Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 49
Found at i:1423906 original size:33 final size:34
Alignment explanation
Indices: 1423858--1423930 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
1423848 ACTATCGCAA
** *
1423858 TGCGATTCTGTCGTTGCGATTTTC-ATTTCGCGT
1 TGCGATTCTGTCGTTGCGATAGTCAAATTCGCGT
1423891 TGCGATTCT-TGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CGTTGCGATAGTCAAATTCGCGT
1423925 TGCGAT
1 TGCGAT
1423931 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.57
34 14 0.40
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.40
Consensus pattern (34 bp):
TGCGATTCTGTCGTTGCGATAGTCAAATTCGCGT
Found at i:1423946 original size:20 final size:20
Alignment explanation
Indices: 1423903--1423967 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
1423893 CGATTCTTGC
** *
1423903 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCATTTTCGT
*
1423923 GTTGCGATAGTCATTTTTGT
1 GTTGCGATAGTCATTTTCGT
**
1423943 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
1423963 GTTGC
1 GTTGC
1423968 AATTTAAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.45
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1423972 original size:20 final size:20
Alignment explanation
Indices: 1423933--1423972 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1423923 GTTGCGATAG
* *
1423933 TCATTTTTGTGTTGCGATTT
1 TCATTTTCGTGTTGCAATTT
1423953 TCATTTTCGTGTTGCAATTT
1 TCATTTTCGTGTTGCAATTT
1423973 AAAGTTTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.57
Consensus pattern (20 bp):
TCATTTTCGTGTTGCAATTT
Found at i:1425855 original size:20 final size:20
Alignment explanation
Indices: 1425830--1426046 Score: 210
Period size: 20 Copynumber: 11.5 Consensus size: 20
1425820 AGAATAGTTT
1425830 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
1425850 ACTATCGCAACACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1425870 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
1425886 A--ATCGCAATACG-AAATG
1 ACTATCGCAATGCGAAAATG
**
1425903 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
1425919 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
1425937 ACTATCACAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1425957 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1425977 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1425997 ACTATCGTAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
1426017 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
1426037 ACTATCGCAA
1 ACTATCGCAA
1426047 CGAAAGAATC
Statistics
Matches: 171, Mismatches: 12, Indels: 28
0.81 0.06 0.13
Matches are distributed among these distances:
14 14 0.08
16 10 0.06
17 8 0.05
18 5 0.03
19 7 0.04
20 127 0.74
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:1425910 original size:33 final size:33
Alignment explanation
Indices: 1425853--1425933 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
1425843 GAAAATGACT
* ** * * *
1425853 ATCGCAACACGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATACG-AAATGAAAATCGCAACAACAAA
1425887 ATCGCAATACGAAATGAAAATCGCAACAACAAA
1 ATCGCAATACGAAATGAAAATCGCAACAACAAA
*
1425920 ATCGCAATGCGAAA
1 ATCGCAATACGAAA
1425934 ATGACTATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATACGAAATGAAAATCGCAACAACAAA
Found at i:1426118 original size:20 final size:20
Alignment explanation
Indices: 1426093--1426176 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
1426083 GATTCTCTCG
**
1426093 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1426113 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1426133 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1426153 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1426173 TTGC
1 TTGC
1426177 AATTTTGTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1426767 original size:18 final size:19
Alignment explanation
Indices: 1426728--1426769 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
1426718 CTCACCTGTC
1426728 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
1426749 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
1426767 ATC
1 ATC
1426770 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:1426830 original size:42 final size:43
Alignment explanation
Indices: 1426723--1426844 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 43
1426713 CCCGACTCAC
* * *
1426723 CTGTCATCGTTCAAGAGG--CCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTCCCT-CCCTACCATTCAAGAGGCCA
* **
1426765 CTATCATCCCTCAAGA-GTCCCCTCCC-ACCATTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCCCTACCATTCAAGAGGCCA
* * *
1426807 CTGTCATCGTTGAAGAGGTCCCT-CCTAACATTCTAGAG
1 CTGTCATCGTTCAAGAGGTCCCTCCCTACCATTCAAGAG
1426845 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
41 3 0.05
42 52 0.83
43 5 0.08
44 3 0.05
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
CTGTCATCGTTCAAGAGGTCCCTCCCTACCATTCAAGAGGCCA
Found at i:1428114 original size:14 final size:14
Alignment explanation
Indices: 1428095--1428130 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1428085 ATTGTTTAAT
1428095 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1428109 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1428123 TGATTTGT
1 TGATTTGT
1428131 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1428307 original size:20 final size:20
Alignment explanation
Indices: 1428279--1428367 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
1428269 GCGATTCTCT
*
1428279 CGTTACGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
1428299 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
1428319 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
1428339 TGTTGCGGTAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
1428359 CGTTGCGAT
1 CGTTGCGAT
1428368 TTCCATGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1430827 original size:24 final size:24
Alignment explanation
Indices: 1430800--1430853 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1430790 CTGAAAAATC
*
1430800 ATCAAAATCCTAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1430824 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1430848 ATCAAA
1 ATCAAA
1430854 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1430867 original size:24 final size:24
Alignment explanation
Indices: 1430816--1430867 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1430806 ATCCTAGTAT
** *
1430816 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
1430840 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
1430864 TGAC
1 TGAC
1430868 TAGTACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:1431720 original size:20 final size:20
Alignment explanation
Indices: 1431695--1431741 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
1431685 AAATTCAGTA
*
1431695 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
1431715 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
1431735 TTGCGAT
1 TTGCGAT
1431742 TTACGTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:1431751 original size:20 final size:20
Alignment explanation
Indices: 1431728--1431841 Score: 156
Period size: 20 Copynumber: 5.7 Consensus size: 20
1431718 CGATAGTCAG
1431728 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
1431748 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
1431768 ATTCGCGTTACGATTTACGT
1 ATTCGCGTTGCGATTTACGT
* * * **
1431788 AATCGCATTGCGATTTTCCAA
1 ATTCGCGTTGCGA-TTTACGT
1431809 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
1431829 ATTCGCATTGCGA
1 ATTCGCGTTGCGA
1431842 ATTAGGAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 65 0.81
21 15 0.19
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACGT
Found at i:1431757 original size:40 final size:38
Alignment explanation
Indices: 1431715--1431841 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 38
1431705 CAGAATCTCG
*
1431715 TTGCGATAGTCAGATTCGCGTTGCGATTTACGTATTCGCG
1 TTGCGAT--TCAGATTCGCGTTGCGATTTACGTATTCGCA
* * *
1431755 TTGCGATTTACGTATTCGCGTTACGATTTACGTAATCGCA
1 TTGCGATTCA-G-ATTCGCGTTGCGATTTACGTATTCGCA
*
1431795 TTGCGATTTTCCAAATTCGCGTTGCGATTTACGTATTCGCA
1 TTGCGA--TT-CAGATTCGCGTTGCGATTTACGTATTCGCA
1431836 TTGCGA
1 TTGCGA
1431842 ATTAGGAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
40 37 0.50
41 31 0.42
42 2 0.03
43 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (38 bp):
TTGCGATTCAGATTCGCGTTGCGATTTACGTATTCGCA
Found at i:1431863 original size:41 final size:41
Alignment explanation
Indices: 1431728--1431855 Score: 168
Period size: 41 Copynumber: 3.1 Consensus size: 41
1431718 CGATAGTCAG
* *
1431728 ATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACG-T
