Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 6 of 100
Found at i:1248276 original size:25 final size:25
Alignment explanation
Indices: 1248238--1248294 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
1248228 CAAGAAGCAA
* **
1248238 TTTATTTTTTAAAAGTCGTTGAGTG
1 TTTATTTTTCAAAAGTCGTTGAGCC
*
1248263 TTTATTTTTCAAAAGTTGTTGAGCC
1 TTTATTTTTCAAAAGTCGTTGAGCC
1248288 TTTATTT
1 TTTATTT
1248295 AGAGGGGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.54
Consensus pattern (25 bp):
TTTATTTTTCAAAAGTCGTTGAGCC
Found at i:1248430 original size:89 final size:85
Alignment explanation
Indices: 1248263--1248585 Score: 310
Period size: 89 Copynumber: 3.7 Consensus size: 85
1248253 TCGTTGAGTG
* * * *
1248263 TTTATTTTTCAAAAGTTGTTGAGCCTTTATTTAGAGGGGCTTTGTTTATTTTTCAAAAGTCATTG
1 TTTA-TTTTCAAAAGTTGTTAAGCCTCTATTTAAAGGAGCTTTGTTTATTTTTC-AAAGTCA-TG
* *
1248328 AGCCTCTGCTTAGAGGAGCTTTA
63 AACCTCTGATTAGAGGAGCTTTA
* * *
1248351 TTTATTTTACTAAAAGTCGTTGAGCCTCTATTTAAAGGAGCTTTGTTTATTTTTTCAAAGTCGTG
1 TTTATTTT-C-AAAAGTTGTTAAGCCTCTATTTAAAGGAGCTTTGTTTA-TTTTTCAAAGTCAT-
* *
1248416 GAACCTTTGATTAGATGAGCTTTA
62 GAACCTCTGATTAGAGGAGCTTTA
* * * *
1248440 TTTATTTTTTC-AAAGTTGTTAAGCCTCTAATTAAAGGAGCTTTATTTATTTTCCAAAGTCATTA
1 TTTA--TTTTCAAAAGTTGTTAAGCCTCTATTTAAAGGAGCTTTGTTTATTTTTCAAAGTCATGA
* *
1248504 AGCCTCTGATTAGAGAAACTTTA
64 A-CCTCTGATTAGAGGAGCTTTA
* * * * * *
1248527 GTTATTTTCCAAAGTTG-TAAGCCTTTGA-TTAGATGACCTTTGTTTATTTTTTCAAAGTC
1 TTTATTTTCAAAAGTTGTTAAGCCTCT-ATTTAAAGGAGCTTTGTTTA-TTTTTCAAAGTC
1248586 GTTGAGCTTC
Statistics
Matches: 198, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
85 27 0.14
86 21 0.11
87 36 0.18
88 39 0.20
89 64 0.32
90 7 0.04
91 4 0.02
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (85 bp):
TTTATTTTCAAAAGTTGTTAAGCCTCTATTTAAAGGAGCTTTGTTTATTTTTCAAAGTCATGAAC
CTCTGATTAGAGGAGCTTTA
Found at i:1248510 original size:43 final size:44
Alignment explanation
Indices: 1248263--1248606 Score: 286
Period size: 44 Copynumber: 7.9 Consensus size: 44
1248253 TCGTTGAGTG
* * * * * *
1248263 TTTATTTTTCAAAAGTTGTTGAGCCT-TTATTTAGAGGGGCTTTG
1 TTTATTTTTCCAAAGTCGTTAAGCCTCTGA-TTAGAGGAGCTTTA
* * * *
1248307 TTTATTTTTCAAAAGTCATTGAGCCTCTGCTTAGAGGAGCTTTA
1 TTTATTTTTCCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTA
* * * * *
1248351 TTTATTTTACTAAAAGTCGTTGAGCCTCT-ATTTAAAGGAGCTTTG
1 TTTATTTTTC-CAAAGTCGTTAAGCCTCTGA-TTAGAGGAGCTTTA
* * * *
1248396 TTTATTTTTTCAAAGTCGTGGAA-CCTTTGATTAGATGAGCTTTA
1 TTTATTTTTCCAAAGTCGT-TAAGCCTCTGATTAGAGGAGCTTTA
* * * *
1248440 TTTATTTTTTCAAAGTTGTTAAGCCTCTAATTAAAGGAGCTTTA
1 TTTATTTTTCCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTA
* * *
1248484 TTTA-TTTTCCAAAGTCATTAAGCCTCTGATTAGAGAAACTTTA
1 TTTATTTTTCCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTA
* * * * * *
1248527 GTTA-TTTTCCAAAGTTG-TAAGCCTTTGATTAGATGACCTTTG
1 TTTATTTTTCCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTA
* * * *
1248569 TTTATTTTTTCAAAGTCGTTGAGCTTCTGCTTAGAGGA
1 TTTATTTTTCCAAAGTCGTTAAGCCTCTGATTAGAGGA
1248607 ACTTAATCAA
Statistics
Matches: 243, Mismatches: 49, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
42 23 0.09
43 59 0.24
44 121 0.50
45 40 0.16
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (44 bp):
TTTATTTTTCCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTA
Found at i:1248826 original size:7 final size:7
Alignment explanation
Indices: 1248796--1248860 Score: 51
Period size: 7 Copynumber: 8.6 Consensus size: 7
1248786 ACCCATATTG
1248796 TATTT-T
1 TATTTAT
1248802 TATTTTAT
1 TA-TTTAT
*
1248810 TTTATTAT
1 TAT-TTAT
1248818 TATTTAT
1 TATTTAT
1248825 TAATATATAT
1 T-AT-T-TAT
1248835 TATTTAT
1 TATTTAT
1248842 TATTTAT
1 TATTTAT
*
1248849 CTATTAAT
1 -TATTTAT
1248857 TATT
1 TATT
1248861 AATATGTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
6 2 0.04
7 23 0.47
8 17 0.35
9 3 0.06
10 4 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (7 bp):
TATTTAT
Found at i:1248846 original size:35 final size:34
Alignment explanation
Indices: 1248804--1248884 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 34
1248794 TGTATTTTTA
*
1248804 TTTTATTTTAT-TATTATTTATTAATATATATTAT
1 TTTTATTTTATCTATTAATTATTAATATATATT-T
*
1248838 TTATTA-TTTATCTATTAATTATTAATATGTATTT
1 TT-TTATTTTATCTATTAATTATTAATATATATTT
1248872 TTTTATTTTATCT
1 TTTTATTTTATCT
1248885 TGATTGATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 3 0.07
34 17 0.40
35 22 0.52
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (34 bp):
TTTTATTTTATCTATTAATTATTAATATATATTT
Found at i:1249594 original size:6 final size:6
Alignment explanation
Indices: 1249579--1249626 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
1249569 TTTGGCATTC
1249579 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTA-T TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1249624 TTT
1 TTT
1249627 TTAATGATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 14 0.34
6 27 0.66
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:1249600 original size:12 final size:11
Alignment explanation
Indices: 1249579--1249626 Score: 71
Period size: 11 Copynumber: 4.3 Consensus size: 11
1249569 TTTGGCATTC
1249579 TTTATTTTATT
1 TTTATTTTATT
1249590 TTTATTTTTATT
1 TTTA-TTTTATT
1249602 TTTATTTT-TAT
1 TTTATTTTAT-T
1249613 TTTATTTTATT
1 TTTATTTTATT
1249624 TTT
1 TTT
1249627 TTAATGATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.03
11 21 0.62
12 12 0.35
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:1249720 original size:57 final size:58
Alignment explanation
Indices: 1249634--1249814 Score: 260
Period size: 58 Copynumber: 3.1 Consensus size: 58
1249624 TTTTTAATGA
**
1249634 TTTTCTT-AAAATAAAATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAATT-TTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * *
1249692 TTTCCTTGAAAAT-AATTTTTTAAAAAATATTTTTGAGGAAAA-TGTAAAAGTATCAAT
1 TTTTCTTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGT-TGAAAGTATCAAT
* *
1249749 TTTTCTTGAAAATAAAATTTTTAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1249807 TTTTCTTG
1 TTTTCTTG
1249815 TACAAAAGCA
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
56 1 0.01
57 46 0.42
58 56 0.51
59 6 0.06
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (58 bp):
TTTTCTTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:1252625 original size:2 final size:2
Alignment explanation
Indices: 1252618--1252653 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1252608 AGTATTTTGC
1252618 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1252654 TGGATCTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1256358 original size:2 final size:2
Alignment explanation
Indices: 1256353--1256383 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1256343 GCACACAAAC
1256353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1256384 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1256442 original size:2 final size:2
Alignment explanation
Indices: 1256435--1256460 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1256425 AGTTCTCCTG
1256435 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
1256461 CCAAGTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1265250 original size:13 final size:13
Alignment explanation
Indices: 1265232--1265299 Score: 67
Period size: 13 Copynumber: 5.7 Consensus size: 13
1265222 TAAAATGAAA
1265232 ATTAAAATTTTAT
1 ATTAAAATTTTAT
1265245 ATTAAAA--TT-T
1 ATTAAAATTTTAT
1265255 ATTAAAA---TAT
1 ATTAAAATTTTAT
1265265 ATTAAAATTTTAT
1 ATTAAAATTTTAT
**
1265278 ATTAAAATAATAT
1 ATTAAAATTTTAT
*
1265291 ATAAAAATT
1 ATTAAAATT
1265300 AATAAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
9 1 0.02
10 16 0.34
11 2 0.04
13 28 0.60
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAAAATTTTAT
Found at i:1265259 original size:10 final size:10
Alignment explanation
Indices: 1265244--1265274 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1265234 TAAAATTTTA
1265244 TATTAAAATT
1 TATTAAAATT
*
1265254 TATTAAAATA
1 TATTAAAATT
1265264 TATTAAAATT
1 TATTAAAATT
1265274 T
1 T
1265275 TATATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATTAAAATT
Found at i:1265375 original size:5 final size:6
Alignment explanation
Indices: 1265349--1265377 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1265339 AATCGAATAA
1265349 AAATTT AAATTT AAATTT AAA-TT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT
1265378 TATAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:1274710 original size:23 final size:26
Alignment explanation
Indices: 1274666--1274715 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
1274656 TTGAAATTTC
1274666 AATAAAAATATATATAAATTTA-CAAA
