACGTcount: A:0.70, C:0.19, G:0.05, T:0.06
Consensus pattern (58 bp):
CAACAAAAACAACAGCAAAATAACAACAAAACAACAACAAAAATAGCAACAAAAATAG
Found at i:18082062 original size:12 final size:12
Alignment explanation
Indices: 18081920--18082062 Score: 143
Period size: 12 Copynumber: 12.3 Consensus size: 12
18081910 ATAACATTCA
* *
18081920 AACAACCAAAAC
1 AACAACAAAAAT
*
18081932 AACAGCAAAAAT
1 AACAACAAAAAT
*
18081944 AACAAC-AAAAC
1 AACAACAAAAAT
18081955 AACAACAAAAAT
1 AACAACAAAAAT
*
18081967 AGCAACAAAAAT
1 AACAACAAAAAT
* *
18081979 AGCAATAAAAAT
1 AACAACAAAAAT
*
18081991 AACAGC-AAAAT
1 AACAACAAAAAT
*
18082002 AGCAAC-AAAA-
1 AACAACAAAAAT
18082012 AA-AACAAAAAT
1 AACAACAAAAAT
*
18082023 AGCAACAAAAAT
1 AACAACAAAAAT
* *
18082035 AGCAACAAAAAC
1 AACAACAAAAAT
18082047 AACAACAAAAAT
1 AACAACAAAAAT
18082059 AACA
1 AACA
18082063 GTAAAAAAGC
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
9 3 0.03
10 5 0.05
11 24 0.22
12 77 0.71
ACGTcount: A:0.70, C:0.19, G:0.05, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:18082083 original size:19 final size:19
Alignment explanation
Indices: 18082059--18082110 Score: 86
Period size: 21 Copynumber: 2.6 Consensus size: 19
18082049 CAACAAAAAT
18082059 AACAGTAAAAAAGCACCAA
1 AACAGTAAAAAAGCACCAA
18082078 AACAGTAAAAAAAAGCACCAA
1 AACAGT--AAAAAAGCACCAA
18082099 AACAGTAAAAAA
1 AACAGTAAAAAA
18082111 AATAAAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.39
21 19 0.61
ACGTcount: A:0.67, C:0.17, G:0.10, T:0.06
Consensus pattern (19 bp):
AACAGTAAAAAAGCACCAA
Found at i:18082091 original size:21 final size:21
Alignment explanation
Indices: 18082065--18082112 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
18082055 AAATAACAGT
18082065 AAAAAAGCACCAAAACAGTAA
1 AAAAAAGCACCAAAACAGTAA
18082086 AAAAAAGCACCAAAACAGTAA
1 AAAAAAGCACCAAAACAGTAA
18082107 AAAAAA
1 AAAAAA
18082113 TAAAAACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.71, C:0.17, G:0.08, T:0.04
Consensus pattern (21 bp):
AAAAAAGCACCAAAACAGTAA
Found at i:18084423 original size:12 final size:11
Alignment explanation
Indices: 18084374--18084434 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
18084364 ATTCCAAAAA
*
18084374 TAATACTATTT
1 TAATATTATTT
*
18084385 TAATAGTTTAATAT
1 TAATA--TT-ATTT
* *
18084399 TAAAATTAATT
1 TAATATTATTT
18084410 TAATACTTATTT
1 TAATA-TTATTT
18084422 TAATATTATTT
1 TAATATTATTT
18084433 TA
1 TA
18084435 TTAATTTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 19 0.49
12 12 0.31
13 1 0.03
14 7 0.18
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (11 bp):
TAATATTATTT
Found at i:18084449 original size:11 final size:11
Alignment explanation
Indices: 18084392--18084449 Score: 59
Period size: 12 Copynumber: 5.4 Consensus size: 11
18084382 TTTTAATAGT
*
18084392 TTAATATTAAAA
1 TTAAT-TTAATA
18084404 TTAATTTAATA
1 TTAATTTAATA
*
18084415 CTTATTTTAATA
1 -TTAATTTAATA
18084427 TT-ATTT--TA
1 TTAATTTAATA
18084435 TTAATTTAATA
1 TTAATTTAATA
18084446 TTAA
1 TTAA
18084450 AGTGAATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 3 0.08
11 13 0.33
12 15 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:18089562 original size:21 final size:21
Alignment explanation
Indices: 18089505--18089563 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
18089495 TATTAACAAT
*
18089505 AAAATAATAGCAAAAAATGAA
