Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005470.1 Hibiscus syriacus cultivar Beakdansim tig00012531_pilon, whole genome shotgun sequence
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: 94757
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Found at i:1807 original size:16 final size:17
Alignment explanation
Indices: 1786--1820 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1776 TTCCAACAAT
1786 ATCAATA-AAAAAAAGG
1 ATCAATAGAAAAAAAGG
1802 ATCAATATGAAAAAAAGG
1 ATCAATA-GAAAAAAAGG
1820 A
1 A
1821 AATAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.66, C:0.06, G:0.14, T:0.14
Consensus pattern (17 bp):
ATCAATAGAAAAAAAGG
Found at i:7153 original size:41 final size:41
Alignment explanation
Indices: 7091--7381 Score: 202
Period size: 41 Copynumber: 7.1 Consensus size: 41
7081 TATAAACACC
* * * * *
7091 AAAGTATAATTGTATAACGGCGTTTGTATAAAAATGCCACG
1 AAAGTACAAGTGTATAGCGGCGTTTGTATAAAAACGCCACT
* *
7132 AAGGTACAAGTGTATAGCGGCGTTTGTATATAAACGCCTA-T
1 AAAGTACAAGTGTATAGCGGCGTTTGTATAAAAACGCC-ACT
* * * * *
7173 AAAGTACGAGTCTTTAGCGGAGTTTTTATAAAAACGCCACT
1 AAAGTACAAGTGTATAGCGGCGTTTGTATAAAAACGCCACT
* * * * * *
7214 AAAATACAAGTCTATAGCGTCGTTTATAAAAAAACGCTACT
1 AAAGTACAAGTGTATAGCGGCGTTTGTATAAAAACGCCACT
* **
7255 AAAGTACGAG-GCTATAGCGGTATTTGTATAAAAACGCCACT
1 AAAGTACAAGTG-TATAGCGGCGTTTGTATAAAAACGCCACT
* * *
7296 AAAATACTAATCTGT-T-GCGGTGTTTGT-TGAAAAACGCCACT
1 AAAGTAC-AA-GTGTATAGCGGCGTTTGTAT-AAAAACGCCACT
* * * **
7337 ATGAA-T-GAACT-TATTGCGGCGTTTGTATAAAAACGCTGCT
1 A--AAGTACAAGTGTATAGCGGCGTTTGTATAAAAACGCCACT
7377 AAAGT
1 AAAGT
7382 TATCATTTTG
Statistics
Matches: 198, Mismatches: 39, Indels: 28
0.75 0.15 0.11
Matches are distributed among these distances:
38 3 0.02
39 4 0.02
40 25 0.13
41 158 0.80
42 4 0.02
43 3 0.02
44 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (41 bp):
AAAGTACAAGTGTATAGCGGCGTTTGTATAAAAACGCCACT
Found at i:7332 original size:82 final size:82
Alignment explanation
Indices: 7103--7302 Score: 242
Period size: 82 Copynumber: 2.4 Consensus size: 82
7093 AGTATAATTG
* * * * ** * * * * *
7103 TATAACGGCGTTTGTATAAAAATGCCACGAAGGTACAAGTGTATAGCGGCGTTTGTATATAAACG
1 TATAGCGGAGTTTGTATAAAAACGCCACTAAAATACAAGTCTATAGCGTCGTTTATAAAAAAACG
*
7168 CCTA-TAAAGTACGAGTC
66 -CTACTAAAGTACGAGGC
* *
7185 TTTAGCGGAGTTTTTATAAAAACGCCACTAAAATACAAGTCTATAGCGTCGTTTATAAAAAAACG
1 TATAGCGGAGTTTGTATAAAAACGCCACTAAAATACAAGTCTATAGCGTCGTTTATAAAAAAACG
7250 CTACTAAAGTACGAGGC
66 CTACTAAAGTACGAGGC
7267 TATAGCGGTA-TTTGTATAAAAACGCCACTAAAATAC
1 TATAGCGG-AGTTTGTATAAAAACGCCACTAAAATAC
7303 TAATCTGTTG
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
81 3 0.03
82 96 0.96
83 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (82 bp):
TATAGCGGAGTTTGTATAAAAACGCCACTAAAATACAAGTCTATAGCGTCGTTTATAAAAAAACG
CTACTAAAGTACGAGGC
Found at i:9461 original size:11 final size:11
Alignment explanation
Indices: 9445--9469 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9435 AGGAAAGGCA
9445 GGTTAATATAC
1 GGTTAATATAC
9456 GGTTAATATAC
1 GGTTAATATAC
9467 GGT
1 GGT
9470 ATTACTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:10135 original size:223 final size:227
Alignment explanation
Indices: 9727--10202 Score: 831
Period size: 223 Copynumber: 2.1 Consensus size: 227
9717 GTATCTATTC
* *
9727 TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTGGTTAATA
1 TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTGGTTAATA
*
9792 TTGTTAAATTTAAATTCTCAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGTA
66 TTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGTA
9857 AATGAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
131 AATGAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
9922 -AATTACATAACTTT-AAAAAAAG-TATAT-A
196 AAATTACATAACTTTAAAAAAAAGATATATCA
9950 TTTTTAT-AAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATTATATTTGGTTAAT
1 TTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATTATATTTGGTTAAT
*
10014 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAAATAATTTTTTGTG
65 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTG
10078 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAA
129 TAAATG-AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAA
10142 CATAAATTACATAACTTTAAAAAAAAGTATATATCA
193 CATAAATTACATAACTTTAAAAAAAAG-ATATATCA
10178 TTTTTATAAAAGTGTCCATACTTAT
1 TTTTTATAAAAGTGTCCATACTTAT
10203 AAAAGTAGGT
Statistics
Matches: 240, Mismatches: 4, Indels: 12
0.94 0.02 0.05
Matches are distributed among these distances:
222 38 0.16
223 106 0.44
224 58 0.24
225 8 0.03
227 5 0.02
228 8 0.03
229 17 0.07
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (227 bp):
TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTGGTTAATA
TTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGTA
AATGAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAAAAAGATATATCA
Found at i:10600 original size:177 final size:179
Alignment explanation
Indices: 10268--10736 Score: 631
Period size: 177 Copynumber: 2.6 Consensus size: 179
10258 GATCCAAATT
* * *
10268 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGATATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGA-ATAACAGGTAAAA-TATGATAAAACCG-TA-ACAAAATGAT
* * * * * *
10332 AAAACCGGTAAAGCGCTACCTGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
62 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
10397 CGTTAATTTAAAAGAGAAGCAGTTTTA-AATCCTATAAAGTGTCGCTACTTTTA
127 CGTGAATTTAAAAGAGAAGCAGTTTTAGAA-CCTATAAAGTGTCGATACTTTAA
* *
10450 AAAAATGTATCGATCCAAAACG-ATACCAGGTAAAATATGATAAAATCGTAACAAAATGATAAAA
1 AAAAATGTATCGATCCAAAACGAATAACAGGTAAAATATGATAAAACCGTAACAAAATGATAAAA
* * *
10514 CCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGGCACTTTGTG
