Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 51
Found at i:10529141 original size:10 final size:10
Alignment explanation
Indices: 10529126--10529156 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
10529116 CTGTAGAAGG
10529126 TTACTGTTCA
1 TTACTGTTCA
10529136 TTACTGTTCA
1 TTACTGTTCA
10529146 TTACTGTTCA
1 TTACTGTTCA
10529156 T
1 T
10529157 AAAACGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (10 bp):
TTACTGTTCA
Found at i:10533154 original size:3 final size:3
Alignment explanation
Indices: 10533140--10533210 Score: 133
Period size: 3 Copynumber: 23.3 Consensus size: 3
10533130 ACCAAGAAAC
10533140 GAA GACA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10533186 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
10533211 TATGACGAGT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10534097 original size:26 final size:28
Alignment explanation
Indices: 10534039--10534111 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 28
10534029 AATAGATTTT
*
10534039 ATATACAATATCTTTTTTTTTCATAAAAC
1 ATATACAATATCTTTTTATTTCA-AAAAC
10534068 ATATACAATATCTTTTTATTTC-AAAA-
1 ATATACAATATCTTTTTATTTCAAAAAC
10534094 ATATACAATATCTTTTTA
1 ATATACAATATCTTTTTA
10534112 CTTATAATGA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
26 18 0.42
27 4 0.09
29 21 0.49
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (28 bp):
ATATACAATATCTTTTTATTTCAAAAAC
Found at i:10535703 original size:3 final size:3
Alignment explanation
Indices: 10535695--10535721 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10535685 CAATTGAGAT
10535695 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
10535722 ATAAGCTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10536518 original size:179 final size:180
Alignment explanation
Indices: 10536195--10536545 Score: 442
Period size: 178 Copynumber: 2.0 Consensus size: 180
10536185 ATCACACAAA
* * * * *
10536195 TATTTAAATGTTTCAATCAAATCACTAGTAGTTAATTTTTAATAGAGGTGGTGATGTGGCAAATA
1 TATTTAAATGCTTCAATCAAAGCACTAGTAGTTAATTTTTAACAGAGGTGCTGACGTGGCAAATA
* *
10536260 ATAAAATTTCCATAACTATATATTTGATCCTTAATATTTAAACATTCATCAATTTAGTCACTATT
66 ATAAAATTACCATAACTATATATTTGATCCTTAATATTTAAACATTCATCAATTTAGTCAATATT
* *
10536325 TTACTTCAATTAAAT-AATTTTCCCACTAATCAGGTGATGACTACCCAAT
131 TTAATTCAATTAAATAAATTTTCCCACCAATCAGGTGATGACTACCCAAT
* * *
10536374 TATTTAAATGCTTCAATC-AAGCATTGGTCGTTAATTTTTAACAGAGGTGCTGACGT-G-AAAGT
1 TATTTAAATGCTTCAATCAAAGCACTAGTAGTTAATTTTTAACAGAGGTGCTGACGTGGCAAA--
* * ** **
10536436 TAATAAAATTAGCATAATTATATATTATG-TTGTTAATATTTACGCATTCTATCAATTTAGTCAA
64 TAATAAAATTACCATAACTATATATT-TGATCCTTAATATTTAAACATTC-ATCAATTTAGTCAA
* **
10536500 TATTTTAATTTAATTAAATAAATTTTTTCACCAATCAGGTGATGAC
127 TATTTTAATTCAATTAAATAAATTTTCCCACCAATCAGGTGATGAC
10536546 ACATGTCACC
Statistics
Matches: 146, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
176 3 0.02
177 1 0.01
178 70 0.48
179 49 0.34
180 23 0.16
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (180 bp):
TATTTAAATGCTTCAATCAAAGCACTAGTAGTTAATTTTTAACAGAGGTGCTGACGTGGCAAATA
ATAAAATTACCATAACTATATATTTGATCCTTAATATTTAAACATTCATCAATTTAGTCAATATT
TTAATTCAATTAAATAAATTTTCCCACCAATCAGGTGATGACTACCCAAT
Found at i:10537395 original size:20 final size:20
Alignment explanation
Indices: 10537367--10537431 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
10537357 ACTTCGACTA
*
10537367 TCGCATTGCGATTTACATA-T
1 TCGCGTTGCGATTTACA-AGT
* *
10537387 TCGCGTTGCGATAGTCCAAGT
1 TCGCGTTGCGAT-TTACAAGT
*
10537408 TCGCGTTGCGATTTTCCAAGT
1 TCGCGTTGCGA-TTTACAAGT
10537429 TCG
1 TCG
10537432 TTGCGATAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 12 0.32
21 25 0.66
22 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCGATTTACAAGT
Found at i:10537412 original size:21 final size:20
Alignment explanation
Indices: 10537390--10537557 Score: 216
Period size: 21 Copynumber: 8.2 Consensus size: 20
10537380 TACATATTCG
10537390 CGTTGCGATAG-TCCAAGTT
1 CGTTGCGATAGTTCCAAGTT
*
10537409 CGCGTTGCGAT-TTTCCAAGTT
1 --CGTTGCGATAGTTCCAAGTT
10537430 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGT-TCCAAGTT
* *
10537451 CGTTGCAATAGTTTCCAAATT
1 CGTTGCGATAG-TTCCAAGTT
10537472 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGT-TCCAAGTT
10537493 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGT-TCCAAGTT
10537514 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGT-TCCAAGTT
*
10537535 TGTTGCGATAG-TCCAAGTT
1 CGTTGCGATAGTTCCAAGTT
10537554 CGTT
1 CGTT
10537558 ATTGCATTTG
Statistics
Matches: 134, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
19 20 0.15
20 2 0.01
21 111 0.83
22 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTTCCAAGTT
Found at i:10537466 original size:42 final size:42
Alignment explanation
Indices: 10537390--10537557 Score: 240
Period size: 42 Copynumber: 4.1 Consensus size: 42
10537380 TACATATTCG
10537390 CGTTGCGATAG--TCCAAGTTCGCGTTGCGAT--TTTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTT--CGTTGCGATAGTTTCCAAGTT
* *
10537430 CGTTGCGATAGTCTCCAAGTTCGTTGCAATAGTTTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTTTCCAAGTT
*
10537472 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTTTCCAAGTT
*
10537514 CGTTGCGATAGTCTCCAAGTTTGTTGCGATAG--TCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTTTCCAAGTT
10537554 CGTT
1 CGTT
10537558 ATTGCATTTG
Statistics
Matches: 118, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
40 31 0.26
42 87 0.74
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (42 bp):
CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTTTCCAAGTT
Found at i:10537639 original size:6 final size:6
Alignment explanation
Indices: 10537628--10537660 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10537618 GACATGCATT
10537628 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
10537661 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:10538514 original size:21 final size:21
Alignment explanation
Indices: 10538248--10538508 Score: 377
Period size: 21 Copynumber: 12.5 Consensus size: 21
10538238 TGCGATTTTG
*
10538248 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
10538269 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
* *
10538290 GACTATCGCAATGAATTTGGA
1 GACTATCGCAACGAACTTGGA
10538311 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
10538332 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
10538353 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
10538374 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
10538395 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
10538416 GACTATCGTAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
* *
10538437 GACTATCACAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
*
10538458 GACTATCGCAACGAACTTCGA
1 GACTATCGCAACGAACTTGGA
*
10538479 -A-AATCGCAACGCGAACTT-G-
1 GACTATCGCAA--CGAACTTGGA
10538498 GACTATCGCAA
1 GACTATCGCAA
10538509 TGCGAATATG
Statistics
Matches: 216, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
19 7 0.03
20 3 0.01
21 206 0.95
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (21 bp):
GACTATCGCAACGAACTTGGA
Found at i:10538999 original size:19 final size:19
Alignment explanation
Indices: 10538971--10539056 Score: 73
Period size: 19 Copynumber: 4.2 Consensus size: 19
10538961 GCAATTTTGA
* *
10538971 AAAATTTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTG
*
10538990 AAAATGTGTTGCGAGAGTTTG
1 AAAATGTGTTGCGATAG--TG
10539011 AAAAACTTGTTGTTGCGATAGTG
1 -AAAA--TG-TGTTGCGATAGTG
* *
10539034 AAAAAGTGTTGCAATAGTG
1 AAAATGTGTTGCGATAGTG
10539053 AAAA
1 AAAA
10539057 ATCCAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
19 31 0.56
20 1 0.02
21 1 0.02
22 8 0.15
23 2 0.04
24 2 0.04
25 10 0.18
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.33
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTG
Found at i:10539302 original size:5 final size:5
Alignment explanation
Indices: 10539291--10539333 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
10539281 CCGTCCCGTC
*
10539291 TCGGG TCTGG TCGGG TCGGG TCGGGG TCGGGG TCGGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG TC-GGG TC-GGG TC-GGG TCGGG
10539334 GTCATGGTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.00, C:0.19, G:0.60, T:0.21
Consensus pattern (5 bp):
TCGGG
Found at i:10539319 original size:6 final size:6
Alignment explanation
Indices: 10539299--10539336 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
10539289 TCTCGGGTCT
10539299 GGTC-G GGTC-G GGTCGG GGTCGG GGTCGG GGTCGG GGTC
1 GGTCGG GGTCGG GGTCGG GGTCGG GGTCGG GGTCGG GGTC
10539337 ATGGTCGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 9 0.28
6 23 0.72
ACGTcount: A:0.00, C:0.18, G:0.63, T:0.18
Consensus pattern (6 bp):
GGTCGG
Found at i:10539342 original size:18 final size:18
Alignment explanation
Indices: 10539299--10539343 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10539289 TCTCGGGTCT
10539299 GGTC-GGGTC-GGGTCGG
1 GGTCAGGGTCGGGGTCGG
*
10539315 GGTCGGGGTCGGGGTCGG
1 GGTCAGGGTCGGGGTCGG
*
10539333 GGTCATGGTCG
1 GGTCAGGGTCG
10539344 TGGTAATACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 16 0.64
ACGTcount: A:0.02, C:0.18, G:0.60, T:0.20
Consensus pattern (18 bp):
GGTCAGGGTCGGGGTCGG
Found at i:10539445 original size:19 final size:20
Alignment explanation
Indices: 10539407--10539447 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
10539397 TTCTTAAGAA
10539407 ATCGCAACGTGAACTTGGACT
1 ATCGCAACG-GAACTTGGACT
*
10539428 ATCGCAAC-GAATTTGGACT
1 ATCGCAACGGAACTTGGACT
10539447 A
1 A
10539448 ACGTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (20 bp):
ATCGCAACGGAACTTGGACT
Found at i:10539509 original size:20 final size:20
Alignment explanation
Indices: 10539486--10539531 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
10539476 GAAACTGATA
*
10539486 TGCGATACT-GGAGATCGCGT
1 TGCGATACTCAGA-ATCGCGT
*
10539506 TGCGATAGTCAGAATCGCGT
1 TGCGATACTCAGAATCGCGT
10539526 TGCGAT
1 TGCGAT
10539532 TTACATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (20 bp):
TGCGATACTCAGAATCGCGT
Found at i:10543593 original size:27 final size:25
Alignment explanation
