Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 190 of 240
Found at i:58200355 original size:7 final size:7
Alignment explanation
Indices: 58200339--58200378 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
58200329 ACACACATCT
58200339 ATTTCCC
1 ATTTCCC
*
58200346 ATTTCTC
1 ATTTCCC
58200353 ATTTCCC
1 ATTTCCC
58200360 ATTTCCC
1 ATTTCCC
58200367 ATTTCCC
1 ATTTCCC
58200374 ATTTC
1 ATTTC
58200379 ATGTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47
Consensus pattern (7 bp):
ATTTCCC
Found at i:58203040 original size:5 final size:5
Alignment explanation
Indices: 58203030--58203056 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
58203020 ATGATAATGA
58203030 AGCGG AGCGG AGCGG AGCGG AGCGG AG
1 AGCGG AGCGG AGCGG AGCGG AGCGG AG
58203057 ATGAATGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.59, T:0.00
Consensus pattern (5 bp):
AGCGG
Found at i:58203740 original size:22 final size:21
Alignment explanation
Indices: 58203714--58203785 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
58203704 AATTTATTAA
58203714 GTTTAGGGTTTAAAGG-TTTTAG
1 GTTTAGGGTTT--AGGATTTTAG
* * * *
58203736 GTTTAGAGTTTGTGGTTTTTAA
1 GTTTAGGGTTT-AGGATTTTAG
58203758 GTTTAGGG-TTAGGATTTTAG
1 GTTTAGGGTTTAGGATTTTAG
58203778 GTTTAGGG
1 GTTTAGGG
58203786 CTTGGGGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 15 0.37
21 4 0.10
22 22 0.54
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTAGGATTTTAG
Found at i:58203795 original size:42 final size:43
Alignment explanation
Indices: 58203710--58203810 Score: 134
Period size: 42 Copynumber: 2.3 Consensus size: 43
58203700 TTAAAATTTA
* *
58203710 TTAAGTTTAGGGTTTAAAGGTTTTAGGTTTAGAGTTTGTGGTTT
1 TTAAGTTTAGGGTTT-AAGGTTTTAGGTTTAGAGCTTGGGGTTT
*
58203754 TTAAGTTTAGGG-TT-AGGATTTTAGGTTTAGGGCTTGGGGTTT
1 TTAAGTTTAGGGTTTAAGG-TTTTAGGTTTAGAGCTTGGGGTTT
*
58203796 TTAAGTTTAGAGTTT
1 TTAAGTTTAGGGTTT
58203811 GGGGTTTGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 3 0.06
42 32 0.63
43 4 0.08
44 12 0.24
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.49
Consensus pattern (43 bp):
TTAAGTTTAGGGTTTAAGGTTTTAGGTTTAGAGCTTGGGGTTT
Found at i:58203803 original size:22 final size:22
Alignment explanation
Indices: 58203730--58203817 Score: 90
Period size: 22 Copynumber: 4.1 Consensus size: 22
58203720 GGTTTAAAGG
* *
58203730 TTTTAGGTTTAGAGTTTGTGGT
1 TTTTAAGTTTAGAGTTTGGGGT
* * *
58203752 TTTTAAGTTTAG-GGTT-AGGA
1 TTTTAAGTTTAGAGTTTGGGGT
* * *
58203772 TTTTAGGTTTAGGGCTTGGGGT
1 TTTTAAGTTTAGAGTTTGGGGT
58203794 TTTTAAGTTTAGAGTTTGGGGT
1 TTTTAAGTTTAGAGTTTGGGGT
58203816 TT
1 TT
58203818 GGGTTTTTAA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
20 13 0.25
21 6 0.11
22 34 0.64
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.50
Consensus pattern (22 bp):
TTTTAAGTTTAGAGTTTGGGGT
Found at i:58203823 original size:42 final size:42
Alignment explanation
Indices: 58203731--58203823 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
58203721 GTTTAAAGGT
* * * *
58203731 TTTAGGTTTAGAGTTTGTGGTTTTTAAGTTTAGGGTTAGGAT
1 TTTAGGTTTAGAGCTTGGGGTTTTTAAGTTTAGAGTTAGGAG
* * *
58203773 TTTAGGTTTAGGGCTTGGGGTTTTTAAGTTTAGAGTTTGGGG
1 TTTAGGTTTAGAGCTTGGGGTTTTTAAGTTTAGAGTTAGGAG
*
58203815 TTTGGGTTT
1 TTTAGGTTT
58203824 TTAAGTTTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.15, C:0.01, G:0.34, T:0.49
Consensus pattern (42 bp):
TTTAGGTTTAGAGCTTGGGGTTTTTAAGTTTAGAGTTAGGAG
Found at i:58203836 original size:21 final size:21
Alignment explanation
Indices: 58203801--58203859 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
58203791 GGTTTTTAAG
*
58203801 TTTAGAGTTTGGGGTTT-GGGTT
1 TTTA-AGTTTAGGGTTTAGGG-T
58203823 TTTAAGTTTAGGGTTTAGGGT
1 TTTAAGTTTAGGGTTTAGGGT
*
58203844 TTTAGGTTTAGGGTTT
1 TTTAAGTTTAGGGTTT
58203860 TTAAGTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.51
Consensus pattern (21 bp):
TTTAAGTTTAGGGTTTAGGGT
Found at i:58203843 original size:28 final size:28
Alignment explanation
Indices: 58203773--58203845 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
58203763 GGGTTAGGAT
*
58203773 TTTA-GGTTTAGGGCTTGGGGTTTTTAAG
1 TTTAGGGTTTAGGG-TTTGGGTTTTTAAG
* *
58203801 TTTAGAGTTTGGGGTTTGGGTTTTTAAG
1 TTTAGGGTTTAGGGTTTGGGTTTTTAAG
58203829 TTTAGGGTTTAGGGTTT
1 TTTAGGGTTTAGGGTTT
58203846 TAGGTTTAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 32 0.82
29 7 0.18
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTAGGGTTTGGGTTTTTAAG
Found at i:58203862 original size:15 final size:15
Alignment explanation
Indices: 58203829--58203860 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
58203819 GGTTTTTAAG
58203829 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
58203844 TTTA-GGTTTAGGGT
1 TTTAGGGTTTAGGGT
58203858 TTT
1 TTT
58203861 TAAGTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.12, C:0.00, G:0.34, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:58203875 original size:21 final size:21
Alignment explanation
Indices: 58203851--58203918 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
58203841 GGTTTTAGGT
*
58203851 TTAGGGTTTTTAAGTTAATGG
1 TTAGGGTTTTTAAGTTAAGGG
** *
58203872 TTAGCATTTTTAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
58203893 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
58203914 TTAGG
1 TTAGG
58203919 ATTAGGGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGG
Found at i:58204519 original size:18 final size:18
Alignment explanation
Indices: 58204496--58204535 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
58204486 GACTCGGAAA
* *
58204496 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
58204514 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
58204532 AGGA
1 AGGA
58204536 AATGAACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:58205196 original size:7 final size:7
Alignment explanation
Indices: 58205186--58205214 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
58205176 TTATATACAT
58205186 AATACTA
1 AATACTA
58205193 AATACTA
1 AATACTA
58205200 AATACTA
1 AATACTA
58205207 AATACTA
1 AATACTA
58205214 A
1 A
58205215 TTACCAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:58206439 original size:11 final size:12
Alignment explanation
Indices: 58206423--58206466 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
58206413 ATTAAATATG
58206423 AATTTGAGA-GA
1 AATTTGAGAGGA
58206434 AATTTG-GAAGGA
1 AATTTGAG-AGGA
58206446 AA-TTGAGAGGA
1 AATTTGAGAGGA
58206457 AATTTGAGAG
1 AATTTGAGAG
58206467 AGGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:58207728 original size:40 final size:40
Alignment explanation
Indices: 58207676--58207764 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
58207666 CGTTTGGATA
* * * *
58207676 AAAAACGTCACTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACGCCACTATAGATCAACCATTAGCGGCGCTTTTTG
* *
58207716 AAAAACGCCACTATAGGTTAACCATTAGCGGCGCTTTTTG
1 AAAAACGCCACTATAGATCAACCATTAGCGGCGCTTTTTG
58207756 AAAAACGCC
1 AAAAACGCC
58207765 GCAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (40 bp):
AAAAACGCCACTATAGATCAACCATTAGCGGCGCTTTTTG
Found at i:58208148 original size:7 final size:7
Alignment explanation
Indices: 58208138--58208186 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
58208128 TATCTTTATA
58208138 GTTTAGG
1 GTTTAGG
*
58208145 GTTTATG
1 GTTTAGG
*
58208152 GTTTAAG
1 GTTTAGG
** *
58208159 GTACATG
1 GTTTAGG
58208166 GTTTAGG
1 GTTTAGG
58208173 GTTTAGG
1 GTTTAGG
58208180 GTTTAGG
1 GTTTAGG
58208187 AGTTACTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:58208155 original size:14 final size:14
Alignment explanation
Indices: 58208132--58208285 Score: 73
Period size: 14 Copynumber: 10.8 Consensus size: 14
58208122 ATTAATTATC
*
58208132 TTTATAGTTTAGGG
1 TTTATGGTTTAGGG
*
58208146 TTTATGGTTTAAGG
1 TTTATGGTTTAGGG
**
58208160 TACATGGTTTAGGG
1 TTTATGGTTTAGGG
*
58208174 TTTAGGGTTTAGGAG
1 TTTATGGTTTAGG-G
*
58208189 TTACTAT--TTTAAGG
1 TT--TATGGTTTAGGG
*
58208203 TTTATGGATTATGGG
1 TTTATGGTTTA-GGG
* * *
58208218 TTTA-GAGATTATGA
1 TTTATG-GTTTAGGG
* * * *
58208232 ATTATAGATTATGG
1 TTTATGGTTTAGGG
58208246 TTTATGGTTTAAGGG
1 TTTATGGTTT-AGGG
* *
58208261 -TTAGGGGCTTAGGG
1 TTTA-TGGTTTAGGG
58208275 TTTATGGTTTA
1 TTTATGGTTTA
58208286 TGTTTTATGA
Statistics
Matches: 104, Mismatches: 25, Indels: 22
0.69 0.17 0.15
Matches are distributed among these distances:
12 3 0.03
14 70 0.67
15 29 0.28
17 2 0.02
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:58208287 original size:43 final size:43
Alignment explanation
Indices: 58208240--58208321 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
58208230 GAATTATAGA
* *
58208240 TTATGGTTTATGGTTTAAGGGTTAGGGGCTTAGGGTTTATGGT
1 TTATGGTTTATGATTCAAGGGTTAGGGGCTTAGGGTTTATGGT
* *
58208283 TTATGTTTTATGATTCAGGGGTTAGGGGCTTAGGGTTTA
1 TTATGGTTTATGATTCAAGGGTTAGGGGCTTAGGGTTTA
58208322 GATTAATTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (43 bp):
TTATGGTTTATGATTCAAGGGTTAGGGGCTTAGGGTTTATGGT
Found at i:58210453 original size:115 final size:115
Alignment explanation
Indices: 58210251--58210467 Score: 319
Period size: 115 Copynumber: 1.9 Consensus size: 115
58210241 ACGCCGCAAA
* * * *
58210251 AGCGCCGCAAAATATTTGAACCAAAATGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGC
1 AGCGCCGCAAAATATCTGAACCAAAAGGCAGCGTTTTGGTATTGATGTATACTAAAATTAGTGGC
* * * *
58210316 GTTTATGGTAAAACGCCGCTAAAGCATAGTATTAGCGACGATTCTTTGCT
66 GCTTACGGGAAAACGCCGCTAAAGAATAGTATTAGCGACGATTCTTTGCT
* *
58210366 AGCGCCGCAAAATATCCT-AACTAAAAGGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGG
1 AGCGCCGCAAAATAT-CTGAACCAAAAGGCAGCGTTTTGGTATTGATGTATACTAAAATTAGTGG
*
58210430 CGCTTACGGGAAACCGCCGCTAAAGAATAGTATTAGCG
65 CGCTTACGGGAAAACGCCGCTAAAGAATAGTATTAGCG
58210468 GCGCTTTCAT
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
115 89 0.99
116 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (115 bp):
AGCGCCGCAAAATATCTGAACCAAAAGGCAGCGTTTTGGTATTGATGTATACTAAAATTAGTGGC
GCTTACGGGAAAACGCCGCTAAAGAATAGTATTAGCGACGATTCTTTGCT
Found at i:58210542 original size:211 final size:209
Alignment explanation
Indices: 58210062--58210683 Score: 563
Period size: 201 Copynumber: 3.0 Consensus size: 209
58210052 ACTGCAAAAT
* ** * ** *
