Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 134 of 322
Found at i:43868253 original size:35 final size:37
Alignment explanation
Indices: 43868207--43868278 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 37
43868197 ATAATCTTCA
43868207 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
43868243 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGA
43868279 CGATATGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 19 0.56
36 5 0.15
37 10 0.29
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:43868285 original size:17 final size:16
Alignment explanation
Indices: 43868209--43868285 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 16
43868199 AATCTTCAAT
43868209 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
* *
43868225 TATGATACAATCTTAGA
1 GAT-ATGCAATCTTAGA
*
43868242 TATGATTGCAATCTTAGATA
1 GAT-A-TGCAATCTTAG--A
43868262 TGATATGCAATCTTAGA
1 -GATATGCAATCTTAGA
43868279 CGATATG
1 -GATATG
43868286 ATTTTGTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.04
17 24 0.47
18 10 0.20
19 11 0.22
20 2 0.04
21 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (16 bp):
GATATGCAATCTTAGA
Found at i:43868314 original size:21 final size:23
Alignment explanation
Indices: 43868270--43868314 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43868260 TATGATATGC
*
43868270 AATCTTAGACGATATGATTTTGT
1 AATCTTAGACGATATGAATTTGT
*
43868293 AATCTTAGA-GAT-TTAATTTGT
1 AATCTTAGACGATATGAATTTGT
43868314 A
1 A
43868315 GATACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
AATCTTAGACGATATGAATTTGT
Found at i:43872851 original size:19 final size:20
Alignment explanation
Indices: 43872814--43872851 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
43872804 AAAAACCGTC
**
43872814 AAAACTTTTTATTTTCTCCT
1 AAAACTTTTTATTCCCTCCT
43872834 AAAA-TTTTTATTCCCTCC
1 AAAACTTTTTATTCCCTCC
43872852 AACTTTCCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAACTTTTTATTCCCTCCT
Found at i:43872981 original size:16 final size:17
Alignment explanation
Indices: 43872938--43872981 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
43872928 TATTTTCCCT
43872938 CCAAAATTTTACTCTCC
1 CCAAAATTTTACTCTCC
43872955 CTCAAAATTTTA-T-TCC
1 C-CAAAATTTTACTCTCC
43872971 CCAAAACTTTT
1 CCAAAA-TTTT
43872982 TATTTTCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.20
16 8 0.32
17 2 0.08
18 10 0.40
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.39
Consensus pattern (17 bp):
CCAAAATTTTACTCTCC
Found at i:43877424 original size:14 final size:13
Alignment explanation
Indices: 43877398--43877439 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
43877388 GGGAAGGAAG
43877398 AAAGAAAAAGAGA
1 AAAGAAAAAGAGA
43877411 AAAGAAAGAAGAGA
1 AAAGAAA-AAGAGA
*
43877425 GAAG-AAAAGAGA
1 AAAGAAAAAGAGA
43877437 AAA
1 AAA
43877440 TTAAAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 9 0.35
14 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAGA
Found at i:43880081 original size:18 final size:17
Alignment explanation
Indices: 43880060--43880095 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
43880050 TTAATAAATA
*
43880060 TAATTAATTAAGAAATTT
1 TAATTAAATAAG-AATTT
43880078 TAATTAAATAAGAATTT
1 TAATTAAATAAGAATTT
43880095 T
1 T
43880096 GATTTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TAATTAAATAAGAATTT
Found at i:43888964 original size:17 final size:17
Alignment explanation
Indices: 43888939--43888975 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
43888929 CATGAAAAGG
43888939 AAATATGTTCAAATATA
1 AAATATGTTCAAATATA
*
43888956 AAATGTGTTCAAATATA
1 AAATATGTTCAAATATA
43888973 AAA
1 AAA
43888976 CCTTGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (17 bp):
AAATATGTTCAAATATA
Found at i:43897910 original size:79 final size:81
Alignment explanation
Indices: 43897808--43897992 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43897798 GCTCCTCGTT
* * *
43897808 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
43897871 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
43897888 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
43897952 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
43897968 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43897993 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:43897992 original size:40 final size:40
Alignment explanation
Indices: 43897808--43897992 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
43897798 GCTCCTCGTT
* *
43897808 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
43897848 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
43897888 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
43897927 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
43897968 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43897993 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:43901112 original size:13 final size:13
Alignment explanation
Indices: 43901091--43901161 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 13
43901081 AAATTTTTCC
43901091 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
43901104 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
43901117 AAAGCACTTTTCC
1 AAAGCACTTCTCA
* * *
43901130 ACATCACTTTTCA
1 AAAGCACTTCTCA
*
43901143 AAAGCACTTTTCA
1 AAAGCACTTCTCA
43901156 AAAGCA
1 AAAGCA
43901162 ATGAAGAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:43901125 original size:26 final size:27
Alignment explanation
Indices: 43901091--43901159 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
43901081 AAATTTTTCC
*
43901091 AAAGCACTTCTCAAAAGT-ACTTCTCA
1 AAAGCACTTTTCAAAAGTCACTTCTCA
* * *
43901117 AAAGCACTTTTCCACA-TCACTTTTCA
1 AAAGCACTTTTCAAAAGTCACTTCTCA
43901143 AAAGCACTTTTCAAAAG
1 AAAGCACTTTTCAAAAG
43901160 CAATGAAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAGCACTTTTCAAAAGTCACTTCTCA
Found at i:43901138 original size:39 final size:39
Alignment explanation
Indices: 43901085--43901161 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
43901075 ACACTTAAAT
*
43901085 TTTTCCAAAGCACTTCTCAAAAGTACTTCTCAAAAGCAC
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
* * * *
43901124 TTTTCCACATCACTTTTCAAAAGCACTTTTCAAAAGCA
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCA
43901162 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.31
Consensus pattern (39 bp):
TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
Found at i:43908335 original size:6 final size:6
Alignment explanation
Indices: 43908324--43908386 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
43908314 ATATAAAGGG
*
43908324 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAACAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
43908372 AAACAT AAAGAT AAA
1 AAAAAT AAAAAT AAA
43908387 TGGACTCAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:43911006 original size:198 final size:196
Alignment explanation
Indices: 43910675--43911063 Score: 510
Period size: 198 Copynumber: 2.0 Consensus size: 196
43910665 GACACGCCCA
* * * *
43910675 TGTGTCCAGGCCGTGTAGTTCACATGGCCGTATCGCATGGCCGTGTACAATGTTGTTCGCTTCTC
1 TGTGTCCAGGACGTGTAGTCCACATGGCCGTATCGCATGGCCATGTACAATGTTGTTCACTTCTC
** * *
43910740 CCACGCCCGTGTGGTCTCCCACATGCCTATGTATCTGAACACATGGCCATGTACCTCGCCCGTGT
66 CCACGCCCGTGTGGTCTCCCACACACCTATGTATCTGAACACACGGCCATGTACCTCGCCCATGT
** *
43910805 AGCTCAATGAATTTTTTTAAAATTTGAAAAATTAAGC-TCTAGTTTTCACACAGCCTAGGACACG
131 AGCTCAATGAATTGGTTTAAAA-TT-AAAAATTAAGCTTC-AGTTTTCACACAGCCAAGGACACG
43910869 CTAG
193 CTAG
* * * **
43910873 TGTGTCCAGGACGTGTGGTCCACATGGCCGTGTTGCATGGCCATGTGTAATGTTGTTCACTTCTC
1 TGTGTCCAGGACGTGTAGTCCACATGGCCGTATCGCATGGCCATGTACAATGTTGTTCACTTCTC
* * * * * *
43910938 CCACGCCCGTGTGGTCTCCCACACACCTGTGTGTCTGAACACACGGTCGTGTGCCTTGCCCATGT
66 CCACGCCCGTGTGGTCTCCCACACACCTATGTATCTGAACACACGGCCATGTACCTCGCCCATGT
** * *
43911003 AGCTCTCTGACTTGGTTTAAAATTAAAAATTTAGCTTCAGTTTTCACACAGCCAAGGACAC
131 AGCTCAATGAATTGGTTTAAAATTAAAAATTAAGCTTCAGTTTTCACACAGCCAAGGACAC
43911064 ATCCATATGT
Statistics
Matches: 164, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
196 32 0.20
197 4 0.02
198 128 0.78
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (196 bp):
TGTGTCCAGGACGTGTAGTCCACATGGCCGTATCGCATGGCCATGTACAATGTTGTTCACTTCTC
CCACGCCCGTGTGGTCTCCCACACACCTATGTATCTGAACACACGGCCATGTACCTCGCCCATGT
AGCTCAATGAATTGGTTTAAAATTAAAAATTAAGCTTCAGTTTTCACACAGCCAAGGACACGCTA
G
Found at i:43920623 original size:17 final size:17
Alignment explanation
Indices: 43920603--43920638 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43920593 ATAATAATGA
43920603 ATTTTAGAATTTTTTAT
1 ATTTTAGAATTTTTTAT
43920620 ATTTTAGAATTTTTTAT
1 ATTTTAGAATTTTTTAT
43920637 AT
1 AT
43920639 ATTTTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
ATTTTAGAATTTTTTAT
Found at i:43920634 original size:27 final size:29
Alignment explanation
Indices: 43920597--43920662 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
43920587 ATTTAGATAA
43920597 TAATGAA--TTTTAGA-ATTTTTT-ATATT
1 TAATGAATTTTTTAGATATTTTTTCAT-TT
* *
43920623 TTA-GAATTTTTTATATATTTTTTCATTT
1 TAATGAATTTTTTAGATATTTTTTCATTT
43920651 TAATGAATTTTT
1 TAATGAATTTTT
43920663 ATTGTTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 6 0.19
28 11 0.34
29 10 0.31
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (29 bp):
TAATGAATTTTTTAGATATTTTTTCATTT
Found at i:43920697 original size:14 final size:14
Alignment explanation
Indices: 43920680--43920710 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43920670 TTCATAGTTT
*
43920680 TTTTTATTTTTTTA
1 TTTTTATGTTTTTA
43920694 TTTTTATGTTTTTA
1 TTTTTATGTTTTTA
43920708 TTT
1 TTT
43920711 AAAATATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (14 bp):
TTTTTATGTTTTTA
Found at i:43922397 original size:30 final size:30
Alignment explanation
Indices: 43922349--43922406 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43922339 TTTAAATCCT
* * *
43922349 AAGCTTCTGAACGCGATATCGAGTCTTCAC
1 AAGCTCCTAAACGAGATATCGAGTCTTCAC
*
43922379 AAGCTCCTAAACGAGATATCTAGTCTTC
1 AAGCTCCTAAACGAGATATCGAGTCTTC
