Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 32
Found at i:2386219 original size:20 final size:20
Alignment explanation
Indices: 2386194--2386231 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2386184 TCATAACGAC
2386194 TCCAACATTCCTTAACAGAT
1 TCCAACATTCCTTAACAGAT
2386214 TCCAACATTCCTTAACAG
1 TCCAACATTCCTTAACAG
2386232 CTATAGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (20 bp):
TCCAACATTCCTTAACAGAT
Found at i:2386415 original size:35 final size:35
Alignment explanation
Indices: 2386369--2386436 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
2386359 AAATGAACAA
** *
2386369 TTGAATCGAAAGTGCTTATGTTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
*
2386404 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC
2386437 TTCTTATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
Found at i:2390645 original size:15 final size:15
Alignment explanation
Indices: 2390619--2390652 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2390609 GGGCTGAGTT
* *
2390619 AACTCGGGTTAAGTC
1 AACTCGGATTAAGTA
2390634 AACTCGGATTAAGTA
1 AACTCGGATTAAGTA
2390649 AACT
1 AACT
2390653 TAAATTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (15 bp):
AACTCGGATTAAGTA
Found at i:2391351 original size:27 final size:26
Alignment explanation
Indices: 2391295--2391350 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
2391285 CCTGGATGAG
2391295 AAATTATGAAAATACTTTTGCTAGGTA
1 AAATTATGAAAATACTTTT-CTAGGTA
*
2391322 AAATTATGAAAATACCTTTT-TTGGTA
1 AAATTATGAAAATA-CTTTTCTAGGTA
2391348 AAA
1 AAA
2391351 AGACAAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.30
27 14 0.52
28 5 0.19
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (26 bp):
AAATTATGAAAATACTTTTCTAGGTA
Found at i:2394261 original size:20 final size:20
Alignment explanation
Indices: 2394236--2394274 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2394226 ATATTGTGCA
2394236 GGGGGTA-CAGATTCCCCCTG
1 GGGGGTATC-GATTCCCCCTG
2394256 GGGGGTATCGATTCCCCCT
1 GGGGGTATCGATTCCCCCT
2394275 AAATGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.13, C:0.31, G:0.33, T:0.23
Consensus pattern (20 bp):
GGGGGTATCGATTCCCCCTG
Found at i:2395165 original size:23 final size:23
Alignment explanation
Indices: 2395135--2395178 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2395125 GAGTCGAGGG
2395135 TCTACGTGGTCCTACGGGACAAT
1 TCTACGTGGTCCTACGGGACAAT
*
2395158 TCTACGTGGTCCTTCGGGACA
1 TCTACGTGGTCCTACGGGACA
2395179 TATATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
TCTACGTGGTCCTACGGGACAAT
Found at i:2396123 original size:21 final size:21
Alignment explanation
Indices: 2396099--2396151 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2396089 TGTAGTAGTA
*
2396099 CTGTAGTAGGGTATCGATTCC
1 CTGTAGCAGGGTATCGATTCC
*
2396120 CTGTAGCAGGGTATTGATTCC
1 CTGTAGCAGGGTATCGATTCC
*
2396141 CTATAGCAGGG
1 CTGTAGCAGGG
2396152 GAATCGGTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (21 bp):
CTGTAGCAGGGTATCGATTCC
Found at i:2396643 original size:31 final size:32
Alignment explanation
Indices: 2396608--2396668 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2396598 AAAGGTATTG
*
2396608 ATACTC-ACCCTGATATTAATTTTTTTTATCA
1 ATACTCGACCATGATATTAATTTTTTTTATCA
*
2396639 ATACTCGACTATGATATTAATTTTTTTTAT
1 ATACTCGACCATGATATTAATTTTTTTTAT
2396669 TAAATTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.51
Consensus pattern (32 bp):
ATACTCGACCATGATATTAATTTTTTTTATCA
Found at i:2396686 original size:33 final size:32
Alignment explanation
Indices: 2396618--2396692 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
2396608 ATACTCACCC
*
2396618 TGATATTAATTTTTTTTATCAATACTCGACTA
1 TGATATTAATTTTTTTTATCAATACTCAACTA
* *
2396650 TGATATTAATTTTTTTTATTAA-ATTCAACCTAA
1 TGATATTAATTTTTTTTATCAATACTCAA-CT-A
2396683 TGATATTAAT
1 TGATATTAAT
2396693 AATTTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 4 0.11
32 23 0.61
33 11 0.29
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (32 bp):
TGATATTAATTTTTTTTATCAATACTCAACTA
Found at i:2402268 original size:78 final size:78
Alignment explanation
Indices: 2402132--2402283 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 78
2402122 ACATATTTTT
* *
2402132 CATTGAGATTCCTGACGTGGTAGAGACATCACATTTTGTATAACGCAAAGTCCGCAGAGATTCCT
1 CATTGAGATTCCTGACGTGGTAGAGACATCACATTTTGTAGAACGCAAAGTCAGCAGAGATTCCT
2402197 GACATGGCAGTAC
66 GACATGGCAGTAC
* * * * *
2402210 CATTGAGATTCCTGACTTGGTAG-GAACCTCGCATTTTGTAGAACGCGAGGT-AGACAGAGATTC
1 CATTGAGATTCCTGACGTGGTAGAG-ACATCACATTTTGTAGAACGCAAAGTCAG-CAGAGATTC
2402273 CTGACATGGCA
64 CTGACATGGCA
2402284 ACACCCCTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
77 2 0.03
78 63 0.97
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (78 bp):
CATTGAGATTCCTGACGTGGTAGAGACATCACATTTTGTAGAACGCAAAGTCAGCAGAGATTCCT
GACATGGCAGTAC
Found at i:2405836 original size:4 final size:4
Alignment explanation
Indices: 2405827--2405857 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2405817 ATACCCATTA
2405827 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2405858 ATTACCTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2421520 original size:37 final size:36
Alignment explanation
Indices: 2421465--2421565 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 36
2421455 TTTCGTCCTA
2421465 CTAGGATTCAAACTCTAAAAAATAGGATAGAATTCTG
1 CTAGGATTCAAACTCT-AAAAATAGGATAGAATTCTG
*
2421502 CTAGGATTC-AACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTCAAACT-CTAAAAATAGGATAGAATTCTG
* * * *
2421538 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTAGGATTCAAACT-CTAAAAATAGGAT
2421566 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 29 0.51
37 28 0.49
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (36 bp):
CTAGGATTCAAACTCTAAAAATAGGATAGAATTCTG
Found at i:2421522 original size:36 final size:36
Alignment explanation
Indices: 2421465--2421565 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 36
2421455 TTTCGTCCTA
2421465 CTAGGATTCAAACT-CTAAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTCCT-AAAAATAGGATAGAATTCTG
*
2421502 CTAGGATTCAACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAAATAGGATAGAATTCTG
** * *
2421538 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAAAATAGGAT
2421566 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 26 0.46
37 31 0.54
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (36 bp):
CTAGGATTCAACTCCTAAAAATAGGATAGAATTCTG
Found at i:2422027 original size:11 final size:11
Alignment explanation
Indices: 2422007--2422090 Score: 64
Period size: 11 Copynumber: 7.3 Consensus size: 11
2421997 TTAATTATTT
*
2422007 TTATTCTAATA
1 TTATTTTAATA
2422018 TTATTTTAATA
1 TTATTTTAATA
2422029 TT-TTTTAA-A
1 TTATTTTAATA
*
2422038 GTTATTATATATA
1 -TTATTTTA-ATA
2422051 TATATTTATAACTA
1 T-TATTT-TAA-TA
*
2422065 TTATATTTATTA
1 TTAT-TTTAATA
*
2422077 TTATTTTACTA
1 TTATTTTAATA
2422088 TTA
1 TTA
2422091 ACGTATATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
9 1 0.02
10 8 0.13
11 25 0.42
12 8 0.13
13 11 0.18
14 7 0.12
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:2422081 original size:15 final size:15
Alignment explanation
Indices: 2422039--2422081 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
2422029 TTTTTTAAAG
2422039 TTATTATATATATATAT
1 TTATTAT-TAT-TATAT
* *
2422056 TTATAACTATTATAT
1 TTATTATTATTATAT
2422071 TTATTATTATT
1 TTATTATTATT
2422082 TTACTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:2422084 original size:26 final size:25
Alignment explanation
Indices: 2421988--2422084 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 25
2421978 TATTAAGTAT
* * *
2421988 ATATATATATTAATTATTTTTATTCTA
1 ATAT-TATATTTATTATTATT-TTATA
*
2422015 ATATTAT-TTTAATATT-TTTTA-A
1 ATATTATATTTATTATTATTTTATA
*
2422037 AGTTATTATATATA-TA-TA-TTTATA
1 A--TATTATATTTATTATTATTTTATA
2422061 ACTATTATATTTATTATTATTTTA
1 A-TATTATATTTATTATTATTTTA
2422085 CTATTAACGT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
22 2 0.04
23 17 0.30
24 14 0.25
25 12 0.21
26 7 0.12
27 4 0.07
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (25 bp):
ATATTATATTTATTATTATTTTATA
Found at i:2422296 original size:23 final size:23
Alignment explanation
Indices: 2422264--2422322 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
2422254 ATTTATATTA
* *
2422264 TATTACATTATTATATTTTACTT
1 TATTAAATTATTATATTTTACGT
*
2422287 TATTAAATTATT-T-TTTTTCGT
1 TATTAAATTATTATATTTTACGT
*
2422308 TATT-ATTTATTATAT
1 TATTAAATTATTATAT
2422323 ATATATTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 6 0.20
21 11 0.37
22 2 0.07
23 11 0.37
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTAAATTATTATATTTTACGT
Found at i:2425640 original size:22 final size:21
Alignment explanation
Indices: 2425615--2425668 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
2425605 AACAAAAAGG
2425615 GCAAAAAGAAAAAAGAAAAGAA
1 GCAAAAAGAAAAAA-AAAAGAA
* *
2425637 GCAAAAAAGGAAAAAACAAGAA
1 GC-AAAAAGAAAAAAAAAAGAA
2425659 -CAAAAA-AAAA
1 GCAAAAAGAAAA
2425669 GAACAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
20 5 0.18
21 1 0.04
22 8 0.29
23 11 0.39
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (21 bp):
GCAAAAAGAAAAAAAAAAGAA
Found at i:2425665 original size:13 final size:13
Alignment explanation
Indices: 2425647--2425682 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
2425637 GCAAAAAAGG
*
2425647 AAAAAACAAGAAC
1 AAAAAAAAAGAAC
2425660 AAAAAAAAAGAAC
1 AAAAAAAAAGAAC
2425673 AAAAATAAAA
1 AAAAA-AAAA
2425683 AAGGGAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGAAC
Found at i:2425673 original size:19 final size:19
Alignment explanation
Indices: 2425623--2425684 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
2425613 GGGCAAAAAG
2425623 AAAAAAGAA-AAGAAGCAAA
1 AAAAAAGAACAAGAA-CAAA
*
2425642 AAAGGAAAAAACAAGAACAAA
1 AAA--AAAGAACAAGAACAAA
* *
2425663 AAAAAAGAACAAAAATAAA
1 AAAAAAGAACAAGAACAAA
2425682 AAA
1 AAA
2425685 GGGAACAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 19 0.53
21 12 0.33
22 5 0.14
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (19 bp):
AAAAAAGAACAAGAACAAA
Found at i:2425682 original size:16 final size:17
Alignment explanation
Indices: 2425662--2425695 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2425652 ACAAGAACAA
*
2425662 AAAAAAAGAACAAAAAT
1 AAAAAAGGAACAAAAAT
2425679 AAAAAAGGGAACAAAAA
1 AAAAAA-GGAACAAAAA
2425696 GCACATGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAAGGAACAAAAAT
Found at i:2426590 original size:37 final size:37
Alignment explanation
Indices: 2426496--2426605 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
2426486 ATTGTAACCA
*
2426496 TTGTCTCTCTTGAGAAAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
2426532 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
2426569 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
2426606 ATTGAAAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 30 0.45
37 33 0.50
38 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:2426690 original size:102 final size:102
Alignment explanation
Indices: 2426514--2426969 Score: 648
Period size: 102 Copynumber: 4.5 Consensus size: 102
2426504 CTTGAGAAAG
** * * *
2426514 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
2426579 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
2426616 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCTTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
2426681 TGAGACAGTTTCTCTTAAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
2426718 TTTCCCTTGAAAAGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
2426783 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
2426820 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* * * ***
2426884 TGAGACAGTTTCTC-TGAAACACAAAACCTTGAGATTG
66 TGAGACAGTTTCTCTTGAAACA-TAAACATTGAAAACA
* * * * * *
2426921 TTTCCCTCGAAA-CAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
2426970 CAAAATCTTT
Statistics
Matches: 320, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
100 36 0.11
101 49 0.15
102 235 0.73
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:2426702 original size:37 final size:37
Alignment explanation
Indices: 2426632--2426702 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
2426622 TTGAAATGAG
* * *
2426632 TTTTGTCTCTCTTGAGATAGTTTCCTTTGAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCCTTTAAAACAAAA
*
2426669 TTTTTTCTCCCTTGAGACAGTTT-CTCTTAAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCCT-TTAAAACA
2426703 TAAACATTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 2 0.07
37 27 0.93
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCCTTTAAAACAAAA
Found at i:2426785 original size:37 final size:37
Alignment explanation
Indices: 2426718--2426804 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
2426708 ATTGGAAACA
* * *
2426718 TTTCCCTTGAAA-AGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
2426754 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
2426791 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
2426805 TAAACATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 12 0.26
37 32 0.70
38 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:2426866 original size:36 final size:36
Alignment explanation
Indices: 2426819--2426888 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
2426809 CATTGAAAAC
** *
2426819 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
*
2426855 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGA
2426889 CAGTTTCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:2426956 original size:64 final size:66
Alignment explanation
Indices: 2426846--2426974 Score: 208
Period size: 65 Copynumber: 2.0 Consensus size: 66
2426836 TTTCGTCTCT
* *
2426846 CTTGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTC-TGAAACACAAAA
1 CTTGAGATAATTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAA
2426910 C
66 C
**
2426911 CTTGAGATTGTTTCCCTCGAAAC-AATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAA
1 CTTGAGATAATTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAA
2426975 TCTTTGAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 27 0.46
65 32 0.54
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (66 bp):
CTTGAGATAATTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAA
C
Found at i:2427776 original size:109 final size:109
Alignment explanation
Indices: 2427579--2428050 Score: 555
Period size: 109 Copynumber: 4.4 Consensus size: 109
2427569 TAGCTAGAGT
* * * *
2427579 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGCCAAC-AACAATTTCCCAATTTCGGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCTAATTTCAGAACCG
*
2427643 ATTTCAACTTCACGACGGAGGATATCGTGCTACCCGAGACAACA
66 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
*
2427687 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCTAATTCCAGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCTAATTTCAGAACCG
*
2427752 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGAAAACA
66 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
* * * **
2427796 CAAG-TCAAATTTCACAACGAAGGGACGACTGGTTGTCAACGAACAACTT-TTAAGTTTCA-TCC
1 CAAGTTC-AACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCTAA-TTTCAGAAC
* * *
2427858 GCGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAATA
64 -CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
* * * * ** * * * *
2427905 AAAGTTCAACTTCACAATGAAGGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCTAATTTCAGAACCG
* * * * *
2427970 ATTTCAACTTCAC-AGCGAATGATAT--TG-GACTCGAGACAACA
66 ATTTCAACTCCACGA-CGGAGGATATCGTGCTACCCGAGACAACA
* * *
2428011 CAAGTTCAACTTCACAATGAAGGGACGACTGATTGTCAAC
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC
2428051 AAGATTTCGT
Statistics
Matches: 317, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
106 48 0.15
107 2 0.01
108 46 0.15
109 216 0.68
110 5 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (109 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCTAATTTCAGAACCG
ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
Found at i:2428047 original size:106 final size:107
Alignment explanation
Indices: 2427579--2428200 Score: 538
Period size: 109 Copynumber: 5.8 Consensus size: 107
2427569 TAGCTAGAGT
* * * * *
2427579 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGCCAACAACAATTTCCCAATTTCGGAACCGA
1 CAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAATTTCCAAATTTCAGAACCAA
* *
2427644 TTTCAACTTCACGACGGAGGATATCGTGCTACCCGAGACAACA
66 TTTCAACTTCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * *
2427687 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCTAATTCCAGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAAC-AACAATTTCCAAATTTCAGAACCA
* * * *
2427752 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGAAAACA
65 ATTTCAACTTCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * **
2427796 CAAG-TCAAATTTCACAACGAAGGGACGACTGGTTGTCAACGAACAACTTT-TAAGTTTCA-TCC
1 CAAGTTC-AACTTCACAACGAAGGGACGACTGGTTGTCAAC-AACAA-TTTCCAAATTTCAGAAC
* * * *
2427858 GCGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAATA
63 -CAATTTCAACTTCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * *
2427905 AAAGTTCAACTTCACAATGAAGGGAC-AGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCC
1 CAAGTTCAACTTCACAACGAAGGGACGA-CTGGTTGTCAAC-AACAATTTCCAAATTTCAGAACC
* *
2427969 AATTTCAACTTCAC-AGCGAATGATAT-TG-GACTCGAGACAACA
64 AATTTCAACTTCACGA-CGGAGGATATCTGCGACTCGAGACAACA
* * * * **
2428011 CAAGTTCAACTTCACAATGAAGGGACGACTGATTGTCAACAA-GATTT-C---GTTCAGAGTCAA
1 CAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAATTTCCAAATTTCAGAACCAA
* * * *
2428071 TTTCAACTTCAC-AGCGAAGGATAT-T-AGACTTGAGACAGCA
66 TTTCAACTTCACGA-CGGAGGATATCTGCGACTCGAGACAACA
* * * * ** *** *
2428111 CAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCGGTTCCAGAACCA
1 CAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAAC-AACAATTTCCAAATTTCAGAACCA
2428176 ATTTCAACTTCAC-AGCGGAGGATAT
65 ATTTCAACTTCACGA-CGGAGGATAT
2428201 TAGACTCGGA
Statistics
Matches: 441, Mismatches: 56, Indels: 36
0.83 0.11 0.07
Matches are distributed among these distances:
100 80 0.18
101 2 0.00
102 4 0.01
103 2 0.00
104 3 0.01
105 2 0.00
106 79 0.18
107 3 0.01
108 47 0.11
109 214 0.49
110 5 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (107 bp):
CAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAACAATTTCCAAATTTCAGAACCAA
TTTCAACTTCACGACGGAGGATATCTGCGACTCGAGACAACA
Found at i:2428726 original size:36 final size:36
Alignment explanation
Indices: 2428669--2428769 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 36
2428659 TTTCTTCCTA
*
2428669 CTAGGATTCAAACT-CTCAAAAATAGGATATAATTGTG
1 CTAGGATTC-AACTCCT-AAAAATAGGATAGAATTGTG
*
2428706 CTAGGATTCAACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAAATAGGATAGAATTGTG
** * *
2428742 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAAAATAGGAT
2428770 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.45
37 31 0.55
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (36 bp):
CTAGGATTCAACTCCTAAAAATAGGATAGAATTGTG
Found at i:2429280 original size:15 final size:15