1 AATAAAAATATATAT-AATTTATCAAA
*
1274692 AATAAAAA-ATATAT-TTTTATCAAA
1 AATAAAAATATATATAATTTATCAAA
1274716 CTTAATCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 4 0.18
25 6 0.27
26 8 0.36
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
AATAAAAATATATATAATTTATCAAA
Found at i:1275658 original size:20 final size:20
Alignment explanation
Indices: 1275623--1275682 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
1275613 ATTGATTTTA
1275623 TTTAAAATTAATAAAATATTAAT
1 TTTAAAA-T-ATAAAATATT-AT
* *
1275646 TTT-TAATATAAAACATTAT
1 TTTAAAATATAAAATATTAT
1275665 TTTAAAATATAAATATAT
1 TTTAAAATATAAA-ATAT
1275683 AAATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 5 0.16
20 17 0.55
21 4 0.13
22 2 0.06
23 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAATATAAAATATTAT
Found at i:1275684 original size:8 final size:8
Alignment explanation
Indices: 1275667--1275717 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
1275657 AACATTATTT
1275667 TAAA-ATA
1 TAAATATA
1275674 TAAATATA
1 TAAATATA
1275682 TAAATATA
1 TAAATATA
*
1275690 -AAATTAAA
1 TAAA-TATA
1275698 TAAATAATA
1 TAAAT-ATA
*
1275707 TATATATA
1 TAAATATA
1275715 TAA
1 TAA
1275718 GATCAGATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 7 0.19
8 20 0.56
9 9 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAATATA
Found at i:1280922 original size:22 final size:22
Alignment explanation
Indices: 1280888--1280930 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1280878 ACAAGGGGAC
* * *
1280888 TAAAAACATTAAAACTAAAAAT
1 TAAAAAAAATAAAAATAAAAAT
1280910 TAAAAAAAATAAAAATAAAAA
1 TAAAAAAAATAAAAATAAAAA
1280931 GGGAAAGACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAAAAAAATAAAAATAAAAAT
Found at i:1289362 original size:31 final size:30
Alignment explanation
Indices: 1289327--1289392 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 30
1289317 TTGTATGAGA
*
1289327 AAAAAATATGTATGAAT-AAGTTATACTTGTT
1 AAAAAATA-G-ATGAATAAACTTATACTTGTT
1289358 -AAAAA-AGATGAATAAACTTATACTTGTT
1 AAAAAATAGATGAATAAACTTATACTTGTT
1289386 AAAAAAT
1 AAAAAAT
1289393 TAACAACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 6 0.19
28 14 0.45
29 6 0.19
30 5 0.16
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.33
Consensus pattern (30 bp):
AAAAAATAGATGAATAAACTTATACTTGTT
Found at i:1289369 original size:27 final size:28
Alignment explanation
Indices: 1289338--1289391 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
1289328 AAAAATATGT
*
1289338 ATGAAT-AAGTTATACTTGTTAAAAAAG
1 ATGAATAAACTTATACTTGTTAAAAAAG
1289365 ATGAATAAACTTATACTTGTTAAAAAA
1 ATGAATAAACTTATACTTGTTAAAAAA
1289392 TTAACAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (28 bp):
ATGAATAAACTTATACTTGTTAAAAAAG
Found at i:1294924 original size:28 final size:29
Alignment explanation
Indices: 1294893--1294960 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
1294883 TAAATCAAAT
* * *
1294893 ATATAAAATTTTAAATAAA-ATAATTTTG
1 ATATAAATTTTTAAATAAATAAAATATTG
*
1294921 ATAT-ATTTTTTAAATAAATAAAATATTG
1 ATATAAATTTTTAAATAAATAAAATATTG
1294949 ATA-AAATTTTTA
1 ATATAAATTTTTA
1294961 CCATTGAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (29 bp):
ATATAAATTTTTAAATAAATAAAATATTG
Found at i:1299591 original size:27 final size:30
Alignment explanation
Indices: 1299542--1299596 Score: 80
Period size: 27 Copynumber: 1.9 Consensus size: 30
1299532 TATCACTCCT
*
1299542 TCTTTATTTTATTGTTCTGATTTTTGTTTA
1 TCTTTATTTTATTATTCTGATTTTTGTTTA
1299572 TCTTT-TTTTATTATT-T-ATTTTTGTT
1 TCTTTATTTTATTATTCTGATTTTTGTT
1299597 AGATGATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 1 0.04
29 9 0.38
30 5 0.21
ACGTcount: A:0.13, C:0.05, G:0.07, T:0.75
Consensus pattern (30 bp):
TCTTTATTTTATTATTCTGATTTTTGTTTA
Found at i:1300938 original size:118 final size:112
Alignment explanation
Indices: 1300772--1301074 Score: 303
Period size: 116 Copynumber: 2.7 Consensus size: 112
1300762 AAAAAAAGAG
* * * * *
1300772 AAATTTCTAAAGAAGCCTAAATGGT-AAAAATATTAGAAATTTTGAAAAAAAAATATTTCTAAAT
1 AAATTTCTAAATAAGCC-AAATGATGAAAAAT-TTAAAAATTTCGAAAAAAAAATATTTTTAAAT
* * *
1300836 TGACCTAAATAGTGAAAATTTTAGAGATAAAAATAAATAAATAAATAATAAGT
64 TGACCCAAATAGTGAAAAATTTAGAAATAAAAA-AAATAAAT-AATAA-AA-T
*
1300889 AAAATTTCTAAATAAGCTCAAATGATGAAAAATTTAAAAATTTCG--AAAAAAATTTTTTTAAAT
1 -AAATTTCTAAATAAGC-CAAATGATGAAAAATTTAAAAATTTCGAAAAAAAAATATTTTTAAAT
* *
1300952 TGACCCAAATTGTGAAAAATTTAGAAATAAAAAACATAAATAATAAAAT
64 TGACCCAAATAGTGAAAAATTTAGAAATAAAAAAAATAAATAATAAAAT
* * * * *
1301001 -AATCTCTAAATAGGCCCCAAAT-ATGGAAAATTTATAAA-TTCAAAAGGAAAAAATATTTTTAA
1 AAATTTCTAAATAAG--CCAAATGATGAAAAATTTAAAAATTTCGAAA--AAAAAATATTTTTAA
*
1301063 TTTGACCCAAAT
62 ATTGACCCAAAT
1301075 GGTGGAATAA
Statistics
Matches: 159, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
109 3 0.02
110 26 0.16
111 6 0.04
112 2 0.01
113 27 0.17
114 5 0.03
115 7 0.04
116 45 0.28
118 31 0.19
119 7 0.04
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (112 bp):
AAATTTCTAAATAAGCCAAATGATGAAAAATTTAAAAATTTCGAAAAAAAAATATTTTTAAATTG
ACCCAAATAGTGAAAAATTTAGAAATAAAAAAAATAAATAATAAAAT
Found at i:1302192 original size:50 final size:49
Alignment explanation
Indices: 1302097--1302199 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 49
1302087 GTATCTGCAC
* * **
1302097 CATTTCTATATCATTTCATTCTATGCATCATTTTCATGCTTATGTTTTAA
1 CATTTCCATATCATTTCATTCTATACATCATTTTCATGCACATG-TTTAA
*
1302147 CATTTCCATATCATTTCATTCTATACATCATTTTCATGGACATGTTTAA
1 CATTTCCATATCATTTCATTCTATACATCATTTTCATGCACATGTTTAA
1302196 CATT
1 CATT
1302200 ATCATTTGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 9 0.19
50 39 0.81
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (49 bp):
CATTTCCATATCATTTCATTCTATACATCATTTTCATGCACATGTTTAA
Found at i:1306302 original size:42 final size:42
Alignment explanation
Indices: 1306240--1306413 Score: 242
Period size: 42 Copynumber: 4.1 Consensus size: 42
1306230 AGGAGAAATG
*
1306240 TATTTTTTCAAAGTTATGGTGTCTCTGTTTAGAAGAGCAATT
1 TATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATT
* * *
1306282 TATTTTTTTAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATT
1 TATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATT
* * *
1306324 TGTTTTTTCAAAGTTATGGTGCCTTTGTTTAGATGAGCAATT
1 TATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATT
* *
1306366 TATTTTTTCAAAGTTGTGGTGCCTCTATTTAG-AGAAGCAATT
1 TATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAG-AGCAATT
*
1306408 TGTTTT
1 TATTTT
1306414 CAAAAGTCGT
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 115 0.99
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.47
Consensus pattern (42 bp):
TATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATT
Found at i:1306371 original size:84 final size:84
Alignment explanation
Indices: 1306242--1306413 Score: 290
Period size: 84 Copynumber: 2.0 Consensus size: 84
1306232 GAGAAATGTA
* *
1306242 TTTTTTCAAAGTTATGGTGTCTCTGTTTAGAAGAGCAATTTATTTTTTTAAAGTTGTGGTGCCTC
1 TTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTC
* *
1306307 TGTTTAGAGGAGCAATTTG
66 TATTTAGAGAAGCAATTTG
* *
1306326 TTTTTTCAAAGTTATGGTGCCTTTGTTTAGATGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTC
1 TTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTC
1306391 TATTTAGAGAAGCAATTTG
66 TATTTAGAGAAGCAATTTG
1306410 TTTT
1 TTTT
1306414 CAAAAGTCGT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.47
Consensus pattern (84 bp):
TTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTC
TATTTAGAGAAGCAATTTG
Found at i:1307086 original size:20 final size:20
Alignment explanation
Indices: 1307063--1307100 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1307053 TTTCGACAAG
*
1307063 ATTTTCTAATTTTCGATGCT
1 ATTTCCTAATTTTCGATGCT
*
1307083 ATTTCCTAGTTTTCGATG
1 ATTTCCTAATTTTCGATG
1307101 AAATATTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (20 bp):
ATTTCCTAATTTTCGATGCT
Found at i:1307797 original size:34 final size:34
Alignment explanation
Indices: 1307750--1307816 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
1307740 TCTTAGAAAT
* *
1307750 TTCAAATGATAAATTTCTAAGAAATCTTTAGGTA
1 TTCAAATGATAAATTTCTAAAAAATCTCTAGGTA
*
1307784 TTCAAATGGTAAATTTCTAAAAAATCTCTAGGT
1 TTCAAATGATAAATTTCTAAAAAATCTCTAGGT
1307817 GATAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (34 bp):
TTCAAATGATAAATTTCTAAAAAATCTCTAGGTA
Found at i:1308118 original size:108 final size:106
Alignment explanation
Indices: 1307903--1308174 Score: 345
Period size: 108 Copynumber: 2.6 Consensus size: 106
1307893 TTTTCTTTTA
* * *
1307903 AAAAAAATTT-TAAATAGGCCCAAATAGTAAAAAATTTAAAAATTTCGAAAAAAAAAAATTTCTA