43922407 TCAATCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (30 bp):
AAGCTCCTAAACGAGATATCGAGTCTTCAC
Found at i:43924704 original size:24 final size:24
Alignment explanation
Indices: 43924659--43924705 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
43924649 ATATATAATC
*
43924659 AGAAACAGATACAGTGTCAGATTT
1 AGAAACAGATACAGTCTCAGATTT
* * *
43924683 AGAATCAGATCCAGTCTTAGATT
1 AGAAACAGATACAGTCTCAGATT
43924706 ATTGAAGCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (24 bp):
AGAAACAGATACAGTCTCAGATTT
Found at i:43925253 original size:23 final size:23
Alignment explanation
Indices: 43925227--43925277 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
43925217 ACGCCCAACT
43925227 TGGCCTAGCCCATATGGCCCACA
1 TGGCCTAGCCCATATGGCCCACA
* *
43925250 TGGCCTAGCCCGTGTGGCCCACA
1 TGGCCTAGCCCATATGGCCCACA
43925273 TGGCC
1 TGGCC
43925278 ACACTCAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.39, G:0.27, T:0.18
Consensus pattern (23 bp):
TGGCCTAGCCCATATGGCCCACA
Found at i:43926874 original size:35 final size:35
Alignment explanation
Indices: 43926835--43926902 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
43926825 GTGCCCAGCA
*
43926835 TCGTGCCCACGACTCCAGCCGCGACAGAATAAGCG
1 TCGTGCCCACGACTCCAACCGCGACAGAATAAGCG
*
43926870 TCGTGCCCACGACTCCAACCGTGACAGAATAAG
1 TCGTGCCCACGACTCCAACCGCGACAGAATAAG
43926903 ACCACGAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.35, G:0.24, T:0.13
Consensus pattern (35 bp):
TCGTGCCCACGACTCCAACCGCGACAGAATAAGCG
Found at i:43926922 original size:28 final size:28
Alignment explanation
Indices: 43926876--43926929 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
43926866 AGCGTCGTGC
* *
43926876 CCACGACTCCAACCGTGACAGAATAAGA
1 CCACGAATCCAACCATGACAGAATAAGA
*
43926904 CCACGAATCCAGCCATGACAGAATAA
1 CCACGAATCCAACCATGACAGAATAA
43926930 AAAGAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.31, G:0.17, T:0.11
Consensus pattern (28 bp):
CCACGAATCCAACCATGACAGAATAAGA
Found at i:43927673 original size:13 final size:13
Alignment explanation
Indices: 43927655--43927694 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
43927645 CAAATCATCA
43927655 AACTTTTTTTTTT
1 AACTTTTTTTTTT
43927668 AACTTTTCTTTTTT
1 AACTTTT-TTTTTT
**
43927682 TTCTTTTTTTTTT
1 AACTTTTTTTTTT
43927695 CGAATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (13 bp):
AACTTTTTTTTTT
Found at i:43927682 original size:8 final size:9
Alignment explanation
Indices: 43927671--43927736 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 9
43927661 TTTTTTTAAC
43927671 TTTTCTTTT
1 TTTTCTTTT
43927680 TTTTCTTTTTT
1 TTTTC--TTTT
43927691 TTTTCGAATTATT
1 TTTTC---TT-TT
43927704 TTTTCTTTT
1 TTTTCTTTT
*
43927713 TTGTGCTTTTT
1 TT-TTC-TTTT
43927724 TTTTCTTTT
1 TTTTCTTTT
43927733 TTTT
1 TTTT
43927737 TTGAACATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
9 17 0.36
10 6 0.13
11 15 0.32
12 2 0.04
13 7 0.15
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.82
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:43927714 original size:21 final size:19
Alignment explanation
Indices: 43927688--43927735 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
43927678 TTTTTTCTTT
43927688 TTTTTTTCGAATTATTTTTTC
1 TTTTTTT-G-ATTATTTTTTC
* *
43927709 TTTTTTGTGCTTTTTTTTTC
1 TTTTTT-TGATTATTTTTTC
43927729 TTTTTTT
1 TTTTTTT
43927736 TTTGAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 15 0.62
21 7 0.29
22 1 0.04
ACGTcount: A:0.06, C:0.08, G:0.06, T:0.79
Consensus pattern (19 bp):
TTTTTTTGATTATTTTTTC
Found at i:43928869 original size:250 final size:252
Alignment explanation
Indices: 43928426--43928927 Score: 927
Period size: 250 Copynumber: 2.0 Consensus size: 252
43928416 ATGGCTGAGG
*
43928426 TAAAGGAAGGAGAGTATTTCCGTGATGTTCTCTTCTAGGGTCTGCAGGGGTCTGAACAAACGACA
1 TAAAGGAAGGAGAGTATTTCCGTGATGTTCTCTTCTAGGGCCTGCAGGGGTCTGAACAAACGACA
43928491 AATAAATAAAAAAATTAAAATTGATGAAAAGTAAACAAATGGGTTGCCTCCCATTTAGCGCTTTG
66 AATAAATAAAAAAATTAAAATTGATGAAAAGTAAACAAATGGGTTGCCTCCCATTTAGCGCTTTG
43928556 TTTAACGTCGTTAAGCTCGACATTTTCCTGTCAGATTTTTGGCTCTTCCAACCCGATTTCTTCAA
131 TTTAACGTCGTTAAGCTCGACATTTTCCTGTCAGATTTTTGGCTCTTCCAACCCGATTTCTTCAA
43928621 TTAGTCCGATTGGTGTGCTCTCGAAGAAAGGTTTTAGCCGTTGTCCATTAACTTTAA
196 TTAGTCCGATTGGTGTGCTCTCGAAGAAAGGTTTTAGCCGTTGTCCATTAACTTTAA
*
43928678 TAAAGGAAGGAGAGTATTTCCGTGATGTTCTCTTCTAGGGCCTGGAGGGGTCTGAACAAACGACA
1 TAAAGGAAGGAGAGTATTTCCGTGATGTTCTCTTCTAGGGCCTGCAGGGGTCTGAACAAACGACA
** *
43928743 AAT-AA-AAAAAGTTTAAAATTGATGAAAAGTAAACAAATGGGTTGCCTTCCATTTAGCGCTTTG
66 AATAAATAAAAAAATTAAAATTGATGAAAAGTAAACAAATGGGTTGCCTCCCATTTAGCGCTTTG
*
43928806 TTTAACGTCGTTAAGCTCGACATTTTCCTGTCAGATTTTTGGTTCTTCCAACCCGATTTCTTCAA
131 TTTAACGTCGTTAAGCTCGACATTTTCCTGTCAGATTTTTGGCTCTTCCAACCCGATTTCTTCAA
*
43928871 TTAGTTCGATTGGTGTGCTCTCGAAGAAAGGTTTTAGCCGTTGTCCATTAACTTTAA
196 TTAGTCCGATTGGTGTGCTCTCGAAGAAAGGTTTTAGCCGTTGTCCATTAACTTTAA
43928928 ACCGTGCACC
Statistics
Matches: 243, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
250 175 0.72
251 2 0.01
252 66 0.27
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (252 bp):
TAAAGGAAGGAGAGTATTTCCGTGATGTTCTCTTCTAGGGCCTGCAGGGGTCTGAACAAACGACA
AATAAATAAAAAAATTAAAATTGATGAAAAGTAAACAAATGGGTTGCCTCCCATTTAGCGCTTTG
TTTAACGTCGTTAAGCTCGACATTTTCCTGTCAGATTTTTGGCTCTTCCAACCCGATTTCTTCAA
TTAGTCCGATTGGTGTGCTCTCGAAGAAAGGTTTTAGCCGTTGTCCATTAACTTTAA
Found at i:43935423 original size:35 final size:35
Alignment explanation
Indices: 43935384--43935454 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
43935374 CGTCGTGCCC
*
43935384 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
43935419 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
43935454 A
1 A
43935455 AAAGAGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:43937251 original size:24 final size:23
Alignment explanation
Indices: 43937218--43937275 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
43937208 AGTTGAAAAG
43937218 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
43937242 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
43937264 TATATATAATAA
1 TATA-ATAATAA
43937276 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:43939618 original size:30 final size:31
Alignment explanation
Indices: 43939553--43939623 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
43939543 GTTTAATAAG
43939553 AATTTTGATTTTAATAGTAATAAAAATAATATA
1 AATTTT-ATTTTAATAG-AATAAAAATAATATA
*
43939586 AATTTTATTTTAATA-AA-AAATAATAATTTA
1 AATTTTATTTTAATAGAATAAA-AATAATATA
43939616 AATTTTAT
1 AATTTTAT
43939624 CATAAACTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 3 0.08
30 18 0.50
32 9 0.25
33 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
AATTTTATTTTAATAGAATAAAAATAATATA
Found at i:43941805 original size:62 final size:62
Alignment explanation
Indices: 43941701--43941905 Score: 184
Period size: 62 Copynumber: 3.3 Consensus size: 62
43941691 ACATCCTGCC
* * * * *
43941701 ACACAGCCTGGGCACACG-CCTGTGTGCCTTGGTCGTGTGGTTTTTA-AGTATAAACAGTGAGTT
1 ACACGGCCTGGGCACACGACC-GTGT-CCCTGGCCATGTGGTTTTTACACTA-AAACAGTGAGTT
* * * *
43941764 ACACGGCCTAGGCACATGCCCGTGTCCCTGGCCATGTGGTTTTATACCCTAAAA-AGTGAGTT
1 ACACGGCCTGGGCACACGACCGTGTCCCTGGCCATGTGGTTTT-TACACTAAAACAGTGAGTT
* * * ** **
43941826 ACACGACCTGGGCATACGACTGTGTCCCTGGCTGTGTGGTTTTATAC-CCCAAACAGTGAGTT
1 ACACGGCCTGGGCACACGACCGTGTCCCTGGCCATGTGGTTTT-TACACTAAAACAGTGAGTT
*
43941888 ACATGGCCTGGGCACACG
1 ACACGGCCTGGGCACACG
43941906 TCTGTGTCTT
Statistics
Matches: 117, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
61 4 0.03
62 85 0.73
63 24 0.21
64 4 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.26
Consensus pattern (62 bp):
ACACGGCCTGGGCACACGACCGTGTCCCTGGCCATGTGGTTTTTACACTAAAACAGTGAGTT
Found at i:43941911 original size:62 final size:62
Alignment explanation
Indices: 43941752--43941913 Score: 216
Period size: 62 Copynumber: 2.6 Consensus size: 62
43941742 TTTTAAGTAT
* * * * *
43941752 AAACAGTGAGTTACACGGCCTAGGCACATGCCCGTGTCCCTGGCCATGTGGTTTTATACCCT
1 AAACAGTGAGTTACACGGCCTGGGCACACGACTGTGTCCCTGGCCATGTGGTTTTATACCCC
* * * **
43941814 AAAAAGTGAGTTACACGACCTGGGCATACGACTGTGTCCCTGGCTGTGTGGTTTTATACCCC
1 AAACAGTGAGTTACACGGCCTGGGCACACGACTGTGTCCCTGGCCATGTGGTTTTATACCCC
* *
43941876 AAACAGTGAGTTACATGGCCTGGGCACACGTCTGTGTC
1 AAACAGTGAGTTACACGGCCTGGGCACACGACTGTGTC
43941914 TTTGGTCGTA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (62 bp):
AAACAGTGAGTTACACGGCCTGGGCACACGACTGTGTCCCTGGCCATGTGGTTTTATACCCC
Found at i:43947388 original size:17 final size:16
Alignment explanation
Indices: 43947368--43947408 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
43947358 AATTAAAATA
43947368 AAAATAAAAACAAAAGG
1 AAAATAAAAAC-AAAGG
* *
43947385 AAAAGAAAAACAAAGT
1 AAAATAAAAACAAAGG
43947401 AAAATAAA
1 AAAATAAA
43947409 TGGACTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (16 bp):
AAAATAAAAACAAAGG
Found at i:43948455 original size:12 final size:12
Alignment explanation
Indices: 43948438--43948465 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43948428 AGCCGAGTCG
43948438 ATGCACCGACCC
1 ATGCACCGACCC
43948450 ATGCACCGACCC
1 ATGCACCGACCC
43948462 ATGC
1 ATGC
43948466 CAAGGGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.46, G:0.18, T:0.11
Consensus pattern (12 bp):
ATGCACCGACCC
Found at i:43948988 original size:3 final size:3
Alignment explanation
Indices: 43948980--43949009 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
43948970 GAAATAAGAG
*
43948980 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43949010 AAGAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:43965957 original size:19 final size:19
Alignment explanation
Indices: 43965933--43966077 Score: 230
Period size: 19 Copynumber: 7.9 Consensus size: 19
43965923 ATAATCTTCA
43965933 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
43965952 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
43965971 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
43965988 ATGCT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
43966006 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
