Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 33 of 290
Found at i:10727255 original size:18 final size:20
Alignment explanation
Indices: 10727240--10727276 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10727230 TAATAATAAA
*
10727240 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
10727260 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
10727277 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:10732609 original size:6 final size:6
Alignment explanation
Indices: 10732598--10732622 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10732588 TAATTAGAAC
10732598 ACTAAA ACTAAA ACTAAA ACTAAA A
1 ACTAAA ACTAAA ACTAAA ACTAAA A
10732623 AAAAACTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTAAA
Found at i:10732714 original size:17 final size:16
Alignment explanation
Indices: 10732692--10732734 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
10732682 TGGACTGAAT
*
10732692 ATAAAAATTTAAATTAA
1 ATAAAAATATAAA-TAA
*
10732709 ATAAAATAAATAAATAA
1 ATAAAA-ATATAAATAA
10732726 ATAAAAATA
1 ATAAAAATA
10732735 AAACTTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 15 0.68
18 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAATATAAATAA
Found at i:10732732 original size:18 final size:18
Alignment explanation
Indices: 10732701--10732736 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10732691 TATAAAAATT
10732701 TAAATTAAATAAAATAAA
1 TAAATTAAATAAAATAAA
10732719 TAAA-TAAATAAAAATAAA
1 TAAATTAAAT-AAAATAAA
10732737 ACTTTACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAATTAAATAAAATAAA
Found at i:10739733 original size:6 final size:5
Alignment explanation
Indices: 10739698--10739724 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10739688 TACTCTCTTG
10739698 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
10739725 TCATTTTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:10741418 original size:18 final size:18
Alignment explanation
Indices: 10741397--10741431 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10741387 ACAAAAATTC
10741397 ATATAAAATA-ATATAATA
1 ATATAAAA-ACATATAATA
10741415 ATATAAAAACATATAAT
1 ATATAAAAACATATAAT
10741432 TATAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAAAAACATATAATA
Found at i:10741437 original size:16 final size:17
Alignment explanation
Indices: 10741397--10741437 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
10741387 ACAAAAATTC
10741397 ATATAAAATAATATAAT
1 ATATAAAATAATATAAT
10741414 AATATAAAA-ACATATAAT
1 -ATATAAAATA-ATATAAT
10741432 -TATAAA
1 ATATAAA
10741438 TATTATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 1 0.05
18 15 0.68
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATAAAATAATATAAT
Found at i:10742193 original size:24 final size:24
Alignment explanation
Indices: 10742143--10742193 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
10742133 AAAAGTAAAA
* * **
10742143 AAATAATTAAATTTTATGATATTT
1 AAATAATTAAATATAATGATACAT
*
10742167 AAATAATTTAATATAATGATACAT
1 AAATAATTAAATATAATGATACAT
10742191 AAA
1 AAA
10742194 ATGTAAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATAATTAAATATAATGATACAT
Found at i:10742318 original size:31 final size:31
Alignment explanation
Indices: 10742274--10742343 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
10742264 TTTAAAAATA
10742274 AATATAATAATAAATAAGATTTAAATAATTT
1 AATATAATAATAAATAAGATTTAAATAATTT
* * *
10742305 ACTATAATGATAAATAATATTTAAATAATTT
1 AATATAATAATAAATAAGATTTAAATAATTT
10742336 AATATAAT
1 AATATAAT
10742344 TGTATATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (31 bp):
AATATAATAATAAATAAGATTTAAATAATTT
Found at i:10743096 original size:25 final size:25
Alignment explanation
Indices: 10743046--10743097 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10743036 ATTAATATAC
*
10743046 TATATATTATAATATTGTATGTATT
1 TATATATTATAATATTGTATCTATT
* *
10743071 TATATATTA-AATTTTTTATCTAATT
1 TATATATTATAATATTGTATCT-ATT
10743096 TA
1 TA
10743098 ATTCAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATTATAATATTGTATCTATT
Found at i:10743690 original size:14 final size:14
Alignment explanation
Indices: 10743673--10743705 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10743663 TATTTTTTAA
10743673 AATTAT-AAATATCT
1 AATTATGAAATA-CT
10743687 AATTATGAAATACT
1 AATTATGAAATACT
10743701 AATTA
1 AATTA
10743706 ATTTATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (14 bp):
AATTATGAAATACT
Found at i:10744591 original size:21 final size:21
Alignment explanation
Indices: 10744563--10744617 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
10744553 AACAGCGGTG
*
10744563 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* *
10744584 GTGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
10744605 GCGGTGAGATTAG
1 GCGGTGAGATTAG
10744618 AAACAATGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:10751666 original size:16 final size:17
Alignment explanation
Indices: 10751634--10751682 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
10751624 TTTACGATAA
10751634 AAAAATAATTTTAAAAT
1 AAAAATAATTTTAAAAT
10751651 AAAAAT-ATTATT-AAAT
1 AAAAATAATT-TTAAAAT
* *
10751667 -AATATATTTTTAAAAT
1 AAAAATAATTTTAAAAT
10751683 TTTCAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAATAATTTTAAAAT
Found at i:10751679 original size:15 final size:16
Alignment explanation
Indices: 10751631--10751680 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
10751621 ATTTTTACGA
*
10751631 TAAAAAAATA-ATTTT
1 TAAATAAATATATTTT
* * *
10751646 AAAATAAAAATATTAT
1 TAAATAAATATATTTT
10751662 TAAAT-AATATATTTT
1 TAAATAAATATATTTT
10751677 TAAA
1 TAAA
10751681 ATTTTCAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATAAATATATTTT
Found at i:10751953 original size:19 final size:20
Alignment explanation
Indices: 10751929--10751978 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
10751919 TTTTATTAGT
*
10751929 TATATTTTA-ATATTTAAAA
1 TATATTTTATATATTCAAAA
*
10751948 TATATTTTATATATTCAAAT
1 TATATTTTATATATTCAAAA
*
10751968 TAAATTTTATA
1 TATATTTTATA
10751979 AATCATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATTTTATATATTCAAAA
Found at i:10755106 original size:24 final size:24
Alignment explanation
Indices: 10755061--10755107 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10755051 ACTCAAATTT
*
10755061 AAATTTAAAAAATTATTTTTATAC
1 AAATTTAAAAAATTATTATTATAC
*
10755085 AAATTATAAAAATTTA-TATTATA
1 AAATT-TAAAAAATTATTATTATA
10755108 AGCTTGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTTAAAAAATTATTATTATAC
Found at i:10762178 original size:17 final size:17
Alignment explanation
Indices: 10762158--10762190 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10762148 AGAAACTCAT
*
10762158 AAAATAAAATAAAAAAC
1 AAAATAAAACAAAAAAC
10762175 AAAATAAAACAAAAAA
1 AAAATAAAACAAAAAA
10762191 TGACCAGATT
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:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAATAAAACAAAAAAC
Found at i:10768351 original size:16 final size:17
Alignment explanation
Indices: 10768320--10768352 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10768310 TTCATAAGTA
10768320 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
10768337 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
10768353 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:10772619 original size:9 final size:9
Alignment explanation
Indices: 10772587--10772636 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
10772577 CTAAAATTTG
10772587 TCATCGTCA
1 TCATCGTCA
* * *
10772596 TCGTCATCT
1 TCATCGTCA
10772605 TCATCGTCA
1 TCATCGTCA
10772614 TCATCGTCA
1 TCATCGTCA
*
10772623 TCATCATCA
1 TCATCGTCA
10772632 TCATC
1 TCATC
10772637 AGTAACTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (9 bp):
TCATCGTCA
Found at i:10772637 original size:6 final size:6
Alignment explanation
Indices: 10772587--10772637 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
10772577 CTAAAATTTG
* * * * *
10772587 TCATCG TCATCG TCATCT TCATCG TCATCA TCGTCA TCATCA TCATCA
1 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA
10772635 TCA
1 TCA
10772638 GTAACTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.24, C:0.33, G:0.08, T:0.35
Consensus pattern (6 bp):
TCATCA
Found at i:10772893 original size:30 final size:30
Alignment explanation
Indices: 10772857--10772949 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
10772847 CACCAAATGC
10772857 TGCTATTATACCAAACGTTGCGGTACCAAA
1 TGCTATTATACCAAACGTTGCGGTACCAAA
* ** * * *
10772887 TGCTATTGTACCAAACACTGTGATGCCAAA
1 TGCTATTATACCAAACGTTGCGGTACCAAA
** * *
10772917 TGCTGCTATACCGAATGTTGCGGTACCAAA
1 TGCTATTATACCAAACGTTGCGGTACCAAA
10772947 TGC
1 TGC
10772950 GAATGAGAAA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (30 bp):
TGCTATTATACCAAACGTTGCGGTACCAAA
Found at i:10773154 original size:24 final size:24
Alignment explanation
Indices: 10773127--10773174 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10773117 AATCAGTATG
10773127 ATAAATCGTAATTTATACATATTT
1 ATAAATCGTAATTTATACATATTT
10773151 ATAAATCGTAATTTATACATATTT
1 ATAAATCGTAATTTATACATATTT
10773175 TTACCCCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAAATCGTAATTTATACATATTT
Found at i:10773489 original size:13 final size:13
Alignment explanation
Indices: 10773471--10773495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10773461 CAGTAATCGC
10773471 ACACGGGCGTGTT
1 ACACGGGCGTGTT
10773484 ACACGGGCGTGT
1 ACACGGGCGTGT
10773496 CCCTGCCAAA
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:10783659 original size:21 final size:20
Alignment explanation
Indices: 10783618--10783659 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
10783608 CAAAACTTGT
*
10783618 ATAACTATCAATAAATA-TTC
1 ATAACTATCAAGAAA-ACTTC
10783638 ATAATCTATCAAGAAAACTTC
1 ATAA-CTATCAAGAAAACTTC