1 AAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCG-AAAAAAAAAATTTCTA
* *
1307967 AATTAACTCAAATGGTGAAAAATTTAGAGATAATAAATAAAT
65 AATTAACTCAAATGGTGAAAAATTTAGAAATAAAAAATAAAT
* * * *
1308009 AAACAAGAAATTTCTAAATAGGCCCGAATGGTGAAAAATTTAGAAATTTTG-AAAAGAAAATTTT
1 -AA-AA-AAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCGAAAAAAAAAATTTC
* * *
1308073 TAAATTGACTCAAATTGTGAAAAATTTAGAAATAAAAAATTAAT
63 TAAATTAACTCAAATGGTGAAAAATTTAGAAATAAAAAATAAAT
* * *
1308117 AAAATAATTTCTAAATAGGCCCAAATGATGAAAAATTTAGAAA-TT-AAAAAAAAAAATT
1 AAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCGAAAAAAAAAATT
1308175 AATTTGGCTC
Statistics
Matches: 144, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
104 12 0.08
105 36 0.25
106 2 0.01
107 4 0.03
108 52 0.36
109 6 0.04
110 32 0.22
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (106 bp):
AAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCGAAAAAAAAAATTTCTAA
ATTAACTCAAATGGTGAAAAATTTAGAAATAAAAAATAAAT
Found at i:1308762 original size:2 final size:2
Alignment explanation
Indices: 1308755--1308786 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1308745 ATAATGCTTT
1308755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1308787 ATGGTGTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1310454 original size:22 final size:22
Alignment explanation
Indices: 1310402--1310455 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
1310392 AAATTATTTT
*
1310402 TATATTAATAATATTAATATAA
1 TATATTATTAATATTAATATAA
* * * * *
1310424 TAAAATATTAATATTAGTCTTA
1 TATATTATTAATATTAATATAA
1310446 TATATTATTA
1 TATATTATTA
1310456 TTTTATTCTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATTATTAATATTAATATAA
Found at i:1310900 original size:19 final size:18
Alignment explanation
Indices: 1310858--1310900 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1310848 CACTTCGTGT
1310858 TTATA-TTTAAAATTTAA
1 TTATATTTTAAAATTTAA
* *
1310875 ATATATTTTATAATTTATA
1 TTATATTTTAAAATTTA-A
1310894 TTATATT
1 TTATATT
1310901 CGTATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTTTAAAATTTAA
Found at i:1312428 original size:24 final size:24
Alignment explanation
Indices: 1312376--1312428 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1312366 CCGAGCATTC
* *
1312376 GATTTTTTTTCTTTTCTTAAAATT
1 GATTTTATTTCTTTTCTCAAAATT
*
1312400 TATTTTATTT-TTTTCTCAAATATT
1 GATTTTATTTCTTTTCTCAAA-ATT
1312424 GATTT
1 GATTT
1312429 GAATATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.66
Consensus pattern (24 bp):
GATTTTATTTCTTTTCTCAAAATT
Found at i:1316933 original size:18 final size:18
Alignment explanation
Indices: 1316910--1316944 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1316900 TCAAAAAAGA
* *
1316910 TAATTTTTTTTTAATTTG
1 TAATTTTATTGTAATTTG
1316928 TAATTTTATTGTAATTT
1 TAATTTTATTGTAATTT
1316945 TATCTACAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TAATTTTATTGTAATTTG
Found at i:1324934 original size:15 final size:15
Alignment explanation
Indices: 1324904--1324962 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
1324894 AATTTGACAA
* *
1324904 ATAAAATCAATCAAT
1 ATAAAATTAATAAAT
1324919 ATAAAATTAATAAAT
1 ATAAAATTAATAAAT
* * *
1324934 ACTACAATT-ACAATT
1 A-TAAAATTAATAAAT
1324949 ATAAAA-TAATAAAT
1 ATAAAATTAATAAAT
1324963 TCTCTAATCA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
13 1 0.03
14 8 0.24
15 19 0.56
16 6 0.18
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAATTAATAAAT
Found at i:1325260 original size:265 final size:262
Alignment explanation
Indices: 1324790--1325275 Score: 668
Period size: 262 Copynumber: 1.8 Consensus size: 262
1324780 TAATTTAAAA
* * *
1324790 ATAATTCAAAAAAATAAATTGATTATATTTATGCTTTCATTCTTAACTTTAAATCACTTTCAATT
1 ATAATTCAAAAAAATAAATTGATTATATTTATACTTTCATTATTAACTTTAAATCACTCTCAATT
* ****
1324855 CAATTCATAGTAAAAGTAGTAAAATTTTAAAAGTTTCTTAATTTGACAAATAAAATCAATCAATA
66 CAATTCATAGTAAAAGTACTAAAATTTTAAAAGAAAATTAATTTGACAAATAAAATCAATCAATA
*
1324920 TAAAATTAATAAATACTACAATTACAATTATAAAATAATAAATTCTCTAATCAATTATTTGATAC
131 TAAAATAAATAAATACTACAATTACAATTATAAAATAATAAATTCTCTAATCAATTATTTGATAC
1324985 ACTTATATTTGATTAAATATAGTATTAAGTAATTGATGTATTTCATATGTAAATATATAAAGCAA
196 ACTTATATTTGATTAAATATAGTATTAAGTAATTGATGTATTTCATATGTAAATATATAAAGCAA
1325050 AT
261 AT
** * * * * * * *
1325052 ATAATTCAAAAACCTAAATTGATTATATTTATATTTTTATTATTGATTTTAAGTTACTCTGAATT
1 ATAATTCAAAAAAATAAATTGATTATATTTATACTTTCATTATTAACTTTAAATCACTCTCAATT
* * * * *
1325117 CAATTCATATTAAACGTACTAAAATTTTAAAA-AAAATTATTTTGACAAATTAAATTAATCAATA
66 CAATTCATAGTAAAAGTACTAAAATTTTAAAAGAAAATTAATTTGACAAATAAAATCAATC-A-A
* * ** *
1325181 TATAATAAATAAATAAATACTATAATTACAATTATAAAATAGTTGATTCTCTAATTAATTATTTG
129 TAT-A-AAATAAATAAATACTACAATTACAATTATAAAATAATAAATTCTCTAATCAATTATTTG
*
1325246 ATACATTTATATTTGATTAAATATAGTATT
192 ATACACTTATATTTGATTAAATATAGTATT
1325276 CATTTGAGTA
Statistics
Matches: 191, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
261 21 0.11
262 83 0.43
263 4 0.02
264 1 0.01
265 82 0.43
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (262 bp):
ATAATTCAAAAAAATAAATTGATTATATTTATACTTTCATTATTAACTTTAAATCACTCTCAATT
CAATTCATAGTAAAAGTACTAAAATTTTAAAAGAAAATTAATTTGACAAATAAAATCAATCAATA
TAAAATAAATAAATACTACAATTACAATTATAAAATAATAAATTCTCTAATCAATTATTTGATAC
ACTTATATTTGATTAAATATAGTATTAAGTAATTGATGTATTTCATATGTAAATATATAAAGCAA
AT
Found at i:1326040 original size:19 final size:20
Alignment explanation
Indices: 1326016--1326065 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
1326006 ATGGAATAAA
*
1326016 ATATTTTATTAATTA-ATTT
1 ATATTTCATTAATTAGATTT
* *
1326035 ATATTTGATT-GTTAGATTT
1 ATATTTCATTAATTAGATTT
1326054 ATATTTCATTAA
1 ATATTTCATTAA
1326066 ATATGATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
ATATTTCATTAATTAGATTT
Found at i:1326150 original size:31 final size:32
Alignment explanation
Indices: 1326080--1326153 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
1326070 GATTTCATTT
* * * *
1326080 GATTTAATTTGGTAAAATATTAATACATGTTT
1 GATTTCATTTGATAAAATATTAATACACGTTG
*
1326112 GATTTCATTTGATAAAATATTAATGCACG-TG
1 GATTTCATTTGATAAAATATTAATACACGTTG
1326143 GATTTCATTTG
1 GATTTCATTTG
1326154 TAATATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 12 0.32
32 25 0.68
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.45
Consensus pattern (32 bp):
GATTTCATTTGATAAAATATTAATACACGTTG
Found at i:1333854 original size:24 final size:24
Alignment explanation
Indices: 1333815--1333878 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
1333805 TTTTGCGTGA
*
1333815 ACAATT-TAA-AAATTTTTTAAAT
1 ACAATTATAATAACTTTTTTAAAT
* * *
1333837 ACAATTATATTAATTTTTTTAATT
1 ACAATTATAATAACTTTTTTAAAT
1333861 ACAATTATAATAACTTTT
1 ACAATTATAATAACTTTT
1333879 ATTATTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 6 0.17
23 2 0.06
24 27 0.77
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (24 bp):
ACAATTATAATAACTTTTTTAAAT
Found at i:1334016 original size:28 final size:28
Alignment explanation
Indices: 1333985--1334042 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1333975 AAACAATGAT
**
1333985 AAAAGTCATTATAATTGCGAA-TGAAAAA
1 AAAAGTCACAATAATTGC-AATTGAAAAA
*
1334013 AAAAGTTACAATAATTGCAATTGAAAAA
1 AAAAGTCACAATAATTGCAATTGAAAAA
1334041 AA
1 AA
1334043 TTTTTAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.24
Consensus pattern (28 bp):
AAAAGTCACAATAATTGCAATTGAAAAA
Found at i:1340200 original size:161 final size:161
Alignment explanation
Indices: 1339935--1340257 Score: 637
Period size: 161 Copynumber: 2.0 Consensus size: 161
1339925 CCAAATATTC
1339935 CCCATTATGGAAGTATCCTTGTTAGATCAGGCTTCTCAAACCAATTACGTTTTATGTTTGACTAT
1 CCCATTATGGAAGTATCCTTGTTAGATCAGGCTTCTCAAACCAATTACGTTTTATGTTTGACTAT
1340000 GACCTAATGCTTCATGGAAAGACATCAATGAAGTATAATGATTCAAAACTGGAATTCCTCAGAAT
66 GACCTAATGCTTCATGGAAAGACATCAATGAAGTATAATGATTCAAAACTGGAATTCCTCAGAAT
1340065 TGATTCAACCACTCTTAATTGCAAGTAATTT
131 TGATTCAACCACTCTTAATTGCAAGTAATTT
1340096 CCCATTATGGAAGTATCCTTGTTAGATCAGGCTTCTCAAACCAATTACGTTTTATGTTTGACTAT
1 CCCATTATGGAAGTATCCTTGTTAGATCAGGCTTCTCAAACCAATTACGTTTTATGTTTGACTAT
*
1340161 GACCTAATGCTTCATGGAAAGACATCAATGAAGTATAATGATTCAAAACTGGAATTCCTCGGAAT
66 GACCTAATGCTTCATGGAAAGACATCAATGAAGTATAATGATTCAAAACTGGAATTCCTCAGAAT
1340226 TGATTCAACCACTCTTAATTGCAAGTAATTT
131 TGATTCAACCACTCTTAATTGCAAGTAATTT
1340257 C
1 C
1340258 TGTTTCTTTT
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (161 bp):
CCCATTATGGAAGTATCCTTGTTAGATCAGGCTTCTCAAACCAATTACGTTTTATGTTTGACTAT
GACCTAATGCTTCATGGAAAGACATCAATGAAGTATAATGATTCAAAACTGGAATTCCTCAGAAT
TGATTCAACCACTCTTAATTGCAAGTAATTT
Found at i:1343522 original size:22 final size:22
Alignment explanation
Indices: 1343496--1343540 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1343486 TTATCAAATT