43966025 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
43966042 ATGCT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
43966060 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
43966078 AGATATGATT
Statistics
Matches: 116, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
17 30 0.26
18 30 0.26
19 56 0.48
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:43965999 original size:54 final size:54
Alignment explanation
Indices: 43965939--43966077 Score: 278
Period size: 54 Copynumber: 2.6 Consensus size: 54
43965929 TTCAATGATA
43965939 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGCT
1 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGCT
43965993 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGCT
1 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGCT
43966047 TGCAATCTTAGATATGATATGCAATCTTAGA
1 TGCAATCTTAGATATGATATGCAATCTTAGA
43966078 AGATATGATT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (54 bp):
TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGCT
Found at i:43966004 original size:35 final size:36
Alignment explanation
Indices: 43965941--43966077 Score: 199
Period size: 35 Copynumber: 3.8 Consensus size: 36
43965931 CAATGATATG
43965941 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
*
43965977 CAATCTTAGATATGCT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
* *
43966012 TGCAATCTTAGATATGATA--CAATCTTAGATATGCTTG
1 --CAATCTTAGATATGATATGCAATCTTAGATATG-ATA
43966049 CAATCTTAGATATGATATGCAATCTTAGA
1 CAATCTTAGATATGATATGCAATCTTAGA
43966078 AGATATGATT
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
35 36 0.40
36 29 0.32
37 26 0.29
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:43966070 original size:73 final size:71
Alignment explanation
Indices: 43965932--43966084 Score: 229
Period size: 73 Copynumber: 2.1 Consensus size: 71
43965922 TATAATCTTC
*
43965932 AATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGCTTGCA
1 AATGATATGCAATCTTAGATATGATA-GCAATCTTAGATATGATACAATCTTAGATATGATTGCA
43965997 ATCTTAG
65 ATCTTAG
* *
43966004 ATATGATATGCAATCTTAGATATGATA-CAATCTTAGATATGCTTGCAATCTTAGATATGATATG
1 A-ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATG-ATACAATCTTAGATATGAT-TG
43966068 CAATCTTAG
63 CAATCTTAG
43966077 AA-GATATG
1 AATGATATG
43966085 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
71 20 0.27
72 18 0.24
73 37 0.49
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (71 bp):
AATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATTGCAA
TCTTAG
Found at i:43966103 original size:22 final size:22
Alignment explanation
Indices: 43965933--43966100 Score: 102
Period size: 19 Copynumber: 8.8 Consensus size: 22
43965923 ATAATCTTCA
43965933 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
43965952 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
43965971 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
43965988 ATGCT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
43966006 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
43966025 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
43966042 ATGCT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
43966060 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
43966082 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
43966101 GATTTAATTT
Statistics
Matches: 133, Mismatches: 6, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
17 30 0.23
18 30 0.23
19 53 0.40
22 8 0.06
23 12 0.09
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:43966393 original size:17 final size:17
Alignment explanation
Indices: 43966368--43966403 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
43966358 TGTTTCCTGG
*
43966368 AATTTTTTTATATATTTT
1 AATTTTTTAATA-ATTTT
43966386 AATTTTTTAATAATTTT
1 AATTTTTTAATAATTTT
43966403 A
1 A
43966404 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTAATAATTTT
Found at i:43977950 original size:30 final size:30
Alignment explanation
Indices: 43977916--43977975 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
43977906 TTCCCGAGCC
43977916 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
*
43977946 TAGGGGCAAAATGGTAATTTTGCAAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
43977976 CATATTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:43981506 original size:16 final size:15
Alignment explanation
Indices: 43981468--43981506 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
43981458 TGGATTCTCG
*
43981468 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
43981483 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
43981498 TATTCTTGG
1 TA-TCTTGG
43981507 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:43986242 original size:220 final size:220
Alignment explanation
Indices: 43985860--43986326 Score: 745
Period size: 220 Copynumber: 2.1 Consensus size: 220
43985850 CAGGCTAAAG
* * * *
43985860 CATAGCAGATTTGACCTTCAGGTGTTTACACTGAAGCGGATCCAAGATGATTTAACATATCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAGATCCAAGATGATTTAACATATCTGTA
* * *
43985925 TTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAG
66 CTGTCAAAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
43985990 ACATAGCAGATCTAACCTTCGGATGTTTTCACATAGAAGTAGATTCAAGATGATTGGGCATCCTT
131 ACATAACAGATCTAACCTTCGGATGTTTTCACATAGAAGTAGATCCAAGATGATTGGGCATCCTT
*
43986055 GCGTTTACAAGGAACAGATCGAAGA
196 ACGTTTACAAGGAACAGATCGAAGA
* * * ** *
43986080 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATTATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAGATCCAAGATGATTTAACATATCTGTA
*
43986145 CTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTGTCAAAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
43986210 ACATAACAGATCTAACCTTCGGATGTTTTCACATTGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAACAGATCTAACCTTCGGATGTTTTCACATAGAAGTAGATCCAAGATGATTGGGCATCCTT
**
43986275 ACGTTTACAAGGAGTAGATCGAAGA
196 ACGTTTACAAGGAACAGATCGAAGA
43986300 CATAGCAGATTTGGCTTTCACGTGTTT
1 CATAGCAGATTTGGCTTTCACGTGTTT
43986327 GTCGAAACCA
Statistics
Matches: 226, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
220 226 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAGATCCAAGATGATTTAACATATCTGTA
CTGTCAAAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAACAGATCTAACCTTCGGATGTTTTCACATAGAAGTAGATCCAAGATGATTGGGCATCCTT
ACGTTTACAAGGAACAGATCGAAGA
Found at i:43987699 original size:17 final size:16
Alignment explanation
Indices: 43987668--43987703 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
43987658 CAATATGTAT
43987668 ATACAAATGTAAAATA
1 ATACAAATGTAAAATA
*
43987684 ATACATAATTTAAAATA
1 ATACA-AATGTAAAATA
43987701 ATA
1 ATA
43987704 TATGATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (16 bp):
ATACAAATGTAAAATA
Found at i:43987958 original size:17 final size:17
Alignment explanation
Indices: 43987926--43988001 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 17
43987916 TGAAATATAT
*
43987926 AATAATAATCTAAAAAGA
1 AATAA-AATTTAAAAAGA
* *
43987944 AATAAAGTTTAAAAATAA
1 AATAAAATTTAAAAA-GA
*
43987962 AATAAAATTTAGAAAG-
1 AATAAAATTTAAAAAGA
* *
43987978 AATTAAA-TTAGAATAGA
1 AATAAAATTTA-AAAAGA
43987995 AATAAAA
1 AATAAAA
43988002 ATACAGATGA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 14 0.31
18 19 0.42
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (17 bp):
AATAAAATTTAAAAAGA
Found at i:43989526 original size:17 final size:16
Alignment explanation
Indices: 43989495--43989530 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
43989485 CAATATGTAT
43989495 ATACAAATGTAAAATA
1 ATACAAATGTAAAATA
*
43989511 ATACATAATTTAAAATA
1 ATACA-AATGTAAAATA
43989528 ATA
1 ATA
43989531 TATGATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (16 bp):
ATACAAATGTAAAATA
Found at i:43989789 original size:17 final size:17
Alignment explanation
Indices: 43989757--43989832 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 17
43989747 TGAAATATAT
*
43989757 AATAATAATCTAAAAAGA
1 AATAA-AATTTAAAAAGA
* *
43989775 AATAAAGTTTAAAAATAA
1 AATAAAATTTAAAAA-GA
*
43989793 AATAAAATTTAGAAAG-
1 AATAAAATTTAAAAAGA
* *
43989809 AATTAAA-TTAGAATAGA
1 AATAAAATTTA-AAAAGA
43989826 AATAAAA
1 AATAAAA
43989833 ATACAGATGA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 14 0.31
18 19 0.42
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (17 bp):
AATAAAATTTAAAAAGA
Found at i:43991158 original size:78 final size:78
Alignment explanation
Indices: 43991024--43991708 Score: 883
Period size: 78 Copynumber: 8.8 Consensus size: 78
43991014 CGAAGAAACA
** * * * * *
43991024 GATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGAAATAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* *
43991089 GCAGATCTAATAT
66 GCAGATCCAAGAT
* *
43991102 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
43991166 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
* ** * * *
43991180 AATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGAAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
43991245 GTAGATCCAAGAT
66 GCAGATCCAAGAT
** * * * * *
43991258 GATTTGGCATCTCCATATTCGGCAGAGAGCTGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
43991323 GCAGATCTAAGAT
66 GCAGATCCAAGAT
** * * *
43991336 GATTTGGCATCTCTGTATTAGAAAGGGAGTAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
43991401 GCAGATCCAAGAT
66 GCAGATCCAAGAT
** *
43991414 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
43991478 AACAGATCCAAGAT
65 AGCAGATCCAAGAT
** *
43991492 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
43991556 AACAGATCCAAGAT
65 AGCAGATCCAAGAT
** *
43991570 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
43991634 AACAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
43991648 GATTTGGCATCTCTGTATTAGACGAGGAGTAGATCGAAGACATAGTAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
43991709 GTGTTTACAT
Statistics
Matches: 555, Mismatches: 48, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
77 2 0.00
78 551 0.99
79 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:43991446 original size:234 final size:234