10783659 A
1 A
10783660 AAATACATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAACTATCAAGAAAACTTC
Found at i:10786073 original size:15 final size:15
Alignment explanation
Indices: 10786050--10786256 Score: 211
Period size: 15 Copynumber: 13.8 Consensus size: 15
10786040 CCTCTACCAT
*
10786050 TGTACCAAATGTTGC
1 TGTACCAAATGCTGC
* *
10786065 AGCACCAAATGCTGC
1 TGTACCAAATGCTGC
* *
10786080 AGTACCAAATGCAGC
1 TGTACCAAATGCTGC
*
10786095 TGTACCAAATGCTAC
1 TGTACCAAATGCTGC
*
10786110 -GATACCAAATACTGC
1 TG-TACCAAATGCTGC
* * *
10786125 TGTTCCAAATGTTGT
1 TGTACCAAATGCTGC
* *
10786140 TGTACCAAACGTTGC
1 TGTACCAAATGCTGC
*
10786155 GGTACCAAATGCTGC
1 TGTACCAAATGCTGC
* *
10786170 TGTACCAGATGTTGC
1 TGTACCAAATGCTGC
* *
10786185 GGTACCAAATGTTGC
1 TGTACCAAATGCTGC
*
10786200 TGTACCAAATGTTGC
1 TGTACCAAATGCTGC
10786215 -GATACCAAATGCTGC
1 TG-TACCAAATGCTGC
10786230 TGTACCAAATGCTGC
1 TGTACCAAATGCTGC
*
10786245 GGTACCAAATGC
1 TGTACCAAATGC
10786257 GAACGAGAAA
Statistics
Matches: 160, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
14 2 0.01
15 156 0.98
16 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (15 bp):
TGTACCAAATGCTGC
Found at i:10786087 original size:30 final size:30
Alignment explanation
Indices: 10786050--10786256 Score: 236
Period size: 30 Copynumber: 6.9 Consensus size: 30
10786040 CCTCTACCAT
* *
10786050 TGTACCAAATGTTGCAGCACCAAATGCTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
* ** * *
10786080 AGTACCAAATGCAGCTGTACCAAATGCTAC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
** * * * *
10786110 -GATACCAAATACTGCTGTTCCAAATGTTGT
1 TG-TACCAAATGTTGCGGTACCAAATGCTGC
*
10786140 TGTACCAAACGTTGCGGTACCAAATGCTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
* *
10786170 TGTACCAGATGTTGCGGTACCAAATGTTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
*
10786200 TGTACCAAATGTTGCGATACCAAATGCTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
*
10786230 TGTACCAAATGCTGCGGTACCAAATGC
1 TGTACCAAATGTTGCGGTACCAAATGC
10786257 GAACGAGAAA
Statistics
Matches: 148, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
29 1 0.01
30 146 0.99
31 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (30 bp):
TGTACCAAATGTTGCGGTACCAAATGCTGC
Found at i:10793619 original size:42 final size:43
Alignment explanation
Indices: 10793509--10793623 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
10793499 AGAACATATA
* *
10793509 CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACAT
1 CAATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAACAT
* * * * * *
10793552 CAATGCCACTGCCCCACATAGGGTCTTACATG-AAGTCAAATAT
1 CAATGCCAATGTCCCAAACATGGTCTTACATGTAA-TCAAACAT
*
10793595 -GATGCCAATGTCCCAAACATGGTCTTACA
1 CAATGCCAATGTCCCAAACATGGTCTTACA
10793624 CGCAAAACAG
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAACAT
Found at i:10795272 original size:124 final size:124
Alignment explanation
Indices: 10795046--10795294 Score: 444
Period size: 124 Copynumber: 2.0 Consensus size: 124
10795036 TAAGATATGG
*
10795046 ATTGGAGTTTCATCGTAAGTCATATCAGACTTAATTTCAATCTCAGACGGGGAAATCACATGCGA
1 ATTGGAGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
* *
10795111 CGGATCAGATCTGTATCGTCAAAGCACCGATATATGAAACACATCATGAATCTTTTCTA
66 CAGATCAGATCTGTATCGTCAAAGCACCGATACATGAAACACATCATGAATCTTTTCTA
*
10795170 ATTGGCGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
1 ATTGGAGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
* *
10795235 CAGATCAGATCTGTATCGTCAAAGCACTGATACATGAAACACATCATGAATTTTTTCTA
66 CAGATCAGATCTGTATCGTCAAAGCACCGATACATGAAACACATCATGAATCTTTTCTA
10795294 A
1 A
10795295 CTCTGGTGGC
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (124 bp):
ATTGGAGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
CAGATCAGATCTGTATCGTCAAAGCACCGATACATGAAACACATCATGAATCTTTTCTA
Found at i:10801499 original size:43 final size:42
Alignment explanation
Indices: 10801433--10801547 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
10801423 AACATATACA
* * ** * *
10801433 ATGCCAACGTCCTAGACTTGGTCTTACA-TATAATCAAACATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGA-AATAAAACAT-G
* * *
10801476 ATGCCACTGTCCCAGACAGGGTCTTACACGAAGTAAAATATG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATAAAACATG
*
10801518 ATGCCAATGTCCCAGACATGGTCTTACACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG
10801548 CAAAACAGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.48
43 30 0.50
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATAAAACATG
Found at i:10805167 original size:22 final size:22
Alignment explanation
Indices: 10805142--10805281 Score: 83
Period size: 22 Copynumber: 6.5 Consensus size: 22
10805132 GAAAGCATAA
*
10805142 AAGTGCTAATCAGAGAGCACCG
1 AAGTGCTAATCAGAGAGCACAG
* *
10805164 AAGTGCTGAA-CAGATAGCACAA
1 AAGTGCT-AATCAGAGAGCACAG
* ** * *
10805186 AAATATTAATCAAAGAGCACCG
1 AAGTGCTAATCAGAGAGCACAG
*
10805208 -A-TGTTGAAT-AGAGAGCACAG
1 AAGTGCT-AATCAGAGAGCACAG
** * *
10805228 ATTTACTAATCAAAGAGCACCA-
1 AAGTGCTAATCAGAGAGCA-CAG
* *
10805250 AAGTGCTAAACCGAGAGCACAG
1 AAGTGCTAATCAGAGAGCACAG
10805272 AAGTGCTAAT
1 AAGTGCTAAT
10805282 TAAAGAGCGC
Statistics
Matches: 86, Mismatches: 24, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
20 12 0.14
21 11 0.13
22 59 0.69
23 4 0.05
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (22 bp):
AAGTGCTAATCAGAGAGCACAG
Found at i:10805238 original size:42 final size:44
Alignment explanation
Indices: 10805147--10805306 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 44
10805137 CATAAAAGTG
* *
10805147 CTAATCAGAGAGCACCGAAGTGCTGAACAGATAGCACAAAAATA
1 CTAATCAAAGAGCACCGAAGTGCTGAACAGAGAGCACAAAAATA
* * * * **
10805191 TTAATCAAAGAGCACCG-A-TGTTGAATAGAGAGCACAGATTTA
1 CTAATCAAAGAGCACCGAAGTGCTGAACAGAGAGCACAAAAATA
* * * * * *
10805233 CTAATCAAAGAGCACCAAAGTGCTAAACCGAGAGCACAGAAGTG
1 CTAATCAAAGAGCACCGAAGTGCTGAACAGAGAGCACAAAAATA
* * * *
10805277 CTAATTAAAGAGCGCCAAAGTGTTGAACAG
1 CTAATCAAAGAGCACCGAAGTGCTGAACAG
10805307 TTAATAGAGC
Statistics
Matches: 92, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 33 0.36
43 2 0.02
44 57 0.62
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (44 bp):
CTAATCAAAGAGCACCGAAGTGCTGAACAGAGAGCACAAAAATA
Found at i:10805297 original size:22 final size:21
Alignment explanation
Indices: 10805233--10805298 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
10805223 CACAGATTTA
*
10805233 CTAATCAAAGAGCACCAAAGTG
1 CTAAT-AAAGAGCGCCAAAGTG
** *
10805255 CTAA-ACCGAGAGCACAGAAGTG
1 CTAATAAAGAGCGC-CA-AAGTG
10805277 CTAATTAAAGAGCGCCAAAGTG
1 CTAA-TAAAGAGCGCCAAAGTG
10805299 TTGAACAGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 18 0.55
23 2 0.06
24 6 0.18
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (21 bp):
CTAATAAAGAGCGCCAAAGTG
Found at i:10817413 original size:35 final size:35
Alignment explanation
Indices: 10817362--10817433 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
10817352 GCTTTTAGGG
*
10817362 TTAGGGTTTTGCTAAAATAAGTTAGGGTTTAGTGT
1 TTAGGGTTTTGCTAAAATAAGTTAGGGTTTAGAGT
* *
10817397 TTAGGTTTTTGTTAAAATAAGTTAGGGTTTAGAGT
1 TTAGGGTTTTGCTAAAATAAGTTAGGGTTTAGAGT
10817432 TT
1 TT
10817434 TAGTAGATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (35 bp):
TTAGGGTTTTGCTAAAATAAGTTAGGGTTTAGAGT
Found at i:10817514 original size:25 final size:25
Alignment explanation
Indices: 10817486--10817602 Score: 67
Period size: 25 Copynumber: 4.3 Consensus size: 25
10817476 AAAAATTATT
*
10817486 TAAATTAGAGTTTATGGTTTTTAAA
1 TAAATTAGAGTTTAGGGTTTTTAAA
10817511 TAAATTA-AGTAAATTAGGGTTTTTAGGGTTTTAAA
1 TAAATTAGAGT---TTAGGGTTTTTA--------AA
* *
10817546 TAAATTAGGGTTTAGGGTTTTAAAA
1 TAAATTAGAGTTTAGGGTTTTTAAA
* *
10817571 TAAATTAGGATTTTATGG-TTTTAAA
1 TAAATTA-GAGTTTAGGGTTTTTAAA
10817596 TAAATTA
1 TAAATTA
10817603 AATTAGGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 26
0.69 0.07 0.25
Matches are distributed among these distances:
24 3 0.04
25 29 0.40
26 7 0.10
27 11 0.15
33 11 0.15
35 9 0.12
36 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (25 bp):
TAAATTAGAGTTTAGGGTTTTTAAA
Found at i:10817524 original size:34 final size:35
Alignment explanation
Indices: 10817486--10817552 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10817476 AAAAATTATT
*
10817486 TAAATTAGAGTTTAT-GGTTTTTAAATAAATTAAG
1 TAAATTAGAGTTTATAGGGTTTTAAATAAATTAAG
* *
10817520 TAAATTAGGGTTTTTAGGGTTTTAAATAAATTA
1 TAAATTAGAGTTTATAGGGTTTTAAATAAATTA
10817553 GGGTTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (35 bp):
TAAATTAGAGTTTATAGGGTTTTAAATAAATTAAG
Found at i:10817544 original size:26 final size:25
Alignment explanation
Indices: 10817515--10817602 Score: 124
Period size: 26 Copynumber: 3.5 Consensus size: 25
10817505 TTTAAATAAA
*
10817515 TTAAGTAAATTAGGGTTTTTAGGGTT
1 TTAAATAAATTAGGG-TTTTAGGGTT
10817541 TTAAATAAATTAGGG-TTTAGGGTT
1 TTAAATAAATTAGGGTTTTAGGGTT
* *
10817565 TTAAAATAAATTAGGATTTTATGGTT
1 TT-AAATAAATTAGGGTTTTAGGGTT
10817591 TTAAATAAATTA
1 TTAAATAAATTA
10817603 AATTAGGGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
24 11 0.19
25 22 0.39
26 24 0.42
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (25 bp):
TTAAATAAATTAGGGTTTTAGGGTT
Found at i:10818039 original size:126 final size:125
Alignment explanation
Indices: 10817702--10818080 Score: 548
Period size: 125 Copynumber: 3.0 Consensus size: 125
10817692 ATTTTTATCT
* * *
10817702 TGAAAAAATAATTTTGAGAAGACGTTTTTGAATAAATAGTGTCAAAAACGCTTCAAGCAGGATAC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTAAAAAACGCTTCAAGCAGGATGC
* * * *
10817767 ACTGTCAGCAAAAATACAGAAAAAAGCTCTCACATGGACGTTCTTTTTCTACAGTAGTTCC
66 ACTGTCAGCAAAATTAC-GAAAAAAGCTCTCACGTGGACGCTCTTTTTCTACAGTAGTTCA
* *
10817828 TG-AAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTAAAAAACGCTTCAAGCAGGATGC
* * *
10817892 ACTATCAGCAAAATTACGAAAAAAAGCTAC-CATGTGGACACTCTTTTTCTACAGTAGTTCA