1 ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGAA
* * * *
1431768 ATTCGCGTTACGATTTACGTAATCGCATTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGAA
* *
1431809 ATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTAGGAA
1 ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGAA
*
1431850 AATCGC
1 ATTCGC
1431856 AATGCGATAG
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 34 0.46
41 40 0.54
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (41 bp):
ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGAA
Found at i:1431876 original size:61 final size:61
Alignment explanation
Indices: 1431748--1431882 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
1431738 CGATTTACGT
* * * * **
1431748 ATTCGCGTTGCGATTTACGTATTCGCGTTACGATTTACGTAATCGCATTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTACGTATTCGCATTACGAATTACGAAATCGCAATGCGATAGTCCAA
* *
1431809 ATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAATGCGATAGT-CAGA
1 ATTCGCGTTGCGATTTACGTATTCGCATTACGAATTACG-AAATCGCAATGCGATAGTCCA-A
1431871 A-TCGCGTTGCGA
1 ATTCGCGTTGCGA
1431883 ATCTGGAAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 48 0.75
62 16 0.25
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (61 bp):
ATTCGCGTTGCGATTTACGTATTCGCATTACGAATTACGAAATCGCAATGCGATAGTCCAA
Found at i:1432511 original size:14 final size:15
Alignment explanation
Indices: 1432484--1432520 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1432474 ATAAATTAGT
1432484 TAAAA-ATTTAAAAA
1 TAAAATATTTAAAAA
*
1432498 TAAATTATTT-AAAA
1 TAAAATATTTAAAAA
1432512 TAAAATATT
1 TAAAATATT
1432521 AATTGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATATTTAAAAA
Found at i:1432637 original size:12 final size:11
Alignment explanation
Indices: 1432622--1432662 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
1432612 TAAAATTTTC
*
1432622 TTTTAAATAAA
1 TTTTTAATAAA
*
1432633 TTTTTATTAAA
1 TTTTTAATAAA
*
1432644 TTTTTAATTAA
1 TTTTTAATAAA
1432655 TTTTTAAT
1 TTTTTAAT
1432663 TATGTGTTGT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTTAATAAA
Found at i:1434470 original size:31 final size:31
Alignment explanation
Indices: 1434432--1434526 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
1434422 GAACCTCGGC
* *
1434432 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
1434463 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
1434494 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
1434525 AA
1 AA
1434527 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:1435291 original size:64 final size:65
Alignment explanation
Indices: 1435180--1435328 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 65
1435170 TCTTTCAATG
* * * *
1435180 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TTTATTTTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT-
1435244 A
65 A
* * *
1435245 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTT
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT
1435308 A
65 A
1435309 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
1435329 TATGAATGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 48 0.65
65 26 0.35
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTTA
Found at i:1438649 original size:31 final size:31
Alignment explanation
Indices: 1438611--1438705 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
1438601 AAACCTCGGC
* *
1438611 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
1438642 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
1438673 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
1438704 AA
1 AA
1438706 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:1446444 original size:65 final size:66
Alignment explanation
Indices: 1446351--1446501 Score: 180
Period size: 67 Copynumber: 2.3 Consensus size: 66
1446341 CAAAGATGAT
* *
1446351 AAATTTTGTTTTCAAAGAAATAAACTCAAAGATT-TTTCTCAAAAGAAACTGTCTCAAGAGAGAC
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTGTTTCTCAAAAGAAACTGTCTCAAGAGAGAC
1446415 A
66 A
* * * * ** *
1446416 AAATTTTGTTTCCAAGGAAACAATCTCAAAGGTTGGTTTTTCATTAGAAACTTTCTCAAGAGAGA
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATT-GTTTCTCAAAAGAAACTGTCTCAAGAGAGA
1446481 CA
65 CA
**
1446483 AAA-TTTGTTTTTAAAGAAA
1 AAATTTTGTTTCCAAAGAAA
1446502 TAGACTCACA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
65 29 0.40
66 13 0.18
67 30 0.42
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (66 bp):
AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTGTTTCTCAAAAGAAACTGTCTCAAGAGAGAC
A
Found at i:1446596 original size:28 final size:27
Alignment explanation
Indices: 1446495--1446578 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
1446485 ATTTGTTTTT
*
1446495 AAAGAAATAGACTCACAGATGATTTTGTT-A
1 AAAGAAACAGACTCA-A-A-GATTTT-TTCA
* *
1446525 AGAGAAACATACTCAAAGATTTTTTCA
1 AAAGAAACAGACTCAAAGATTTTTTCA
1446552 AAAGAAACAGACTCAAAGATTTGTTTC
1 AAAGAAACAGACTCAAAGATTT-TTTC
1446579 GAGAGAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.04
27 27 0.57
28 5 0.11
29 1 0.02
30 12 0.26
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (27 bp):
AAAGAAACAGACTCAAAGATTTTTTCA
Found at i:1450642 original size:30 final size:31
Alignment explanation
Indices: 1450608--1450695 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 31
1450598 GAAAAGGAAT
1450608 ATGTGATATGTGAAAGTGAATCC-TATGA-AA
1 ATGTGATATGTGAAAGTGAA-CCATATGATAA
* * *
1450638 ATGTGTTACGTGCAAGTGAACCATATGATTAA
1 ATGTGATATGTGAAAGTGAACCATATGA-TAA
*
1450670 ATGTGATATGTAAAAGTGAACCATAT
1 ATGTGATATGTGAAAGTGAACCATAT
1450696 ATATATATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 2 0.04
30 22 0.46
32 24 0.50
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (31 bp):
ATGTGATATGTGAAAGTGAACCATATGATAA
Found at i:1451028 original size:31 final size:31
Alignment explanation
Indices: 1450990--1451112 Score: 133
Period size: 31 Copynumber: 4.0 Consensus size: 31
1450980 GAGTCGAGGG
*
1450990 TTTACCTATGTTCTTCGGGACATATGAACAA
1 TTTACCTATGTTCTTCGGGACATATGGACAA
* *
1451021 TTTACCTATG-TCTTTCGAGACATGTGGACAA
1 TTTACCTATGTTC-TTCGGGACATATGGACAA
* ** * *
1451052 TTTACTTATGTTCTAAGGAACATATGGACAT
1 TTTACCTATGTTCTTCGGGACATATGGACAA
*
1451083 TTTACCTAGGTTCTTCGGGACCA-ATGGACA
1 TTTACCTATGTTCTTCGGGA-CATATGGACA
1451113 GTTACCGAGG
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
30 2 0.03
31 68 0.92
32 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
TTTACCTATGTTCTTCGGGACATATGGACAA
Found at i:1451952 original size:22 final size:22
Alignment explanation
Indices: 1451924--1451986 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
1451914 AACATTCGAG
* * *
1451924 TACTGTTCCTGATACTGTTTAT
1 TACTGTTCATGGTACTGTTAAT
*
1451946 TACTGTTCATGGTAATGTTAAT
1 TACTGTTCATGGTACTGTTAAT
*
1451968 TATTGTTCATGGTACTGTT
1 TACTGTTCATGGTACTGTT
1451987 CATACCGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (22 bp):
TACTGTTCATGGTACTGTTAAT
Found at i:1451988 original size:12 final size:12
Alignment explanation
Indices: 1451923--1451989 Score: 52
Period size: 12 Copynumber: 5.9 Consensus size: 12
1451913 TAACATTCGA
*
1451923 GTACTGTTCCTG
1 GTACTGTTCATG
* *
1451935 ATACTGTTTAT-
1 GTACTGTTCATG
1451946 -TACTGTTCATG
1 GTACTGTTCATG
* *
1451957 GTAATGTTAAT-
1 GTACTGTTCATG
*
1451968 -TATTGTTCATG
1 GTACTGTTCATG
1451979 GTACTGTTCAT
1 GTACTGTTCAT
1451990 ACCGTATTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
10 17 0.40
12 25 0.60
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (12 bp):
GTACTGTTCATG
Found at i:1453026 original size:222 final size:222
Alignment explanation
Indices: 1452640--1453083 Score: 861
Period size: 222 Copynumber: 2.0 Consensus size: 222
1452630 TTAATACCCC
1452640 TGCGGTGCTGAAATCATTGTATCACTCCTTGATGACTAGCGATGAAATGATTATAAATGAGAATC
1 TGCGGTGCTGAAATCATTGTATCACTCCTTGATGACTAGCGATGAAATGATTATAAATGAGAATC
* *
1452705 TAATGTTGGATTACTCTTTGGCTCAATGGATCATCGTTTCAGTCTCGATTGTTGCACGACCTTCG
66 TAATGCTGGATTACTCTTTGACTCAATGGATCATCGTTTCAGTCTCGATTGTTGCACGACCTTCG
1452770 AGCAAGTCTCATTCTTATACTATGAACTTCTTTAAGCCCTCGATGCATGTTTGTTTATGCGATTG
131 AGCAAGTCTCATTCTTATACTATGAACTTCTTTAAGCCCTCGATGCATGTTTGTTTATGCGATTG
1452835 CTTGATTGAAATTTTTTATCTCTTCTT
196 CTTGATTGAAATTTTTTATCTCTTCTT
1452862 TGCGGTGCTGAAATCATTGTATCACTCCTTGATGACTAGCGATGAAATGATTATAAATGAGAATC
1 TGCGGTGCTGAAATCATTGTATCACTCCTTGATGACTAGCGATGAAATGATTATAAATGAGAATC
1452927 TAATGCTGGATTACTCTTTGACTCAATGGATCATCGTTTCAGTCTCGATTGTTGCACGACCTTCG
66 TAATGCTGGATTACTCTTTGACTCAATGGATCATCGTTTCAGTCTCGATTGTTGCACGACCTTCG
*
1452992 AGCAAGTCTCATTCTTGTACTATGAACTTCTTTAAGCCCTCGATGCATGTTTGTTTATGCGATTG
131 AGCAAGTCTCATTCTTATACTATGAACTTCTTTAAGCCCTCGATGCATGTTTGTTTATGCGATTG