Alignment explanation
Indices: 2429238--2429280 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
2429228 GTTTTTAAAG
2429238 TTATTATATATATATAT
1 TTATTAT-TAT-TATAT
* *
2429255 TTATAACTATTATAT
1 TTATTATTATTATAT
2429270 TTATTATTATT
1 TTATTATTATT
2429281 TACTATTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:2429498 original size:21 final size:22
Alignment explanation
Indices: 2429457--2429507 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
2429447 TATTATATAC
2429457 ATTATTATTATTTACTTATTAA
1 ATTATTATTATTTACTTATTAA
*
2429479 ATTATTATT-TTT-CGTTATTAT
1 ATTATTATTATTTAC-TTATTAA
2429500 ATTATTAT
1 ATTATTAT
2429508 ATATATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.63
22 9 0.33
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTATTATTATTTACTTATTAA
Found at i:2431831 original size:13 final size:13
Alignment explanation
Indices: 2431815--2431839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2431805 ACCTGTCTTG
2431815 CTCTTCTTCGCTT
1 CTCTTCTTCGCTT
2431828 CTCTTCTTCGCT
1 CTCTTCTTCGCT
2431840 CTTGTAACCT
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:0.00, C:0.40, G:0.08, T:0.52
Consensus pattern (13 bp):
CTCTTCTTCGCTT
Found at i:2432360 original size:18 final size:18
Alignment explanation
Indices: 2432334--2432426 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 18
2432324 ACTGAATATT
*
2432334 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2432352 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* * * *
2432371 TTGTTCTGAAGAATCACTA
1 -TGTCCCGAAGGACCACTA
*
2432390 TGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCAC--TA
*
2432410 TGTCCCGAAAGACCACT
1 TGTCCCGAAGGACCACT
2432427 GATAATCCCT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
18 29 0.48
19 2 0.03
20 29 0.48
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2432415 original size:20 final size:20
Alignment explanation
Indices: 2432332--2432427 Score: 83
Period size: 20 Copynumber: 5.0 Consensus size: 20
2432322 GCACTGAATA
*
2432332 TTTGTCTCGAAGGACCAC--
1 TTTGTCCCGAAGGACCACTG
*
2432350 TATGTCCCGAAGGACCACTG
1 TTTGTCCCGAAGGACCACTG
* * * * *
2432370 ATTGTTCTGAAGAATCAC--
1 TTTGTCCCGAAGGACCACTG
*
2432388 TATGTCCCGAAGGACCACTG
1 TTTGTCCCGAAGGACCACTG
*
2432408 TTTGTCCCGAAAGACCACTG
1 TTTGTCCCGAAGGACCACTG
2432428 ATAATCCCTC
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
18 28 0.48
20 30 0.52
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (20 bp):
TTTGTCCCGAAGGACCACTG
Found at i:2432435 original size:20 final size:20
Alignment explanation
Indices: 2432392--2432435 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2432382 AATCACTATG
* * **
2432392 TCCCGAAGGACCACTGTTTG
1 TCCCGAAAGACCACTGATAA
2432412 TCCCGAAAGACCACTGATAA
1 TCCCGAAAGACCACTGATAA
2432432 TCCC
1 TCCC
2432436 TCGACTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.20
Consensus pattern (20 bp):
TCCCGAAAGACCACTGATAA
Found at i:2433979 original size:36 final size:36
Alignment explanation
Indices: 2433939--2434051 Score: 137
Period size: 36 Copynumber: 3.1 Consensus size: 36
2433929 CGAAAATCCA
2433939 TTCTTTTCAGCTTAATTACTTCATATATCATCAACT
1 TTCTTTTCAGCTTAATTACTTCATATATCATCAACT
*
2433975 TTCTTATTCTTAACTTACA-TACTT-ATAT-TCA--AACT
1 TTCTT-TTC--AGCTTA-ATTACTTCATATATCATCAACT
2434010 CTTCTTTTCAGCTTAATTACTTCATATATCATCAACT
1 -TTCTTTTCAGCTTAATTACTTCATATATCATCAACT
2434047 TTCTT
1 TTCTT
2434052 ATTCTTAACT
Statistics
Matches: 65, Mismatches: 2, Indels: 20
0.75 0.02 0.23
Matches are distributed among these distances:
32 1 0.02
33 10 0.15
34 4 0.06
35 10 0.15
36 15 0.23
37 10 0.15
38 4 0.06
39 10 0.15
40 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (36 bp):
TTCTTTTCAGCTTAATTACTTCATATATCATCAACT
Found at i:2433987 original size:34 final size:35
Alignment explanation
Indices: 2433949--2434064 Score: 125
Period size: 36 Copynumber: 3.3 Consensus size: 35
2433939 TTCTTTTCAG
2433949 CTTAA-TTACTTCATATATCATCAACTTTCTTATT
1 CTTAACTTACTTCATATATCATCAACTTTCTTATT
* *
2433983 CTTAACTTACATACTTATAT--TCAAACTCTTCTT-TT
1 CTTAACTTAC-TTCATATATCATC-AACT-TTCTTATT
2434018 CAGCTTAA-TTACTTCATATATCATCAACTTTCTTATT
1 ---CTTAACTTACTTCATATATCATCAACTTTCTTATT
2434055 CTTAACTTAC
1 CTTAACTTAC
2434065 ATACTTATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
34 12 0.18
35 14 0.21
36 24 0.36
37 10 0.15
38 7 0.10
ACGTcount: A:0.29, C:0.22, G:0.01, T:0.47
Consensus pattern (35 bp):
CTTAACTTACTTCATATATCATCAACTTTCTTATT
Found at i:2434056 original size:72 final size:72
Alignment explanation
Indices: 2433939--2434082 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
2433929 CGAAAATCCA
2433939 TTCTTTTCAGCTTAATTACTTCATATATCATCAACTTTCTTATTCTTAACTTACATACTTATATT
1 TTCTTTTCAGCTTAATTACTTCATATATCATCAACTTTCTTATTCTTAACTTACATACTTATATT
2434004 CAAACTC
66 CAAACTC
2434011 TTCTTTTCAGCTTAATTACTTCATATATCATCAACTTTCTTATTCTTAACTTACATACTTATATT
1 TTCTTTTCAGCTTAATTACTTCATATATCATCAACTTTCTTATTCTTAACTTACATACTTATATT
2434076 CAAACTC
66 CAAACTC
2434083 ATTTCTATTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.29, C:0.22, G:0.01, T:0.47
Consensus pattern (72 bp):
TTCTTTTCAGCTTAATTACTTCATATATCATCAACTTTCTTATTCTTAACTTACATACTTATATT
CAAACTC
Found at i:2434074 original size:36 final size:36
Alignment explanation
Indices: 2433962--2434074 Score: 128
Period size: 36 Copynumber: 3.1 Consensus size: 36
2433952 AATTACTTCA
2433962 TATATCATCAACTTTCTTATTCTTAACTTACATACT
1 TATATCATCAACTTTCTTATTCTTAACTTACATACT
* *
2433998 TATAT--TCAAACTCTTCTT-TTCAGCTTAA-TTAC-TTCA
1 TATATCATC-AACT-TTCTTATT---CTTAACTTACATACT
2434034 TATATCATCAACTTTCTTATTCTTAACTTACATACT
1 TATATCATCAACTTTCTTATTCTTAACTTACATACT
2434070 TATAT
1 TATAT
2434075 TCAAACTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
34 7 0.11
35 10 0.16
36 29 0.46
37 10 0.16
38 7 0.11
ACGTcount: A:0.30, C:0.21, G:0.01, T:0.48
Consensus pattern (36 bp):
TATATCATCAACTTTCTTATTCTTAACTTACATACT
Found at i:2434088 original size:38 final size:38
Alignment explanation
Indices: 2433974--2434097 Score: 115
Period size: 38 Copynumber: 3.4 Consensus size: 38
2433964 TATCATCAAC
2433974 TTTCTTATTCTTAACTTACATACTTATATTCAAACTC-
1 TTTCTTATTCTTAACTTACATACTTATATTCAAACTCA
*
2434011 -TTCTT-TTC--AGCTTA-ATTACTTCATATATC--A-TCAA
1 TTTCTTATTCTTAACTTACA-TACTT-ATAT-TCAAACTC-A
2434045 CTTTCTTATTCTTAACTTACATACTTATATTCAAACTCA
1 -TTTCTTATTCTTAACTTACATACTTATATTCAAACTCA
2434084 TTTC-TATTCATTAA
1 TTTCTTATTC-TTAA
2434098 TCACCTCTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 29
0.69 0.02 0.29
Matches are distributed among these distances:
32 3 0.04
33 11 0.16
34 4 0.06
35 5 0.07
36 10 0.14
37 10 0.14
38 12 0.17
39 12 0.17
40 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.01, T:0.48
Consensus pattern (38 bp):
TTTCTTATTCTTAACTTACATACTTATATTCAAACTCA
Found at i:2441709 original size:21 final size:20
Alignment explanation
Indices: 2441681--2441720 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
2441671 CAGATTATAA
2441681 AATACAACTCGAAA-AACTCG
1 AATACAACTC-AAATAACTCG
2441701 AATAGCAACTCAAATAACTC
1 AATA-CAACTCAAATAACTC
2441721 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.17
Consensus pattern (20 bp):
AATACAACTCAAATAACTCG
Found at i:2442573 original size:26 final size:26
Alignment explanation
Indices: 2442535--2442595 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
2442525 AAATACGAAC
**
2442535 GAAATAATTTAATTTTCA-ATTCAGAT
1 GAAATAAAATAATTTT-AGATTCAGAT
*
2442561 GAAATAAAATAATTTTAGATTCGGAT
1 GAAATAAAATAATTTTAGATTCAGAT
2442587 GAAATAAAA
1 GAAATAAAA
2442596 ATCTAACTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.34
Consensus pattern (26 bp):
GAAATAAAATAATTTTAGATTCAGAT
Found at i:2443527 original size:3 final size:3
Alignment explanation
Indices: 2443515--2443561 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
2443505 TGTTCGGGTT
*
2443515 TTA TTA -TA TTA TTA TAA TTA TTA TTTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
2443559 TTA
1 TTA
2443562 ATTGTATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2447760 original size:25 final size:24
Alignment explanation
Indices: 2447726--2447774 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
2447716 GAGGAGAAAG
*
2447726 AAAAGCTTCATTGCTGGACTTTCTT
1 AAAACCTTCATTGCTGG-CTTTCTT
*
2447751 AAAACCTTCATTGTTGGCTTTCTT
1 AAAACCTTCATTGCTGGCTTTCTT
2447775 TCACGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (24 bp):
AAAACCTTCATTGCTGGCTTTCTT
Found at i:2460555 original size:36 final size:36
Alignment explanation
Indices: 2460504--2460582 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
2460494 GGGAGATATT
**
2460504 GAAAGGCGGTTATATGCCTTATGTCCTCGAGAACTC
1 GAAAGGCGGCCATATGCCTTATGTCCTCGAGAACTC
*
2460540 GAAAGGCGGCCATATGCCTTCTGTCCTCGAGAACTC
1 GAAAGGCGGCCATATGCCTTATGTCCTCGAGAACTC
*
2460576 AAAAGGC
1 GAAAGGC
2460583 TTTGTTCCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (36 bp):
GAAAGGCGGCCATATGCCTTATGTCCTCGAGAACTC
Found at i:2464730 original size:21 final size:21
Alignment explanation
Indices: 2464706--2464766 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2464696 TTCAAAGAAA
2464706 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2464727 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
2464741 CATTTACTAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2464762 CATTT
1 CATTT
2464767 TCAAAGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.33
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2464733 original size:35 final size:35
Alignment explanation