58210062 ATCTTAACCAAAACGCATCGTTTTTAGTGTTGATGTATCCTAGAATTAGTGGCGCTTACCGAAAA
1 ATCTTAACCAAAACGCATAG-TTTTA-ACTTGATGTATACTAGAATTAGTGGCGCTTATAGTAAA
* * * * * * *
58210127 ACGCCGCTAACGCATAGTATTAGCGGCGCTTTGCAAAAAGCGCCGCAAAAGATCTTAACCAATAC
64 ACGCCGCTAAAGCATAGTATTAGCGACGATTTGTAAAAAGCGCCGCAAAATATCCTAA-CAAAAC
* * ** * *
58210192 GTAGAGTTCGGTCTTGAGGTATGTTAGAATTAGTGGCGCTTATAGGAAAACGCCG---CA-AA-A
128 GCAGAGTTTGGTCTTGAGGTATACTAAAATTAGTGGCGCTTACAGGAAAACGCCGCAACAGAATA
* * ****
58210252 G----CGCCGCAAAAT-
193 GTATTAGCGGCGCTTTC
* * * * *
58210264 AT-TTGAACCAAAATGCATCGTTTTGGTA-TTGATGTATACTAGAATTAGTGGCGTTTATGGTAA
1 ATCTT-AACCAAAACGCATAGTTTT--AACTTGATGTATACTAGAATTAGTGGCGCTTATAGTAA
****
58210327 AACGCCGCTAAAGCATAGTATTAGCGACGATTCT-TTGCTAGCGCCGCAAAATATCCTAACTAAA
63 AACGCCGCTAAAGCATAGTATTAGCGACGATT-TGTAAAAAGCGCCGCAAAATATCCTAAC-AAA
* * * * *
58210391 AGGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTACGGGAAACCGCCGCTAA-AG
126 ACGCAGAG-TTTGGTCTTGAGGTATACTAAAATTAGTGGCGCTTACAGGAAAACGCCGC-AACAG
58210455 AATAGTATTAGCGGCGCTTTC
189 AATAGTATTAGCGGCGCTTTC
58210476 ATCTTAACCAAAACGCATAGTTTTAACTTGATGTATACTAGAATTAGTGGCGCTTACTAG-AAAA
1 ATCTTAACCAAAACGCATAGTTTTAACTTGATGTATACTAGAATTAGTGGCGCTTA-TAGTAAAA
* * * * * *
58210540 CGCCGTTAAAGCATAGTATTAGCGGCGCTTTGTAAAAAGCGTCGCAACATATCTTAACAAAACGC
65 CGCCGCTAAAGCATAGTATTAGCGACGATTTGTAAAAAGCGCCGCAAAATATCCTAACAAAACGC
* ** * * * *
58210605 GGAGTTTGGTCTTGAGGTATGTTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAACTGGATAGT
130 AGAGTTTGGTCTTGAGGTATACTAAAATTAGTGGCGCTTACAGGAAAACGCCGCAACAGAATAGT
58210670 ATTAGCGGCGCTTT
195 ATTAGCGGCGCTTT
58210684 GCGGAAGCGC
Statistics
Matches: 335, Mismatches: 63, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
200 1 0.00
201 90 0.27
202 58 0.17
205 1 0.00
206 2 0.01
207 2 0.01
208 2 0.01
209 63 0.19
210 10 0.03
211 83 0.25
212 21 0.06
213 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (209 bp):
ATCTTAACCAAAACGCATAGTTTTAACTTGATGTATACTAGAATTAGTGGCGCTTATAGTAAAAC
GCCGCTAAAGCATAGTATTAGCGACGATTTGTAAAAAGCGCCGCAAAATATCCTAACAAAACGCA
GAGTTTGGTCTTGAGGTATACTAAAATTAGTGGCGCTTACAGGAAAACGCCGCAACAGAATAGTA
TTAGCGGCGCTTTC
Found at i:58210770 original size:114 final size:114
Alignment explanation
Indices: 58210476--58210772 Score: 320
Period size: 113 Copynumber: 2.6 Consensus size: 114
58210466 CGGCGCTTTC
** *
58210476 ATCTTAACCAAAACGCATAGTTTT-AACTTGATGTATACTAGAATTAGTGGCGCTTACTAGAAAA
1 ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTTGAATTAGTGGCGCTTACTAGAAAA
* * *
58210540 CGCCGTTAAAGCATAGTATTAGCGGCGCTTTGTAAAAAGCGTCGCAACAT
66 CGCCG-CAAAGCATAGTATTAGCGGCGCTTTGTAAAAAGCGCCGCAAAAT
** * *
58210590 ATCTTAA-CAAAACGCGGAG-TTTGGTCTTGAGGTAT-GTTAGAATTAGTGGCGCTTA-TAGGAA
1 ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTT-GAATTAGTGGCGCTTACTA-GAA
* * ***
58210651 AACGCCGCAACTGGATAGTATTAGCGGCGCTTTG-CGGAAGCGCCGCAAAAT
64 AACGCCGCAA-AGCATAGTATTAGCGGCGCTTTGTAAAAAGCGCCGCAAAAT
* * * * *
58210702 ATCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTTACGTTG-AA
1 ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTTGAATTAGTGGCGCTTAC-TAGAAA
58210766 ACGCCGC
65 ACGCCGC
58210773 CAAAACGCAA
Statistics
Matches: 150, Mismatches: 24, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
112 26 0.17
113 75 0.50
114 45 0.30
115 3 0.02
116 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (114 bp):
ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTTGAATTAGTGGCGCTTACTAGAAAA
CGCCGCAAAGCATAGTATTAGCGGCGCTTTGTAAAAAGCGCCGCAAAAT
Found at i:58210855 original size:84 final size:84
Alignment explanation
Indices: 58210694--58210856 Score: 222
Period size: 84 Copynumber: 1.9 Consensus size: 84
58210684 GCGGAAGCGC
* * ** *
58210694 CGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTTA
1 CGCAAAATACCTGAACCAAAACGCAGCGTTTTGGTCTCGATGTATACTAAAATTAGTGGCACTTA
*
58210759 CGTTGAAACGCCGCCAAAA
66 CGGTGAAACGCCGCCAAAA
*
58210778 CGCAAAATACCTTAACCAAAACGCAGCGTTTTGGTCGT-GATGTATACTAAAATTAGTGGCACTT
1 CGCAAAATACCTGAACCAAAACGCAGCGTTTTGGTC-TCGATGTATACTAAAATTAGTGGCACTT
*
58210842 AGGGT-AAACCGCCGC
65 ACGGTGAAA-CGCCGC
58210857 GAAAGCATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 3 0.04
84 65 0.94
85 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (84 bp):
CGCAAAATACCTGAACCAAAACGCAGCGTTTTGGTCTCGATGTATACTAAAATTAGTGGCACTTA
CGGTGAAACGCCGCCAAAA
Found at i:58211249 original size:15 final size:14
Alignment explanation
Indices: 58211203--58211266 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
58211193 AGAGTTTTGA
58211203 GTTTAGGGTTTA-T
1 GTTTAGGGTTTAGT
* * *
58211216 GATGTAGGTTTTGGT
1 G-TTTAGGGTTTAGT
58211231 GTTTAGGGTTTAGT
1 GTTTAGGGTTTAGT
*
58211245 AGTTTGGGGTTTAAG-
1 -GTTTAGGGTTT-AGT
58211260 GTTTAGG
1 GTTTAGG
58211267 CTCTGGGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
13 1 0.03
14 24 0.62
15 12 0.31
16 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAGT
Found at i:58212235 original size:23 final size:23
Alignment explanation
Indices: 58212207--58212274 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
58212197 CCCCACTCTG
*
58212207 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCCAATTTCATTTCCCCA
*
58212230 ATTT-CCC-ATTTCCTATTCCCCCA
1 ATTTCCCCAATTT-C-ATTTCCCCA
*
58212253 ACTTCCCCAATTTCATTTCCCC
1 ATTTCCCCAATTTCATTTCCCC
58212275 CCAATTCCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 21 0.57
24 4 0.11
25 4 0.11
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTCCCCAATTTCATTTCCCCA
Found at i:58212272 original size:24 final size:23
Alignment explanation
Indices: 58212209--58212283 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 23
58212199 CCACTCTGAT
*
58212209 TTCCCCAATTTCATTT-CCCTAA
1 TTCCCCAATTTCATTTCCCCCAA
* *
58212231 TTTCCC-ATTTCCTATTCCCCCAA
1 TTCCCCAATTTCAT-TTCCCCCAA
58212254 CTTCCCCAATTTCATTTCCCCCCAA
1 -TTCCCCAATTTCATTT-CCCCCAA
58212279 TTCCC
1 TTCCC
58212284 TTTCCCCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.14
22 7 0.16
23 5 0.12
24 12 0.28
25 13 0.30
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.37
Consensus pattern (23 bp):
TTCCCCAATTTCATTTCCCCCAA
Found at i:58212298 original size:16 final size:17
Alignment explanation
Indices: 58212257--58212299 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
58212247 CCCCCAACTT
*
58212257 CCCCAATTT-CATTTCC
1 CCCCAATTTCCCTTTCC
58212273 CCCCAA-TTCCCTTT-C
1 CCCCAATTTCCCTTTCC
58212288 CCCCAATTTCCC
1 CCCCAATTTCCC
58212300 CGATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.33
Consensus pattern (17 bp):
CCCCAATTTCCCTTTCC
Found at i:58218936 original size:21 final size:21
Alignment explanation
Indices: 58218911--58218996 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
58218901 TTAAAACAGC
*
58218911 GGCAGCAGAGAGGGAAGCAGA
1 GGCAGCAGAGAGAGAAGCAGA
*
58218932 GGCAGCA-ACGAGGGAAGCAGA
1 GGCAGCAGA-GAGAGAAGCAGA
* *
58218953 GGCTGCAGCGAGAGAAGCAGA
1 GGCAGCAGAGAGAGAAGCAGA
* *
58218974 GGCCGCAGCGAGAGAAGCAGA
1 GGCAGCAGAGAGAGAAGCAGA
58218995 GG
1 GG
58218997 TTTAAAAGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.02
21 58 0.98
ACGTcount: A:0.35, C:0.19, G:0.45, T:0.01
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAAGCAGA
Found at i:58218971 original size:42 final size:42
Alignment explanation
Indices: 58218915--58218996 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
58218905 AACAGCGGCA
* *
58218915 GCAGAGAGGGAAGCAGAGGCAGCAACGAGGGAAGCAGAGGCT
1 GCAGAGAGAGAAGCAGAGGCAGCAACGAGAGAAGCAGAGGCT
* * *
58218957 GCAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAGCAGAGG
1 GCAGAGAGAGAAGCAGAGGCAGCAACGAGAGAAGCAGAGG
58218997 TTTAAAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.01
Consensus pattern (42 bp):
GCAGAGAGAGAAGCAGAGGCAGCAACGAGAGAAGCAGAGGCT
Found at i:58219543 original size:43 final size:43
Alignment explanation
Indices: 58219454--58219743 Score: 345
Period size: 43 Copynumber: 6.8 Consensus size: 43
58219444 AGCACTACTT
* * * * * *
58219454 TTAGCGGCGCTTTTTACC-AAGCGCTGCTATAGAACATTA-CTT
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATC-A
* * * *
58219496 TTAGCGGCGTTTTTTT-CTAAACGCCGCTAAAGATCATGTTTCT
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATG-ATCA
* *
58219539 TTAGCGGCG-TTTTCTCCCAAGCGCCGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
58219581 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* *
58219624 TTAGCGGCGTTTTTTTCCTGAGTGCCGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* * * *
58219667 TTAGCGGTGTTTTTTTCCTAAGTGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* *
58219710 TTAGCGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 TTAGCGGCGTTTTTTTC-CTAAGCGCCGCTAAAG
58219744 TTAGCGACGT
Statistics
Matches: 216, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 45 0.21
43 156 0.72
44 14 0.06
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
Found at i:58221615 original size:43 final size:43
Alignment explanation
Indices: 58221547--58221738 Score: 226
Period size: 43 Copynumber: 4.5 Consensus size: 43
58221537 AATATTTTTT
* * *
58221547 TAAAGGTCATGTTCTT-TAGCAGCGTTTGTGGGAAAAGCGTCGC
1 TAAAGGTCATGTT-TTATAGCGGCGTTTGTGGGAAAAACGCCGC
* *
58221590 TAAAGGTCTTGTTTTACAGCGGCGTTTGTGGGAAAAACGCCGC
1 TAAAGGTCATGTTTTATAGCGGCGTTTGTGGGAAAAACGCCGC
* * * * **
58221633 TAAATGTCTTGTTCTATAGCGGCATTTGT-GGAAAAACGCCAT
1 TAAAGGTCATGTTTTATAGCGGCGTTTGTGGGAAAAACGCCGC
* * *
58221675 TAAAAGTCATGTTTTATAGCAGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTTTATAGCGGCGTTTGTGGGAAAAACGCCGC
*
58221718 TAAAGGTCATGTTCTATAGCG
1 TAAAGGTCATGTTTTATAGCG
58221739 ACTTTTTTAT
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
42 37 0.30
43 88 0.70
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGTTTTATAGCGGCGTTTGTGGGAAAAACGCCGC
Found at i:58223878 original size:40 final size:39
Alignment explanation
Indices: 58223825--58223923 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 39
58223815 CGTTTGGACA
58223825 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTAAC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT-AC
* *
58223865 AAAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTAC
*
58223904 AGGAAAACGCCGCTAAAAAT
1 A-AAAAACGCCGCTAAAAAT
58223924 GTGCCGCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTAC
Found at i:58224028 original size:42 final size:41
Alignment explanation
Indices: 58223929--58224089 Score: 157
Period size: 41 Copynumber: 3.9 Consensus size: 41
58223919 AAAATGTGCC
** *
58223929 GCTAATGCTCAAGCTTTTAGCGGCGTTTTTTGAAAAAGCGCT
1 GCTAATGCTCGGGCTTTTAGCGGCG-TTTTCGAAAAAGCGCT
* * * *
58223971 ACTAATTCTCAGGCTTTTAGCGGCGTTTTCAAAAAAGCGCT
1 GCTAATGCTCGGGCTTTTAGCGGCGTTTTCGAAAAAGCGCT
* * * *
58224012 GTTAATGCTTGGGGC-TTTAGCGGCGTTTTCCAAGAAGCGAC-
1 GCTAATGC-TCGGGCTTTTAGCGGCGTTTTCGAAAAAGCG-CT
* *
58224053 GCTAATGCTCGGG-ATTTAGCGGCGTTTTTGAAAAAGC
1 GCTAATGCTCGGGCTTTTAGCGGCGTTTTCGAAAAAGC
58224090 ACCGCAAAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
40 24 0.24
41 48 0.48
42 27 0.27
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
GCTAATGCTCGGGCTTTTAGCGGCGTTTTCGAAAAAGCGCT
Found at i:58224685 original size:68 final size:70
Alignment explanation
Indices: 58224612--58224771 Score: 256
Period size: 69 Copynumber: 2.3 Consensus size: 70
58224602 GATTTGGTGT
58224612 TAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TT-TATATTAAATAAGGTTTAGG
1 TAGGTTAGGGTTTAGGGTTTAGATTAATTAGT-TGTTTTAATTTATATATTAAATAAGGTTTAGG
58224675 GGTTAG
65 GGTTAG
*
58224681 -AGGTTAGGGTTTAGGGTTTAGATTAATTAGTTTTTTTAATTTATATATTAAATAAGGTTTAGGG
1 TAGGTTAGGGTTTAGGGTTTAGATTAATTAGTTGTTTTAATTTATATATTAAATAAGGTTTAGGG
58224745 GTTAG
66 GTTAG
* *
58224750 TA-GTTAGGGGTTAGGGGTTAGA
1 TAGGTTAGGGTTTAGGGTTTAGA
58224772 GGTTAGAGGT
Statistics
Matches: 85, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
67 7 0.08
68 33 0.39
69 44 0.52
70 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.44
Consensus pattern (70 bp):
TAGGTTAGGGTTTAGGGTTTAGATTAATTAGTTGTTTTAATTTATATATTAAATAAGGTTTAGGG
GTTAG
Found at i:58224762 original size:7 final size:7
Alignment explanation
Indices: 58224739--58224783 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
58224729 TAAATAAGGT
58224739 TTAGGGG
1 TTAGGGG
**
58224746 TTAGTAG
1 TTAGGGG
58224753 TTAGGGG
1 TTAGGGG
58224760 TTAGGGG
1 TTAGGGG
*
58224767 TTAGAGG
1 TTAGGGG
*
58224774 TTAGAGG
1 TTAGGGG
58224781 TTA
1 TTA
58224784 AGAGTTAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:58224763 original size:21 final size:21
Alignment explanation
Indices: 58224739--58224806 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
58224729 TAAATAAGGT
58224739 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGGGG
*
58224760 TTAGGGGTTAG-AGGTTAGAGG
1 TTAGGGGTTAGTA-GTTAGGGG
* * * *
58224781 TTAAGAGTTAGTGATTTAGGGT
1 TTAGGGGTTAGT-AGTTAGGGG
58224803 TTAG
1 TTAG
58224807 AATTTAAGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.73
22 8 0.22
23 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGGGG
Found at i:58228159 original size:59 final size:59
Alignment explanation
Indices: 58228092--58228212 Score: 224
Period size: 59 Copynumber: 2.1 Consensus size: 59
58228082 AGTTCTAACT
58228092 TTTGGATTTTAATTGTGTTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTAA
1 TTTGGATTTTAATTGTGTTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTAA
* *
58228151 TTTGGATTTTATTTGTGTTATTAATTTATTATTTTAAATTCTAGAACTAAATTCATTAA
1 TTTGGATTTTAATTGTGTTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTAA
58228210 TTT
1 TTT
58228213 TTATATTTAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (59 bp):
TTTGGATTTTAATTGTGTTATTAATTTATTATTTTAAATTCTAAAACTAAATTCATTAA
Found at i:58228491 original size:43 final size:43
Alignment explanation
Indices: 58228390--58228610 Score: 309
Period size: 43 Copynumber: 5.2 Consensus size: 43
58228380 TGTTTTTAGT
* * * * *
58228390 GGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
58228432 GGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * **
58228475 GGCGTTTATGGAAAAAGTGCCGCTAAAGGTCTTGAGATATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
58228518 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
** *
58228561 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAATGGTCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
58228604 GGCGTTT
1 GGCGTTT
58228611 ATTTCTAAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 25 0.16
43 133 0.84
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
Found at i:58240168 original size:20 final size:19
Alignment explanation
Indices: 58240143--58240191 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
58240133 TTACTTTTTC
58240143 CCAAAACTTTTATTTCCTCT
1 CCAAAACTTTTATTTCC-CT
*
58240163 CCAAAAATTTTATTTCCCT
1 CCAAAACTTTTATTTCCCT
*
58240182 CCAAACCTTT
1 CCAAAACTTT
58240192 CAATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.41
Consensus pattern (19 bp):
CCAAAACTTTTATTTCCCT
Found at i:58240179 original size:73 final size:74
Alignment explanation
Indices: 58240096--58240232 Score: 190
Period size: 73 Copynumber: 1.9 Consensus size: 74
58240086 TTTCAAACCC
** *
58240096 TTTTACTTTCCC-CCAAACC-CCCAAAATTTTTTTCCTTTTACTTTTTCCCAAAACTTTTATTTC
1 TTTTACTTTCCCTCCAAACCTCCC--AATTTTTTTCCTTTTACTTTCCCCCAAAACTTTTACTTC
58240159 CTCTCCAAAAA
64 CTCTCCAAAAA
**
58240170 TTTTA-TTTCCCTCCAAACCTTTCAATTTTTTTCCTTTTACTTTCCCCCAAAACTTTTACTTCC
1 TTTTACTTTCCCTCCAAACCTCCCAATTTTTTTCCTTTTACTTTCCCCCAAAACTTTTACTTCC
58240233 CCCAAACCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
73 43 0.77
74 12 0.21
75 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (74 bp):
TTTTACTTTCCCTCCAAACCTCCCAATTTTTTTCCTTTTACTTTCCCCCAAAACTTTTACTTCCT
CTCCAAAAA
Found at i:58240185 original size:19 final size:20
Alignment explanation
Indices: 58240143--58240186 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
58240133 TTACTTTTTC
*
58240143 CCAAAACTTTTATTTCCTCT
1 CCAAAAATTTTATTTCCTCT
58240163 CCAAAAATTTTATTTCC-CT
1 CCAAAAATTTTATTTCCTCT
58240182 CCAAA
1 CCAAA
58240187 CCTTTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.39
Consensus pattern (20 bp):
CCAAAAATTTTATTTCCTCT
Found at i:58240234 original size:18 final size:19
Alignment explanation
Indices: 58240203--58240238 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
58240193 AATTTTTTTC
58240203 CTTTTACTTTCCCCCAAAA
1 CTTTTACTTTCCCCCAAAA
58240222 CTTTTAC-TTCCCCCAAA
1 CTTTTACTTTCCCCCAAA
58240239 CCCCCAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.36
Consensus pattern (19 bp):
CTTTTACTTTCCCCCAAAA
Found at i:58242844 original size:44 final size:44
Alignment explanation
Indices: 58242794--58242886 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
58242784 GAAATGTTTG
58242794 ATAATTTATGTTAGGATAGTGAATAATGTTGACGGTTTACAGTT
1 ATAATTTATGTTAGGATAGTGAATAATGTTGACGGTTTACAGTT
*
58242838 ATAATTTATGTTAGGATAGTGAATAATGTTGATGGTTTACAGTT
1 ATAATTTATGTTAGGATAGTGAATAATGTTGACGGTTTACAGTT
58242882 ATAAT
1 ATAAT
58242887 ACTTTATAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (44 bp):
ATAATTTATGTTAGGATAGTGAATAATGTTGACGGTTTACAGTT
Found at i:58242863 original size:22 final size:22
Alignment explanation
Indices: 58242794--58242864 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
58242784 GAAATGTTTG
58242794 ATAATTTATGTTAGGATAGTGA
1 ATAATTTATGTTAGGATAGTGA
* * * *
58242816 ATAATGTTGACGGTT--TACAGT-T
1 ATAAT-TT-A-TGTTAGGATAGTGA
58242838 ATAATTTATGTTAGGATAGTGA
1 ATAATTTATGTTAGGATAGTGA
58242860 ATAAT
1 ATAAT
58242865 GTTGATGGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
19 3 0.09
20 1 0.03
21 6 0.17
22 15 0.43
23 6 0.17
24 1 0.03
25 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (22 bp):
ATAATTTATGTTAGGATAGTGA
Found at i:58242885 original size:22 final size:22
Alignment explanation
Indices: 58242816--58242886 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
58242806 AGGATAGTGA
*
58242816 ATAATGTTGACGGTTTACAGTT
1 ATAATGTTGATGGTTTACAGTT
* * *
58242838 ATAAT-TT-AT-GTTAGGATAGTGA
1 ATAATGTTGATGGTT--TACAGT-T
58242860 ATAATGTTGATGGTTTACAGTT
1 ATAATGTTGATGGTTTACAGTT
58242882 ATAAT
1 ATAAT
58242887 ACTTTATAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 6 0.17
22 15 0.42
23 6 0.17
24 2 0.06
25 3 0.08
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.42
Consensus pattern (22 bp):
ATAATGTTGATGGTTTACAGTT
Found at i:58244798 original size:24 final size:25
Alignment explanation
Indices: 58244771--58244817 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58244761 CTGAAGCTCG
*
58244771 ATATGGTT-AAACCACCAGTAAAGT
1 ATATAGTTAAAACCACCAGTAAAGT
*
58244795 ATATAGTTAAAACTACCAGTAAA
1 ATATAGTTAAAACCACCAGTAAA
58244818 ATGCAGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.26
Consensus pattern (25 bp):
ATATAGTTAAAACCACCAGTAAAGT
Found at i:58246512 original size:21 final size:21
Alignment explanation
Indices: 58246486--58246528 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
58246476 TTCGGGTGGA
*
58246486 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
58246507 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
58246528 T
1 T
58246529 GGCGTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:58246551 original size:39 final size:39
Alignment explanation
Indices: 58246508--58246616 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 39
58246498 AGTTTCTGTT
*
58246508 CAGCTCTTATGAGCTTCTGTTGGCGTGTTTCGAG-TGGAC
1 CAGCTCTTATGAGCTTCTGTTGGCGTGTTT-AAGTTGGAC
* * *
58246547 CAGCTATTATGAGCTTCTGTTTGGCGTATTTAAGTTGGAT
1 CAGCTCTTATGAGCTTCTG-TTGGCGTGTTTAAGTTGGAC
* * *
58246587 CAGCTCTTATAAGCTTATGTCTGGTGTGTT
1 CAGCTCTTATGAGCTTCTGT-TGGCGTGTT
58246617 CAGTCTATCT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 21 0.36
40 37 0.64
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (39 bp):
CAGCTCTTATGAGCTTCTGTTGGCGTGTTTAAGTTGGAC
Found at i:58246591 original size:40 final size:39
Alignment explanation
Indices: 58246507--58246602 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 39
58246497 GAGTTTCTGT
* *
58246507 TCAGCTCTTATGAGCTTCTGTTGGCGTGTTTCGAGTGGA
1 TCAGCTCTTATGAGCTTCTGTTGGCGTATTTCAAGTGGA
* *
58246546 CCAGCTATTATGAGCTTCTGTTTGGCGTATTT-AAGTTGGA
1 TCAGCTCTTATGAGCTTCTG-TTGGCGTATTTCAAG-TGGA
*
58246586 TCAGCTCTTATAAGCTT
1 TCAGCTCTTATGAGCTT
58246603 ATGTCTGGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 20 0.42
40 28 0.58
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (39 bp):
TCAGCTCTTATGAGCTTCTGTTGGCGTATTTCAAGTGGA
Found at i:58248279 original size:55 final size:54
Alignment explanation