Alignment explanation
Indices: 43991024--43991708 Score: 973
Period size: 234 Copynumber: 2.9 Consensus size: 234
43991014 CGAAGAAACA
* *
43991024 GATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGAAATAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
* * *
43991089 GCAGATCTAATATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATTG
66 GCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATTG
* * ** * *
43991154 GACCTTCATTGAAGTAGATCCAAGATAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
131 GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
**
43991219 ACATAGAAGATCTGACCTTCATTGAAGTAGATCCAAGAT
196 ACATAGAAGATCTGACCTTCATTGAAACAGATCCAAGAT
* * * *
43991258 GATTTGGCATCTCCATATTCGGCAGAGAGCTGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
** *
43991323 GCAGATCTAAGATGATTTGGCATCTCTGTATTAGAAAGGGAGTAGATCAAAGACACAGCAGATCT
66 GCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGAT-T
**
43991388 -GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAA
130 GGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
43991452 GACATA-ACAGAT-TGGACCTTCATTGAAACAGATCCAAGAT
195 GACATAGA-AGATCT-GACCTTCATTGAAACAGATCCAAGAT
** * * * *
43991492 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGACATAGCAGATCT-GACCTTCATTGA
* * * * *
43991556 AACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGACATAACAGATT
65 AGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATT
* * *
43991621 GGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGTAGATCGAA
130 GGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
*
43991686 GACATAGTAGATCTGACCTTCAT
195 GACATAGAAGATCTGACCTTCAT
43991709 GTGTTTACAT
Statistics
Matches: 398, Mismatches: 46, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
233 4 0.01
234 392 0.98
235 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (234 bp):
GATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATTG
GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
ACATAGAAGATCTGACCTTCATTGAAACAGATCCAAGAT
Found at i:43991848 original size:44 final size:45
Alignment explanation
Indices: 43991737--43991904 Score: 230
Period size: 45 Copynumber: 3.8 Consensus size: 45
43991727 ATCCAATATG
*
43991737 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGAAGATA
*
43991782 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-A
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGAAGATA
* * * * * **
43991826 GCAGATTTAGCGTCTCTTTATTAGACGGGGAGTAAATCAAAGATA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGAAGATA
* *
43991871 ACAGATTTGGCGTTTCTGTATTAGACGGGGAGCA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCA
43991905 GATCAAAGAT
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 36 0.34
45 71 0.66
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (45 bp):
ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGAAGATA
Found at i:43991889 original size:89 final size:89
Alignment explanation
Indices: 43991738--43991907 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
43991728 TCCAATATGA
* ***
43991738 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATAACAGATTTGGCATCTCTGTAT
1 CAGATTTAGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
43991803 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * * * *
43991827 CAGATTTAGCGTCTCTTTATTAGACGGGGAGTAAATCAAAGATAACAGATTTGGCGTTTCTGTAT
1 CAGATTTAGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
43991892 TAGACGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
43991908 CAAAGATAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (89 bp):
CAGATTTAGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:43991910 original size:45 final size:45
Alignment explanation
Indices: 43991722--43991915 Score: 228
Period size: 45 Copynumber: 4.3 Consensus size: 45
43991712 TTTACATCGA
* * *
43991722 AGCAGATCCAATATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* ***
43991767 AGCAAATTGGAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
** * * * *
43991812 AGCAGATTGAAGA-AGCAGATTTAGCGTCTCTTTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
43991856 AGTAAATCAAAGATAACAGATTTGGCGTTTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
43991901 AGCAGATCAAAGATA
1 AGCAGATCAAAGATA
43991916 GTAGATATCG
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 36 0.29
45 90 0.71
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (45 bp):
AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:43992327 original size:18 final size:19
Alignment explanation
Indices: 43992304--43992350 Score: 87
Period size: 18 Copynumber: 2.5 Consensus size: 19
43992294 TACAATCATA
43992304 CAATCTTAGATATGAT-TG
1 CAATCTTAGATATGATATG
43992322 CAATCTTAGATATGATATG
1 CAATCTTAGATATGATATG
43992341 CAATCTTAGA
1 CAATCTTAGA
43992351 AGATATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (19 bp):
CAATCTTAGATATGATATG
Found at i:43992665 original size:18 final size:17
Alignment explanation
Indices: 43992642--43992675 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43992632 TTTCCCTGAT
*
43992642 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
43992660 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
43992676 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:43994276 original size:66 final size:65
Alignment explanation
Indices: 43994122--43994276 Score: 161
Period size: 66 Copynumber: 2.3 Consensus size: 65
43994112 TTTCAAGCTT
* * * *
43994122 CTAAACAAGATATCATGTCTTCTCAATCCCAAGCTCCTAAACGCGATATCTAGTCTTCACAACCT
1 CTAAACAAGATATTA-GTCTTCTCAATCCCAAGATCCTAAACGAGATATCTAGTCTTCACAAACT
43994187 C
65 C
* * * * *
43994188 CTAAACGAGATATCTAGACTTCTCAATCCCAAGATCTTAAATGATATAT-TGAGTCTTTC-CAAA
1 CTAAACAAGATAT-TAGTCTTCTCAATCCCAAGATCCTAAACGAGATATCT-AGTC-TTCACAAA
43994251 CTC
63 CTC
*
43994254 CTAAACTAGATATTAGGTCTTCT
1 CTAAACAAGATATTA-GTCTTCT
43994277 GAAGTTCCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
65 3 0.04
66 67 0.91
67 4 0.05
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (65 bp):
CTAAACAAGATATTAGTCTTCTCAATCCCAAGATCCTAAACGAGATATCTAGTCTTCACAAACTC
Found at i:44018895 original size:19 final size:19
Alignment explanation
Indices: 44018871--44018961 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
44018861 ATAATCTTCA
44018871 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
44018890 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
44018909 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
44018926 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
44018944 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
44018962 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:44018942 original size:35 final size:37
Alignment explanation
Indices: 44018879--44018968 Score: 143
Period size: 35 Copynumber: 2.5 Consensus size: 37
44018869 CAATGATATG
44018879 CAATCTTAGATATGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
44018915 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
44018952 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
44018969 ATTTTGTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
35 19 0.37
36 19 0.37
37 13 0.25
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:44019631 original size:18 final size:17
Alignment explanation
Indices: 44019604--44019637 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
44019594 TTTCAACTTT
44019604 AAATTTTTCAAATTTTA
1 AAATTTTTCAAATTTTA
44019621 AAATCTTTTCAAATTTT
1 AAAT-TTTTCAAATTTT
44019638 CGACATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTTTCAAATTTTA
Found at i:44024304 original size:12 final size:11
Alignment explanation
Indices: 44024280--44024347 Score: 50
Period size: 12 Copynumber: 6.0 Consensus size: 11
44024270 CTTCTATTTC
*
44024280 AAAAAAAAGGA
1 AAAAAAAAAGA
44024291 AAAAATAAAAGA
1 AAAAA-AAAAGA
*
44024303 AAAAGAGAAA-A
1 AAAA-AAAAAGA
*
44024314 AAATAAAAAGA
1 AAAAAAAAAGA
44024325 AAAAAGAGAAA-A
1 AAAAA-A-AAAGA
*
44024337 AAGAAAAAAGA
1 AAAAAAAAAGA
44024348 TGGAGAGGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
10 7 0.16
11 16 0.36
12 18 0.40
13 4 0.09
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:44024314 original size:21 final size:21
Alignment explanation
Indices: 44024281--44024347 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 21
44024271 TTCTATTTCA
* *
44024281 AAAAAAAGGAAAAAATAAAAG
1 AAAAAGAGAAAAAAATAAAAG
44024302 AAAAAGAGAAAAAAATAAAAAG
1 AAAAAGAGAAAAAAAT-AAAAG
*
44024324 AAAAAAGAGAAAAAAGAAAAAAG
1 -AAAAAGAGAAAAAA-ATAAAAG
44024347 A
1 A
44024348 TGGAGAGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 14 0.35
22 6 0.15
23 19 0.47
24 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAAAGAGAAAAAAATAAAAG
Found at i:44024316 original size:16 final size:16
Alignment explanation
Indices: 44024297--44024345 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 16
44024287 AGGAAAAAAT
44024297 AAAAGAAAAAGAGAAA
1 AAAAGAAAAAGAGAAA
*
44024313 AAAATAAAAAGA-AAA
1 AAAAGAAAAAGAGAAA
*
44024328 AAGAGAAAAA-AGAAA
1 AAAAGAAAAAGAGAAA
44024343 AAA
1 AAA
44024346 GATGGAGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 1 0.04
15 16 0.57
16 11 0.39
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:44024346 original size:7 final size:7
Alignment explanation
Indices: 44024282--44024347 Score: 64
Period size: 7 Copynumber: 9.1 Consensus size: 7
44024272 TCTATTTCAA
44024282 AAAAAAG
1 AAAAAAG
*
44024289 GAAAAA-
1 AAAAAAG
*
44024295 ATAAAAG
1 AAAAAAG
44024302 AAAAAGAG
1 AAAAA-AG
44024310 AAAAAA-
1 AAAAAAG
44024316 ATAAAAAG
1 A-AAAAAG
44024324 AAAAAAGAG
1 -AAAAA-AG
44024333 AAAAAAG
1 AAAAAAG
44024340 AAAAAAG
1 AAAAAAG
44024347 A
1 A
44024348 TGGAGAGGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
6 5 0.10
7 25 0.51
8 16 0.33
9 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:44024346 original size:16 final size:16
Alignment explanation
Indices: 44024300--44024347 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
44024290 AAAAAATAAA
44024300 AGAAAAAGAGAAAAAA-
1 AGAAAAA-AGAAAAAAG
*
44024316 A-TAAAAAGAAAAAAG
1 AGAAAAAAGAAAAAAG