66 CCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTG
* *
10578 AATTTAAAAGAGAAGCAGTTTTAGCACCTATAATGTGTCGATACTTTAA
131 AATTTAAAAGAGAAGCAGTTTTAGAACCTATAAAGTGTCGATACTTTAA
* * *
10627 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGA-ATAACAGGT-AAAATATGATAAAACC-GTAACAAAATGATA
*
10692 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
63 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
10737 CGTAAGTACG
Statistics
Matches: 256, Mismatches: 25, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
177 83 0.32
178 50 0.20
179 19 0.07
180 27 0.11
181 56 0.22
182 21 0.08
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (179 bp):
AAAAATGTATCGATCCAAAACGAATAACAGGTAAAATATGATAAAACCGTAACAAAATGATAAAA
CCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTG
AATTTAAAAGAGAAGCAGTTTTAGAACCTATAAAGTGTCGATACTTTAA
Found at i:10680 original size:20 final size:19
Alignment explanation
Indices: 10657--10703 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
10647 CGATATAACA
10657 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
10677 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
10697 GGTAAAA
1 GGTAAAA
10704 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:10705 original size:17 final size:19
Alignment explanation
Indices: 10666--10708 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
10656 AGGTAAAAAT
10666 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
10686 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
10703 ATGATA
1 ATGATA
10709 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:12940 original size:21 final size:21
Alignment explanation
Indices: 12916--12959 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
12906 AAGACAATCA
12916 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
12937 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
12958 AG
1 AG
12960 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:14852 original size:19 final size:19
Alignment explanation
Indices: 14828--14876 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
14818 AATGTAGGGT
14828 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
14847 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
14866 TATTTTTGTAT
1 TAATTTTGTAT
14877 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:15728 original size:397 final size:398
Alignment explanation
Indices: 14995--15944 Score: 1647
Period size: 397 Copynumber: 2.4 Consensus size: 398
14985 CAATATGGCC
*
14995 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
15060 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * ****
15125 GAATATGTCT-AATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATATTTTGGTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTGGTCCAGAATGAAT
*
15188 GGAAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATTG
195 GGAAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
15253 AAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
260 AAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
* ** * ****
15318 GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAA
325 GAGAGAATATGTCTAAATAATGTATCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAA
15383 TGAATGGAA
390 TGAATGGAA
15392 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
15457 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
15522 AATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATA-TTTTGGTCCAGAATGAAT
*
15587 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCG
195 GGAAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
15651 -AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
260 AAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
15715 GAGAGAATATGTCTAAATAATGTATCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAA
325 GAGAGAATATGTCTAAATAATGTATCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAA
15780 TGAATGGAA
390 TGAATGGAA
* * * *
15789 AACAGTGTGTAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAATATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
15854 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
15919 AATATGTCTAAATAATGTGTCGACAC
131 AATATGTCTAAATAATGTGTCGACAC
15945 TTTTTAGTTT
Statistics
Matches: 526, Mismatches: 24, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
396 76 0.14
397 356 0.68
398 38 0.07
399 56 0.11
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (398 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTGGTCCAGAATGAATG
GAAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTATCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAAT
GAATGGAA
Found at i:15961 original size:198 final size:198
Alignment explanation
Indices: 14995--15963 Score: 1674
Period size: 199 Copynumber: 4.9 Consensus size: 198
14985 CAATATGGCC
*
14995 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
15060 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
15125 GAATATGTCT-AATAATGTGTCGACACTTTTTAGTTTGTGTCGATA-TTTTGGTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
15188 GGAA
195 GGAA
* *
15192 AACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATTGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
15257 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
15322 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
15387 TGGAA
194 TGGAA
15392 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
15457 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * ****
15522 AATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
15587 GGAA
195 GGAA
15591 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
15655 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * * ****
15720 AATATGTCTAAATAATGTATCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
15785 GGAA
195 GGAA
* * * *
15789 AACAGTGTGTAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAATATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
15854 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
15919 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
15964 CTAATTTAAA
Statistics
Matches: 741, Mismatches: 26, Indels: 9
0.95 0.03 0.01
Matches are distributed among these distances:
197 136 0.18
198 223 0.30
199 300 0.40
200 82 0.11
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
GAA
Found at i:17437 original size:6 final size:6
Alignment explanation
Indices: 17426--17513 Score: 59
Period size: 6 Copynumber: 14.7 Consensus size: 6
17416 CAAGCGGTCA
* * * * * *
17426 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGACG ACGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * *
17474 CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
17514 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:17447 original size:18 final size:18
Alignment explanation
Indices: 17426--17489 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
17416 CAAGCGGTCA
17426 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
* *
17444 ATGAAGATGACGATGACG
1 ATGAAGATGAAGCTGACG
* *
17462 ACGACGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
17480 ATGAAGATGA
1 ATGAAGATGA
17490 TGACGATGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.39, C:0.12, G:0.33, T:0.16
Consensus pattern (18 bp):
ATGAAGATGAAGCTGACG
Found at i:17448 original size:12 final size:12
Alignment explanation
Indices: 17431--17485 Score: 76
Period size: 12 Copynumber: 4.6 Consensus size: 12
17421 GGTCAATGAA
17431 GATGAAGCTGAC
1 GATGAAGCTGAC
*
17443 GATGAAGATGAC
1 GATGAAGCTGAC
*
17455 GATGACGAC-GAC
1 GATGAAG-CTGAC
17467 GATGAAGCTGAC
1 GATGAAGCTGAC
17479 GATGAAG
1 GATGAAG
17486 ATGATGACGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 1 0.03
12 36 0.97
ACGTcount: A:0.36, C:0.15, G:0.35, T:0.15
Consensus pattern (12 bp):
GATGAAGCTGAC
Found at i:17500 original size:3 final size:3
Alignment explanation
Indices: 17479--17517 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
17469 TGAAGCTGAC
* *
17479 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
17518 CCAAACAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:17500 original size:12 final size:12
Alignment explanation
Indices: 17439--17516 Score: 75
Period size: 12 Copynumber: 6.2 Consensus size: 12
17429 AAGATGAAGC
*
17439 TGACGATGAAGA
1 TGACGATGATGA
*
17451 TGACGATGACGA
1 TGACGATGATGA
* * *
17463 CGACGATGAAGC
1 TGACGATGATGA
17475 TGACGATGAAGATGA
1 TGACGAT---GATGA
17490 TGACGATGATGA
1 TGACGATGATGA
*
17502 TGATGATGATGA
1 TGACGATGATGA
17514 TGA
1 TGA
17517 TCCAAACAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
12 45 0.82
15 10 0.18
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:18731 original size:16 final size:16
Alignment explanation
Indices: 18710--18743 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18700 TATCCACAAC
*
18710 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
18726 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
18742 AA
1 AA
18744 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:19126 original size:3 final size:3
Alignment explanation
Indices: 19111--19177 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
19101 AGTTAAAAAA
*
19111 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
19158 TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
19178 AGTGTATTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 1 0.02
3 58 0.98
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:21426 original size:23 final size:23
Alignment explanation
Indices: 21395--21467 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
21385 ATAGGTAAAA
*
21395 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
21418 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
21441 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
21464 ATAT
1 ATAT
21468 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:21857 original size:23 final size:23
Alignment explanation
Indices: 21826--21898 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
21816 ATAGGTAAAA
*
21826 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
21849 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
21872 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
21895 ATAT
1 ATAT
21899 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:22229 original size:431 final size:431
Alignment explanation
Indices: 21353--22924 Score: 2913
Period size: 431 Copynumber: 3.7 Consensus size: 431
21343 GTTACGACAC
21353 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
1 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
21418 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
66 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
*
21483 ATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
131 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
21548 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
196 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
21613 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
261 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
21678 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
326 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
21743 TTGAAACATAAATTACATAACTTTAAACA-AAGTATCGATCA
391 TTGAAACATAAATTACATAACTTT-AACAGAAGTATCGATCA
21784 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
1 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
21849 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