Indices: 10543562--10543613 Score: 59
Period size: 26 Copynumber: 1.9 Consensus size: 25
10543552 TTAAGTATAA
10543562 ATATAAAAGATAAATAAATAAACTATTGT
1 ATAT-AAA-ATAAAT-AATAAA-TATTGT
*
10543591 ATATAAAATATATAATAAATATT
1 ATATAAAATAAATAATAAATATT
10543614 ATATCTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 6 0.27
27 5 0.23
28 3 0.14
29 4 0.18
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATAAAATAAATAATAAATATTGT
Found at i:10544059 original size:35 final size:35
Alignment explanation
Indices: 10544011--10544123 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
10544001 CAAAACACTC
* * *
10544011 TTCAATTTTATTCTAAACCCCAAATTCCAAAGTAA
1 TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
* *
10544046 TTCAATTTCATTCTAAACCTTAAATTCCAAACTAA
1 TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
* * *
10544081 TTCAATTACATTCTAAACCTCAAATTCTAAAATAC
1 TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
10544116 TTCAATTT
1 TTCAATTT
10544124 AAGGAGGACT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.40, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TTCAATTTCATTCTAAACCTCAAATTCCAAAATAA
Found at i:10545224 original size:35 final size:35
Alignment explanation
Indices: 10545183--10545295 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 35
10545173 AAAAAAGATA
* *
10545183 GAAATTGAAGTATTTTAGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
* * *
10545218 GTAATTGAATTGTTTTGGAATTTAAGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
* *
10545253 GAAATTGAATTACTTTGGAATTTGGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
10545288 GAAATTGA
1 GAAATTGA
10545296 TGATTGTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.35, C:0.01, G:0.24, T:0.41
Consensus pattern (35 bp):
GAAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
Found at i:10545664 original size:15 final size:15
Alignment explanation
Indices: 10545644--10545675 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10545634 ACAAATATAA
10545644 TTTTTATATAAATAT
1 TTTTTATATAAATAT
*
10545659 TTTTTATTTAAATAT
1 TTTTTATATAAATAT
10545674 TT
1 TT
10545676 AGAATTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTATATAAATAT
Found at i:10551364 original size:18 final size:18
Alignment explanation
Indices: 10551341--10551377 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10551331 TAAGTTTTTT
10551341 CTCTCTTCTTCCCTCTTC
1 CTCTCTTCTTCCCTCTTC
10551359 CTCTCTTCTTCCCTCTTC
1 CTCTCTTCTTCCCTCTTC
10551377 C
1 C
10551378 GTCTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (18 bp):
CTCTCTTCTTCCCTCTTC
Found at i:10551419 original size:11 final size:11
Alignment explanation
Indices: 10551405--10551435 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10551395 ATATTCAAGT
10551405 GAATTTCATTG
1 GAATTTCATTG
10551416 GAATTTCATTG
1 GAATTTCATTG
*
10551427 AAATTTCAT
1 GAATTTCAT
10551436 CACCGATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (11 bp):
GAATTTCATTG
Found at i:10554645 original size:30 final size:30
Alignment explanation
Indices: 10554609--10554665 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
10554599 GTGCTGGCAC
10554609 GCACATGGGTGCTGTTTTGTTCCAAATCAT
1 GCACATGGGTGCTGTTTTGTTCCAAATCAT
*
10554639 GCACATGGGTGTTGTTTTGTTCCAAAT
1 GCACATGGGTGCTGTTTTGTTCCAAAT
10554666 GGTGAGTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (30 bp):
GCACATGGGTGCTGTTTTGTTCCAAATCAT
Found at i:10561129 original size:30 final size:30
Alignment explanation
Indices: 10561093--10561149 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
10561083 GTGCTGGCAC
10561093 GCACATGGGTGCTGTTTTGTTCCAAATCAT
1 GCACATGGGTGCTGTTTTGTTCCAAATCAT
*
10561123 GCACATGGGTGTTGTTTTGTTCCAAAT
1 GCACATGGGTGCTGTTTTGTTCCAAAT
10561150 GGTGAGTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (30 bp):
GCACATGGGTGCTGTTTTGTTCCAAATCAT
Found at i:10564468 original size:20 final size:20
Alignment explanation
Indices: 10564425--10564469 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10564415 CCATCATACT
* * *
10564425 GAGCCAATCGAGTCACAATT
1 GAGCTAATCGAGCCACAATC
*
10564445 GAGCTAATCGAGCCACGATC
1 GAGCTAATCGAGCCACAATC
10564465 GAGCT
1 GAGCT
10564470 GCTGACCGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (20 bp):
GAGCTAATCGAGCCACAATC
Found at i:10568963 original size:16 final size:16
Alignment explanation
Indices: 10568942--10568974 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10568932 ATTAATAGAT
10568942 AAAATATACA-AAATAA
1 AAAATA-ACACAAATAA
10568958 AAAATAACACAAATAA
1 AAAATAACACAAATAA
10568974 A
1 A
10568975 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAACACAAATAA
Found at i:10571364 original size:27 final size:27
Alignment explanation
Indices: 10571334--10571414 Score: 62
Period size: 27 Copynumber: 3.1 Consensus size: 27
10571324 TTTTATGATG
10571334 TTTTGATATGTTAGTATCTATGGATAC
1 TTTTGATATGTTAGTATCTATGGATAC
* ** * ** *
10571361 TTTTAATA-AAT-GAAT-GGTGTATGA-
1 TTTTGATATGTTAGTATCTATGGAT-AC
10571385 TTTTGATATGTTAGTATCTATGGATAC
1 TTTTGATATGTTAGTATCTATGGATAC
10571412 TTT
1 TTT
10571415 AATAAAAGAC
Statistics
Matches: 35, Mismatches: 14, Indels: 10
0.59 0.24 0.17
Matches are distributed among these distances:
24 11 0.31
25 5 0.14
26 5 0.14
27 14 0.40
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.48
Consensus pattern (27 bp):
TTTTGATATGTTAGTATCTATGGATAC
Found at i:10573061 original size:6 final size:6
Alignment explanation
Indices: 10573038--10573091 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
10573028 TATTATTCCT
* *
10573038 AAGAAA AA-ATAA AA-AAA AGGAAA AAGAAA AGAAAAA AAGAAA AAG-AA
1 AAGAAA AAGA-AA AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA AAGAAA
10573085 AAGAAA A
1 AAGAAA A
10573092 GGAGAGGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 9 0.22
6 26 0.65
7 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:10573074 original size:19 final size:19
Alignment explanation
Indices: 10573049--10573091 Score: 77
Period size: 19 Copynumber: 2.2 Consensus size: 19
10573039 AGAAAAAATA
10573049 AAAAAAAGGAAAAAGAAAAG
1 AAAAAAA-GAAAAAGAAAAG
10573069 AAAAAAAGAAAAAGAAAAG
1 AAAAAAAGAAAAAGAAAAG
10573088 AAAA
1 AAAA
10573092 GGAGAGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAGAAAAG
Found at i:10574312 original size:136 final size:136
Alignment explanation
Indices: 10574087--10574769 Score: 849
Period size: 136 Copynumber: 5.0 Consensus size: 136
10574077 AATATGAATT
* * * *
10574087 GATTAACATTTCCAATGAAGAGTTCAAAATAAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTT
1 GATTAACATTTACAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTT
* * * *
10574152 ATAATGAGAAGAACTTGTTTGACCTATTGCTCGATTCACGATAATTCAAATCAGTAACGCCTCGC
66 ATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTCGAATCAGCAACGCCTCGC
10574217 TTGAGG
131 TTGAGG
* * *
10574223 GATTAACATTTCCAATGGAGAGTTCATAATGAGAAGATCTCATCCGAAAGAGGGAGAAGAATTTT
1 GATTAACATTTACAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTT
* * * * * *
10574288 ATAATAAGAAGAACTTGTTCGACCTATTGTTTGATTCATGACACTTCGAATCAACAACGCCTCGC
66 ATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTCGAATCAGCAACGCCTCGC
10574353 TTGAGG
131 TTGAGG
* * *
10574359 GATTAACATTTACAATGGAGAGTTCATAATGAGAAGAGCTCATCTGACAA-AGGGAGAAAAAG-T
1 GATTAACATTTACAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAGAGGGAGAAGAAGTT
* *
10574422 TAGTAATAAGAATAACTTGTTTGACCTATTGCTCGATTCACGACACTTCGAATCAGCAACGCCTC
65 TA-TAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTCGAATCAGCAACGCCTC
*
10574487 GCTTGAGA
129 GCTTGAGG
* * * * *
10574495 GATTAATATTTACAATGGAGAGTTCATAATGAGAATAGCTCATCCGACAGAGGGAGAAGAAGTTC
1 GATTAACATTTACAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTT
* * ** * * * * *
10574560 ATAATGAGAAGAACTTGTTTGACCTATTGCTCGATGCAAAACATTTTGAATTAGTAACACCTCGC
66 ATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTCGAATCAGCAACGCCTCGC
10574625 TTGAGG
131 TTGAGG
* * *
10574631 GATTAACA-TTATTAATGGAGAGTTCATAATGAGAAGAACTCATCCGACCAAGA--GATAAGTAG
1 GATTAACATTTA-CAATGGAGAGTTCATAATGAGAAGAACTCATCCGA--AAGAGGGAGAAGAAG
* * *
10574693 TTCATAATGAA-AAGAACTTGTTCGACCTATTGCTCGATTCACGA-AATTTAGAATCAGCAACGC
63 TTTATAAT-AAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAA-TTCGAATCAGCAACGC
* *
10574756 CTCACTAGAGG
126 CTCGCTTGAGG
10574767 GAT
1 GAT
10574770 CAATCTTTCC
Statistics
Matches: 475, Mismatches: 63, Indels: 18
0.85 0.11 0.03
Matches are distributed among these distances:
135 8 0.02
136 459 0.97
137 5 0.01
138 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (136 bp):
GATTAACATTTACAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTT
ATAATAAGAAGAACTTGTTTGACCTATTGCTCGATTCACGACAATTCGAATCAGCAACGCCTCGC
TTGAGG
Found at i:10578473 original size:20 final size:20
Alignment explanation
Indices: 10578422--10578473 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
10578412 TTCTTAATAT
*
10578422 TAAAAAATAAATAAATATTAA
1 TAAAAAAT-AATAAAGATTAA
** **
10578443 TAAAATGTAATAAAGATTCC
1 TAAAAAATAATAAAGATTAA
10578463 TAAAAAATAAT
1 TAAAAAATAAT
10578474 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAAAATAATAAAGATTAA
Found at i:10578485 original size:15 final size:15
Alignment explanation
Indices: 10578465--10578505 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10578455 AAGATTCCTA
10578465 AAAAATAATTTAAAT
1 AAAAATAATTTAAAT
*
10578480 AAAAATAAATTAAAT
1 AAAAATAATTTAAAT
* *
10578495 ATATATAATTT
1 AAAAATAATTT
10578506 TTATAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAATAATTTAAAT
Found at i:10578966 original size:5 final size:5
Alignment explanation
Indices: 10578956--10578981 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10578946 AGATAAGGAC
10578956 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
10578982 TACGAGACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:10581675 original size:19 final size:19
Alignment explanation
Indices: 10581627--10581678 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
10581617 AATGCATTTG
*
10581627 ATGCATCGATACACATACC
1 ATGCATCGATGCACATACC
10581646 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
10581665 ATGCATCGATGCAC
1 ATGCATCGATGCAC