Indices: 2464668--2464772 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
2464658 AACATCTACC
*
2464668 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
2464703 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
*
2464738 AAACATTTACTAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
2464773 TTGGTTGCCA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 47 0.70
36 20 0.30
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:2467871 original size:23 final size:22
Alignment explanation
Indices: 2467827--2467871 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2467817 ATGTCATGGG
*
2467827 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
2467849 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
2467872 AAGTTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:2469459 original size:23 final size:23
Alignment explanation
Indices: 2469426--2469488 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
2469416 ATTATTATAT
*
2469426 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
2469449 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
2469472 GGCACTTCGGTGCAATT
1 GGCACTTCGGTGCAATT
2469489 ATATGAGCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:2470771 original size:12 final size:12
Alignment explanation
Indices: 2470756--2470785 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2470746 ATTAGTTTAT
2470756 TTATTATAAATA
1 TTATTATAAATA
2470768 TTATTATAAATA
1 TTATTATAAATA
2470780 TT-TTAT
1 TTATTAT
2470786 TGTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATTATAAATA
Found at i:2472235 original size:2 final size:2
Alignment explanation
Indices: 2472228--2472281 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2472218 AATCTTAGTC
2472228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2472270 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2472282 TTTAAATAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2472428 original size:22 final size:22
Alignment explanation
Indices: 2472386--2472429 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2472376 ATTATAAAAA
* *
2472386 AAATTATAATTTAGTTTTATTT
1 AAATTATAAATTAGTTATATTT
2472408 AAATTATTAAATTA-TTATATTT
1 AAATTA-TAAATTAGTTATATTT
2472430 TTAGTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AAATTATAAATTAGTTATATTT
Found at i:2473074 original size:27 final size:25
Alignment explanation
Indices: 2473029--2473083 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 25
2473019 AATTCTTTTA
2473029 TTTCAAAATTTTTATTATTTATTAT
1 TTTCAAAATTTTTATTATTTATTAT
2473054 TTTCATAATATTTATTA-TATTTATTAT
1 TTTCA-AA-ATTT-TTATTATTTATTAT
2473081 TTT
1 TTT
2473084 ATTTTCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 5 0.19
26 2 0.07
27 17 0.63
28 3 0.11
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTCAAAATTTTTATTATTTATTAT
Found at i:2473075 original size:9 final size:9
Alignment explanation
Indices: 2473044--2473086 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
2473034 AAATTTTTAT
2473044 TATTTATTA
1 TATTTATTA
*
2473053 T-TTTCATAA
1 TATTT-ATTA
2473062 TATTTATTA
1 TATTTATTA
2473071 TATTTATTA
1 TATTTATTA
2473080 T-TTTATT
1 TATTTATT
2473087 TTCAAGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 9 0.30
9 18 0.60
10 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTATTA
Found at i:2477841 original size:13 final size:12
Alignment explanation
Indices: 2477823--2477870 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
2477813 CTCATCCAGC
2477823 AAAGAAAGAAAAA
1 AAAGAAA-AAAAA
2477836 AAAGAAAAAAAA
1 AAAGAAAAAAAA
*
2477848 AGAAAAAAAAAGAA
1 A-AAGAAAAAA-AA
2477862 AAAGGAAAA
1 AAA-GAAAA
2477871 TTGAATCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 6 0.20
13 17 0.57
14 7 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:2477846 original size:10 final size:10
Alignment explanation
Indices: 2477827--2477864 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
2477817 TCCAGCAAAG
2477827 AAAG-AAAAA
1 AAAGAAAAAA
2477836 AAAGAAAAAA
1 AAAGAAAAAA
2477846 AAAGAAAAAA
1 AAAGAAAAAA
2477856 AAAGAAAAA
1 AAAGAAAAA
2477865 GGAAAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 4 0.14
10 24 0.86
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:2480387 original size:114 final size:114
Alignment explanation
Indices: 2480114--2480454 Score: 565
Period size: 114 Copynumber: 3.0 Consensus size: 114
2480104 AAGTGCCATG
*
2480114 TGCTCATAGTAGAAATAAAAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
2480179 TGGTTTGGTATGAACCCCAAAAACCAATTATTGGATTTGAAATATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTGAAAGATGAATT
2480229 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
2480294 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
* *
2480343 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
2480408 TGATTCGATAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
2480455 CTGCATGATC
Statistics
Matches: 214, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
114 132 0.62
115 82 0.38
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
Found at i:2482624 original size:54 final size:54
Alignment explanation
Indices: 2482537--2482679 Score: 259
Period size: 54 Copynumber: 2.6 Consensus size: 54
2482527 AGAAAACTTG
2482537 GCAGAAGACACAGGAAAGGATGAATGTGTTGTCAAGTGCTTTGCAAACATCTGA
1 GCAGAAGACACAGGAAAGGATGAATGTGTTGTCAAGTGCTTTGCAAACATCTGA
*
2482591 GCAGAAGACACAGGAAAGGATGAATGTGGTGTCAAGTGCTTTGCAAACATCTGA
1 GCAGAAGACACAGGAAAGGATGAATGTGTTGTCAAGTGCTTTGCAAACATCTGA
* *
2482645 GCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAA
1 GCAGAAGACACAGGAAAGGATGAATGTGTTGTCAA
2482680 ATGTTTTACG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (54 bp):
GCAGAAGACACAGGAAAGGATGAATGTGTTGTCAAGTGCTTTGCAAACATCTGA
Found at i:2482732 original size:50 final size:50
Alignment explanation
Indices: 2482674--2482774 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
2482664 ATGAATGTGT
*
2482674 TGTCAAATGTTTTACGAACCAGTTATTCTGATGCTTAACCAATGTTGTTA
1 TGTCAAATGTTTTACGAACCAGTTATTCTGATGCTGAACCAATGTTGTTA
2482724 TGTCAAATGTTTTACGAACCAGTTATTCTGATGCTGAACCAATGTTGTTA
1 TGTCAAATGTTTTACGAACCAGTTATTCTGATGCTGAACCAATGTTGTTA
2482774 T
1 T
2482775 CATATGGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (50 bp):
TGTCAAATGTTTTACGAACCAGTTATTCTGATGCTGAACCAATGTTGTTA
Found at i:2482748 original size:25 final size:25
Alignment explanation
Indices: 2482674--2482749 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 25
2482664 ATGAATGTGT
2482674 TGTCAAATGTTTTACGAACCAGTTA
1 TGTCAAATGTTTTACGAACCAGTTA
** * * * ***
2482699 T-TCTGATGCTTAACCAATGTTGTTA
1 TGTCAAATGTTTTACGAA-CCAGTTA
2482724 TGTCAAATGTTTTACGAACCAGTTA
1 TGTCAAATGTTTTACGAACCAGTTA
2482749 T
1 T
2482750 TCTGATGCTG
Statistics
Matches: 33, Mismatches: 16, Indels: 4
0.62 0.30 0.08
Matches are distributed among these distances:
24 11 0.33
25 11 0.33
26 11 0.33
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (25 bp):
TGTCAAATGTTTTACGAACCAGTTA
Found at i:2483140 original size:22 final size:22
Alignment explanation
Indices: 2483109--2483163 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2483099 ATCTACACTC
*
2483109 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
2483131 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
2483153 TTCAAAGATGA
1 TTCAAAGATGA
2483164 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:2483762 original size:113 final size:113
Alignment explanation
Indices: 2483601--2484487 Score: 1095
Period size: 113 Copynumber: 7.7 Consensus size: 113
2483591 TTACCAGGTC
* * * * *
2483601 AAGTTCATAATGAGAATAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* *
2483666 CAACTTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGA
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGA
* *
2483714 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* *
2483779 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGATA
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGA
2483827 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * *
2483892 CAACCTTTTTCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAA
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGA
*
2483940 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * * *
2484005 CAACCTTTTGCAT-GAGTCTATCA-TTGAAGGAGATAGATCAACATCAACTTTGCCAGAGA
66 CAACCTTTTGC-TCAAATCCATCACTTG-ATG-GAT---T-AGC-T----TTT-CCAGAGA
* *
2484064 AAGTTCATAATGAGAAGAACTCATCTAAAG-AGGAAGAAAAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* *
2484128 CAAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAA
66 C-AACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGA
2484177 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * * * *
2484242 CAACCTTTTGCAT-GAGTCTATCA-TTGAAGGAGATAGATCAACATCAACTTTTCCAGAGG
66 CAACCTTTTGC-TCAAATCCATCACTT------GATGGAT-----T-AGCTTTTCCAGAGA
2484301 AAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
** * * * *
2484365 CAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGA
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGA
* * * * * **
2484413 AAGTTCATAATGAAAAGAACTTATCTGAAGAA-AAAGAAGAAGTTCATATTGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
2484477 CAACCTTTTGC
66 CAACCTTTTGC
2484488 ATAACTCTAT
Statistics
Matches: 685, Mismatches: 56, Indels: 67
0.85 0.07 0.08
Matches are distributed among these distances:
112 84 0.12
113 349 0.51
114 42 0.06
118 15 0.02
119 3 0.00
122 1 0.00
123 92 0.13
124 96 0.14
125 3 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGA
Found at i:2484078 original size:124 final size:123