1453057 CTTGATTGAAATTTTTTATCTCTTCTT
196 CTTGATTGAAATTTTTTATCTCTTCTT
1453084 GTGAAAATTT
Statistics
Matches: 219, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 219 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (222 bp):
TGCGGTGCTGAAATCATTGTATCACTCCTTGATGACTAGCGATGAAATGATTATAAATGAGAATC
TAATGCTGGATTACTCTTTGACTCAATGGATCATCGTTTCAGTCTCGATTGTTGCACGACCTTCG
AGCAAGTCTCATTCTTATACTATGAACTTCTTTAAGCCCTCGATGCATGTTTGTTTATGCGATTG
CTTGATTGAAATTTTTTATCTCTTCTT
Found at i:1454308 original size:16 final size:17
Alignment explanation
Indices: 1454287--1454324 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1454277 ACGTCTTTTT
1454287 AAAACAATTTAAGA-AA
1 AAAACAATTTAAGACAA
* *
1454303 AAAACATTTTTAGACAA
1 AAAACAATTTAAGACAA
1454320 AAAAC
1 AAAAC
1454325 TGGTGTGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAATTTAAGACAA
Found at i:1455384 original size:30 final size:27
Alignment explanation
Indices: 1455320--1455388 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
1455310 ACATACACTT
* **
1455320 AAGGACTAAATAGTGAAAATAAAAATA
1 AAGGACTAAAAAGAAAAAATAAAAATA
*
1455347 AGGGACTACAAAAGAAAAAATAGAAAATTA
1 AAGGACTA-AAAAGAAAAAATA-AAAA-TA
1455377 AAGGACTAAAAA
1 AAGGACTAAAAA
1455389 TTAATTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 7 0.21
28 10 0.29
29 8 0.24
30 9 0.26
ACGTcount: A:0.64, C:0.06, G:0.16, T:0.14
Consensus pattern (27 bp):
AAGGACTAAAAAGAAAAAATAAAAATA
Found at i:1456836 original size:3 final size:3
Alignment explanation
Indices: 1456824--1456864 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
1456814 TTATTTGTAT
1456824 TAA T-A TAA TAA TAA TAA TAA TAAA TAA TAA TAAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T-AA TAA TAA T
1456865 TAAATAGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1456851 original size:10 final size:10
Alignment explanation
Indices: 1456828--1456876 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
1456818 TTGTATTAAT
1456828 ATAATAAT-A
1 ATAATAATAA
1456837 ATAATAATAA
1 ATAATAATAA
1456847 ATAATAATAA
1 ATAATAATAA
1456857 ATAATAATTAA
1 ATAATAA-TAA
*
1456868 ATAGTAATA
1 ATAATAATA
1456877 TAAAAGATCC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
9 8 0.22
10 20 0.54
11 9 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
ATAATAATAA
Found at i:1460872 original size:21 final size:21
Alignment explanation
Indices: 1460846--1460903 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
1460836 GTGTAGGGTT
* *
1460846 TAGGATTT-AGAGTTTATTTCA
1 TAGGATTTAAG-GTTTATGTAA
1460867 TAGGATTTAAGGTTTATGTAA
1 TAGGATTTAAGGTTTATGTAA
1460888 TAGGATTTAAGGTTTA
1 TAGGATTTAAGGTTTA
1460904 AAGTTTAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (21 bp):
TAGGATTTAAGGTTTATGTAA
Found at i:1460917 original size:21 final size:21
Alignment explanation
Indices: 1460867--1460961 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 21
1460857 GTTTATTTCA
* *
1460867 TAGGATTTAAGGTTTATGTAA
1 TAGGGTTTAAGGTTTATGTAT
* *
1460888 TAGGATTTAAGGTTTAAAGT-T
1 TAGGGTTTAAGGTTT-ATGTAT
* * *
1460909 TAGGGTTTAGGGTATATGTGT
1 TAGGGTTTAAGGTTTATGTAT
* *
1460930 TAAGGTTTAGGGTTTATGTAT
1 TAGGGTTTAAGGTTTATGTAT
1460951 TAGGGTTTAAG
1 TAGGGTTTAAG
1460962 TTATGCCATG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
20 3 0.05
21 55 0.90
22 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.43
Consensus pattern (21 bp):
TAGGGTTTAAGGTTTATGTAT
Found at i:1460919 original size:28 final size:28
Alignment explanation
Indices: 1460888--1460945 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
1460878 GTTTATGTAA
*
1460888 TAGGATTTAAGGT-TTAAAGTTTAGGGTT
1 TAGGATAT-AGGTGTTAAAGTTTAGGGTT
* * *
1460916 TAGGGTATATGTGTTAAGGTTTAGGGTT
1 TAGGATATAGGTGTTAAAGTTTAGGGTT
1460944 TA
1 TA
1460946 TGTATTAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (28 bp):
TAGGATATAGGTGTTAAAGTTTAGGGTT
Found at i:1461262 original size:17 final size:17
Alignment explanation
Indices: 1461240--1461272 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1461230 CGAGTTTGAG
*
1461240 TTCGAGCTTTAATCGAA
1 TTCGAGCTTGAATCGAA
1461257 TTCGAGCTTGAATCGA
1 TTCGAGCTTGAATCGA
1461273 GCTTGTATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (17 bp):
TTCGAGCTTGAATCGAA
Found at i:1461272 original size:11 final size:11
Alignment explanation
Indices: 1461258--1461345 Score: 59
Period size: 11 Copynumber: 7.6 Consensus size: 11
1461248 TTAATCGAAT
1461258 TCGAGCTTGAA
1 TCGAGCTTGAA
*
1461269 TCGAGCTTGTA
1 TCGAGCTTGAA
**
1461280 TCGAGCTCAAAA
1 TCGAGCT-TGAA
**
1461292 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
1461304 TCGAGCTTCAA
1 TCGAGCTTGAA
* *
1461315 TCGAGCTCGAGTC
1 TCGAGCTTGA--A
*
1461328 TCGAGCTTCAA
1 TCGAGCTTGAA
1461339 TCGAGCT
1 TCGAGCT
1461346 CTTGAATTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
11 34 0.55
12 20 0.32
13 8 0.13
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:1461296 original size:12 final size:12
Alignment explanation
Indices: 1461279--1461322 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
1461269 TCGAGCTTGT
1461279 ATCGAGCTCAAA
1 ATCGAGCTCAAA
1461291 ATCGAGCTCAAA
1 ATCGAGCTCAAA
1461303 ATCGAGCTTC--A
1 ATCGAGC-TCAAA
1461314 ATCGAGCTC
1 ATCGAGCTC
1461323 GAGTCTCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.06
11 8 0.26
12 19 0.61
13 2 0.06
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (12 bp):
ATCGAGCTCAAA
Found at i:1461341 original size:35 final size:34
Alignment explanation
Indices: 1461258--1461345 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
1461248 TTAATCGAAT
* **
1461258 TCGAGCTTGAATCGAGCTTGTATCGAGCTCAAAA
1 TCGAGCTTCAATCGAGCTTCAATCGAGCTCAAAA
***
1461292 TCGAGC-TCAAAATCGAGCTTCAATCGAGCTCGAGTC
1 TCGAGCTTC--AATCGAGCTTCAATCGAGCTC-AAAA
1461328 TCGAGCTTCAATCGAGCT
1 TCGAGCTTCAATCGAGCT
1461346 CTTGAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
33 1 0.02
34 6 0.14
35 28 0.64
36 7 0.16
37 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (34 bp):
TCGAGCTTCAATCGAGCTTCAATCGAGCTCAAAA
Found at i:1461908 original size:14 final size:14
Alignment explanation
Indices: 1461889--1461919 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1461879 GTGGAATTCT
1461889 AAATATTTAAATAA
1 AAATATTTAAATAA
*
1461903 AAATATTTATATAA
1 AAATATTTAAATAA
1461917 AAA
1 AAA
1461920 ATTATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATATTTAAATAA
Found at i:1464029 original size:63 final size:64
Alignment explanation
Indices: 1463890--1464051 Score: 204
Period size: 63 Copynumber: 2.5 Consensus size: 64
1463880 ATTGTTCAAG
* * * * *
1463890 GTGTATCGATGCACATGAAGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATATCATTA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCATTAAAATAAAAACATCGAATAGCATTA
* *
1463954 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCATT-AAATACAAACATCGAATAGGATTTA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCATTAAAATAAAAACATCGAATAGCA-TTA
* *
1464018 -TGTACCGATGCA-TAGATAGTGCATCGATGCACCC
1 GTGTATCGATGCACAAG-TAGTGCATCGATGCACCC
1464052 GTCAAGGGAT
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
62 2 0.02
63 47 0.54
64 38 0.44
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCATTAAAATAAAAACATCGAATAGCATTA
Found at i:1464618 original size:16 final size:16
Alignment explanation
Indices: 1464589--1464638 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1464579 ATTCCATTTG
*
1464589 TTTTA-TTTATTATTA
1 TTTTATTTTAATATTA
1464604 TTTTATTTTAATATTA
1 TTTTATTTTAATATTA
*
1464620 TTATATTTATAATATTA
1 TTTTATTT-TAATATTA
1464637 TT
1 TT
1464639 ATTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.16
16 16 0.52
17 10 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTTTAATATTA
Found at i:1464634 original size:17 final size:17
Alignment explanation
Indices: 1464599--1464646 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
1464589 TTTTATTTAT
*
1464599 TATTATTTTATTT-TAA
1 TATTATTATATTTATAA
1464615 TATTATTATATTTATAA
1 TATTATTATATTTATAA
*
1464632 TATTATTATTTTTAT
1 TATTATTATATTTAT
1464647 TACAAACCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTATTATATTTATAA
Found at i:1465460 original size:25 final size:25
Alignment explanation
Indices: 1465428--1465484 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
1465418 GAGACGCGAA
1465428 AGAGAAATCTCTCTCTCAGTTTAAG
1 AGAGAAATCTCTCTCTCAGTTTAAG
1465453 AGAGAAATCTCTCTCTCAGTTTAAG
1 AGAGAAATCTCTCTCTCAGTTTAAG
1465478 AGAGAAA
1 AGAGAAA
1465485 GAAATGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (25 bp):
AGAGAAATCTCTCTCTCAGTTTAAG
Found at i:1466016 original size:35 final size:36
Alignment explanation
Indices: 1465948--1466016 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