44024331 AGAAAAAAGAAAAAAG
1 AGAAAAAAGAAAAAAG
44024347 A
1 A
44024348 TGGAGAGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 15 0.54
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AGAAAAAAGAAAAAAG
Found at i:44025499 original size:87 final size:84
Alignment explanation
Indices: 44025307--44025577 Score: 323
Period size: 84 Copynumber: 3.2 Consensus size: 84
44025297 CCTTAATCCC
* * * ***
44025307 CAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTGGATCGAAGA
1 CAGTAGGGTAACAGGTCAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGA
44025372 CTCGCCTTAA-CCCCTTAAG
66 CTCGCCTTAATCCCC-TAAG
* ** *
44025391 TAGTAGGGTAACAGG-CTAAAATTATAGATCTTATCTCCCTAAGCAGGAGTGGAACAGATCAATG
1 CAGTAGGGTAACAGGTC-AAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATC---G
* * *
44025455 ACGACTCGCCCTAATCCTCTAAG
62 AAGACTCGCCTTAATCCCCTAAG
* *
44025478 CAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAGA
1 CAGTAGGGTAACAGGTCAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGA
44025543 -TGCGCCTTAATCCCCTAAG
66 CT-CGCCTTAATCCCCTAAG
*
44025562 AAGTAGGGTAACAGGT
1 CAGTAGGGTAACAGGT
44025578 TAAAGCATAG
Statistics
Matches: 157, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
83 1 0.01
84 83 0.53
87 69 0.44
88 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (84 bp):
CAGTAGGGTAACAGGTCAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGA
CTCGCCTTAATCCCCTAAG
Found at i:44025940 original size:207 final size:207
Alignment explanation
Indices: 44025583--44026377 Score: 1293
Period size: 207 Copynumber: 3.8 Consensus size: 207
44025573 CAGGTTAAAG
* * * *
44025583 CATAGCAGATTTGGCCTTCAGTTGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * *
44025648 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGCTTACGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATC
* * * **
44025713 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAATTCGATGTTTGGCATCTCCATATTCGAT
131 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGAT
44025778 GGAGGGCAGACA
196 GGAGGGCAGACA
* *
44025790 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * *
44025855 GCTTACAAGGAACAAATGGAAGACATAGCTGATTTGGCTTTCACGTGTTAACGTTGAAGCAAGTC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATC
*
44025920 TAAGATGATTTGGAATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGAT
131 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGAT
44025985 GGAGGGCAGACA
196 GGAGGGCAGACA
* *
44025997 CATAGCAGATCTAGACTTCATATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTAT
1 CATAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* *
44026062 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTATGCTGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATC
* *
44026127 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGTGTCCCCATATTCCAT
131 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGAT
*
44026192 GGAGCGCAGACA
196 GGAGGGCAGACA
* *
44026204 CATAGCAGATCTAGACTTCATATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGTATCCTTGT
1 CATAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * *
44026269 GCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTATGCTGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATC
* *
44026334 TAAGATGATTTGGCATCTCTGTATTGTTAGGGAACAAATTGAAG
131 TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAG
44026378 AAGCAGATTT
Statistics
Matches: 555, Mismatches: 33, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 555 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (207 bp):
CATAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGAT
GGAGGGCAGACA
Found at i:44026791 original size:19 final size:19
Alignment explanation
Indices: 44026766--44026856 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
44026756 ATAATCTTCA
44026766 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
44026785 GTGATATGGAATCTTAGAT
1 ATGATATGCAATCTTAGAT
44026804 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
44026821 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
44026839 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
44026857 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 33 0.52
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:44026839 original size:35 final size:37
Alignment explanation
Indices: 44026774--44026863 Score: 125
Period size: 35 Copynumber: 2.5 Consensus size: 37
44026764 CAATGATATG
* *
44026774 CAATCTTAGATGTGATATGGAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
44026810 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
44026847 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
44026864 ATTTTGTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
35 18 0.37
36 18 0.37
37 13 0.27
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:44031172 original size:10 final size:10
Alignment explanation
Indices: 44031153--44031228 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
44031143 GATACTTAGT
*
44031153 TTAATTTTAA
1 TTAATCTTAA
44031163 TTAATCTTAA
1 TTAATCTTAA
*
44031173 TTAAT-TTAC
1 TTAATCTTAA
* *
44031182 TTAATCATGA
1 TTAATCTTAA
*
44031192 TTAAT-TAAA
1 TTAATCTTAA
44031201 CCTTAATCCTTAA
1 --TTAAT-CTTAA
44031214 TTAA-CTTAA
1 TTAATCTTAA
44031223 GTTAAT
1 -TTAAT
44031229 GACATTTAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
9 14 0.28
10 24 0.48
11 9 0.18
13 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (10 bp):
TTAATCTTAA
Found at i:44037675 original size:5 final size:5
Alignment explanation
Indices: 44037665--44037693 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
44037655 GTTCTTTATT
44037665 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
44037694 TCTCATAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:44039225 original size:22 final size:21
Alignment explanation
Indices: 44039190--44039265 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
44039180 AAAAGGTATC
* *
44039190 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
44039211 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
44039234 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
44039253 TGC-AATCATATCT
1 TACAAATCATATCT
44039266 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44039250 original size:19 final size:19
Alignment explanation
Indices: 44039226--44039316 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
44039216 AATCATATCT
44039226 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44039245 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
44039263 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
44039280 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
44039299 TCTGAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
44039317 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44039282 original size:35 final size:37
Alignment explanation
Indices: 44039219--44039316 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
44039209 ATTACAAAAT
44039219 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
44039255 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
*
44039290 CATATCATATCTGAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
44039317 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 10 0.18
38 6 0.11
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:44039295 original size:14 final size:15
Alignment explanation
Indices: 44039240--44039295 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
44039230 AGATTGCATA
44039240 TCATATCTAAGATTG
1 TCATATCTAAGATTG
44039255 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
44039273 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
44039290 -CATATC
1 TCATATC
44039296 ATATCTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:44039474 original size:21 final size:21
Alignment explanation
Indices: 44039435--44039475 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44039425 TTGGACATCG
* **
44039435 TTTTTTTTTTTGGGTTTATTA
1 TTTTTGTTTTTGGACTTATTA
44039456 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGGACTTATT
44039476 TCTGGGCGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (21 bp):
TTTTTGTTTTTGGACTTATTA
Found at i:44039730 original size:45 final size:45
Alignment explanation
Indices: 44039674--44039823 Score: 219
Period size: 45 Copynumber: 3.3 Consensus size: 45
44039664 CGATATCTAC
* * *
44039674 TATCTTTGATCTGCTTCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
44039719 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * *
44039764 TATCTCCGATTTGCTCCCCATCTAACACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* *
44039809 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
44039824 TCGATGTAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:44039869 original size:47 final size:47
Alignment explanation
Indices: 44039816--44039958 Score: 129
Period size: 47 Copynumber: 3.2 Consensus size: 47
44039806 TGTCATCTTG
44039816 GATCTGCTTCGATGTAAACACATGAAGGTCAGACCTGCTATGTCATC
1 GATCTGCTTCGATGTAAACACATGAAGGTCAGACCTGCTATGTCATC
** * * * *** * * *
44039863 GATCTGC-TCCCTGTCTAATACA-G-AGAT--G-CCAAATA-ATCTTG
1 GATCTGCTTCGATGT-AAACACATGAAGGTCAGACCTGCTATGTCATC
44039904 GATCTGCTTCGATGTAAACACATGAAGGTCAGACCTGCTATGTCATC
1 GATCTGCTTCGATGTAAACACATGAAGGTCAGACCTGCTATGTCATC
44039951 GATCTGCT
1 GATCTGCT
44039959 CCCTGTCTAA
Statistics
Matches: 66, Mismatches: 22, Indels: 16
0.63 0.21 0.15
Matches are distributed among these distances:
41 15 0.23
42 10 0.15
43 4 0.06
45 4 0.06
46 10 0.15
47 23 0.35
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (47 bp):
GATCTGCTTCGATGTAAACACATGAAGGTCAGACCTGCTATGTCATC
Found at i:44039893 original size:92 final size:88
Alignment explanation
Indices: 44039770--44040001 Score: 383
Period size: 88 Copynumber: 2.6 Consensus size: 88
44039760 CTGTTATCTC
* ** *
44039770 CGATTTGCTCCCCATCTAACACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCGATGTAAAC
1 CGATCTGCTCCCTGTCTAATACAGAGATGCCAAA----TCATCTTGGATCTGCTTCGATGTAAAC
44039835 ACATGAAGGTCAGACCTGCTATGTCAT
62 ACATGAAGGTCAGACCTGCTATGTCAT
*