Alignment explanation
Indices: 2483930--2484533 Score: 704
Period size: 123 Copynumber: 5.1 Consensus size: 123
2483920 TGGATCAGCT
* *
2483930 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
*
2483995 AGAATTTGTTCAACCTTTTGCATGAGTCTATCATTGAAGGAGATAGATCAACATCAAC
66 AGAATTTGTTCAACCTTTTGCATGAATCTATCATTGAAGGAGATAGATCAACATCAAC
* *
2484053 TTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAG-AGGAAGAAAAAATTCATAATGAG
1 TTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
* * * *
2484117 AAGAATTTGTTCAAACCTTTTGC-TCAAATCCATCACTT------GATGGATCAGC-T----
65 AAGAATTTGTTC-AACCTTTTGCAT-GAATCTATCA-TTGAAGGAGATAGATCAACATCAAC
*
2484167 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
*
2484232 AGAATTTGTTCAACCTTTTGCATGAGTCTATCATTGAAGGAGATAGATCAACATCAAC
66 AGAATTTGTTCAACCTTTTGCATGAATCTATCATTGAAGGAGATAGATCAACATCAAC
*
2484290 TTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAG
1 -TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
* * * *
2484354 AAGAATTTGTTCAACCTTTTGCTTGAAT-TCATCACT-----CGATGGATCAAC-T----
65 AAGAATTTGTTCAACCTTTTGCATGAATCT-ATCATTGAAGGAGATAGATCAACATCAAC
* * * * *
2484403 TTTCCAGAGAAAGTTCATAATGAAAAGAACTTATCTGAAGAA-AAAGAAGAAGTTCATATTGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
** ** *
2484467 AGAGCTTGTTCAACCTTTTGCAT-AACTCTATCACAGAAGGAGATAGATCAGCATCAAC
66 AGAATTTGTTCAACCTTTTGCATGAA-TCTATCATTGAAGGAGATAGATCAACATCAAC
*
2484525 ATTACCAGA
1 -TTTCCAGA
2484534 AGTGTTCATT
Statistics
Matches: 410, Mismatches: 38, Indels: 66
0.80 0.07 0.13
Matches are distributed among these distances:
111 2 0.00
112 84 0.20
113 54 0.13
114 38 0.09
117 10 0.02
118 21 0.05
119 10 0.02
122 1 0.00
123 98 0.24
124 90 0.22
125 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (123 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
AGAATTTGTTCAACCTTTTGCATGAATCTATCATTGAAGGAGATAGATCAACATCAAC
Found at i:2484167 original size:237 final size:237
Alignment explanation
Indices: 2483601--2484533 Score: 1340
Period size: 237 Copynumber: 4.0 Consensus size: 237
2483591 TTACCAGGTC
* * * * *
2483601 AAGTTCATAATGAGAATAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * * *
2483666 CAACTTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAG
* * *
2483731 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TCAAA
131 AACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCAT-AAG
* * * *
2483795 TCCATCACTT------GATGGAT-----T-AGCTTTGCCAGATA
195 TCTATCA-TTGAAGGAGATAGATCAACATCAACTTTGCCAGAGA
2483827 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
*
2483892 CAACCTTTTTCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAG
*
2483957 AACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCATGAGT
131 AACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCATAAGT
2484022 CTATCATTGAAGGAGATAGATCAACATCAACTTTGCCAGAGA
196 CTATCATTGAAGGAGATAGATCAACATCAACTTTGCCAGAGA
* *
2484064 AAGTTCATAATGAGAAGAACTCATCTAAAG-AGGAAGAAAAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
2484128 CAAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAA
66 C-AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAA
* *
2484193 GAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCATGAG
130 GAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCATAAG
* *
2484258 TCTATCATTGAAGGAGATAGATCAACATCAACTTTTCCAGAGG
195 TCTATCATTGAAGGAGATAGATCAACATCAACTTTGCCAGAGA
2484301 AAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
** * * * * *
2484365 CAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAAAAG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAG
* * * ** *
2484430 AACTTATCTGAAGAAA-AAGAAGAAGTTCATATTGAGAAGAGCTTGTTCAACCTTTTGCATAACT
131 AACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCATAAGT
** * * *
2484494 CTATCACAGAAGGAGATAGATCAGCATCAACATTACCAGA
196 CTATCATTGAAGGAGATAGATCAACATCAACTTTGCCAGA
2484534 AGTGTTCATT
Statistics
Matches: 646, Mismatches: 47, Indels: 19
0.91 0.07 0.03
Matches are distributed among these distances:
225 2 0.00
226 183 0.28
227 1 0.00
231 6 0.01
235 77 0.12
236 106 0.16
237 271 0.42
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (237 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCATAAGT
CTATCATTGAAGGAGATAGATCAACATCAACTTTGCCAGAGA
Found at i:2484417 original size:112 final size:112
Alignment explanation
Indices: 2484284--2484487 Score: 327
Period size: 112 Copynumber: 1.8 Consensus size: 112
2484274 ATAGATCAAC
* * **
2484284 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAAAAGAAGAAATTCATA
*
2484349 ATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGG
66 ATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGG
* *
2484396 ATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTTATCTGAAGAAAAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAAAAGAAGAAATTCATA
* *
2484461 TTGAGAAGAGCTTGTTCAACCTTTTGC
66 ATGAGAAGAACTTGTTCAACCTTTTGC
2484488 ATAACTCTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 83 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (112 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAAAAGAAGAAATTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGG
Found at i:2484828 original size:12 final size:12
Alignment explanation
Indices: 2484813--2484842 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2484803 ATTAGTTTAT
2484813 TTATTATAAATA
1 TTATTATAAATA
2484825 TTATTATAAATA
1 TTATTATAAATA
2484837 TT-TTAT
1 TTATTAT
2484843 TGTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATTATAAATA
Found at i:2486293 original size:2 final size:2
Alignment explanation
Indices: 2486286--2486350 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
2486276 AATCTTAGTC
*
2486286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2486327 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2486351 TTTAAATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2491048 original size:23 final size:23
Alignment explanation
Indices: 2491022--2491076 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
2491012 ATGGCAATAT
2491022 GGTGCAATTCTACGCGGCACTCC
1 GGTGCAATTCTACGCGGCACTCC
* *
2491045 GGTGCAATTCTACGTGGCACTTC
1 GGTGCAATTCTACGCGGCACTCC
2491068 GGTGCAATT
1 GGTGCAATT
2491077 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGTGCAATTCTACGCGGCACTCC
Found at i:2494069 original size:14 final size:15
Alignment explanation
Indices: 2494050--2494078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2494040 TTTACCAAAC
2494050 TTTAAA-AAATATTT
1 TTTAAAGAAATATTT
2494064 TTTAAAGAAATATTT
1 TTTAAAGAAATATTT
2494079 ACAAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTAAAGAAATATTT
Found at i:2494114 original size:35 final size:35
Alignment explanation
Indices: 2494036--2494140 Score: 131
Period size: 35 Copynumber: 3.0 Consensus size: 35
2494026 AACATCTACC
** *
2494036 AAAC-TTTACCAAACTTTAAAAAATATTTTTTAAAG
1 AAACATTTACCAAACTTTAAAAACCA-TTTTCAAAG
* * *
2494071 AAATATTTACAAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTAAAAACCATTTTCAAAG
*
2494106 AAACATTTACCGAACTTTAAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTAAAAACCATTTTCAAAG
2494141 TTGGTTGCCA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 42 0.71
36 17 0.29
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (35 bp):
AAACATTTACCAAACTTTAAAAACCATTTTCAAAG
Found at i:2511587 original size:31 final size:31
Alignment explanation
Indices: 2511552--2511611 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2511542 ATTTTTAAGG
**
2511552 AAATATAACAAACTCATTTTAAATAATAACA
1 AAATATAACAAACTCACCTTAAATAATAACA
* *
2511583 AAATATAACCAACTCCCCTTAAATAATAA
1 AAATATAACAAACTCACCTTAAATAATAA
2511612 TAACAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (31 bp):
AAATATAACAAACTCACCTTAAATAATAACA
Found at i:2515655 original size:50 final size:50
Alignment explanation
Indices: 2515592--2515693 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
2515582 TTTATCCTAT
*
2515592 TTTAGTATGTATTTGTTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
2515642 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
2515692 TT
1 TT
2515694 CAATAATTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.25, C:0.02, G:0.17, T:0.57
Consensus pattern (50 bp):
TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
Found at i:2521418 original size:46 final size:46
Alignment explanation
Indices: 2521322--2521436 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
2521312 TCCACGCTTC
* *
2521322 GATTATTGGATTGCGAAAATT-AAAATTAAAGAATTGGTTCCTTTA
1 GATTATTGGATTGCGAAAATTAAAAATCAAAGAATTAGTTCCTTTA
* *
2521367 AATTATTGGATTGCGAAAATTAAAAATCAAAGGATTAGTTCCTTGT-
1 GATTATTGGATTGCGAAAATTAAAAATCAAAGAATTAGTTCCTT-TA
* * *
2521413 GATTATTGGGTTCCTAAAATTAAA
1 GATTATTGGATTGCGAAAATTAAA
2521437 GTATTAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 20 0.33
46 39 0.65
47 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (46 bp):
GATTATTGGATTGCGAAAATTAAAAATCAAAGAATTAGTTCCTTTA
Found at i:2521730 original size:58 final size:58
Alignment explanation
Indices: 2521581--2521865 Score: 333
Period size: 58 Copynumber: 4.9 Consensus size: 58
2521571 AATATTGTGT
* * *
2521581 TGATTCTAACTTCGTAAAGAAAATAAATAGTTGAATTTATTCCCTTAA-AATCTTATA
1 TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTCCTTAAGAATCTTAAA
* * * *
2521638 TTATTCTAACTTTGCAAGGAAAATAAATAGTTGAATTTATTTCCTTAAGAATTTTAAA
1 TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTCCTTAAGAATCTTAAA
* * * * *
2521696 TGATTCTAACTTTGTAACGAAAATAAATAATTGAATTTATTTTCTTGAGAATCTTGAA
1 TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTCCTTAAGAATCTTAAA
* * * * * *
2521754 TGATTCTAACTTTATAAGGAAAATAAATTGTTAAATTTATTT-TTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTCCTTAAGAATCTTAAA
* * * * *
2521811 TGATTCT-ATTTTGTTAAAGAAACTAAATTGTTGAATTTATTTTCTCAAGAATCTT
1 TGATTCTAACTTTG-TAAAGAAAATAAATAGTTGAATTTATTTCCTTAAGAATCTT
2521866 GAATTAAGAA
Statistics
Matches: 195, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
56 4 0.02
57 88 0.45
58 103 0.53
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTCCTTAAGAATCTTAAA
Found at i:2521862 original size:115 final size:116
Alignment explanation
Indices: 2521581--2521869 Score: 370
Period size: 115 Copynumber: 2.5 Consensus size: 116
2521571 AATATTGTGT
* ** *
2521581 TGATTCTAACTTCGTAAAGAAAATAAATAGTTGAATTTATTCCCTTAA-AATCTT-ATATTATTC
1 TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTTCTTAAGAATCTTGA-ATGATTC
* * *
2521644 TAACTTTGCAAGGAAAATAAATAGTTGAATTTATTTCCTTAAGAATTTTAAA
65 TAACTTTACAAGGAAAATAAATAGTTAAATTTATTTCCTTAAGAATCTTAAA
* * *
2521696 TGATTCTAACTTTGTAACGAAAATAAATAATTGAATTTATTTTCTTGAGAATCTTGAATGATTCT
1 TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTTCTTAAGAATCTTGAATGATTCT
* * * *
2521761 AACTTTATAAGGAAAATAAATTGTTAAATTTATTT-TTTGAGAATCTTAAA
66 AACTTTACAAGGAAAATAAATAGTTAAATTTATTTCCTTAAGAATCTTAAA
* * * *
2521811 TGATTCT-ATTTTGTTAAAGAAACTAAATTGTTGAATTTATTTTCTCAAGAATCTTGAAT
1 TGATTCTAACTTTG-TAAAGAAAATAAATAGTTGAATTTATTTTCTTAAGAATCTTGAAT
2521870 TAAGAAATAA
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
114 5 0.03
115 100 0.67
116 44 0.29
117 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (116 bp):
TGATTCTAACTTTGTAAAGAAAATAAATAGTTGAATTTATTTTCTTAAGAATCTTGAATGATTCT
AACTTTACAAGGAAAATAAATAGTTAAATTTATTTCCTTAAGAATCTTAAA
Found at i:2522161 original size:39 final size:39
Alignment explanation
Indices: 2522069--2522208 Score: 212
Period size: 39 Copynumber: 3.6 Consensus size: 39
2522059 TTGAAAAAGA
* * * *
2522069 AAATAAATTGTTGAATTTATTTT-TCTGATTTATAAAA-A
1 AAATAAATCGTTGAATGTATTTTCT-TGATTTGTAAAATG
2522107 AAATAAATCGTTGAATGTATTTTCTTGATTTGTAAAATG
1 AAATAAATCGTTGAATGTATTTTCTTGATTTGTAAAATG
2522146 AAATAAATCGTTGAATGTATTTTCTTGATTTGTAAAATG
1 AAATAAATCGTTGAATGTATTTTCTTGATTTGTAAAATG
*
2522185 AAATAAATCGTTGAATTTATTTTC
1 AAATAAATCGTTGAATGTATTTTC
2522209 CTAAGAATCT
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 32 0.34
39 63 0.66
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (39 bp):
AAATAAATCGTTGAATGTATTTTCTTGATTTGTAAAATG
Found at i:2522295 original size:24 final size:24
Alignment explanation
Indices: 2522268--2522314 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2522258 TTTATTTTCC
2522268 TATTTTGTAAAAGAAAATAAATCA
1 TATTTTGTAAAAGAAAATAAATCA
*
2522292 TATTTTGTAGAAGAAAATAAATC
1 TATTTTGTAAAAGAAAATAAATC
2522315 GTTTGATTTA
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:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (24 bp):
TATTTTGTAAAAGAAAATAAATCA
Found at i:2522319 original size:21 final size:22
Alignment explanation
Indices: 2522271--2522319 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
2522261 ATTTTCCTAT
*
2522271 TTTGTAAAAGAAAATAAATCATAT
1 TTTGTAAAAGAAAATAAATC--AG
*
2522295 TTTGTAGAAGAAAATAAATC-G
1 TTTGTAAAAGAAAATAAATCAG
2522316 TTTG
1 TTTG
2522320 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
24 19 0.83
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (22 bp):
TTTGTAAAAGAAAATAAATCAG
Found at i:2522382 original size:38 final size:38
Alignment explanation
Indices: 2522292--2522497 Score: 209
Period size: 34 Copynumber: 5.6 Consensus size: 38
2522282 AAATAAATCA
* *
2522292 TATTTTGTAGAAGAAAATAAATCGTTTGATTTATTTTTC
1 TATTTTGTAAAAGAAAATAAATCGTTGGATTTA-TTTTC
* * * *
2522331 TATTTTATTAAAGGAAATAAATCATTGGATTTATTTTC
1 TATTTTGTAAAAGAAAATAAATCGTTGGATTTATTTTC
* * *
2522369 TATTTTGTAAAAGGAAATAACTCGTTCGATTTATTTTC
1 TATTTTGTAAAAGAAAATAAATCGTTGGATTTATTTTC
2522407 T-TATTT-T---AGAAAATAAATCGTTGGATTTATTTTCC
1 TAT-TTTGTAAAAGAAAATAAATCGTTGGATTTATTTT-C
2522442 TA-TTT-T---AGAAAATAAATCGTTGGATTTATTTTCC
1 TATTTTGTAAAAGAAAATAAATCGTTGGATTTATTTT-C
2522476 TATTTTGTAAAA-ATAAATAAAT
1 TATTTTGTAAAAGA-AAATAAAT
2522498 AATTGACTTT
Statistics
Matches: 144, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
34 57 0.40
35 5 0.03
36 1 0.01
37 2 0.01
38 43 0.30
39 36 0.25
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (38 bp):
TATTTTGTAAAAGAAAATAAATCGTTGGATTTATTTTC
Found at i:2526610 original size:21 final size:21
Alignment explanation
Indices: 2526584--2526681 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 21
2526574 ATCAGTTTCC
2526584 AAAATCGCAACGCGATTATTG
1 AAAATCGCAACGCGATTATTG
* *
2526605 AAAATCGCAATGCGA-TAGT-
1 AAAATCGCAACGCGATTATTG
** *
2526624 ACAAATTCGCATTGCGATT-TTCC
1 A-AAA-TCGCAACGCGATTATT-G
*
2526647 AAAATCGCAACGCGAATA-TG
1 AAAATCGCAACGCGATTATTG
2526667 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2526682 ACACATAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 21 0.33
21 36 0.57
22 4 0.06
23 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTATTG
Found at i:2526672 original size:20 final size:20
Alignment explanation
Indices: 2526648--2526841 Score: 210
Period size: 20 Copynumber: 9.7 Consensus size: 20
2526638 CGATTTTCCA
** *
2526648 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
2526668 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
2526688 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
2526708 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
2526728 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
2526748 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
2526768 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
2526788 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
2526808 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
2526828 AAATCGCAACGCGA
1 AAATCGCAACGCGA
2526842 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 148 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:2527261 original size:33 final size:33
Alignment explanation
Indices: 2527222--2527292 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2527212 TTCACTTAGA
* *
2527222 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
2527255 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
2527288 TTTCA
1 TTTCA
2527293 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:2527429 original size:41 final size:38
Alignment explanation
Indices: 2527365--2527481 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
2527355 TTCAATTTGC
* *
2527365 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
2527403 AGAATGACTGTCGCAACGAGAGAAATGACAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
2527444 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
2527477 AGAAT
1 AGAAT
2527482 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.45, C:0.18, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:2527445 original size:21 final size:21
Alignment explanation
Indices: 2527372--2527447 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2527362 TGCAGAAGAG
* *
2527372 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGACAA
**
2527393 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGACAA
2527413 TCGCAACGAGAGAAATGACAA
1 TCGCAACGAGAGAAATGACAA
2527434 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2527448 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGACAA
Found at i:2527451 original size:14 final size:14
Alignment explanation
Indices: 2527432--2527488 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2527422 GAGAAATGAC
2527432 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2527446 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2527465 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2527479 AATCGCAACG
1 AATCGCAACG
2527489 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2527469 original size:33 final size:33
Alignment explanation
Indices: 2527424--2527504 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
2527414 CGCAACGAGA
*
2527424 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2527457 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
2527490 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
2527505 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2527522 original size:19 final size:19
Alignment explanation
Indices: 2527500--2527597 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
2527490 GAAACCAAAA
*
2527500 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2527519 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
2527533 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
2527552 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
2527566 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
2527585 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2527598 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 20 0.33
16 4 0.07
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2527541 original size:14 final size:14
Alignment explanation
Indices: 2527522--2527611 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2527512 TTTCATTTCG
2527522 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2527536 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
2527555 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2527569 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
2527586 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
2527602 CGTTGCGATT
1 CGTTGCGATT
2527612 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 2 0.03
16 7 0.11
17 7 0.11