1343496 TTAAAATTTGATTAAATTTAAA
1 TTAAAATTTGATTAAATTTAAA
* * **
1343518 TTAAATTTTTATTTGATTTAAA
1 TTAAAATTTGATTAAATTTAAA
1343540 T
1 T
1343541 CGAATTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTAAAATTTGATTAAATTTAAA
Found at i:1343534 original size:27 final size:27
Alignment explanation
Indices: 1343501--1343567 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
1343491 AAATTTTAAA
*
1343501 ATTTGA-TTAAATTTAAATTAAATTTTT
1 ATTTGATTTAAA-TCAAATTAAATTTTT
*
1343528 ATTTGATTTAAATCGAATTAAATTTTATT
1 ATTTGATTTAAATCAAATTAAA-TTT-TT
1343557 AATTTGATTTA
1 -ATTTGATTTA
1343568 GTAGTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 14 0.41
28 8 0.24
29 2 0.06
30 10 0.29
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTTGATTTAAATCAAATTAAATTTTT
Found at i:1343612 original size:21 final size:21
Alignment explanation
Indices: 1343586--1343627 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1343576 TAATTTTTAA
1343586 TATTAT-TTTAATATAAAATTT
1 TATTATATTTAA-ATAAAATTT
1343607 TATTATATTTAAATAAAATTT
1 TATTATATTTAAATAAAATTT
1343628 AATATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATATTTAAATAAAATTT
Found at i:1347012 original size:35 final size:31
Alignment explanation
Indices: 1346968--1347040 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 31
1346958 GTTTTAAAAT
*
1346968 TTTATATTTAAATTTTATTGTACGTTAATTTAATTA
1 TTTA-ATTTAAATTTAATT-TA--TTAA-TTAATTA
1347004 TTTAATTTAAATTTAATTTATTAATTAATTA
1 TTTAATTTAAATTTAATTTATTAATTAATTA
1347035 TTTAAT
1 TTTAAT
1347041 AATATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 13 0.36
32 4 0.11
34 2 0.06
35 13 0.36
36 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTAATTTAAATTTAATTTATTAATTAATTA
Found at i:1359936 original size:23 final size:22
Alignment explanation
Indices: 1359910--1359973 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
1359900 TTTTATCAAA
1359910 TTTATTTATAATTTTTTAAAAAT
1 TTTATTTAT-ATTTTTTAAAAAT
* * * *
1359933 TTTAAATTATATTATTTTTATATT
1 TTT-ATTTATATT-TTTTAAAAAT
1359957 TTTATTTATATTTTTTA
1 TTTATTTATATTTTTTA
1359974 TATCAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 4 0.12
23 14 0.42
24 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTTATATTTTTTAAAAAT
Found at i:1359974 original size:13 final size:12
Alignment explanation
Indices: 1359939--1359971 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1359929 AAATTTTAAA
*
1359939 TTATATTATT-T
1 TTATATTTTTAT
1359950 TTATATTTTTAT
1 TTATATTTTTAT
1359962 TTATATTTTT
1 TTATATTTTT
1359972 TATATCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATATTTTTAT
Found at i:1366315 original size:18 final size:19
Alignment explanation
Indices: 1366292--1366332 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1366282 ATTGTTATTT
1366292 TATAAAAATT-TAAAAATA
1 TATAAAAATTATAAAAATA
1366310 TAT--AAATTCATAAAAATA
1 TATAAAAATT-ATAAAAATA
1366328 TATAA
1 TATAA
1366333 TTCAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.26
18 14 0.74
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:1380116 original size:15 final size:13
Alignment explanation
Indices: 1380075--1380108 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
1380065 AACAATCATG
1380075 TCTATCCTCCTTC
1 TCTATCCTCCTTC
1380088 TCT-TCCTCC-TC
1 TCTATCCTCCTTC
1380099 TCTATCCTCC
1 TCTATCCTCC
1380109 CATTCTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 12 0.60
13 3 0.15
ACGTcount: A:0.06, C:0.50, G:0.00, T:0.44
Consensus pattern (13 bp):
TCTATCCTCCTTC
Found at i:1385412 original size:19 final size:19
Alignment explanation
Indices: 1385367--1385416 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
1385357 GTATTGTTTA
*
1385367 TAATTTGATTTTAATTGAAT
1 TAATTTGA-TTAAATTGAAT
1385387 TAA-TTGATTAAATT-AATT
1 TAATTTGATTAAATTGAA-T
1385405 TAATTTGATTAA
1 TAATTTGATTAA
1385417 TAAGTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 10 0.37
19 12 0.44
20 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (19 bp):
TAATTTGATTAAATTGAAT
Found at i:1385530 original size:16 final size:16
Alignment explanation
Indices: 1385503--1385550 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
1385493 TAATCGAAAT
1385503 ATATATAAATAAATTAA
1 ATATA-AAATAAATTAA
* *
1385520 ATATAAAATAAAATAT
1 ATATAAAATAAATTAA
*
1385536 ATATAAAATAGATTA
1 ATATAAAATAAATTA
1385551 TTTTATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATATAAAATAAATTAA
Found at i:1386720 original size:5 final size:5
Alignment explanation
Indices: 1386707--1386770 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
1386697 TTATTTCTAG
* * *
1386707 AAAAT -AAAT AAAAT AAAAT GGAAAT AAAA- ATAAA- GAAAT AAATT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT
1386756 AAAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAA
1386771 AAGTATTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
4 8 0.17
5 31 0.65
6 9 0.19
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1386748 original size:30 final size:29
Alignment explanation
Indices: 1386712--1386769 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
1386702 TCTAGAAAAT
**
1386712 AAATAAAATAAAATGGAAATAAAAATAAAG
1 AAATAAAATAAAATAAAAAT-AAAATAAAG
*
1386742 AAATAAATTAAAATAAAAATAAAATAAA
1 AAATAAAATAAAATAAAAATAAAATAAA
1386770 AAAGTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (29 bp):
AAATAAAATAAAATAAAAATAAAATAAAG
Found at i:1386811 original size:3 final size:3
Alignment explanation
Indices: 1386792--1386861 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
1386782 AATTCTAATC
* * *
1386792 TAA TCAA TAA AAA TAA TAA TAA TAA CAA TAA TAA CAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1386838 TGA TAAA TAA -AA TAA TAA -AA TAA T
1 TAA T-AA TAA TAA TAA TAA TAA TAA T
1386862 GAAAAAAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
2 4 0.07
3 46 0.84
4 5 0.09
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:1387736 original size:21 final size:21
Alignment explanation
Indices: 1387708--1387827 Score: 91
Period size: 21 Copynumber: 5.7 Consensus size: 21
1387698 AAAGAAAATA
*
1387708 AAATAAAAA-AATTAATAGAT
1 AAATAAAAAGAAATAATAGAT
*
1387728 AATTAAAAAGAAATAATCAGAT
1 AAATAAAAAGAAATAAT-AGAT
* * * *
1387750 AAATGAAAA-TATTAACAGAT
1 AAATAAAAAGAAATAATAGAT
*
1387770 AAATAAAAATAAATAATAGAT
1 AAATAAAAAGAAATAATAGAT
* * * *
1387791 AAATTATAATATATAAATAGAT
1 AAATAAAAAGAAAT-AATAGAT
* *
1387813 AAATAATAATAAATA
1 AAATAAAAAGAAATA
1387828 CATATATATA
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
20 20 0.25
21 30 0.38
22 30 0.38
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.27
Consensus pattern (21 bp):
AAATAAAAAGAAATAATAGAT
Found at i:1387770 original size:42 final size:41
Alignment explanation
Indices: 1387708--1387794 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 41
1387698 AAAGAAAATA
* *
1387708 AAATAAAAAAATTAATAGATAATTAAAAAGAAATAATCAGAT
1 AAATAAAAAAATTAACAGATAAATAAAAAGAAATAAT-AGAT
* * *
1387750 AAATGAAAATATTAACAGATAAATAAAAATAAATAATAGAT
1 AAATAAAAAAATTAACAGATAAATAAAAAGAAATAATAGAT
1387791 AAAT
1 AAAT
1387795 TATAATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 8 0.20
42 32 0.80
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (41 bp):
AAATAAAAAAATTAACAGATAAATAAAAAGAAATAATAGAT
Found at i:1387812 original size:22 final size:21
Alignment explanation
Indices: 1387708--1387827 Score: 104
Period size: 22 Copynumber: 5.7 Consensus size: 21
1387698 AAAGAAAATA
1387708 AAATAA-AA-AAATTAATAGAT
1 AAATAATAATAAA-TAATAGAT
* * *
1387728 AATTAAAAAGAAATAATCAGAT
1 AAATAATAATAAATAAT-AGAT
* *
1387750 AAATGAA-AAT-ATTAACAGAT
1 AAAT-AATAATAAATAATAGAT
*
1387770 AAATAAAAATAAATAATAGAT
1 AAATAATAATAAATAATAGAT
* *
1387791 AAATTATAATATATAAATAGAT
1 AAATAATAATAAAT-AATAGAT
1387813 AAATAATAATAAATA
1 AAATAATAATAAATA
1387828 CATATATATA
Statistics
Matches: 81, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
19 2 0.02
20 16 0.20
21 30 0.37
22 31 0.38
23 2 0.02
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.27
Consensus pattern (21 bp):
AAATAATAATAAATAATAGAT
Found at i:1387824 original size:43 final size:42
Alignment explanation
Indices: 1387721--1387827 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 42
1387711 TAAAAAAATT
* * *
1387721 AATAGATAATTAAAAAGAAATAATCAGATAAATGAAAATATT
1 AATAGATAAATAAAAATAAATAATCAGATAAATGAAAATATA
* *
1387763 AACAGATAAATAAAAATAAATAAT-AGATAAATTATAATATATA
1 AATAGATAAATAAAAATAAATAATCAGATAAATGA-AA-ATATA
*
1387806 AATAGATAAATAATAATAAATA
1 AATAGATAAATAAAAATAAATA
1387828 CATATATATA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
41 9 0.16
42 23 0.41
43 24 0.43
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (42 bp):