1 AAAATAATAGCAAAACATGAA
* * *
18089526 AAAACAACAACAAAACATGAA
1 AAAATAATAGCAAAACATGAA
18089547 AAAATAATAGCAAAACA
1 AAAATAATAGCAAAACA
18089564 ACAAAGATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAATAATAGCAAAACATGAA
Found at i:18090486 original size:1 final size:1
Alignment explanation
Indices: 18090480--18090509 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
18090470 GCAAAACTCC
18090480 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18090510 GAGTACTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18100972 original size:32 final size:32
Alignment explanation
Indices: 18100931--18100993 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
18100921 TAGTATGGAG
18100931 TATGGACTTCCAACTATTACAATATCTCATCT
1 TATGGACTTCCAACTATTACAATATCTCATCT
18100963 TATGGACTTCCAACTATTACAATATCTCATC
1 TATGGACTTCCAACTATTACAATATCTCATC
18100994 CTCACCTATA
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:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (32 bp):
TATGGACTTCCAACTATTACAATATCTCATCT
Found at i:18103085 original size:24 final size:24
Alignment explanation
Indices: 18103057--18103119 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
18103047 AGAAATAATC
*
18103057 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTA
**
18103081 TTTCAAATAAACTCTATTTATTTA
1 TTTCAGTTAAACTCTATTTATTTA
* *
18103105 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
18103120 TATTACTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTA
Found at i:18104405 original size:12 final size:12
Alignment explanation
Indices: 18104388--18104412 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18104378 TTTTATCAAA
18104388 AAATAAATTTTT
1 AAATAAATTTTT
18104400 AAATAAATTTTT
1 AAATAAATTTTT
18104412 A
1 A
18104413 TTTTTTAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAAATTTTT
Found at i:18108590 original size:195 final size:193
Alignment explanation
Indices: 18108197--18108638 Score: 478
Period size: 195 Copynumber: 2.3 Consensus size: 193
18108187 TACCAGTACT
* * * *
18108197 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACGTATACGGTACCCCAGCCATCGATACGGT
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGGT
* * * * *
18108262 GCCTGTCTATACTATAAACTGTTCCCTAACGATTCTGCTCACACGAGCTGTCGAGAGTATGCGTA
66 ACCTGTC--TACTATAAACTGTTACCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCCTA
* * * **
18108327 AAACATAGTCCTAGCTATCGTAAGGCCTATAATCCATTTAGGATCCATATCTCTTTCCCGGGTCA
129 AAACATAATCCTAGCCATCGTAAGGCCTATAATCCATTTAGGATCCATATCTCATTCCCGACTCA
* * * * *
18108392 CGATGCTACTCACACGAGCTATTGAGGACTCGTAACATATGCGGTGCCTCAGCCATCGATATGGT
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGGT
* * *
18108457 ATCTGTGC-A-TAT-AACTGTTACTTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTC
66 ACCTGT-CTACTATAAACTGTTACCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGC-CTA
** * * * * * * *
18108519 ATGCATAAAT-CTCAGCCATCGTAGGGCTTGTAATCCATTCTTGGATTCTTTTCTCATTCCCTGA
129 AAACAT-AATCCT-AGCCATCGTAAGGCCTATAATCCATT-TAGGATCCATATCTCATTCCC-GA
18108583 CTCA
190 CTCA
* * *
18108587 CGATGCTAATCACACGAGTTGTCGAGGAATCGCAACATATGCGGTACCTCAG
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAG
18108639 TTATCGTGTC
Statistics
Matches: 203, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
191 42 0.21
192 10 0.05