44039862 CGATCTGCTCCCTGTCTAATACAGAGATGCCAAATAATCTTGGATCTGCTTCGATGTAAACACAT
1 CGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCGATGTAAACACAT
44039927 GAAGGTCAGACCTGCTATGTCAT
66 GAAGGTCAGACCTGCTATGTCAT
44039950 CGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTC
1 CGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTC
44040002 AATGAAGGTC
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
88 104 0.78
92 30 0.22
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (88 bp):
CGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCGATGTAAACACAT
GAAGGTCAGACCTGCTATGTCAT
Found at i:44040266 original size:78 final size:78
Alignment explanation
Indices: 44040135--44040506 Score: 503
Period size: 78 Copynumber: 4.8 Consensus size: 78
44040125 CGTAAACACG
* *
44040135 TGAAGGTCAGATGTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
44040200 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * * *
44040213 TAAAGGTCCA-ATCTGTTATGTCTTCTATCTGCTCCCCGTCTAGTACATAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
44040277 TGGACCTACTTCAA
65 TGGATCTGCTTCAA
* * * * * *
44040291 TGAAGGTCAGATCTGCTCTGTCTTCAATCTACTCCCCATCTAATATAGAGATGCCAAATTATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
44040356 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * *
44040369 TGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
44040434 GGATCTGCTTAAA
66 GGATCTGCTTCAA
** * * **
44040447 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTTCTGTCGAATATGGAGATGCCAAATC
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
44040507 TGTTACTTTT
Statistics
Matches: 255, Mismatches: 37, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
77 2 0.01
78 251 0.98
79 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:44040267 original size:209 final size:209
Alignment explanation
Indices: 44039881--44040270 Score: 559
Period size: 209 Copynumber: 1.9 Consensus size: 209
44039871 CCCTGTCTAA
* * * *
44039881 TACAGAGATGCCAAATAATCTTGGATCTGCTTCGATGTAAACACATGAAGGTCAGACCTGCTATG
1 TACAAAGATGCCAAATAATCTTAGATCTGCTTCGACGTAAACACATGAAGGTCAGACCTACTATG
* *
44039946 TCATCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
66 TCATCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGT
* * **
44040011 CAGATTTGCTATGTCTTCGATCTGCACTCCGTCGAATATGGAGATGCCAAAGCTGTTTCTTTGAT
131 CAGATCTGCTATGTCTTCGATCTGCACCCCGTCGAATACAGAGATGCCAAAGCTGTTTCTTTGAT
44040076 TTGTTCCCTGACAG
196 TTGTTCCCTGACAG
* * **
44040090 TACAAAGATGCCAAATCATCTTAGATCTGCTTC-AGCGTAAACACGTGAAGGTCAGATGTACTAT
1 TACAAAGATGCCAAATAATCTTAGATCTGCTTCGA-CGTAAACACATGAAGGTCAGACCTACTAT
*
44040154 GTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGG
65 GTCATCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGG
* * * * * *
44040219 TCCA-ATCTGTTATGTCTTCTATCTGCTCCCCGTCTAGTACATAGATGCCAAA
130 T-CAGATCTGCTATGTCTTCGATCTGCACCCCGTCGAATACAGAGATGCCAAA
44040271 TCATCTTGGA
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
208 1 0.01
209 155 0.98
210 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (209 bp):
TACAAAGATGCCAAATAATCTTAGATCTGCTTCGACGTAAACACATGAAGGTCAGACCTACTATG
TCATCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGT
CAGATCTGCTATGTCTTCGATCTGCACCCCGTCGAATACAGAGATGCCAAAGCTGTTTCTTTGAT
TTGTTCCCTGACAG
Found at i:44043447 original size:100 final size:100
Alignment explanation
Indices: 44043274--44043476 Score: 388
Period size: 100 Copynumber: 2.0 Consensus size: 100
44043264 CGCTCGGAGT
*
44043274 CCCATGATGCACGCTTCATACTCGGCCATATTGTTTGTGCAATCAAAATCCAACTTGCACGTGAA
1 CCCATGATGCACGCTTCATACTCGGCCATATTGTTTATGCAATCAAAATCCAACTTGCACGTGAA
*
44043339 TTGATAATAATCACCATTTGGGGATACCAAGACTG
66 TGGATAATAATCACCATTTGGGGATACCAAGACTG
44043374 CCCATGATGCACGCTTCATACTCGGCCATATTGTTTATGCAATCAAAATCCAACTTGCACGTGAA
1 CCCATGATGCACGCTTCATACTCGGCCATATTGTTTATGCAATCAAAATCCAACTTGCACGTGAA
44043439 TGGATAATAATCACCATTTGGGGATACCAAGACTG
66 TGGATAATAATCACCATTTGGGGATACCAAGACTG
44043474 CCC
1 CCC
44043477 CAATTCCATT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
CCCATGATGCACGCTTCATACTCGGCCATATTGTTTATGCAATCAAAATCCAACTTGCACGTGAA
TGGATAATAATCACCATTTGGGGATACCAAGACTG
Found at i:44058719 original size:36 final size:36
Alignment explanation
Indices: 44058664--44058769 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 36
44058654 CGGATCTTTT
* *
44058664 CAAGCTCCTGAACAAGATATC-ATGTCTTCTCAATCC
1 CAAGCTCCTAAACGAGATATCTA-GTCTTCTCAATCC
*
44058700 CAAGCTCCTAAACGCGATATCTAGTC-T-TC-A---
1 CAAGCTCCTAAACGAGATATCTAGTCTTCTCAATCC
*
44058730 CAAGCTCCTAAACGAGATATCTAGACTTCTCAATCC
1 CAAGCTCCTAAACGAGATATCTAGTCTTCTCAATCC
44058766 CAAG
1 CAAG
44058770 ATCTTGAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
30 24 0.41
31 1 0.02
32 2 0.03
33 2 0.03
34 2 0.03
35 1 0.02
36 25 0.43
37 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.25
Consensus pattern (36 bp):
CAAGCTCCTAAACGAGATATCTAGTCTTCTCAATCC
Found at i:44058736 original size:30 final size:30
Alignment explanation
Indices: 44058700--44058758 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
44058690 TTCTCAATCC
* *
44058700 CAAGCTCCTAAACGCGATATCTAGTCTTCA
1 CAAGCTCCTAAACGAGATATCTAGACTTCA
44058730 CAAGCTCCTAAACGAGATATCTAGACTTC
1 CAAGCTCCTAAACGAGATATCTAGACTTC
44058759 TCAATCCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (30 bp):
CAAGCTCCTAAACGAGATATCTAGACTTCA
Found at i:44066312 original size:85 final size:85
Alignment explanation
Indices: 44066169--44066338 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
44066159 AAGGCCCCAA
*
44066169 GATCCGCGCGTTGACCCGATTACCTGGGGAGGATCCGCGTGTTTTTGAGAATTGGGTTAATTACC
1 GATCCGCGCGTTGACCCGATTACCCGGGGAGGATCCGCGTGTTTTTGAGAATTGGGTTAATTACC
44066234 CAATTAGTCCCCCTACCTTT
66 CAATTAGTCCCCCTACCTTT
44066254 GATCCGCGCGTTGACCCGATTACCCGGGGAGGATCCGCGTGTTTTTGAGAATTGGGTTAATTACC
1 GATCCGCGCGTTGACCCGATTACCCGGGGAGGATCCGCGTGTTTTTGAGAATTGGGTTAATTACC
44066319 CAATTAGTCCCCCTACCTTT
66 CAATTAGTCCCCCTACCTTT
44066339 TTTATGTTTA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (85 bp):
GATCCGCGCGTTGACCCGATTACCCGGGGAGGATCCGCGTGTTTTTGAGAATTGGGTTAATTACC
CAATTAGTCCCCCTACCTTT
Found at i:44066924 original size:47 final size:44
Alignment explanation
Indices: 44066813--44066926 Score: 115
Period size: 47 Copynumber: 2.5 Consensus size: 44
44066803 TCTTTATACT
* * *
44066813 ATTATATTATTTTACATTTTAACAATATATTATTTCATATTATT
1 ATTATATTATTTTATATTTTAACAATATATCATTTCATATTATA
*
44066857 ATTAT-TTATTATATATTATTTTTAC-ATATATACACTTTCATATTATAA
1 ATTATATTATT-T-TA-TATTTTAACAATATAT-CA-TTTCATATTAT-A
44066905 ATTATAATTATTTTATATTTTA
1 ATTAT-ATTATTTTATATTTTA
44066927 TACCTTTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
43 5 0.09
44 6 0.11
45 8 0.14
46 8 0.14
47 17 0.30
48 7 0.12
49 1 0.02
50 5 0.09
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (44 bp):
ATTATATTATTTTATATTTTAACAATATATCATTTCATATTATA
Found at i:44067215 original size:17 final size:17
Alignment explanation
Indices: 44067195--44067260 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
44067185 TTATATACCA
*
44067195 ATATATTTTATATTTTT
1 ATATATATTATATTTTT
*
44067212 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
44067229 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
44067244 ATTATATATTATATTTT
1 A-TATATATTATATTTT
44067261 AAATCTGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 20 0.51
18 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:44073713 original size:5 final size:5
Alignment explanation
Indices: 44073703--44073735 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
44073693 CTGTGTGTTC
44073703 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
44073736 CACAAATTGG
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:44077950 original size:5 final size:5
Alignment explanation
Indices: 44077940--44077967 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44077930 CTGTGCGTTC
44077940 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
44077968 CATAGGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:44085980 original size:56 final size:56
Alignment explanation
Indices: 44085894--44086013 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
44085884 ACAAGGGATG
44085894 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
44085950 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAATC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
44086006 ATGGGCAA
1 ATGGGCAA
44086014 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:44087281 original size:39 final size:40
Alignment explanation
Indices: 44087182--44087325 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
44087172 CGAATGATGT
* * *
44087182 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
44087222 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
44087262 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
44087301 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44087326 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:44087339 original size:40 final size:39
Alignment explanation
Indices: 44087234--44087332 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
44087224 AGACTAAGAT
** * *
44087234 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
44087273 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
44087313 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
44087333 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:44087344 original size:79 final size:80
Alignment explanation
Indices: 44087181--44087331 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
44087171 TCGAATGATG
*
44087181 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
44087246 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
44087261 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
44087323 TTGAACGAG
64 TTGAACGAG
44087332 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:44090578 original size:10 final size:10
Alignment explanation
Indices: 44090559--44090634 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
44090549 GATACTTAGT
*
44090559 TTAATTTTAA
1 TTAATCTTAA
44090569 TTAATCTTAA
1 TTAATCTTAA
*
44090579 TTAAT-TTAC