Indices: 58248176--58248285 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 54
58248166 CAAAGGTTTG
* * * **
58248176 CAAGTCAGACAGTTATAGGGCCTGGCACACGGGCGTGTGGCTTGGCCGTGTGACC
1 CAAGTCAGACAGTTACAGGGCCTGGCACACAGACGTGTGGCTCAGCCGTGT-ACC
* * *
58248231 CAAGTCAGAGAGTTACACGGG-CTGGGACACAGACGTGTGTCTCAGCCGTGTACC
1 CAAGTCAGACAGTTACA-GGGCCTGGCACACAGACGTGTGGCTCAGCCGTGTACC
58248285 C
1 C
58248286 CTACAGTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
54 4 0.09
55 39 0.85
56 3 0.07
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.19
Consensus pattern (54 bp):
CAAGTCAGACAGTTACAGGGCCTGGCACACAGACGTGTGGCTCAGCCGTGTACC
Found at i:58250128 original size:27 final size:27
Alignment explanation
Indices: 58250093--58250146 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
58250083 AGATATTTGA
* *
58250093 GACTTTTGTGATCTGTGTAGATAGTAC
1 GACTCTTGTGATATGTGTAGATAGTAC
58250120 GACTCTTGTGATATGTGTAGATAGTAC
1 GACTCTTGTGATATGTGTAGATAGTAC
58250147 ACTTCTCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (27 bp):
GACTCTTGTGATATGTGTAGATAGTAC
Found at i:58256054 original size:52 final size:51
Alignment explanation
Indices: 58255973--58256074 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 51
58255963 AGTGACTCAA
* *
58255973 GTGTGGTACTACGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTTACAG
1 GTGTGGTACTACGTGAAGGCCACTCTGTGAAG-AAGATAGCTTTGGCTACAG
* * *
58256025 GTGTGGTACTATGTGATGGCCACTCTGTGAAGAAGGTAGCTTTGGCTACA
1 GTGTGGTACTACGTGAAGGCCACTCTGTGAAGAAGATAGCTTTGGCTACA
58256075 ATGGTGGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 16 0.36
52 29 0.64
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (51 bp):
GTGTGGTACTACGTGAAGGCCACTCTGTGAAGAAGATAGCTTTGGCTACAG
Found at i:58259662 original size:52 final size:51
Alignment explanation
Indices: 58259584--58259700 Score: 173
Period size: 52 Copynumber: 2.3 Consensus size: 51
58259574 GTGACTTAAA
*
58259584 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGG-TCACAAG
1 TGTGGTACTATGTGAAGACCACTTTGTGAAG-AAGATAGCTTTGGCT-ACAAG
*
58259636 TGTGGTACTATGTGAAGACCACTTTGTGAAGAAGGTAGCTTTGGCTACAAG
1 TGTGGTACTATGTGAAGACCACTTTGTGAAGAAGATAGCTTTGGCTACAAG
* *
58259687 GGTGGAACTATGTG
1 TGTGGTACTATGTG
58259701 CAATTATGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 29 0.48
52 31 0.52
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (51 bp):
TGTGGTACTATGTGAAGACCACTTTGTGAAGAAGATAGCTTTGGCTACAAG
Found at i:58259697 original size:51 final size:52
Alignment explanation
Indices: 58259585--58259700 Score: 173
Period size: 51 Copynumber: 2.2 Consensus size: 52
58259575 TGACTTAAAT
* *
58259585 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAGT
1 GTGGTACTATGTGAAGACCACTTTGTGAAGAAAGATAGCTTTGGTCACAAGG
*
58259637 GTGGTACTATGTGAAGACCACTTTGTGAAG-AAGGTAGCTTTGG-CTACAAGG
1 GTGGTACTATGTGAAGACCACTTTGTGAAGAAAGATAGCTTTGGTC-ACAAGG
*
58259688 GTGGAACTATGTG
1 GTGGTACTATGTG
58259701 CAATTATGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 1 0.02
51 29 0.49
52 29 0.49
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (52 bp):
GTGGTACTATGTGAAGACCACTTTGTGAAGAAAGATAGCTTTGGTCACAAGG
Found at i:58262928 original size:17 final size:18
Alignment explanation
Indices: 58262906--58262941 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
58262896 ATAAAAAGTC
58262906 AAAGATATGGGTAT-AAA
1 AAAGATATGGGTATCAAA
58262923 AAAGATATGGGTATCAAA
1 AAAGATATGGGTATCAAA
58262941 A
1 A
58262942 TATGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.22
Consensus pattern (18 bp):
AAAGATATGGGTATCAAA
Found at i:58265162 original size:28 final size:29
Alignment explanation
Indices: 58265083--58265171 Score: 110
Period size: 29 Copynumber: 3.0 Consensus size: 29
58265073 AAGTATATAT
58265083 ATATGTACATATATAAGTTATAAAAATAG
1 ATATGTACATATATAAGTTATAAAAATAG
** *
58265112 ATATGTATGTATATATAGATTATGAAAATA-
1 ATATGTACATATATA-AG-TTATAAAAATAG
58265142 ATGAT-TACATATATAAGTTATAAAAATAG
1 AT-ATGTACATATATAAGTTATAAAAATAG
58265171 A
1 A
58265172 AATAATGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
28 10 0.20
29 16 0.32
30 12 0.24
31 12 0.24
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (29 bp):
ATATGTACATATATAAGTTATAAAAATAG
Found at i:58265993 original size:7 final size:6
Alignment explanation
Indices: 58265977--58266009 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
58265967 CATATGTAGG
58265977 AAAAAT AAAAAT AAAAAT AAAAA- AGAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAA
58266010 TAACGAAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 23 0.92
7 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:58269032 original size:17 final size:17
Alignment explanation
Indices: 58269007--58269039 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58268997 ATAGAAAGTC
58269007 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
58269024 AAAGCTATGGGTATCA
1 AAAGATATGGGTATCA
58269040 AAATCTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:58269585 original size:27 final size:27
Alignment explanation
Indices: 58269555--58269606 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
58269545 TTTCAATCGG
58269555 CAACATGCTTTAATACTACACATTATA
1 CAACATGCTTTAATACTACACATTATA
58269582 CAACATGCTTTAATACTACACATTA
1 CAACATGCTTTAATACTACACATTA
58269607 ACCATTACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (27 bp):
CAACATGCTTTAATACTACACATTATA
Found at i:58270281 original size:20 final size:19
Alignment explanation
Indices: 58270256--58270298 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
58270246 ACACAAGGAT
58270256 AAAAA-GAAAATAAGAGAAGA
1 AAAAAGGAAAA-AAGA-AAGA
*
58270276 AAAAAGGAGAAAAGAAAGA
1 AAAAAGGAAAAAAGAAAGA
58270295 AAAA
1 AAAA
58270299 CCGAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (19 bp):
AAAAAGGAAAAAAGAAAGA
Found at i:58270304 original size:19 final size:20
Alignment explanation
Indices: 58270267--58270304 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
58270257 AAAAGAAAAT
*
58270267 AAGAGAAGAAAAAAGGAGAA
1 AAGAGAAGAAAAAACGAGAA
*
58270287 AAGA-AAGAAAAACCGAGA
1 AAGAGAAGAAAAAACGAGA
58270305 GAAAATAAAA
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:0.68, C:0.05, G:0.26, T:0.00
Consensus pattern (20 bp):
AAGAGAAGAAAAAACGAGAA
Found at i:58287989 original size:40 final size:40
Alignment explanation
Indices: 58287945--58288034 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
58287935 TAATTACATC
* *
58287945 GGCACTAAGCCTACTAGGAAATAAGCCCGATAGATACACT
1 GGCACAAAGCCTACTAAGAAATAAGCCCGATAGATACACT
* * * * * *
58287985 GGCACAAAGTCTGCTAAGCATTAAGCCTGATAGATACACC
1 GGCACAAAGCCTACTAAGAAATAAGCCCGATAGATACACT
*
58288025 GACACAAAGC
1 GGCACAAAGC
58288035 TTGCTAGGCA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.17
Consensus pattern (40 bp):
GGCACAAAGCCTACTAAGAAATAAGCCCGATAGATACACT
Found at i:58290429 original size:73 final size:73
Alignment explanation
Indices: 58290298--58290488 Score: 256
Period size: 73 Copynumber: 2.6 Consensus size: 73
58290288 TCTCTAACTT
* * * * * **
58290298 AGGTCACACGGCCAAGACAAACGCCTGTGTACTAGGCCGTGTGAACATATTATTTTTCATTAAAT
1 AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCTGTGTGAACACATTAAATTTCATTAAAT
58290363 AGGTGCAG
66 AGGTGCAG
* *
58290371 ATGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCTGTGTGAACACATTAAATTTCATTAATT
1 AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCTGTGTGAACACATTAAATTTCATTAAAT
58290436 AGGTGCAG
66 AGGTGCAG
* * * * *
58290444 AGGTCACACGGCCGAGTCACATGCCCGTGTGCCAAGCTGTGTGAA
1 AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCTGTGTGAA
58290489 AATACCCGAG
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 103 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (73 bp):
AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCTGTGTGAACACATTAAATTTCATTAAAT
AGGTGCAG
Found at i:58291577 original size:24 final size:24
Alignment explanation
Indices: 58291550--58291600 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
58291540 GTGAACCACG
*
58291550 TAACGGGTAGCTTCGAAGACCAAT
1 TAACGAGTAGCTTCGAAGACCAAT
*
58291574 TAACGAGTAGCTTCGAAGAGCAAT
1 TAACGAGTAGCTTCGAAGACCAAT
58291598 TAA
1 TAA
58291601 TTAGGAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (24 bp):
TAACGAGTAGCTTCGAAGACCAAT
Found at i:58298157 original size:7 final size:7
Alignment explanation
Indices: 58298145--58298182 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
58298135 GAATTTACAT
58298145 TAATGAA
1 TAATGAA
58298152 TAATGAA
1 TAATGAA
58298159 TAATGAA
1 TAATGAA
58298166 TAATGAA
1 TAATGAA
*
58298173 TAATCAA
1 TAATGAA
58298180 TAA
1 TAA
58298183 ATAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (7 bp):
TAATGAA
Found at i:58298387 original size:29 final size:28
Alignment explanation
Indices: 58298343--58298418 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 28
58298333 ATAATATATG
* *
58298343 AATTAAAATTTTAAAATAAATTTAAATA
1 AATTAAAATATTAAAATAAATTGAAATA
*
58298371 AATTAACAATATTAAAATAAGTTGAAATA
1 AATTAA-AATATTAAAATAAATTGAAATA
*
58298400 AATTAAAAATGTTAAAATA
1 AATT-AAAATATTAAAATA
58298419 TTTGAAACAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 6 0.14
29 34 0.81
30 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (28 bp):
AATTAAAATATTAAAATAAATTGAAATA
Found at i:58299878 original size:28 final size:28
Alignment explanation
Indices: 58299846--58299902 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
58299836 GTTTTGGGCA
58299846 TAGGATCGGGTTTAGTTTTAGTTTTTTT
1 TAGGATCGGGTTTAGTTTTAGTTTTTTT
58299874 TAGGATCGGGTTTAGTTTTAGTTTTTTT
1 TAGGATCGGGTTTAGTTTTAGTTTTTTT
58299902 T
1 T
58299903 TAAATTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.04, G:0.25, T:0.58
Consensus pattern (28 bp):
TAGGATCGGGTTTAGTTTTAGTTTTTTT
Found at i:58302184 original size:24 final size:24
Alignment explanation
Indices: 58302157--58302208 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
58302147 AAGTTCAAGC
58302157 GAGCAATAT-CAAGAAGCTCACAAA
1 GAGCAATATACAAGAAGCTCA-AAA
* *
58302181 GAGC-CTATACAAGAAGCTCATAA
1 GAGCAATATACAAGAAGCTCAAAA
58302204 GAGCA
1 GAGCA
58302209 GCGGTGTGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.13
Consensus pattern (24 bp):
GAGCAATATACAAGAAGCTCAAAA