193 25 0.12
194 16 0.08
195 109 0.54
196 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (193 bp):
CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGGT
ACCTGTCTACTATAAACTGTTACCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCCTAAA
ACATAATCCTAGCCATCGTAAGGCCTATAATCCATTTAGGATCCATATCTCATTCCCGACTCA
Found at i:18112380 original size:30 final size:31
Alignment explanation
Indices: 18112307--18112382 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
18112297 AATGTAATAT
* *
18112307 TTGGTACTTGAACTTAACACTTTTTCCTAAT
1 TTGGTACTTAAACTTAACACTTTTTCCTAAG
* *
18112338 TTGGTA-TCTAAACTTGAC-CATTTTT-TTAAG
1 TTGGTACT-TAAACTTAACAC-TTTTTCCTAAG
18112368 TTGGTACTTAAACTT
1 TTGGTACTTAAACTT
18112383 TTTGGGGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 18 0.47
31 20 0.53
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (31 bp):
TTGGTACTTAAACTTAACACTTTTTCCTAAG
Found at i:18112648 original size:31 final size:32
Alignment explanation
Indices: 18112615--18112725 Score: 108
Period size: 31 Copynumber: 3.7 Consensus size: 32
18112605 AAAAGATTAG
* *
18112615 GTACTAAATTAGG-AAAAAATGTCAAGTTTAG
1 GTACCAAATTAGGTAAAAAATGTCAAGTTTAA
* **
18112646 GTACCAAATTGGGTTCAAAA----AAGTTTAA
1 GTACCAAATTAGGTAAAAAATGTCAAGTTTAA
* * *
18112674 GTATCAAATTAAG-AAAAAGTGTCAAGTTTAA
1 GTACCAAATTAGGTAAAAAATGTCAAGTTTAA
18112705 GTACCAAATTAGGTAAAAAAT
1 GTACCAAATTAGGTAAAAAAT
18112726 TTAGCTACCA
Statistics
Matches: 60, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
27 3 0.05
28 17 0.28
31 30 0.50
32 10 0.17
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (32 bp):
GTACCAAATTAGGTAAAAAATGTCAAGTTTAA
Found at i:18112697 original size:59 final size:57
Alignment explanation
Indices: 18112603--18112769 Score: 189
Period size: 59 Copynumber: 2.9 Consensus size: 57
18112593 TTGAATCTTA
* * * *
18112603 AAAAAAGATTAGGTACTAAATTAGGAAAAAATGTCAAGTTTAGGTACCAAATTGGGTT
1 AAAAAAGTTTAAGTAC-AAATTAAGAAAAAATGTCAAGTTTAAGTACCAAATTGGGTT
* *
18112661 CAAAAAAGTTTAAGTATCAAATTAAGAAAAAGTGTCAAGTTTAAGTACCAAATTAGG-T
1 -AAAAAAGTTTAAGTA-CAAATTAAGAAAAAATGTCAAGTTTAAGTACCAAATTGGGTT
*
18112719 AAAAAA-TTT-AGCTACCAAATT-AGAAAAAAATATCAAGTTTAAGTACCAAAT
1 AAAAAAGTTTAAG-TA-CAAATTAAG-AAAAAATGTCAAGTTTAAGTACCAAAT
18112770 GTTATAATAA
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
55 4 0.04
56 36 0.38
57 6 0.06
58 1 0.01
59 48 0.50
60 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (57 bp):
AAAAAAGTTTAAGTACAAATTAAGAAAAAATGTCAAGTTTAAGTACCAAATTGGGTT
Found at i:18112769 original size:31 final size:31
Alignment explanation
Indices: 18112615--18112769 Score: 89
Period size: 31 Copynumber: 5.3 Consensus size: 31
18112605 AAAAGATTAG
* * * *
18112615 GTACTAAATTAGGAAAAAATGTCAAGTTTAG
1 GTACCAAATTAGAAAAAAATATCAAGTTTAA
* ****
18112646 GTACCAAATTGGGTTCAAA-A--AAGTTTAA
1 GTACCAAATTAGAAAAAAATATCAAGTTTAA
* * *
18112674 GTATCAAATTA-AGAAAAAGTGTCAAGTTTAA
1 GTACCAAATTAGA-AAAAAATATCAAGTTTAA
**
18112705 GTACCAAATTAG--GTAAA-A--AA-TTT-A
1 GTACCAAATTAGAAAAAAATATCAAGTTTAA
18112729 GCTACCAAATTAGAAAAAAATATCAAGTTTAA
1 G-TACCAAATTAGAAAAAAATATCAAGTTTAA
18112761 GTACCAAAT
1 GTACCAAAT
18112770 GTTATAATAA
Statistics
Matches: 89, Mismatches: 22, Indels: 26
0.65 0.16 0.19
Matches are distributed among these distances:
24 2 0.02
25 14 0.16
26 2 0.02
27 3 0.03
28 19 0.21
29 2 0.02