1465938 TTCCTTTTAT
1465948 TTTAATCATTATTTGCAATATTATTATTATTATTGC
1 TTTAATCATTATTTGCAATATTATTATTATTATTGC
* * *
1465984 TTTAATTATTATTT-CATTATTATTATTTTTATT
1 TTTAATCATTATTTGCAATATTATTATTATTATT
1466017 ATTTATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (36 bp):
TTTAATCATTATTTGCAATATTATTATTATTATTGC
Found at i:1466138 original size:15 final size:14
Alignment explanation
Indices: 1466107--1466139 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1466097 CATAAATTAC
1466107 TTTTAATAATCATA
1 TTTTAATAATCATA
1466121 TTTTAATAAT-ATA
1 TTTTAATAATCATA
1466134 TATTTA
1 T-TTTA
1466140 TTTTTCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAATAATCATA
Found at i:1466885 original size:14 final size:14
Alignment explanation
Indices: 1466848--1466894 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
1466838 CTTTCAAATT
*
1466848 TTTTATTACTTATTA
1 TTTTATTA-ATATTA
1466863 -TTT-TT-ATATTA
1 TTTTATTAATATTA
1466874 TTTTATTAATATTA
1 TTTTATTAATATTA
1466888 TTTTATT
1 TTTTATT
1466895 CAGGTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 5 0.18
12 3 0.11
13 4 0.14
14 16 0.57
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTAATATTA
Found at i:1471481 original size:2 final size:2
Alignment explanation
Indices: 1471474--1471505 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1471464 TTTATCCTTT
1471474 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
1471506 ATTTGTTGTC
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:1471827 original size:19 final size:19
Alignment explanation
Indices: 1471798--1471857 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
1471788 CTCATCCAGC
1471798 AAAGAAAGAAGAAGAAAAAA
1 AAAGAAAGAAGAA-AAAAAA
1471818 AAAG-AAGAAGAAAAAAAA
1 AAAGAAAGAAGAAAAAAAA
* *
1471836 GAA-AAATAA-AAAAAATAA
1 AAAGAAAGAAGAAAAAA-AA
1471854 AAAG
1 AAAG
1471858 GAAAAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 6 0.18
18 16 0.47
19 8 0.24
20 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAGAAAGAAGAAAAAAAA
Found at i:1471833 original size:15 final size:15
Alignment explanation
Indices: 1471802--1471877 Score: 89
Period size: 15 Copynumber: 4.9 Consensus size: 15
1471792 TCCAGCAAAG
1471802 AAAGAAGAAGAAAAAA
1 AAAGAAGAAG-AAAAA
1471818 AAAGAAGAAGAAAAA
1 AAAGAAGAAGAAAAA
* *
1471833 AAAGAAAAATAAAAA
1 AAAGAAGAAGAAAAA
* * *
1471848 AAATAAAAAGGAAAA
1 AAAGAAGAAGAAAAA
1471863 AAAGAAGAAGGAAAA
1 AAAGAAGAA-GAAAA
1471878 TTGAATCAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
15 37 0.73
16 14 0.27
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAAGAAGAAGAAAAA
Found at i:1474224 original size:114 final size:114
Alignment explanation
Indices: 1474024--1474243 Score: 404
Period size: 114 Copynumber: 1.9 Consensus size: 114
1474014 CATATTCTCG
1474024 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
1474089 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
1474138 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
1474203 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
1474244 CTGCATGATC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
Found at i:1476389 original size:54 final size:54
Alignment explanation
Indices: 1476307--1476472 Score: 287
Period size: 54 Copynumber: 3.1 Consensus size: 54
1476297 CAATGATTGA
*
1476307 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1476361 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * * *
1476415 GAACATTTGAGCAGAAGCCACAGGAAATGATGAATGCGTTGTTAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1476469 GAAC
1 GAAC
1476473 CTGCTATTCT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (54 bp):
GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:1476924 original size:21 final size:22
Alignment explanation
Indices: 1476839--1476937 Score: 146
Period size: 22 Copynumber: 4.5 Consensus size: 22
1476829 ATCTACACTC
1476839 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1476861 TTCAAAGATGATATATTCTCTTT
1 TTCAAAGATGATAGATTCTC-TT
* *
1476884 TTAAAAAATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1476906 TTTAAAGATGATA-ATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1476927 TTCAAAGATGA
1 TTCAAAGATGA
1476938 AAGCTCTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
21 18 0.26
22 32 0.46
23 19 0.28
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1477524 original size:113 final size:111
Alignment explanation
Indices: 1477327--1478342 Score: 1419
Period size: 113 Copynumber: 9.0 Consensus size: 111
1477317 TTAGCAAAGT
* * * * *
1477327 TCAAATCCATCATTTAATGGATCAACATTT-CTGGAAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGGAA-AGTTCATAATGAGAAGAACTCATCTGA
*
1477391 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGC
1477439 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1477504 AGAATGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGC
*
1477552 TCAAATCCATCACTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGA
*
1477617 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGC
*
1477665 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGA
*
1477730 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGC
*
1477778 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGG-AAAGTTCATAATGAGAAGAACTCATCTGA
1477843 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GC
** * * * * *
1477891 TTGAATTCATCA-TTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTT-GATGGATCAGCTTTTCCAGG-AAAGTTCATAATGAGAAGAACTCATCTG
* *
1477955 AAAAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GC
** * * * * *
1478004 TTGAATTCATCA-TTCGATGGATCAGCATTGCCAGGTCAAGTTCATAATGAGAAGGACTCATCTG
1 TCAAATCCATCACTT-GATGGATCAGCTTTTCCAGG-AAAGTTCATAATGAGAAGAACTCATCTG
*
1478068 AAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GC
** * * * **
1478117 TTGAATTCATCA-TTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTT-GATGGATCAGCTTTTCCAGG-AAAGTTCATAATGAGAAGAACTCATCTG
* *
1478181 AAGAAGGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTATTTC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTT-TTGC
* * * * *
1478230 TCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGA
1478295 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGC
1478343 ATGATTCTAT
Statistics
Matches: 850, Mismatches: 45, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
112 33 0.04
113 807 0.95
114 10 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (111 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGGAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGC
Found at i:1478602 original size:3 final size:3
Alignment explanation
Indices: 1478594--1478650 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
1478584 TTTGTTTTAT
* *
1478594 TTA TTA TTA TT- TTA TT- TTA ATA TTA TTA TTA -TA TTA -TA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1478638 TTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA
1478651 CTACCCCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 12 0.26
3 34 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1478617 original size:19 final size:19
Alignment explanation
Indices: 1478595--1478648 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
1478585 TTGTTTTATT
*
1478595 TATTATTATTTTATTTTAA
1 TATTATTATTTTATTATAA
*
1478614 TATTATTATTATATTATAA
1 TATTATTATTTTATTATAA
1478633 TATTATTATTTT-TTAT
1 TATTATTATTTTATTAT
1478649 TACTACCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 4 0.12
19 28 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTATTTTATTATAA
Found at i:1478718 original size:25 final size:25
Alignment explanation
Indices: 1478689--1478736 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1478679 GCCCAATTAC
1478689 AACCCATAC-TGGCCCAGACCCAACA
1 AACCCA-ACTTGGCCCAGACCCAACA
* *
1478714 AACCCAACTTGGTCCAGGCCCAA
1 AACCCAACTTGGCCCAGACCCAA
1478737 TTGCAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.33, C:0.42, G:0.15, T:0.10
Consensus pattern (25 bp):
AACCCAACTTGGCCCAGACCCAACA
Found at i:1480022 original size:35 final size:36
Alignment explanation
Indices: 1479954--1480022 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
1479944 TTCCTTTTAT
1479954 TTTAATCATTATTTGCAATATTATTATTATTATTGC
1 TTTAATCATTATTTGCAATATTATTATTATTATTGC
* * *
1479990 TTTAATTATTATTT-CATTATTATTATTTTTATT
1 TTTAATCATTATTTGCAATATTATTATTATTATT
1480023 ATTTATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (36 bp):
TTTAATCATTATTTGCAATATTATTATTATTATTGC
Found at i:1480147 original size:15 final size:14
Alignment explanation
Indices: 1480116--1480148 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1480106 CATAAATTAC