Found at i:58305645 original size:7 final size:7
Alignment explanation
Indices: 58305633--58305664 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
58305623 TTATTGAGCT
58305633 TATAATA
1 TATAATA
58305640 TATAATA
1 TATAATA
58305647 TATAATA
1 TATAATA
*
58305654 TATAATT
1 TATAATA
58305661 TATA
1 TATA
58305665 TTAGATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TATAATA
Found at i:58305766 original size:21 final size:21
Alignment explanation
Indices: 58305740--58305822 Score: 87
Period size: 21 Copynumber: 3.8 Consensus size: 21
58305730 TTAGTATTAG
58305740 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
58305761 AATTTATTTATATATTTTATTTCT
1 AATTTATTTATATATTTTA--T-T
* *
58305785 AATATA-TTATAATATTATATT
1 AATTTATTTAT-ATATTTTATT
*
58305806 AATATTATTTTTATATT
1 AAT-TTATTTATATATT
58305823 ATTTATCTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
21 23 0.44
22 8 0.15
23 8 0.15
24 13 0.25
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (21 bp):
AATTTATTTATATATTTTATT
Found at i:58305825 original size:11 final size:11
Alignment explanation
Indices: 58305746--58305826 Score: 60
Period size: 11 Copynumber: 7.2 Consensus size: 11
58305736 TTAGAATTTA
58305746 TTTATATATT-T
1 TTTA-ATATTAT
58305757 TATTAAT-TTAT
1 T-TTAATATTAT
*
58305768 TTATATATTTTAT
1 TT-TA-ATATTAT
58305781 TTCTAATA-TAT
1 TT-TAATATTAT
*
58305792 TATAATATTAT
1 TTTAATATTAT
*
58305803 ATTAATATTAT
1 TTTAATATTAT
*
58305814 TTTTATATTAT
1 TTTAATATTAT
58305825 TT
1 TT
58305827 ATCTATTTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
10 8 0.14
11 34 0.60
12 7 0.12
13 8 0.14
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:58305833 original size:11 final size:11
Alignment explanation
Indices: 58305743--58305833 Score: 57
Period size: 11 Copynumber: 8.2 Consensus size: 11
58305733 GTATTAGAAT
58305743 TTATTTATATA
1 TTATTTATATA
*
58305754 TTTTATTA-AT-
1 TTAT-TTATATA
58305764 TTATTTATATA
1 TTATTTATATA
*
58305775 TTTTATTTCTA-A
1 --TTATTTATATA
58305787 -TATATTATAATA
1 TTAT-TTAT-ATA
58305799 TTATATTA-ATA
1 TTAT-TTATATA
*
58305810 TTATTTTTATA
1 TTATTTATATA
*
58305821 TTATTTATCTA
1 TTATTTATATA
58305832 TT
1 TT
58305834 TCTATTTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
9 6 0.10
10 10 0.16
11 27 0.43
12 5 0.08
13 15 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTTATATA
Found at i:58305840 original size:63 final size:65
Alignment explanation
Indices: 58305689--58305845 Score: 152
Period size: 63 Copynumber: 2.5 Consensus size: 65
58305679 ATTAATTCTA
* *
58305689 TTATA-TATTTATCTA-TTCTATTATATATATTCTAATATATATTAGTATTAGAATTTATTTATA
1 TTATATTATTTATCTATTTCTATT-T-TAT-TTCTAATATATATTAATATTAGAATTAATTTATA
58305752 TAT
63 TAT
* * *
58305755 TT-TATTAATTTAT-T-TATATATTTTATTTCTAATATAT-TATAATATTA-TATTAATATTAT-
1 TTATATT-ATTTATCTATTTCTATTTTATTTCTAATATATAT-TAATATTAGAATTAAT-TTATA
58305814 T-T
63 TAT
58305816 TTATATTATTTATCTATTTCTATTTTATTT
1 TTATATTATTTATCTATTTCTATTTTATTT
58305846 ATTTCATTTG
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
61 9 0.12
62 12 0.16
63 34 0.45
64 3 0.04
65 3 0.04
66 9 0.12
67 6 0.08
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (65 bp):
TTATATTATTTATCTATTTCTATTTTATTTCTAATATATATTAATATTAGAATTAATTTATATAT
Found at i:58305843 original size:19 final size:19
Alignment explanation
Indices: 58305811--58305847 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58305801 ATATTAATAT
*
58305811 TATTTTTATATTATTTATC
1 TATTTCTATATTATTTATC
*
58305830 TATTTCTATTTTATTTAT
1 TATTTCTATATTATTTAT
58305848 TTCATTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTCTATATTATTTATC
Found at i:58320434 original size:2 final size:2
Alignment explanation
Indices: 58320415--58320451 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
58320405 TCTTTTGGCT
* *
58320415 AC AC AT AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
58320452 TATATCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.43, G:0.00, T:0.05
Consensus pattern (2 bp):
AC
Found at i:58337773 original size:52 final size:52
Alignment explanation
Indices: 58337708--58337812 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
58337698 TTACAAATGG
*
58337708 TAAGACAACATTATTAAATTATTTAATTTT-AATCAGTTAATTATTATGGTGT
1 TAAGAAAACATTATTAAATTATTTAATTTTAAAT-AGTTAATTATTATGGTGT
* * *
58337760 TAAGAAAATATTATTAAATTATTTTATTTTAAATAGTTAATTATTATGTTGT
1 TAAGAAAACATTATTAAATTATTTAATTTTAAATAGTTAATTATTATGGTGT
58337812 T
1 T
58337813 TAGATTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 45 0.94
53 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.50
Consensus pattern (52 bp):
TAAGAAAACATTATTAAATTATTTAATTTTAAATAGTTAATTATTATGGTGT
Found at i:58339237 original size:12 final size:13
Alignment explanation
Indices: 58339211--58339239 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
58339201 TCCGATGGCG
58339211 TTCTTCAAGTCTT
1 TTCTTCAAGTCTT
58339224 TTCTTCAA-TCTT
1 TTCTTCAAGTCTT
58339236 TTCT
1 TTCT
58339240 ATGTCTCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.24, G:0.03, T:0.59
Consensus pattern (13 bp):
TTCTTCAAGTCTT
Found at i:58343124 original size:30 final size:30
Alignment explanation
Indices: 58343083--58343143 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
58343073 CACTCCGCCA
58343083 TTACTAGAAAAATGAGATCAAAGAAGAAAT
1 TTACTAGAAAAATGAGATCAAAGAAGAAAT
* *
58343113 TTACTATAAAAATGAGATGAAAGAAGAAAT
1 TTACTAGAAAAATGAGATCAAAGAAGAAAT
58343143 T
1 T
58343144 GTTGAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.16, T:0.23
Consensus pattern (30 bp):
TTACTAGAAAAATGAGATCAAAGAAGAAAT
Found at i:58347799 original size:81 final size:81
Alignment explanation
Indices: 58347712--58347877 Score: 323
Period size: 81 Copynumber: 2.0 Consensus size: 81
58347702 AGTTAAAATG
58347712 AAAACATAATTTTTTTCTAAATTAAATCATAAGAATAAACTATGTAAAATATAATATGAATTCAT
1 AAAACATAATTTTTTTCTAAATTAAATCATAAGAATAAACTATGTAAAATATAATATGAATTCAT
58347777 AGAAAAAAAACGTTTT
66 AGAAAAAAAACGTTTT
*
58347793 AAAACATAATTTTTTTCTAAATTAAATCATAATAATAAACTATGTAAAATATAATATGAATTCAT
1 AAAACATAATTTTTTTCTAAATTAAATCATAAGAATAAACTATGTAAAATATAATATGAATTCAT
58347858 AGAAAAAAAACGTTTT
66 AGAAAAAAAACGTTTT
58347874 AAAA
1 AAAA
58347878 AAATTCCTAA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.34
Consensus pattern (81 bp):
AAAACATAATTTTTTTCTAAATTAAATCATAAGAATAAACTATGTAAAATATAATATGAATTCAT
AGAAAAAAAACGTTTT
Found at i:58351542 original size:43 final size:43
Alignment explanation
Indices: 58351390--58351554 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
58351380 TTCTGAGATA
* *
58351390 TGATTTCATGTAAGACCACGTCTGGGA-TGTTGGCATCGAT-TT
1 TGATTACATGTAAGACCACGTCTGGGACAGTTGGCATC-ATATT
* * * * * *
58351432 GAGATTTACGTGTAAGACCATGTCTGGGACA-TCGGCATCGTATA
1 -TGA-TTACATGTAAGACCACGTCTGGGACAGTTGGCATCATATT
* *
58351476 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCAATATT
1 TGATTACATGTAAGACCAC-GTCTGGGACAGTTGGCATC-ATATT
58351519 TGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGATTACATGTAAGACCACGTCTGGGACAGTTGGCAT
58351555 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
42 30 0.31
43 38 0.39
44 30 0.31
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGATTACATGTAAGACCACGTCTGGGACAGTTGGCATCATATT
Found at i:58358692 original size:26 final size:25
Alignment explanation
Indices: 58358632--58358910 Score: 175
Period size: 26 Copynumber: 10.9 Consensus size: 25
58358622 AAAAAATCTC
*
58358632 TTTTAT-TATTATTTATTTTAAGTT
1 TTTTATATATTATTTATTTTAAATT
58358656 TTTTATATATTATTTATTTTAAATT
1 TTTTATATATTATTTATTTTAAATT
*
58358681 GTTTTACATATTATTTATTTTAAA-T
1 -TTTTATATATTATTTATTTTAAATT
*
58358706 TTTT-TATA-TA-TTATTTTAAACTA
1 TTTTATATATTATTTATTTTAAA-TT
* *
58358729 TTATATATATATATTATCTTTTAAA-T
1 TTTTATATAT-TATT-TATTTTAAATT
* *
58358755 TTTTATATATTATTTTTTTATAAACTG
1 TTTTATATATTATTTATTT-TAAA-TT
* * * *
58358782 TTTTATATGTTTTTTCTATTATTTATTT
1 TTTTATAT-ATTATT-TATT-TTAAATT
*
58358810 TAAACTATTTTATTATTATTTATTTT-AATT
1 T----T-TTATA-TATTATTTATTTTAAATT
* *
58358840 TTTTATATATTGTTTATTTGAAA--
1 TTTTATATATTATTTATTTTAAATT
* *
58358863 CTTT-T-TATTATTTATTTTGAATT
1 TTTTATATATTATTTATTTTAAATT
*
58358886 GTTCTTATAAATTATTTATTTTAAA
1 -TT-TTATATATTATTTATTTTAAA
58358911 CTATTATTTA
Statistics
Matches: 197, Mismatches: 30, Indels: 53
0.70 0.11 0.19
Matches are distributed among these distances:
21 23 0.12
22 3 0.02
23 9 0.05
24 30 0.15
25 34 0.17
26 35 0.18
27 23 0.12
28 14 0.07
29 5 0.03
30 5 0.03
31 2 0.01
32 5 0.03
33 8 0.04
34 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTATATATTATTTATTTTAAATT
Found at i:58358711 original size:35 final size:34
Alignment explanation
Indices: 58358672--58358813 Score: 81
Period size: 35 Copynumber: 3.9 Consensus size: 34
58358662 ATATTATTTA
*
58358672 TTTTAAATTGTTTTACATATTATTTATTTTAAATT
1 TTTTAAA-TGTTTTACATATTATTTATTTTAAATC
* * * * *
58358707 TTTTATATATTATTTTAAACTATTATATATATATATTATC
1 TTTTA-A-A-TGTTTTACA-TATTATTTAT-TTTA-AATC
* * *
58358747 TTTTAAAT-TTTTATATATTATTTTTTTATAAACTG
1 TTTTAAATGTTTTACATATTATTTATTT-TAAA-TC
* *
58358782 TTTTATATGTTTTTTC-TATTATTTATTTTAAA
1 TTTTAAATG-TTTTACATATTATTTATTTTAAA
58358814 CTATTTTATT
Statistics
Matches: 82, Mismatches: 16, Indels: 18
0.71 0.14 0.16
Matches are distributed among these distances:
34 2 0.02
35 27 0.33
36 18 0.22
37 14 0.17
38 10 0.12
39 4 0.05
40 7 0.09
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (34 bp):
TTTTAAATGTTTTACATATTATTTATTTTAAATC
Found at i:58358734 original size:20 final size:21
Alignment explanation
Indices: 58358695--58358736 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
58358685 TACATATTAT
* *
58358695 TTATTTTAAATTTTTTATATA
1 TTATTTTAAATCTATTATATA
58358716 TTATTTTAAA-CTATTATATA
1 TTATTTTAAATCTATTATATA
58358736 T
1 T
58358737 ATATATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTAAATCTATTATATA
Found at i:58358743 original size:51 final size:48
Alignment explanation
Indices: 58358638--58358770 Score: 144
Period size: 51 Copynumber: 2.7 Consensus size: 48
58358628 TCTCTTTTAT
* * * *
58358638 TATTATTTATTTTAAGTTTTTTATATATTATTTATTTTAAATTGTTTTACA
1 TATTATTTATTTTAAATTTTTTATATATTA--T-TTTAAAATTATTATACA
* *
58358689 TATTATTTATTTTAAATTTTTTATATATTATTTT-AAACTATTATATA
1 TATTATTTATTTTAAATTTTTTATATATTATTTTAAAATTATTATACA