18 2 0.03
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2527551 original size:33 final size:33
Alignment explanation
Indices: 2527505--2527619 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
2527495 CAAAATCGCA
*
2527505 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
2527538 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
2527571 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
2527604 TTGCGATTTTCATTTC
1 TTGCGATTGTCATTTC
2527620 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
Found at i:2529477 original size:93 final size:93
Alignment explanation
Indices: 2529318--2529791 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
2529308 TAGATTGCTT
*
2529318 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2529383 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2529411 AGTAAATTTGTTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2529476 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2529504 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2529569 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2529597 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2529662 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2529690 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2529755 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2529783 AGTAAATTT
1 AGTAAATTT
2529792 ATCCATTCAA
Statistics
Matches: 376, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 376 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2529875 original size:19 final size:19
Alignment explanation
Indices: 2529835--2529963 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2529825 TAGTTTACTT
* *
2529835 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2529855 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2529874 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2529893 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2529907 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2529926 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
2529940 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2529959 TCGCA
1 TCGCA
2529964 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2529914 original size:33 final size:32
Alignment explanation
Indices: 2529871--2529963 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2529861 CGCGAAACCA
**
2529871 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2529903 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2529936 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2529964 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2529961 original size:52 final size:52
Alignment explanation
Indices: 2529835--2529963 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2529825 TAGTTTACTT
**
2529835 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2529887 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2529940 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
2529964 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2529981 original size:19 final size:19
Alignment explanation
Indices: 2529959--2530093 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2529949 GAAACCAAAA
*
2529959 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2529978 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
2529994 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2530011 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2530027 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2530044 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2530063 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2530083 TCGTGTTGCGA
1 TCGCGTTGCGA
2530094 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2530000 original size:14 final size:14
Alignment explanation
Indices: 2529981--2530037 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2529971 TTTCATTTCG
2529981 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2529995 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2530012 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2530028 CGTTGCGATT
1 CGTTGCGATT
2530038 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2530006 original size:33 final size:33
Alignment explanation
Indices: 2529964--2530056 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2529954 CAAAATCGCA
*
2529964 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
2529997 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2530030 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
2530057 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:2531292 original size:14 final size:14
Alignment explanation
Indices: 2531273--2531308 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2531263 ATTGTTTAAT
2531273 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2531287 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2531301 TGATTTGT
1 TGATTTGT
2531309 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2531439 original size:19 final size:19
Alignment explanation
Indices: 2531415--2531514 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
2531405 AAAATTGACT
2531415 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2531434 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2531453 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2531467 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2531486 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2531506 ATCGCAATG
1 ATCGCAATG
2531515 GGAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2531544 original size:53 final size:53
Alignment explanation
Indices: 2531415--2531531 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
2531405 AAAATTGACT
2531415 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
2531467 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
2531520 ATCGCAATGCGA
1 ATCGCAATGCGA
2531532 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:2531549 original size:19 final size:18
Alignment explanation
Indices: 2531521--2531618 Score: 77
Period size: 19 Copynumber: 5.7 Consensus size: 18
2531511 AATGGGAGAA
*
2531521 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTT-ATT
*
2531540 TCGCATTGCGA--TTATC
1 TCGCATTGCGATTTTATT
2531556 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
* *
2531573 TCGCATTGCGA--TTCTC
1 TCGCATTGCGATTTTATT
2531589 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
2531606 TCGCATTGCGATT
1 TCGCATTGCGATT
2531619 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 12 0.19
16 13 0.21
17 13 0.21
19 24 0.39
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (18 bp):
TCGCATTGCGATTTTATT
Found at i:2531564 original size:14 final size:14
Alignment explanation
Indices: 2531545--2531632 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
2531535 TAATTTCGCA
2531545 TTGCGATTATCTCG
1 TTGCGATTATCTCG
*
2531559 TTGCGATTTTCATTTCG
1 TTGCGA--TT-ATCTCG
*
2531576 CATTGCGATTCTCTCG
1 --TTGCGATTATCTCG
*
2531592 TTGCGATTTTCATTTCG
1 TTGCGA--TT-ATCTCG
*
2531609 CATTGCGATTCTCTCG
1 --TTGCGATTATCTCG
2531625 TTGCGATT
1 TTGCGATT
2531633 TTCATTTCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 20 0.35
16 12 0.21
17 13 0.23
19 12 0.21
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGCGATTATCTCG
Found at i:2531564 original size:33 final size:33
Alignment explanation
Indices: 2531527--2531650 Score: 221
Period size: 33 Copynumber: 3.7 Consensus size: 33
2531517 AGAATCGCAA
* *
2531527 TGCGATTTTAATTTCGCATTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
2531560 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
2531593 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
2531626 TGCGATTTTCATTTCCGCATTGCGA
1 TGCGATTTTCATTT-CGCATTGCGA
2531651 AATGTAATGG
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
33 78 0.89
34 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:2531733 original size:19 final size:19
Alignment explanation
Indices: 2531709--2531806 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
2531699 AAAATTGACT
2531709 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2531728 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2531747 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2531761 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2531780 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2531800 ATCGCAA
1 ATCGCAA
2531807 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2531838 original size:53 final size:53
Alignment explanation
Indices: 2531709--2531825 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
2531699 AAAATTGACT
2531709 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
2531761 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
2531814 ATCGCAATGCGA
1 ATCGCAATGCGA
2531826 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:2534159 original size:12 final size:12
Alignment explanation
Indices: 2534142--2534166 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2534132 TCTTCGGGGA
2534142 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2534154 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2534166 C
1 C
2534167 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2534375 original size:24 final size:24
Alignment explanation
Indices: 2534341--2534387 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2534331 CTGAAACATC
2534341 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2534365 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2534388 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2535300 original size:20 final size:20