1 TTAATCTTAA
* *
44090588 TTAATCATGA
1 TTAATCTTAA
*
44090598 TTAAT-TAAA
1 TTAATCTTAA
44090607 CCTTAATCCTTAA
1 --TTAAT-CTTAA
44090620 TTAA-CTTAA
1 TTAATCTTAA
44090629 GTTAAT
1 -TTAAT
44090635 GACATTTAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
9 14 0.28
10 24 0.48
11 9 0.18
13 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (10 bp):
TTAATCTTAA
Found at i:44097155 original size:294 final size:294
Alignment explanation
Indices: 44096626--44097216 Score: 1182
Period size: 294 Copynumber: 2.0 Consensus size: 294
44096616 TGAAGGGACT
44096626 ATTTAGTGAACTCAATGAAGACCTTCAAATCAGTACAGTATTTTTTGACAGTCAAAGTGCCATCT
1 ATTTAGTGAACTCAATGAAGACCTTCAAATCAGTACAGTATTTTTTGACAGTCAAAGTGCCATCT
44096691 TCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAAGATATTGATGTTCGGTAAGAACAAACC
66 TCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAAGATATTGATGTTCGGTAAGAACAAACC
44096756 GTAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAAAAATTTTATTGTTC
131 GTAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAAAAATTTTATTGTTC
44096821 CCCAAAACTCCTGTTTGTTTACAATGAAGGGAGAGGCCTCTATTCATAGTTGAACCTCCTTAAAT
196 CCCAAAACTCCTGTTTGTTTACAATGAAGGGAGAGGCCTCTATTCATAGTTGAACCTCCTTAAAT
44096886 CCAACGGTACAGATCAATTACATCAACAGTTAAG
261 CCAACGGTACAGATCAATTACATCAACAGTTAAG
44096920 ATTTAGTGAACTCAATGAAGACCTTCAAATCAGTACAGTATTTTTTGACAGTCAAAGTGCCATCT
1 ATTTAGTGAACTCAATGAAGACCTTCAAATCAGTACAGTATTTTTTGACAGTCAAAGTGCCATCT
44096985 TCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAAGATATTGATGTTCGGTAAGAACAAACC
66 TCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAAGATATTGATGTTCGGTAAGAACAAACC
44097050 GTAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAAAAATTTTATTGTTC
131 GTAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAAAAATTTTATTGTTC
44097115 CCCAAAACTCCTGTTTGTTTACAATGAAGGGAGAGGCCTCTATTCATAGTTGAACCTCCTTAAAT
196 CCCAAAACTCCTGTTTGTTTACAATGAAGGGAGAGGCCTCTATTCATAGTTGAACCTCCTTAAAT
44097180 CCAACGGTACAGATCAATTACATCAACAGTTAAG
261 CCAACGGTACAGATCAATTACATCAACAGTTAAG
44097214 ATT
1 ATT
44097217 AAAAGGTATC
Statistics
Matches: 297, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
294 297 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (294 bp):
ATTTAGTGAACTCAATGAAGACCTTCAAATCAGTACAGTATTTTTTGACAGTCAAAGTGCCATCT
TCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAAGATATTGATGTTCGGTAAGAACAAACC
GTAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAAAAATTTTATTGTTC
CCCAAAACTCCTGTTTGTTTACAATGAAGGGAGAGGCCTCTATTCATAGTTGAACCTCCTTAAAT
CCAACGGTACAGATCAATTACATCAACAGTTAAG
Found at i:44097262 original size:22 final size:21
Alignment explanation
Indices: 44097227--44097302 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
44097217 AAAAGGTATC
* *
44097227 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
44097248 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
44097271 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
44097290 TGC-AATCATATCT
1 TACAAATCATATCT
44097303 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44097319 original size:35 final size:37
Alignment explanation
Indices: 44097256--44097353 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
44097246 ATTACAAAAT
44097256 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
44097292 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
44097327 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
44097354 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:44097361 original size:17 final size:19
Alignment explanation
Indices: 44097263--44097353 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
44097253 AATCATATCT
44097263 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44097282 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
44097300 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
44097317 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44097336 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
44097354 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44097758 original size:45 final size:45
Alignment explanation
Indices: 44097703--44097976 Score: 261
Period size: 45 Copynumber: 6.1 Consensus size: 45
44097693 AGAAGGCGAT
* * *
44097703 ATCTGCTATCTTTGATCTGCTCCTCGTCTAATACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAA
**
44097748 ATCTGTTATCTTCGATCTGCTACC-CGTCTAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCT-CCTCGTCTAATACAGAGATGCCAA
* * * *
44097793 ATCTGCT-TCTTCAATCTGCTCCCCGTATAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAA
* * *
44097837 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAA
* * * * * *
44097882 ATCTGTTATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCTCG-TCTAATACAGA-G-ATGCCAA
* * * *
44097927 ATCTACTATGTCTTCGATCTGCTCCTTGTCTAATACAGAGATGTCAA
1 ATCT-GT-TATCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAA
44097974 ATC
1 ATC
44097977 ATCTTGGATC
Statistics
Matches: 186, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
43 8 0.04
44 41 0.22
45 102 0.55
46 3 0.02
47 21 0.11
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAA
Found at i:44097829 original size:89 final size:90
Alignment explanation
Indices: 44097703--44097902 Score: 276
Period size: 89 Copynumber: 2.2 Consensus size: 90
44097693 AGAAGGCGAT
** * * * *
44097703 ATCTGCTATCTTTGATCTGCTCCTCGTCTAATACAGAGATGTCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
44097768 TACCCGTCTAATACAGAGACACCAA
66 TACCCGTCTAATACAGAGACACCAA
*
44097793 ATCTGCT-TCTTCAATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
* **
44097857 TCCCCGTCTAATACAGAGATGCCAA
66 TACCCGTCTAATACAGAGACACCAA
* **
44097882 ATCTGTTATCTTGGATCTGCT
1 ATCTGCTATCTTCAATCTGCT
44097903 TCGATGTAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 78 0.81
90 18 0.19
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
TACCCGTCTAATACAGAGACACCAA
Found at i:44098045 original size:78 final size:78
Alignment explanation
Indices: 44097916--44098210 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
44097906 ATGTAAACAC
* * ** *
44097916 ATGAAGGT-CAGATCTACTATGTCTTCGATCTGCTCCTTGTCTAATACAGAGATGTCAAATCATC
1 ATGAAGGTGCA-ATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATC
44097980 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
44097994 ATGAAGGTGCAATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTGCAATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
44098059 TGGATCTGCTTCA
66 TGGATCTGCTTCA
44098072 ATGAAGGTGCAATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTGCAATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
44098137 TGGATCTGCTTCA
66 TGGATCTGCTTCA
** * * * * * **
44098150 ATGAAGGTTAAATCTGTTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATC
1 ATGAAGGTGCAATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATC
44098211 TGTTTCTTTG
Statistics
Matches: 202, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 200 0.99
79 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTGCAATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:44098411 original size:78 final size:78
Alignment explanation
Indices: 44098282--44098651 Score: 510
Period size: 78 Copynumber: 4.8 Consensus size: 78
44098272 CATAAACACG
* * *
44098282 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
44098347 GGATCTGTTTCAA
66 GGATCTGCTTCAA
* * *
44098360 TGAAGGTCCA-ATCTGCTATGTCTTCTATCTACTCCCCGTCTAACATAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
44098424 TGGATCTACTTCAA
65 TGGATCTGCTTCAA
* *
44098438 TGAAGGTCAGATCTGTTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
44098503 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * * * * *
44098516 TGAAGATCAGGTCTGTTGTGTCTTC-ATCTTCTCCCCGTTTAATACAGAGATGCCAAATTATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
44098580 AGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * **
44098593 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAAT
44098652 TTGTTTCTTT
Statistics
Matches: 260, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
77 71 0.27
78 187 0.72
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:44098620 original size:155 final size:156
Alignment explanation
Indices: 44098282--44098651 Score: 528
Period size: 155 Copynumber: 2.4 Consensus size: 156
44098272 CATAAACACG
*
44098282 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCTT
* * *
44098347 GGATCTGTTTCAATGAAGGTCCAATCTGCTATGTCTTCTATCTACTCCCCGTCTAACATAGAGAT
66 GGATCTGCTTCAATGAAGATCCAATCTGCTATGTCTTCTATCTACTCCCCGTCTAACACAGAGAT
*
44098412 GCCAAATCATCTTGGATCTACTTCAA
131 GCCAAATCATCTTAGATCTACTTCAA
* * * *
44098438 TGAAGGTCAGATCTGTTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCTT
* * * * * *
44098503 GGATCTGCTTCAATGAAGAT-CAGGTCTGTTGTGTCTTC-ATCTTCTCCCCGTTTAATACAGAGA
66 GGATCTGCTTCAATGAAGATCCA-ATCTGCTATGTCTTCTATCTACTCCCCGTCTAACACAGAGA
* *
44098566 TGCCAAATTATCTTAGATCTGCTTCAA
130 TGCCAAATCATCTTAGATCTACTTCAA
* * **
44098593 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAAT
44098652 TTGTTTCTTT
Statistics
Matches: 189, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
155 99 0.52
156 90 0.48
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (156 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCTT
GGATCTGCTTCAATGAAGATCCAATCTGCTATGTCTTCTATCTACTCCCCGTCTAACACAGAGAT
GCCAAATCATCTTAGATCTACTTCAA
Found at i:44109789 original size:27 final size:27
Alignment explanation
Indices: 44109759--44109936 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44109749 ATATTGAGTC
* * * *
44109759 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44109786 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44109813 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44109841 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44109868 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44109895 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44109922 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44109937 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44109898 original size:82 final size:81