66 ACTGTCAGCAAAATTACG-AAAAAAGCT-CTCACGTGGACGCTCTTTTTCTACAGTAGTTCA
* *
10817953 TGAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGT-AAAAATGCTTCAAGCAAGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTAAAAAACGCTTCAAGCAGGATGC
* * *
10818017 ACTGTTAGCAAAATTTCTGAAAAAAGCTCTTACGTGGACGCTCTTTTTCTACAGTAGTTCA
66 ACTGTCAGCAAAATTAC-GAAAAAAGCTCTCACGTGGACGCTCTTTTTCTACAGTAGTTCA
10818078 TGA
1 TGA
10818081 TTGGCTCATT
Statistics
Matches: 226, Mismatches: 22, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
124 2 0.01
125 183 0.81
126 41 0.18
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (125 bp):
TGAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTAAAAAACGCTTCAAGCAGGATGC
ACTGTCAGCAAAATTACGAAAAAAGCTCTCACGTGGACGCTCTTTTTCTACAGTAGTTCA
Found at i:10821943 original size:17 final size:17
Alignment explanation
Indices: 10821923--10821957 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10821913 CACAAAAGCC
10821923 TTACTACTACAATTCAG
1 TTACTACTACAATTCAG
10821940 TTACTACTACAATTCAG
1 TTACTACTACAATTCAG
10821957 T
1 T
10821958 GTTATTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (17 bp):
TTACTACTACAATTCAG
Found at i:10823105 original size:26 final size:26
Alignment explanation
Indices: 10823076--10823152 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
10823066 TTTTTTTGTA
10823076 ATTTTTATTTTTAATGGTTTTAATAC
1 ATTTTTATTTTTAATGGTTTTAATAC
* *
10823102 A-TTTTA-GTTT--T--TCTTAA-AC
1 ATTTTTATTTTTAATGGTTTTAATAC
10823121 AATTTTTATTTTTAATGGTTTTAATAC
1 -ATTTTTATTTTTAATGGTTTTAATAC
10823148 ATTTT
1 ATTTT
10823153 GAATTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 5 0.13
22 4 0.10
24 4 0.10
25 5 0.13
26 11 0.28
27 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (26 bp):
ATTTTTATTTTTAATGGTTTTAATAC
Found at i:10824868 original size:56 final size:56
Alignment explanation
Indices: 10824756--10824889 Score: 152
Period size: 58 Copynumber: 2.4 Consensus size: 56
10824746 TTAATTCATA
*
10824756 TAATAATAATTATATTAAAAATGTTATTAAATTATATTTTTTTATTAAATTATA-TT
1 TAATAATAATTATATTAAAAATGTTA-TAAATTATATTTTTGTATTAAATTATATTT
*
10824812 TAATAATAATTATGTTAAAATATGGTTA-AACTATT-TATTATTTGTATTAAATTAT-TTT
1 TAATAATAATTATATTAAAA-AT-GTTATAA--ATTATATT-TTTGTATTAAATTATATTT
10824870 TAATAATAATCT-TATTAAAA
1 TAATAATAAT-TATATTAAAA
10824890 TTTAATAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
56 21 0.31
57 6 0.09
58 40 0.59
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (56 bp):
TAATAATAATTATATTAAAAATGTTATAAATTATATTTTTGTATTAAATTATATTT
Found at i:10825068 original size:41 final size:39
Alignment explanation
Indices: 10824985--10825072 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
10824975 TTACAACATC
*
10824985 ATTCCATTCAACCAAACACAAGAATATTATTACAGTTCT
1 ATTCCATTCAACCAAACACAAGAATATTATTACAGCTCT
***
10825024 ATTCCATTCAACCAAACAGTTGAATTACTTATTACAGCTCT
1 ATTCCATTCAACCAAACACAAGAA-TA-TTATTACAGCTCT
10825065 ATTCCATT
1 ATTCCATT
10825073 ACAGTCCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 21 0.49
40 2 0.05
41 20 0.47
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (39 bp):
ATTCCATTCAACCAAACACAAGAATATTATTACAGCTCT
Found at i:10825075 original size:16 final size:17
Alignment explanation
Indices: 10825054--10825093 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
10825044 TGAATTACTT
10825054 ATTACAGCT-CTATTCC
1 ATTACAGCTCCTATTCC
10825070 ATTACAG-TCCTATTCC
1 ATTACAGCTCCTATTCC
10825086 ATTACAGC
1 ATTACAGC
10825094 CAACCAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (17 bp):
ATTACAGCTCCTATTCC
Found at i:10829173 original size:7 final size:7
Alignment explanation
Indices: 10829163--10829187 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10829153 TTATATACAT
10829163 AATACTA
1 AATACTA
10829170 AATACTA
1 AATACTA
10829177 AATACTA
1 AATACTA
10829184 AATA
1 AATA
10829188 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:10830189 original size:55 final size:52
Alignment explanation
Indices: 10830128--10830238 Score: 177
Period size: 52 Copynumber: 2.1 Consensus size: 52
10830118 TATAAAATAC
10830128 AAATTAATTAAAATTACATAAATGAAAAAATATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATG-AAAAA-A-ATTAAATAATATTCAAAAATTA
**
10830183 AAATTAATTAAAATTACATAAATGAAAAAAATTAAATAATATTCAAATTTTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATTAAATAATATTCAAAAATTA
10830235 AAAT
1 AAAT
10830239 AAACCGTTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
52 24 0.44
53 1 0.02
54 5 0.09
55 24 0.44
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (52 bp):
AAATTAATTAAAATTACATAAATGAAAAAAATTAAATAATATTCAAAAATTA
Found at i:10832692 original size:7 final size:7
Alignment explanation
Indices: 10832680--10832709 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
10832670 AGGGGGTTAG
10832680 TACCATA
1 TACCATA
10832687 TACCATA
1 TACCATA
10832694 TACCATA
1 TACCATA
10832701 TACCATA
1 TACCATA
10832708 TA
1 TA
10832710 TCACAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
TACCATA
Found at i:10839646 original size:19 final size:18
Alignment explanation
Indices: 10839619--10839655 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10839609 AAATTCACAT
*
10839619 ATTTTAATAATTTTAAAAA
1 ATTTAAATAA-TTTAAAAA
10839638 ATTTAAATAATTTAAAAA
1 ATTTAAATAATTTAAAAA
10839656 CTTCTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTAAATAATTTAAAAA
Found at i:10839788 original size:21 final size:21
Alignment explanation
Indices: 10839764--10839813 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
10839754 CACTGTTTCT
*
10839764 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
10839785 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
10839806 AATCTCAC
1 AATCTCAC
10839814 TGCCACCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:10840230 original size:16 final size:16
Alignment explanation
Indices: 10840209--10840262 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
10840199 TTTAGTTAGT
*
10840209 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAGC
*
10840225 TGTAATTGAATAGAGC
1 TGTAATGGAATAGAGC
10840241 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
10840257 TGTAAT
1 TGTAAT
10840263 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:10840573 original size:58 final size:57
Alignment explanation
Indices: 10840430--10840573 Score: 152
Period size: 58 Copynumber: 2.5 Consensus size: 57
10840420 TTGTTATTAA
* * *
10840430 ATTTTAATA-AGATTATTATTGAA-AATAATTTAATAAAAATAATAAATAGTTTAACCAT
1 ATTTTAATATA-ATTATTATTGAATAA-AATTTAATAAAAATAAT-AATAATTTAACAAC
* * *
10840488 ATTTTAACATAATTATTATTAAATAAAATTTAATAAAAA-AAT-ATAATTTAATAAC
1 ATTTTAATATAATTATTATTGAATAAAATTTAATAAAAATAATAATAATTTAACAAC
10840543 ATTCTTAATATAATTATTATATGAATTAAAA
1 ATT-TTAATATAATTATTAT-TGAA-TAAAA
10840574 AATCAAAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
55 12 0.16
56 15 0.21
57 6 0.08
58 37 0.51
59 3 0.04
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTGAATAAAATTTAATAAAAATAATAATAATTTAACAAC
Found at i:10846756 original size:15 final size:16
Alignment explanation
Indices: 10846731--10846760 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10846721 TTCAAGATAA
10846731 GATGATGAAGGAAGAT
1 GATGATGAAGGAAGAT
10846747 GATG-TGAAGGAAGA
1 GATGATGAAGGAAGA
10846761 AGAAGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (16 bp):
GATGATGAAGGAAGAT
Found at i:10856394 original size:41 final size:41
Alignment explanation
Indices: 10856349--10856432 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
10856339 GTGCAAAAGA
*
10856349 TTGGACATTTACTATATTTTACGTTATTGTTTCGTAGTGGT
1 TTGGACATTTACTATATTTTACGTTATTGTTTCATAGTGGT
* ** *
10856390 TTGGATATTTACTATATTTTATTTTATTGTTTCATGGTGGT
1 TTGGACATTTACTATATTTTACGTTATTGTTTCATAGTGGT
10856431 TT
1 TT
10856433 TCCTTTTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.19, C:0.07, G:0.18, T:0.56
Consensus pattern (41 bp):
TTGGACATTTACTATATTTTACGTTATTGTTTCATAGTGGT
Found at i:10857219 original size:21 final size:20
Alignment explanation
Indices: 10857155--10857211 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
10857145 TTTTTTTTGC
*
10857155 TACTATTTTGCTGTTGT-TT
1 TACTATTTTGCTATTGTATT
10857174 TGATTCTATTTTGCTATTGTATT
1 T-A--CTATTTTGCTATTGTATT
*
10857197 TACTATTTTGTTATT
1 TACTATTTTGCTATT
10857212 ATTATTTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.41
22 15 0.47
23 3 0.09
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63
Consensus pattern (20 bp):
TACTATTTTGCTATTGTATT
Found at i:10858405 original size:42 final size:42
Alignment explanation
Indices: 10858349--10858431 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
10858339 ATGGGCTACG
** *
10858349 GATCAAAATTCGTGACAAATACACAAAGAGCGTCCCATGGAA
1 GATCAAAACCCGTGACAAATACACAAAGAGCATCCCATGGAA
* *
10858391 GATCAAAACCCGTGACGAATACGCAAAGAGCATCCCATGGA
1 GATCAAAACCCGTGACAAATACACAAAGAGCATCCCATGGA
10858432 GGTCAATTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.14
Consensus pattern (42 bp):
GATCAAAACCCGTGACAAATACACAAAGAGCATCCCATGGAA
Found at i:10871307 original size:131 final size:131
Alignment explanation
Indices: 10871063--10871321 Score: 333
Period size: 131 Copynumber: 2.0 Consensus size: 131
10871053 TGATTAATCA
* * *
10871063 TTTAGAAATTCCTTAAAACGAAGGCAATGTTTGATGTTTGGCAATTCGAGGAATCGTGCCCTATC
1 TTTAAAAATTCCTTAAAACGAAGGAAATGTTTGATGCTTGGCAATTCGAGGAATCGTGCCCTATC
* * * * * *
10871128 ATGTTGGGTTGCAATTTTCTGTTTGTTCGAAACAATCGAATATTCCTTTGGTATTTCACTCATGC
66 ATGCTGGGTTGCAATTTTCTGTTTGTTCAAAACAATCAAACATCCCTTTGGAATTTCACTCATGC
10871193 C
131 C
* * *
10871194 TTTAAAAATT-CTCTAAAACGAAGGAAATGTTTGATGCTTGGCAATTCGGGGAGTTGTGCCCTAT
1 TTTAAAAATTCCT-TAAAACGAAGGAAATGTTTGATGCTTGGCAATTCGAGGAATCGTGCCCTAT
* ** * *
10871258 CGTGCTGGGTTGCAATTTT-TCGTTTGTTCAAAATGATCAAACGTCCCTTTTGAATTTCACTCAT