66 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
21914 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
131 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
21979 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
196 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
*
22044 ATATTATTTTTAAATTAAAAATTCTAAATATTATTTTTATAAAATATCAAAACAATCAAATAATT
261 ATATTATTATTAAATTAAAAATTCTAAATATTA-TTTTATAAAATATCAAAACAATCAAATAATT
*
22109 TTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
325 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
*
22174 ATTAAAACATAAATTACATAACTTTAACAGAAGTATCGATCA
390 ATTGAAACATAAATTACATAACTTTAACAGAAGTATCGATCA
22216 TTTTTAT-AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
1 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
22280 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
66 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
*
22345 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAATATTAATTTAAGGTTATCTTTTGAG
131 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
*
22410 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCTTCTAATGATTTCTTTTTTACGTTACGATAT
196 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
**
22475 ATATTATTATTAAATTAAAAATTAAAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
261 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
* *
22540 TTTGTGCAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACA-TACTT-AAAAAA
326 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAA
* *
22603 ATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCT
390 ATTGAAACATAAATTACATAACTTTAACAGAAGTATCGATCA
*
22645 TTTTTA-AAAAATGTATGGACACTTTCAATATAATAGGT-AAAATATGATATAATAGGTAGCGCT
1 TTTTTATAAAAA-GTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
**
22708 TATATAATGTAATATATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTAT
65 TATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTAT
22773 CCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGA
130 CCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGA
*
22838 GTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATA
195 GTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATA
22903 TATATTATTATTAAATTAAAAA
260 TATATTATTATTAAATTAAAAA
22925 CAATAAACAT
Statistics
Matches: 1114, Mismatches: 22, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
429 293 0.26
430 109 0.10
431 575 0.52
432 137 0.12
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (431 bp):
TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
TTGAAACATAAATTACATAACTTTAACAGAAGTATCGATCA
Found at i:22288 original size:23 final size:23
Alignment explanation
Indices: 22257--22329 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
22247 ATAGGTAAAA
*
22257 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
22280 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
22303 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
22326 ATAT
1 ATAT
22330 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:22712 original size:23 final size:23
Alignment explanation
Indices: 22694--22758 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
22684 AAATATGATA
22694 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
** * *
22717 TAATATATATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
22740 TAATAGGTAGTGGTTATAT
1 TAATAGGTAGCGCTTATAT
22759 TGTAAAGTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:22783 original size:46 final size:45
Alignment explanation
Indices: 22694--22783 Score: 101
Period size: 46 Copynumber: 2.0 Consensus size: 45
22684 AAATATGATA
*
22694 TAATAGGTAGCGCTTATATAATGTAATATATATCGTTTATATAATG
1 TAATAGGTAGCGCTTATAT-ATGTAATATATATCCTTTATATAATG
* * * *
22740 TAATAGGTAGTGGTTATAT-TGTAAAGTATCTATCCTTTTTATAA
1 TAATAGGTAGCGCTTATATATGT-AA-TATATATCCTTTATATAA
22784 AAGTGTCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
44 3 0.08
45 2 0.05
46 32 0.86
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (45 bp):
TAATAGGTAGCGCTTATATATGTAATATATATCCTTTATATAATG
Found at i:32555 original size:7 final size:7
Alignment explanation
Indices: 32523--32601 Score: 61
Period size: 7 Copynumber: 10.4 Consensus size: 7
32513 TTGAAGAAAA
*
32523 AAAAAAG
1 AAAAATG
*
32530 AACAAATA
1 AA-AAATG
32538 AAAAGATG
1 AAAA-ATG
32546 AAAAATG
1 AAAAATG
32553 AAAAAAATG
1 --AAAAATG
32562 AAAAA-G
1 AAAAATG
32568 AAAAAAAATG
1 ---AAAAATG
32578 AAAAATG
1 AAAAATG
32585 AAAAATG
1 AAAAATG
*
32592 AAAAAAG
1 AAAAATG
32599 AAA
1 AAA
32602 TGAAAAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
6 1 0.02
7 35 0.58
8 11 0.18
9 12 0.20
10 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:32556 original size:16 final size:16
Alignment explanation
Indices: 32521--32601 Score: 89
Period size: 16 Copynumber: 5.2 Consensus size: 16
32511 GCTTGAAGAA
*
32521 AAAAAAAAGAACAAAT-
1 AAAAAAATGAA-AAATG
*
32537 AAAAAGATGAAAAATG
1 AAAAAAATGAAAAATG
32553 AAAAAAATGAAAAA-G
1 AAAAAAATGAAAAATG
32568 AAAAAAAATGAAAAATG
1 -AAAAAAATGAAAAATG
*
32585 --AAAAATGAAAAAAG
1 AAAAAAATGAAAAATG
32599 AAA
1 AAA
32602 TGAAAAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 13 0.23
15 5 0.09
16 37 0.66
17 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.12, T:0.09
Consensus pattern (16 bp):
AAAAAAATGAAAAATG
Found at i:32565 original size:25 final size:23
Alignment explanation
Indices: 32520--32623 Score: 102
Period size: 23 Copynumber: 4.3 Consensus size: 23
32510 TGCTTGAAGA
* *
32520 AAAAAAAAAGAACAAATAAAAAG
1 AAAAAAAATGAAAAAATAAAAAG
**
32543 ATGAAAAATGAAAAAAATGAAAAAG
1 AAAAAAAATG-AAAAAAT-AAAAAG
32568 AAAAAAAATG-AAAAATGAAAAATG
1 AAAAAAAATGAAAAAAT-AAAAA-G
32592 AAAAAAGAAATGAAAAAATAAAAAG