10581679 TCAGGACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (19 bp):
ATGCATCGATGCACATACC
Found at i:10590266 original size:65 final size:64
Alignment explanation
Indices: 10590197--10590356 Score: 250
Period size: 65 Copynumber: 2.5 Consensus size: 64
10590187 GATTTAATTG
* *
10590197 AACATCGAATGCATTTGATGCATCGATGCACATA-CATGCATCGATGCACTCAGGGTTTTATAAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAAGCTTTT-T-AA
10590261 A
64 A
*
10590262 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAAGCTTTTTCAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAAGCTTTTTAAA
* *
10590326 AACATCGAATGCATTTTATGTATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
10590357 TCTTAGTGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
64 31 0.35
65 35 0.39
66 23 0.26
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAAGCTTTTTAAA
Found at i:10600375 original size:16 final size:16
Alignment explanation
Indices: 10600354--10600385 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10600344 AATCGCAACC
10600354 ATTGATGATATCACTT
1 ATTGATGATATCACTT
*
10600370 ATTGATGATTTCACTT
1 ATTGATGATATCACTT
10600386 TTTCATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
ATTGATGATATCACTT
Found at i:10602419 original size:46 final size:45
Alignment explanation
Indices: 10602353--10602500 Score: 192
Period size: 46 Copynumber: 3.3 Consensus size: 45
10602343 ATCTCTTACT
* *
10602353 ATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTTCC
1 ATTTATACCATAAGCTCGTAAGCTTATTTTACCAATACACTTTCC
10602398 ATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATACACTTAT-C
1 ATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAATACACTT-TCC
* * * * *
10602444 ATTTGTTCTATAAGCTCGTAAGCTTAATTTACCAATACACTTACC
1 ATTTATACCATAAGCTCGTAAGCTTATTTTACCAATACACTTTCC
*
10602489 A-TTATTCCATAA
1 ATTTATACCATAA
10602501 CTATATACCA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
44 9 0.10
45 40 0.44
46 41 0.45
47 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (45 bp):
ATTTATACCATAAGCTCGTAAGCTTATTTTACCAATACACTTTCC
Found at i:10602475 original size:45 final size:46
Alignment explanation
Indices: 10602360--10602491 Score: 187
Period size: 45 Copynumber: 2.9 Consensus size: 46
10602350 ACTATTTATC
*
10602360 CCATAAGCTCGTAAGCTTATTTTACCAATATACTT-TCCATTTAATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTAT-CATTTAATA
* *
10602406 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTATCATTT-GTT
1 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTATCATTTAATA
* * *
10602451 CTATAAGCTCGTAAGCTTAATTTACCAATACACTTACCATT
1 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTATCATT
10602492 ATTCCATAAC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
45 39 0.49
46 39 0.49
47 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (46 bp):
CCATAAGCTCGTAAGCTTATTTTACCAATACACTTATCATTTAATA
Found at i:10602694 original size:60 final size:59
Alignment explanation
Indices: 10602601--10602730 Score: 188
Period size: 60 Copynumber: 2.2 Consensus size: 59
10602591 CGTAGTGCAA
* * **
10602601 TCCCGAATATGACACATAAGGTCATGTCCACCATCTGTACTAGGTATCCTTAAGTATATT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTATA-T
* * *
10602661 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTATAT
10602720 TCCCGAATATG
1 TCCCGAATATG
10602731 CAGCCTGCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 12 0.19
60 51 0.81
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTATAT
Found at i:10606484 original size:85 final size:85
Alignment explanation
Indices: 10606369--10606561 Score: 269
Period size: 85 Copynumber: 2.3 Consensus size: 85
10606359 GTCTTTTTTA
* * *
10606369 ATGACGTGTGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACA
*
10606434 AATGTATGTCAAGTAGATTT
66 AATGTATGTCAACTAGATTT
* *** *
10606454 ATGATGGGGGCTTCAATGACGTTCAATGTAAGTCATACATGTGAGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACA
* * **
10606519 AATGTGTGTCATCTTTATTT
66 AATGTATGTCAACTAGATTT
10606539 ATGACGGGGGCTTCAATGACACG
1 ATGACGGGGGCTTCAATGACACG
10606562 TCATAAATGC
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (85 bp):
ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACA
AATGTATGTCAACTAGATTT
Found at i:10606597 original size:13 final size:13
Alignment explanation
Indices: 10606561--10606597 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
10606551 TCAATGACAC
*
10606561 GTCATAAATGCAG
1 GTCATAAATGTAG
*
10606574 GTCATAAATGTAT
1 GTCATAAATGTAG
10606587 GTCATAAATGT
1 GTCATAAATGT
10606598 GCGTCATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (13 bp):
GTCATAAATGTAG
Found at i:10611417 original size:37 final size:37
Alignment explanation
Indices: 10611376--10611450 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
10611366 GTAAAGAAAA
10611376 CGGGTAGGTTGTTAAAATAATTTAAAATTATTTACAG
1 CGGGTAGGTTGTTAAAATAATTTAAAATTATTTACAG
10611413 CGGGTAGGTTGTTAAAATAATTTAAAATTATTTACAG
1 CGGGTAGGTTGTTAAAATAATTTAAAATTATTTACAG
10611450 C
1 C
10611451 TCTAACATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (37 bp):
CGGGTAGGTTGTTAAAATAATTTAAAATTATTTACAG
Found at i:10611652 original size:48 final size:49
Alignment explanation
Indices: 10611590--10611690 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 49
10611580 AGTTGAATAA
* * * *
10611590 AATTTTCGACGGAATCATTGTCCTGTCATAAATTAAATTGATAT-TTTT
1 AATTTCCGACGGAATCATTATCCTATCACAAATTAAATTGATATATTTT
* * **
10611638 AATTTCCGATGGAATTATTATTTTATCACAAATTAAATTGATATATTTT
1 AATTTCCGACGGAATCATTATCCTATCACAAATTAAATTGATATATTTT
10611687 AATT
1 AATT
10611691 AAAGTTGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
48 36 0.82
49 8 0.18
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (49 bp):
AATTTCCGACGGAATCATTATCCTATCACAAATTAAATTGATATATTTT
Found at i:10611751 original size:113 final size:113
Alignment explanation
Indices: 10611541--10611749 Score: 359
Period size: 113 Copynumber: 1.9 Consensus size: 113
10611531 TTACATAATG
* *
10611541 ATTATTCTATCACAAATTAAATTGGTATATTTTAATTAAAGTTGAATAAAATTTTCGACGGAATC
1 ATTATTCTATCACAAATTAAATTGATATATTTTAATTAAAGTTGAATAAAATTTCCGACGGAATC
*
10611606 ATTGTCCTGTCATAAATTAAATTGATATTTTTAATTTCCGATGGAATT
66 ATTGTCCTGTCATAAATTAAATTAATATTTTTAATTTCCGATGGAATT
*
10611654 ATTATTTTATCACAAATTAAATTGATATATTTTAATTAAAGTTGAATAAAATTTCCGATC-GAAT
1 ATTATTCTATCACAAATTAAATTGATATATTTTAATTAAAGTTGAATAAAATTTCCGA-CGGAAT
10611718 CATTGTCC-GTCATAAATTAAATTAATATTTTT
65 CATTGTCCTGTCATAAATTAAATTAATATTTTT
10611750 TATTGAAATG
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
112 23 0.25
113 67 0.74
114 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (113 bp):
ATTATTCTATCACAAATTAAATTGATATATTTTAATTAAAGTTGAATAAAATTTCCGACGGAATC
ATTGTCCTGTCATAAATTAAATTAATATTTTTAATTTCCGATGGAATT
Found at i:10614283 original size:13 final size:14
Alignment explanation
Indices: 10614256--10614290 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
10614246 AAAAATATTT
10614256 AATATTAATTAATA
1 AATATTAATTAATA
*
10614270 AATCTTAA-TAATA
1 AATATTAATTAATA
10614283 AATATTAA
1 AATATTAA
10614291 ACTAATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATTAATTAATA
Found at i:10615329 original size:18 final size:18
Alignment explanation
Indices: 10615308--10615349 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
10615298 AACATTTCCA
10615308 ATAATTCTATTCACGTCG
1 ATAATTCTATTCACGTCG
*
10615326 ATAATACTATTCACGTCG
1 ATAATTCTATTCACGTCG
10615344 ATAATT
1 ATAATT
10615350 TTACATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (18 bp):
ATAATTCTATTCACGTCG
Found at i:10617991 original size:23 final size:23
Alignment explanation
Indices: 10617965--10618012 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10617955 ATAAAGTACA
*
10617965 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
10617988 ATAATGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
10618011 AT
1 AT
10618013 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:10618513 original size:21 final size:23
Alignment explanation
Indices: 10618488--10618560 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
10618478 ATACTTTACA
*
10618488 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10618511 ATATAAACGCTATCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10618534 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10618557 ATAT
1 ATAT
10618561 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10619013 original size:23 final size:23
Alignment explanation
Indices: 10618978--10619050 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
10618968 ATACTTTACA
*
10618978 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10619001 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10619024 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10619047 ATAT
1 ATAT
10619051 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10619393 original size:486 final size:489
Alignment explanation
Indices: 10618086--10619883 Score: 3248
Period size: 490 Copynumber: 3.7 Consensus size: 489
10618076 TTATAATATG
* * * *
10618086 TTGAAAGTGTCTATATTTTTTTATAAAAAAGATCGATACTCTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATA-CTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
10618151 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
10618215 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAAGAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
10618280 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
10618345 -TCCGTAACATAAAAAATAAATCATTAGACGCCAATAATTACTAAATTAATATCTTAAAACTCAC
260 AT-CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * *
10618409 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATG
324 TCAAAAGATAACTTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
* *
10618474 ATAAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTATCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
10618539 AGTGCTACCTATTACATCATATTTTTACCTATTATA
454 AGCGCTACCTATTACATCATATTTTTACCTATTATA
10618575 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
10618640 TCACTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCA-ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