30 2 0.02
31 43 0.48
32 2 0.02
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.28
Consensus pattern (31 bp):
GTACCAAATTAGAAAAAAATATCAAGTTTAA
Found at i:18113009 original size:16 final size:16
Alignment explanation
Indices: 18112988--18113021 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18112978 TTTTTTCCTA
18112988 TTTTCTTTCTCTTTTT
1 TTTTCTTTCTCTTTTT
*
18113004 TTTTCTTTTTCTTTTT
1 TTTTCTTTCTCTTTTT
18113020 TT
1 TT
18113022 AAACAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCTTTCTCTTTTT
Found at i:18114016 original size:17 final size:17
Alignment explanation
Indices: 18113982--18114019 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18113972 AGCTCACACA
*
18113982 CTTGGTGAGTTCATAGT
1 CTTGGTGAGTTCACAGT
*
18113999 CTTGGTGAGTTCGCAGT
1 CTTGGTGAGTTCACAGT
18114016 CTTG
1 CTTG
18114020 ATGTGCTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.16, G:0.32, T:0.39
Consensus pattern (17 bp):
CTTGGTGAGTTCACAGT
Found at i:18115464 original size:17 final size:18
Alignment explanation
Indices: 18115439--18115519 Score: 66
Period size: 17 Copynumber: 4.7 Consensus size: 18
18115429 ATTAAGGAAG
18115439 ATGGAAGGTTAAAGGTCA
1 ATGGAAGGTTAAAGGTCA
*
18115457 ATGG-AGGTT-AAGG-AA
1 ATGGAAGGTTAAAGGTCA
*
18115472 GATGGAAGGTTAAAAGTCA
1 -ATGGAAGGTTAAAGGTCA
* *
18115491 A-GGGAGGTT-AAGG-AA
1 ATGGAAGGTTAAAGGTCA
18115506 GATGGAAGGTTAAA
1 -ATGGAAGGTTAAA
18115520 AGTTAAAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
15 2 0.04
16 12 0.24
17 24 0.49
18 10 0.20
19 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.37, T:0.20
Consensus pattern (18 bp):
ATGGAAGGTTAAAGGTCA
Found at i:18115473 original size:34 final size:34
Alignment explanation
Indices: 18115430--18115522 Score: 168
Period size: 34 Copynumber: 2.7 Consensus size: 34
18115420 ATATGAAAAA
* *
18115430 TTAAGGAAGATGGAAGGTTAAAGGTCAATGGAGG
1 TTAAGGAAGATGGAAGGTTAAAAGTCAAGGGAGG
18115464 TTAAGGAAGATGGAAGGTTAAAAGTCAAGGGAGG
1 TTAAGGAAGATGGAAGGTTAAAAGTCAAGGGAGG
18115498 TTAAGGAAGATGGAAGGTTAAAAGT
1 TTAAGGAAGATGGAAGGTTAAAAGT
18115523 TAAAAGAGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.41, C:0.02, G:0.37, T:0.20
Consensus pattern (34 bp):
TTAAGGAAGATGGAAGGTTAAAAGTCAAGGGAGG
Found at i:18117443 original size:29 final size:28
Alignment explanation
Indices: 18117401--18117471 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
18117391 ACCGGGGTTA
* * *
18117401 AAAATGAGACTTTTTGAATACCCAAGGGC
1 AAAATGATAATTTTAGAAT-CCCAAGGGC
* * *
18117430 AAAATGATAATTTTAGACTCTCAGGGGC
1 AAAATGATAATTTTAGAATCCCAAGGGC
*
18117458 AAAATGGTAATTTT
1 AAAATGATAATTTT
18117472 GGGAAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
28 20 0.57
29 15 0.43
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (28 bp):
AAAATGATAATTTTAGAATCCCAAGGGC
Found at i:18117754 original size:30 final size:30
Alignment explanation
Indices: 18117718--18117969 Score: 248
Period size: 30 Copynumber: 8.5 Consensus size: 30
18117708 ATCCGGGGGT
* * *
18117718 AAAATGGTAATTTTAG-GAGTTTCGGGGTCA
1 AAAAT-GTAATTTTTGAAAGTTTTGGGGTCA
* ** *
18117748 AAAATGGAATTTTT-AGAAG-TTTAAGGCCA
1 AAAATGTAATTTTTGA-AAGTTTTGGGGTCA
* *
18117777 AAAATAG-AATTTTTGGAAG-TTCGGGGTCA
1 AAAAT-GTAATTTTTGAAAGTTTTGGGGTCA
* *
18117806 AAAATGTAATTTTTGAAAGTTTCGAGGTCA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* *