1 -AAAAA-AAATGAAAAAATAAAAAG
*
32617 AGAAAAA
1 AAAAAAA
32624 GGAGGGTTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
23 21 0.31
24 11 0.16
25 20 0.29
26 10 0.15
27 6 0.09
ACGTcount: A:0.78, C:0.01, G:0.12, T:0.09
Consensus pattern (23 bp):
AAAAAAAATGAAAAAATAAAAAG
Found at i:32609 original size:14 final size:13
Alignment explanation
Indices: 32519--32615 Score: 63
Period size: 14 Copynumber: 6.8 Consensus size: 13
32509 ATGCTTGAAG
32519 AAAAAAAAAA-GA
1 AAAAAAAAAATGA
32531 ACAAATAAAAAGATGAA
1 A-AAA-AAAAA-ATG-A
32548 AAATGAAAAAAATGAAA
1 AAA--AAAAAAATG--A
32565 AAGAAAAAAAATGA
1 AA-AAAAAAAATGA
*
32579 AAAATGAAAAATG-
1 AAAA-AAAAAATGA
*
32592 AAAAAAGAAATGA
1 AAAAAAAAAATGA
32605 AAAAATAAAAA
1 AAAAA-AAAAA
32616 GAGAAAAAGG
Statistics
Matches: 69, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
12 7 0.10
13 14 0.20
14 19 0.28
15 1 0.01
16 15 0.22
17 11 0.16
18 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.11, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAATGA
Found at i:34060 original size:105 final size:105
Alignment explanation
Indices: 33840--34094 Score: 341
Period size: 105 Copynumber: 2.4 Consensus size: 105
33830 CTCGCTTGAG
*
33840 GGATCGACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAA
1 GGATCAACATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAA
* * * * *
33905 TGAGAAGAACTTGTTCCTTTCAAATTCACCACAGATGGAGGT
64 TGAGAAAAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
* * * *
33947 GAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATG
1 GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATG
* * **
34012 AGAAAAACATGTT-CTTTCTAAGTCCACCGCAAAAGGATTT
66 AGAAAAACATGTTCCTTTC-AAATCCACCACAAAAGGAGGT
*
34052 GGATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCATC
1 GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATC
34095 CACGAGAAAA
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
104 5 0.04
105 112 0.87
106 1 0.01
107 11 0.09
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (105 bp):
GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATG
AGAAAAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
Found at i:34284 original size:3 final size:3
Alignment explanation
Indices: 34269--34317 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
34259 AGTTAAAAAA
* *
34269 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34316 TA
1 TA
34318 AGTGTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:36553 original size:23 final size:23
Alignment explanation
Indices: 36522--36594 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
36512 ATAGGTAAAA
*
36522 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36545 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36568 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
36591 ATAT
1 ATAT
36595 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:36984 original size:23 final size:23
Alignment explanation
Indices: 36953--37025 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
36943 ATAGGTAAAA
*
36953 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36976 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36999 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
37022 ATAT
1 ATAT
37026 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37300 original size:431 final size:431
Alignment explanation
Indices: 36480--38046 Score: 2904
Period size: 431 Copynumber: 3.7 Consensus size: 431
36470 GTTACGACAC
36480 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
1 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
36545 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
66 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
*
36610 ATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
131 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
36675 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
196 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
36740 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
261 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
36805 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
326 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
36870 TTGAAACATAAATTACATAACTTTAAACA-AAGTATCGATCA
391 TTGAAACATAAATTACATAACTTTAAA-AGAAGTATCGATCA
36911 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
1 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
36976 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
66 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
37041 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
131 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
*
37106 TGAGTTGTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
196 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
37171 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTTATAAAATATCAAAACAATCAAATAATT
261 ATATTATTATTAAATTAAAAATTCTAAATATTA-TTTTATAAAATATCAAAACAATCAAATAATT
37236 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
325 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
*
37301 ATTAAAACATAAATTACATAACTTTAAAAGAAGTATCGATCA
390 ATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCA
37343 TTTTTAT-AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
1 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
37407 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
66 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
*
37472 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAATATTAATTTAAGGTTATCTTTTGAG
131 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
37537 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
196 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