10618705 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
10618770 TAACCAAAAATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
10618835 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
10618900 AAAAAGATAACTTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACTTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
10618965 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
10619030 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
10619065 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAG-TATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
10619128 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA-TTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
10619192 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
*
10619257 AACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
10619322 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAACCTCACTC
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* * * *
10619387 AAAAGATAA-TCTTAAATTAATATTTTTCACAGTGAAAAAAATATGAACACTTTTATAAAAAGGA
326 AAAAGATAACT-TTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
10619451 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACTTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
10619516 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
*
10619551 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
10619616 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
* * *
10619681 CAAAACATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
10619746 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
10619811 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
10619876 CAAAAGAT
325 CAAAAGAT
10619884 GTACATACCT
Statistics
Matches: 1268, Mismatches: 33, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
485 1 0.00
486 397 0.31
487 59 0.05
488 87 0.07
489 73 0.06
490 650 0.51
491 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACTTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:10619499 original size:23 final size:23
Alignment explanation
Indices: 10619464--10619536 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
10619454 ATACTTTACA
*
10619464 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10619487 ATATAAACGCTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10619510 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10619533 ATAT
1 ATAT
10619537 TTTTACCTAT
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:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10622653 original size:183 final size:183
Alignment explanation
Indices: 10622344--10624019 Score: 3036
Period size: 183 Copynumber: 9.2 Consensus size: 183
10622334 GCGTTACTTA
10622344 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
10622409 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
10622474 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
10622527 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
10622592 TATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
*
10622657 ATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
10622710 AAAGTACCGACACAATATTAAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 AAAGTACCGACACAATATT-AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
10622775 GTATATTTATACTGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTT
65 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
10622840 AATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCAATCTGGACAT
130 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
10622894 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTAGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
10622959 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
* *
10623024 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTATTTCAATCTGGACAT
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
* * * * *
10623077 AAAGTACTGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGGCCTATTCGCTCATAAAATCGA
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
10623142 TATATTTATGCCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
10623207 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
10623260 AAAGTACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
10623325 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
10623390 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
10623443 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
10623508 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGTGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
*
10623573 ATGTCGACACTTTTT-ACATGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
10623625 AAAGTACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
10623690 TATATTTATACCGGTTATATTACAAAATTATATATTACATTATAATTCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
10623755 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
10623808 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAG
1 AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
10623873 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTT
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TG
* *
10623938 TCAA--TCGACACTTTTTGA-AATGGTATCGACACATTTTTCTTCCATTCTGGACAT
128 TAAATGTCGACACTTTTTGACAA-GGTATCGACACATTTTTCTTCCAATCTGGACAT
*
10623992 AAAGTACAGACACAATATTAAAAAGTGT
1 AAAGTACCGACACAATATTAAAAAGTGT
10624020 GAAAACTTTG
Statistics
Matches: 1443, Mismatches: 44, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
182 177 0.12
183 1009 0.70
184 253 0.18
186 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
AAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAA
ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACAT
Found at i:10625246 original size:12 final size:12
Alignment explanation
Indices: 10625230--10625338 Score: 119
Period size: 12 Copynumber: 8.8 Consensus size: 12
10625220 CTTGTTTAGA
* *
10625230 TCATCATCATCA
1 TCATCGTCATCT
10625242 TCATCGTCATCATCT
1 TCATCGTC---ATCT
*
10625257 TCATTGTCATCT
1 TCATCGTCATCT
* *
10625269 TCATCTTCAGCT
1 TCATCGTCATCT
*
10625281 TCATCGTCATCA
1 TCATCGTCATCT
10625293 TCATCGTCATCT
1 TCATCGTCATCT
10625305 TCATCGTCATCT
1 TCATCGTCATCT
*
10625317 TCATCGTCAGCT
1 TCATCGTCATCT
*
10625329 TCATCTTCAT
1 TCATCGTCAT
10625339 TGACCGCTTG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
12 71 0.88
15 10 0.12
ACGTcount: A:0.20, C:0.32, G:0.07, T:0.40
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:10625260 original size:6 final size:6
Alignment explanation
Indices: 10625251--10625338 Score: 97
Period size: 6 Copynumber: 14.7 Consensus size: 6
10625241 ATCATCGTCA
* * * *
10625251 TCATCT TCAT-T GTCATCT TCATCT TCAGCT TCATCG TCATCA TCATCG
1 TCATCT TCATCT -TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * *
10625299 TCATCT TCATCG TCATCT TCATCG TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
10625339 TGACCGCTTG
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
5 1 0.01
6 66 0.97
7 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.08, T:0.42
Consensus pattern (6 bp):
TCATCT
Found at i:10627326 original size:200 final size:200
Alignment explanation
Indices: 10626815--10627598 Score: 1279
Period size: 200 Copynumber: 3.9 Consensus size: 200
10626805 TTTAAATTAG
* * * * * *
10626815 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCAGTA
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTA
* *
10626878 TACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGG
64 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGG
* *
10626943 GATCGACACTTTTTATATATGGATCGACACTTTATTGTTGC-TCACTGTTTGCCATTCATTCTGG
129 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCA-TGTTTGCCATTCATTCTGG
10627007 ACCAAAAA
193 ACCAAAAA
10627015 TATCGACACAAACTAAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACT-AAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTAT
10627080 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGG
* *
10627145 ATCGATACTTTTTATATATGGATCGACACTTTATGGTTGGACCATGTTTGCCATTCATTCTGGAC
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGAC
10627210 CAAAAA
195 CAAAAA
*
10627216 TATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
*
10627281 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
10627346 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCC-TGTTTGCCATTCATTCTGGAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCATGTTTGCCATTCATTCTGGAC
*
10627410 CAGAAA
195 CAAAAA
* * * * *
10627416 TATCAACACAAACTATAAAATTGTCGATACATTATTTAGACCTATTCTATCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
* * *
10627481 CTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
*
10627546 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTTGCCAT
10627599 ATTGTAAATT
Statistics
Matches: 552, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
199 2 0.00
200 358 0.65
201 186 0.34
202 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACC
AAAAA
Found at i:10627722 original size:18 final size:18
Alignment explanation
Indices: 10627699--10627759 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
10627689 TATCATTCAT
*
10627699 AATTATATTCACATACAA
1 AATTATAATCACATACAA
*
10627717 AATTATAAATCATATACAA
1 AATTAT-AATCACATACAA
**
10627736 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
10627755 AATTA
1 AATTA
10627760 ACCCTACATT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 6 0.15
19 33 0.85
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:10627735 original size:19 final size:19
Alignment explanation
Indices: 10627711--10627759 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
10627701 TTATATTCAC
10627711 ATACAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
*
10627730 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCAT
10627749 ATACAAAATTA
1 ATACAAAATTA
10627760 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:10629581 original size:33 final size:33
Alignment explanation
Indices: 10629544--10629609 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
10629534 CATCTTAATA
*
10629544 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
10629577 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