*
58358736 TATATATTATCTTTTAAA-TTTTTATATATTATTTT
1 TAT-TATT-TATTTTAAATTTTTTATATATTATTTT
58358771 TTTATAAACT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
47 12 0.16
48 24 0.32
49 9 0.12
51 29 0.39
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (48 bp):
TATTATTTATTTTAAATTTTTTATATATTATTTTAAAATTATTATACA
Found at i:58358789 original size:51 final size:50
Alignment explanation
Indices: 58358632--58358910 Score: 218
Period size: 49 Copynumber: 5.5 Consensus size: 50
58358622 AAAAAATCTC
* *
58358632 TTTTAT-TATTATTTATTTTAAGTTTTTTATATATTATTTATTTTAAATTG
1 TTTTATATATTATTTATTTTAA-ATTTTTATATATTATTTATTTTAAACTG
* *
58358682 TTTTACATATTATTTATTTTAAATTTTT-TATA-TA-TTATTTTAAACTA
1 TTTTATATATTATTTATTTTAAATTTTTATATATTATTTATTTTAAACTG
* * *
58358729 TTATATATATATATTATCTTTTAAATTTTTATATATTATTTTTTTATAAACTG
1 TTTTATATAT-TATT-TATTTTAAATTTTTATATATTATTTATTT-TAAACTG
*
58358782 TTTTATATGTTTTTTCTATTATTTATTTTAAACTATTTTAT-TATTATTTATTTT-AA-TT
1 TTTTATA---------TATTATTTATTTTAAA-T-TTTTATATATTATTTATTTTAAACTG
* * * * *
58358840 TTTTATATATTGTTTATTTGAAA-CTTT-T-TATTATTTATTTTGAATTG
1 TTTTATATATTATTTATTTTAAATTTTTATATATTATTTATTTTAAACTG
*
58358887 TTCTTATAAATTATTTATTTTAAA
1 TT-TTATATATTATTTATTTTAAA
58358911 CTATTATTTA
Statistics
Matches: 188, Mismatches: 20, Indels: 44
0.75 0.08 0.17
Matches are distributed among these distances:
45 14 0.07
46 5 0.03
47 22 0.12
48 24 0.13
49 31 0.16
50 14 0.07
51 17 0.09
52 5 0.03
53 12 0.06
58 8 0.04
59 2 0.01
60 9 0.05
61 16 0.09
62 9 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (50 bp):
TTTTATATATTATTTATTTTAAATTTTTATATATTATTTATTTTAAACTG
Found at i:58358864 original size:49 final size:51
Alignment explanation
Indices: 58358798--58358920 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 51
58358788 ATGTTTTTTC
58358798 TATTATTTATTTTAAACTATTTTATTATTATTTATTTT-AATT-TT-TTATA
1 TATTATTTATTTTAAACTATTTT-TTATTATTTATTTTGAATTGTTCTTATA
* *
58358847 TATTGTTTATTTGAAAC---TTTTTATTATTTATTTTGAATTGTTCTTATA
1 TATTATTTATTTTAAACTATTTTTTATTATTTATTTTGAATTGTTCTTATA
* *
58358895 AATTATTTATTTTAAACTATTATTTA
1 TATTATTTATTTTAAACTATTTTTTA
58358921 CTTTAAATTG
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
45 14 0.23
46 7 0.11
47 2 0.03
48 19 0.31
49 15 0.24
51 5 0.08
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (51 bp):
TATTATTTATTTTAAACTATTTTTTATTATTTATTTTGAATTGTTCTTATA
Found at i:58358917 original size:44 final size:43
Alignment explanation
Indices: 58358822--58358946 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 43
58358812 AACTATTTTA
*
58358822 TTATTATTTATTTTAATT-TTTTATATATTGTTTATTTGAAAC
1 TTATTATTTATTTTAATTGTTTTATATATTATTTATTTGAAAC
* *
58358864 TTTTTATTATTTATTTTGAATTGTTCTTATAAATTATTTATTTTAAAC
1 ---TTATTATTTATTTT-AATTGTT-TTATATATTATTTATTTGAAAC
*
58358912 -TATTATTTACTTTAAATTGTTTTATATATTATTTA
1 TTATTATTTA-TTTTAATTGTTTTATATATTATTTA
58358947 GTTTCGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
43 13 0.18
44 16 0.23
45 17 0.24
46 4 0.06
47 2 0.03
48 19 0.27
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (43 bp):
TTATTATTTATTTTAATTGTTTTATATATTATTTATTTGAAAC
Found at i:58362669 original size:19 final size:20
Alignment explanation
Indices: 58362634--58362672 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
58362624 TTTTTGTATT
*
58362634 CATTTCATTCATCTGCATTA
1 CATTTCATTCATATGCATTA
58362654 CATTTCA-TCATATGCATTA
1 CATTTCATTCATATGCATTA
58362673 AGTTTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
CATTTCATTCATATGCATTA
Found at i:58370840 original size:44 final size:43
Alignment explanation
Indices: 58370783--58371216 Score: 184
Period size: 44 Copynumber: 9.7 Consensus size: 43
58370773 TATAGCAAAC
*
58370783 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGATAAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTA-GATAAAGTTACTAAT
** * * * *
58370827 CTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TAAAGTTACT-AAT
* * *
58370872 CTTATTTCCTTGAAGTTCCAGTGGAACAGATTAAAGCAATAAA-TTAC-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGG---AG--T--AG--ATAAAGTTACTA-AT
* * * * * * *
58370923 CTTATCTCTCTAAAGTTGTAGTAGAGCAGAT-CA--TATCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATAAAGTTA-CTAAT
* ** * * ** * *
58370964 CTTATCTCTCTGAAGTTATAGTAGAGCAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TAAAGTTACTAAT
* *
58371008 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTA-GATAAAGTTACTAAT
* * *
58371052 CTTATCTCCCTGAAATTGCAGTGGAGTAGACTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TAAAGTTA-CTAAT
* ** *
58371097 CTTATTTCCCT-AATGTTGCAGTGGAACAGATTAAAGTTATAAATTACAGAT
1 CTTATCTCCCTGAA-GTTGCAGTGGAGTAGA-TAAAG-T-T--ACT--A-AT
* * * * *
58371148 CTTATCTCTCTGAAGTTGCAGTAGAGTAGAT-CA--TATCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATAAAGTTA-CTAAT
*
58371189 CTTATCTCCCTGAAGTTGCAATGGAGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTA
58371217 AATTGAAACT
Statistics
Matches: 294, Mismatches: 65, Indels: 65
0.69 0.15 0.15
Matches are distributed among these distances:
40 2 0.01
41 58 0.20
42 5 0.02
43 5 0.02
44 105 0.36
45 56 0.19
47 1 0.00
48 4 0.01
49 2 0.01
50 3 0.01
51 43 0.15
52 6 0.02
53 3 0.01
54 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATAAAGTTACTAAT
Found at i:58371173 original size:225 final size:225
Alignment explanation
Indices: 58370778--58371205 Score: 687
Period size: 225 Copynumber: 1.9 Consensus size: 225
58370768 AAGATTATAG
*
58370778 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGATAAAGTTACTAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGATAAAGTTACTAGTCTTATCTCCCTGAAAT
* * * * *
58370843 TATAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCCTTGAAGTTCCAGTGGAACAGATTAAAG
66 TACAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTCCAGTGGAACAGATTAAAG
* * *
58370908 CAATAAATTACAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATATCAAATCTTATCTCT
131 CAATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATATCAAACCTTATCTCC
58370973 CTGAAGTTATAGTAGAGCAGATTAAAGCCA
196 CTGAAGTTATAGTAGAGCAGATTAAAGCCA
*
58371003 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACTAGTCTTATCTCCCTGAAAT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGATAAAGTTACTAGTCTTATCTCCCTGAAAT
* * *
58371068 TGCAGTGGAGTAGACTAAAGATAGCGAATCTTATTTCCCT-AATGTTGCAGTGGAACAGATTAAA
66 TACAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAA-GTTCCAGTGGAACAGATTAAA
** * *
58371132 GTTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCTC
130 GCAATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATATCAAACCTTATCTC
58371197 CCTGAAGTT
195 CCTGAAGTT
58371206 GCAATGGAGT
Statistics
Matches: 185, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
224 2 0.01
225 183 0.99
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (225 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGATAAAGTTACTAGTCTTATCTCCCTGAAAT
TACAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTCCAGTGGAACAGATTAAAG
CAATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATATCAAACCTTATCTCC
CTGAAGTTATAGTAGAGCAGATTAAAGCCA
Found at i:58372823 original size:25 final size:25
Alignment explanation
Indices: 58372795--58372945 Score: 150
Period size: 26 Copynumber: 6.1 Consensus size: 25
58372785 ATTTTAAAAA
58372795 AAGTTCTTTTAT-TATTATTTATTTT
1 AAGTT-TTTTATATATTATTTATTTT
*
58372820 AAGTTTTTTTATATTTTATTTATTTT
1 AAG-TTTTTTATATATTATTTATTTT
* * * *
58372846 AAACTGTTTTACATATTATTTATTTA
1 -AAGTTTTTTATATATTATTTATTTT
*
58372872 AAATTTTTTATATATTATTTATTTT
1 AAGTTTTTTATATATTATTTATTTT
* * *
58372897 AAGTTATTATATATATTATCT-TTTA
1 AAGTT-TTTTATATATTATTTATTTT
58372922 AAG--TTTTATATATTATTT-TTTT
1 AAGTTTTTTATATATTATTTATTTT
58372944 AA
1 AA
58372946 AACTGTTTTA
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
22 18 0.17
25 40 0.38
26 45 0.43
27 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (25 bp):
AAGTTTTTTATATATTATTTATTTT
Found at i:58372831 original size:22 final size:22
Alignment explanation
Indices: 58372801--58373080 Score: 83
Period size: 26 Copynumber: 12.0 Consensus size: 22
58372791 AAAAAAGTTC
*
58372801 TTTTATTATTATTTATTTTAAG
1 TTTTTTTATTATTTATTTTAAG
58372823 TTTTTTTATATTTTATTTATTTTAAACTG
1 -TTTTTT-TA--TTATTTATTTT-AA--G
** * *
58372852 TTTTACATATTATTTATTTAAAAT
1 TTTT-TTTATTATTTATTT-TAAG
58372876 TTTTTATATATTATTTATTTTAAG
1 TTTTT-T-TATTATTTATTTTAAG
* * *
58372900 TTATTATATATATTATCTTTTAAAG
1 TTTTTTTAT-TATT-TATTTT-AAG
* *
58372925 TTTTATATATTATTT-TTTTAAAA
1 TTTT-TTTATTATTTATTTT-AAG
* *
58372948 CTGTTTTA-TATGTTA--TT---
1 TTTTTTTATTAT-TTATTTTAAG
* *
58372965 -TTTTATATTATTTATTTTAAA
1 TTTTTTTATTATTTATTTTAAG
* *
58372986 CTGTTTTATTATTTATTTTAAG
1 TTTTTTTATTATTTATTTTAAG
*
58373008 TTTTTTTATATATAGTTTATTTGAA-
1 -TTTTTT-TAT-TA-TTTATTTTAAG
** *
58373033 ACTTTTTATTATTTATTTTGAAA
1 TTTTTTTATTATTTATTTT-AAG
58373056 TTTTCTTATAAATTATTTATTTTAA
1 TTTT-TT-T--ATTATTTATTTTAA
58373081 ACTATTATTT
Statistics
Matches: 194, Mismatches: 30, Indels: 63
0.68 0.10 0.22
Matches are distributed among these distances:
16 8 0.04
17 3 0.02
18 2 0.01
21 12 0.06
22 30 0.15
23 27 0.14
24 27 0.14
25 25 0.13
26 39 0.20
27 14 0.07
28 6 0.03
29 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTTTTATTATTTATTTTAAG
Found at i:58372872 original size:51 final size:49
Alignment explanation
Indices: 58372801--58373083 Score: 187
Period size: 48 Copynumber: 6.0 Consensus size: 49
58372791 AAAAAAGTTC
*
58372801 TTTTAT-TATTATTTATTTTAAGTTTTTTTATATTTTATTTATTTTAAACTG
1 TTTTATATATTA-TT-TTTTAAG-TTTTTTATATATTATTTATTTTAAACTG
* * ** *
58372852 TTTTACATATTATTTATTTAAAATTTTTTATATATTATTTATTTTAAGTTA
1 TTTTATATATTATTT-TTT-AAGTTTTTTATATATTATTTATTTTAAACTG
* *
58372903 TTATATATATTATCTTTTAAAG--TTTTATATATTATTT-TTTTAAAACTG
1 TTTTATATATTAT-TTTTTAAGTTTTTTATATATTATTTATTTT-AAACTG
*
58372951 --TT-T-TA-TA--TGTT-A--TTTTT-TATATTATTTATTTTAAACTG
1 TTTTATATATTATTTTTTAAGTTTTTTATATATTATTTATTTTAAACTG
*
58372989 TTTTAT-TATTTA-TTT-TAAGTTTTTT-TATATATAGTTTATTTGAAACT-
1 TTTTATATA-TTATTTTTTAAGTTTTTTATATAT-TA-TTTATTTTAAACTG
* * *
58373036 TTTTAT-TATT-TATTTTGAAATTTTCTTATAAATTATTTATTTTAAACT
1 TTTTATATATTAT-TTTTTAAGTTTT-TTATATATTATTTATTTTAAACT
58373084 ATTATTTACT
Statistics
Matches: 187, Mismatches: 22, Indels: 49