65 CATGCTGGGTTGCAATTTTCT-GTTTGTTCAAAACAATCAAACATCCCTTTGGAATTTCACTCAT
10871322 ATTTTCTAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
130 3 0.03
131 106 0.97
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (131 bp):
TTTAAAAATTCCTTAAAACGAAGGAAATGTTTGATGCTTGGCAATTCGAGGAATCGTGCCCTATC
ATGCTGGGTTGCAATTTTCTGTTTGTTCAAAACAATCAAACATCCCTTTGGAATTTCACTCATGC
C
Found at i:10883090 original size:45 final size:45
Alignment explanation
Indices: 10883021--10883228 Score: 181
Period size: 45 Copynumber: 4.6 Consensus size: 45
10883011 AAGTCACAAG
* *
10883021 TCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* * * * *
10883066 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTCAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA---AGAAAGCA-A-A
* * * * *
10883117 TCTCATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA-AAA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* *
10883158 TCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* * *
10883203 TATTATTTCCCTGAAATTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
10883229 ATAGATTGAA
Statistics
Matches: 127, Mismatches: 26, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
41 26 0.20
42 2 0.02
43 3 0.02
44 6 0.05
45 53 0.42
46 2 0.02
49 6 0.05
50 2 0.02
51 27 0.21
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
Found at i:10883183 original size:137 final size:137
Alignment explanation
Indices: 10883016--10883320 Score: 504
Period size: 137 Copynumber: 2.2 Consensus size: 137
10883006 GATTGAAGTC
*
10883016 ACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGAAAGCAAATATTATTTCCCTGAA
* * *
10883081 GTTGCAGTGGAACAGATTCAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCA
66 ATTGCAGTGGAACAGATTCAAGCTATAAACCACAGATCTCATATCTCTGAAGTCGCAGTAGAGCA
10883146 GATCAAA
131 GATCAAA
10883153 ACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGAAAGCAAATATTATTTCCCTGAA
1 ACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGAAAGCAAATATTATTTCCCTGAA
* * *
10883218 ATTGCAGTGGAATAGATTGAAGCTATAAATCACAGATCTCATATCTCTGAAGTCGCAGTAGAGCA
66 ATTGCAGTGGAACAGATTCAAGCTATAAACCACAGATCTCATATCTCTGAAGTCGCAGTAGAGCA
10883283 GATCAAA
131 GATCAAA
* * *
10883290 ACAA-ACTCTATTTCCTTGAAGTTGCAGTGGA
1 ACAAGTCT-TATCTCCTTGAAGTTGTAGTGGA
10883321 ACGATAGAGC
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
136 2 0.01
137 155 0.99
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (137 bp):
ACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGAAAGCAAATATTATTTCCCTGAA
ATTGCAGTGGAACAGATTCAAGCTATAAACCACAGATCTCATATCTCTGAAGTCGCAGTAGAGCA
GATCAAA
Found at i:10883394 original size:16 final size:18
Alignment explanation
Indices: 10883363--10883395 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
10883353 TGGGTTGAAC
10883363 GAGGCTACCTAAAGAAGA
1 GAGGCTACCTAAAGAAGA
10883381 GAGGC-ACC-AAAGAAG
1 GAGGCTACCTAAAGAAG
10883396 TCAAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.45, C:0.18, G:0.30, T:0.06
Consensus pattern (18 bp):
GAGGCTACCTAAAGAAGA
Found at i:10883946 original size:14 final size:14
Alignment explanation
Indices: 10883913--10883954 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
10883903 CAAATGTCTA
10883913 TTTTTTTTCTTTT-
1 TTTTTTTTCTTTTC
**
10883926 TCATTTTTCTTTTC
1 TTTTTTTTCTTTTC
10883940 TTTTTTTTCTTTTC
1 TTTTTTTTCTTTTC
10883954 T
1 T
10883955 GAATTTGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:10884036 original size:8 final size:7
Alignment explanation
Indices: 10884010--10884034 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10884000 TATATTAGAT
10884010 AAAATAA
1 AAAATAA
10884017 AAAATAA
1 AAAATAA
10884024 AAAATAA
1 AAAATAA
10884031 AAAA
1 AAAA
10884035 ATTCTTAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:10887401 original size:45 final size:45
Alignment explanation
Indices: 10887330--10887424 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
10887320 ATTGTTTATC
* * **
10887330 GAAATATGATATCGGGCTTCGGGCCTAGCAGGCTATGATGCTGGT
1 GAAATATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGT
* *
10887375 GAAATATTAT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGT
1 GAAATATGATATCGGG-CTTCGAGCCTAGCAGGCTATAATGCCAGT
10887420 GAAAT
1 GAAAT
10887425 GAAATGTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 5 0.12
45 38 0.88
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (45 bp):
GAAATATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGT
Found at i:10892563 original size:3 final size:3
Alignment explanation
Indices: 10892555--10892657 Score: 77
Period size: 3 Copynumber: 33.7 Consensus size: 3
10892545 AAATGGTGAA
** * *
10892555 AAT AAT AAT AAT AAT AAT ACA- AAT ACC AAC AACG AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA-T AAT AAT AAT AAT
* * *
10892600 AGT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AACG ACAT GAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T A-AT -AAT AAT
10892648 AAT -AT AAT AA
1 AAT AAT AAT AA
10892658 AAAGTTTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
2 5 0.06
3 69 0.84
4 6 0.07
5 2 0.02
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:10893765 original size:11 final size:11
Alignment explanation
Indices: 10893749--10893775 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10893739 GCTTACAATC
10893749 TTTTTTTTGTT
1 TTTTTTTTGTT
10893760 TTTTTTTTGTT
1 TTTTTTTTGTT
10893771 TTTTT
1 TTTTT
10893776 ATTCTTCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:10894522 original size:44 final size:44
Alignment explanation
Indices: 10894277--10894698 Score: 173
Period size: 44 Copynumber: 9.5 Consensus size: 44
10894267 TGCTTCGATA
* * * *
10894277 TGCTCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTTGATC
1 TGCTCCACTGGAACTTCAAGGAGAAGAGATTTGTAGCTTTAATC
* * * * *
10894321 TACTCCGCTGGAACTTCAAAGAGGTAAGA-ATTAT-TA-ATTTCAACC
1 TGCTCCACTGGAACTTCAAGGA-G-AAGAGATT-TGTAGCTTT-AATC
* ** *
10894366 TGCTCCACTGCAACTTC-AGAGAGATACG-G-TTTGTATATTTTTATC
1 TGCTCCACTGGAACTTCAAG-GAGA-A-GAGATTTGTA-GCTTTAATC
* * * * *
10894411 ATGCTCTACTGCAACTTC-AGAGAGATAAAGA-TTGTGGC-TTGATC
1 -TGCTCCACTGGAACTTCAAG-GAGA-AGAGATTTGTAGCTTTAATC
* * * * *
10894455 TGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATC
1 TGCTCCACTGGAACTTCAAGGAGAAGAGATTTGTAGCTTTAATC
* * * * *
10894499 TACTCCGCTGGAACTTCAAGGAGATA-AGGTTGGTGGCTTTAATC
1 TGCTCCACTGGAACTTCAAGGAGA-AGAGATTTGTAGCTTTAATC
* * * * * * *
10894543 CGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCAATC
1 TGCTCCACTGGAACTTCAAGGAGAAGAGATTTGTAGCTTTAATC
* * * * * * *
10894587 TACTCCGCTGGAACTTTAAGGAGATA-AGGTTGGTGGTTTTAATC
1 TGCTCCACTGGAACTTCAAGGAGA-AGAGATTTGTAGCTTTAATC
* * * * * * **
10894631 TGCTCCAATGTAATTTTAGGGAGAAAAGATTTGTAGCTTCGATC
1 TGCTCCACTGGAACTTCAAGGAGAAGAGATTTGTAGCTTTAATC
* * *
10894675 TTCTCCACTGAAACTTTAAGGAGA
1 TGCTCCACTGGAACTTCAAGGAGA
10894699 TAAGGTTGAT
Statistics
Matches: 277, Mismatches: 80, Indels: 42
0.69 0.20 0.11
Matches are distributed among these distances:
42 4 0.01
43 27 0.10
44 179 0.65
45 29 0.10
46 38 0.14
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
TGCTCCACTGGAACTTCAAGGAGAAGAGATTTGTAGCTTTAATC
Found at i:10894571 original size:88 final size:88
Alignment explanation
Indices: 10894278--10894718 Score: 419
Period size: 88 Copynumber: 5.0 Consensus size: 88
10894268 GCTTCGATAT
* *
10894278 GCTCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGGAACTTCAAAGA
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGGAACTTCAAGGA
* * * ***
10894343 GGTAAGAATT-ATTAATTTCAA-CC
66 GATAAG-GTTGGTGGCTTT-AATCC
* * * * ** * * ** *
10894366 TGCTCCACTGCAACTTCAGAGAGATACG-G-TTTGTATATTTTTATCATGCTCTACTGCAACTTC
1 -GCTCCAATGTAATTTCAGGGAGA-A-GAGATTTGTA-GCTTTGATC-TACTCCGCTGGAACTTC
* * *
10894429 -AGAGAGATAAAGATT-GTGGC-TTGATCT
61 AAG-GAGAT-AAGGTTGGTGGCTTTAATCC
10894456 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGGAACTTCAAGGA
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGGAACTTCAAGGA
10894521 GATAAGGTTGGTGGCTTTAATCC
66 GATAAGGTTGGTGGCTTTAATCC
* ** *
10894544 GCTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCAATCTACTCCGCTGGAACTTTAAGGA
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGGAACTTCAAGGA
* *
10894609 GATAAGGTTGGTGGTTTTAATCT
66 GATAAGGTTGGTGGCTTTAATCC
* * * * * * *
10894632 GCTCCAATGTAATTTTAGGGAGAAAAGATTTGTAGCTTCGATCTTCTCCACTGAAACTTTAAGGA
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGGAACTTCAAGGA
* *
10894697 GATAAGGTTGATGGCTTAAATC
66 GATAAGGTTGGTGGCTTTAATC
10894719 TGCTTCCCTA
Statistics
Matches: 292, Mismatches: 48, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
86 5 0.02
87 24 0.08
88 176 0.60
89 50 0.17
90 12 0.04
91 22 0.08
92 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (88 bp):
GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGGAACTTCAAGGA
GATAAGGTTGGTGGCTTTAATCC
Found at i:10894719 original size:88 final size:88
Alignment explanation
Indices: 10894444--10894722 Score: 434
Period size: 88 Copynumber: 3.2 Consensus size: 88
10894434 GATAAAGATT
* * *
10894444 GTGGC-TTGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCT
1 GTGGCTTTAATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCT
*
10894508 GGAACTTCAAGGAGATAAGGTTG
66 GGAACTTTAAGGAGATAAGGTTG
* *
10894531 GTGGCTTTAATCCGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCAATCTACTCCGCT
1 GTGGCTTTAATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCT
10894596 GGAACTTTAAGGAGATAAGGTTG
66 GGAACTTTAAGGAGATAAGGTTG
* * * *
10894619 GTGGTTTTAATCTGCTCCAATGTAATTTTAGGGAGAAAAGATTTGTAGCTTCGATCTTCTCCACT
1 GTGGCTTTAATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCT
*
10894684 GAAACTTTAAGGAGATAAGGTTG
66 GGAACTTTAAGGAGATAAGGTTG
* *
10894707 ATGGCTTAAATCTGCT
1 GTGGCTTTAATCTGCT
10894723 TCCCTACTAC
Statistics
Matches: 175, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 5 0.03
88 170 0.97