1480116 TTTTAATAATCATA
1 TTTTAATAATCATA
1480130 TTTTAATAAT-ATA
1 TTTTAATAATCATA
1480143 TATTTA
1 T-TTTA
1480149 TTTTTCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAATAATCATA
Found at i:1480962 original size:23 final size:23
Alignment explanation
Indices: 1480894--1480954 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1480884 CAATCTTATA
*
1480894 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
1480917 CGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
1480940 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
1480955 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1484712 original size:30 final size:29
Alignment explanation
Indices: 1484658--1484752 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 29
1484648 AAATGATACG
1484658 CTCTCAACCC-ATAAACATTCACACACCAATC
1 CTCTCAACCCGA-AAACA-TCACACA-CAATC
*
1484689 CTCTCAATCCGAAAACATCACACAACAATC
1 CTCTCAACCCGAAAACATCACAC-ACAATC
* *
1484719 CTCTCAACCCGTAAACATCACCCGACAATC
1 CTCTCAACCCGAAAACATCACAC-ACAATC
1484749 CTCT
1 CTCT
1484753 TATCTTCGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
30 41 0.72
31 15 0.26
32 1 0.02
ACGTcount: A:0.37, C:0.41, G:0.03, T:0.19
Consensus pattern (29 bp):
CTCTCAACCCGAAAACATCACACACAATC
Found at i:1487487 original size:20 final size:22
Alignment explanation
Indices: 1487448--1487488 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1487438 ATAACTGCCA
1487448 AAAATAATATTAAATAATTAAAT
1 AAAATAATA-TAAATAATTAAAT
1487471 AAAATAATA-AAAT-ATTAA
1 AAAATAATATAAATAATTAA
1487489 TTTAATGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
23 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAATATAAATAATTAAAT
Found at i:1495242 original size:30 final size:30
Alignment explanation
Indices: 1495208--1495311 Score: 75
Period size: 30 Copynumber: 3.5 Consensus size: 30
1495198 CCATTCAAAT
*
1495208 TCATCAAACTTTCAATGTGTTTGATTTTGG
1 TCATCAAACTTTAAATGTGTTTGATTTTGG
* * * * * * **
1495238 TCATCTAACTATAAAAG-ATTTCAATTTCA
1 TCATCAAACTTTAAATGTGTTTGATTTTGG
* * *
1495267 TCACCAGACTTTTAATGTGTTTGATTTTGG
1 TCATCAAACTTTAAATGTGTTTGATTTTGG
* *
1495297 TCATCTAACTATAAA
1 TCATCAAACTTTAAA
1495312 AATTTTCAAT
Statistics
Matches: 48, Mismatches: 25, Indels: 2
0.64 0.33 0.03
Matches are distributed among these distances:
29 18 0.38
30 30 0.62
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (30 bp):
TCATCAAACTTTAAATGTGTTTGATTTTGG
Found at i:1495290 original size:59 final size:59
Alignment explanation
Indices: 1495215--1495327 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
1495205 AATTCATCAA
1495215 ACTTTCAATGTGTTTGATTTTGGTCATCTAACTATAAAAGA-TTTCAATTTCATCACCAG
1 ACTTTCAATGTGTTTGATTTTGGTCATCTAACTATAAAA-ATTTTCAATTTCATCACCAG
*
1495274 ACTTTTAATGTGTTTGATTTTGGTCATCTAACTATAAAAATTTTCAATTTCATC
1 ACTTTCAATGTGTTTGATTTTGGTCATCTAACTATAAAAATTTTCAATTTCATC
1495328 TTTAAACTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
58 1 0.02
59 51 0.98
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (59 bp):
ACTTTCAATGTGTTTGATTTTGGTCATCTAACTATAAAAATTTTCAATTTCATCACCAG
Found at i:1497686 original size:19 final size:21
Alignment explanation
Indices: 1497649--1497687 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
1497639 TTTATACTTA
1497649 TTTATTTTAGTCTCTAAATTT
1 TTTATTTTAGTCTCTAAATTT
1497670 TTTA-TTTAGTC-CTAAATT
1 TTTATTTTAGTCTCTAAATT
1497688 AACCCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTATTTTAGTCTCTAAATTT
Found at i:1502672 original size:19 final size:20
Alignment explanation
Indices: 1502635--1502672 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1502625 ATTATAAAAT
* *
1502635 AAATATTTTATTTTTTTATA
1 AAATATTTTATTGTGTTATA
1502655 AAATA-TTTATTGTGTTAT
1 AAATATTTTATTGTGTTAT
1502673 TAATTATCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
AAATATTTTATTGTGTTATA
Found at i:1506333 original size:24 final size:24
Alignment explanation
Indices: 1506306--1506412 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
1506296 AAACGGAGAT
*
1506306 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
1506330 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
1506354 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
1506378 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
1506402 ATCAGAAATCA
1 ATCAGAAATCA
1506413 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:1506412 original size:48 final size:48
Alignment explanation
Indices: 1506306--1506414 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
1506296 AAACGGAGAT
* * * *
1506306 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
1506354 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
1506402 ATCAGAAATCAGA
1 ATCAGAAATCAGA
1506415 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:1510696 original size:32 final size:31
Alignment explanation
Indices: 1510623--1510719 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
1510613 GTCCTGAAGG
* * *
1510623 ACCTATCCATATGTTCCGAAGAACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1510654 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
* * *
1510685 ATCCTGTCCATATGTCTCGAATGACATATGTA
1 A-CCTGTCCATATGTCCCGAAGGACATAGGTA
1510717 ACC
1 ACC
1510720 CTCGACTCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 31 0.53
32 28 0.47
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (31 bp):
ACCTGTCCATATGTCCCGAAGGACATAGGTA
Found at i:1515349 original size:32 final size:32
Alignment explanation
Indices: 1515294--1515432 Score: 171
Period size: 32 Copynumber: 4.4 Consensus size: 32
1515284 TATATATGTT
*
1515294 CCGAAGAACAT-CGATAA-CATGTCCATATATC
1 CCGAAGAACATATG-TAATCATGTCCATATATC
* * *
1515325 CCGGAGAACATATGTAATCATGTCCATATGTT
1 CCGAAGAACATATGTAATCATGTCCATATATC
1515357 CCGAAGAACAT-TGGTAA-CATGTCCATATATC
1 CCGAAGAACATAT-GTAATCATGTCCATATATC
*
1515388 CCGAAGGACATATGTAATCATGTCCATATATC
1 CCGAAGAACATATGTAATCATGTCCATATATC
1515420 CCGAATG-ACATAT
1 CCGAA-GAACATAT
1515433 ATAAACCTCA
Statistics
Matches: 94, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
31 40 0.43
32 53 0.56
33 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (32 bp):
CCGAAGAACATATGTAATCATGTCCATATATC
Found at i:1515365 original size:63 final size:63
Alignment explanation
Indices: 1515287--1515416 Score: 224
Period size: 63 Copynumber: 2.1 Consensus size: 63
1515277 GAACCTATAT
*
1515287 ATATGTTCCGAAGAACATCGATAACATGTCCATATATCCCGGAGAACATATGTAATCATGTCC
1 ATATGTTCCGAAGAACATCGATAACATGTCCATATATCCCGAAGAACATATGTAATCATGTCC
* * *
1515350 ATATGTTCCGAAGAACATTGGTAACATGTCCATATATCCCGAAGGACATATGTAATCATGTCC
1 ATATGTTCCGAAGAACATCGATAACATGTCCATATATCCCGAAGAACATATGTAATCATGTCC
1515413 ATAT
1 ATAT
1515417 ATCCCGAATG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (63 bp):
ATATGTTCCGAAGAACATCGATAACATGTCCATATATCCCGAAGAACATATGTAATCATGTCC
Found at i:1516503 original size:19 final size:19
Alignment explanation
Indices: 1516475--1516511 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1516465 CTATTCATAG
*
1516475 TGTACCGATACACCCTGCA
1 TGTACAGATACACCCTGCA
1516494 TGTACAGATACACCCTGC
1 TGTACAGATACACCCTGC
1516512 CCAGAGTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (19 bp):
TGTACAGATACACCCTGCA
Found at i:1519295 original size:29 final size:31
Alignment explanation
Indices: 1519256--1519336 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
1519246 TATCACACTT
1519256 AAAAAAATCCGA-CCGACCCCGTATTTTT-A
1 AAAAAAATCCGACCCGACCCCGTATTTTTAA
* *
1519285 AAAAAAATCCGACCCGATCCC-TTTTTTTAA
1 AAAAAAATCCGACCCGACCCCGTATTTTTAA
*
1519315 AAAAAAACCCGACCCGACCCCG
1 AAAAAAATCCGACCCGACCCCG
1519337 ACCCGAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 18 0.40
30 27 0.60
ACGTcount: A:0.38, C:0.32, G:0.10, T:0.20
Consensus pattern (31 bp):
AAAAAAATCCGACCCGACCCCGTATTTTTAA
Found at i:1521563 original size:22 final size:20
Alignment explanation
Indices: 1521534--1521590 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
1521524 AAATAGTAAG
*
1521534 TAAA-AAAACAAATAATAAA
1 TAAATAAAACAAATAAGAAA
*
1521553 TATATATAAAA-AGAAAAAGAAA
1 TA-A-ATAAAACA-AATAAGAAA
1521575 TAAATAAAACAAATAA
1 TAAATAAAACAAATAA
1521591 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
19 2 0.07
20 11 0.37
21 4 0.13
22 13 0.43
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (20 bp):
TAAATAAAACAAATAAGAAA
Found at i:1521822 original size:11 final size:10
Alignment explanation
Indices: 1521806--1521887 Score: 55
Period size: 10 Copynumber: 8.2 Consensus size: 10
1521796 ATAACAAAAT
1521806 AAATAATATAA
1 AAATAATA-AA
1521817 AAATAATACAA
1 AAATAATA-AA
*
1521828 GAATAATAAA
1 AAATAATAAA
* *
1521838 AAGA-AAGAGA
1 AA-ATAATAAA
1521848 AAATAA-AAA
1 AAATAATAAA