0.72 0.09 0.19
Matches are distributed among these distances:
38 16 0.09
39 9 0.05
40 4 0.02
41 3 0.02
43 5 0.03
44 4 0.02
45 1 0.01
46 13 0.07
47 17 0.09
48 48 0.26
49 4 0.02
50 7 0.04
51 47 0.25
52 9 0.05
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (49 bp):
TTTTATATATTATTTTTTAAGTTTTTTATATATTATTTATTTTAAACTG
Found at i:58372953 original size:26 final size:24
Alignment explanation
Indices: 58372801--58372968 Score: 139
Period size: 26 Copynumber: 6.8 Consensus size: 24
58372791 AAAAAAGTTC
* *
58372801 TTTTAT-TATTATTTATTTTAAGTTT
1 TTTTATATATTATTT-TTTTAA-ATG
*
58372826 TTTTATATTTTATTTATTTTAAACTG
1 TTTTATATATTATTT-TTTTAAA-TG
* * *
58372852 TTTTACATATTATTTATTTAAAATT
1 TTTTATATATTATTT-TTTTAAATG
58372877 TTTTATATATTATTTATTTT-AA-G
1 TTTTATATATTATTT-TTTTAAATG
58372900 TTATTATATA-TATTATCTTTTAAA-G
1 TT-TTATATATTATT-T-TTTTAAATG
58372925 TTTTATATATTATTTTTTTAAAACTG
1 TTTTATATATTATTTTTTT-AAA-TG
*
58372951 TTTTATATGTTATTTTTT
1 TTTTATATATTATTTTTT
58372969 ATATTATTTA
Statistics
Matches: 122, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.08
24 25 0.20
25 34 0.28
26 53 0.43
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTATATATTATTTTTTTAAATG
Found at i:58372975 original size:38 final size:38
Alignment explanation
Indices: 58372925--58373005 Score: 121
Period size: 38 Copynumber: 2.1 Consensus size: 38
58372915 TCTTTTAAAG
58372925 TTTTATATATTATTT-TTTTAAAACTGTTTTA-TATGTTA
1 TTTTATATATTATTTATTTT-AAACTGTTTTATTAT-TTA
*
58372963 TTTTTTATATTATTTATTTTAAACTGTTTTATTATTTA
1 TTTTATATATTATTTATTTTAAACTGTTTTATTATTTA
58373001 TTTTA
1 TTTTA
58373006 AGTTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
38 32 0.82
39 7 0.18
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (38 bp):
TTTTATATATTATTTATTTTAAACTGTTTTATTATTTA
Found at i:58373010 original size:19 final size:21
Alignment explanation
Indices: 58372970--58373051 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 21
58372960 TTATTTTTTA
58372970 TATTATTTATTTTAAACTGTTT
1 TATTATTTATTTTAAAC-GTTT
***
58372992 TATTATTTATTTTAAGTTTTTTT
1 TATTATTTATTTTAA--ACGTTT
* *
58373015 ATATATAGTTTATTTGAAACTTTT
1 -TAT-TA-TTTATTTTAAACGTTT
58373039 TATTATTTATTTT
1 TATTATTTATTTT
58373052 GAAATTTTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
21 7 0.15
22 17 0.35
23 6 0.12
24 7 0.15
25 2 0.04
26 9 0.19
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TATTATTTATTTTAAACGTTT
Found at i:58373071 original size:23 final size:22
Alignment explanation
Indices: 58373027--58373073 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
58373017 ATATAGTTTA
* *
58373027 TTTGAAACTTTTTATTATTTAT
1 TTTGAAACTTTTTATAAATTAT
*
58373049 TTTGAAATTTTCTTATAAATTAT
1 TTTGAAACTTT-TTATAAATTAT
58373072 TT
1 TT
58373074 ATTTTAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTGAAACTTTTTATAAATTAT
Found at i:58373089 original size:17 final size:16
Alignment explanation
Indices: 58373067--58373107 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
58373057 TTTCTTATAA
58373067 ATTATTTATTTTAAACT
1 ATTATTTATTTTAAA-T
*
58373084 ATTATTTACTTTAAAT
1 ATTATTTATTTTAAAT
58373100 ATT-TTTAT
1 ATTATTTAT
58373108 ATATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 4 0.18
16 4 0.18
17 14 0.64
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTTATTTTAAAT
Found at i:58376749 original size:26 final size:24
Alignment explanation
Indices: 58376720--58376768 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
58376710 TTAAATAAAA
* *
58376720 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
58376746 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
58376769 TTAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:58376784 original size:22 final size:22
Alignment explanation
Indices: 58376748--58376799 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
58376738 TCAAATACAT
*
58376748 TTAAAA-ACATAAAAACA-AATA
1 TTAAAACAAATAAAAA-AGAATA
*
58376769 TTAAAACAAATAAAAAAGTATA
1 TTAAAACAAATAAAAAAGAATA
58376791 TTAAAACAA
1 TTAAAACAA
58376800 TTCTTAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.21
Consensus pattern (22 bp):
TTAAAACAAATAAAAAAGAATA
Found at i:58384914 original size:27 final size:27
Alignment explanation
Indices: 58384883--58385046 Score: 242
Period size: 27 Copynumber: 6.1 Consensus size: 27
58384873 CCAAAATAGA
*
58384883 TAAAATGA-CCAAAGTACCCCCATAGGG
1 TAAAATGATCGAAA-TACCCCCATAGGG
* *
58384910 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
58384937 TAAAATGA-CTGAAATACCCCTATAGGG
1 TAAAATGATC-GAAATACCCCCATAGGG
* *
58384964 TAAAATGATCGAAATACCTCCATAAGG
1 TAAAATGATCGAAATACCCCCATAGGG
58384991 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
58385018 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
58385045 TA
1 TA
58385047 TGTCGAAACC
Statistics
Matches: 126, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.01
27 120 0.95
28 5 0.04
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCATAGGG
Found at i:58386638 original size:15 final size:14
Alignment explanation
Indices: 58386618--58386661 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
58386608 TATATGTACA
58386618 TATATAAAATAGTAT
1 TATATAAAATA-TAT
*
58386633 TATATAAAATATCT
1 TATATAAAATATAT
*
58386647 TCATATAAAAAATAT
1 T-ATATAAAATATAT
58386662 AAAAAGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (14 bp):
TATATAAAATATAT
Found at i:58386843 original size:24 final size:24
Alignment explanation
Indices: 58386748--58386903 Score: 109
Period size: 24 Copynumber: 6.4 Consensus size: 24
58386738 ATATAAAATG
* * *
58386748 TAATAAATTT-AAGTAATGATGCA
1 TAATAAATTTAAAATAATAATACA
* * *
58386771 TGATATATTTAAAATAACAATACA
1 TAATAAATTTAAAATAATAATACA
*
58386795 TAATAAACTTTAAAACAATAATACA
1 TAATAAA-TTTAAAATAATAATACA
* *
58386820 TAATAAATCTAAGATAATAATACA
1 TAATAAATTTAAAATAATAATACA
* * * *
58386844 TAAAAAAATTATAATACTAATA-A
1 TAATAAATTTAAAATAATAATACA
* * *
58386867 TAACACATTATAAAAAGAAATAATACA
1 TAATAAATT-T-AAAA-TAATAATACA
58386894 TAATGAAATT
1 TAAT-AAATT
58386904 AAATCCTAAT
Statistics
Matches: 99, Mismatches: 27, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
23 15 0.15
24 45 0.45
25 25 0.25
26 6 0.06
27 4 0.04
28 4 0.04
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (24 bp):
TAATAAATTTAAAATAATAATACA
Found at i:58387004 original size:3 final size:3
Alignment explanation
Indices: 58386996--58387071 Score: 59
Period size: 3 Copynumber: 25.0 Consensus size: 3
58386986 TAACCAAATG
* *
58386996 TAA TAA TAA T-A TCAA TAA TAA TAA GAG TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *
58387042 TAG TAA -AT TAA TTAA TAA -AA TAA TTAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA
58387072 AAAATAACAA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
2 5 0.09
3 42 0.72
4 11 0.19
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58387014 original size:15 final size:13
Alignment explanation
Indices: 58386996--58387078 Score: 71
Period size: 15 Copynumber: 6.0 Consensus size: 13
58386986 TAACCAAATG
58386996 TAATAATAATATCAA
1 TAATAATAA-AT-AA
58387011 TAATAATAAGAGTAA
1 TAATAATAA-A-TAA
58387026 TAATAATAAATAA
1 TAATAATAAATAA
*
58387039 TAATAGTAAAT--
1 TAATAATAAATAA
58387050 TAATTAATAAAATAA
1 TAA-TAAT-AAATAA
*
58387065 TTAATAAAAAATAA
1 -TAATAATAAATAA
58387079 CAAAAAGGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
11 3 0.05
12 3 0.05
13 17 0.29
14 7 0.12
15 24 0.41
16 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:58387040 original size:22 final size:26
Alignment explanation
Indices: 58387012--58387065 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 26
58387002 TAATATCAAT
58387012 AATAATAAGAGT-AA-TAA-TAAT-A
1 AATAATAAGAGTAAATTAATTAATAA
*
58387034 AATAATAATAGTAAATTAATTAATAA
1 AATAATAAGAGTAAATTAATTAATAA
58387060 AATAAT
1 AATAAT
58387066 TAATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 3 0.11
25 4 0.15
26 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAATAAGAGTAAATTAATTAATAA
Found at i:58387065 original size:12 final size:11
Alignment explanation
Indices: 58386997--58387083 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 11
58386987 AACCAAATGT
*
58386997 AATAATAATATC
1 AATAATAATA-A
58387009 AATAATAATAA
1 AATAATAATAA
*
58387020 GAGTAATAATAATA
1 -AATAATAAT-A-A
58387034 AATAATAATAGTA
1 AATAATAATA--A
58387047 AATTAATTAATAA
1 AA-TAA-TAATAA
58387060 AATAATTAATAA
1 AATAA-TAATAA
*
58387072 AA-AATAACAA
1 AATAATAATAA
58387082 AA
1 AA
58387084 AGGATTAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
10 7 0.11
11 2 0.03
12 31 0.48
13 16 0.25
14 4 0.06
15 5 0.08
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:58387070 original size:40 final size:37
Alignment explanation
Indices: 58386997--58387078 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 37
58386987 AACCAAATGT
* * *
58386997 AATAATAATATCAATAATAATAAGAGTAATAATAATA
1 AATAATAATATAAATAATAATAAGAATAATAATAAAA
58387034 AATAATAATAGTAAATTAATTAATAA-AATAATTAATAAAA
1 AATAATAATA-TAAA-TAA-TAATAAGAATAA-TAATAAAA
58387074 AATAA
1 AATAA
58387079 CAAAAAGGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 10 0.26
38 3 0.08
39 7 0.18
40 18 0.47
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (37 bp):
AATAATAATATAAATAATAATAAGAATAATAATAAAA
Found at i:58388226 original size:15 final size:16
Alignment explanation
Indices: 58388206--58388241 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
58388196 CTAGACATTA
58388206 TTTTATTTT-ATTTGG
1 TTTTATTTTAATTTGG
58388221 TTTTATTTTAATTTGG
1 TTTTATTTTAATTTGG
58388237 TTTTA
1 TTTTA
58388242 ATAAGCTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAATTTGG
Found at i:58393221 original size:292 final size:292
Alignment explanation
Indices: 58392697--58393289 Score: 1179
Period size: 292 Copynumber: 2.0 Consensus size: 292
58392687 TTATTGTTTC
58392697 ATTCATTTGTAACTAATTTCTATCAACAATTATTTTAAATAGTGAAATGGGACTTTAAACAATAA
1 ATTCATTTGTAACTAATTTCTATCAACAATTATTTTAAATAGTGAAATGGGACTTTAAACAATAA
58392762 CTATTAAGTTCAGTGCTAGCAAAACCAAACTTAATCATAGAGTATATATATTATTTATGTCAATT
66 CTATTAAGTTCAGTGCTAGCAAAACCAAACTTAATCATAGAGTATATATATTATTTATGTCAATT
58392827 GAACCATCAACCAATTTAATTGGTGTCAAACGAAACTTAGTTAGATTTTCAATGCAGCTCTTGAT
131 GAACCATCAACCAATTTAATTGGTGTCAAACGAAACTTAGTTAGATTTTCAATGCAGCTCTTGAT