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (88 bp):
GTGGCTTTAATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCT
GGAACTTTAAGGAGATAAGGTTG
Found at i:10894844 original size:132 final size:132
Alignment explanation
Indices: 10894692--10895451 Score: 1037
Period size: 132 Copynumber: 5.8 Consensus size: 132
10894682 CTGAAACTTT
*
10894692 AAGGAGATAAGG-TTGATGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCTGT
1 AAGGAGATAAGGCTAG-TGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCTGT
* *
10894756 CTTCGATCTGTTCCACTACTGCTTAGGGAAATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
10894821 CTC
130 CTC
*
10894824 AAGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGC-GTC
1 AAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCTGTC
* * * * *
10894888 TACGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACAATCTTCAACCTGCTCTACTGCTGG
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGC
10894953 TC
131 TC
* * * * * * *
10894955 AGGGAGACAAGGCTGGTGGCTTAAATCTGCTTTCCTACTACCTCGAGAAGATAAAATTC-ATCGT
1 AAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCT-GT
* * * ** *
10895019 CTTCAATCTGCTCCTCTACTACTTATTGAGATAAGATCAACAATCTTCAGCCTGCTCCAC-GTCT
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTG-CT
10895083 GCTC
129 GCTC
* * * *
10895087 AAAGAGATAAGGCTAGTGCCTTATATCTACTTCCCTACTACCTCGGGAAGATAAGATTCG-TCGT
1 AAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCT-GT
* * * * ** *
10895151 CTTCGATCTACTCCACTACTGCTTAAGGAAATAAGATCTACAATTTTCAGTTTGCTCTACTGCTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
10895216 CTC
130 CTC
* * * *
10895219 -AGAGAGATAAGGATAGTGGCTTAAATCTGCTTCCATACTACCTCGGGAAGATAAGATTCGTTAT
1 AAG-GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCTGT
* * *
10895283 CTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCTTGCTCCACTGCTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
10895348 CTC
130 CTC
* * *
10895351 AGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAATATTCGCCGTC
1 AAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCTGTC
*
10895416 TTCGATCTGCCCCACTACTGCTTAGGGAGATAAGAT
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
10895452 ATCTGAATTC
Statistics
Matches: 548, Mismatches: 71, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
131 119 0.22
132 424 0.77
133 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
AAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCTGTC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGC
TC
Found at i:10898597 original size:35 final size:35
Alignment explanation
Indices: 10898503--10898904 Score: 439
Period size: 35 Copynumber: 11.5 Consensus size: 35
10898493 GGTAAAGTGC
* * *
10898503 GAAATGTAGGTATGGTAT-AACCATACCGAATTGT
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * * ** * *
10898537 GAAATGTAGGTATGGCATCGTCCATACTAAGCTAT
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * * *
10898572 GATACGTAGGTATGGTATTAACCATATCGAGTTGT
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * *
10898607 GAAACGTAGGTATGGTATTAACCATACCGAGATGT
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
10898642 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
*
10898677 GAAATGTAGGTATGGTATCATCCATACCGAGTTGT
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* *
10898712 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * *
10898747 GAAATGTAGGTATGGTATTATCCATACTGAGTTGT
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* *
10898782 GAAACGTAGGCATGGTATCATCCATACCGAGTTGA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * * * ** **
10898817 GAAATGTAGGTATGGTGTTATGCATACTAAGTTAA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * *
10898852 GAAATGTAGGTATGGAAT-TTCCCATACCGAGTTGT
1 GAAACGTAGGTATGGTATCAT-CCATACCGAGTTGT
* *
10898887 GAAATGTAGGTATAGTAT
1 GAAACGTAGGTATGGTAT
10898905 TTCAATGAGG
Statistics
Matches: 313, Mismatches: 53, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
34 18 0.06
35 295 0.94
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (35 bp):
GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
Found at i:10898616 original size:70 final size:70
Alignment explanation
Indices: 10898503--10898905 Score: 495
Period size: 70 Copynumber: 5.8 Consensus size: 70
10898493 GGTAAAGTGC
* * * * ** *
10898503 GAAATGTAGGTATGGTAT-AACCATACCGAATTGTGAAATGTAGGTATGGCATCGTCCATACTAA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGA
* *
10898567 GCTAT
66 GTTGT
* * * * * * *
10898572 GATACGTAGGTATGGTATTAACCATATCGAGTTGTGAAACGTAGGTATGGTATTAACCATACCGA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGA
*
10898637 GATGT
66 GTTGT
* *
10898642 GAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATCATCCATACCGA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGA
10898707 GTTGT
66 GTTGT
* *
10898712 GAAATGTAGGTATGGTATCATCCATACCGAGTTGAGAAATGTAGGTATGGTATTATCCATACTGA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGA
10898777 GTTGT
66 GTTGT
* * * * *
10898782 GAAACGTAGGCATGGTATCATCCATACCGAGTTGAGAAATGTAGGTATGGTGTTATGCATACTAA
1 GAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGA
**
10898847 GTTAA
66 GTTGT
* * * *
10898852 GAAATGTAGGTATGGAAT-TTCCCATACCGAGTTGTGAAATGTAGGTATAGTATT
1 GAAACGTAGGTATGGTATCAT-CCATACCGAGTTGTGAAATGTAGGTATGGTATT
10898906 TCAATGAGGA
Statistics
Matches: 293, Mismatches: 39, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
69 17 0.06
70 276 0.94
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (70 bp):
GAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGA
GTTGT
Found at i:10899788 original size:7 final size:7
Alignment explanation
Indices: 10899769--10899811 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
10899759 TTTTTGATTA
10899769 TATTTTT
1 TATTTTT
10899776 TAATTTTT
1 T-ATTTTT
*
10899784 TATTTAT
1 TATTTTT
*
10899791 T-TTTAT
1 TATTTTT
10899797 TATTTTT
1 TATTTTT
10899804 TATTTTT
1 TATTTTT
10899811 T
1 T
10899812 TTATCTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.59
8 7 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:10899793 original size:9 final size:9
Alignment explanation
Indices: 10899766--10899815 Score: 57
Period size: 10 Copynumber: 5.4 Consensus size: 9
10899756 CTTTTTTTGA
*
10899766 TTATATTTT
1 TTATTTTTT
*
10899775 TTA-ATTTT
1 TTATTTTTT
10899783 TTATTTATTT
1 TTATTT-TTT
10899793 TTATTATTTT
1 TTATT-TTTT
10899803 TTATTTTTT
1 TTATTTTTT
10899812 TTAT
1 TTAT
10899816 CTCAATGCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 8 0.22
9 12 0.32
10 16 0.43
11 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTTTTT
Found at i:10899794 original size:20 final size:20
Alignment explanation
Indices: 10899758--10899815 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
10899748 TTTCTTCTCT
*
10899758 TTTTTTGATTATATTTTT-TAA
1 TTTTTT-ATT-TATTTTTATTA
10899779 TTTTTTATTTATTTTTATTA
1 TTTTTTATTTATTTTTATTA
10899799 TTTTTTATTT-TTTTTAT
1 TTTTTTATTTATTTTTAT
10899816 CTCAATGCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 14 0.40
20 15 0.43
21 6 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTATTTATTTTTATTA
Found at i:10904440 original size:3 final size:3
Alignment explanation
Indices: 10904432--10904504 Score: 85
Period size: 3 Copynumber: 23.7 Consensus size: 3
10904422 CAACATCGAA
* *
10904432 AAT AAT AAT AGT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10904480 AACG ACAT GAAT AAT AAT -AT AAT AA
1 AA-T A-AT -AAT AAT AAT AAT AAT AA
10904505 AAAGTTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.03
3 53 0.88
4 3 0.05
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10906708 original size:13 final size:12
Alignment explanation
Indices: 10906690--10906737 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10906680 TTTGCGTCTG
10906690 TTTCTTTTTCTTT
1 TTTC-TTTTCTTT
* *
10906703 TTTCTTTCCCTT
1 TTTCTTTTCTTT
10906715 TTTCTTTTCTTT
1 TTTCTTTTCTTT
*
10906727 CTTTCCTTTCT
1 -TTTCTTTTCT
10906738 ATTTAGCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 16 0.55
13 13 0.45
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:10906729 original size:21 final size:19
Alignment explanation
Indices: 10906693--10906732 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
10906683 GCGTCTGTTT
10906693 CTTTTTCTTTTTTCTTTCC
1 CTTTTTCTTTTTTCTTTCC
10906712 CTTTTTCTTTTCTTTCTTTCC
1 CTTTTTC-TTT-TTTCTTTCC
10906733 TTTCTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
21 9 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
CTTTTTCTTTTTTCTTTCC
Found at i:10910394 original size:14 final size:15
Alignment explanation
Indices: 10910365--10910400 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
10910355 CAAAACTAAT
10910365 ATTTTTACGATATTC
1 ATTTTTACGATATTC
10910380 ATTTTTACGAT-TTC
1 ATTTTTACGATATTC
10910394 ATTTTTA
1 ATTTTTA
10910401 TTTAAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (15 bp):
ATTTTTACGATATTC
Found at i:10915882 original size:22 final size:20
Alignment explanation
Indices: 10915834--10915890 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
10915824 TAATCATTTG
* *
10915834 ATTAATAAATATCTTTTATA
1 ATTAATAAATATATTTAATA
10915854 ATTAATAAATATATATTAATA
1 ATTAATAAATATAT-TTAATA
*
10915875 ATTAAATACATATATT
1 ATT-AATAAATATATT
10915891 ACAAATGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.41
21 9 0.28
22 10 0.31
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAATAAATATATTTAATA
Found at i:10916405 original size:16 final size:15
Alignment explanation
Indices: 10916382--10916416 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
10916372 ACAATTTAAT
*
10916382 TTATTTATCATATAA
1 TTATTTATAATATAA
10916397 TTATCTTATAATATAA
1 TTAT-TTATAATATAA
10916413 TTAT
1 TTAT
10916417 AATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTATAATATAA
Found at i:10916460 original size:25 final size:22