**
37602 ATATTATTATTAAATTAAAAATTAAAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
261 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
* *
37667 TTTGTGCAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACA-TACTT-AAAAAA
326 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAA
*
37730 ATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCT
390 ATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCA
*
37772 TTTTTA-AAAAATGTATGGACACTTTCAATATAATAGGT-AAAATATGATATAATAGGTAGCGCT
1 TTTTTATAAAAA-GTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
**
37835 TATATAATGTAATATATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTAT
65 TATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTAT
37900 CC-TTTTATAAAAGTGTCTATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATC-TTTGA
130 CCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGA
*
37962 GTGAGTTTTAAGATATTAATTTAGTAA-T-TAGGCGTCTAATGATTTATTTTTTACGTTACGATA
195 GTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATA
38025 TATATTATTATTAAATTAAAAA
260 TATATTATTATTAAATTAAAAA
38047 CAATAAACAT
Statistics
Matches: 1115, Mismatches: 16, Indels: 17
0.97 0.01 0.01
Matches are distributed among these distances:
424 56 0.05
425 1 0.00
426 32 0.03
427 34 0.03
428 20 0.02
429 147 0.13
430 110 0.10
431 573 0.51
432 142 0.13
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (431 bp):
TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCA
Found at i:37415 original size:23 final size:23
Alignment explanation
Indices: 37384--37456 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
37374 ATAGGTAAAA
*
37384 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37407 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37430 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
37453 ATAT
1 ATAT
37457 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37839 original size:23 final size:23
Alignment explanation
Indices: 37821--37885 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
37811 AAATATGATA
37821 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
** * *
37844 TAATATATATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
37867 TAATAGGTAGTGGTTATAT
1 TAATAGGTAGCGCTTATAT
37886 TGTAAAGTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:40416 original size:23 final size:23
Alignment explanation
Indices: 40388--40433 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
40378 AATTTATAAA
*
40388 AAAT-TTTATATTTAAAAT-TAG
1 AAATATTTAAATTTAAAATCTAG
*
40409 AAATATTTAAATTTCAAATCTAG
1 AAATATTTAAATTTAAAATCTAG
40432 AA
1 AA
40434 GTTTAGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 12 0.57
23 5 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
AAATATTTAAATTTAAAATCTAG
Found at i:40468 original size:29 final size:28
Alignment explanation
Indices: 40436--40495 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
40426 ATCTAGAAGT
* *
40436 TTAGGATTTTAATTTTTGAAG-TTTAAATA
1 TTAGAATTTTAAATTTT-AAGATTTAAA-A
40465 TTAGAATTTTAAATTTTAAGATTTAAAA
1 TTAGAATTTTAAATTTTAAGATTTAAAA
40493 TTA
1 TTA
40496 AAATAAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (28 bp):
TTAGAATTTTAAATTTTAAGATTTAAAA
Found at i:48736 original size:14 final size:16
Alignment explanation
Indices: 48712--48744 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
48702 GCAAAAAATA
48712 TTTCTAGAATTC-TTT
1 TTTCTAGAATTCATTT
48727 TTTC-AGAATTCATTT
1 TTTCTAGAATTCATTT
48742 TTT
1 TTT
48745 AATTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTCTAGAATTCATTT
Found at i:48931 original size:15 final size:15
Alignment explanation
Indices: 48911--48940 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48901 TTACAAACTT
48911 ATTATATATTTTTAA
1 ATTATATATTTTTAA
48926 ATTATATATTTTTAA
1 ATTATATATTTTTAA
48941 TATCATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATATATTTTTAA
Found at i:62062 original size:41 final size:38
Alignment explanation
Indices: 62017--62189 Score: 93
Period size: 38 Copynumber: 4.6 Consensus size: 38
62007 GAATAATTCA
62017 TGAAGAATGACATCCGATGAATGAAGAAATTTGAACCTGAC
1 TGAAGAATGA-ATCC-ATGAATGAAGAAATTTGAA-CTGAC
* * ** *
62058 TGAAGAAT-AATTCATGAA-GAAGGACATCCG-A-TGAA
1 TGAAGAATGAATCCATGAATGAA-GAAATTTGAACTGAC
* *
62093 TGAAGAAATTTGAA-CC-TGAATGAAG-AA--T-AATTCA-
1 TGAAG-AA--TGAATCCATGAATGAAGAAATTTGAACTGAC
62127 TGAAGAATGACATCCGATGAATGAAGAAATTTGAACCTGAC
1 TGAAGAATGA-ATCC-ATGAATGAAGAAATTTGAA-CTGAC
*
62168 TGAAGAAT-AATTCATGAA-GAAG
1 TGAAGAATGAATCCATGAATGAAG
62190 GACATCCGAT
Statistics
Matches: 102, Mismatches: 12, Indels: 40
0.66 0.08 0.26
Matches are distributed among these distances:
31 3 0.03
32 1 0.01
33 4 0.04
34 6 0.06
35 19 0.19
36 5 0.05
37 13 0.13
38 21 0.21
39 10 0.10
40 4 0.04
41 16 0.16
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (38 bp):
TGAAGAATGAATCCATGAATGAAGAAATTTGAACTGAC
Found at i:62251 original size:55 final size:55
Alignment explanation
Indices: 61957--62216 Score: 484
Period size: 55 Copynumber: 4.7 Consensus size: 55
61947 CGTTCAGATG
61957 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAACCTGAATGAAGAATA
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAACCTGAATGAAGAATA
* *
62012 ATTCATGAAGAATGACATCCGATGAATGAAGAAATTTGAACCTGACTGAAGAATA
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAACCTGAATGAAGAATA
62067 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAACCTGAATGAAGAATA
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAACCTGAATGAAGAATA
* *
62122 ATTCATGAAGAATGACATCCGATGAATGAAGAAATTTGAACCTGACTGAAGAATA
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAACCTGAATGAAGAATA
62177 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAA
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAA
62217 TTTGATTGAA
Statistics
Matches: 198, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 198 1.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (55 bp):
ATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAACCTGAATGAAGAATA
Found at i:63026 original size:72 final size:73
Alignment explanation
Indices: 62909--63059 Score: 261
Period size: 72 Copynumber: 2.1 Consensus size: 73
62899 CGCTATTACA
62909 CAAGAA-AATATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAG
1 CAAGAACAATATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAG
62973 CAAATGAT
66 CAAATGAT
* *
62981 CAAGAACAA-ATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAG
1 CAAGAACAATATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAG
*
63045 CAACTGAT
66 CAAATGAT
63053 CAAGAAC
1 CAAGAAC
63060 CTGTTAGGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
72 73 0.97
73 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (73 bp):
CAAGAACAATATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAG
CAAATGAT
Found at i:66683 original size:125 final size:125
Alignment explanation
Indices: 66461--66709 Score: 322
Period size: 125 Copynumber: 2.0 Consensus size: 125
66451 TACCCACATT
* ** *
66461 GGGGCATGACTAAACCCACATCATGTTGAGATGACAAGATTTGGACCAAGGAGTCATGAAGAATG
1 GGGGCACGACTAAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGTCATGAAGAATG
* * * *
66526 AGCCTTACAAATTGAGATGATGGGGCATTTTGAAGGCCCGTACCAGTATGAGATAATGTC
66 AGCCTTACAAATTCAGATGATGGAGCATTTTGAAGGCCCGTACCAGAATAAGATAATGTC
* * *
66586 GGGGCACGACTGAACCCACATCATGTTGAGATGATAAGGTTCAGACCAAGAAGTCATTGAA-AAT
1 GGGGCACGACTAAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGTCA-TGAAGAAT
* * * * *
66650 GAGCCTTATAATTTCAGGT-ATTGGAGCATTTTGAAGGCTCGTACCTGAATAAGATAATGT
65 GAGCCTTACAAATTCAGATGA-TGGAGCATTTTGAAGGCCCGTACCAGAATAAGATAATGT
66710 TGCGGCATTA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
124 1 0.01
125 101 0.95
126 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (125 bp):
GGGGCACGACTAAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGTCATGAAGAATG
AGCCTTACAAATTCAGATGATGGAGCATTTTGAAGGCCCGTACCAGAATAAGATAATGTC
Found at i:68073 original size:37 final size:37
Alignment explanation
Indices: 67913--68063 Score: 232
Period size: 37 Copynumber: 4.1 Consensus size: 37
67903 AAAGTCAATT
*
67913 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
*
67950 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* *
67987 CTTCACCAAAGAGTAGTGAAGTAAA-CCATCTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* * *
68023 CTTCACCGAAGAGTAGTGAAGCATATCCTTTTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
68060 CTTC
1 CTTC
68064 TCAGAAGAGT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 31 0.30
37 74 0.70
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (37 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
Found at i:68086 original size:73 final size:73
Alignment explanation
Indices: 67913--68089 Score: 232
Period size: 73 Copynumber: 2.4 Consensus size: 73
67903 AAAGTCAATT
* *
67913 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
1 CTTCACCAAAGAGTAGTGAAGCAAA-CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
*
67978 ATTTTGAGC
65 ATTTTAAGC
* * * *
67987 CTTCACCAAAGAGTAGTGAAGTAAACCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCATATCCT
1 CTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCA
68052 TTTTAAGC
66 TTTTAAGC
* *
68060 CTTC-TCAGAAGAGT-GTTGGAGCAAACCATC
1 CTTCACCA-AAGAGTAG-TGAAGCAAACCATC
68090 AGACTATCAG
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
72 3 0.03
73 64 0.70
74 24 0.26
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (73 bp):
CTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCA
TTTTAAGC
Found at i:68512 original size:54 final size:54
Alignment explanation
Indices: 68450--69068 Score: 1076
Period size: 54 Copynumber: 11.5 Consensus size: 54
68440 GTAGTAAAGC
68450 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
68504 AGAAGAAGATGTTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
68558 AGAAGAAGTTGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
68612 AGAAGAAGATGTTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
68666 AGAAGAAGATGTTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
68720 AGAAGAAGATGTTCGAGTTCCATATTCCCTAGAGAAAGACGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
68774 AGAAGAAGATGTTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
68828 AGAAAAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
68882 AGAAGAATATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * * * *
68936 AGAAGAAGATGCTCGAGTTACATACTCCATAGAGAAAGAGGGAGCAAATCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
68990 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
69044 AGAAGAAGATGTTTGAGTTCCATAC
1 AGAAGAAGATGTTCGAGTTCCATAC
69069 ACTGAAGGAA
Statistics
Matches: 533, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 533 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:69234 original size:55 final size:55
Alignment explanation
Indices: 69070--69458 Score: 470
Period size: 55 Copynumber: 7.3 Consensus size: 55
69060 GTTCCATACA
* * *
69070 CTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGA----TCGAGTCCTATACTCT
1 CTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
* *
69121 CTGAAGGAATAGAGAGCGGACACGTTTATTGAAGA----TCGAG-TCTTATACTCT
1 CTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTC-TATACTCT
*
69172 CTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
1 CTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
* * * *
69227 CTAAAGGAATAGAGAGCGAACCTGTTTGTTTAAGATTGTTCGAGTTCTATACTCT
1 CTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