10629610 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:10629679 original size:20 final size:20
Alignment explanation
Indices: 10629642--10629705 Score: 92
Period size: 21 Copynumber: 3.1 Consensus size: 20
10629632 CCCCTTATGC
*
10629642 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGT-TCTCTTCGACT
10629663 CTCTCAAGTTCTCTTCGACT
1 CTCTCAAGTTCTCTTCGACT
*
10629683 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAG-TTCTCTTCGACT
10629704 CT
1 CT
10629706 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.41
Consensus pattern (20 bp):
CTCTCAAGTTCTCTTCGACT
Found at i:10631992 original size:20 final size:19
Alignment explanation
Indices: 10631937--10631983 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
10631927 TCCGGTATCG
10631937 TTTTACCAGTTTTATCATT
1 TTTTACCAGTTTTATCATT
* *
10631956 TTGATACCGGTTTTATCATAT
1 TT-TTACCAGTTTTATCAT-T
10631977 TTTTACC
1 TTTTACC
10631984 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCAGTTTTATCATT
Found at i:10632132 original size:181 final size:182
Alignment explanation
Indices: 10631904--10632377 Score: 691
Period size: 183 Copynumber: 2.6 Consensus size: 182
10631894 CGTACTTACG
* *
10631904 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCAGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
10631969 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTT-AAAGTATCGATACATTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTTAAAAGTATCGACACATTA
*
10632033 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 TA-GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
10632085 AAAGTATCGACACTTTCAATATATCTGGTAACGTTTTACTGGTTTTATCATTTTGTTACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
10632150 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATATATATTTTTTAAAAGTATCGACACTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATAT-TTTTTTAAAAGTATCGACACATT
** *
10632215 ATAGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 ATAGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * **
10632268 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
10632333 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTT
10632378 AATTTGGATC
Statistics
Matches: 260, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 98 0.38
182 54 0.21
183 108 0.42
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTTAAAAGTATCGACACATTA
TAGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:10632150 original size:20 final size:20
Alignment explanation
Indices: 10632127--10632164 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10632117 GTTTTACTGG
10632127 TTTTATCAT-TTTGTTACCGA
1 TTTTATCATATTT-TTACCGA
10632147 TTTTATCATATTTTTACC
1 TTTTATCATATTTTTACC
10632165 TGGTATATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTATCATATTTTTACCGA
Found at i:10635007 original size:21 final size:22
Alignment explanation
Indices: 10634968--10635010 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10634958 AATTTACAGT
*
10634968 TTTTTTTATTTGATATTTAATC
1 TTTTATTATTTGATATTTAATC
*
10634990 TTTTATTATTTTAT-TTTAATC
1 TTTTATTATTTGATATTTAATC
10635011 CTTCGTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTATTATTTGATATTTAATC
Found at i:10639316 original size:6 final size:6
Alignment explanation
Indices: 10639302--10639335 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
10639292 AATGACACCT
*
10639302 TTTGTA TTTGCA TTTGGCA TTTGCA TTTGCA TTT
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTT
10639336 CATGTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:10639325 original size:13 final size:12
Alignment explanation
Indices: 10639302--10639335 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
10639292 AATGACACCT
*
10639302 TTTGTATTTGCA
1 TTTGCATTTGCA
10639314 TTTGGCATTTGCA
1 TTT-GCATTTGCA
10639327 TTTGCATTT
1 TTTGCATTT
10639336 CATGTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.56
Consensus pattern (12 bp):
TTTGCATTTGCA
Found at i:10643508 original size:41 final size:42
Alignment explanation
Indices: 10643402--10643508 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
10643392 GTAAACAATT
* *
10643402 TAAGTCCTTCGGGTCAT-CATTAAGTCTTTTGAGCATGATGAG
1 TAAGTCCTTCGGGTCATCCA-TAAGTCTTTCGAGCAAGATGAG
* * *
10643444 TAAATCCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGA-
1 TAAGTCCTTCGGGTCATCCATAAGTCTTTCGAGCAAGATGAG
**
10643485 TAAGTCCTTCGGACCATCCATAAG
1 TAAGTCCTTCGGGTCATCCATAAG
10643509 ACCTCCGGGT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 19 0.35
42 34 0.63
43 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCCATAAGTCTTTCGAGCAAGATGAG
Found at i:10643727 original size:20 final size:20
Alignment explanation
Indices: 10643702--10643753 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
10643692 GAGTAAGATG
*
10643702 ATAAGTCCTTCGTGTCATCC
1 ATAAGTCCTTCGTGCCATCC
10643722 ATAAGTCCTTCGTGCCATCC
1 ATAAGTCCTTCGTGCCATCC
*
10643742 ATAAGACCTTCG
1 ATAAGTCCTTCG
10643754 GTAGGATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (20 bp):
ATAAGTCCTTCGTGCCATCC
Found at i:10644097 original size:216 final size:215
Alignment explanation
Indices: 10643722--10644131 Score: 649
Period size: 216 Copynumber: 1.9 Consensus size: 215
10643712 CGTGTCATCC
* * *
10643722 ATAAGTCCTTCGTGCCATCCATAAGACCTTCGGTAGGATGTTTTCACATGAATTTGAGAAATAAG
1 ATAAGTCATTCGTGCCATCCATAAGACCTTCGGTAGGATGTTTTCACATGAAGTTGAAAAATAAG
* * * * *
10643787 AAAGTGATGTTTTAAGAAAATGAAATTTTTTAGAAGTAAGAAGGTGATTTCCAAAATTTCGCACT
66 AAAATAATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGAAGGCGATTTCCAAAATTTCGCACT
* * *
10643852 ATATAAGTCCTTCGGGCCATCATTAAGTCTTTCGAGCATGATGAGTAAATCCTTTGGGTAATTTG
131 ATATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATAAGTAAATCCTTCGGGTAATTTG
10643917 CAAGTCTTTAGAGCAAGATG
196 CAAGTCTTTAGAGCAAGATG
* *
10643937 ATAAGTCATTCGTGCCATCCATGAGACCTTCGGGTAGGATGTTTTCACATGAAGTTGAAAAATGA
1 ATAAGTCATTCGTGCCATCCATAAGACCTTC-GGTAGGATGTTTTCACATGAAGTTGAAAAATAA
* * * *
10644002 GAAAATAATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGACGGCGATTTCTAATATTTTGCAC
65 GAAAATAATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGAAGGCGATTTCCAAAATTTCGCAC
*
10644067 TATATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTT
130 TATATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATAAGTAAATCCTTCGGGTAATTT
10644132 ATAAGCCTTC
Statistics
Matches: 176, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
215 29 0.16
216 147 0.84
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (215 bp):
ATAAGTCATTCGTGCCATCCATAAGACCTTCGGTAGGATGTTTTCACATGAAGTTGAAAAATAAG
AAAATAATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGAAGGCGATTTCCAAAATTTCGCACT
ATATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATAAGTAAATCCTTCGGGTAATTTG
CAAGTCTTTAGAGCAAGATG
Found at i:10644271 original size:42 final size:42
Alignment explanation
Indices: 10644179--10644436 Score: 173
Period size: 42 Copynumber: 6.0 Consensus size: 42
10644169 AGTAAGCGCC
* * *
10644179 ATCAGTAAGTCTTTCGAGCATGATGAGGAAGTCCTTTGGGCC
1 ATCAGTAAGTCTTTCGAGCATGATGAGGAAATCCTTCGGGCA
** *
10644221 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTA
1 ATCAGTAAGTCTTTCGAGCATGATGAGGAAATCCTTCGGGCA
** * * * * *
10644263 ATTTGTAAGCCTTCACCGAAG-A-GTAGTGAAGCAAATCCATCAGTAAGTGCC
1 ATCAGTAAGTCTT--TCG-AGCATG-A-TG-AGGAAATCCTTC-G---G-GCA
* * * *
10644314 ATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTTGGGCC
1 ATCAGTAAGTCTTTCGAGCATGATGAGGAAATCCTTCGGGCA
* * *
10644356 ATTAGTAAGTCTTTCGAGCATAATGATGAAATCCTTCGGGTC-
1 ATCAGTAAGTCTTTCGAGCATGATGAGGAAATCCTTCGGG-CA
** *
10644398 ATTTGTAAGTCTTTCGAGCATGATGA-TAAATCCTTCGGG
1 ATCAGTAAGTCTTTCGAGCATGATGAGGAAATCCTTCGGG
10644437 TCATCCATAA
Statistics
Matches: 171, Mismatches: 31, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
41 12 0.07
42 109 0.64
43 3 0.02
44 4 0.02
45 4 0.02
46 10 0.06
47 9 0.05
48 4 0.02
49 4 0.02
50 2 0.01
51 10 0.06
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (42 bp):
ATCAGTAAGTCTTTCGAGCATGATGAGGAAATCCTTCGGGCA
Found at i:10644272 original size:135 final size:135
Alignment explanation
Indices: 10644072--10644406 Score: 562
Period size: 135 Copynumber: 2.5 Consensus size: 135
10644062 TGCACTATAT
* * * *
10644072 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTATAAG
1 AAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
*
10644137 CCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCGCCATCAGTAAGTCTTTCGAGCATGA
66 CCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCGCCATCAATAAGTCTTTCGAGCATGA
10644202 TGAGG
131 TGAGG
10644207 AAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
1 AAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
*
10644272 CCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGTGCCATCAATAAGTCTTTCGAGCATGA
66 CCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCGCCATCAATAAGTCTTTCGAGCATGA
*
10644337 TGATG
131 TGAGG
* * * * *
10644342 AAATCCTTTGGGCCATTAGTAAGTCTTTCGAGCATAATGATGAAATCCTTCGGGTCATTTGTAAG
1 AAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
10644407 TCTTTCGAGC
Statistics
Matches: 188, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
135 188 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (135 bp):
AAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
CCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCGCCATCAATAAGTCTTTCGAGCATGA
TGAGG
Found at i:10648457 original size:21 final size:22
Alignment explanation
Indices: 10648420--10648464 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
10648410 AACAACAACA
10648420 ACAATTGTGATAATTAATTTTG
1 ACAATTGTGATAATTAATTTTG
*
10648442 ACAATT-TGATACTTAATTTTG
1 ACAATTGTGATAATTAATTTTG
10648463 AC
1 AC
10648465 TTGATATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (22 bp):
ACAATTGTGATAATTAATTTTG
Found at i:10649652 original size:19 final size:19
Alignment explanation
Indices: 10649630--10649697 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
10649620 GAATATTAAG
10649630 TTAAAATTAAGTATCAAAA
1 TTAAAATTAAGTATCAAAA
* * * *
10649649 TTAACATCAATTATCAATA
1 TTAAAATTAAGTATCAAAA
*
10649668 TTAAAATTTTAGTTATCAAAA
1 TTAAAA-TTAAG-TATCAAAA