Alignment explanation
Indices: 10916408--10916462 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 22
10916398 TATCTTATAA
10916408 TATAATTATAATAAATTAATTT
1 TATAATTATAATAAATTAATTT
*
10916430 AATAATTACTAATAAATATATATTT
1 TATAATTA-TAATAAAT-TA-ATTT
10916455 TATAATTA
1 TATAATTA
10916463 AAATCTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 8 0.29
24 2 0.07
25 11 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATTATAATAAATTAATTT
Found at i:10941145 original size:18 final size:18
Alignment explanation
Indices: 10941122--10941214 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
10941112 CCCAACTACT
*
10941122 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
10941140 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
10941158 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
10941176 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
10941194 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
10941212 GTA
1 GTA
10941215 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:10941174 original size:36 final size:36
Alignment explanation
Indices: 10941122--10941214 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
10941112 CCCAACTACT
*
10941122 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
10941158 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
10941194 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
10941215 AACGGTCGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:10944587 original size:15 final size:18
Alignment explanation
Indices: 10944548--10944590 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
10944538 TATTACATTA
10944548 TTATTATTTTCTTTCTAT
1 TTATTATTTTCTTTCTAT
10944566 TTATTATTTT-TTTCT-T
1 TTATTATTTTCTTTCTAT
10944582 TT-TTATTTT
1 TTATTATTTT
10944591 ATTTTCGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.28
16 3 0.12
17 5 0.20
18 10 0.40
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATTATTTTCTTTCTAT
Found at i:10944595 original size:17 final size:21
Alignment explanation
Indices: 10944545--10944596 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
10944535 TGATATTACA
10944545 TTATTATTATTTTCTTTCTAT
1 TTATTATTATTTTCTTTCTAT
*
10944566 TTATTATTTTTTTC-TT-T-T
1 TTATTATTATTTTCTTTCTAT
10944584 TTATT-TTATTTTC
1 TTATTATTATTTTC
10944597 GAATTTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 7 0.24
18 6 0.21
19 1 0.03
20 2 0.07
21 13 0.45
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (21 bp):
TTATTATTATTTTCTTTCTAT
Found at i:10945328 original size:12 final size:12
Alignment explanation
Indices: 10945311--10945358 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10945301 TATTTATCTC
10945311 TTTATATTTATG
1 TTTATATTTATG
10945323 TTTATATTTTATG
1 TTTATA-TTTATG
** *
10945336 TATTATACCTATC
1 T-TTATATTTATG
10945349 TTTATATTTA
1 TTTATATTTA
10945359 CGCATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:10945541 original size:22 final size:22
Alignment explanation
Indices: 10945507--10945548 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10945497 TAACATGCTA
** *
10945507 TTATTACTTTTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
10945529 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
10945549 GTACTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:10945604 original size:18 final size:18
Alignment explanation
Indices: 10945581--10945629 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
10945571 TGTTTTAATA
10945581 CCATTATTATTACTACTT
1 CCATTATTATTACTACTT
*
10945599 CCATTATTATTACTATTT
1 CCATTATTATTACTACTT
*
10945617 CCATTATTTTTAC
1 CCATTATTATTAC
10945630 GTAAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (18 bp):
CCATTATTATTACTACTT
Found at i:10951936 original size:31 final size:31
Alignment explanation
Indices: 10951895--10951964 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
10951885 AAATTAAAAT
*
10951895 TTTTAATATATATTAT-ACTTTTTTTTGTAAA
1 TTTTAGTATATATTATGA-TTTTTTTTGTAAA
*
10951926 TTTTAGTATATTTTATGATTTTTTTTGTAAA
1 TTTTAGTATATATTATGATTTTTTTTGTAAA
10951957 TTTATAGT
1 TTT-TAGT
10951965 TTAATAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 30 0.86
32 5 0.14
ACGTcount: A:0.29, C:0.01, G:0.07, T:0.63
Consensus pattern (31 bp):
TTTTAGTATATATTATGATTTTTTTTGTAAA
Found at i:10953620 original size:31 final size:32
Alignment explanation
Indices: 10953584--10953647 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
10953574 TTAGGCTTTA
* *
10953584 AATTTCATTTTAA-TTTCGATTTA-CCCTTTTT
1 AATTTCA-TTTAAGTTTCAATTAAGCCCTTTTT
10953615 AATTTCATTTAAGTTTCAATTAAGCCCTTTTT
1 AATTTCATTTAAGTTTCAATTAAGCCCTTTTT
10953647 A
1 A
10953648 TTTTAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 15 0.52
32 9 0.31
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.53
Consensus pattern (32 bp):
AATTTCATTTAAGTTTCAATTAAGCCCTTTTT
Found at i:10958975 original size:25 final size:25
Alignment explanation
Indices: 10958938--10959020 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
10958928 TTTTAAAACT
*
10958938 GTTTTGTTATTATTATTTATTTTAA
1 GTTTTTTTATTATTATTTATTTTAA
*
10958963 GTTTTTTTCTTATATTATTTATTTTAA
1 GTTTTTTT-AT-TATTATTTATTTTAA
* ** *
10958990 ATCGTTTTATTATTATTTGTTTTAA
1 GTTTTTTTATTATTATTTATTTTAA
10959015 GTTTTT
1 GTTTTT
10959021 CACATATTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 24 0.52
26 2 0.04
27 20 0.43
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (25 bp):
GTTTTTTTATTATTATTTATTTTAA
Found at i:10958978 original size:27 final size:26
Alignment explanation
Indices: 10958939--10959020 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
10958929 TTTAAAACTG
*
10958939 TTTTGTTATTATTATTTATTTTAAGTT
1 TTTTTTTA-TATTATTTATTTTAAGTT
* *
10958966 TTTTTCTTATATTATTTATTTTAAATC
1 TTTTT-TTATATTATTTATTTTAAGTT
* * *
10958993 GTTTTAT-TATTATTTGTTTTAAGTT
1 TTTTTTTATATTATTTATTTTAAGTT
10959018 TTT
1 TTT
10959021 CACATATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 17 0.38
26 1 0.02
27 24 0.53
28 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (26 bp):
TTTTTTTATATTATTTATTTTAAGTT
Found at i:10959028 original size:25 final size:24
Alignment explanation
Indices: 10958948--10959039 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 24
10958938 GTTTTGTTAT
*
10958948 TATTATTTATTTTAAGTTTTTTTCTTA
1 TATTATTTATTTTAAG--TTTTTC-AA
* *
10958975 TATTATTTATTTTAAATCGTTTT-AT
1 TATTATTTATTTTAAGT--TTTTCAA
*
10959000 TATTATTTGTTTTAAGTTTTTCACA
1 TATTATTTATTTTAAGTTTTTCA-A
*
10959025 TATTATGTATTTTAA
1 TATTATTTATTTTAA
10959040 ACTATTATCA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
23 4 0.08
24 1 0.02
25 29 0.55
27 19 0.36
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.64
Consensus pattern (24 bp):
TATTATTTATTTTAAGTTTTTCAA
Found at i:10959174 original size:28 final size:27
Alignment explanation
Indices: 10959128--10959193 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
10959118 ATATATATCT
* **
10959128 TTTATTTTTAAATTGTTTTTGTACATTA
1 TTTA-TTTTAAATTCTTTTTACACATTA
*
10959156 TTTATTTTAAATTTCTTTTTACATATTA
1 TTTATTTTAAA-TTCTTTTTACACATTA
*
10959184 TTTATCTTAA
1 TTTATTTTAA
10959194 CTTTTATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTATTTTAAATTCTTTTTACACATTA
Found at i:10959256 original size:26 final size:26
Alignment explanation
Indices: 10959204--10959334 Score: 122
Period size: 26 Copynumber: 5.1 Consensus size: 26
10959194 CTTTTATATG
* * * * *
10959204 TTATTTTAGAGTGTCTTATCTAATAT
1 TTATTTTAAATTGTTTTATATATTAT
*
10959230 TTATTTTAAATTGTTTTGTATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
**
10959256 TTATTTTAAATTTGTTTTACGTATTAT
1 TTATTTTAAA-TTGTTTTATATATTAT
*
10959283 TTATTTGAAATTG-TTT-TATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
* * * *
10959307 TGACTTCAAATTGTTTTATATAATAT
1 TTATTTTAAATTGTTTTATATATTAT
10959333 TT
1 TT
10959335 TGTTGCATAT
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
24 16 0.19
25 6 0.07
26 41 0.48
27 22 0.26
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (26 bp):
TTATTTTAAATTGTTTTATATATTAT
Found at i:10959280 original size:27 final size:24
Alignment explanation
Indices: 10959227--10959327 Score: 121
Period size: 24 Copynumber: 4.0 Consensus size: 24
10959217 TCTTATCTAA
10959227 TATTTATTTTAAATTGTTTTGTATAT
1 TATTTATTTTAAATTG-TTT-TATAT
10959253 TATTTATTTTAAATTTGTTTTACGTAT
1 TATTTATTTTAAA-TTGTTTTA--TAT
*
10959280 TATTTATTTGAAATTGTTTTATAT
1 TATTTATTTTAAATTGTTTTATAT
* * *
10959304 TATTGACTTCAAATTGTTTTATAT
1 TATTTATTTTAAATTGTTTTATAT
10959328 AATATTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
24 24 0.35
25 2 0.03
26 24 0.35
27 18 0.26
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (24 bp):
TATTTATTTTAAATTGTTTTATAT
Found at i:10959287 original size:53 final size:50
Alignment explanation
Indices: 10959227--10959324 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
10959217 TCTTATCTAA
* * * *
10959227 TATTTATTTTAAATTGTTTTGTATATTATTTATTTTAAATTTGTTTTACGTAT
1 TATTTATTTGAAATTG-TTT-TATATTATTGACTTCAAA-TTGTTTTACGTAT
10959280 TATTTATTTGAAATTGTTTTATATTATTGACTTCAAATTGTTTTA
1 TATTTATTTGAAATTGTTTTATATTATTGACTTCAAATTGTTTTA
10959325 TATAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 8 0.20
51 15 0.37
52 3 0.07
53 15 0.37
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (50 bp):
TATTTATTTGAAATTGTTTTATATTATTGACTTCAAATTGTTTTACGTAT
Found at i:10962113 original size:62 final size:61
Alignment explanation
Indices: 10962008--10962128 Score: 215
Period size: 62 Copynumber: 2.0 Consensus size: 61
10961998 AACCCCTGAG
*
10962008 TATGACTGGTGGTGGCGTAAAAAATCAACGACATCTTCCCAATTCCAAGTCAAGAAAACCC
1 TATGACTGGTGGTAGCGTAAAAAATCAACGACATCTTCCCAATTCCAAGTCAAGAAAACCC
*
10962069 TATGACTGGTGGTAGCGTAAAAGAATCAACGACATCTTTCCAATTCCAAGTCAAGAAAAC
1 TATGACTGGTGGTAGCGTAAAA-AATCAACGACATCTTCCCAATTCCAAGTCAAGAAAAC