1521857 AATATAAT-AA
1 AA-ATAATAAA
*
1521867 TAATAATAAA
1 AAATAATAAA
*
1521877 ATATAA-AAA
1 AAATAATAAA
1521886 AA
1 AA
1521888 TATACATATA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
9 14 0.25
10 24 0.43
11 18 0.32
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (10 bp):
AAATAATAAA
Found at i:1521888 original size:83 final size:83
Alignment explanation
Indices: 1521794--1521973 Score: 190
Period size: 82 Copynumber: 2.2 Consensus size: 83
1521784 ATATATATAT
* *
1521794 ATATAACAAAATAAATA-ATATA-AAAATAATACAAGAATAATAAAAAGAAAGAGAAAATAAAAA
1 ATATAAAAAAATAAATACATATATAAAATAA-ACAAGAAGAATAAAAAGAAA-AGAAAATAAAAA
1521857 AATATAATAATAAT-AATAAA
64 AA-ATAATAATAATAAATAAA
* * * * * * **
1521877 ATATAAAAAAAT--ATACATATATAATATAAATAAGTAGAATAAAAGGAAAATATAATAGTAAAA
1 ATATAAAAAAATAAATACATATATAAAATAAACAAGAAGAATAAAAAGAAAAGAAAATAAAAAAA
*
1521940 ATAATAATAATAAATATA
66 ATAATAATAATAAATAAA
1521958 ATAATAAAAAAATAAA
1 AT-ATAAAAAAATAAA
1521974 AATGCAAAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
80 11 0.14
81 20 0.25
82 31 0.39
83 17 0.21
84 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (83 bp):
ATATAAAAAAATAAATACATATATAAAATAAACAAGAAGAATAAAAAGAAAAGAAAATAAAAAAA
ATAATAATAATAAATAAA
Found at i:1521909 original size:27 final size:28
Alignment explanation
Indices: 1521847--1521975 Score: 102
Period size: 29 Copynumber: 4.4 Consensus size: 28
1521837 AAAGAAAGAG
1521847 AAAATAAAAAAATATAATAATAATAATA
1 AAAATAAAAAAATATAATAATAATAATA
1521875 AAATATAAAAAAATATACATATATAAT-ATA
1 AAA-ATAAAAAAATATA-ATA-ATAATAATA
* * *
1521905 AATAAGTAGAATAAAAGGAAAAT-ATAATAGTA
1 AA-AA-TA-AA-AAAA-TATAATAATAATAATA
* *
1521937 AAAATAATAATAATAAATATAATAATAA-A
1 AAAATAA-AAAAATATA-ATAATAATAATA
1521966 AAAATAAAAA
1 AAAATAAAAA
1521976 TGCAAAGAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
28 8 0.10
29 27 0.33
30 18 0.22
31 15 0.18
32 6 0.07
33 6 0.07
34 2 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAATAAAAAAATATAATAATAATAATA
Found at i:1521970 original size:43 final size:43
Alignment explanation
Indices: 1521855--1521971 Score: 106
Period size: 43 Copynumber: 2.8 Consensus size: 43
1521845 AGAAAATAAA
1521855 AAAATATAATAATAAT-AATAAAAT-ATAAAAAAATATACATAT
1 AAAA-ATAATAATAATAAATAAAATAATAAAAAAATATACATAT
* * * *
1521897 -ATAAT-AT-A-AATAAGTAGAATAA-AAGGAAAATATA-ATAGT
1 AAAAATAATAATAATAAATAAAATAATAA-AAAAATATACATA-T
*
1521936 AAAAATAATAATAATAAATATAATAATAAAAAAATA
1 AAAAATAATAATAATAAATAAAATAATAAAAAAATA
1521972 AAAATGCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
37 3 0.05
38 12 0.21
39 12 0.21
40 6 0.10
41 4 0.07
42 1 0.02
43 18 0.31
44 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (43 bp):
AAAAATAATAATAATAAATAAAATAATAAAAAAATATACATAT
Found at i:1522601 original size:37 final size:37
Alignment explanation
Indices: 1522554--1522650 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
1522544 GGATCCTATC
* * *
1522554 TTTAAGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTATGAGTTTGAATCCTAGTAGAACTCTATCATATT
* * * *
1522591 TTTA-GAAGTTTGAATCCTAGCAAAATTCTATCTTATT
1 TTTATG-AGTTTGAATCCTAGTAGAACTCTATCATATT
1522628 TTTATGAGTTTGAATCCTAGTAG
1 TTTATGAGTTTGAATCCTAGTAG
1522651 GACGAAAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 1 0.02
37 48 0.96
38 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (37 bp):
TTTATGAGTTTGAATCCTAGTAGAACTCTATCATATT
Found at i:1522786 original size:29 final size:31
Alignment explanation
Indices: 1522678--1522794 Score: 97
Period size: 29 Copynumber: 3.9 Consensus size: 31
1522668 ACAATAATGT
* *
1522678 TTTTCAAAATA-ATTTTCAAAGCTACATATTA
1 TTTTCAAAACAGATTTTCAAAACTA-ATATTA
* * *
1522709 TTTTC-AAA-AG--GTT-AAAACTAAAATGTT
1 TTTTCAAAACAGATTTTCAAAACTAATAT-TA
*
1522736 TTTTCAAAACAGTTTTTCAAAACT-ATATTA
1 TTTTCAAAACAGATTTTCAAAACTAATATTA
1522766 TTTTCAAAA-AGATTTTCAAAACTATATAT
1 TTTTCAAAACAGATTTTCAAAACTA-ATAT
1522795 ATAATATTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
26 3 0.04
27 12 0.17
28 5 0.07
29 16 0.23
30 13 0.19
31 14 0.20
32 6 0.09
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (31 bp):
TTTTCAAAACAGATTTTCAAAACTAATATTA
Found at i:1522838 original size:38 final size:36
Alignment explanation
Indices: 1522766--1522861 Score: 115
Period size: 36 Copynumber: 2.6 Consensus size: 36
1522756 AACTATATTA
*
1522766 TTTTCAAAA-AGATTTTCAAAACTATATATATAATAT
1 TTTTCAAAACTGATTTT-AAAACTATATATATAATAT
*
1522802 TTTTCAAAGCT-ATTTTAAAACTATATAATATTTAATAT
1 TTTTCAAAACTGATTTTAAAACTATAT-ATA--TAATAT
*
1522840 TTTTCAAAACTGTTTTTAAAAC
1 TTTTCAAAACTGATTTTAAAAC
1522862 GTAATGTATC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
35 10 0.20
36 16 0.31
38 16 0.31
39 9 0.18
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTCAAAACTGATTTTAAAACTATATATATAATAT
Found at i:1525594 original size:66 final size:65
Alignment explanation
Indices: 1525484--1525617 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 65
1525474 CTATATCCAA
* *
1525484 AAATCATTATTTTATTCAATTTAGACCATGCAGAGTTCACTTAAAACAATCCACAATTAATCTAC
1 AAATCATTATTTTATTCAATTTAGACCATGCAGAGGTCACTTAAAACAATCCACAACTAATCTAC
* *
1525549 AAATTATTATTTTTATTCAATTTAGACCATGCAGAGGTCACTTAAAACAATCCACAACTAATCTG
1 AAATCATTA-TTTTATTCAATTTAGACCATGCAGAGGTCACTTAAAACAATCCACAACTAATCTA
1525614 C
65 C
1525615 AAA
1 AAA
1525618 CTTTTTAAAC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
65 8 0.12
66 56 0.88
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (65 bp):
AAATCATTATTTTATTCAATTTAGACCATGCAGAGGTCACTTAAAACAATCCACAACTAATCTAC
Found at i:1527633 original size:30 final size:30
Alignment explanation
Indices: 1527582--1527653 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
1527572 CTTTTTCATT
* * *
1527582 TAAGTATTCAAATT-ATTTTTTTGTCAAAA
1 TAAGTATTAAAATTAAATTTTTAGTCAAAA
1527611 TAAGTACTTAAAATTAAATTTTTAGTCAAAA
1 TAAGTA-TTAAAATTAAATTTTTAGTCAAAA
*
1527642 TAGGTATCTAAA
1 TAAGTAT-TAAA
1527654 GTATTCAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.17
30 8 0.22
31 22 0.61
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (30 bp):
TAAGTATTAAAATTAAATTTTTAGTCAAAA
Found at i:1527724 original size:20 final size:20
Alignment explanation
Indices: 1527699--1527736 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1527689 TTTGGTTCAC
*
1527699 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
1527719 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
1527737 AGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:1527741 original size:18 final size:19
Alignment explanation
Indices: 1527700--1527742 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
1527690 TTGGTTCACG
* *
1527700 GAATATAAGATTACCAGTGG
1 GAATAAAAGATTACCAG-GA
1527720 GAATAAAAGATTACCA-GA
1 GAATAAAAGATTACCAGGA
1527738 GAATA
1 GAATA
1527743 GGATTATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
20 15 0.71
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (19 bp):
GAATAAAAGATTACCAGGA
Found at i:1533507 original size:13 final size:14
Alignment explanation
Indices: 1533477--1533507 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1533467 TATTTTTGAA
1533477 AAAATTATTGTCTT
1 AAAATTATTGTCTT
1533491 AAAATTATTGT-TT
1 AAAATTATTGTCTT
1533504 AAAA
1 AAAA
1533508 ATATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (14 bp):
AAAATTATTGTCTT
Found at i:1536901 original size:2 final size:2
Alignment explanation
Indices: 1536888--1536934 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
1536878 CATATGAAAA
*
1536888 AT AT AA AT AT AT AT AT AT A- AT AT AT AT AT AT A- 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
1536928 AT A- AT AT
1 AT AT AT AT
1536935 GGTTAGAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1536911 original size:13 final size:13
Alignment explanation
Indices: 1536888--1536930 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
1536878 CATATGAAAA
1536888 ATATA-AATATAT
1 ATATATAATATAT
1536900 ATATATAATATAT
1 ATATATAATATAT
1536913 ATATATAATATAT
1 ATATATAATATAT
1536926 ATATA
1 ATATA
1536931 ATATGGTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 5 0.17
13 25 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:1536912 original size:11 final size:11
Alignment explanation
Indices: 1536887--1536934 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
1536877 ACATATGAAA
*
1536887 AATATAAATAT
1 AATATATATAT
1536898 -ATATATATA-
1 AATATATATAT
1536907 ATATATATATAT
1 A-ATATATATAT
1536919 AATATATATAT
1 AATATATATAT
1536930 AATAT
1 AATAT
1536935 GGTTAGAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.24
11 24 0.73
12 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATATATAT
Found at i:1546301 original size:5 final size:5