*
69282 CTGAAGGAATAGAGAGCGGACTCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
1 CTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
*
69337 CT----GAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTC-ATACTCC
1 CTGAAGGAATAGAGAGCGGACCCGTTTGT-TGAAGATTGTTCGAGTTCTATACTCT
* * * *
69387 CTGAACGG-ATAGGGAGCGGACCCGTTTATTGAAGATTGATCGAG-TCTTATACTCC
1 CTGAA-GGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTC-TATACTCT
*
69442 CTGAAGGAATAGGGAGC
1 CTGAAGGAATAGAGAGC
69459 ATACTTATCA
Statistics
Matches: 302, Mismatches: 20, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
50 10 0.03
51 116 0.38
53 2 0.01
54 34 0.11
55 138 0.46
56 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (55 bp):
CTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
Found at i:69316 original size:161 final size:157
Alignment explanation
Indices: 69103--69458 Score: 443
Period size: 161 Copynumber: 2.2 Consensus size: 157
69093 GTTTGTTGAA
*
69103 GATCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGA-TCGAG-TCTTA
1 GATCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGATTCGAGTTC-TA
* *
69166 TACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGTTCGAGTTCTATACTCTCT-
65 TACTCTCT----GAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTC-ATACTCCCTG
* * *
69229 AAAGGAATAGAGAGCGAACCTGTTTGTTTAAGATT
124 AAAGG-ATAGAGAGCGAACCCGTTTATTGAAGATT
* * *
69264 GTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACTCGTTTGTTGAAGATTGTTCGAGTTC
1 GATCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGA---TTCGAGTTC
*
69329 TATACTCTCTGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTCATACTCCCTGAACG
63 TATACTCTCTGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTCATACTCCCTGAAAG
* *
69394 GATAGGGAGCGGACCCGTTTATTGAAGATT
128 GATAGAGAGCGAACCCGTTTATTGAAGATT
* *
69424 GATCGAG-TCTTATACTCCCTGAAGGAATAGGGAGC
1 GATCGAGTTC-TATACTCTCTGAAGGAATAGAGAGC
69459 ATACTTATCA
Statistics
Matches: 172, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
159 2 0.01
160 62 0.36
161 91 0.53
165 15 0.09
166 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (157 bp):
GATCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGATTCGAGTTCTAT
ACTCTCTGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTCATACTCCCTGAAAGGAT
AGAGAGCGAACCCGTTTATTGAAGATT
Found at i:69478 original size:160 final size:161
Alignment explanation
Indices: 69178--69487 Score: 387
Period size: 160 Copynumber: 1.9 Consensus size: 161
69168 CTCTCTGAAG
* *
69178 GAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTAAAGGAATAGAGAG
1 GAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCCCTAAAGGAATAGAGAG
* * * * * * * *
69243 CGAACCTGTTTGTTTAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACTCGTT
66 CGAACCCGTTTATTGAAGATTGATCGAGTTCTATACTCCCTGAAGGAATAGAGAGCAGACTCATA
*
69308 TGTTGAAGATTGTTCGAGTTCTATACTCTCT
131 TGTTGAAGATTGTTCAAGTTCTATACTCTCT
* *
69339 GAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTC-ATACTCCCTGAACGG-ATAGGG
1 GAATAGAGAGCGGACCCGTTTGT-TGAAGATTGTTCGAGTTCTATACTCCCT-AAAGGAATAGAG
* * * *
69401 AGCGGACCCGTTTATTGAAGATTGATCGAG-TCTTATACTCCCTGAAGGAATAGGGAGCATACTT
64 AGCGAACCCGTTTATTGAAGATTGATCGAGTTC-TATACTCCCTGAAGGAATAGAGAGCAGACTC
*
69465 ATCAT-TTGAAGATTTTTCAAGTT
128 AT-ATGTTGAAGATTGTTCAAGTT
69488 TCATTTATCC
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
159 2 0.02
160 82 0.65
161 43 0.34
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (161 bp):
GAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCCCTAAAGGAATAGAGAG
CGAACCCGTTTATTGAAGATTGATCGAGTTCTATACTCCCTGAAGGAATAGAGAGCAGACTCATA
TGTTGAAGATTGTTCAAGTTCTATACTCTCT
Found at i:83379 original size:22 final size:21
Alignment explanation
Indices: 83354--83396 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
83344 CACACATGTA
*
83354 TTAATAAAGAAAACTTTAAATT
1 TTAAAAAAGAAAA-TTTAAATT
* *
83376 TTAAAAAATAAAATTTGAATT
1 TTAAAAAAGAAAATTTAAATT
83397 GTCCACCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
TTAAAAAAGAAAATTTAAATT
Found at i:83786 original size:14 final size:15
Alignment explanation
Indices: 83756--83792 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
83746 ATAAATTAGT
83756 TAAAA-ATTTAAACA
1 TAAAATATTTAAACA
*
83770 TAAATTATTTAAA-A
1 TAAAATATTTAAACA
83784 TAAAATATT
1 TAAAATATT
83793 AATTACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATATTTAAACA
Found at i:83833 original size:13 final size:13
Alignment explanation
Indices: 83817--83845 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
83807 TTATAATCTT
83817 ATTTTTAATAATA
1 ATTTTTAATAATA
83830 ATTTTTAATAATA
1 ATTTTTAATAATA
83843 ATT
1 ATT
83846 AGATCAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTTAATAATA
Found at i:86473 original size:2 final size:2
Alignment explanation
Indices: 86468--86496 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
86458 TTTTTTCTAA
86468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
86497 ACAGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88970 original size:60 final size:57
Alignment explanation
Indices: 88901--89020 Score: 177
Period size: 60 Copynumber: 2.1 Consensus size: 57
88891 ATAGACATTT
*
88901 AATCTAAATTCAATGAGTTCTGACTTGACATCATCTGATAAGGTCATATTTTTTTAAAAG
1 AATCTAAATTCAATGAGTTCTGACTTAACAT-ATCTGATAAGGTC--ATTTTTTTAAAAG
* * *
88961 AATCTAAATTCAATGAGTTTTGACTTAACCTGTCTGATAAGGTCATTTTTTTAAAAG
1 AATCTAAATTCAATGAGTTCTGACTTAACATATCTGATAAGGTCATTTTTTTAAAAG
89018 AAT
1 AAT
89021 AAATTGTATT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
57 16 0.29
59 12 0.21
60 28 0.50
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (57 bp):
AATCTAAATTCAATGAGTTCTGACTTAACATATCTGATAAGGTCATTTTTTTAAAAG
Done.