10962129 GTTCGCCCGA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 21 0.37
62 36 0.63
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (61 bp):
TATGACTGGTGGTAGCGTAAAAAATCAACGACATCTTCCCAATTCCAAGTCAAGAAAACCC
Found at i:10975683 original size:44 final size:45
Alignment explanation
Indices: 10975625--10975986 Score: 164
Period size: 45 Copynumber: 8.0 Consensus size: 45
10975615 TTGAAATTAC
* * * *
10975625 AAATCTAATTTCCCTAAAGTTACAGTGGAGTAGATAGAA-ACCA-T
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATAGAAGA-AAGT
* * *
10975669 AAATCTTATCTCCCTAAGGTTGCAATGGAGTAGATTGAAGAAAGT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATAGAAGAAAGT
* * * **
10975714 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATTGCT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-TAGAAGAAAG-T
* * * **
10975760 -AATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTA-AAGCTACAAGCT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-TAGAAG--A-AAG-T
* * * * * * * **
10975808 ACTAATCTTTTATTCCTAAAGTTACAGTGGAGTGGATCGTAGATTGT
1 A--AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATAGAAGAAAGT
* ** * ** ** ** *
10975855 AAATCTTATGTCGTTGAAGTTGCAGTGGAACAGATCCAAGCCA-C
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATAGAAGAAAGT
* * * **
10975899 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATCA-TAGATCGT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGAT-AGAAGAAAGT
* *
10975944 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGAAA
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-TAGAAGAAA
10975987 CAATTCCTAT
Statistics
Matches: 238, Mismatches: 65, Indels: 29
0.72 0.20 0.09
Matches are distributed among these distances:
44 65 0.27
45 133 0.56
46 3 0.01
47 3 0.01
48 4 0.02
49 1 0.00
50 1 0.00
51 28 0.12
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (45 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATAGAAGAAAGT
Found at i:10975853 original size:96 final size:94
Alignment explanation
Indices: 10975717--10975983 Score: 253
Period size: 89 Copynumber: 2.9 Consensus size: 94
10975707 AGAAAGTAAG
* * * ** *
10975717 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AGATTGCT-AATCTTATTTTCCTGAAGTT
1 TCTTATATCCCTAAAGTTACAGTGGAGTGGA-TCATAGATTG-TAAATCTTATTTTCCTGAAGTT
* *
10975780 GCAGTGGAACAGATTAAAGCTACAAGCTACTAA
64 GCAGTGGAACAGATTAAAGC--CAAGCCACAAA
* * * * *
10975813 TCTTTTATTCCTAAAGTTACAGTGGAGTGGATCGTAGATTGTAAATCTTA-TGTCGTTGAAGTTG
1 TCTTATATCCCTAAAGTTACAGTGGAGTGGATCATAGATTGTAAATCTTATTTTC-CTGAAGTTG
10975877 CAGTGGAACAGA-T----CCAAGCCACAAA
65 CAGTGGAACAGATTAAAGCCAAGCCACAAA
* * * * * *
10975902 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATCATAGATCGTAAATCTTATCTCCCTGAAGTTGC
1 TCTTATATCCCTAAAGTTACAGTGGAGTGGATCATAGATTGTAAATCTTATTTTCCTGAAGTTGC
*
10975967 AGTGGAGCAGATTAAAG
66 AGTGGAACAGATTAAAG
10975984 AAACAATTCC
Statistics
Matches: 137, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
89 71 0.52
90 2 0.01
91 1 0.01
95 6 0.04
96 57 0.42
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (94 bp):
TCTTATATCCCTAAAGTTACAGTGGAGTGGATCATAGATTGTAAATCTTATTTTCCTGAAGTTGC
AGTGGAACAGATTAAAGCCAAGCCACAAA
Found at i:10976006 original size:89 final size:89
Alignment explanation
Indices: 10975826--10976013 Score: 223
Period size: 89 Copynumber: 2.1 Consensus size: 89
10975816 TTTATTCCTA
* * * * **
10975826 AAGTTACAGTGGAGTGGATCGTAGATTGTAAATCTTATGTCGTTGAAGTTGCAGTGGAACAGATC
1 AAGTTGCAGTGGAGTGGATCATAGATCGTAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATC
* ** * *
10975891 CAAGCCACAAATCTTATCTCCCTG
66 AAAGAAACAAATCCTATATCCCTG
* *
10975915 AAGTTGCAGTGGAGTGGATCATAGATCGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 AAGTTGCAGTGGAGTGGATCATAGATCGTAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATC
* * *
10975980 AAAGAAACAATTCCTATATTCTTG
66 AAAGAAACAAATCCTATATCCCTG
*
10976004 AAGATGCAGT
1 AAGTTGCAGT
10976014 AGGTTAGAAC
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (89 bp):
AAGTTGCAGTGGAGTGGATCATAGATCGTAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATC
AAAGAAACAAATCCTATATCCCTG
Found at i:10977460 original size:16 final size:15
Alignment explanation
Indices: 10977439--10977468 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10977429 TCTGTCTAAT
10977439 TTATTTATTTGTTTAG
1 TTATTTATTT-TTTAG
10977455 TTATTTATTTTTTA
1 TTATTTATTTTTTA
10977469 AACTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
TTATTTATTTTTTAG
Found at i:10977571 original size:26 final size:25
Alignment explanation
Indices: 10977540--10977595 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
10977530 ACGTATTATG
10977540 TATTTTAAACTATTATCAATTTTAAA
1 TATTTTAAA-TATTATCAATTTTAAA
* **
10977566 TATTTTAAATGTTATTTATTTTAAA
1 TATTTTAAATATTATCAATTTTAAA
10977591 -ATTTT
1 TATTTT
10977596 TATATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 5 0.19
25 13 0.48
26 9 0.33
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTTTAAATATTATCAATTTTAAA
Found at i:10977586 original size:25 final size:25
Alignment explanation
Indices: 10977540--10977801 Score: 108
Period size: 27 Copynumber: 10.0 Consensus size: 25
10977530 ACGTATTATG
**
10977540 TATTTTAAACTATTATCAATTTTAAA
1 TATTTTAAA-TATTATTTATTTTAAA
*
10977566 TATTTTAAATGTTATTTATTTTAAA
1 TATTTTAAATATTATTTATTTTAAA
* *
10977591 -ATTTTTATATATATTATTTATTTTGGAT
1 TA-TTTTA-A-ATATTATTTATTTT-AAA
10977619 TATTTTTATATATATCT-TTTATTTTTAAA
1 TA-TTTTA-A-ATAT-TATTTA-TTTTAAA
** * *
10977648 CTATTTTTTTACATTATTTATTTTAATTT
1 -TA-TTTTAAATATTATTTATTTTAA--A
* *
10977677 TCTTTTTAAATATTATTTATCTT-AA
1 T-ATTTTAAATATTATTTATTTTAAA
* *
10977702 -CTTTT--ATA-T-GTTATTTTAAA
1 TATTTTAAATATTATTTATTTTAAA
* * *
10977722 GTGTCTTATATATTATTTATTTTAAA
1 -TATTTTAAATATTATTTATTTTAAA
**
10977748 TTATTTTGTATATTATTTATTTTAAA
1 -TATTTTAAATATTATTTATTTTAAA
* * *
10977774 TTTGTTTTACATATTATTTATTTGAAA
1 --TATTTTAAATATTATTTATTTTAAA
10977801 T
1 T
10977802 TGTTTTATAT
Statistics
Matches: 184, Mismatches: 32, Indels: 41
0.72 0.12 0.16
Matches are distributed among these distances:
19 6 0.03
20 3 0.02
21 3 0.02
22 3 0.02
23 4 0.02
24 4 0.02
25 20 0.11
26 42 0.23
27 43 0.23
28 25 0.14
29 19 0.10
30 12 0.07
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (25 bp):
TATTTTAAATATTATTTATTTTAAA
Found at i:10977605 original size:24 final size:25
Alignment explanation
Indices: 10977558--10977842 Score: 111
Period size: 26 Copynumber: 11.0 Consensus size: 25
10977548 ACTATTATCA
* *
10977558 ATTTT-AAATATTTTAAATGTTATTT
1 ATTTTAAAAT-TTTTATATATTATTT
10977583 ATTTTAAAATTTTTATATATATTATTT
1 ATTTTAAAA-TTTT-TATATATTATTT
** *
10977610 ATTTTGGATTATTTTTATATATATCTTTT
1 ATTTT--AAAATTTTTATATAT-T-ATTT
* *
10977639 ATTTTTAAACTATTTTTTTACATTATTT
1 A-TTTTAAA--ATTTTTATATATTATTT
** *
10977667 ATTTTAATTTTCTTTTTAAATATTATTT
1 ATTTTAA---AATTTTTATATATTATTT
* * *
10977695 ATCTT--AA-CTTT-TATA-T-GTT
1 ATTTTAAAATTTTTATATATTATTT
* *
10977714 ATTTTAAAGTGTCTTATATATTATTT
1 ATTTTAAAAT-TTTTATATATTATTT
* *
10977740 ATTTTAAATTATTTTGTATATTATTT
1 ATTTTAAAAT-TTTTATATATTATTT
* *
10977766 ATTTTAAATTTGTTTTACATATTATTT
1 ATTTTAAA-AT-TTTTATATATTATTT
* *
10977793 A-TTTGAAATTGTTT-TATATTATTG
1 ATTTTAAAATT-TTTATATATTATTT
* * * *
10977817 ACTTCAAATTGTTTTATATAATATTT
1 ATTTTAAAAT-TTTTATATATTATTT
10977843 TGTTGCATAT
Statistics
Matches: 193, Mismatches: 42, Indels: 49
0.68 0.15 0.17
Matches are distributed among these distances:
19 6 0.03
20 1 0.01
21 4 0.02
22 3 0.02
23 2 0.01
24 14 0.07
25 18 0.09
26 52 0.27
27 45 0.23
28 27 0.14
29 7 0.04
30 14 0.07
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (25 bp):
ATTTTAAAATTTTTATATATTATTT
Found at i:10977752 original size:14 final size:14
Alignment explanation
Indices: 10977733--10977775 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
10977723 TGTCTTATAT
10977733 ATTATTTATTTTAA
1 ATTATTTATTTTAA
* *
10977747 ATTA-TT-TTGTAT
1 ATTATTTATTTTAA
10977759 ATTATTTATTTTAA
1 ATTATTTATTTTAA
10977773 ATT
1 ATT
10977776 TGTTTTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATTTATTTTAA
Found at i:10977789 original size:27 final size:26
Alignment explanation
Indices: 10977712--10977842 Score: 149
Period size: 26 Copynumber: 5.1 Consensus size: 26
10977702 CTTTTATATG
* *
10977712 TTATTTTAAAGTGTCTTATATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
* *
10977738 TTATTTTAAATTATTTTGTATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
*
10977764 TTATTTTAAATTTGTTTTACATATTAT
1 TTATTTTAAA-TTGTTTTATATATTAT
*
10977791 TTATTTGAAATTG-TTT-TATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
* * * *
10977815 TGACTTCAAATTGTTTTATATAATAT
1 TTATTTTAAATTGTTTTATATATTAT
10977841 TT
1 TT
10977843 TGTTGCATAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
24 17 0.19
25 6 0.07
26 43 0.49
27 22 0.25
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (26 bp):
TTATTTTAAATTGTTTTATATATTAT
Found at i:10977793 original size:53 final size:50
Alignment explanation
Indices: 10977712--10977842 Score: 154
Period size: 53 Copynumber: 2.6 Consensus size: 50
10977702 CTTTTATATG
* * * *
10977712 TTATTTTAAAGTGTCTTATATATTATTTATTTTAAATTATTTTGTATATTAT
1 TTATTTTAAATTGTTTTATATATTATTTATTTGAAATT-GTTT-TATATTAT
*
10977764 TTATTTTAAATTTGTTTTACATATTATTTATTTGAAATTGTTTTATATTAT
1 TTATTTTAAA-TTGTTTTATATATTATTTATTTGAAATTGTTTTATATTAT
* * * *
10977815 TGACTTCAAATTGTTTTATATAATATTT
1 TTATTTTAAATTGTTTTATATATTATTT
10977843 TGTTGCATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 16 0.24
51 15 0.22
52 13 0.19
53 24 0.35
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (50 bp):
TTATTTTAAATTGTTTTATATATTATTTATTTGAAATTGTTTTATATTAT
Found at i:10977815 original size:99 final size:101
Alignment explanation
Indices: 10977627--10977815 Score: 235
Period size: 99 Copynumber: 1.9 Consensus size: 101
10977617 ATTATTTTTA
* * *