AATAGATAAATAAAAATAAATAATCAGATAAATGAAAATATA
Found at i:1387842 original size:37 final size:37
Alignment explanation
Indices: 1387768--1387871 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 37
1387758 ATATTAACAG
*
1387768 ATAAATA-A-AAATAAATAATAGATAAAT-TATAATAT
1 ATAAATAGATAAAT-AATAATAAATAAATATATAATAT
*
1387803 ATAAATAGATAAATAATAATAAATACATATAT-ATAAT
1 ATAAATAGATAAATAATAATAAATAAATATATAAT-AT
* * * *
1387840 ATAAATAGCTAAGTATTAATAAATATATATAT
1 ATAAATAGATAAATAATAATAAATAAATATAT
1387872 TGACATAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
35 7 0.12
36 15 0.25
37 37 0.63
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (37 bp):
ATAAATAGATAAATAATAATAAATAAATATATAATAT
Found at i:1387843 original size:22 final size:20
Alignment explanation
Indices: 1387738--1387843 Score: 79
Period size: 22 Copynumber: 5.0 Consensus size: 20
1387728 AATTAAAAAG
*
1387738 AAATAATCAGATAAATGAAAAT
1 AAATAAT-AGATAAAT-ATAAT
* * *
1387760 -ATTAACAGATAAATAAAAAT
1 AAATAATAGATAAAT-ATAAT
1387780 AAATAATAGATAAATTATAAT
1 AAATAATAGATAAA-TATAAT
*
1387801 ATATAAATAGATAAATAATAAT
1 AAAT-AATAGATAAAT-ATAAT
*
1387823 AAATACATATATATAATATAA
1 AAATA-ATAGATA-AATATAA
1387844 ATAGCTAAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.19
21 24 0.35
22 29 0.42
23 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
AAATAATAGATAAATATAAT
Found at i:1387966 original size:24 final size:24
Alignment explanation
Indices: 1387934--1387984 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1387924 GAAAAATATA
1387934 AAATATAAAATA-AAAACAAAAAAT
1 AAATAT-AAATACAAAACAAAAAAT
* *
1387958 AAATATAAATACAAAATACAAAAT
1 AAATATAAATACAAAACAAAAAAT
1387982 AAA
1 AAA
1387985 ATGGGCCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (24 bp):
AAATATAAATACAAAACAAAAAAT
Found at i:1388304 original size:42 final size:40
Alignment explanation
Indices: 1388171--1388584 Score: 304
Period size: 41 Copynumber: 9.9 Consensus size: 40
1388161 ATCAAAACTC
* * *
1388171 CTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAACA-ATGCT
1 CTCTAATCAGAGGCTCAACGACTTTG-AAAA-GTAAA-AGA--CT
1388215 CTTCTAATCAGAGGCTC-ACGACTTTGAAAA-TAACTAA-AGCTT
1 C-TCTAATCAGAGGCTCAACGACTTTGAAAAGTAA--AAGA-C-T
*
1388257 CTCTAATTAGAGGCTCAACGACTTTTGAAAAGTAAAAGACT
1 CTCTAATCAGAGGCTCAACGAC-TTTGAAAAGTAAAAGACT
* * *
1388298 CATCTAATCCGAGGCTCAATGACTTTGAAAA-TAAATAAAGCT
1 C-TCTAATCAGAGGCTCAACGACTTTGAAAAGTAAA-AGA-CT
* * *
1388340 CTTCTAATCAGAGGCTCAATGACTTTTGAAAAGTAAATGGCT
1 C-TCTAATCAGAGGCTCAACGAC-TTTGAAAAGTAAAAGACT
* * *
1388382 CATCTAATCAGAGGCTCAACAACTTTGAAAAATAAACAAAGCT
1 C-TCTAATCAGAGGCTCAACGACTTTGAAAAGTAAA-AGA-CT
* *
1388425 CCTCTAATTAGAGGCTCAACGACTTTTGAAAAGTAAATGACT
1 -CTCTAATCAGAGGCTCAACGAC-TTTGAAAAGTAAAAGACT
* * * *
1388467 CCTCTAATCAAAGGCTCAACAACTTTGAAAAGTAAATGGCTT
1 -CTCTAATCAGAGGCTCAACGACTTTGAAAAGTAAAAGAC-T
* * *
1388509 CTCTAATTAGAGGCATC-ACAACTTTGAAAAGTAAATTG-CT
1 CTCTAATCAGAGGC-TCAACGACTTTGAAAAGTAAA-AGACT
* * *
1388549 CCTCTAAACAGAGGCATC-ACAACTTTGGAAAGTAAA
1 -CTCTAATCAGAGGC-TCAACGACTTTGAAAAGTAAA
1388585 TTGCTTATTG
Statistics
Matches: 316, Mismatches: 33, Indels: 45
0.80 0.08 0.11
Matches are distributed among these distances:
40 5 0.02
41 122 0.39
42 102 0.32
43 44 0.14
44 29 0.09
45 14 0.04
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (40 bp):
CTCTAATCAGAGGCTCAACGACTTTGAAAAGTAAAAGACT
Found at i:1388347 original size:84 final size:84
Alignment explanation
Indices: 1388209--1388585 Score: 457
Period size: 84 Copynumber: 4.5 Consensus size: 84
1388199 AAACATAAAC
* * *
1388209 AATG-CTCTTCTAATCAGAGGCTC-ACGACTTTGAAAATAACTAAAGCTTCTCTAATTAGAGGCT
1 AATGACTCATCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAGCTTCTCTAATTAGAGGCT
1388272 CAACGACTTTTGAAAAGTA
66 CAACGACTTTTGAAAAGTA
* * ** *
1388291 AAAGACTCATCTAATCCGAGGCTCAATGACTTTGAAAATAAATAAAGC-TCTTCTAATCAGAGGC
1 AATGACTCATCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAGCTTC-TCTAATTAGAGGC
*
1388355 TCAATGACTTTTGAAAAGTA
65 TCAACGACTTTTGAAAAGTA
* * *
1388375 AATGGCTCATCTAATCAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTCCTCTAATTAGAGGC
1 AATGACTCATCTAATCAGAGGCTCAACAACTTTG-AAAATAAATAAAGCTTCTCTAATTAGAGGC
1388440 TCAACGACTTTTGAAAAGTA
65 TCAACGACTTTTGAAAAGTA
* * *
1388460 AATGACTCCTCTAATCAAAGGCTCAACAACTTTGAAAAGTAAAT--GGCTTCTCTAATTAGAGGC
1 AATGACTCATCTAATCAGAGGCTCAACAACTTTGAAAA-TAAATAAAGCTTCTCTAATTAGAGGC
*
1388523 ATC-ACAAC-TTTGAAAAGTA
65 -TCAACGACTTTTGAAAAGTA
* * *
1388542 AATTG-CTCCTCTAAACAGAGGCATC-ACAACTTTGGAAAGTAAAT
1 AA-TGACTCATCTAATCAGAGGC-TCAACAACTTT-GAAAATAAAT
1388586 TGCTTATTGA
Statistics
Matches: 259, Mismatches: 26, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
82 44 0.17
83 48 0.19
84 87 0.34
85 79 0.31
86 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (84 bp):
AATGACTCATCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAGCTTCTCTAATTAGAGGCT
CAACGACTTTTGAAAAGTA
Found at i:1389574 original size:10 final size:10
Alignment explanation
Indices: 1389546--1389594 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
1389536 CCTTAAGTCC
*
1389546 TCATTTTTCAT
1 TCATTTTT-TT
*
1389557 TCACTTTTTT
1 TCATTTTTTT
1389567 TCATTTTTTT
1 TCATTTTTTT
1389577 TCA-TTTTTT
1 TCATTTTTTT
1389586 TCATTTTTT
1 TCATTTTTT
1389595 CTTTTTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 9 0.26
10 18 0.53
11 7 0.21
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (10 bp):
TCATTTTTTT
Found at i:1389575 original size:8 final size:8
Alignment explanation
Indices: 1389562--1389622 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
1389552 TTCATTCACT
1389562 TTTTTTCA
1 TTTTTTCA
1389570 TTTTTTTTCA
1 --TTTTTTCA
1389580 TTTTTTTCA
1 -TTTTTTCA
1389589 TTTTTTC-
1 TTTTTTCA
1389596 -TTTTTCA
1 TTTTTTCA
1389603 -TTTTT-A
1 TTTTTTCA
*
1389609 TTTTTTTA
1 TTTTTTCA
1389617 TTTTTT
1 TTTTTT
1389623 AAGCATAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
6 7 0.15
7 10 0.21
8 14 0.29
9 9 0.19
10 8 0.17
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1389575 original size:9 final size:9
Alignment explanation
Indices: 1389546--1389594 Score: 62
Period size: 9 Copynumber: 5.0 Consensus size: 9
1389536 CCTTAAGTCC
1389546 TCATTTTTCAT
1 TCATTTTT--T
1389557 TCACTTTTTT
1 TCA-TTTTTT
1389567 TCATTTTTTT
1 TCA-TTTTTT
1389577 TCATTTTTT
1 TCATTTTTT
1389586 TCATTTTTT
1 TCATTTTTT
1389595 CTTTTTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 15 0.42
10 13 0.36
11 3 0.08
12 5 0.14
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (9 bp):
TCATTTTTT
Found at i:1389585 original size:19 final size:20
Alignment explanation
Indices: 1389546--1389594 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
1389536 CCTTAAGTCC
*
1389546 TCATTTTTCATTCACTTTTTT
1 TCATTTTT-TTTCACTTTTTT
1389567 TCATTTTTTTTCA-TTTTTT
1 TCATTTTTTTTCACTTTTTT
1389586 TCATTTTTT
1 TCATTTTTT
1389595 CTTTTTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.56
20 4 0.15
21 8 0.30
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (20 bp):
TCATTTTTTTTCACTTTTTT
Found at i:1389601 original size:14 final size:13
Alignment explanation
Indices: 1389580--1389622 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
1389570 TTTTTTTTCA
1389580 TTTTTTTCATTTT
1 TTTTTTTCATTTT
1389593 TTCTTTTTCATTTT
1 TT-TTTTTCATTTT
*
1389607 TATTTTTTTATTTT
1 T-TTTTTTCATTTT
1389621 TT
1 TT
1389623 AAGCATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 23 0.85
15 1 0.04
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTCATTTT
Found at i:1389621 original size:9 final size:9
Alignment explanation
Indices: 1389561--1389622 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
1389551 TTTCATTCAC
*
1389561 TTTTTTTCA
1 TTTTTTTTA
1389570 TTTTTTTTCA
1 TTTTTTTT-A
*
1389580 TTTTTTTCA
1 TTTTTTTTA
1389589 TTTTTTCTT-
1 TTTTTT-TTA
1389598 TTTCATTTTTA
1 TTT--TTTTTA
1389609 -TTTTTTTA
1 TTTTTTTTA
1389617 TTTTTT
1 TTTTTT
1389623 AAGCATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 6 0.14
9 22 0.50
10 13 0.30
11 3 0.07
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:1400812 original size:58 final size:56
Alignment explanation
Indices: 1400745--1401014 Score: 330
Period size: 58 Copynumber: 4.7 Consensus size: 56
1400735 TTGTATAGAA
* *
1400745 AAAATTGATACTTTCAGCTTTTCCTCAAAAATATTTTTTAAAAACTTTAATTTTGAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAA-TTTAATTTTAAG
* * * *
1400802 AAAATTTGATACTTTCAACTTTTTCTCAAAAATCTATTTTTGAAAATTTATTTTTAAAG
1 AAAA-TTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTAAAAATTTAATTTT-AAG
* *
1400861 AAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTAAAAACTTTAATTTCGAAG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTAAAAA-TTTAATTT-TAAG
* *