*
10649689 TTAATATTA
1 TTAAAATTA
10649698 TCATGATTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
19 20 0.56
20 4 0.11
21 12 0.33
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (19 bp):
TTAAAATTAAGTATCAAAA
Found at i:10651043 original size:348 final size:348
Alignment explanation
Indices: 10650537--10651170 Score: 979
Period size: 348 Copynumber: 1.8 Consensus size: 348
10650527 ATTTAAAATT
****** *
10650537 TTCTCTCTCATTGAGTTTTGAAGAGAAAAAATAATGTTAATTTTTTTTTTCATTGCTATGAAAAA
1 TTCTCTCTCATTGAGTTTTGAAGAGAAAAAATAATGTTAATAAAAACTTTCATTGATATGAAAAA
* * *
10650602 TTAGAAAGAGATTTGGTGAATTGATGTGGCAATTTCGAAAGACCAAAATTAAAGAAATTCAATTG
66 TCAGAAAGAGATTTGATGAATTGATGTGACAATTTCGAAAGACCAAAATTAAAGAAATTC-A---
*
10650667 ATTTTTTTTTTTTAATTTTGAGAAATAAATATTGAAGTAGAGCTTCATGGGAAGGTGAACAATTA
127 A-TTTTTTTTTGTAATTTTGAGAAATAAATATTGAAGTAGAGCTTCATGGGAAGGTGAACAATTA
10650732 TTAACGTTAACATAAAAATTTAATGATAACACTTGACA-TTTTATAAACTCAGCCTAATTATTTT
191 TTAACGTTAACATAAAAATTTAATGATAACACTTGACATTTTTATAAACTCAGCCTAATTA-TTT
10650796 TATTTTACAA-TTTTTAAAATTTATTATTAAAACTTAAAAAAATATTATATTAACTTTTTTAAAT
255 TATTTTACAATTTTTTAAAATTTATTATTAAAACTTAAAAAAATATTATATTAACTTTTTTAAAT
10650860 TTATAGGCCCTGGACGAGCGCCTCTCTTG
320 TTATAGGCCCTGGACGAGCGCCTCTCTTG
10650889 TTCTCTCTCATTGAGTTTTGAAGAGAAAAAAATAATGTTAATAAAAAACTTTCATTGATATGAAA
1 TTCTCTCTCATTGAGTTTTGAAGAG-AAAAAATAATGTTAAT-AAAAACTTTCATTGATATGAAA
* * *
10650954 AATCATAAAGAGATTTGATGAGTTGATGATGACAATTTCTAAAGACCAAAATTAAAGAAATTC-A
64 AATCAGAAAGAGATTTGATGAATTGATG-TGACAATTTCGAAAGACCAAAATTAAAGAAATTCAA
* * * *
10651018 -TTTTTTTTGTAATTTTGGGAAATAAATATTGAATTAGATCTTCATGGGAAGTTGAACAATTATT
128 TTTTTTTTTGTAATTTTGAGAAATAAATATTGAAGTAGAGCTTCATGGGAAGGTGAACAATTATT
* *
10651082 AACGTTAACATAAAAATTTAATGATAACACTTGACATTTTTATAAACTCAGTCTCATTATTTTAT
193 AACGTTAACATAAAAATTTAATGATAACACTTGACATTTTTATAAACTCAGCCTAATTATTTTAT
10651147 TTTACAATTTTTTAAAATTTATTA
258 TTTACAATTTTTTAAAATTTATTA
10651171 AAAAATATTA
Statistics
Matches: 257, Mismatches: 20, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
348 108 0.42
349 36 0.14
350 1 0.00
352 25 0.10
353 16 0.06
354 39 0.15
355 32 0.12
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (348 bp):
TTCTCTCTCATTGAGTTTTGAAGAGAAAAAATAATGTTAATAAAAACTTTCATTGATATGAAAAA
TCAGAAAGAGATTTGATGAATTGATGTGACAATTTCGAAAGACCAAAATTAAAGAAATTCAATTT
TTTTTTGTAATTTTGAGAAATAAATATTGAAGTAGAGCTTCATGGGAAGGTGAACAATTATTAAC
GTTAACATAAAAATTTAATGATAACACTTGACATTTTTATAAACTCAGCCTAATTATTTTATTTT
ACAATTTTTTAAAATTTATTATTAAAACTTAAAAAAATATTATATTAACTTTTTTAAATTTATAG
GCCCTGGACGAGCGCCTCTCTTG
Found at i:10652063 original size:21 final size:20
Alignment explanation
Indices: 10651979--10652110 Score: 81
Period size: 20 Copynumber: 6.5 Consensus size: 20
10651969 AAATTTTACG
*
10651979 AATTCGCAACACAGAA-GTCA
1 AATTCGCAACAC-GAATTTCA
**
10651999 AATTCGCAACGTG-ATTTACA
1 AATTCGCAACACGAATTT-CA
****
10652019 AATTCGCGTTGCG-ATTTACA
1 AATTCGCAACACGAATTT-CA
10652039 AATTCGCAACACTGAATTTCA
1 AATTCGCAACAC-GAATTTCA
* * * **
10652060 AATTTGCAACTCGATTTTTG
1 AATTCGCAACACGAATTTCA
*
10652080 AATTCGCAACACGAATTTTA
1 AATTCGCAACACGAATTTCA
*
10652100 ATTTCGCAACA
1 AATTCGCAACA
10652111 GGTTTTATTT
Statistics
Matches: 87, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 67 0.77
21 13 0.15
22 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
AATTCGCAACACGAATTTCA
Found at i:10652918 original size:12 final size:12
Alignment explanation
Indices: 10652897--10652930 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10652887 ACCACATTTC
*
10652897 CAATACCAAACA
1 CAATATCAAACA
10652909 CAATATCAAACA
1 CAATATCAAACA
*
10652921 CAATCTCAAA
1 CAATATCAAA
10652931 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:10653109 original size:24 final size:24
Alignment explanation
Indices: 10653051--10653097 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
10653041 AGTCAGTATT
*
10653051 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
10653075 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
10653098 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:10655861 original size:18 final size:18
Alignment explanation
Indices: 10655840--10655876 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10655830 GTAATTGGAG
10655840 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
10655858 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
10655876 T
1 T
10655877 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:10655883 original size:24 final size:24
Alignment explanation
Indices: 10655832--10655884 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
10655822 TTTCATATGT
* * *
10655832 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
10655856 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
10655880 AATTT
1 AATTT
10655885 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:10657066 original size:18 final size:18
Alignment explanation
Indices: 10657043--10657078 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10657033 AAGCAAAAGG
*
10657043 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
10657061 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
10657079 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:10657390 original size:19 final size:20
Alignment explanation
Indices: 10657337--10657400 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
10657327 AAATCACAAC
* *
10657337 GCGAATTCGACTTTCGCTTT
1 GCGAATTTGACTTTCGCATT
*
10657357 GTGAATTTGACTTTCGCATT
1 GCGAATTTGACTTTCGCATT
*
10657377 GCGAATTT-ACTTTCGCGTT
1 GCGAATTTGACTTTCGCATT
10657396 GCGAA
1 GCGAA
10657401 AGTGTACCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 15 0.38
20 24 0.62
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCATT
Found at i:10657560 original size:64 final size:64
Alignment explanation
Indices: 10657459--10657607 Score: 235
Period size: 64 Copynumber: 2.3 Consensus size: 64
10657449 AATTTAAAAC
*
10657459 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAGTAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
* *** * *
10657523 AACAAATCAACTTTTACAAATCAATTAAATAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
10657587 AACAAATCAACTTTTACAAAT
1 AACAAATCAACTTTTACAAAT
10657608 ACATCAATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
Found at i:10658273 original size:21 final size:21
Alignment explanation
Indices: 10658249--10658335 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
10658239 GAACGGTGGG
* *
10658249 AGGGACCTCTTGAATGATGAC
1 AGGGGCCTCTTGAACGATGAC
* **
10658270 AGGGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAC
*
10658291 AGGGGCCTCTTGAACGAT-AGG
1 AGGGGCCTCTTGAACGATGA-C
*
10658312 AGAGGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
10658333 AGG
1 AGG
10658336 TGAATCGGGC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 53 0.98
22 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.37, T:0.20
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:10658300 original size:42 final size:42
Alignment explanation
Indices: 10658234--10658327 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
10658224 GTGAATCGGG
* * *
10658234 CTCTCGAACGGTGGGAGGGACCTCTTGAATGAT-GACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATAG-CAGAGGC
* *
10658276 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATAGCAGAGGC
10658318 CTCTTGAACG
1 CTCTTGAACG
10658328 ATGACAGGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.37, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATAGCAGAGGC
Found at i:10658675 original size:21 final size:21
Alignment explanation
Indices: 10658598--10658694 Score: 56
Period size: 21 Copynumber: 4.6 Consensus size: 21
10658588 CGTAGACCGA
* *
10658598 CTACCTCATCACGTAAAGTA-G
1 CTACCTCACCACGTAAAG-ACC
*
10658619 ATACCTCACCACGTAAAGCACC
1 CTACCTCACCACGTAAAG-ACC
* ** * *
10658641 AT-TGTCATCGCGTAAA-ACC
1 CTACCTCACCACGTAAAGACC
10658660 TCTACCTCACCACGTAAAGACC
1 -CTACCTCACCACGTAAAGACC
* *
10658682 GTACCTCATCACG
1 CTACCTCACCACG
10658695 CCATGCATCA
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
19 3 0.05
20 1 0.02
21 48 0.84
22 5 0.09
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (21 bp):
CTACCTCACCACGTAAAGACC
Found at i:10660456 original size:19 final size:19
Alignment explanation
Indices: 10660419--10660499 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
10660409 TCTGAAACTT
10660419 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCG-AAATA
* *
10660439 AAAATAGCAACGCGAAATG
1 AAAATCGCAACGCGAAATA
*
10660458 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATA
*
10660477 AAAACCGCAACGCGAAACTA
1 AAAATCGCAACGCGAAA-TA
10660497 AAA
1 AAA
10660500 TCACGTTGCG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 38 0.69
20 17 0.31
ACGTcount: A:0.53, C:0.21, G:0.17, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:10660473 original size:39 final size:38
Alignment explanation
Indices: 10660412--10660501 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
10660402 ATTAGTTTCT
*
10660412 GAAACTTAAAATCGCAACGCGAAAATAAAAATAGCAACGC
1 GAAAC-TAAAATCGCAACGCG-AAATAAAAACAGCAACGC
* *
10660452 GAAA-TGAAAATCGCAACGCGAAATGAAAACCGCAACGC
1 GAAACT-AAAATCGCAACGCGAAATAAAAACAGCAACGC
10660490 GAAACTAAAATC
1 GAAACTAAAATC
10660502 ACGTTGCGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
38 26 0.58
39 15 0.33
40 4 0.09
ACGTcount: A:0.51, C:0.21, G:0.17, T:0.11
Consensus pattern (38 bp):
GAAACTAAAATCGCAACGCGAAATAAAAACAGCAACGC
Found at i:10660529 original size:20 final size:20
Alignment explanation
Indices: 10660504--10660562 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
10660494 CTAAAATCAC
*
10660504 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCAT
*
10660524 GTTGCGATTTTCATCTTCAT
1 GTTGCGATTTTCATTTTCAT
10660544 GTTGCGATTTTCATTTTCA
1 GTTGCGATTTTCATTTTCA
10660563 AATAGTCTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.53
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:10661146 original size:20 final size:20
Alignment explanation
Indices: 10661123--10661222 Score: 164
Period size: 20 Copynumber: 5.0 Consensus size: 20
10661113 TGACTTCTGT
*