Alignment explanation
Indices: 1546291--1546430 Score: 199
Period size: 5 Copynumber: 29.4 Consensus size: 5
1546281 ATCATTCTCT
1546291 TTATA TTATA TTATA TTATA -T-TA TTATA TTATA TTATA -TATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1546338 -TATA TTAT- TTATA TTATA -TATA TTATA TTATA TTATA TTATA TT-TA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1546384 TTATA TTATA -TATA TTAT- TTATA TTATATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA -T-TATA TTATA TTATA TTATA TT
1546431 TGTCGTTACC
Statistics
Matches: 124, Mismatches: 0, Indels: 22
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.02
4 30 0.24
5 86 0.69
6 2 0.02
7 4 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:1546317 original size:18 final size:18
Alignment explanation
Indices: 1546294--1546427 Score: 175
Period size: 18 Copynumber: 7.2 Consensus size: 18
1546284 ATTCTCTTTA
1546294 TATTATATTATATTATAT
1 TATTATATTATATTATAT
1546312 TATTATATTATATTATAT
1 TATTATATTATATTATAT
1546330 ATATTATATATATTATTTATAT
1 -TATTATAT-TA-TA-TTATAT
1546352 TATATATATTATATTATATT
1 TAT-TATATTATATTATA-T
1546372 ATATTATATT-TATTATAT
1 -TATTATATTATATTATAT
1546390 TATATATATTAT-TTATAT
1 TAT-TATATTATATTATAT
1546408 TA-TATATTATATTATAT
1 TATTATATTATATTATAT
1546425 TAT
1 TAT
1546428 ATTTGTCGTT
Statistics
Matches: 105, Mismatches: 0, Indels: 22
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.08
17 11 0.10
18 33 0.31
19 21 0.20
20 11 0.10
21 10 0.10
22 11 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATATTATATTATAT
Found at i:1546430 original size:54 final size:56
Alignment explanation
Indices: 1546290--1546430 Score: 229
Period size: 56 Copynumber: 2.6 Consensus size: 56
1546280 TATCATTCTC
1546290 TTTATATTATATTATATTATA-T-TATTATATTATATTATATATATTATATATATTA
1 TTTATATTATA-TATATTATATTATATTATATTATATTATATATATTATATATATTA
1546345 TTTATATTATATATATTATATTATATTATATTATATT-TATTATATTATATATATTA
1 TTTATATTATATATATTATATTATATTATATTATATTATA-TATATTATATATATTA
1546401 TTTATA-T-TATATATTATATTATATTATATT
1 TTTATATTATATATATTATATTATATTATATT
1546431 TGTCGTTACC
Statistics
Matches: 83, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
54 32 0.39
55 15 0.18
56 36 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (56 bp):
TTTATATTATATATATTATATTATATTATATTATATTATATATATTATATATATTA
Found at i:1546774 original size:13 final size:14
Alignment explanation
Indices: 1546749--1546777 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1546739 AACAAAGCCA
1546749 AATAAATATTAAAT
1 AATAAATATTAAAT
1546763 AATAAA-ATTAAAT
1 AATAAATATTAAAT
1546776 AA
1 AA
1546778 AATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAAATATTAAAT
Found at i:1546830 original size:13 final size:14
Alignment explanation
Indices: 1546804--1546832 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1546794 TAAAGTAAAT
1546804 AAAAAGGAATTTAA
1 AAAAAGGAATTTAA
1546818 AAAAAGGAA-TTAA
1 AAAAAGGAATTTAA
1546831 AA
1 AA
1546833 TTTGGGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (14 bp):
AAAAAGGAATTTAA
Found at i:1547843 original size:21 final size:22
Alignment explanation
Indices: 1547811--1547851 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1547801 GTTGTTGGCG
1547811 CGTGGGCTGCTT-GCTTCATCT
1 CGTGGGCTGCTTGGCTTCATCT
1547832 CGTGCGGC-GCTTGGCTTCAT
1 CGTG-GGCTGCTTGGCTTCAT
1547852 ATGATTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.05, C:0.29, G:0.32, T:0.34
Consensus pattern (22 bp):
CGTGGGCTGCTTGGCTTCATCT
Found at i:1548083 original size:23 final size:21
Alignment explanation
Indices: 1548046--1548123 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 21
1548036 AATTAGACCT
1548046 TAAAATAA-AA-A-AATAAAA
1 TAAAATAATAATATAATAAAA
1548064 TAAAATAATATATTATAATATAAA
1 TAAAATAATA-A-TATAATA-AAA
*
1548088 -AAAATAATAATATATTAAATA
1 TAAAATAATAATATAATAAA-A
*
1548109 TAATAATAACAATAT
1 TAA-AATAATAATAT
1548124 TTTTAAACCT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
18 8 0.16
19 1 0.02
20 3 0.06
21 7 0.14
22 4 0.08
23 23 0.47
24 3 0.06
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAATAATAATATAATAAAA
Found at i:1548089 original size:26 final size:26
Alignment explanation
Indices: 1548060--1548122 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
1548050 ATAAAAAAAT
1548060 AAAATAA-AATAATATATTATAATATA
1 AAAATAACAATAATATATTA-AATATA
*
1548086 AAAA-AATAATAATATATTAAATATA
1 AAAATAACAATAATATATTAAATATA
*
1548111 ATAATAACAATA
1 AAAATAACAATA
1548123 TTTTTAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 11 0.33
26 22 0.67
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATAACAATAATATATTAAATATA
Found at i:1548092 original size:33 final size:33
Alignment explanation
Indices: 1548050--1548116 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1548040 AGACCTTAAA
*
1548050 ATAAAAAAATAA-AATAAAATAATATATTATAAT
1 ATAAAAAAATAATAATAAAATAA-ATATAATAAT
* *
1548083 ATAAAAAAATAATAATATATTAAATATAATAAT
1 ATAAAAAAATAATAATAAAATAAATATAATAAT
1548116 A
1 A
1548117 ACAATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (33 bp):
ATAAAAAAATAATAATAAAATAAATATAATAAT
Found at i:1548114 original size:28 final size:26
Alignment explanation
Indices: 1548051--1548114 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
1548041 GACCTTAAAA
* *
1548051 TAAAAAAATAAAATAAAATAATATAT
1 TAAAATAATAAAAAAAAATAATATAT
*
1548077 TATAAT-ATAAAAAAATAATAATATAT
1 TAAAATAATAAAAAAA-AATAATATAT
1548103 TAAATATAATAA
1 TAAA-ATAATAA
1548115 TAACAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 8 0.26
26 17 0.55
27 2 0.06
28 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAAATAATAAAAAAAAATAATATAT
Found at i:1548196 original size:2 final size:2
Alignment explanation
Indices: 1548189--1548262 Score: 91
Period size: 2 Copynumber: 38.0 Consensus size: 2
1548179 ACATTTTCAA
1548189 AT AT AT AT AT AT AT AT AT AT -T 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
* * *
1548230 AT AT AT TT A- AA AA ACT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
1548263 TTTTAAAAAC
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
1 3 0.05
2 61 0.94
3 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1548219 original size:27 final size:25
Alignment explanation
Indices: 1548171--1548264 Score: 102
Period size: 27 Copynumber: 3.7 Consensus size: 25
1548161 TTTAAAAAAC
* *
1548171 TATAT-TATACAT-TTTCAAATATA
1 TATATATATATATATTTAAAATATA
*
1548194 TATATATATATATATTATATATATATA
1 TATATATATATATATT-TA-AAATATA
*
1548221 TATATATATATATATTTAAAAAACTA
1 TATATATATATATATTTAAAATA-TA
1548247 TATATTATATATATATTT
1 TATA-TATATATATATTT
1548265 TTAAAAACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.08
24 6 0.10
25 5 0.08
26 9 0.15
27 35 0.58
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (25 bp):
TATATATATATATATTTAAAATATA
Found at i:1548267 original size:29 final size:30
Alignment explanation
Indices: 1548189--1548271 Score: 111
Period size: 29 Copynumber: 2.9 Consensus size: 30
1548179 ACATTTTCAA
* *
1548189 ATATATATATATATATATA-TT-ATATA-T
1 ATATATATATATATATATATTTAAAAAACT
1548216 ATATATATATATATATATATTTAAAAAACT
1 ATATATATATATATATATATTTAAAAAACT
*
1548246 ATATAT-TATATATATATTTTTAAAAA
1 ATATATATATATATATATATTTAAAAA
1548272 CTACATTTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
27 19 0.38
28 2 0.04
29 22 0.44
30 7 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
ATATATATATATATATATATTTAAAAAACT
Found at i:1554185 original size:23 final size:23
Alignment explanation
Indices: 1554159--1554238 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
1554149 TATGGCACTA
1554159 CGGTGCAATTCTACGTGGTACTT
1 CGGTGCAATTCTACGTGGTACTT
* *** *
1554182 CGGTGCATTTCTAAACGGTCCTT
1 CGGTGCAATTCTACGTGGTACTT
*
1554205 CGG-GACAAATTCTACGTGGCACTT
1 CGGTG-C-AATTCTACGTGGTACTT
1554229 CGGTGCAATT
1 CGGTGCAATT
1554239 TATATGAGCT
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
22 1 0.02
23 26 0.60
24 15 0.35
25 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (23 bp):
CGGTGCAATTCTACGTGGTACTT
Found at i:1554894 original size:14 final size:14
Alignment explanation
Indices: 1554875--1554902 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1554865 TACTGTAGCA
1554875 GGTACTGTTCATAC
1 GGTACTGTTCATAC
1554889 GGTACTGTTCATAC
1 GGTACTGTTCATAC
1554903 CATATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
GGTACTGTTCATAC
Found at i:1556569 original size:18 final size:18
Alignment explanation
Indices: 1556548--1556586 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1556538 ATGTAGATAT
1556548 AGAACGTGATCCCGTTCC
1 AGAACGTGATCCCGTTCC
1556566 AGAACGTGATCCCGTTCC
1 AGAACGTGATCCCGTTCC
1556584 AGA
1 AGA