1400919 AAAATCGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAAAATT--TTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTT-AAAAATTTAATTTTAAG
1400976 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
1401015 CTTTTGAATT
Statistics
Matches: 186, Mismatches: 16, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
56 7 0.04
57 17 0.09
58 131 0.70
59 16 0.09
60 10 0.05
61 5 0.03
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTAATTTTAAG
Found at i:1400929 original size:116 final size:116
Alignment explanation
Indices: 1400744--1401014 Score: 415
Period size: 116 Copynumber: 2.3 Consensus size: 116
1400734 TTTGTATAGA
* * *
1400744 AAAAATTGATACTTTCAGCTTTTCCTCAAAAATATTTTTTAAAAACTTTAATTTTGAGAAAATTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAACTTTAATTTCGAGAAAATTC
* *
1400809 GATACTTTCAACTTTTTCTCAAAAATCTA-TTTTTGAAAATTTATTTTTAAAG
66 GATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAA--AATTTTTAAAG
*
1400861 -AAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTAAAAACTTTAATTTCGAAGAAAA-
1 AAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTAAAAACTTTAATTTCG-AGAAAAT
*
1400923 TCGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAAAATTTTTTAAG
64 TCGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAAAATTTTTAAAG
1400976 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
1401015 CTTTTGAATT
Statistics
Matches: 141, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
115 10 0.07
116 114 0.81
117 17 0.12
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAACTTTAATTTCGAGAAAATTC
GATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAAAATTTTTAAAG
Found at i:1401115 original size:3 final size:3
Alignment explanation
Indices: 1401107--1401146 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
1401097 CTAATAAATA
*
1401107 AAT AAT AAT AAT AAC AAT AAT AAT AAAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AA
1401147 AAAAATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:1401125 original size:9 final size:9
Alignment explanation
Indices: 1401098--1401152 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
1401088 AATTCTAATC
*
1401098 TAATAAATA
1 TAATAAAAA
*
1401107 -AATAATAA
1 TAATAAAAA
*
1401115 TAATAACAA
1 TAATAAAAA
1401124 TAATAATAAA
1 TAATAA-AAA
1401134 TAATAAATAA
1 TAATAAA-AA
1401144 TAA-AAAAA
1 TAATAAAAA
1401152 T
1 T
1401153 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 9 0.23
9 17 0.44
10 13 0.33
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAATAAAAA
Found at i:1401137 original size:7 final size:7
Alignment explanation
Indices: 1401103--1401147 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
1401093 TAATCTAATA
1401103 AATAAAT
1 AATAAAT
1401110 AAT-AAT
1 AATAAAT
*
1401116 AAT-AAC
1 AATAAAT
1401122 AAT-AAT
1 AATAAAT
1401128 AATAAAT
1 AATAAAT
1401135 AATAAAT
1 AATAAAT
1401142 AATAAA
1 AATAAA
1401148 AAAATGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 16 0.46
7 19 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:1402004 original size:20 final size:20
Alignment explanation
Indices: 1401976--1402094 Score: 78
Period size: 21 Copynumber: 5.7 Consensus size: 20
1401966 AGAAAATAAA
*
1401976 ATAAA-AAAAATATTAATAG
1 ATAAATAAAAATAATAATAG
* *
1401995 ATAATTAAAAAAGAAATAATTAG
1 ATAAAT-AAAAA-TAATAA-TAG
* * *
1402018 ATAAATGAAAATATTAACAG
1 ATAAATAAAAATAATAATAG
1402038 ATAAATAAAAATAAATAATAG
1 ATAAATAAAAAT-AATAATAG
* * * *
1402059 ATCAATTATAATGTATAAATAG
1 ATAAATAAAAAT-AAT-AATAG
*
1402081 ATAAATAATAATAA
1 ATAAATAAAAATAA
1402095 ATACATATAT
Statistics
Matches: 75, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
19 4 0.05
20 13 0.17
21 27 0.36
22 23 0.31
23 8 0.11
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
ATAAATAAAAATAATAATAG
Found at i:1402094 original size:39 final size:38
Alignment explanation
Indices: 1402038--1402145 Score: 109
Period size: 39 Copynumber: 2.9 Consensus size: 38
1402028 ATATTAACAG
*
1402038 ATAAATAA-AAAT-A-AATAATAGATCA-AT-TATAATGT
1 ATAAATAATAAATAATAATAA-AGA-CATATATATAATAT
*
1402073 ATAAATAGATAAATAATAATAAATACATATATATAATAT
1 ATAAATA-ATAAATAATAATAAAGACATATATATAATAT
* *
1402112 ATAAATAACTAAGTAATAATAAATACATATATAT
1 ATAAATAA-TAAATAATAATAAAGACATATATAT
1402146 TGACATAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
35 7 0.11
36 1 0.02
37 6 0.10
38 6 0.10
39 43 0.68
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (38 bp):
ATAAATAATAAATAATAATAAAGACATATATATAATAT
Found at i:1402097 original size:4 final size:4
Alignment explanation
Indices: 1402073--1402255 Score: 64
Period size: 4 Copynumber: 46.5 Consensus size: 4
1402063 ATTATAATGT
* * * *
1402073 ATAA ATAG ATAA AT-A AT-A ATAA ATAC ATAT ATATA ATAT ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA
* * * * * * *
1402120 CTAA GT-A AT-A ATAA ATAC ATAT AT-A TTGAC ATAA AAAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA
* *
1402166 ATAA ATAA A-CA ATAA ATAC ATAA GATACA A-AA A-AA TATAA ATATA
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATA-A ATAA ATAA -ATAA ATA-A
* * * *
1402211 A-AT ATAA AAAA ATAA A-AT ATAA ATAAA ATAC A-AA ATAAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA AT-AA ATAA AT
1402256 CTATCTATTT
Statistics
Matches: 132, Mismatches: 31, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
3 23 0.17
4 88 0.67
5 20 0.15
6 1 0.01
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:1402169 original size:39 final size:38
Alignment explanation
Indices: 1402081--1402174 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
1402071 GTATAAATAG
* *
1402081 ATAAATAATAATAAATACATATATATAATATATAAATAA
1 ATAAATAATAATAAATACATATATAT-ATACATAAAAAA
* *
1402120 CTAAGTAATAATAAATACATATATAT-TGACATAAAAAA
1 ATAAATAATAATAAATACATATATATAT-ACATAAAAAA
1402158 ATAAATAAATAAATAAA
1 ATAAAT-AAT-AATAAA
1402175 CAATAAATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
37 1 0.02
38 12 0.26
39 27 0.59
40 6 0.13
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (38 bp):
ATAAATAATAATAAATACATATATATATACATAAAAAA
Found at i:1402188 original size:27 final size:27
Alignment explanation
Indices: 1402158--1402255 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 27
1402148 ACATAAAAAA
1402158 ATAAAT-AAATAAATAAACAATAAATAC
1 ATAAATAAAATAAATAAA-AATAAATAC
*
1402185 ATAAGATACAAAAAAATATAAATATAAAT--
1 ATAA-ATA-AAATAAATA-AAA-ATAAATAC
*
1402214 ATAAA-AAAATAAAATATAAATAAAATAC
1 ATAAATAAAAT-AAATAAAAAT-AAATAC
1402242 A-AAATAAAATAAAT
1 ATAAATAAAATAAAT
1402256 CTATCTATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
25 2 0.03
26 9 0.16
27 17 0.29
28 9 0.16
29 4 0.07
30 9 0.16
31 8 0.14
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.22
Consensus pattern (27 bp):
ATAAATAAAATAAATAAAAATAAATAC
Found at i:1402209 original size:6 final size:6
Alignment explanation
Indices: 1402198--1402255 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
1402188 AGATACAAAA
*
1402198 AAATAT AAATAT AAATAT AAA-A- AAATA- AAATAT AAATA- AAATAC
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
1402242 AAA-AT AAA-AT AAAT
1 AAATAT AAATAT AAAT
1402256 CTATCTATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
4 3 0.06
5 21 0.45
6 23 0.49
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (6 bp):
AAATAT
Found at i:1402221 original size:21 final size:21
Alignment explanation
Indices: 1402150--1402252 Score: 88
Period size: 23 Copynumber: 4.8 Consensus size: 21
1402140 ATATATTGAC
1402150 ATAAAAAAAT--AA-ATAAAT
1 ATAAAAAAATAAAATATAAAT
*
1402168 A-AATAAACAATAAATACATAAGAT
1 ATAA-AAA-AATAAA-ATATAA-AT
*
1402192 ACAAAAAAATATAAATATAAAT
1 ATAAAAAAATA-AAATATAAAT
1402214 ATAAAAAAATAAAATATAAAT
1 ATAAAAAAATAAAATATAAAT
*
1402235 AAAATACAAAATAAAATA
1 ATAA-A-AAAATAAAATA
1402253 AATCTATCTA
Statistics
Matches: 71, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.03
18 4 0.06
19 3 0.04
21 14 0.20
22 14 0.20
23 24 0.34
24 8 0.11
25 2 0.03
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (21 bp):
ATAAAAAAATAAAATATAAAT
Found at i:1403377 original size:19 final size:19
Alignment explanation
Indices: 1403355--1403392 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1403345 TCGAGATAGA
1403355 AAAATAGA-AAAGTGAAGAG
1 AAAATAGAGAAAG-GAAGAG
*
1403374 AAAATTGAGAAAGGAAGAG
1 AAAATAGAGAAAGGAAGAG
1403393 GATCATGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (19 bp):
AAAATAGAGAAAGGAAGAG
Found at i:1410238 original size:5 final size:5
Alignment explanation
Indices: 1410228--1410258 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1410218 AAATATTTAC
1410228 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG A
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG A