58392892 TTACCCTTATTAGAAGGTAGGAACACATTAGAACTCATAGTCACCTCCACAACCCTATACTTGAC
196 TTACCCTTATTAGAAGGTAGGAACACATTAGAACTCATAGTCACCTCCACAACCCTATACTTGAC
58392957 GAATAACGGAGTGAAATATCTCGCCAACCTCT
261 GAATAACGGAGTGAAATATCTCGCCAACCTCT
58392989 ATTCATTTGTAACTAATTTCTATCAACAATTATTTTAAATAGTGAAATGGGACTTTAAACAATAA
1 ATTCATTTGTAACTAATTTCTATCAACAATTATTTTAAATAGTGAAATGGGACTTTAAACAATAA
58393054 CTATTAAGTTCAGTGCTAGCAAAACCAAACTTAATCATAGAGTATATATATTATTTATGTCAATT
66 CTATTAAGTTCAGTGCTAGCAAAACCAAACTTAATCATAGAGTATATATATTATTTATGTCAATT
58393119 GAACCATCAACCAATTTAATTGGTGTCAAACGAAACTTAGTTAGATTTTCAATGCAGCTCTTGAT
131 GAACCATCAACCAATTTAATTGGTGTCAAACGAAACTTAGTTAGATTTTCAATGCAGCTCTTGAT
58393184 TTACCCTTATTAGAAGGTAGGAACACATTAGAACTCATAGTCACCTCCACAACCCTATACTTGAC
196 TTACCCTTATTAGAAGGTAGGAACACATTAGAACTCATAGTCACCTCCACAACCCTATACTTGAC
58393249 GAATAACGGAGTGAAATATCTCGCCAACCTCT
261 GAATAACGGAGTGAAATATCTCGCCAACCTCT
58393281 ATTC-TTTGT
1 ATTCATTTGT
58393290 GAGAGGGATG
Statistics
Matches: 301, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
291 5 0.02
292 296 0.98
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (292 bp):
ATTCATTTGTAACTAATTTCTATCAACAATTATTTTAAATAGTGAAATGGGACTTTAAACAATAA
CTATTAAGTTCAGTGCTAGCAAAACCAAACTTAATCATAGAGTATATATATTATTTATGTCAATT
GAACCATCAACCAATTTAATTGGTGTCAAACGAAACTTAGTTAGATTTTCAATGCAGCTCTTGAT
TTACCCTTATTAGAAGGTAGGAACACATTAGAACTCATAGTCACCTCCACAACCCTATACTTGAC
GAATAACGGAGTGAAATATCTCGCCAACCTCT
Found at i:58409681 original size:24 final size:23
Alignment explanation
Indices: 58409654--58409703 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
58409644 TATCATGGAT
58409654 AAAAATTAAAATATATATATTATA
1 AAAAATTAAAATATATAT-TTATA
* **
58409678 AAAACTTTCAATATATATTTATA
1 AAAAATTAAAATATATATTTATA
58409701 AAA
1 AAA
58409704 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATTAAAATATATATTTATA
Found at i:58410086 original size:10 final size:9
Alignment explanation
Indices: 58410062--58410087 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58410052 TTTTCAAAAT
58410062 AATTTTTTG
1 AATTTTTTG
58410071 AATTTTTTG
1 AATTTTTTG
58410080 AATTTTTT
1 AATTTTTT
58410088 AAATCTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
AATTTTTTG
Found at i:58410877 original size:69 final size:67
Alignment explanation
Indices: 58410790--58410916 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
58410780 AGAAGTGAAA
* *
58410790 ATAATATTAAATCTAAATATTTAAAAAGTACAAGAATAATAAATAAGTAAAT-AGATAAAACGAA
1 ATAATATAAAATCTAAATATTTAAAAAGT--AAGAATAATAAATAAATAAATGA-ATAAAACGAA
58410854 TATAC
63 TATAC
* * * *
58410859 ATAATATAAAATTTAAATATTTTAGAAGTAAGAATGATAAATAAATAAATGAATAAAA
1 ATAATATAAAATCTAAATATTTAAAAAGTAAGAATAATAAATAAATAAATGAATAAAA
58410917 ATCGATAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
67 25 0.49
68 1 0.02
69 25 0.49
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (67 bp):
ATAATATAAAATCTAAATATTTAAAAAGTAAGAATAATAAATAAATAAATGAATAAAACGAATAT
AC
Found at i:58410986 original size:19 final size:19
Alignment explanation
Indices: 58410958--58411005 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
58410948 ATTTGGGAAG
*
58410958 TAAATGAATAATAAACAAA
1 TAAATAAATAATAAACAAA
*
58410977 TAAATAAAT-AT-AACAAG
1 TAAATAAATAATAAACAAA
58410994 TAAA-AAATAATA
1 TAAATAAATAATA
58411006 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.16
17 11 0.44
18 2 0.08
19 8 0.32
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
TAAATAAATAATAAACAAA
Found at i:58411139 original size:9 final size:9
Alignment explanation
Indices: 58411125--58411150 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58411115 TAAATAAACA
58411125 AATAATAAG
1 AATAATAAG
58411134 AATAATAAG
1 AATAATAAG
58411143 AATAATAA
1 AATAATAA
58411151 CAGTACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (9 bp):
AATAATAAG
Found at i:58414684 original size:31 final size:31
Alignment explanation
Indices: 58414648--58414711 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
58414638 TTTGTGAAGG
58414648 ACGGACTCAAATTTCATATCTATTTCCATTC
1 ACGGACTCAAATTTCATATCTATTTCCATTC
58414679 ACGGACTCAAATTTCATATCTATTTCCATTC
1 ACGGACTCAAATTTCATATCTATTTCCATTC
58414710 AC
1 AC
58414712 CTTTTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (31 bp):
ACGGACTCAAATTTCATATCTATTTCCATTC
Found at i:58416035 original size:113 final size:112
Alignment explanation
Indices: 58415876--58416179 Score: 321
Period size: 113 Copynumber: 2.7 Consensus size: 112
58415866 AAAATAAGAA
* * * *
58415876 TTAGCGGCGTTTTAT-CGAAAGCGCCGCAAAAAACCTAAGCCGAACGACGTCGTTTACCGAGCTT
1 TTAGCGGCGTTTT-TGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTT-CTGAGCTT
**
58415940 TTGGGGATTTAGCGATGTTTTTAATAA-AGCGCCGCTAATG-TTCAGGGCT
64 TTGGGGATTTAGCGACATTTTTAATAACA-CGCCGCTAATGCTT-AGGGCT
* *
58415989 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCTAATCCCAACGACGCCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCG-TTTCTGAGCTTT
* ** * * *
58416054 CGAGTCA-TTAGTGGCATTTTTAATAACACGCTGCTAATGCTTAGGGCT
65 TG-GGGATTTAGCGACATTTTTAATAACACGCCGCTAATGCTTAGGGCT
* * * * * *
58416102 TTAGCGTCGTTTTTGA-AAAGCGTCGCAAGAAAACCAAAGCACAAAGACACCGTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTTCTGAGCTTT
58416166 TCGGGGATTTAGCG
65 T-GGGGATTTAGCG
58416180 GCGTTTTTGG
Statistics
Matches: 157, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
112 25 0.16
113 124 0.79
114 8 0.05
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (112 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTGAGCTTTT
GGGGATTTAGCGACATTTTTAATAACACGCCGCTAATGCTTAGGGCT
Found at i:58416301 original size:186 final size:186
Alignment explanation
Indices: 58415988--58416470 Score: 555
Period size: 187 Copynumber: 2.6 Consensus size: 186
58415978 TGTTCAGGGC
* * * * *
58415988 TTTAGCGGCGTTTTTGAGAA-AGCGC-CACAAAAAACCTAATCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTG-GAATAGCGCGCAAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGC
* * * * * * * *
58416051 TTTCGAGTCA-TTAGTGGCATTTTTAATAACA-CGCTGCTAATGCTTAGGGCTTTAGCGTCGTTT
65 TTTC-AG-GATTTAGCGGCGTTTTT-ATAAAAGCGCCGCTAATGCTCAGCGCTTTAGCGGCGTTT
* ** *
58416114 TT-GAAAAGCGTCGCAAGAAAACCAAAGCACAAAGACACCGTTTCTGAGCTTTTCGGGGA
127 TTAAAAAAGCACCGCAAGAAAACCAAAGCACAAAGACACCGTTTCTGAGCCTTTCGGGGA
*
58416173 TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAAAACTAAGCCCAACGGCACCGTTTTCTGTGC
1 TTTAGCGGCGTTTTTGGAATAGCG-CGCAAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGC
* *
58416238 TTTCAGGATTTTGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTCAGCGCTTTAGCGGCGTTTTTA
65 TTTCAGGATTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCAGCGCTTTAGCGGCGTTTTTA
* * * * *
58416303 AAAAAGCACCGCAAGAAAACCTAAGCCCAATGGCACCGTTTCTTAGCCTTTCGGGGA
130 AAAAAGCACCGCAAGAAAACCAAAGCACAAAGACACCGTTTCTGAGCCTTTCGGGGA
* ** * * *
58416360 TTTAGCGGCGTTTTAGGTGTAGCGTCGC-AAAAAAAACTAAGCCCAACGGTGTCGTTTTCTATGC
1 TTTAGCGGCGTTTTTGGAATAGCG-CGCAAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGC
** *
58416424 TTTCAGGGATTTAGCGGCGTTTTTAGGAAAGCACCGCTAATGCTCAG
65 TTTCA-GGATTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCAG
58416471 GGATTTAAAA
Statistics
Matches: 253, Mismatches: 38, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
184 3 0.01
185 25 0.10
186 81 0.32
187 144 0.57
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (186 bp):
TTTAGCGGCGTTTTTGGAATAGCGCGCAAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGCT
TTCAGGATTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCAGCGCTTTAGCGGCGTTTTTAA
AAAAGCACCGCAAGAAAACCAAAGCACAAAGACACCGTTTCTGAGCCTTTCGGGGA
Found at i:58416715 original size:21 final size:22
Alignment explanation
Indices: 58416691--58416784 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 22
58416681 CGGGTATGGA
*
58416691 TTTAGGGTT-TGGGATTTAAGG
1 TTTAGGGTTAAGGGATTTAAGG
* * * *
58416712 TTTAAGGGTTATGTG--TTATGA
1 TTT-AGGGTTAAGGGATTTAAGG
58416733 TTTAGGGGTTAAGAGGATTTAAGGG
1 TTTA-GGGTTAAG-GGATTTAA-GG
* *
58416758 TTAAGGGTT-AGGGATTTAGGG
1 TTTAGGGTTAAGGGATTTAAGG
58416779 TTTAGG
1 TTTAGG
58416785 ATTTCAACGG
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
20 1 0.02
21 24 0.43
22 14 0.25
23 5 0.09
24 8 0.14
25 4 0.07
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.39
Consensus pattern (22 bp):
TTTAGGGTTAAGGGATTTAAGG
Found at i:58419355 original size:31 final size:31
Alignment explanation
Indices: 58419330--58419431 Score: 170
Period size: 31 Copynumber: 3.3 Consensus size: 31
58419320 GGTTTTTGCA
* * *
58419330 GCTAAGATGGGACCTTCTATTGGTTTTTGCT
1 GCTAAGATGGTACCTTCTATTGATTTCTGCT
58419361 GCTAAGATGGTACCTTCTATTGATTTCTGCT
1 GCTAAGATGGTACCTTCTATTGATTTCTGCT
58419392 GCTAAGATGGTACCTTCTATTGATTTCTGCT
1 GCTAAGATGGTACCTTCTATTGATTTCTGCT
58419423 GCTAA-ATGG
1 GCTAAGATGG
58419432 CTAAGAGCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
30 4 0.06
31 64 0.94
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (31 bp):
GCTAAGATGGTACCTTCTATTGATTTCTGCT
Found at i:58420302 original size:45 final size:46
Alignment explanation
Indices: 58420219--58420310 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 46
58420209 TTAGGCATTG
*
58420219 AAATATTCTTAATAATAATATTAATATTATATTAAAATTAT-TATT
1 AAATATTATTAATAATAATATTAATATTATATTAAAATTATATATT
* *
58420264 AAATATTATTAATAATTATATTAGTAATGT-TATT-AAATTATATATT
1 AAATATTATTAATAATAATATTAAT-AT-TATATTAAAATTATATATT
58420310 A
1 A
58420311 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 29 0.71
46 11 0.27
47 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (46 bp):
AAATATTATTAATAATAATATTAATATTATATTAAAATTATATATT
Found at i:58420339 original size:29 final size:28
Alignment explanation
Indices: 58420307--58420392 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 28
58420297 TAAATTATAT
*
58420307 ATTATTTTATTAAATTGTATTTAACAATA
1 ATTATTTTATTAAA-TATATTTAACAATA
* * *
58420336 ATTATGTTA--AAATATAATTAA-ATTA
1 ATTATTTTATTAAATATATTTAACAATA
*
58420361 TTTATTTTTATTAAAATATATTTAACAATA
1 ATTA-TTTTATT-AAATATATTTAACAATA
58420391 AT
1 AT
58420393 CTTATTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
25 6 0.14
26 11 0.26
27 3 0.07
29 19 0.44
30 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
ATTATTTTATTAAATATATTTAACAATA
Done.