10661123 GTTGCGAATTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
10661143 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
10661163 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
* *
10661183 GTTGTGATTTAAAGATTCGC
1 GTTGCGATTTACAGATTCGC
10661203 GTTGCGATTTTACAGATTCG
1 GTTGCGA-TTTACAGATTCG
10661223 TGTTTCGAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
20 63 0.85
21 11 0.15
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:10661167 original size:40 final size:39
Alignment explanation
Indices: 10661123--10661253 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
10661113 TGACTTCTGT
10661123 GTTGCGAATTACAGATTCGCGTTGCGATTTACAGATTCGC
1 GTTGCGAATTACAGATTCGCGTTGCGATTTA-AGATTCGC
* *
10661163 GTTGCGATTTACAGATTCGCGTTGTGATTTAAAGATTCGC
1 GTTGCGAATTACAGATTCGCGTTGCGATTT-AAGATTCGC
* * * *
10661203 GTTGCGATTTTACAGATTCGTGTTTCGAATTTGAAGA-TCGT
1 GTTGCGA-ATTACAGATTCGCGTTGCG-ATTT-AAGATTCGC
10661244 GTTGCGAATT
1 GTTGCGAATT
10661254 TGGAAAATCG
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
40 45 0.56
41 27 0.34
42 8 0.10
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.37
Consensus pattern (39 bp):
GTTGCGAATTACAGATTCGCGTTGCGATTTAAGATTCGC
Found at i:10661240 original size:21 final size:21
Alignment explanation
Indices: 10661121--10661255 Score: 99
Period size: 20 Copynumber: 6.7 Consensus size: 21
10661111 TTTGACTTCT
10661121 GTGTTGCGAA-TT-ACAGATTC
1 GTGTTGCGAATTTGA-AGATTC
*
10661141 GCGTTGCG-ATTT-ACAGATTC
1 GTGTTGCGAATTTGA-AGATTC
*
10661161 GCGTTGCG-ATTT-ACAGATTC
1 GTGTTGCGAATTTGA-AGATTC
* * *
10661181 GCGTTGTG-ATTTAAAGATTC
1 GTGTTGCGAATTTGAAGATTC
* *
10661201 GCGTTGCG-ATTTTACAGATTC
1 GTGTTGCGAATTTGA-AGATTC
*
10661222 GTGTTTCGAATTTGAAGA-TC
1 GTGTTGCGAATTTGAAGATTC
10661242 GTGTTGCGAATTTG
1 GTGTTGCGAATTTG
10661256 GAAAATCGCA
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.01
20 81 0.79
21 16 0.16
22 5 0.05
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (21 bp):
GTGTTGCGAATTTGAAGATTC
Found at i:10661271 original size:21 final size:21
Alignment explanation
Indices: 10661247--10661292 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10661237 AGATCGTGTT
**
10661247 GCGAATTTGGAAAATCGCAAC
1 GCGAATTCAGAAAATCGCAAC
* *
10661268 GCGAATTCATAAAATCGCAAT
1 GCGAATTCAGAAAATCGCAAC
10661289 GCGA
1 GCGA
10661293 TTTACATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (21 bp):
GCGAATTCAGAAAATCGCAAC
Found at i:10662158 original size:18 final size:18
Alignment explanation
Indices: 10662131--10662165 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10662121 ATTTATAAAG
10662131 TTATAATTTTAAAAATAT
1 TTATAATTTTAAAAATAT
*
10662149 TTATATTTTTAAAAATA
1 TTATAATTTTAAAAATA
10662166 AATTATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATAATTTTAAAAATAT
Found at i:10675168 original size:14 final size:16
Alignment explanation
Indices: 10675149--10675186 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
10675139 AATAAGTATT
10675149 TTCTTATTT-ATT-TA
1 TTCTTATTTAATTATA
10675163 TTCTTATTTAATTATA
1 TTCTTATTTAATTATA
10675179 TT-TTATTT
1 TTCTTATTT
10675187 TGAATTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.41
15 9 0.41
16 4 0.18
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTATTTAATTATA
Found at i:10675702 original size:104 final size:104
Alignment explanation
Indices: 10675522--10675729 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
10675512 CTTCATTTGA
10675522 GAAGAGAGATGACCCTACAACAACAAGGAAAAGTCTCAATAATTGAGCCAACTGACAACCCTAAT
1 GAAGAGAGATGACCCTACAACAACAAGGAAAAGTCTCAATAATTGAGCCAACTGACAACCCTAAT
10675587 GCCAAGACAAAATGAGCACAATCAAAGGATACTCTTGGT
66 GCCAAGACAAAATGAGCACAATCAAAGGATACTCTTGGT
10675626 GAAGAGAGATGACCCTACAACAACAAGGAAAAGTCTCAATAATTGAGCCAACTGACAACCCTAAT
1 GAAGAGAGATGACCCTACAACAACAAGGAAAAGTCTCAATAATTGAGCCAACTGACAACCCTAAT
10675691 GCCAAGACAAAATGAGCACAATCAAAGGATACTCTTGGT
66 GCCAAGACAAAATGAGCACAATCAAAGGATACTCTTGGT
10675730 TTGATGGAGA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.16
Consensus pattern (104 bp):
GAAGAGAGATGACCCTACAACAACAAGGAAAAGTCTCAATAATTGAGCCAACTGACAACCCTAAT
GCCAAGACAAAATGAGCACAATCAAAGGATACTCTTGGT
Found at i:10679840 original size:77 final size:79
Alignment explanation
Indices: 10679700--10679848 Score: 196
Period size: 77 Copynumber: 1.9 Consensus size: 79
10679690 ATATAGTAAG
**
10679700 TAAACATTAAAAGAATGTAATTTTGATTACAACTCTTTTAATTGATATTTAATTCGAAATAATTA
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTGATATTTAATTCGAAATAATTA
10679765 AATAAGATTTTAAA
66 AATAAGATTTTAAA
* * * * * *
10679779 TAAACATT-AAATATTGTAATTCAGATTATAAGTC-TTTAA-TGTATATTTAATTTGAATTAATT
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTG-ATATTTAATTCGAAATAATT
10679841 AAATAAGA
65 AAATAAGA
10679849 AATTTATTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
76 2 0.03
77 31 0.51
78 20 0.33
79 8 0.13
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTGATATTTAATTCGAAATAATTA
AATAAGATTTTAAA
Found at i:10693064 original size:13 final size:13
Alignment explanation
Indices: 10693046--10693070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10693036 ACTATGTCCA
10693046 AGTTGACTCAGCG
1 AGTTGACTCAGCG
10693059 AGTTGACTCAGC
1 AGTTGACTCAGC
10693071 TTGAACTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (13 bp):
AGTTGACTCAGCG
Found at i:10697319 original size:50 final size:50
Alignment explanation
Indices: 10697255--10697439 Score: 282
Period size: 50 Copynumber: 3.7 Consensus size: 50
10697245 TTTAACAATT
*
10697255 AACACATACTTACACCGGTGTAAGTATGTACATCTCTCATCCTAAAAATA
1 AACACATACTTACACCGGTGTAAGTATGTACATCTCTCAACCTAAAAATA
* * * *
10697305 AACATATACTTACACTGGTGTAAGTATGTACATCTCCCAACTTAAAAATA
1 AACACATACTTACACCGGTGTAAGTATGTACATCTCTCAACCTAAAAATA
* * * *
10697355 AATACATACTTACACCGATGTAAGTATCTACATCTCTCAACCTATAAATA
1 AACACATACTTACACCGGTGTAAGTATGTACATCTCTCAACCTAAAAATA
10697405 AACACATACTTACA-CGGTGTAAGTATGTACATCTC
1 AACACATACTTACACCGGTGTAAGTATGTACATCTC
10697440 CCAATATTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
49 19 0.16
50 100 0.84
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (50 bp):
AACACATACTTACACCGGTGTAAGTATGTACATCTCTCAACCTAAAAATA
Found at i:10697388 original size:100 final size:99
Alignment explanation
Indices: 10697258--10697443 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 99
10697248 AACAATTAAC
* * * *
10697258 ACATACTTACACCGGTGTAAGTATGTACATCTCTCATCCTAAAAATAAACATATACTTACACTGG
1 ACATACTTACACCGATGTAAGTATCTACATCTCTCAACCTAAAAATAAACACATACTTACAC-GG
10697323 TGTAAGTATGTACATCTCCCAACTTAAAAATAAAT
65 TGTAAGTATGTACATCTCCCAACTTAAAAATAAAT
*
10697358 ACATACTTACACCGATGTAAGTATCTACATCTCTCAACCTATAAATAAACACATACTTACACGGT
1 ACATACTTACACCGATGTAAGTATCTACATCTCTCAACCTAAAAATAAACACATACTTACACGGT
10697423 GTAAGTATGTACATCTCCCAA
66 GTAAGTATGTACATCTCCCAA
10697444 TATTTTTGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 24 0.30
100 57 0.70
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (99 bp):
ACATACTTACACCGATGTAAGTATCTACATCTCTCAACCTAAAAATAAACACATACTTACACGGT
GTAAGTATGTACATCTCCCAACTTAAAAATAAAT
Found at i:10698614 original size:20 final size:20
Alignment explanation
Indices: 10698579--10698627 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
10698569 AATTAATAAA
10698579 TTAAAAATACTTAG-AAAAC
1 TTAAAAATACTTAGAAAAAC
10698598 TTAAAAATA-TTAAAGAAAAAC
1 TTAAAAATACTT--AGAAAAAC
*
10698619 TAAAAAATA
1 TTAAAAATA
10698628 ATAATTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 9 0.35
20 2 0.08
21 13 0.50
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (20 bp):
TTAAAAATACTTAGAAAAAC
Found at i:10701917 original size:253 final size:251
Alignment explanation
Indices: 10701469--10701970 Score: 797
Period size: 253 Copynumber: 2.0 Consensus size: 251
10701459 CTTGATTTAT
* * * *
10701469 AATATTCTAAAGAATGTTACCTACGTCAAACTTTAAGCAAAACCTTTGACAAGCGTAGAACTACT
1 AATATTCTAAAGAATGTTACCTACATCAAACCTTAAACAAAACCTTCGACAAGCGTAGAACTACT
* * *
10701534 GAGTCTCATTCTGGTAGTTCTATTACAGAATATTCAAAACGTATCACAAGGGAAACGTTACACCG
66 AAGTCTCATTCTGGTAGTTCTATTACAGAATATTCAAAACATATCACAAGGGAAACGTTACACCA
*
10701599 TGATTACAACTGCTACCATAAAACCCTTTTTATTATCTAACTCGACAGAATAGATACTTTGACGG
131 TGATTACAACTGCTACCATAAAACCCTTTTTATTATCTAACTCAACAGAATAGATACTTTGACGG
** * *
10701664 TTTGAAATCTATAAGTCTCTCTTATTGAACATAGGTAACTCGCCATACTACACGTTAC
196 TTCAAAATCTATAA--ATCTCTTATTGAACATAGGTAACTCACCATACTACACGTTAC
*
10701722 AATATTCTAAAGAATGTTACCTACATCAAACCTTAAACAAAACCTTCGACAAGCGTAGAATTACT
1 AATATTCTAAAGAATGTTACCTACATCAAACCTTAAACAAAACCTTCGACAAGCGTAGAACTACT
* *** *
10701787 AAGTCTCATTCTGGTCGTTCTATTACAGAATATTTGGAACATATCACAAGGGCAACGTTACACCA
66 AAGTCTCATTCTGGTAGTTCTATTACAGAATATTCAAAACATATCACAAGGGAAACGTTACACCA
* * *
10701852 TGATTACAATTGCTACCATAAACCCCTTTTTATTATCTAACTCAACAGAATCGATACTTTGACGG
131 TGATTACAACTGCTACCATAAAACCCTTTTTATTATCTAACTCAACAGAATAGATACTTTGACGG
10701917 TTCAAAATCTATAAATCTCTTATTGAACATAGGTAACTCACCATACTACACGTT
196 TTCAAAATCTATAAATCTCTTATTGAACATAGGTAACTCACCATACTACACGTT
10701971 GAGATCTTAC
Statistics
Matches: 228, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
251 38 0.17
253 190 0.83
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (251 bp):
AATATTCTAAAGAATGTTACCTACATCAAACCTTAAACAAAACCTTCGACAAGCGTAGAACTACT
AAGTCTCATTCTGGTAGTTCTATTACAGAATATTCAAAACATATCACAAGGGAAACGTTACACCA
TGATTACAACTGCTACCATAAAACCCTTTTTATTATCTAACTCAACAGAATAGATACTTTGACGG
TTCAAAATCTATAAATCTCTTATTGAACATAGGTAACTCACCATACTACACGTTAC
Found at i:10703718 original size:160 final size:162
Alignment explanation
Indices: 10703424--10703721 Score: 417
Period size: 162 Copynumber: 1.9 Consensus size: 162
10703414 TTTTTTCAGC
* * * * *
10703424 ACAAGATGTTCTAAGGATCTACCTTTAAAAAACATTATTAGAGAGTCTCAATCATATCTTTTGAT
1 ACAAGATGTTCTAACGATCCACCTTTAAAAAACATTATTAGACAGTCTCAAGCATATCTCTTGAT
* * *
10703489 GACACTTTCTACAATGCTTACACTCTAGATACATCAAAACTCTATTGTAACCATTTACACTTGTC
66 GACACTTTCTACAATGCTTACACTCTAGATACATCAAAACTCCATAGTAACCATTTACACTTATC
10703554 ATAGACCATTTTTTAGTTTAAGGTAGTCTCTT
131 ATAGACCATTTTTTAGTTTAAGGTAGTCTCTT
* *
10703586 ACAAGATGTTCTAACTATCCATCTTTAAAAAAC-TTCATTAGACAGTCTCAAGCATATCTCTTGA
1 ACAAGATGTTCTAACGATCCACCTTTAAAAAACATT-ATTAGACAGTCTCAAGCATATCTCTTGA
* * *
10703650 T-ACCAC-TT-TACAATGCTTACACTCTGGATACATTAGAACTCCATCAG-AACCATTTACACTT