1556587 TCAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (18 bp):
AGAACGTGATCCCGTTCC
Found at i:1557366 original size:103 final size:103
Alignment explanation
Indices: 1557186--1557411 Score: 418
Period size: 103 Copynumber: 2.2 Consensus size: 103
1557176 GTCGAGGGTC
1557186 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1557251 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTGGCATATGTATATGATTCTTAAGGAATGA
1557289 TATGTGGTCCTT-GAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCG-GGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1557353 CTTGATCCCTGGCATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTGGCATATGTATATGATTCTTAAGGAATGA
*
1557392 TATGTGGTCATTCGGGACAT
1 TATGTGGTCCTTCGGGACAT
1557412 TATTATATGG
Statistics
Matches: 119, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
102 1 0.01
103 117 0.98
104 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1557459 original size:23 final size:23
Alignment explanation
Indices: 1557419--1557505 Score: 120
Period size: 23 Copynumber: 3.8 Consensus size: 23
1557409 CATTATTATA
* *
1557419 TGGCACTACGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * *
1557442 CGGCACTCCTGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
1557465 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
1557488 TGGAACTTCGGTGCAATT
1 TGGCACTTCGGTGCAATT
1557506 ATATGAGCTG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1558804 original size:20 final size:21
Alignment explanation
Indices: 1558771--1558810 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1558761 TTCTGGGCTA
*
1558771 GGGGAATCGTACCCATTCAAG
1 GGGGAACCGTACCCATTCAAG
*
1558792 GGGGAACCG-ACCCCTTCAA
1 GGGGAACCGTACCCATTCAA
1558811 ACAACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.15
Consensus pattern (21 bp):
GGGGAACCGTACCCATTCAAG
Found at i:1559669 original size:24 final size:25
Alignment explanation
Indices: 1559642--1559691 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
1559632 GTTCGAACCA
1559642 AATGAATTGTATTAT-GGACGAATG
1 AATGAATTGTATTATAGGACGAATG
*
1559666 AATGAATTTTATTATAAGGACGAATG
1 AATGAATTGTATTAT-AGGACGAATG
1559692 GAAAATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.61
26 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (25 bp):
AATGAATTGTATTATAGGACGAATG
Found at i:1562674 original size:36 final size:37
Alignment explanation
Indices: 1562614--1562686 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
1562604 ATTGTGCAGG
*
1562614 GGGAACAGATTCCCCCCTGTGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
*
1562651 GGGAATAGATT-CCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
1562687 CTAAATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 24 0.71
37 10 0.29
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.22
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
Found at i:1563751 original size:24 final size:23
Alignment explanation
Indices: 1563686--1563760 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
1563676 AACTAAGGTA
1563686 CAATTCTACGTGGCACTTCGGTG
1 CAATTCTACGTGGCACTTCGGTG
* **
1563709 CATTTCTACACGGTC-CTTCGG-G
1 CAATTCTACGTGG-CACTTCGGTG
1563731 ACAAATTCTACGTGGCACTTCGGTG
1 -C-AATTCTACGTGGCACTTCGGTG
1563756 CAATT
1 CAATT
1563761 TATATGAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 1 0.02
23 22 0.54
24 17 0.41
25 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.31
Consensus pattern (23 bp):
CAATTCTACGTGGCACTTCGGTG
Found at i:1574308 original size:68 final size:69
Alignment explanation
Indices: 1574223--1574354 Score: 221
Period size: 68 Copynumber: 1.9 Consensus size: 69
1574213 ATGATTATAG
* *
1574223 TGTTGGTTTTCGTTTGCTTTGTAAAACTTCCA-TTTTTTAAATGATGTTGAACGCTCCATTTATA
1 TGTTGGTTTTCATTTGCTTTGTAAAACTTCCATTTTTTTAAATGATGATGAACGCTCCATTTATA
1574287 GATT
66 GATT
* *
1574291 TGTTGGTTTTCATTTGCTTTGTAAAACTTCCATTTTTTTAAATGGTGATGAACGTTCCATTTAT
1 TGTTGGTTTTCATTTGCTTTGTAAAACTTCCATTTTTTTAAATGATGATGAACGCTCCATTTAT
1574355 TATAGATTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 31 0.53
69 28 0.47
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (69 bp):
TGTTGGTTTTCATTTGCTTTGTAAAACTTCCATTTTTTTAAATGATGATGAACGCTCCATTTATA
GATT
Found at i:1576875 original size:158 final size:155
Alignment explanation
Indices: 1576636--1577068 Score: 423
Period size: 152 Copynumber: 2.8 Consensus size: 155
1576626 AAAAAATGAG
* * * ** * * ** * *
1576636 GTGATATATCACTGATAA-GAAAAATGACATTTTGAATTCAGATATTACTGAAATGTCATT-TAA
1 GTGATATATCAATGA-AAGGAAAAAAGACGTTTTTCATTCAGATATCACTAAAAAATAATTGTGA
*
1576699 GGTGATATATCACTGAAAAGTCATTGTGAAATTATTATGATAGGATTTGATCAATTATTATTAAA
65 GGTGATATATCACTGAAAAGTCATGGTGAAATTATTATGATAGGATTTGATCAATTATTATTAAA
* *
1576764 TAAGA-AATGAAAAGATCAGAAGTT-A
130 TAA-ACAATAAAAAGATCAGAAATTAA
* * * *
1576789 GATGATATATCAATGAAAAGGAAAAAAAAGATGTTTTTCATTCCGATATCACTAAAAAATCATTT
1 G-TGATATATCAATG-AAAGG--AAAAAAGACGTTTTTCATTCAGATATCACTAAAAAATAATTG
*
1576854 TGAGGTGATATATCACTGAAAAATCATGGTGAAATTATTATGATAGTG-TTTGATC-A--ATTAT
62 TGAGGTGATATATCACTGAAAAGTCATGGTGAAATTATTATGATAG-GATTTGATCAATTATTAT
* *
1576915 TAAATAAACACTAAAAAGTTCAGAAATTAA
126 TAAATAAACAATAAAAAGATCAGAAATTAA
* * * * * **
1576945 GTGATATATCAATGAAAGGAAAACATACGTTTTTCATTCAGGTATCATTGAAAGGTAATTGTGAG
1 GTGATATATCAATGAAAGGAAAAAAGACGTTTTTCATTCAGATATCACTAAAAAATAATTGTGAG
* * * * ** * *
1577010 ATGATATATTACTAAAAAGTCATGGCGAAATTATTATGATAAAATCTGACCAATTATTA
66 GTGATATATCACTGAAAAGTCATGGTGAAATTATTATGATAGGATTTGATCAATTATTA
1577069 AATATGGTCA
Statistics
Matches: 229, Mismatches: 38, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
152 76 0.33
153 2 0.01
154 20 0.09
155 46 0.20
156 2 0.01
157 32 0.14
158 50 0.22
159 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.33
Consensus pattern (155 bp):
GTGATATATCAATGAAAGGAAAAAAGACGTTTTTCATTCAGATATCACTAAAAAATAATTGTGAG
GTGATATATCACTGAAAAGTCATGGTGAAATTATTATGATAGGATTTGATCAATTATTATTAAAT
AAACAATAAAAAGATCAGAAATTAA
Found at i:1577227 original size:30 final size:30
Alignment explanation
Indices: 1577167--1577244 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
1577157 CTGAACTGAG
* *
1577167 GTGATATATCATTGAAAAGTTAAAAAATAAA
1 GTGATATATCACT-AAAAATTAAAAAATAAA
* *
1577198 GTGATATATCACTAAAAATTCATAAATAAA
1 GTGATATATCACTAAAAATTAAAAAATAAA
*
1577228 ATGATATATCACTAAAA
1 GTGATATATCACTAAAA
1577245 TGATTCTCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 30 0.71
31 12 0.29
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (30 bp):
GTGATATATCACTAAAAATTAAAAAATAAA
Found at i:1577245 original size:16 final size:16
Alignment explanation
Indices: 1577194--1577248 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
1577184 AGTTAAAAAA
*
1577194 TAAAGTGATATATCAC
1 TAAAATGATATATCAC
* *
1577210 TAAAA--AT-TCATAAA
1 TAAAATGATAT-ATCAC
1577224 TAAAATGATATATCAC
1 TAAAATGATATATCAC
1577240 TAAAATGAT
1 TAAAATGAT
1577249 TCTCTGCCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
13 1 0.03
14 10 0.33
16 18 0.60
17 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (16 bp):
TAAAATGATATATCAC
Found at i:1579096 original size:16 final size:17
Alignment explanation
Indices: 1579075--1579110 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
1579065 TTTTTATACC
1579075 TTTTTTACTT-AGATTA
1 TTTTTTACTTCAGATTA
1579091 TTTTTTACTTCAGATTA
1 TTTTTTACTTCAGATTA
1579108 TTT
1 TTT
1579111 ACTTCACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTTTACTTCAGATTA
Found at i:1579485 original size:32 final size:27
Alignment explanation
Indices: 1579456--1579513 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
1579446 GATCCGACCT
* *
1579456 GACCCGAAAGATATATACCCTCCACCC
1 GACCTGAAAAATATATACCCTCCACCC
* *
1579483 GACTTGAAAAATATATACCCTTCACCC
1 GACCTGAAAAATATATACCCTCCACCC
1579510 GACC
1 GACC
1579514 CGAACCTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.36, G:0.10, T:0.19
Consensus pattern (27 bp):
GACCTGAAAAATATATACCCTCCACCC
Found at i:1579499 original size:27 final size:27
Alignment explanation
Indices: 1579461--1579512 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1579451 GACCTGACCC
*
1579461 GAAAGATATATACCCTCCACCCGACTT
1 GAAAAATATATACCCTCCACCCGACTT
*
1579488 GAAAAATATATACCCTTCACCCGAC
1 GAAAAATATATACCCTCCACCCGAC
1579513 CCGAACCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.21
Consensus pattern (27 bp):
GAAAAATATATACCCTCCACCCGACTT
Found at i:1582672 original size:4 final size:4
Alignment explanation
Indices: 1582663--1582687 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1582653 ATGTTAGAGA
1582663 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1582688 CTAAATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Done.