10977627 TATATATCTTTTATTTTTAAACTATTTTTTTACATTATTTATTTTAATTTTCTTTTTAAATATTA
1 TATATATCTTTTATTTTTAAACTATTTTTGTACATTATTTATTTTAAATTTCGTTTTAAATATTA
* *
10977692 TTTATCTTAACTTTTATATGTTATTTTAAAGTGTCT
66 TTTATCTTAAATTTTATATATTATTTTAAAGTGTCT
* * *
10977728 TATATAT-TATTTA-TTTTAAATTA-TTTTGTATATTATTTATTTTAAATTT-GTTTTACATATT
1 TATATATCT-TTTATTTTTAAACTATTTTTGTACATTATTTATTTTAAATTTCGTTTTAAATATT
*
10977789 ATTTAT-TTGAAATTGTTTTATATTATT
65 ATTTATCTT-AAATT-TTATATATTATT
10977816 GACTTCAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
97 2 0.03
98 20 0.26
99 33 0.43
100 10 0.13
101 11 0.14
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (101 bp):
TATATATCTTTTATTTTTAAACTATTTTTGTACATTATTTATTTTAAATTTCGTTTTAAATATTA
TTTATCTTAAATTTTATATATTATTTTAAAGTGTCT
Found at i:10979090 original size:10 final size:11
Alignment explanation
Indices: 10979066--10979095 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10979056 TTAGGTTAAG
10979066 TTTTCATTTCT
1 TTTTCATTTCT
10979077 TTTTCATTTC-
1 TTTTCATTTCT
10979087 TTTTCATTT
1 TTTTCATTT
10979096 TTAGATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCATTTCT
Found at i:10980517 original size:17 final size:17
Alignment explanation
Indices: 10980495--10980528 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10980485 GATATGATAC
*
10980495 TAAAATTATTAAAAAAT
1 TAAAATTAATAAAAAAT
10980512 TAAAATTAATAAAAAAT
1 TAAAATTAATAAAAAAT
10980529 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATTAATAAAAAAT
Found at i:10980816 original size:22 final size:21
Alignment explanation
Indices: 10980781--10980856 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
10980771 AAAAGGTATC
* *
10980781 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
10980802 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
10980825 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
10980844 TGC-AATCATATCT
1 TACAAATCATATCT
10980857 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:10980841 original size:19 final size:19
Alignment explanation
Indices: 10980817--10980905 Score: 143
Period size: 17 Copynumber: 4.9 Consensus size: 19
10980807 AATCATATCT
10980817 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10980836 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
10980854 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
10980871 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10980890 TCTAA-A-TGCATATCAT
1 TCTAAGATTGCATATCAT
10980906 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
17 26 0.39
18 17 0.25
19 24 0.36
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10980873 original size:35 final size:37
Alignment explanation
Indices: 10980810--10980894 Score: 133
Period size: 35 Copynumber: 2.4 Consensus size: 37
10980800 ATTACAAAAT
10980810 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
10980846 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
10980881 CATATCATATCTAA
1 CATATCATATCTAA
10980895 ATGCATATCA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.48
36 14 0.30
37 10 0.22
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:10980925 original size:54 final size:54
Alignment explanation
Indices: 10980817--10980917 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
10980807 AATCATATCT
* *
10980817 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCGAAGATTATATCATA
10980871 TCTAAGATTGCATATCATATCTAA-A-TGCATATCAT-T-GAAGATTATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCGAAGATTATAT
10980918 TTCCATATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
51 9 0.20
52 5 0.11
53 6 0.14
54 24 0.55
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCGAAGATTATATCATA
Found at i:10981309 original size:45 final size:45
Alignment explanation
Indices: 10981260--10981482 Score: 238
Period size: 45 Copynumber: 4.9 Consensus size: 45
10981250 CGATATCTAC
* *
10981260 TATCTTTGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
10981305 TATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
*
10981350 T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * * * * *
10981394 CATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGCT
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTG-T
*
10981440 ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 -TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
10981483 ATCTTGGATC
Statistics
Matches: 144, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
43 6 0.04
44 46 0.32
45 61 0.42
46 1 0.01
47 19 0.13
48 5 0.03
49 6 0.04
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:10981372 original size:89 final size:91
Alignment explanation
Indices: 10981268--10981482 Score: 260
Period size: 89 Copynumber: 2.4 Consensus size: 91
10981258 ACTATCTTTG
* * *
10981268 ATCTGCTCCCCGTCTAATACAGAAATGCCAAATCTGTTATCTTCAATCTGCTCCCCG-TCT-AAT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAATCTGCT--CCGATCTAAAC
10981331 ACA-GAGACGCCAAATCTGC-T-TCTTCA
64 ACATGA-ACGCCAAATCTGCATGTCTTCA
** * *
10981357 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCGATGTAAACAC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAATCTGCTCCGATCTAAACAC
* * * *
10981422 ATGAAGGTCAGATCTGCTATGTCTTCG
66 ATGAACGCCAAATCTGC-ATGTCTTCA
10981449 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
10981483 ATCTTGGATC
Statistics
Matches: 109, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
87 2 0.02
88 2 0.02
89 63 0.58
90 2 0.02
91 1 0.01
92 39 0.36
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (91 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCAATCTGCTCCGATCTAAACAC
ATGAACGCCAAATCTGCATGTCTTCA
Found at i:10981551 original size:78 final size:78
Alignment explanation
Indices: 10981422--10981716 Score: 502
Period size: 78 Copynumber: 3.8 Consensus size: 78
10981412 ATGTAAACAC
10981422 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
10981487 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
10981500 ATGAAGGTCCA-ATATGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
10981564 TTGGATCTGTTTCA
65 TTGGATCTGCTTCA
10981578 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
10981643 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
10981656 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
10981717 TGTTTCTTCG
Statistics
Matches: 203, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
77 2 0.01
78 199 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:10981794 original size:44 final size:44
Alignment explanation
Indices: 10981667--10982101 Score: 378
Period size: 44 Copynumber: 9.9 Consensus size: 44
10981657 TGAAGGTCAG
* * * **
10981667 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTTTCTGAC-AATACAGAGATGCCAA
* * * *
10981714 ATCTG-TTTCTTCGATTTG-TTCTCTGACAGTATAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTT-TCTGACAATACAGAGATGCCAA
* * **
10981757 ATTTGCTATCTTTGATCTGCTTTCTGACAATACAGAGACACCAA
1 ATCTGCTATCTTCGATCTGCTTTCTGACAATACAGAGATGCCAA
**
10981801 ATCTGCTATCTTCGATCTGC--TCTGTGAATACAGAGATG-CAA
1 ATCTGCTATCTTCGATCTGCTTTCTGACAATACAGAGATGCCAA
10981842 ATCTGCTATCTTCGATCTGCTTCTCTGACAATACAGGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTT-TCTGACAATACA-GAGATGCCAA
*
10981888 AT-TGCTATCTTCTTCGATCTGCTCCTCTGAC-ATACAGAGATGCCAA
1 ATCTGCTA---TCTTCGATCTGCT-TTCTGACAATACAGAGATGCCAA
** * *
10981934 ATCTATTATTTTCGATCTTC-TTCT-ACAATACAGAGGATGCCAA
1 ATCTGCTATCTTCGATCTGCTTTCTGACAATACAGA-GATGCCAA
*** * *
10981977 ATCTGCTGGATTCGAT-TGCTCTCGTGAAAATATCAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTTTC-TGACAATA-CAGAGATGCCAA
* *
10982022 ATCTGCTATCTTCGATCTGC--TCTGTCAATA-TGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTTTCTGACAATACAGAGATGCCAA
* *
10982063 ATCTG-TTTCTTCGATTTG-TTCTCTGACAATACAGAGATG
1 ATCTGCTATCTTCGATCTGCTT-TCTGACAATACAGAGATG
10982102 TTAAATCATC
Statistics
Matches: 317, Mismatches: 47, Indels: 52
0.76 0.11 0.12
Matches are distributed among these distances:
40 11 0.03
41 40 0.13
42 35 0.11
43 52 0.16
44 83 0.26
45 39 0.12
46 25 0.08
47 13 0.04
48 19 0.06
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTTTCTGACAATACAGAGATGCCAA
Found at i:10993679 original size:17 final size:18
Alignment explanation
Indices: 10993657--10993691 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10993647 GATATGATAC
*
10993657 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
10993674 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
10993692 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:10993988 original size:23 final size:22
Alignment explanation
Indices: 10993960--10994004 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10993950 AAATTAAATA
10993960 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
10993983 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
10994005 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:10994039 original size:35 final size:37
Alignment explanation
Indices: 10993976--10994073 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
10993966 ATTACAAAAT
10993976 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
10994012 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
10994047 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
10994074 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:10994081 original size:17 final size:19
Alignment explanation
Indices: 10993983--10994073 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
10993973 AATCATATCT
10993983 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10994002 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
10994020 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
10994037 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10994056 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
10994074 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.