65 TGA-CACTTTCTACAATGCTTACACTCTAGATACATCAAAACTCCAT-AGTAACCATTTACACTT
10703711 ATCATAGACCA
128 ATCATAGACCA
10703722 ATATGCTAAC
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
160 56 0.47
161 6 0.05
162 58 0.48
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (162 bp):
ACAAGATGTTCTAACGATCCACCTTTAAAAAACATTATTAGACAGTCTCAAGCATATCTCTTGAT
GACACTTTCTACAATGCTTACACTCTAGATACATCAAAACTCCATAGTAACCATTTACACTTATC
ATAGACCATTTTTTAGTTTAAGGTAGTCTCTT
Found at i:10707911 original size:21 final size:20
Alignment explanation
Indices: 10707885--10707923 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10707875 CAAGGTTGTA
*
10707885 GTATCGATAGTCCTCCTTAGC
1 GTATCGATACTCC-CCTTAGC
10707906 GTATCGATACTCCCCTTA
1 GTATCGATACTCCCCTTA
10707924 TAAAATACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (20 bp):
GTATCGATACTCCCCTTAGC
Found at i:10709776 original size:16 final size:17
Alignment explanation
Indices: 10709745--10709777 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10709735 TTAATTACAA
10709745 ATAATCAATAAAAATTC
1 ATAATCAATAAAAATTC
*
10709762 ATAAT-AATCAAAATTC
1 ATAATCAATAAAAATTC
10709778 CTGAATGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAATCAATAAAAATTC
Found at i:10712471 original size:72 final size:72
Alignment explanation
Indices: 10712354--10712498 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
10712344 ACTTCAAGCA
10712354 AAATAGTCTTCAAATCAACGTGCATCTTTTAAGTTGAAGATATAATAACTTTTAAGGGAATGGTT
1 AAATAGTCTTCAAATCAACGTGCATCTTTTAAGTTGAAGATATAATAACTTTTAAGGGAATGGTT
10712419 GATTGTC
66 GATTGTC
10712426 AAATAGTCTTCAAATCAACGTGCATCTTTTAAGTTGAAGATATAATAACTTTTAAGGGAATGGTT
1 AAATAGTCTTCAAATCAACGTGCATCTTTTAAGTTGAAGATATAATAACTTTTAAGGGAATGGTT
10712491 GATTGTC
66 GATTGTC
10712498 A
1 A
10712499 CTTCCAATTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (72 bp):
AAATAGTCTTCAAATCAACGTGCATCTTTTAAGTTGAAGATATAATAACTTTTAAGGGAATGGTT
GATTGTC
Found at i:10717016 original size:21 final size:20
Alignment explanation
Indices: 10716990--10717032 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
10716980 AAAGTAAATA
10716990 AATAATAAAAAACAAATAATG
1 AATAATAAAAAA-AAATAATG
*
10717011 AATAATGAATAAAAAATAATG
1 AATAAT-AAAAAAAAATAATG
10717032 A
1 A
10717033 GAAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (20 bp):
AATAATAAAAAAAAATAATG
Found at i:10723027 original size:19 final size:19
Alignment explanation
Indices: 10723003--10723042 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10722993 TATAACTGAG
10723003 CTTCCATCCACTCTTCATT
1 CTTCCATCCACTCTTCATT
10723022 CTTCCATCCACTCTTCATT
1 CTTCCATCCACTCTTCATT
10723041 CT
1 CT
10723043 CTCAAGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (19 bp):
CTTCCATCCACTCTTCATT
Found at i:10731574 original size:29 final size:29
Alignment explanation
Indices: 10731499--10731580 Score: 130
Period size: 28 Copynumber: 2.8 Consensus size: 29
10731489 CTCACCTAAC
10731499 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
10731529 T-AATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
10731557 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
10731581 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
28 25 0.52
29 22 0.46
30 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:10736273 original size:29 final size:29
Alignment explanation
Indices: 10736230--10736312 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
10736220 CTCACCTAAC
10736230 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
10736260 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
10736289 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
10736313 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:10739983 original size:6 final size:6
Alignment explanation
Indices: 10739969--10739999 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10739959 ATTCATGAAG
*
10739969 AGAGTA AGAGAA AGAGAA AGAGAA AGAGAA A
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA A
10740000 TAAGTACGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (6 bp):
AGAGAA
Found at i:10742143 original size:19 final size:16
Alignment explanation
Indices: 10742089--10742131 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
10742079 GGTAATCGTT
*
10742089 TTTCTTGCA-TTTTACA
1 TTTCTT-CATTTTTTCA
10742105 TTTCTTCATTTTTTCA
1 TTTCTTCATTTTTTCA
10742121 TTTCTTTCATT
1 TTTC-TTCATT
10742132 CGTTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 2 0.08
16 16 0.67
17 6 0.25
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTCTTCATTTTTTCA
Found at i:10743970 original size:23 final size:23
Alignment explanation
Indices: 10743952--10744012 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
10743942 CTCGTATAAA
10743952 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
10743975 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
10743998 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
10744013 TATAAAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:10750048 original size:12 final size:12
Alignment explanation
Indices: 10750031--10750062 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
10750021 TCTCACAGCT
10750031 TACACCACCTGA
1 TACACCACCTGA
10750043 TACACCACCTGA
1 TACACCACCTGA
10750055 TACACCAC
1 TACACCAC
10750063 AGTGGAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.44, G:0.06, T:0.16
Consensus pattern (12 bp):
TACACCACCTGA
Found at i:10757618 original size:23 final size:23
Alignment explanation
Indices: 10757592--10757675 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
10757582 CTCGTATAAA
10757592 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
10757615 TGCACCGAAGTTCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
***
10757638 TGCACCGAAGTGCGGTGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
10757661 TACACCGAAGTGCCA
1 TGCACCGAAGTGCCA
10757676 TATAAAATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:10758169 original size:23 final size:22
Alignment explanation
Indices: 10758143--10758188 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
10758133 ATCACATTTT
10758143 ATAACGTATACT-ATATACATATA
1 ATAACGTAT-CTCATAT-CATATA
*
10758166 ATAACTTATCTCATATCATATA
1 ATAACGTATCTCATATCATATA
10758188 A
1 A
10758189 CTTATAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAACGTATCTCATATCATATA
Found at i:10762365 original size:19 final size:19
Alignment explanation
Indices: 10762341--10762383 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10762331 AAGAAAAGAA
*
10762341 AAAAAGCAAAATGAAT-AAG
1 AAAAAGCAAAA-AAATAAAG
*
10762360 AAAAAGGAAAAAAATAAAG
1 AAAAAGCAAAAAAATAAAG
10762379 AAAAA
1 AAAAA
10762384 AATTAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (19 bp):
AAAAAGCAAAAAAATAAAG
Found at i:10763123 original size:7 final size:7
Alignment explanation
Indices: 10763113--10763145 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10763103 AAAAAAAAAA
10763113 AAAGAAG
1 AAAGAAG
10763120 AAAGAAG
1 AAAGAAG
10763127 AAAGAAG
1 AAAGAAG
10763134 AAAGAAG
1 AAAGAAG
10763141 AAAGA
1 AAAGA
10763146 GTAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:10768429 original size:21 final size:21
Alignment explanation
Indices: 10768395--10768506 Score: 116
Period size: 21 Copynumber: 5.3 Consensus size: 21
10768385 TATAAGGTTT
*
10768395 TTCGGGACATATATTTGGTCA
1 TTCGGGACATATATGTGGTCA
* * * * *
10768416 TTTGGAATATATATATGGTCC
1 TTCGGGACATATATGTGGTCA
* *
10768437 TTCGGGATATATATGTGGTTA
1 TTCGGGACATATATGTGGTCA
*
10768458 TTCGGGACATATATGTGGTTA
1 TTCGGGACATATATGTGGTCA
* * *
10768479 TTTGGGACATATATGAGGTCC
1 TTCGGGACATATATGTGGTCA
10768500 TTCGGGA
1 TTCGGGA
10768507 TAAATTTTAT
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (21 bp):
TTCGGGACATATATGTGGTCA
Found at i:10768441 original size:42 final size:42
Alignment explanation
Indices: 10768343--10768504 Score: 126
Period size: 42 Copynumber: 3.9 Consensus size: 42
10768333 TTGAGGGTTT
** * * * * *
10768343 TATATGGTCATTCAAGACATATATGTGATCCTTTGAAACATG
1 TATATGGTCATTCGGGACATATATGTGGTCATTCGGAACATA
* ** * * *
10768385 TATAAGGTTTTTCGGGACATATATTTGGTCATTTGGAATATA
1 TATATGGTCATTCGGGACATATATGTGGTCATTCGGAACATA
* * * *
10768427 TATATGGTCCTTCGGGATATATATGTGGTTATTCGGGACATA
1 TATATGGTCATTCGGGACATATATGTGGTCATTCGGAACATA
* * * * *
10768469 TATGTGGTTATTTGGGACATATATGAGGTCCTTCGG
1 TATATGGTCATTCGGGACATATATGTGGTCATTCGG
10768505 GATAAATTTT
Statistics
Matches: 92, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (42 bp):
TATATGGTCATTCGGGACATATATGTGGTCATTCGGAACATA
Found at i:10768462 original size:63 final size:63
Alignment explanation
Indices: 10768390--10768508 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 63
10768380 ACATGTATAA
* * *
10768390 GGTTTTTCGGGACATATATTTGGTCATTTGGAATATATAT-ATGGTCCTTCGGGATATATATGT
1 GGTTATTCGGGACATATATGTGGTCATTTGGAACATATATGA-GGTCCTTCGGGATATATATGT
* *
10768453 GGTTATTCGGGACATATATGTGGTTATTTGGGACATATATGAGGTCCTTCGGGATA
1 GGTTATTCGGGACATATATGTGGTCATTTGGAACATATATGAGGTCCTTCGGGATA
10768509 AATTTTATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
63 49 0.98
64 1 0.02
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (63 bp):
GGTTATTCGGGACATATATGTGGTCATTTGGAACATATATGAGGTCCTTCGGGATATATATGT
Found at i:10775434 original size:21 final size:21
Alignment explanation
Indices: 10775408--10775575 Score: 113
Period size: 21 Copynumber: 7.9 Consensus size: 21
10775398 TCGAGGGTTC
10775408 TATGTGGTCCTTTGGGACATA
1 TATGTGGTCCTTTGGGACATA
* * * *
10775429 TATGTGATCATTTGGAACATG
1 TATGTGGTCCTTTGGGACATA
** * * *
10775450 TATAAGGTCATTCGCGACATA
1 TATGTGGTCCTTTGGGACATA
* * *
10775471 TATTTGGTCCTTTGGAATATA
1 TATGTGGTCCTTTGGGACATA
* * *
10775492 GATGTGGTCCGTAGGGACAATTA
1 TATGTGGTCCTTTGGGAC-A-TA
**
10775515 TATGTGGT-CTTTCATGACATA
1 TATGTGGTCCTTT-GGGACATA
*
10775536 TATGTGGTCCTTCGGGACATA
1 TATGTGGTCCTTTGGGACATA
* **
10775557 TATGAGGTGATTTGGGACA
1 TATGTGGTCCTTTGGGACA
10775576 AATTTTATAT
Statistics
Matches: 107, Mismatches: 36, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
21 88 0.82
22 7 0.07
23 12 0.11
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (21 bp):
TATGTGGTCCTTTGGGACATA
Done.