Alignment explanation
Indices: 44109780--44109935 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44109770 TGCTATATAA
* *
44109780 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44109845 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44109862 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44109926 CACTTAGTGC
65 CACTTAGTGC
44109936 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44117854 original size:27 final size:27
Alignment explanation
Indices: 44117824--44118001 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44117814 ATATTGAGTC
* * * *
44117824 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44117851 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44117878 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44117906 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44117933 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44117960 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44117987 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44118002 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44117963 original size:82 final size:81
Alignment explanation
Indices: 44117845--44118000 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44117835 TGCTATATAA
* *
44117845 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44117910 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44117927 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44117991 CACTTAGTGC
65 CACTTAGTGC
44118001 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44121303 original size:207 final size:207
Alignment explanation
Indices: 44120948--44121361 Score: 792
Period size: 207 Copynumber: 2.0 Consensus size: 207
44120938 CACTCTATCA
44120948 AGGTATTCATTCCTCATTACAAAACTTTCTAATATAGAAATCGAGCCGTGAATCGACACCTTTAA
1 AGGTATTCATTCCTCATTACAAAACTTTCTAATATAGAAATCGAGCCGTGAATCGACACCTTTAA
44121013 ATGCCAAATGACATGCAATGACAGCAAAATAAAAATAGGTCAGTATCATAAAAAAATGATAAAAA
66 ATGCCAAATGACATGCAATGACAGCAAAATAAAAATAGGTCAGTATCATAAAAAAATGATAAAAA
*
44121078 AGTACTTACAATGGTAGCTTACTAAAGGCTATCACTATCTTTCCTAAACTCTTTAAAGTTCACTA
131 AGTACTTACAAGGGTAGCTTACTAAAGGCTATCACTATCTTTCCTAAACTCTTTAAAGTTCACTA
44121143 TATGAGTTTTAG
196 TATGAGTTTTAG
*
44121155 AGGTATTCATTCCTCATTACAAAACTTTCTAATCTAGAAATCGAGCCGTGAATCGACACCTTTAA
1 AGGTATTCATTCCTCATTACAAAACTTTCTAATATAGAAATCGAGCCGTGAATCGACACCTTTAA
* *
44121220 ATGCCAAATGACATGCAATGACAGCAAAATAAAAATAGGTCAGTATCATATAAAAATGATAAACA
66 ATGCCAAATGACATGCAATGACAGCAAAATAAAAATAGGTCAGTATCATAAAAAAATGATAAAAA
44121285 AGTACTTACAAGGGTAGCTTACTAAAGGCTATCACTATCTTTCCTAAACTCTTTAAAGTTCACTA
131 AGTACTTACAAGGGTAGCTTACTAAAGGCTATCACTATCTTTCCTAAACTCTTTAAAGTTCACTA
44121350 TATGAGTTTTAG
196 TATGAGTTTTAG
44121362 CTCTAAAGCC
Statistics
Matches: 203, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
207 203 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (207 bp):
AGGTATTCATTCCTCATTACAAAACTTTCTAATATAGAAATCGAGCCGTGAATCGACACCTTTAA
ATGCCAAATGACATGCAATGACAGCAAAATAAAAATAGGTCAGTATCATAAAAAAATGATAAAAA
AGTACTTACAAGGGTAGCTTACTAAAGGCTATCACTATCTTTCCTAAACTCTTTAAAGTTCACTA
TATGAGTTTTAG
Found at i:44122727 original size:23 final size:22
Alignment explanation
Indices: 44122699--44122741 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44122689 ATTAAATTTT
44122699 TAAGATTACAAAATCATATCTTC
1 TAAGATTAC-AAATCATATCTTC
* *
44122722 TAAGATTGCATATCATATCT
1 TAAGATTACAAATCATATCT
44122742 AAGATTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTC
Found at i:44122744 original size:19 final size:19
Alignment explanation
Indices: 44122720--44122810 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
44122710 AATCATATCT
44122720 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44122739 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
44122757 TCTAAGATTG--TGTCATA
1 TCTAAGATTGCATATCATA
*
44122774 TCTAAGATTGCATGTCATA
1 TCTAAGATTGCATATCATA
44122793 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
44122811 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44122778 original size:35 final size:37
Alignment explanation
Indices: 44122713--44122810 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 37
44122703 ATTACAAAAT
44122713 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
*
44122749 CA-ATCATATCTAAGATTG-TGTCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
*
44122784 CATGTCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
44122811 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
35 21 0.39
36 18 0.33
37 10 0.19
38 5 0.09
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:44124338 original size:20 final size:18
Alignment explanation
Indices: 44124280--44124341 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
44124270 CATAAAAATT
*
44124280 TAAAATTTTTTAAA-AAA
1 TAAAAATTTTTAAATAAA
*
44124297 TAAAGAATTTTGAAAT-AA
1 TAAA-AATTTTTAAATAAA
44124315 TAAAAATTGTTTAGAATAAA
1 TAAAAATT-TTTA-AATAAA
44124335 TAAAAAT
1 TAAAAAT
44124342 ATAAAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.22
18 17 0.46
19 3 0.08
20 9 0.24
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
TAAAAATTTTTAAATAAA
Found at i:44124773 original size:17 final size:17
Alignment explanation
Indices: 44124743--44124792 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
44124733 TTTAAAGCAG
* *
44124743 TTTTTTTCATATTTTTA
1 TTTTTTTAAAATTTTTA
44124760 TTTTTTTAAAA-TTTTA
1 TTTTTTTAAAATTTTTA
* *
44124776 ATTTGTTAAAATTTTTA
1 TTTTTTTAAAATTTTTA
44124793 AATATGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTTTAAAATTTTTA
Found at i:44126354 original size:46 final size:46
Alignment explanation
Indices: 44126118--44126334 Score: 407
Period size: 46 Copynumber: 4.7 Consensus size: 46
44126108 AACCCGCCCC
*
44126118 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
*
44126164 TGAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
44126210 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
44126256 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
*
44126302 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
44126335 ATGCTCAACC
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 167 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
Found at i:44128495 original size:66 final size:66
Alignment explanation
Indices: 44128372--44128526 Score: 159
Period size: 66 Copynumber: 2.3 Consensus size: 66
44128362 CTTTTCAAGG
* * ** *
44128372 TCCTAAACAAGATATCAT-GTCTTTTCAATCCCAAGCTCCTGAACGCGATAACGAGTCTTCACAA
1 TCCTGAACAAGATATC-TGGTCTTTTCAATCCCAAGATCCTGAACAAGATAACAAGTCTTCACAA
*
44128436 GC
65 AC
** * *** *
44128438 TCCTGAATGAGATATCTGGTCTTTTCAATCCCAAGATCTTGAACAAGATGTTAAGTCTTTACAAA
1 TCCTGAACAAGATATCTGGTCTTTTCAATCCCAAGATCCTGAACAAGATAACAAGTCTTCACAAA
44128503 C
66 C
* *
44128504 TCTTGAACAAGATATCAGGTCTT
1 TCCTGAACAAGATATCTGGTCTT
44128527 CTCCAGTTCT
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
65 1 0.01
66 70 0.99
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (66 bp):
TCCTGAACAAGATATCTGGTCTTTTCAATCCCAAGATCCTGAACAAGATAACAAGTCTTCACAAA
C
Found at i:44132998 original size:31 final size:31
Alignment explanation
Indices: 44132956--44133017 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
44132946 AGACCTTGAG
*
44132956 AAAAAACGAAGTCTCCCACAAAATTCTCTAT
1 AAAAAACGAAGTCTCCCACAAAATACTCTAT
* *
44132987 AAAAAATGAAGTCTCCTACAAAATACTCTAT
1 AAAAAACGAAGTCTCCCACAAAATACTCTAT
44133018 CTCTCGACGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.24
Consensus pattern (31 bp):
AAAAAACGAAGTCTCCCACAAAATACTCTAT
Found at i:44140267 original size:36 final size:35
Alignment explanation
Indices: 44140209--44140304 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 35
44140199 CTTTTCAAGA
* *
44140209 TCCTGAACAAGATATC-ATGTCTTCTCAATCCCAACC
1 TCCTAAACGAGATATCTA-GTCTTCTCAAT-CCAACC
* *
44140245 TCCTAAACGCGATATCTAGTC-T-TC-A--CAAGC
1 TCCTAAACGAGATATCTAGTCTTCTCAATCCAACC
*
44140275 TCCTAAACGAGATATCTAGACTTCTCAATC
1 TCCTAAACGAGATATCTAGTCTTCTCAATC
44140305 TCAAGATCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
30 23 0.48
31 1 0.02
32 2 0.04
33 2 0.04
34 2 0.04
35 1 0.02
36 16 0.33
37 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.28
Consensus pattern (35 bp):
TCCTAAACGAGATATCTAGTCTTCTCAATCCAACC
Found at i:44146781 original size:36 final size:36
Alignment explanation
Indices: 44146734--44146804 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
44146724 TTTAGCCCGG
*
44146734 TTTAACTAGTTCATACTAACTTGCAGGTCAACTAAA
1 TTTAACCAGTTCATACTAACTTGCAGGTCAACTAAA
44146770 TTTAACCAGTTCATACTAACTTGCAGGTCAACTAA
1 TTTAACCAGTTCATACTAACTTGCAGGTCAACTAA
44146805 TTTTTTACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (36 bp):
TTTAACCAGTTCATACTAACTTGCAGGTCAACTAAA
Found at i:44161381 original size:18 final size:18
Alignment explanation
Indices: 44161358--44161394 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
44161348 CAACCTTACC
44161358 AATATTTCATCATTTATA
1 AATATTTCATCATTTATA
44161376 AATATTTCATCATTTATA
1 AATATTTCATCATTTATA
44161394 A
1 A
44161395 CTAGTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTCATCATTTATA
Found at i:44162845 original size:19 final size:19
Alignment explanation
Indices: 44162818--44162862 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
44162808 GATACTTAGT
*
44162818 TTAATTTTAATTAATCTTAA
1 TTAA-TTTAATTAATCATAA
* *
44162838 TTAATTTACTTAATCATGA
1 TTAATTTAATTAATCATAA
44162857 TTAATT
1 TTAATT
44162863 AAACCTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (19 bp):
TTAATTTAATTAATCATAA
Found at i:44167421 original size:26 final size:26
Alignment explanation
Indices: 44167390--44167497 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
44167380 TGAAATGCCC
*
44167390 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
44167416 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
44167442 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
44167468 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
44167494 ATCA
1 ATCA
44167498 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.