1410259 TAAAAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:1426217 original size:32 final size:32
Alignment explanation
Indices: 1426176--1426241 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
1426166 GGTGTTTTAC
1426176 TTAGATTATTCCTTTTTGATTTATCATCTAAT
1 TTAGATTATTCCTTTTTGATTTATCATCTAAT
*
1426208 TTAGATTATTCCTTTTTTATTTATCATCTAAT
1 TTAGATTATTCCTTTTTGATTTATCATCTAAT
1426240 TT
1 TT
1426242 CTTGTTTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAGATTATTCCTTTTTGATTTATCATCTAAT
Found at i:1437461 original size:230 final size:230
Alignment explanation
Indices: 1437058--1437515 Score: 864
Period size: 230 Copynumber: 2.0 Consensus size: 230
1437048 CTCTAGTTGC
1437058 ATGCTTAGTTATGCATATTATACAAGCTTATAGGTGTATCTCTCAGATTTTTTATAAAATCAAAT
1 ATGCTTAGTTATGCATATTATACAAGCTTATAGGTGTATCTCTCAGATTTTTTATAAAATCAAAT
*
1437123 TTCTTACATGGAAATAACACCTTGTTATAGTTACCACTTCTAAACAGAACACGAACACATGAACG
66 TTCTTACATGGAAATAACACCTTGTTATAGGTACCACTTCTAAACAGAACACGAACACATGAACG
1437188 GATAGCATGTACAACGGAAAGATGTTTCCGTATTGCTTTATGCATATAATTATAATGAAATGTTA
131 GATAGCATGTACAACGGAAAGATGTTTCCGTATTGCTTTATGCATATAATTATAATGAAATGTTA
1437253 TCAGCTGACGTGTTTAACATGACAGGAGCTTATAA
196 TCAGCTGACGTGTTTAACATGACAGGAGCTTATAA
*
1437288 ATGCTTAGTTATGCATATTATACAAGCTTGTAGGTGTATCTCTCAGATTTTTTTATAAAATCAAA
1 ATGCTTAGTTATGCATATTATACAAGCTTATAGGTGTATCTCTCAGA-TTTTTTATAAAATCAAA
*
1437353 TTTCTTACATGGAAAT-ACACCTTGTTATAGGTACCCCTTCTAAACAGAACACGAACACATGAAC
65 TTTCTTACATGGAAATAACACCTTGTTATAGGTACCACTTCTAAACAGAACACGAACACATGAAC
1437417 GGATAGCATGTACAACGGAAAGATGTTTCCGTATTGCTTTATGCATATAATTATAATGAAATGTT
130 GGATAGCATGTACAACGGAAAGATGTTTCCGTATTGCTTTATGCATATAATTATAATGAAATGTT
*
1437482 ATCAGCTGACTTGTTTAACATGACAGGAGCTTAT
195 ATCAGCTGACGTGTTTAACATGACAGGAGCTTAT
1437516 TGAAAATCTT
Statistics
Matches: 223, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
230 190 0.85
231 33 0.15
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (230 bp):
ATGCTTAGTTATGCATATTATACAAGCTTATAGGTGTATCTCTCAGATTTTTTATAAAATCAAAT
TTCTTACATGGAAATAACACCTTGTTATAGGTACCACTTCTAAACAGAACACGAACACATGAACG
GATAGCATGTACAACGGAAAGATGTTTCCGTATTGCTTTATGCATATAATTATAATGAAATGTTA
TCAGCTGACGTGTTTAACATGACAGGAGCTTATAA
Found at i:1438738 original size:8 final size:8
Alignment explanation
Indices: 1438725--1438752 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1438715 CATTGAATGA
1438725 TGAGCAAT
1 TGAGCAAT
1438733 TGAGCAAT
1 TGAGCAAT
1438741 TGAGCAAT
1 TGAGCAAT
1438749 TGAG
1 TGAG
1438753 TTGATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.25
Consensus pattern (8 bp):
TGAGCAAT
Found at i:1459494 original size:6 final size:6
Alignment explanation
Indices: 1459483--1459508 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1459473 ATTGCCTTTG
1459483 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
1459509 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:1465791 original size:30 final size:30
Alignment explanation
Indices: 1465757--1465825 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
1465747 AGTCTCATTT
1465757 CAAACCTTGTTTTCAAAGCACATCATGCAA
1 CAAACCTTGTTTTCAAAGCACATCATGCAA
1465787 CAAACCTTGTTTTCAAAGCACATCATGCAA
1 CAAACCTTGTTTTCAAAGCACATCATGCAA
1465817 CAAACCTTG
1 CAAACCTTG
1465826 ATTCACAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (30 bp):
CAAACCTTGTTTTCAAAGCACATCATGCAA
Found at i:1471667 original size:11 final size:11
Alignment explanation
Indices: 1471651--1471691 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
1471641 ATCGCATAAA
*
1471651 AGATTTATTTG
1 AGATTTGTTTG
*
1471662 AGATTTGTTAG
1 AGATTTGTTTG
*
1471673 AGATTTGTTTA
1 AGATTTGTTTG
1471684 AGATTTGT
1 AGATTTGT
1471692 CAGATATTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:1471773 original size:52 final size:52
Alignment explanation
Indices: 1471716--1471872 Score: 136
Period size: 52 Copynumber: 3.0 Consensus size: 52
1471706 TGGACAAGAA
* *
1471716 GACTTGCAAAAAAAAAATTCTAAGA-GAAAGATAATTCTTAATAAGTAAGTTT
1 GACTTGCAAAAAAAAAATTCTAAAATGAAAGA-AATTCTTAATAAGCAAGTTT
* * * * *
1471768 GACTTGCAAGAGAAGAATTCTAAAATGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAAAAAAATTCTAAAATGAAAGAAATTCTTAATAAGCAAGTTT
* * * * * * * * ** *
1471820 AACTTACAAGAGAAGAATTTTAAGATGAGAGGCATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAAAAAAATTCTAAAATGAAAGAAATTCTTAATAAGCAAGTTT
1471872 G
1 G
1471873 TATGGTTATA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 83 0.93
53 6 0.07
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (52 bp):
GACTTGCAAAAAAAAAATTCTAAAATGAAAGAAATTCTTAATAAGCAAGTTT
Found at i:1475369 original size:2 final size:2
Alignment explanation
Indices: 1475362--1475395 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1475352 GCTTCAATTC
1475362 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
1475396 TCATACCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1476764 original size:34 final size:35
Alignment explanation
Indices: 1476699--1476767 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
1476689 TTTTTAGATT
1476699 TAATTTTTATATAAAAATAATTTTTTAATATTTTA
1 TAATTTTTATATAAAAATAATTTTTTAATATTTTA
* *
1476734 TAATTTTTTTA-AAAAATTATTATTTT-ATATTTTA
1 TAATTTTTATATAAAAATAATT-TTTTAATATTTTA
1476768 AAAATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TAATTTTTATATAAAAATAATTTTTTAATATTTTA
Found at i:1476766 original size:23 final size:23
Alignment explanation
Indices: 1476740--1476805 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
1476730 TTTATAATTT
1476740 TTTTAAAAAATTATTATTTTATA
1 TTTTAAAAAATTATTATTTTATA
* **
1476763 TTTTAAAAATATT-TAACATTATA
1 TTTTAAAAA-ATTATTATTTTATA
1476786 TTTTAATAAAA--ATTATTTTA
1 TTTTAA-AAAATTATTATTTTA
1476806 AATTACAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 5 0.15
23 23 0.68
24 6 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTAAAAAATTATTATTTTATA
Found at i:1483405 original size:4 final size:4
Alignment explanation
Indices: 1483396--1483428 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1483386 GATTTCGTTC
1483396 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1483429 CAACATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:1490230 original size:15 final size:15
Alignment explanation
Indices: 1490210--1490239 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1490200 TAGACTTACA
*
1490210 CTTATGATAAAGATT
1 CTTATGACAAAGATT
1490225 CTTATGACAAAGATT
1 CTTATGACAAAGATT
1490240 AATAGTATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (15 bp):
CTTATGACAAAGATT
Found at i:1494299 original size:2 final size:2
Alignment explanation
Indices: 1494292--1494328 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1494282 CTTTCCCCAC
*
1494292 TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1494329 GCCCTGTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1498879 original size:2 final size:2
Alignment explanation
Indices: 1498872--1498912 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1498862 CCTTTATATT
1498872 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1498913 ATATATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1498917 original size:2 final size:2
Alignment explanation
Indices: 1498912--1498942 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1498902 TCTCTCTCTC
1498912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1498943 TTCCTTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1499295 original size:2 final size:2
Alignment explanation
Indices: 1499288--1499321 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1499278 TCATAATCTA
*
1499288 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1499322 ATAACATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1499395 original size:25 final size:23
Alignment explanation
Indices: 1499367--1499445 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 23
1499357 TTTCTACGTG
1499367 GATAATTTTTTTAAATGACACATAA
1 GATAATTTTTTTAAAT-ACA-ATAA
1499392 GATAATTTTTTTAAA-A-AATAA
1 GATAATTTTTTTAAATACAATAA
* *
1499413 GATAATTTTTTTAATTACAAATTA
1 GATAATTTTTTTAAATAC-AATAA
1499437 GATAATTTT
1 GATAATTTT
1499446 AAATTTATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
21 18 0.37
22 2 0.04
23 1 0.02
24 13 0.27
25 15 0.31
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (23 bp):
GATAATTTTTTTAAATACAATAA
Found at i:1499746 original size:30 final size:30
Alignment explanation
Indices: 1499701--1499773 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
1499691 AAATTATCTT
*
1499701 TTTAACAAA-TTTATGTAAGATATTAAAAA
1 TTTAAAAAATTTTATGTAAGATATTAAAAA
** * *
1499730 TTTAAGTAATTTTATGTAAGATTTTGAAAA
1 TTTAAAAAATTTTATGTAAGATATTAAAAA
1499760 TTTAAAAAATTTTA