18117836 AAATTGTAATTTTTGAAAGTTTTGAGGTCA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* *
18117866 AAATTGTAATTTTTGAAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
* *
18117896 AAAATGTAATTTTAGAGAAGTTTTGGGGT-T
1 AAAATGTAATTTTTGA-AAGTTTTGGGGTCA
* *
18117926 AAAATGTAATTTTGGAAAATTTTGGGGTC-
1 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
18117955 AAAATGTAATTTTTG
1 AAAATGTAATTTTTG
18117970 GATAGTTTAA
Statistics
Matches: 190, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
28 1 0.01
29 75 0.39
30 102 0.54
31 12 0.06
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAGTTTTGGGGTCA
Found at i:18118939 original size:18 final size:18
Alignment explanation
Indices: 18118897--18118939 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18118887 TGTTTTTATT
* *
18118897 TCATTTTTTCTTTTTTCT
1 TCATTTTTTATTTTTTCG
18118915 TCATTTTTTATTTATTTCG
1 TCATTTTTTATTT-TTTCG
18118934 TC-TTTT
1 TCATTTT
18118940 CTTTACTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.74
Consensus pattern (18 bp):
TCATTTTTTATTTTTTCG
Found at i:18119110 original size:18 final size:16
Alignment explanation
Indices: 18119086--18119130 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
18119076 TTTTTTAAAA
18119086 AAAATTAATTATTTAAT
1 AAAATT-ATTATTTAAT
18119103 AAATATTATTA-TTAAT
1 AAA-ATTATTATTTAAT
18119119 AAAATTATTATT
1 AAAATTATTATT
18119131 AACATTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.27
16 9 0.35
17 7 0.27
18 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAATTATTATTTAAT
Found at i:18119127 original size:15 final size:15
Alignment explanation
Indices: 18119086--18119132 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 15
18119076 TTTTTTAAAA
18119086 AAAATTAATTATTTAAT
1 AAAATT-ATTA-TTAAT
18119103 AAATATTATTATTAAT
1 AAA-ATTATTATTAAT
18119119 AAAATTATTATTAA
1 AAAATTATTATTAA
18119133 CATTAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.38
16 8 0.28
17 7 0.24
18 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTATTATTAAT
Found at i:18119925 original size:6 final size:6
Alignment explanation
Indices: 18119916--18120002 Score: 69
Period size: 6 Copynumber: 14.8 Consensus size: 6
18119906 TTAATATTAT
* *
18119916 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -GTAAA TTTAAA TAAGTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
*
18119963 TTTAAA TTTAAGA --TAAA TTTAAA ATT-AA TTTAAA CTTTAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA -TTTAA
18120003 TTAAAAATCA
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
4 3 0.05
5 15 0.23
6 36 0.55
7 6 0.09
8 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:18119939 original size:11 final size:11
Alignment explanation
Indices: 18119916--18119996 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
18119906 TTAATATTAT
*
18119916 TTTAAATTTAA
1 TTTAAATTAAA
18119927 -TTAAATTTAAA
1 TTTAAA-TTAAA
*
18119938 TTTAAAGTAAA
1 TTTAAATTAAA
18119949 TTTAAA-T-AA
1 TTTAAATTAAA
*
18119958 -GTAAATTTAAA
1 TTTAAA-TTAAA
18119969 TTTAAGA-TAAA
1 TTTAA-ATTAAA
18119980 TTTAAAATT-AA
1 TTT-AAATTAAA
18119991 TTTAAA
1 TTTAAA
18119997 CTTTAATTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
8 4 0.07
9 2 0.04
10 10 0.18
11 29 0.51
12 11 0.19
13 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:18119996 original size:17 final size:16