Alignment explanation
Indices: 2535070--2535299 Score: 230
Period size: 20 Copynumber: 11.5 Consensus size: 20
2535060 AAATTTCAGT
* * *
2535070 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2535090 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2535110 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2535130 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2535150 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
2535170 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
2535190 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
2535210 ATTGCGATTTACCCATAT-GC
1 GTTGCGATTTACGGAT-TCGC
*
2535230 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
2535250 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
2535270 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
2535290 GTTGCGATTT
1 GTTGCGATTT
2535300 TGGAAAATCG
Statistics
Matches: 178, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
20 177 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:2535316 original size:21 final size:21
Alignment explanation
Indices: 2535286--2535368 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2535276 ATTTTCATAT
*
2535286 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2535307 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2535328 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2535349 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2535369 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2535359 original size:42 final size:43
Alignment explanation
Indices: 2535266--2535364 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2535256 ATTTATGTGT
* *
2535266 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
2535307 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
2535349 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2535365 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:2538417 original size:18 final size:18
Alignment explanation
Indices: 2538394--2538430 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2538384 GTAGGTCGCC
2538394 ATGCACGCCCGGCGACCA
1 ATGCACGCCCGGCGACCA
2538412 ATGCACGCCCGGCGACCA
1 ATGCACGCCCGGCGACCA
2538430 A
1 A
2538431 CCAGGTCGCC
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:0.24, C:0.43, G:0.27, T:0.05
Consensus pattern (18 bp):
ATGCACGCCCGGCGACCA
Found at i:2538486 original size:10 final size:10
Alignment explanation
Indices: 2538471--2538563 Score: 68
Period size: 10 Copynumber: 9.3 Consensus size: 10
2538461 CCCACGACCT
2538471 CCATGCACGC
1 CCATGCACGC
2538481 CCATGCACGC
1 CCATGCACGC
2538491 CCATGCACGC
1 CCATGCACGC
*
2538501 CCA-ACGAC-C
1 CCATGC-ACGC
*
2538510 TCCATGCATGC
1 -CCATGCACGC
* *
2538521 CCAGGCACGT
1 CCATGCACGC
*
2538531 CCA-ACGAC-C
1 CCATGC-ACGC
*
2538540 TCCATGCACGG
1 -CCATGCACGC
2538551 CCATGCACGC
1 CCATGCACGC
2538561 CCA
1 CCA
2538564 ACGACCTCCA
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
9 3 0.05
10 58 0.91
11 3 0.05
ACGTcount: A:0.23, C:0.47, G:0.19, T:0.11
Consensus pattern (10 bp):
CCATGCACGC
Found at i:2538515 original size:30 final size:30
Alignment explanation
Indices: 2538481--2538583 Score: 170
Period size: 30 Copynumber: 3.4 Consensus size: 30
2538471 CCATGCACGC
2538481 CCATGCACGCCCATGCACGCCCAACGACCT
1 CCATGCACGCCCATGCACGCCCAACGACCT
* * *
2538511 CCATGCATGCCCAGGCACGTCCAACGACCT
1 CCATGCACGCCCATGCACGCCCAACGACCT
*
2538541 CCATGCACGGCCATGCACGCCCAACGACCT
1 CCATGCACGCCCATGCACGCCCAACGACCT
2538571 CCATGCACGCCCA
1 CCATGCACGCCCA
2538584 GCTCGCCAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.23, C:0.48, G:0.18, T:0.11
Consensus pattern (30 bp):
CCATGCACGCCCATGCACGCCCAACGACCT
Found at i:2539225 original size:21 final size:21
Alignment explanation
Indices: 2539200--2539243 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2539190 AATTTAGTTA
2539200 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
2539221 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
2539242 AT
1 AT
2539244 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:2539257 original size:28 final size:28
Alignment explanation
Indices: 2539220--2539273 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
2539210 TAGTATAAAT
*
2539220 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTTAAGTTATATTA
2539248 TATTAATTTGTTAGTTTAAGTTATAT
1 TATTAATTTGTTAGTTTAAGTTATAT
2539274 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAGTTTAAGTTATATTA
Found at i:2539351 original size:42 final size:46
Alignment explanation
Indices: 2539249--2539351 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 46
2539239 GTTATATTAT
2539249 ATTAATTTGTTAGTTTAAGTTATATATTAGATTATATAAAAAAGTTA
1 ATTAATTTGTTAGTTTAAGTTATATA-TAGATTATATAAAAAAGTTA
* * * *
2539296 ATTAGTTTCTTAGTTTAAGTTAT-TA-A-ATGTA-A-AAAATATTTA
1 ATTAATTTGTTAGTTTAAGTTATATATAGAT-TATATAAAAAAGTTA
2539338 ATTAATTTGTTAGT
1 ATTAATTTGTTAGT
2539352 GTGTTTAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
42 20 0.41
43 3 0.06
44 3 0.06
46 2 0.04
47 21 0.43
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.49
Consensus pattern (46 bp):
ATTAATTTGTTAGTTTAAGTTATATATAGATTATATAAAAAAGTTA
Found at i:2541272 original size:60 final size:60
Alignment explanation
Indices: 2541201--2541754 Score: 983
Period size: 60 Copynumber: 9.2 Consensus size: 60
2541191 GTATTTATAA
*
2541201 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
2541261 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGATAGTAAT
2541321 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
2541381 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
2541441 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGATAGTAAT
2541501 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
2541560 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGATAGTAAT
*
2541620 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGATAGTAAT
*
2541680 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
2541740 GATTTAGTAATGATT
1 GATTTAGTAATGATT
2541755 TGATAGTAAT
Statistics
Matches: 479, Mismatches: 8, Indels: 14
0.96 0.02 0.03
Matches are distributed among these distances:
58 2 0.00
59 59 0.12
60 412 0.86
61 6 0.01
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
Found at i:2541518 original size:21 final size:20
Alignment explanation
Indices: 2541494--2541701 Score: 62
Period size: 21 Copynumber: 10.4 Consensus size: 20
2541484 TATGATTTGA
2541494 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
2541515 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
2541533 TATTAAT-TTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
2541553 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
2541574 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
2541592 TATTAATTATGTA-TGATTTGA-
1 TAGTAA-TATTTAGT-A-ATGAT
2541613 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
2541634 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
2541652 TATTAATTATGTA-TGATTTGA-
1 TAGTAA-TATTTAGT-A-ATGAT
2541673 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
2541694 TAGTAATA
1 TAGTAATA
2541702 ATGAAATTAT
Statistics
Matches: 130, Mismatches: 34, Indels: 47
0.62 0.16 0.22
Matches are distributed among these distances:
18 35 0.27
19 7 0.05
20 24 0.18
21 53 0.41
22 11 0.08
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TAGTAATATTTAGTAATGAT
Found at i:2541683 original size:299 final size:300
Alignment explanation
Indices: 2541201--2541754 Score: 1058
Period size: 299 Copynumber: 1.9 Consensus size: 300
2541191 GTATTTATAA
*
2541201 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
2541266 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
66 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
*
2541331 TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATGATT
131 TGATTAGTAATAATGAAATTATTATTAATTTGTAATGATTTGATAGTAATGATTTAGTAATGATT
2541396 AGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
196 AGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
2541461 TAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
261 TAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
2541501 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
2541565 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
66 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
2541630 TGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGATTTAGTAATGAT
131 TGATTAGTAATAATGAAATTATTATTAATT-TGTAATGATTTGATAGTAATGATTTAGTAATGAT
*
2541694 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAATGATTTAGTAATGATT
195 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATGATT
2541755 TGATAGTAAT
Statistics
Matches: 250, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
299 211 0.84
300 39 0.16
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (300 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
TGATTAGTAATAATGAAATTATTATTAATTTGTAATGATTTGATAGTAATGATTTAGTAATGATT
AGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
TAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
Found at i:2541740 original size:14 final size:14
Alignment explanation
Indices: 2541722--2541769 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
2541712 TATTAATTTT
*
2541722 TAATGATTTGATAT
1 TAATGATTTGATAG
2541736 TAATGA-TT--TAG
1 TAATGATTTGATAG
2541747 TAATGATTTGATAG
1 TAATGATTTGATAG
2541761 TAATGATTT
1 TAATGATTT
2541770 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Done.