1 TTTAAAAAATTTTA
1499774 AACTTAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 7 0.19
30 30 0.81
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.44
Consensus pattern (30 bp):
TTTAAAAAATTTTATGTAAGATATTAAAAA
Found at i:1503896 original size:26 final size:27
Alignment explanation
Indices: 1503867--1503930 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
1503857 TTTTTTTATA
*
1503867 TAAAATAAATTATAT-TTTTTA-AATTT
1 TAAAAT-AATTAAATATTTTTATAATTT
* *
1503893 TAAAATTATTAAATATTTTTATTATTT
1 TAAAATAATTAAATATTTTTATAATTT
1503920 TAAAA-AATTAA
1 TAAAATAATTAA
1503931 TTAAATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 6 0.19
26 17 0.53
27 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TAAAATAATTAAATATTTTTATAATTT
Found at i:1505469 original size:2 final size:2
Alignment explanation
Indices: 1505430--1505455 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1505420 CAATACAACT
1505430 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
1505456 CTTTTGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1509473 original size:13 final size:13
Alignment explanation
Indices: 1509455--1509479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1509445 TTTGGGAGGA
1509455 CCAAGTACTGAAC
1 CCAAGTACTGAAC
1509468 CCAAGTACTGAA
1 CCAAGTACTGAA
1509480 TCTTTGTCTT
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:0.40, C:0.28, G:0.16, T:0.16
Consensus pattern (13 bp):
CCAAGTACTGAAC
Found at i:1510621 original size:20 final size:20
Alignment explanation
Indices: 1510583--1510621 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1510573 TTTATATAAA
*
1510583 AAATAAAATAAAATTTAATC
1 AAATAAAATAAAATGTAATC
1510603 AAATAAATATAAAA-GTAAT
1 AAATAAA-ATAAAATGTAAT
1510622 AGTTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAATAAAATAAAATGTAATC
Found at i:1522988 original size:18 final size:18
Alignment explanation
Indices: 1522965--1523021 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
1522955 TAGTCTTGAT
1522965 TCTCTATCCATACCCTTC
1 TCTCTATCCATACCCTTC
*
1522983 TCTCTAT-CTTGA----T-
1 TCTCTATCCAT-ACCCTTC
1522996 TCTCTATCCATACCCTTC
1 TCTCTATCCATACCCTTC
1523014 TCTCTATC
1 TCTCTATC
1523022 TGATTTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 8 0.27
14 3 0.10
17 3 0.10
18 16 0.53
ACGTcount: A:0.16, C:0.39, G:0.02, T:0.44
Consensus pattern (18 bp):
TCTCTATCCATACCCTTC
Found at i:1522996 original size:31 final size:31
Alignment explanation
Indices: 1522958--1523026 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
1522948 TTTGTCTTAG
1522958 TCTTGATTCTCTATCCATACCCTTCTCTCTA
1 TCTTGATTCTCTATCCATACCCTTCTCTCTA
1522989 TCTTGATTCTCTATCCATACCCTTCTCTCTA
1 TCTTGATTCTCTATCCATACCCTTCTCTCTA
1523020 TC-TGATT
1 TCTTGATT
1523027 TACAAGGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.16, C:0.33, G:0.04, T:0.46
Consensus pattern (31 bp):
TCTTGATTCTCTATCCATACCCTTCTCTCTA
Found at i:1528477 original size:15 final size:16
Alignment explanation
Indices: 1528457--1528492 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1528447 TATTTAGATA
*
1528457 ATATTTT-ATAAATAT
1 ATATTTTAATAAACAT
1528472 ATATTTTAATAAACAT
1 ATATTTTAATAAACAT
1528488 ATATT
1 ATATT
1528493 AATTCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTTTAATAAACAT
Found at i:1544496 original size:20 final size:20
Alignment explanation
Indices: 1544443--1544488 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1544433 AAAATATTTT
* *
1544443 AATTTATTATTTAAATTTTA
1 AATTTAATATTTAAATTATA
*
1544463 AATATAATATTTAAATTATA
1 AATTTAATATTTAAATTATA
1544483 AATTTA
1 AATTTA
1544489 GTAATTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTAATATTTAAATTATA
Found at i:1544618 original size:17 final size:18
Alignment explanation
Indices: 1544598--1544636 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
1544588 TAGAATAACA
1544598 AAATATTAAA-AATAT-AT
1 AAATA-TAAATAATATAAT
1544615 AAATATAAATAATATAAT
1 AAATATAAATAATATAAT
1544633 AAAT
1 AAAT
1544637 TTCATCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 10 0.50
18 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAAATAATATAAT
Found at i:1544684 original size:27 final size:29
Alignment explanation
Indices: 1544645--1544702 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
1544635 ATTTCATCAC
1544645 AAAATAAACAATTTTT-ATTTAA-ATTTAA
1 AAAATAAACAATTTTTAATTTAATA-TTAA
*
1544673 AAAAT-AATAATTTTTAATTTAATATTAA
1 AAAATAAACAATTTTTAATTTAATATTAA
1544701 AA
1 AA
1544703 TTCTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 9 0.33
28 17 0.63
29 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
AAAATAAACAATTTTTAATTTAATATTAA
Found at i:1545755 original size:24 final size:24
Alignment explanation
Indices: 1545703--1545757 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
1545693 CGATTTAAAA
1545703 TTAATA-TAATAAATTTAATTTAT
1 TTAATATTAATAAATTTAATTTAT
1545726 TATAATATTAATAAAATATT-ATTT-T
1 T-TAATATTAAT-AAAT-TTAATTTAT
1545751 TTAATAT
1 TTAATAT
1545758 AAATTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
23 1 0.04
24 11 0.39
25 6 0.21
26 8 0.29
27 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAATATTAATAAATTTAATTTAT
Found at i:1545769 original size:17 final size:18
Alignment explanation
Indices: 1545723--1545772 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
1545713 AAATTTAATT
*
1545723 TATTATAATATTAATAAAA
1 TATTAT-ATTTTAATAAAA
* *
1545742 TATTATTTTTTAATATAA
1 TATTATATTTTAATAAAA
1545760 -ATTATATTTTAAT
1 TATTATATTTTAAT
1545773 TATATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 12 0.44
18 9 0.33
19 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATATTTTAATAAAA
Found at i:1545794 original size:45 final size:45
Alignment explanation
Indices: 1545711--1545799 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 45
1545701 AATTAATATA
* *
1545711 ATAAATTTAATTTATTATAATATTAATAAAATATTATTTTTTAAT
1 ATAAATTTAATTTATTATAATATAAATAAAATATTATTTATTAAT
* * *
1545756 ATAAATTATATTTTAATTAT-ATATAAATATATTA-TATTTATTAA
1 ATAAATT-TAATTT-ATTATAATATAAATAAAATATTATTTATTAA
1545800 ATTGATATCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
45 16 0.43
46 16 0.43
47 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (45 bp):
ATAAATTTAATTTATTATAATATAAATAAAATATTATTTATTAAT
Found at i:1545851 original size:29 final size:26
Alignment explanation
Indices: 1545809--1545880 Score: 67
Period size: 29 Copynumber: 2.7 Consensus size: 26
1545799 AATTGATATC
1545809 TTAAATTAAA-ATATTAAATAATAAAT
1 TTAAA-TAAATATATTAAATAATAAAT
* **
1545835 TTATTAATATAATATATAAAATTTTAAAT
1 TTA--AATA-AATATATTAAATAATAAAT
1545864 TTAAATAAATA-ATTAAA
1 TTAAATAAATATATTAAA
1545881 AAACTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
25 5 0.13
26 7 0.18
27 6 0.16
28 4 0.11
29 16 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAAATAAATATATTAAATAATAAAT
Found at i:1560186 original size:24 final size:24
Alignment explanation
Indices: 1560159--1560204 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1560149 TTATTTTTAC
1560159 TTATTAAAAAATCAATTAATTCAA
1 TTATTAAAAAATCAATTAATTCAA
*
1560183 TTATTAAAAAATTAATTAATTC
1 TTATTAAAAAATCAATTAATTC
1560205 GATCAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (24 bp):
TTATTAAAAAATCAATTAATTCAA
Found at i:1567941 original size:13 final size:14
Alignment explanation
Indices: 1567918--1567950 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
1567908 AAATATTAAT
1567918 TTTAATAAAATTTA
1 TTTAATAAAATTTA
1567932 TTTAAT-AAATTTA
1 TTTAATAAAATTTA
1567945 TTTAAT
1 TTTAAT
1567951 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAATAAAATTTA
Found at i:1570665 original size:18 final size:18
Alignment explanation
Indices: 1570642--1570677 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1570632 TAGCTGCCAC
* *
1570642 AAAAAAATAGAAAAAAGA
1 AAAAAAAAAAAAAAAAGA
1570660 AAAAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAAGA
1570678 GCACTTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAAGA
Found at i:1582486 original size:23 final size:23
Alignment explanation
Indices: 1582450--1582493 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1582440 TTATTGTCAA
*
1582450 AAAAAAATGCAAAATAATTTTTT
1 AAAAAAATGCAAAAAAATTTTTT
**
1582473 AAAAAAATTTAAAAAAATTTT
1 AAAAAAATGCAAAAAAATTTT
1582494 ATTTTAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAAAAATGCAAAAAAATTTTTT
Found at i:1595983 original size:2 final size:2
Alignment explanation
Indices: 1595978--1596008 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1595968 CCCCCCCCCA
1595978 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1596009 AAAACACTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Done.