Alignment explanation
Indices: 18119916--18119990 Score: 100
Period size: 17 Copynumber: 4.7 Consensus size: 16
18119906 TTAATATTAT
*
18119916 TTTAAATTTAATTAAA
1 TTTAAATTTAAGTAAA
18119932 TTTAAATTTAAAGTAAA
1 TTTAAATTT-AAGTAAA
18119949 TTTAAA--TAAGTAAA
1 TTTAAATTTAAGTAAA
18119963 TTTAAATTTAAGATAAA
1 TTTAAATTTAAG-TAAA
*
18119980 TTTAAAATTAA
1 TTTAAATTTAA
18119991 TTTAAACTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 13 0.25
15 1 0.02
16 13 0.25
17 26 0.49
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAAGTAAA
Found at i:18120004 original size:12 final size:11
Alignment explanation
Indices: 18119899--18120010 Score: 52
Period size: 11 Copynumber: 10.2 Consensus size: 11
18119889 GTATTTTTAT
*
18119899 ATTAAGTTTAAT
1 ATTAA-TTTAAA
*
18119911 ATTATTTTAAA
1 ATTAATTTAAA
*
18119922 TTTAA-TTAAA
1 ATTAATTTAAA
*
18119932 TTTAAATTTAAA
1 ATT-AATTTAAA
* *
18119944 GTAAATTT-AA
1 ATTAATTTAAA
*
18119954 A-TAA-GTAAA
1 ATTAATTTAAA
* *
18119963 TTTAAATTTAAG
1 ATT-AATTTAAA
*
18119975 ATAAATTTAAA
1 ATTAATTTAAA
18119986 ATTAATTTAAA
1 ATTAATTTAAA
* *
18119997 CTTTAATTAAAA
1 -ATTAATTTAAA
18120009 AT
1 AT
18120011 CAAAAGCTCA
Statistics
Matches: 74, Mismatches: 19, Indels: 15
0.69 0.18 0.14
Matches are distributed among these distances:
8 1 0.01
9 4 0.05
10 11 0.15
11 35 0.47
12 23 0.31
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.45
Consensus pattern (11 bp):
ATTAATTTAAA
Found at i:18122586 original size:29 final size:30
Alignment explanation
Indices: 18122546--18122734 Score: 129
Period size: 29 Copynumber: 6.5 Consensus size: 30
18122536 ACCTGGGGGC
18122546 AAAATGGTAATTTTGGTGAAATTGGGGTTA
1 AAAATGGTAATTTTGGTGAAATTGGGGTTA
18122576 AAAATGG-AATTTT--T-AAGAGTTCGAGGG-T-
1 AAAATGGTAATTTTGGTGAA-A-TT-G-GGGTTA
*
18122604 AAAATGGTAATTTTTGGTGAAATTGGGGTCA
1 AAAATGGTAA-TTTTGGTGAAATTGGGGTTA
* *
18122635 AAAATAG-AATTTT-G-GAAAGTTTAGAGG-T-
1 AAAATGGTAATTTTGGTGAAA--TT-GGGGTTA
* *
18122663 AAAATGGTAATTTTGATGAAATCGGGGTTA
1 AAAATGGTAATTTTGGTGAAATTGGGGTTA
*
18122693 AAAATGG-AATTTT-G-GAAAGTTTGGGGGT-
1 AAAATGGTAATTTTGGTGAAA--TTGGGGTTA
18122721 AAAATGGTAATTTT
1 AAAATGGTAATTTT
18122735 TGGAAGTTTC
Statistics
Matches: 126, Mismatches: 11, Indels: 45
0.69 0.06 0.25
Matches are distributed among these distances:
26 2 0.02
27 10 0.08
28 26 0.21
29 45 0.36
30 27 0.21
31 12 0.10
32 2 0.02
33 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTGGTGAAATTGGGGTTA
Found at i:18122638 original size:59 final size:57
Alignment explanation
Indices: 18122546--18122734 Score: 263
Period size: 58 Copynumber: 3.2 Consensus size: 57
18122536 ACCTGGGGGC
*
18122546 AAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAATTTT-TAAGAGTTCGAGGGT
1 AAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAA-AGTT-GAGGGT
* * *
18122604 AAAATGGTAATTTTTGGTGAAATTGGGGTCAAAAATAGAATTTTGGAAAGTTTAGAGGT
1 AAAATGGTAA-TTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTGAG-GGT
* * *
18122663 AAAATGGTAATTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAG-TTGAGGGT
18122721 AAAATGGTAATTTT
1 AAAATGGTAATTTT
18122735 TGGAAGTTTC
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
58 64 0.55
59 51 0.44
60 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (57 bp):
AAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTGAGGGT
Done.